Citrus Sinensis ID: 038303

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-
Protein Sequence
MLSCPSSYNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWTTIISGLSKCGFHKEAIDMFCGIDVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGLKKKTGCSWIEVNPSIF
Secondary Structure (PSIPRED)
cccccccccccHHHHHHHHHHccccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHcccHHHHHHHHcccccccEEEHHHHHHHHHccccHHHHHHHHHHccccccHHHHHHHHHHHcccccHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHccccccccEEEHHHHHHHHHcccccHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHccHHHHHHHHHHHHHHccccccccHHHHHHHHHHHcccHHHHHHHHccccccccHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHHccccHHHHHHHHHHHcHHcccccccccHHHHHHHHHHccccHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHccccccccHHHHHHHHHHHccccHHHHHHHHHHHHcccccccccEEEEEccEEc
Secondary Structure Prediction (SSPRO)
ccccccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccEHHHHHHHHHHHcccHHHHHHHHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccEHHHHHHHHHHHcHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccEEEEEccEEc
Coil and Loop (DISEMBL)
mlscpssynhytFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWTTIISGlskcgfhkeAIDMFcgidvkpnaNTLVSVLSACSSLVSHKLGKAIHAHSLRNlnenniilDNAILDFYIRCGSLASCGYlfvkmpkrnvVSWTTMIGGYAERGFCKEAVSVFQEMEktkeaepneATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIInavfpddvTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSntfagadrwedTNKIRDEIRRMglkkktgcswievnpsif
Flexible Loop (DISEMBL)
MLSCPSSYNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWTTIISGLSKCGFHKEAIDMFCGIDVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALmsntfagadrwedtnKIRDEIrrmglkkktgcswievnpsif
Low Complexity Region (SEG)
MLSCPSSYNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWTTIISGLSKCGFHKEAIDMFCGIDVKPNANTlvsvlsacsslvsHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGLKKKTGCSWIEVNPSIF
Disordered region (IsUnstruct)
*******YNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWTTIISGLSKCGFHKEAIDMFCGIDVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQ************ATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGLKKKTGCSWIEV*****
Disordered Region (DISOPRED)
*****SSYNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWTTIISGLSKCGFHKEAIDMFCGIDVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGLKKKTGCSWIEVNPSIF
Disordered Region (DISEMBL)
MLSCPSSYNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWTTIISGLSKCGFHKEAIDMFCGIDVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGLKKKTGCSWIEVNPSIF
Disordered Region (DISPRO)
*****SSYNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWTTIISGLSKCGFHKEAIDMFCGIDVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGLKKKTGCSWIEVNPSIF
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MLSCPSSYNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWTTIISGLSKCGFHKEAIDMFCGIDVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGLKKKTGCSWIEVNPSIF
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	461	2.2.26 [Sep-21-2011]
O82380	738	Pentatricopeptide repeat-	no	no	0.971	0.607	0.366	5e-87
Q9LN01	741	Pentatricopeptide repeat-	yes	no	0.971	0.604	0.342	3e-85
Q9SIT7	697	Pentatricopeptide repeat-	no	no	0.971	0.642	0.333	9e-83
Q9LTV8	694	Pentatricopeptide repeat-	no	no	0.971	0.645	0.359	2e-82
Q9SZK1	559	Pentatricopeptide repeat-	no	no	0.969	0.799	0.353	4e-82
Q9SJZ3	681	Pentatricopeptide repeat-	no	no	0.980	0.663	0.325	7e-81
Q9FIF7	544	Putative pentatricopeptid	no	no	0.954	0.808	0.358	2e-80
Q9SN39	871	Pentatricopeptide repeat-	no	no	0.891	0.471	0.354	1e-79
Q9STF3	657	Pentatricopeptide repeat-	no	no	0.997	0.700	0.334	4e-79
Q9SX45	596	Pentatricopeptide repeat-	no	no	0.967	0.748	0.346	8e-79

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

 Score =  322 bits (824), Expect = 5e-87,   Method: Compositional matrix adjust.
 Identities = 177/483 (36%), Positives = 276/483 (57%), Gaps = 35/483 (7%)

Query: 9   NHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIF 68
           N YTF   +KA +          +H   ++     D+F+ NSL+H Y +  D+ SA ++F
Sbjct: 130 NKYTFPFLIKAAAEVSSLSLGQSLHGMAVKSAVGSDVFVANSLIHCYFSCGDLDSACKVF 189

Query: 69  NSVVFPDVVSWTTIISGLSKCGFHKEAIDMFCGI---DVKPNANTLVSVLSACSSLVSHK 125
            ++   DVVSW ++I+G  + G   +A+++F  +   DVK +  T+V VLSAC+ + + +
Sbjct: 190 TTIKEKDVVSWNSMINGFVQKGSPDKALELFKKMESEDVKASHVTMVGVLSACAKIRNLE 249

Query: 126 LGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYA 185
            G+ + ++   N    N+ L NA+LD Y +CGS+     LF  M +++ V+WTTM+ GYA
Sbjct: 250 FGRQVCSYIEENRVNVNLTLANAMLDMYTKCGSIEDAKRLFDAMEEKDNVTWTTMLDGYA 309

Query: 186 -------------------------------ERGFCKEAVSVFQEMEKTKEAEPNEATLV 214
                                          + G   EA+ VF E++  K  + N+ TLV
Sbjct: 310 ISEDYEAAREVLNSMPQKDIVAWNALISAYEQNGKPNEALIVFHELQLQKNMKLNQITLV 369

Query: 215 NVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAY 274
           + LSAC+ + AL  G+++HSYI  ++ + ++  V +A+I+MY KCGD+  + +VFN +  
Sbjct: 370 STLSACAQVGALELGRWIHSYIK-KHGIRMNFHVTSALIHMYSKCGDLEKSREVFNSVEK 428

Query: 275 KDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLIL 334
           +D   WS +I GLAM+GCG +A+ +F  M    V P+ VTF  +  ACSH GLVD+   L
Sbjct: 429 RDVFVWSAMIGGLAMHGCGNEAVDMFYKMQEANVKPNGVTFTNVFCACSHTGLVDEAESL 488

Query: 335 FKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHR 394
           F  M + Y IVP+ +HYAC+VD+ GR+G LE+A  FI  MPI    SVWGALL AC+IH 
Sbjct: 489 FHQMESNYGIVPEEKHYACIVDVLGRSGYLEKAVKFIEAMPIPPSTSVWGALLGACKIHA 548

Query: 395 NDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGLKKKTGCSWI 454
           N  + +     L+  +  + G   L+SN +A   +WE+ +++R  +R  GLKK+ GCS I
Sbjct: 549 NLNLAEMACTRLLELEPRNDGAHVLLSNIYAKLGKWENVSELRKHMRVTGLKKEPGCSSI 608

Query: 455 EVN 457
           E++
Sbjct: 609 EID 611

Arabidopsis thaliana (taxid: 3702)

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

 Score =  316 bits (809), Expect = 3e-85,   Method: Compositional matrix adjust.
 Identities = 166/484 (34%), Positives = 287/484 (59%), Gaps = 36/484 (7%)

Query: 9   NHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIF 68
           N YTF   LK+C+ +   ++  +IH HV++ G   D+++  SL+  YV    +  AH++F
Sbjct: 133 NSYTFPFVLKSCAKSKAFKEGQQIHGHVLKLGCDLDLYVHTSLISMYVQNGRLEDAHKVF 192

Query: 69  N-------------------------------SVVFPDVVSWTTIISGLSKCGFHKEAID 97
           +                                +   DVVSW  +ISG ++ G +KEA++
Sbjct: 193 DKSPHRDVVSYTALIKGYASRGYIENAQKLFDEIPVKDVVSWNAMISGYAETGNYKEALE 252

Query: 98  MFCGI---DVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYI 154
           +F  +   +V+P+ +T+V+V+SAC+   S +LG+ +H     +   +N+ + NA++D Y 
Sbjct: 253 LFKDMMKTNVRPDESTMVTVVSACAQSGSIELGRQVHLWIDDHGFGSNLKIVNALIDLYS 312

Query: 155 RCGSLASCGYLFVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLV 214
           +CG L +   LF ++P ++V+SW T+IGGY      KEA+ +FQEM ++ E  PN+ T++
Sbjct: 313 KCGELETACGLFERLPYKDVISWNTLIGGYTHMNLYKEALLLFQEMLRSGET-PNDVTML 371

Query: 215 NVLSACSSISALSFGKYVHSYISTRYD-LSVSNLVGNAVINMYVKCGDVGIAIQVFNMLA 273
           ++L AC+ + A+  G+++H YI  R   ++ ++ +  ++I+MY KCGD+  A QVFN + 
Sbjct: 372 SILPACAHLGAIDIGRWIHVYIDKRLKGVTNASSLRTSLIDMYAKCGDIEAAHQVFNSIL 431

Query: 274 YKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLI 333
           +K   SW+ +I G AM+G    +  LFS M    + PDD+TF+ L+SACSH G++D G  
Sbjct: 432 HKSLSSWNAMIFGFAMHGRADASFDLFSRMRKIGIQPDDITFVGLLSACSHSGMLDLGRH 491

Query: 334 LFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIH 393
           +F+ M+  Y++ P+++HY C++D+ G +GL +EAE  I  M +E +  +W +LL AC++H
Sbjct: 492 IFRTMTQDYKMTPKLEHYGCMIDLLGHSGLFKEAEEMINMMEMEPDGVIWCSLLKACKMH 551

Query: 394 RNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGLKKKTGCSW 453
            N E+ +   ++L+  +  + G++ L+SN +A A RW +  K R  +   G+KK  GCS 
Sbjct: 552 GNVELGESFAENLIKIEPENPGSYVLLSNIYASAGRWNEVAKTRALLNDKGMKKVPGCSS 611

Query: 454 IEVN 457
           IE++
Sbjct: 612 IEID 615

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SIT7|PP151_ARATH Pentatricopeptide repeat-containing protein At2g13600 OS=Arabidopsis thaliana GN=PCMP-E76 PE=3 SV=1

 Score =  307 bits (787), Expect = 9e-83,   Method: Compositional matrix adjust.
 Identities = 163/489 (33%), Positives = 272/489 (55%), Gaps = 41/489 (8%)

Query: 9   NHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIF 68
           N Y+F   L ACS  +   K +++H+ + +   L D++I ++L+  Y    ++  A ++F
Sbjct: 151 NEYSFASVLSACSGLNDMNKGVQVHSLIAKSPFLSDVYIGSALVDMYSKCGNVNDAQRVF 210

Query: 69  NSVVFPDVVSWTTIISGLSKCGFHKEAIDMFCGI---DVKPNANTLVSVLSACSSLVSHK 125
           + +   +VVSW ++I+   + G   EA+D+F  +    V+P+  TL SV+SAC+SL + K
Sbjct: 211 DEMGDRNVVSWNSLITCFEQNGPAVEALDVFQMMLESRVEPDEVTLASVISACASLSAIK 270

Query: 126 LGKAIHAHSLRNLN-ENNIILDNAILDFYIRCGSLASC--------------------GY 164
           +G+ +H   ++N    N+IIL NA +D Y +C  +                       GY
Sbjct: 271 VGQEVHGRVVKNDKLRNDIILSNAFVDMYAKCSRIKEARFIFDSMPIRNVIAETSMISGY 330

Query: 165 -----------LFVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATL 213
                      +F KM +RNVVSW  +I GY + G  +EA+S+F  + K +   P   + 
Sbjct: 331 AMAASTKAARLMFTKMAERNVVSWNALIAGYTQNGENEEALSLFC-LLKRESVCPTHYSF 389

Query: 214 VNVLSACSSISALSFGKYVHSYI---STRYDLSVSN--LVGNAVINMYVKCGDVGIAIQV 268
            N+L AC+ ++ L  G   H ++     ++     +   VGN++I+MYVKCG V     V
Sbjct: 390 ANILKACADLAELHLGMQAHVHVLKHGFKFQSGEEDDIFVGNSLIDMYVKCGCVEEGYLV 449

Query: 269 FNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLV 328
           F  +  +D +SW+ +I G A NG G +AL+LF  M+ +   PD +T I ++SAC H G V
Sbjct: 450 FRKMMERDCVSWNAMIIGFAQNGYGNEALELFREMLESGEKPDHITMIGVLSACGHAGFV 509

Query: 329 DQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLN 388
           ++G   F +M+  + + P   HY C+VD+ GRAG LEEA++ I EMP++ +  +WG+LL 
Sbjct: 510 EEGRHYFSSMTRDFGVAPLRDHYTCMVDLLGRAGFLEEAKSMIEEMPMQPDSVIWGSLLA 569

Query: 389 ACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGLKKK 448
           AC++HRN  +   + + L+  +  + G + L+SN +A   +WED   +R  +R+ G+ K+
Sbjct: 570 ACKVHRNITLGKYVAEKLLEVEPSNSGPYVLLSNMYAELGKWEDVMNVRKSMRKEGVTKQ 629

Query: 449 TGCSWIEVN 457
            GCSWI++ 
Sbjct: 630 PGCSWIKIQ 638

Arabidopsis thaliana (taxid: 3702)

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

 Score =  306 bits (785), Expect = 2e-82,   Method: Compositional matrix adjust.
 Identities = 164/456 (35%), Positives = 262/456 (57%), Gaps = 8/456 (1%)

Query: 7   SYNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQ 66
           S + +TF   LKACS     Q    +HA V   G   D+F+QN L+  Y   + + SA  
Sbjct: 116 SPDSFTFPHLLKACSGLSHLQMGRFVHAQVFRLGFDADVFVQNGLIALYAKCRRLGSART 175

Query: 67  IFNSVVFPD--VVSWTTIISGLSKCGFHKEAIDMFC---GIDVKPNANTLVSVLSACSSL 121
           +F  +  P+  +VSWT I+S  ++ G   EA+++F     +DVKP+   LVSVL+A + L
Sbjct: 176 VFEGLPLPERTIVSWTAIVSAYAQNGEPMEALEIFSQMRKMDVKPDWVALVSVLNAFTCL 235

Query: 122 VSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMI 181
              K G++IHA  ++   E    L  ++   Y +CG +A+   LF KM   N++ W  MI
Sbjct: 236 QDLKQGRSIHASVVKMGLEIEPDLLISLNTMYAKCGQVATAKILFDKMKSPNLILWNAMI 295

Query: 182 GGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYD 241
            GYA+ G+ +EA+ +F EM   K+  P+  ++ + +SAC+ + +L   + ++ Y+  R D
Sbjct: 296 SGYAKNGYAREAIDMFHEM-INKDVRPDTISITSAISACAQVGSLEQARSMYEYVG-RSD 353

Query: 242 LSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFS 301
                 + +A+I+M+ KCG V  A  VF+    +D + WS +I G  ++G  R+A+ L+ 
Sbjct: 354 YRDDVFISSALIDMFAKCGSVEGARLVFDRTLDRDVVVWSAMIVGYGLHGRAREAISLYR 413

Query: 302 LMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRA 361
            M    V P+DVTF+ L+ AC+H G+V +G   F  M+  ++I PQ QHYACV+D+ GRA
Sbjct: 414 AMERGGVHPNDVTFLGLLMACNHSGMVREGWWFFNRMAD-HKINPQQQHYACVIDLLGRA 472

Query: 362 GLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMS 421
           G L++A   I+ MP++   +VWGALL+AC+ HR+ E+ +   Q L +    + G +  +S
Sbjct: 473 GHLDQAYEVIKCMPVQPGVTVWGALLSACKKHRHVELGEYAAQQLFSIDPSNTGHYVQLS 532

Query: 422 NTFAGADRWEDTNKIRDEIRRMGLKKKTGCSWIEVN 457
           N +A A  W+   ++R  ++  GL K  GCSW+EV 
Sbjct: 533 NLYAAARLWDRVAEVRVRMKEKGLNKDVGCSWVEVR 568

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SZK1|PP355_ARATH Pentatricopeptide repeat-containing protein At4g38010 OS=Arabidopsis thaliana GN=PCMP-E45 PE=3 SV=1

 Score =  305 bits (782), Expect = 4e-82,   Method: Compositional matrix adjust.
 Identities = 160/452 (35%), Positives = 266/452 (58%), Gaps = 5/452 (1%)

Query: 7   SYNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQ 66
           S + +TF    KAC      ++  +IH  V + G   DI++QNSL+HFY    +  +A +
Sbjct: 103 SPDMFTFPPVFKACGKFSGIREGKQIHGIVTKMGFYDDIYVQNSLVHFYGVCGESRNACK 162

Query: 67  IFNSVVFPDVVSWTTIISGLSKCGFHKEAIDMFCGIDVKPNANTLVSVLSACSSLVSHKL 126
           +F  +   DVVSWT II+G ++ G +KEA+D F  +DV+PN  T V VL +   +    L
Sbjct: 163 VFGEMPVRDVVSWTGIITGFTRTGLYKEALDTFSKMDVEPNLATYVCVLVSSGRVGCLSL 222

Query: 127 GKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYAE 186
           GK IH   L+  +  ++   NA++D Y++C  L+    +F ++ K++ VSW +MI G   
Sbjct: 223 GKGIHGLILKRASLISLETGNALIDMYVKCEQLSDAMRVFGELEKKDKVSWNSMISGLVH 282

Query: 187 RGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSN 246
               KEA+ +F  M+ +   +P+   L +VLSAC+S+ A+  G++VH YI T   +    
Sbjct: 283 CERSKEAIDLFSLMQTSSGIKPDGHILTSVLSACASLGAVDHGRWVHEYILTA-GIKWDT 341

Query: 247 LVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIIN 306
            +G A+++MY KCG +  A+++FN +  K+  +W+ ++ GLA++G G ++L+ F  M+  
Sbjct: 342 HIGTAIVDMYAKCGYIETALEIFNGIRSKNVFTWNALLGGLAIHGHGLESLRYFEEMVKL 401

Query: 307 AVFPDDVTFIALISACSHGGLVDQGLILFKAM-STVYEIVPQMQHYACVVDMYGRAGLLE 365
              P+ VTF+A ++AC H GLVD+G   F  M S  Y + P+++HY C++D+  RAGLL+
Sbjct: 402 GFKPNLVTFLAALNACCHTGLVDEGRRYFHKMKSREYNLFPKLEHYGCMIDLLCRAGLLD 461

Query: 366 EAEAFIREMPIEAEWSVWGALLNACRIHRND--EMFDRIRQDLVNKKGVSVGTFALMSNT 423
           EA   ++ MP++ +  + GA+L+AC+ +R    E+   I    ++ +    G + L+SN 
Sbjct: 462 EALELVKAMPVKPDVRICGAILSACK-NRGTLMELPKEILDSFLDIEFEDSGVYVLLSNI 520

Query: 424 FAGADRWEDTNKIRDEIRRMGLKKKTGCSWIE 455
           FA   RW+D  +IR  ++  G+ K  G S+IE
Sbjct: 521 FAANRRWDDVARIRRLMKVKGISKVPGSSYIE 552

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SJZ3|PP169_ARATH Pentatricopeptide repeat-containing protein At2g22410, mitochondrial OS=Arabidopsis thaliana GN=PCMP-E28 PE=2 SV=1

 Score =  301 bits (771), Expect = 7e-81,   Method: Compositional matrix adjust.
 Identities = 159/488 (32%), Positives = 271/488 (55%), Gaps = 36/488 (7%)

Query: 4   CPSSYNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFS 63
           C S  +H+T+    K C+          I  HV++        + N+ +H + +  D+ +
Sbjct: 150 CESRPDHFTYPVLFKVCADLRLSSLGHMILGHVLKLRLELVSHVHNASIHMFASCGDMEN 209

Query: 64  AHQIFNSVVFPDVVSWTTIISGLSKCGFHKEAIDMFCGID---VKPNANTLVSVLSACSS 120
           A ++F+     D+VSW  +I+G  K G  ++AI ++  ++   VKP+  T++ ++S+CS 
Sbjct: 210 ARKVFDESPVRDLVSWNCLINGYKKIGEAEKAIYVYKLMESEGVKPDDVTMIGLVSSCSM 269

Query: 121 LVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTM 180
           L     GK  + +   N     I L NA++D + +CG +     +F  + KR +VSWTTM
Sbjct: 270 LGDLNRGKEFYEYVKENGLRMTIPLVNALMDMFSKCGDIHEARRIFDNLEKRTIVSWTTM 329

Query: 181 IGGYAERGFC-------------------------------KEAVSVFQEMEKTKEAEPN 209
           I GYA  G                                 ++A+++FQEM+ T   +P+
Sbjct: 330 ISGYARCGLLDVSRKLFDDMEEKDVVLWNAMIGGSVQAKRGQDALALFQEMQ-TSNTKPD 388

Query: 210 EATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVF 269
           E T+++ LSACS + AL  G ++H YI  +Y LS++  +G ++++MY KCG++  A+ VF
Sbjct: 389 EITMIHCLSACSQLGALDVGIWIHRYIE-KYSLSLNVALGTSLVDMYAKCGNISEALSVF 447

Query: 270 NMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVD 329
           + +  ++ ++++ +I GLA++G    A+  F+ MI   + PD++TFI L+SAC HGG++ 
Sbjct: 448 HGIQTRNSLTYTAIIGGLALHGDASTAISYFNEMIDAGIAPDEITFIGLLSACCHGGMIQ 507

Query: 330 QGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNA 389
            G   F  M + + + PQ++HY+ +VD+ GRAGLLEEA+  +  MP+EA+ +VWGALL  
Sbjct: 508 TGRDYFSQMKSRFNLNPQLKHYSIMVDLLGRAGLLEEADRLMESMPMEADAAVWGALLFG 567

Query: 390 CRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGLKKKT 449
           CR+H N E+ ++  + L+       G + L+   +  A+ WED  + R  +   G++K  
Sbjct: 568 CRMHGNVELGEKAAKKLLELDPSDSGIYVLLDGMYGEANMWEDAKRARRMMNERGVEKIP 627

Query: 450 GCSWIEVN 457
           GCS IEVN
Sbjct: 628 GCSSIEVN 635

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FIF7|PP435_ARATH Putative pentatricopeptide repeat-containing protein At5g59200, chloroplastic OS=Arabidopsis thaliana GN=PCMP-E41 PE=3 SV=1

 Score =  299 bits (766), Expect = 2e-80,   Method: Compositional matrix adjust.
 Identities = 173/483 (35%), Positives = 272/483 (56%), Gaps = 43/483 (8%)

Query: 12  TFTQALKAC-SLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNS 70
           T    L++C ++AH       IHA +I   H  D F+   L+    T+  +  A+ +F+ 
Sbjct: 31  TLISVLRSCKNIAH----VPSIHAKIIRTFHDQDAFVVFELIRVCSTLDSVDYAYDVFSY 86

Query: 71  VVFPDVVSWTTIISGLSKCGFHKEAIDMFCGI---DVKPNANTLVSVLSACSSLVSHKLG 127
           V  P+V  +T +I G    G   + + ++  +    V P+   + SVL AC      K+ 
Sbjct: 87  VSNPNVYLYTAMIDGFVSSGRSADGVSLYHRMIHNSVLPDNYVITSVLKACDL----KVC 142

Query: 128 KAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYAER 187
           + IHA  L+    ++  +   +++ Y + G L +   +F +MP R+ V+ T MI  Y+E 
Sbjct: 143 REIHAQVLKLGFGSSRSVGLKMMEIYGKSGELVNAKKMFDEMPDRDHVAATVMINCYSEC 202

Query: 188 GFCKEAVSVFQ---------------------EMEKTKE---------AEPNEATLVNVL 217
           GF KEA+ +FQ                     EM K  E            NE T V VL
Sbjct: 203 GFIKEALELFQDVKIKDTVCWTAMIDGLVRNKEMNKALELFREMQMENVSANEFTAVCVL 262

Query: 218 SACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDK 277
           SACS + AL  G++VHS++  +  + +SN VGNA+INMY +CGD+  A +VF ++  KD 
Sbjct: 263 SACSDLGALELGRWVHSFVENQR-MELSNFVGNALINMYSRCGDINEARRVFRVMRDKDV 321

Query: 278 ISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKA 337
           IS++T+ISGLAM+G   +A+  F  M+     P+ VT +AL++ACSHGGL+D GL +F +
Sbjct: 322 ISYNTMISGLAMHGASVEAINEFRDMVNRGFRPNQVTLVALLNACSHGGLLDIGLEVFNS 381

Query: 338 MSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDE 397
           M  V+ + PQ++HY C+VD+ GR G LEEA  FI  +PIE +  + G LL+AC+IH N E
Sbjct: 382 MKRVFNVEPQIEHYGCIVDLLGRVGRLEEAYRFIENIPIEPDHIMLGTLLSACKIHGNME 441

Query: 398 MFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGLKKKTGCSWIEVN 457
           + ++I + L   +    GT+ L+SN +A + +W+++ +IR+ +R  G++K+ GCS IEV+
Sbjct: 442 LGEKIAKRLFESENPDSGTYVLLSNLYASSGKWKESTEIRESMRDSGIEKEPGCSTIEVD 501

Query: 458 PSI 460
             I
Sbjct: 502 NQI 504

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SN39|PP320_ARATH Pentatricopeptide repeat-containing protein At4g18750, chloroplastic OS=Arabidopsis thaliana GN=PCMP-H45 PE=2 SV=1

 Score =  297 bits (760), Expect = 1e-79,   Method: Compositional matrix adjust.
 Identities = 147/415 (35%), Positives = 249/415 (60%), Gaps = 4/415 (0%)

Query: 49  NSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWTTIISGLSKCGFHKEAIDMFCGID---VK 105
           N+LL  Y    D+ SA  +F  +    VVS+T++I+G ++ G   EA+ +F  ++   + 
Sbjct: 335 NTLLDMYSKCGDLDSAKAVFREMSDRSVVSYTSMIAGYAREGLAGEAVKLFEEMEEEGIS 394

Query: 106 PNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYL 165
           P+  T+ +VL+ C+       GK +H     N    +I + NA++D Y +CGS+     +
Sbjct: 395 PDVYTVTAVLNCCARYRLLDEGKRVHEWIKENDLGFDIFVSNALMDMYAKCGSMQEAELV 454

Query: 166 FVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISA 225
           F +M  ++++SW T+IGGY++  +  EA+S+F  + + K   P+E T+  VL AC+S+SA
Sbjct: 455 FSEMRVKDIISWNTIIGGYSKNCYANEALSLFNLLLEEKRFSPDERTVACVLPACASLSA 514

Query: 226 LSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVIS 285
              G+ +H YI  R        V N++++MY KCG + +A  +F+ +A KD +SW+ +I+
Sbjct: 515 FDKGREIHGYI-MRNGYFSDRHVANSLVDMYAKCGALLLAHMLFDDIASKDLVSWTVMIA 573

Query: 286 GLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIV 345
           G  M+G G++A+ LF+ M    +  D+++F++L+ ACSH GLVD+G   F  M    +I 
Sbjct: 574 GYGMHGFGKEAIALFNQMRQAGIEADEISFVSLLYACSHSGLVDEGWRFFNIMRHECKIE 633

Query: 346 PQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQD 405
           P ++HYAC+VDM  R G L +A  FI  MPI  + ++WGALL  CRIH + ++ +++ + 
Sbjct: 634 PTVEHYACIVDMLARTGDLIKAYRFIENMPIPPDATIWGALLCGCRIHHDVKLAEKVAEK 693

Query: 406 LVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGLKKKTGCSWIEVNPSI 460
           +   +  + G + LM+N +A A++WE   ++R  I + GL+K  GCSWIE+   +
Sbjct: 694 VFELEPENTGYYVLMANIYAEAEKWEQVKRLRKRIGQRGLRKNPGCSWIEIKGRV 748

Arabidopsis thaliana (taxid: 3702)

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

 Score =  295 bits (756), Expect = 4e-79,   Method: Compositional matrix adjust.
 Identities = 157/469 (33%), Positives = 267/469 (56%), Gaps = 9/469 (1%)

Query: 1   MLSCPSSYNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKD 60
           +LS  SS +  T+   +  C        AL +H H+++ G   D F+   L+  Y  +  
Sbjct: 68  VLSQESSPSQQTYELLILCCGHRSSLSDALRVHRHILDNGSDQDPFLATKLIGMYSDLGS 127

Query: 61  IFSAHQIFNSVVFPDVVSWTTIISGLSKCGFHKEAIDMFCG---IDVKPNANTLVSVLSA 117
           +  A ++F+      +  W  +   L+  G  +E + ++     I V+ +  T   VL A
Sbjct: 128 VDYARKVFDKTRKRTIYVWNALFRALTLAGHGEEVLGLYWKMNRIGVESDRFTYTYVLKA 187

Query: 118 CSS---LVSHKL-GKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRN 173
           C +    V+H + GK IHAH  R    +++ +   ++D Y R G +    Y+F  MP RN
Sbjct: 188 CVASECTVNHLMKGKEIHAHLTRRGYSSHVYIMTTLVDMYARFGCVDYASYVFGGMPVRN 247

Query: 174 VVSWTTMIGGYAERGFCKEAVSVFQEM-EKTKEAEPNEATLVNVLSACSSISALSFGKYV 232
           VVSW+ MI  YA+ G   EA+  F+EM  +TK++ PN  T+V+VL AC+S++AL  GK +
Sbjct: 248 VVSWSAMIACYAKNGKAFEALRTFREMMRETKDSSPNSVTMVSVLQACASLAALEQGKLI 307

Query: 233 HSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGC 292
           H YI  R   S+  ++ +A++ MY +CG + +  +VF+ +  +D +SW+++IS   ++G 
Sbjct: 308 HGYILRRGLDSILPVI-SALVTMYGRCGKLEVGQRVFDRMHDRDVVSWNSLISSYGVHGY 366

Query: 293 GRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYA 352
           G++A+Q+F  M+ N   P  VTF++++ ACSH GLV++G  LF+ M   + I PQ++HYA
Sbjct: 367 GKKAIQIFEEMLANGASPTPVTFVSVLGACSHEGLVEEGKRLFETMWRDHGIKPQIEHYA 426

Query: 353 CVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGV 412
           C+VD+ GRA  L+EA   +++M  E    VWG+LL +CRIH N E+ +R  + L   +  
Sbjct: 427 CMVDLLGRANRLDEAAKMVQDMRTEPGPKVWGSLLGSCRIHGNVELAERASRRLFALEPK 486

Query: 413 SVGTFALMSNTFAGADRWEDTNKIRDEIRRMGLKKKTGCSWIEVNPSIF 461
           + G + L+++ +A A  W++  +++  +   GL+K  G  W+EV   ++
Sbjct: 487 NAGNYVLLADIYAEAQMWDEVKRVKKLLEHRGLQKLPGRCWMEVRRKMY 535

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

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SX45|PPR75_ARATH Pentatricopeptide repeat-containing protein At1g50270 OS=Arabidopsis thaliana GN=PCMP-E42 PE=2 SV=1

 Score =  294 bits (753), Expect = 8e-79,   Method: Compositional matrix adjust.
 Identities = 157/453 (34%), Positives = 260/453 (57%), Gaps = 7/453 (1%)

Query: 9   NHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIF 68
           + +TF   LKA           + HAH++++G   D F++NSL+  Y +      A ++F
Sbjct: 103 SRHTFPPLLKAV-FKLRDSNPFQFHAHIVKFGLDSDPFVRNSLISGYSSSGLFDFASRLF 161

Query: 69  NSVVFPDVVSWTTIISGLSKCGFHKEAIDMFCGID---VKPNANTLVSVLSACSSLVSHK 125
           +     DVV+WT +I G  + G   EA+  F  +    V  N  T+VSVL A   +   +
Sbjct: 162 DGAEDKDVVTWTAMIDGFVRNGSASEAMVYFVEMKKTGVAANEMTVVSVLKAAGKVEDVR 221

Query: 126 LGKAIHAHSLRNLN-ENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGY 184
            G+++H   L     + ++ + ++++D Y +C        +F +MP RNVV+WT +I GY
Sbjct: 222 FGRSVHGLYLETGRVKCDVFIGSSLVDMYGKCSCYDDAQKVFDEMPSRNVVTWTALIAGY 281

Query: 185 AERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSV 244
            +     + + VF+EM K+  A PNE TL +VLSAC+ + AL  G+ VH Y+  +  + +
Sbjct: 282 VQSRCFDKGMLVFEEMLKSDVA-PNEKTLSSVLSACAHVGALHRGRRVHCYM-IKNSIEI 339

Query: 245 SNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMI 304
           +   G  +I++YVKCG +  AI VF  L  K+  +W+ +I+G A +G  R A  LF  M+
Sbjct: 340 NTTAGTTLIDLYVKCGCLEEAILVFERLHEKNVYTWTAMINGFAAHGYARDAFDLFYTML 399

Query: 305 INAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLL 364
            + V P++VTF+A++SAC+HGGLV++G  LF +M   + + P+  HYAC+VD++GR GLL
Sbjct: 400 SSHVSPNEVTFMAVLSACAHGGLVEEGRRLFLSMKGRFNMEPKADHYACMVDLFGRKGLL 459

Query: 365 EEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTF 424
           EEA+A I  MP+E    VWGAL  +C +H++ E+       ++  +    G + L++N +
Sbjct: 460 EEAKALIERMPMEPTNVVWGALFGSCLLHKDYELGKYAASRVIKLQPSHSGRYTLLANLY 519

Query: 425 AGADRWEDTNKIRDEIRRMGLKKKTGCSWIEVN 457
           + +  W++  ++R +++   + K  G SWIEV 
Sbjct: 520 SESQNWDEVARVRKQMKDQQVVKSPGFSWIEVK 552

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	461
296083914	541	unnamed protein product [Vitis vinifera]	0.986	0.841	0.648	1e-175
147788829	725	hypothetical protein VITISV_018159 [Viti	0.885	0.562	0.643	1e-174
449442521	517	PREDICTED: pentatricopeptide repeat-cont	1.0	0.891	0.629	1e-173
449476231	472	PREDICTED: pentatricopeptide repeat-cont	0.984	0.961	0.629	1e-170
357446587	528	Pentatricopeptide repeat-containing prot	0.984	0.859	0.572	1e-152
217074958	515	unknown [Medicago truncatula] gi|3885214	0.984	0.881	0.570	1e-151
356555244	521	PREDICTED: pentatricopeptide repeat-cont	0.986	0.873	0.556	1e-149
225463844	617	PREDICTED: pentatricopeptide repeat-cont	0.986	0.737	0.396	1e-100
255556729	615	pentatricopeptide repeat-containing prot	0.986	0.739	0.413	7e-97
147866113	599	hypothetical protein VITISV_006669 [Viti	0.978	0.752	0.387	3e-95

>gi|296083914|emb|CBI24302.3| unnamed protein product [Vitis vinifera]

 Score =  620 bits (1599), Expect = e-175,   Method: Compositional matrix adjust.
 Identities = 295/455 (64%), Positives = 360/455 (79%)

Query: 6   SSYNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAH 65
           +S+NH+TFT AL A S  H   K LEIHA  I+ GH  DIFIQN+LLH YV   +   A 
Sbjct: 72  TSHNHFTFTHALIASSSLHALHKTLEIHARAIKSGHYSDIFIQNTLLHSYVVENNFVFAK 131

Query: 66  QIFNSVVFPDVVSWTTIISGLSKCGFHKEAIDMFCGIDVKPNANTLVSVLSACSSLVSHK 125
            +F S+  PDVVSWT+IISGLSKCGF +EAI  F  +DVKPN +TLVSV+SAC  L + +
Sbjct: 132 SVFKSISSPDVVSWTSIISGLSKCGFDEEAIGEFLSMDVKPNTSTLVSVVSACCGLRAVR 191

Query: 126 LGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYA 185
            GKAIH +SLR+++ +NIILDNA+LDFY++CG L S  YLF+KM +R+V+SWTTM+GG A
Sbjct: 192 FGKAIHGYSLRSMDGDNIILDNALLDFYVKCGYLVSAKYLFMKMFRRDVISWTTMVGGLA 251

Query: 186 ERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVS 245
           + G C+EAV VFQ M K  EA PNE TLVNVL+ACSS+SAL+ G++VHSYISTRYDL V 
Sbjct: 252 QGGLCEEAVEVFQAMVKGGEAVPNEVTLVNVLTACSSLSALNLGRWVHSYISTRYDLVVD 311

Query: 246 NLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMII 305
             VGNA+INMY KC D+ +A++VFN L +KD ISWST+I G+AMNG G  ALQ FSLM++
Sbjct: 312 GNVGNALINMYAKCSDMYMAVRVFNELTHKDMISWSTIIGGMAMNGHGMHALQFFSLMLV 371

Query: 306 NAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLE 365
           + V PDDVTFI L+SACSH GLV+QGLI FKAM+ VY I PQMQHYAC+VDMYGRAGLLE
Sbjct: 372 HGVSPDDVTFIGLLSACSHAGLVEQGLIFFKAMNNVYGIAPQMQHYACMVDMYGRAGLLE 431

Query: 366 EAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFA 425
           EAEAFIR MP+EAE  +WGALLNAC+IH N++MF RI Q L N KGVS+GT AL+SNT+A
Sbjct: 432 EAEAFIRGMPMEAEGPIWGALLNACKIHGNEKMFGRIDQSLRNAKGVSIGTLALLSNTYA 491

Query: 426 GADRWEDTNKIRDEIRRMGLKKKTGCSWIEVNPSI 460
            ++RW+D NK+RD +R MGLKK +GCSWIEV+  I
Sbjct: 492 SSNRWDDANKVRDMMRDMGLKKMSGCSWIEVDAMI 526

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147788829|emb|CAN73311.1| hypothetical protein VITISV_018159 [Vitis vinifera]

 Score =  617 bits (1591), Expect = e-174,   Method: Compositional matrix adjust.
 Identities = 293/455 (64%), Positives = 358/455 (78%)

Query: 6   SSYNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAH 65
           +S+NH+TFT AL A S  H   K LEIHA  I+ GH  DIFIQN+LLH YV   +   A 
Sbjct: 6   TSHNHFTFTHALIASSSLHALHKTLEIHARAIKSGHYSDIFIQNTLLHSYVVENNXVFAK 65

Query: 66  QIFNSVVFPDVVSWTTIISGLSKCGFHKEAIDMFCGIDVKPNANTLVSVLSACSSLVSHK 125
            +F S+  PDVVSWT+IISGLSKCGF +EAI  F  +DVKPN +TLVSV+SAC  L + +
Sbjct: 66  SVFKSISSPDVVSWTSIISGLSKCGFDEEAIGEFLSMDVKPNTSTLVSVVSACCGLRAVR 125

Query: 126 LGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYA 185
            GKAIH +SLR+++ +NIILDNA+LDFY++CG L S  YLF+KM +R+V+SWTTM+GG A
Sbjct: 126 FGKAIHGYSLRSMDGDNIILDNALLDFYVKCGYLVSAKYLFMKMFRRDVISWTTMVGGLA 185

Query: 186 ERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVS 245
           + G C+EAV VFQ M K  EA PNE TLVNVL+ACSS+SAL+ G++VHSYIS RYDL V 
Sbjct: 186 QGGLCEEAVEVFQAMVKGGEAVPNEVTLVNVLTACSSLSALNLGRWVHSYISIRYDLVVD 245

Query: 246 NLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMII 305
             VGNA+INMY KC D+ +A++VFN L +KD ISWST+I G+AMNG G  ALQ FSLM++
Sbjct: 246 GNVGNALINMYAKCSDMYMAVRVFNELTHKDMISWSTIIGGMAMNGHGMHALQFFSLMLV 305

Query: 306 NAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLE 365
           + V PDDVTFI L+SACSH GLV+QGLI FKAM+ VY I PQMQHYAC+VDMYGRAGLLE
Sbjct: 306 HGVSPDDVTFIGLLSACSHAGLVEQGLIFFKAMNNVYGIAPQMQHYACMVDMYGRAGLLE 365

Query: 366 EAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFA 425
           EAEAFIR MP+EAE  +WGALLNAC+IH N++MF  I Q L N KGVS+GT AL+SNT+A
Sbjct: 366 EAEAFIRGMPMEAEGPIWGALLNACKIHGNEKMFGXIBQSLRNAKGVSIGTLALLSNTYA 425

Query: 426 GADRWEDTNKIRDEIRRMGLKKKTGCSWIEVNPSI 460
            ++RW+D NK+RD +R MGLKK +GCSWIEV+  I
Sbjct: 426 SSNRWDDANKVRDMMRDMGLKKMSGCSWIEVDAMI 460

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449442521|ref|XP_004139030.1| PREDICTED: pentatricopeptide repeat-containing protein At1g08070-like isoform 1 [Cucumis sativus] gi|449442523|ref|XP_004139031.1| PREDICTED: pentatricopeptide repeat-containing protein At1g08070-like isoform 2 [Cucumis sativus]

 Score =  613 bits (1581), Expect = e-173,   Method: Compositional matrix adjust.
 Identities = 290/461 (62%), Positives = 366/461 (79%)

Query: 1   MLSCPSSYNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKD 60
           ML  PSS+NH+TFT ALKAC   H  QK LEIHAH+I+ GHL DIFIQNSLLHFY+   D
Sbjct: 54  MLRYPSSHNHFTFTYALKACCFLHQTQKGLEIHAHLIKSGHLSDIFIQNSLLHFYILDGD 113

Query: 61  IFSAHQIFNSVVFPDVVSWTTIISGLSKCGFHKEAIDMFCGIDVKPNANTLVSVLSACSS 120
           + SA  IF+S+  PDVVSWT+IISGLSK GF KEA+  F  ++V+PN+ TLV+ LSACSS
Sbjct: 114 VSSASLIFDSIPDPDVVSWTSIISGLSKLGFEKEALSKFLSMNVRPNSTTLVTALSACSS 173

Query: 121 LVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTM 180
           L   KLGKAIH   +R LNE N+IL+NA+LDFY+RC  L S   LF KMPKR+VVSWTTM
Sbjct: 174 LRCLKLGKAIHGLRMRTLNEENVILENALLDFYVRCAYLRSAENLFEKMPKRDVVSWTTM 233

Query: 181 IGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRY 240
           IGGYA+ G C+EAV VFQ M    EA PNEATLVNVLSACSSISAL  G++VHSYI++R+
Sbjct: 234 IGGYAQSGLCEEAVRVFQNMVHVGEAIPNEATLVNVLSACSSISALHLGQWVHSYINSRH 293

Query: 241 DLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLF 300
           D+ +   VGNA+INMYVKCG++ +AI +F  + +KD +SWST+ISGLAMNG G+QA  LF
Sbjct: 294 DVIIDGNVGNALINMYVKCGNMEMAILIFKAIEHKDIVSWSTIISGLAMNGLGKQAFVLF 353

Query: 301 SLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGR 360
           SLM+++ V PDD+TF+ L+SACSHGGL++QG+++F+AM  VY I PQM+HYAC+VDMYG+
Sbjct: 354 SLMLVHGVSPDDITFLGLLSACSHGGLINQGMMVFEAMKDVYNISPQMRHYACMVDMYGK 413

Query: 361 AGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALM 420
           AGLL+EAEAFI+EMP+EAE  VWGALL+AC++H N++ ++++R+ L+  KGV+VGTFAL+
Sbjct: 414 AGLLDEAEAFIKEMPMEAEGPVWGALLHACQLHGNEKKYEKVREWLLGSKGVTVGTFALL 473

Query: 421 SNTFAGADRWEDTNKIRDEIRRMGLKKKTGCSWIEVNPSIF 461
           SNT+A  DRW D N +R  +R  GLKK  G SWIE+  S +
Sbjct: 474 SNTYACCDRWNDANDVRVAMRSRGLKKMAGRSWIEMVDSTY 514

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449476231|ref|XP_004154679.1| PREDICTED: pentatricopeptide repeat-containing protein At1g08070-like, partial [Cucumis sativus]

 Score =  606 bits (1562), Expect = e-170,   Method: Compositional matrix adjust.
 Identities = 286/454 (62%), Positives = 360/454 (79%)

Query: 3   SCPSSYNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIF 62
           S P S+NH+TFT ALKAC   H  QK LEIHAH+I+ GHL DIFIQNSLLHFY+   D+ 
Sbjct: 11  SLPISHNHFTFTYALKACCFLHQTQKGLEIHAHLIKSGHLSDIFIQNSLLHFYILDGDVS 70

Query: 63  SAHQIFNSVVFPDVVSWTTIISGLSKCGFHKEAIDMFCGIDVKPNANTLVSVLSACSSLV 122
           SA  IF+S+  PDVVSWT+IISGLSK GF KEA+  F  ++V+PN+ TLV+ LS CSSL 
Sbjct: 71  SASLIFDSIPDPDVVSWTSIISGLSKLGFEKEALSKFLSMNVRPNSTTLVTALSTCSSLR 130

Query: 123 SHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIG 182
             KLGKAIH   +R LNE N+IL+NA+LDFY+RC  L S   LF KMPKR+VVSWTTMIG
Sbjct: 131 CLKLGKAIHGLRMRTLNEENVILENALLDFYVRCAYLRSAENLFEKMPKRDVVSWTTMIG 190

Query: 183 GYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDL 242
           GYA+ G C+EAV VFQ M    EA PNEATLVNVLSACSSISAL  G++VHSYI++R+D+
Sbjct: 191 GYAQSGLCEEAVRVFQNMVHVGEAIPNEATLVNVLSACSSISALHLGQWVHSYINSRHDV 250

Query: 243 SVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSL 302
            +   VGNA+INMYVKCG++ +AI +F    +KD +SWST+ISGLAMNG G+QA  LFSL
Sbjct: 251 IIDGNVGNALINMYVKCGNMEMAILIFKATEHKDIVSWSTIISGLAMNGLGKQAFVLFSL 310

Query: 303 MIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAG 362
           M+++ + PDDVTF+ L+SACSHGGL++QG+++F+AM  VY I PQM+HYAC+VDMYG+AG
Sbjct: 311 MLVHGISPDDVTFLGLLSACSHGGLINQGMMVFEAMKDVYNISPQMRHYACMVDMYGKAG 370

Query: 363 LLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSN 422
           LL+EAEAFI+EMP+EAE  VWGALL+AC++H N++ ++++R+ L+  KGV+VGTFAL+SN
Sbjct: 371 LLDEAEAFIKEMPMEAEGPVWGALLHACQLHGNEKKYEKVREWLLGSKGVTVGTFALLSN 430

Query: 423 TFAGADRWEDTNKIRDEIRRMGLKKKTGCSWIEV 456
           T+A  DRW D N +R  +R  GLKK  G SWIE+
Sbjct: 431 TYACCDRWNDANDVRVAMRSRGLKKMAGRSWIEM 464

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357446587|ref|XP_003593569.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355482617|gb|AES63820.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  546 bits (1406), Expect = e-152,   Method: Compositional matrix adjust.
 Identities = 261/456 (57%), Positives = 339/456 (74%), Gaps = 2/456 (0%)

Query: 1   MLSCPSSYNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKD 60
           MLSC SS+NHYTFT ALKAC   H H K LEIHA +I+ GH+ D FI+N+LL+FY++  D
Sbjct: 49  MLSCSSSHNHYTFTHALKACCSYHAHAKGLEIHARLIKSGHIFDGFIKNTLLYFYLSSND 108

Query: 61  IFSAHQIFNSVVFPDVVSWTTIISGLSKCGFHKEAIDMFCGIDVKPNANTLVSVLSACSS 120
           + SA ++F S+  PDVVSWT++ISGLSKCGF  EAI+ F  I+VKPNA TLVS +SACSS
Sbjct: 109 VVSATRVFKSIPSPDVVSWTSLISGLSKCGFETEAIEAFSSINVKPNALTLVSAISACSS 168

Query: 121 LVSHKLGKAIHAHSLRNLN-ENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTT 179
           + + K GKAIHA+ L++L  + NI+  NA LD Y +CG  ++   +FVKM KR+V+SWTT
Sbjct: 169 IGAIKFGKAIHAYGLKSLMIDGNIVFYNAALDLYAKCGFFSNARNVFVKMSKRDVISWTT 228

Query: 180 MIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTR 239
           ++  YA  G C EAV VF++M  + EAEPNE+T+V VLSAC+SI +LS G +VH YI  R
Sbjct: 229 LLMAYARGGQCGEAVEVFKQMIVSGEAEPNESTVVTVLSACASIGSLSLGCWVHDYIEKR 288

Query: 240 YDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQL 299
            DL V   +GNA++NMYVKCGD+ + ++VFNM+ +KD ISW TVI GLAMNG G+Q +Q+
Sbjct: 289 IDLDVDGNIGNALVNMYVKCGDMKMGLKVFNMVVHKDVISWGTVICGLAMNGYGKQVVQM 348

Query: 300 FSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYG 359
           FS M+++ V PDDVTFI L+SACSH GLV +G++ FKAM   Y IVPQM HY C+VDMYG
Sbjct: 349 FSHMLVHGVLPDDVTFIGLLSACSHVGLVSEGMMFFKAMRDSYGIVPQMSHYGCMVDMYG 408

Query: 360 RAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFAL 419
           RA L EEA AF++ MP+EAE  +W ALL AC+ H N+EM + IR   ++ K V VGT AL
Sbjct: 409 RASLFEEAVAFLKGMPVEAEGPIWSALLQACKTHGNEEMSEWIRGQ-IHDKNVGVGTLAL 467

Query: 420 MSNTFAGADRWEDTNKIRDEIRRMGLKKKTGCSWIE 455
           +SN +A ++RW+D N +R  +R  GLKK  G SW+E
Sbjct: 468 LSNIYASSERWDDANNVRKIMRGTGLKKVAGLSWVE 503

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|217074958|gb|ACJ85839.1| unknown [Medicago truncatula] gi|388521431|gb|AFK48777.1| unknown [Medicago truncatula]

 Score =  543 bits (1398), Expect = e-151,   Method: Compositional matrix adjust.
 Identities = 260/456 (57%), Positives = 338/456 (74%), Gaps = 2/456 (0%)

Query: 1   MLSCPSSYNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKD 60
           MLSC SS+NHYTFT ALKAC   H H K LEIHA +I+ GH+ D FI+N+LL+FY++  D
Sbjct: 49  MLSCSSSHNHYTFTHALKACCSYHAHAKGLEIHARLIKSGHIFDGFIKNTLLYFYLSSND 108

Query: 61  IFSAHQIFNSVVFPDVVSWTTIISGLSKCGFHKEAIDMFCGIDVKPNANTLVSVLSACSS 120
           + SA ++F S+  PDVVSWT++ISGLSKCGF  EAI+ F  I+VKPNA TLVS +SACSS
Sbjct: 109 VVSATRVFKSIPSPDVVSWTSLISGLSKCGFETEAIEAFSSINVKPNALTLVSAISACSS 168

Query: 121 LVSHKLGKAIHAHSLRNLN-ENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTT 179
           + + K GKAIHA+ L++L  + NI+  NA LD Y +CG  ++   +FVKM KR+V+SWTT
Sbjct: 169 IGAIKFGKAIHAYGLKSLMIDGNIVFYNAALDLYAKCGFFSNARNVFVKMSKRDVISWTT 228

Query: 180 MIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTR 239
           ++  YA  G C EAV VF++M  + EAEPNE+T+V VLSAC+SI +LS G +VH YI  R
Sbjct: 229 LLMAYARGGQCGEAVEVFKQMIVSGEAEPNESTVVTVLSACASIGSLSLGCWVHDYIEKR 288

Query: 240 YDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQL 299
            DL V   +GNA++NMYVKCGD+ + ++VFNM+ +KD ISW TVI GLAMN  G+Q +Q+
Sbjct: 289 IDLDVDGNIGNALVNMYVKCGDMKMGLKVFNMVVHKDVISWGTVICGLAMNEYGKQVVQM 348

Query: 300 FSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYG 359
           FS M+++ V PDDVTFI L+SACSH GLV +G++ FKAM   Y IVPQM HY C+VDMYG
Sbjct: 349 FSHMLVHGVLPDDVTFIGLLSACSHVGLVSEGMMFFKAMRDSYGIVPQMSHYGCMVDMYG 408

Query: 360 RAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFAL 419
           RA L EEA AF++ MP+EAE  +W ALL AC+ H N+EM + IR   ++ K V VGT AL
Sbjct: 409 RASLFEEAVAFLKGMPVEAEGPIWSALLQACKTHGNEEMSEWIRGQ-IHDKNVGVGTLAL 467

Query: 420 MSNTFAGADRWEDTNKIRDEIRRMGLKKKTGCSWIE 455
           +SN +A ++RW+D N +R  +R  GLKK  G SW+E
Sbjct: 468 LSNIYASSERWDDANNVRKIMRGTGLKKVAGLSWVE 503

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356555244|ref|XP_003545944.1| PREDICTED: pentatricopeptide repeat-containing protein At1g08070-like [Glycine max]

 Score =  535 bits (1379), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 257/462 (55%), Positives = 341/462 (73%), Gaps = 7/462 (1%)

Query: 1   MLSCPSSYNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKD 60
           +LS P S+NHYTFT AL+AC   H   KALEIHAH+++ GH  D+F+QNSLLHFY+   D
Sbjct: 47  ILSHPFSHNHYTFTHALRACYSHHSRSKALEIHAHLVKSGHYLDLFLQNSLLHFYLAHND 106

Query: 61  IFSAHQIFNSVVFPDVVSWTTIISGLSKCGFHKEAIDMFCGID-----VKPNANTLVSVL 115
           + SA  +F S+  PDVVSWT+++SGL+K GF  +A+  F  ++     V+PNA TLV+ L
Sbjct: 107 VVSASNLFRSIPSPDVVSWTSLVSGLAKSGFEAQALHHFTNMNAKPKIVRPNAATLVAAL 166

Query: 116 SACSSLVSHKLGKAIHAHSLRNL-NENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNV 174
            ACSSL +  LGK+ HA+ LR L  + N+I DNA+L+ Y +CG+L +   LF K+  R+V
Sbjct: 167 CACSSLGALGLGKSAHAYGLRMLIFDGNVIFDNAVLELYAKCGALKNAQNLFDKVFARDV 226

Query: 175 VSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHS 234
           VSWTT++ GYA  G+C+EA +VF+ M    EAEPNEAT+V VLSA +SI ALS G++VHS
Sbjct: 227 VSWTTLLMGYARGGYCEEAFAVFKRMVLNAEAEPNEATVVTVLSASASIGALSLGQWVHS 286

Query: 235 YISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGR 294
           YI +RYDL V   + NA++NMYVKCGD+ + ++VF+M+ +KD ISW TVI GLAMNG  +
Sbjct: 287 YIDSRYDLVVDGNIENALLNMYVKCGDMQMGLRVFDMIVHKDAISWGTVICGLAMNGYEK 346

Query: 295 QALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACV 354
           + L+LFS M++  V PDDVTFI ++SACSH GLV++G++ FKAM   Y IVPQM+HY C+
Sbjct: 347 KTLELFSRMLVEVVEPDDVTFIGVLSACSHAGLVNEGVMFFKAMRDFYGIVPQMRHYGCM 406

Query: 355 VDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSV 414
           VDMYGRAGLLEEAEAF+R MP+EAE  +WGALL AC+IH N++M + I   L   K V V
Sbjct: 407 VDMYGRAGLLEEAEAFLRSMPVEAEGPIWGALLQACKIHGNEKMSEWIMGHL-KGKSVGV 465

Query: 415 GTFALMSNTFAGADRWEDTNKIRDEIRRMGLKKKTGCSWIEV 456
           GT AL+SN +A ++RW+D NK+R  +R   LKK  GCSW+E+
Sbjct: 466 GTLALLSNMYASSERWDDANKVRKSMRGTRLKKVAGCSWVEL 507

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225463844|ref|XP_002265179.1| PREDICTED: pentatricopeptide repeat-containing protein At1g08070-like [Vitis vinifera]

 Score =  371 bits (953), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 183/461 (39%), Positives = 293/461 (63%), Gaps = 6/461 (1%)

Query: 1   MLSCPSSYNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKD 60
           MLS     ++YT    LKAC+ +   ++  E+H   I+ G   D+++ N+L+  Y     
Sbjct: 116 MLSKGIVPDNYTIPFVLKACAESRAVREGEEVHGQAIKMGLASDVYVSNTLMRMYAVCDV 175

Query: 61  IFSAHQIFNSVVFPDVVSWTTIISGLSKCGFHKEAIDMF---CGIDVKPNANTLVSVLSA 117
           I SA ++F++    D+VSWTT+I G  K GF +E + +F   CG +++ +  TLV VLS+
Sbjct: 176 IRSARKVFDTSPQRDLVSWTTMIQGYVKMGFAREGVGLFFEMCGENLQADGMTLVIVLSS 235

Query: 118 CSSLVSHKLGKAIHAHSLRNLNEN-NIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVS 176
           C+ L   +LG+ +H + +RN N N ++ + NA++D Y++CG       +F +MP +NVVS
Sbjct: 236 CARLGDLRLGRKLHRYIIRNSNVNLDVFVGNALVDMYLKCGDANFARKVFQEMPVKNVVS 295

Query: 177 WTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYI 236
           W +MI G A++G  KE++ +F++M++    +P++ TLV VL++C+++  L  GK+VH+Y+
Sbjct: 296 WNSMISGLAQKGQFKESLYMFRKMQRLG-VKPDDVTLVAVLNSCANLGVLELGKWVHAYL 354

Query: 237 STRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQA 296
             R  +     +GNA+++MY KCG +  A  VF  +  KD  S++ +I GLAM+G G +A
Sbjct: 355 D-RNQIRADGFIGNALVDMYAKCGSIDQACWVFQAMNRKDVYSYTAMIVGLAMHGQGGKA 413

Query: 297 LQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVD 356
           L LFS M    + PD+VTF+ +++ACSH GLV++G   F+ MST+Y + PQ++HY C+VD
Sbjct: 414 LDLFSEMPKMGIEPDEVTFVGVLTACSHVGLVEEGRKYFEDMSTIYNLRPQLEHYGCMVD 473

Query: 357 MYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGT 416
           + GRAGL+ EAE FIR MPIE +  V GALL AC+IH   E+ + + + +   +    G 
Sbjct: 474 LLGRAGLINEAEEFIRNMPIEPDAFVLGALLGACKIHGKVELGESVMKKIEKIEPRKDGA 533

Query: 417 FALMSNTFAGADRWEDTNKIRDEIRRMGLKKKTGCSWIEVN 457
           + LMSN ++ A+RW D  K+R  ++   L+K  GCS IE++
Sbjct: 534 YVLMSNIYSSANRWRDALKLRKTMKERNLEKTPGCSSIELD 574

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255556729|ref|XP_002519398.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223541465|gb|EEF43015.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  360 bits (924), Expect = 7e-97,   Method: Compositional matrix adjust.
 Identities = 190/459 (41%), Positives = 281/459 (61%), Gaps = 4/459 (0%)

Query: 1   MLSCPSSYNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKD 60
           ML    S + YT    LKACS +H   +AL+IHAH I+ G   ++F++N+L+ FY     
Sbjct: 129 MLLIGLSPDTYTLPYLLKACSQSHAFIEALQIHAHSIKTGLSSNLFVKNTLMRFYAVSGF 188

Query: 61  IFSAHQIFNSVVFPDVVSWTTIISGLSKCGFHKEAIDMFCGIDVKPNANTLVSVLSACSS 120
           I +  ++F+     D++SWTT+I   SK G+  EAI  F  ++   +  TLV VLSACS 
Sbjct: 189 IEAVEKVFDQGPHWDLISWTTLIQAYSKMGYPSEAIAAFFRMNCTADRMTLVVVLSACSQ 248

Query: 121 LVSHKLGKAIHAHSLRNLNE--NNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWT 178
           L    LGK I A+   +L +  +++ L NA+LD Y++CG       LF  MP +N+VSW 
Sbjct: 249 LGDFTLGKKILAYMDHHLFDVHSDVFLGNALLDMYLKCGQPHLARQLFHLMPVKNLVSWN 308

Query: 179 TMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYIST 238
           +MI G A +G  KEA+ +F+ M+ T   +P+  TLV VL++C+++  L  GK+VHSYI  
Sbjct: 309 SMISGLAHQGLFKEALHMFRRMQ-TMGLKPDSVTLVGVLNSCANLGDLELGKWVHSYIDK 367

Query: 239 RYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQ 298
            + +     V NA+++MY KCG +  A  VF  +  KD  S++ +I G AM+G   +AL 
Sbjct: 368 NH-MKADGYVANALVDMYAKCGSIDQAFMVFQAMKCKDVYSYTAMIVGFAMHGKADRALA 426

Query: 299 LFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMY 358
           +FS M    V PD VT + ++SACSH GL+++G   F+ MS +Y + PQ +HY C+VD+ 
Sbjct: 427 IFSEMPRMGVRPDHVTLVGVLSACSHAGLLEEGRRHFQDMSRLYHLQPQTEHYGCMVDLL 486

Query: 359 GRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFA 418
           GRAGL+ EAEAF  +MPI  + SVWG+LL AC+IH   E+ + + Q L+  +    G + 
Sbjct: 487 GRAGLISEAEAFTNKMPIVPDASVWGSLLGACKIHAKVELGETVIQKLIEMEPERDGAYI 546

Query: 419 LMSNTFAGADRWEDTNKIRDEIRRMGLKKKTGCSWIEVN 457
           LMSN ++ A+RW D  K R  +++  +KK  GCS IEV+
Sbjct: 547 LMSNIYSSANRWRDALKWRKAMKQNNIKKTPGCSSIEVD 585

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147866113|emb|CAN78822.1| hypothetical protein VITISV_006669 [Vitis vinifera]

 Score =  355 bits (911), Expect = 3e-95,   Method: Compositional matrix adjust.
 Identities = 183/472 (38%), Positives = 286/472 (60%), Gaps = 21/472 (4%)

Query: 9   NHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIF 68
           ++YT+    KAC+     +   EI  HV+  G   DIF+ N+++H  V+  D+  A ++F
Sbjct: 78  DNYTYPLLFKACARLSLIRMGSEILGHVLHLGFDSDIFVSNAVIHLLVSCGDLDGARKMF 137

Query: 69  NSVVFPDVVSWTTIISGLSKCGFHKEAIDMFCGIDV---KPNANTLVSVLSACSSLVSHK 125
           +     D+VSW ++I+G  + G+  EA++ +  + V   KP+  T++ V+S+C+ L    
Sbjct: 138 DKSCVRDLVSWNSMINGYVRRGWAYEALNFYREMKVEGIKPDEVTMIGVVSSCAQLEDLD 197

Query: 126 LGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASC----------------GYLFVKM 169
           LG+  H +   N  +  + L NA++D Y++CG+L S                   LF +M
Sbjct: 198 LGRESHCYIEENGLKLTVPLANALMDMYMKCGNLESARKLFDSMTNKTMVSWTTMLFDEM 257

Query: 170 PKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFG 229
           P ++VV W  MIGGY      KEA+++F EM+      P+E T+V+ LSACS + AL  G
Sbjct: 258 PDKDVVPWNAMIGGYVHANRGKEALALFNEMQAMN-INPDEVTMVSCLSACSQLGALDVG 316

Query: 230 KYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAM 289
            ++H YI  +++LS++  +G A+I+MY KCG +  AIQVF  L  ++ ++W+ +ISGLA+
Sbjct: 317 IWIHHYIE-KHELSLNVALGTALIDMYAKCGKITKAIQVFQELPGRNSLTWTAIISGLAL 375

Query: 290 NGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQ 349
           +G    A+  FS MI N+V PD+VTF+ L+SAC HGGLV++G   F  MS+ + + P+++
Sbjct: 376 HGNAHGAIAYFSEMIDNSVMPDEVTFLGLLSACCHGGLVEEGRKYFSQMSSKFNLSPKLK 435

Query: 350 HYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNK 409
           HY+C+VD+ GRAGLLEEAE  I+ MPIEA+  VWGAL  ACRIH N  M +R    L+  
Sbjct: 436 HYSCMVDLLGRAGLLEEAEELIKSMPIEADAVVWGALFFACRIHGNVLMGERAASKLLQM 495

Query: 410 KGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGLKKKTGCSWIEVNPSIF 461
                G + L++N +  A+ W++  K R  +R+ G++K  GCS IEVN  ++
Sbjct: 496 DPHDSGIYVLLANMYGEAEMWKEAGKXRKLMRQRGVEKTPGCSSIEVNGIVY 547

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	461
TAIR|locus:2205200	741	OTP82 "AT1G08070" [Arabidopsis	0.913	0.568	0.354	9e-77
TAIR|locus:2121055	559	AT4G38010 "AT4G38010" [Arabido	0.960	0.792	0.348	2.1e-75
TAIR|locus:2154389	646	LPA66 "LOW PSII ACCUMULATION 6	0.694	0.495	0.397	3.7e-74
TAIR|locus:2196583	866	ECB2 "EARLY CHLOROPLAST BIOGEN	0.963	0.512	0.342	1.2e-72
TAIR|locus:2102852	657	CRR2 "AT3G46790" [Arabidopsis	0.997	0.700	0.321	3.2e-72
TAIR|locus:2124137	871	DOT4 "DEFECTIVELY ORGANIZED TR	0.882	0.467	0.350	6.7e-72
TAIR|locus:2056794	630	REME1 "required for efficiency	0.956	0.7	0.324	2.3e-71
TAIR|locus:2011892	596	AT1G50270 "AT1G50270" [Arabido	0.963	0.744	0.337	2.9e-71
TAIR|locus:2094812	600	AT3G29230 "AT3G29230" [Arabido	0.965	0.741	0.333	7.7e-71
TAIR|locus:2077878	685	AT3G08820 "AT3G08820" [Arabido	0.978	0.658	0.315	4.3e-70

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

 Score = 773 (277.2 bits), Expect = 9.0e-77, P = 9.0e-77
 Identities = 153/431 (35%), Positives = 260/431 (60%)

Query:    34 AH-VIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWTTIISGLSKCGFH 92
             AH V +     D+    +L+  Y +   I +A ++F+ +   DVVSW  +ISG ++ G +
Sbjct:   188 AHKVFDKSPHRDVVSYTALIKGYASRGYIENAQKLFDEIPVKDVVSWNAMISGYAETGNY 247

Query:    93 KEAIDMFCGI---DVKPNANTXXXXXXXXXXXXXHKLGKAIHAHSLRNLNENNIILDNAI 149
             KEA+++F  +   +V+P+ +T              +LG+ +H     +   +N+ + NA+
Sbjct:   248 KEALELFKDMMKTNVRPDESTMVTVVSACAQSGSIELGRQVHLWIDDHGFGSNLKIVNAL 307

Query:   150 LDFYIRCGSL-ASCGYLFVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEP 208
             +D Y +CG L  +CG LF ++P ++V+SW T+IGGY      KEA+ +FQEM ++ E  P
Sbjct:   308 IDLYSKCGELETACG-LFERLPYKDVISWNTLIGGYTHMNLYKEALLLFQEMLRSGET-P 365

Query:   209 NEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNL--VGNAVINMYVKCGDVGIAI 266
             N+ T++++L AC+ + A+  G+++H YI  R    V+N   +  ++I+MY KCGD+  A 
Sbjct:   366 NDVTMLSILPACAHLGAIDIGRWIHVYIDKRLK-GVTNASSLRTSLIDMYAKCGDIEAAH 424

Query:   267 QVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGG 326
             QVFN + +K   SW+ +I G AM+G    +  LFS M    + PDD+TF+ L+SACSH G
Sbjct:   425 QVFNSILHKSLSSWNAMIFGFAMHGRADASFDLFSRMRKIGIQPDDITFVGLLSACSHSG 484

Query:   327 LVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGAL 386
             ++D G  +F+ M+  Y++ P+++HY C++D+ G +GL +EAE  I  M +E +  +W +L
Sbjct:   485 MLDLGRHIFRTMTQDYKMTPKLEHYGCMIDLLGHSGLFKEAEEMINMMEMEPDGVIWCSL 544

Query:   387 LNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGLK 446
             L AC++H N E+ +   ++L+  +  + G++ L+SN +A A RW +  K R  +   G+K
Sbjct:   545 LKACKMHGNVELGESFAENLIKIEPENPGSYVLLSNIYASAGRWNEVAKTRALLNDKGMK 604

Query:   447 KKTGCSWIEVN 457
             K  GCS IE++
Sbjct:   605 KVPGCSSIEID 615

GO:0003674 "molecular_function" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

GO:0031425 "chloroplast RNA processing" evidence=IMP

TAIR|locus:2121055 AT4G38010 "AT4G38010" [Arabidopsis thaliana (taxid:3702)]

 Score = 760 (272.6 bits), Expect = 2.1e-75, P = 2.1e-75
 Identities = 156/448 (34%), Positives = 259/448 (57%)

Query:    11 YTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNS 70
             +TF    KAC      ++  +IH  V + G   DI++QNSL+HFY    +  +A ++F  
Sbjct:   107 FTFPPVFKACGKFSGIREGKQIHGIVTKMGFYDDIYVQNSLVHFYGVCGESRNACKVFGE 166

Query:    71 VVFPDVVSWTTIISGLSKCGFHKEAIDMFCGIDVKPNANTXXXXXXXXXXXXXHKLGKAI 130
             +   DVVSWT II+G ++ G +KEA+D F  +DV+PN  T               LGK I
Sbjct:   167 MPVRDVVSWTGIITGFTRTGLYKEALDTFSKMDVEPNLATYVCVLVSSGRVGCLSLGKGI 226

Query:   131 HAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYAERGFC 190
             H   L+  +  ++   NA++D Y++C  L+    +F ++ K++ VSW +MI G       
Sbjct:   227 HGLILKRASLISLETGNALIDMYVKCEQLSDAMRVFGELEKKDKVSWNSMISGLVHCERS 286

Query:   191 KEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGN 250
             KEA+ +F  M+ +   +P+   L +VLSAC+S+ A+  G++VH YI T   +     +G 
Sbjct:   287 KEAIDLFSLMQTSSGIKPDGHILTSVLSACASLGAVDHGRWVHEYILTA-GIKWDTHIGT 345

Query:   251 AVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFP 310
             A+++MY KCG +  A+++FN +  K+  +W+ ++ GLA++G G ++L+ F  M+     P
Sbjct:   346 AIVDMYAKCGYIETALEIFNGIRSKNVFTWNALLGGLAIHGHGLESLRYFEEMVKLGFKP 405

Query:   311 DDVTFIALISACSHGGLVDQGLILFKAM-STVYEIVPQMQHYACVVDMYGRAGLLEEAEA 369
             + VTF+A ++AC H GLVD+G   F  M S  Y + P+++HY C++D+  RAGLL+EA  
Sbjct:   406 NLVTFLAALNACCHTGLVDEGRRYFHKMKSREYNLFPKLEHYGCMIDLLCRAGLLDEALE 465

Query:   370 FIREMPIEAEWSVWGALLNACRIHRND--EMFDRIRQDLVNKKGVSVGTFALMSNTFAGA 427
              ++ MP++ +  + GA+L+AC+ +R    E+   I    ++ +    G + L+SN FA  
Sbjct:   466 LVKAMPVKPDVRICGAILSACK-NRGTLMELPKEILDSFLDIEFEDSGVYVLLSNIFAAN 524

Query:   428 DRWEDTNKIRDEIRRMGLKKKTGCSWIE 455
              RW+D  +IR  ++  G+ K  G S+IE
Sbjct:   525 RRWDDVARIRRLMKVKGISKVPGSSYIE 552

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 637 (229.3 bits), Expect = 3.7e-74, Sum P(2) = 3.7e-74
 Identities = 128/322 (39%), Positives = 199/322 (61%)

Query:   136 RNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYAERGFCKEAVS 195
             R   +  I+L N ++D Y+R G   +   LF KM +R+VVSW TMI GY+  GF K+AV 
Sbjct:   201 RRKRDGEIVLWNVMIDGYMRLGDCKAARMLFDKMRQRSVVSWNTMISGYSLNGFFKDAVE 260

Query:   196 VFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINM 255
             VF+EM+K  +  PN  TLV+VL A S + +L  G+++H Y      + + +++G+A+I+M
Sbjct:   261 VFREMKKG-DIRPNYVTLVSVLPAISRLGSLELGEWLHLYAEDS-GIRIDDVLGSALIDM 318

Query:   256 YVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTF 315
             Y KCG +  AI VF  L  ++ I+WS +I+G A++G    A+  F  M    V P DV +
Sbjct:   319 YSKCGIIEKAIHVFERLPRENVITWSAMINGFAIHGQAGDAIDCFCKMRQAGVRPSDVAY 378

Query:   316 IALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMP 375
             I L++ACSHGGLV++G   F  M +V  + P+++HY C+VD+ GR+GLL+EAE FI  MP
Sbjct:   379 INLLTACSHGGLVEEGRRYFSQMVSVDGLEPRIEHYGCMVDLLGRSGLLDEAEEFILNMP 438

Query:   376 IEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNK 435
             I+ +  +W ALL ACR+  N EM  R+   L++      G +  +SN +A    W + ++
Sbjct:   439 IKPDDVIWKALLGACRMQGNVEMGKRVANILMDMVPHDSGAYVALSNMYASQGNWSEVSE 498

Query:   436 IRDEIRRMGLKKKTGCSWIEVN 457
             +R  ++   ++K  GCS I+++
Sbjct:   499 MRLRMKEKDIRKDPGCSLIDID 520

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0009451 "RNA modification" evidence=IMP

GO:0007020 "microtubule nucleation" evidence=RCA

TAIR|locus:2196583 ECB2 "EARLY CHLOROPLAST BIOGENESIS2" [Arabidopsis thaliana (taxid:3702)]

 Score = 734 (263.4 bits), Expect = 1.2e-72, P = 1.2e-72
 Identities = 155/452 (34%), Positives = 249/452 (55%)

Query:    12 TFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSV 71
             T T  + AC L    +   +IHA+VI  G   DI + NSL   Y+       A ++F+ +
Sbjct:   299 TLTSVISACELLGDRRLGRDIHAYVITTGFAVDISVCNSLTQMYLNAGSWREAEKLFSRM 358

Query:    72 VFPDVVSWTTIISGLSKCGFHKEAIDMFCGID---VKPNANTXXXXXXXXXXXXXHKLGK 128
                D+VSWTT+ISG        +AID +  +D   VKP+  T                G 
Sbjct:   359 ERKDIVSWTTMISGYEYNFLPDKAIDTYRMMDQDSVKPDEITVAAVLSACATLGDLDTGV 418

Query:   129 AIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYAERG 188
              +H  +++    + +I+ N +++ Y +C  +     +F  +P++NV+SWT++I G     
Sbjct:   419 ELHKLAIKARLISYVIVANNLINMYSKCKCIDKALDIFHNIPRKNVISWTSIIAGLRLNN 478

Query:   189 FCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLV 248
              C EA+   ++M+ T   +PN  TL   L+AC+ I AL  GK +H+++  R  + + + +
Sbjct:   479 RCFEALIFLRQMKMT--LQPNAITLTAALAACARIGALMCGKEIHAHV-LRTGVGLDDFL 535

Query:   249 GNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAV 308
              NA+++MYV+CG +  A   FN    KD  SW+ +++G +  G G   ++LF  M+ + V
Sbjct:   536 PNALLDMYVRCGRMNTAWSQFNSQK-KDVTSWNILLTGYSERGQGSMVVELFDRMVKSRV 594

Query:   309 FPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAE 368
              PD++TFI+L+  CS   +V QGL+ F  M   Y + P ++HYACVVD+ GRAG L+EA 
Sbjct:   595 RPDEITFISLLCGCSKSQMVRQGLMYFSKMED-YGVTPNLKHYACVVDLLGRAGELQEAH 653

Query:   369 AFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGAD 428
              FI++MP+  + +VWGALLNACRIH   ++ +   Q +      SVG + L+ N +A   
Sbjct:   654 KFIQKMPVTPDPAVWGALLNACRIHHKIDLGELSAQHIFELDKKSVGYYILLCNLYADCG 713

Query:   429 RWEDTNKIRDEIRRMGLKKKTGCSWIEVNPSI 460
             +W +  K+R  ++  GL    GCSW+EV   +
Sbjct:   714 KWREVAKVRRMMKENGLTVDAGCSWVEVKGKV 745

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0009451 "RNA modification" evidence=IMP

GO:0009658 "chloroplast organization" evidence=IMP

GO:0040007 "growth" evidence=IMP

GO:0009416 "response to light stimulus" evidence=IEP

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

 Score = 730 (262.0 bits), Expect = 3.2e-72, P = 3.2e-72
 Identities = 151/469 (32%), Positives = 259/469 (55%)

Query:     1 MLSCPSSYNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKD 60
             +LS  SS +  T+   +  C        AL +H H+++ G   D F+   L+  Y  +  
Sbjct:    68 VLSQESSPSQQTYELLILCCGHRSSLSDALRVHRHILDNGSDQDPFLATKLIGMYSDLGS 127

Query:    61 IFSAHQIFNSVVFPDVVSWTTIISGLSKCGFHKEAIDMF-----CGIDVKPNANTXXXXX 115
             +  A ++F+      +  W  +   L+  G  +E + ++      G++      T     
Sbjct:   128 VDYARKVFDKTRKRTIYVWNALFRALTLAGHGEEVLGLYWKMNRIGVESDRFTYTYVLKA 187

Query:   116 XXXXXXXXHKL--GKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRN 173
                     + L  GK IHAH  R    +++ +   ++D Y R G +    Y+F  MP RN
Sbjct:   188 CVASECTVNHLMKGKEIHAHLTRRGYSSHVYIMTTLVDMYARFGCVDYASYVFGGMPVRN 247

Query:   174 VVSWTTMIGGYAERGFCKEAVSVFQEM-EKTKEAEPNEATLVNVLSACSSISALSFGKYV 232
             VVSW+ MI  YA+ G   EA+  F+EM  +TK++ PN  T+V+VL AC+S++AL  GK +
Sbjct:   248 VVSWSAMIACYAKNGKAFEALRTFREMMRETKDSSPNSVTMVSVLQACASLAALEQGKLI 307

Query:   233 HSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGC 292
             H YI  R   S+  ++ +A++ MY +CG + +  +VF+ +  +D +SW+++IS   ++G 
Sbjct:   308 HGYILRRGLDSILPVI-SALVTMYGRCGKLEVGQRVFDRMHDRDVVSWNSLISSYGVHGY 366

Query:   293 GRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYA 352
             G++A+Q+F  M+ N   P  VTF++++ ACSH GLV++G  LF+ M   + I PQ++HYA
Sbjct:   367 GKKAIQIFEEMLANGASPTPVTFVSVLGACSHEGLVEEGKRLFETMWRDHGIKPQIEHYA 426

Query:   353 CVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGV 412
             C+VD+ GRA  L+EA   +++M  E    VWG+LL +CRIH N E+ +R  + L   +  
Sbjct:   427 CMVDLLGRANRLDEAAKMVQDMRTEPGPKVWGSLLGSCRIHGNVELAERASRRLFALEPK 486

Query:   413 SVGTFALMSNTFAGADRWEDTNKIRDEIRRMGLKKKTGCSWIEVNPSIF 461
             + G + L+++ +A A  W++  +++  +   GL+K  G  W+EV   ++
Sbjct:   487 NAGNYVLLADIYAEAQMWDEVKRVKKLLEHRGLQKLPGRCWMEVRRKMY 535

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

 Score = 727 (261.0 bits), Expect = 6.7e-72, P = 6.7e-72
 Identities = 144/411 (35%), Positives = 242/411 (58%)

Query:    49 NSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWTTIISGLSKCGFHKEAIDMFCGID---VK 105
             N+LL  Y    D+ SA  +F  +    VVS+T++I+G ++ G   EA+ +F  ++   + 
Sbjct:   335 NTLLDMYSKCGDLDSAKAVFREMSDRSVVSYTSMIAGYAREGLAGEAVKLFEEMEEEGIS 394

Query:   106 PNANTXXXXXXXXXXXXXHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYL 165
             P+  T                GK +H     N    +I + NA++D Y +CGS+     +
Sbjct:   395 PDVYTVTAVLNCCARYRLLDEGKRVHEWIKENDLGFDIFVSNALMDMYAKCGSMQEAELV 454

Query:   166 FVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISA 225
             F +M  ++++SW T+IGGY++  +  EA+S+F  + + K   P+E T+  VL AC+S+SA
Sbjct:   455 FSEMRVKDIISWNTIIGGYSKNCYANEALSLFNLLLEEKRFSPDERTVACVLPACASLSA 514

Query:   226 LSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVIS 285
                G+ +H YI      S  + V N++++MY KCG + +A  +F+ +A KD +SW+ +I+
Sbjct:   515 FDKGREIHGYIMRNGYFSDRH-VANSLVDMYAKCGALLLAHMLFDDIASKDLVSWTVMIA 573

Query:   286 GLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIV 345
             G  M+G G++A+ LF+ M    +  D+++F++L+ ACSH GLVD+G   F  M    +I 
Sbjct:   574 GYGMHGFGKEAIALFNQMRQAGIEADEISFVSLLYACSHSGLVDEGWRFFNIMRHECKIE 633

Query:   346 PQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQD 405
             P ++HYAC+VDM  R G L +A  FI  MPI  + ++WGALL  CRIH + ++ +++ + 
Sbjct:   634 PTVEHYACIVDMLARTGDLIKAYRFIENMPIPPDATIWGALLCGCRIHHDVKLAEKVAEK 693

Query:   406 LVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGLKKKTGCSWIEV 456
             +   +  + G + LM+N +A A++WE   ++R  I + GL+K  GCSWIE+
Sbjct:   694 VFELEPENTGYYVLMANIYAEAEKWEQVKRLRKRIGQRGLRKNPGCSWIEI 744

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:2056794 REME1 "required for efficiency of mitochondrial editing 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 722 (259.2 bits), Expect = 2.3e-71, P = 2.3e-71
 Identities = 147/453 (32%), Positives = 258/453 (56%)

Query:    12 TFTQALKAC-SLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNS 70
             T+++ +K C S    H+  L I  H+   GH   +F+ N L++ YV    +  AHQ+F+ 
Sbjct:    63 TYSELIKCCISNRAVHEGNL-ICRHLYFNGHRPMMFLVNVLINMYVKFNLLNDAHQLFDQ 121

Query:    71 VVFPDVVSWTTIISGLSKCGFHKEAIDMFCGI---DVKPNANTXXXXXXXXXXXXXHKLG 127
             +   +V+SWTT+IS  SKC  H++A+++   +   +V+PN  T              ++ 
Sbjct:   122 MPQRNVISWTTMISAYSKCKIHQKALELLVLMLRDNVRPNVYTYSSVLRSCNGMSDVRM- 180

Query:   128 KAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYAER 187
               +H   ++   E+++ + +A++D + + G       +F +M   + + W ++IGG+A+ 
Sbjct:   181 --LHCGIIKEGLESDVFVRSALIDVFAKLGEPEDALSVFDEMVTGDAIVWNSIIGGFAQN 238

Query:   188 GFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNL 247
                  A+ +F+ M++       +ATL +VL AC+ ++ L  G   H +I  +YD  +  +
Sbjct:   239 SRSDVALELFKRMKRAGFIA-EQATLTSVLRACTGLALLELGMQAHVHI-VKYDQDL--I 294

Query:   248 VGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINA 307
             + NA+++MY KCG +  A++VFN +  +D I+WST+ISGLA NG  ++AL+LF  M  + 
Sbjct:   295 LNNALVDMYCKCGSLEDALRVFNQMKERDVITWSTMISGLAQNGYSQEALKLFERMKSSG 354

Query:   308 VFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEA 367
               P+ +T + ++ ACSH GL++ G   F++M  +Y I P  +HY C++D+ G+AG L++A
Sbjct:   355 TKPNYITIVGVLFACSHAGLLEDGWYYFRSMKKLYGIDPVREHYGCMIDLLGKAGKLDDA 414

Query:   368 EAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGA 427
                + EM  E +   W  LL ACR+ RN  + +   + ++       GT+ L+SN +A +
Sbjct:   415 VKLLNEMECEPDAVTWRTLLGACRVQRNMVLAEYAAKKVIALDPEDAGTYTLLSNIYANS 474

Query:   428 DRWEDTNKIRDEIRRMGLKKKTGCSWIEVNPSI 460
              +W+   +IR  +R  G+KK+ GCSWIEVN  I
Sbjct:   475 QKWDSVEEIRTRMRDRGIKKEPGCSWIEVNKQI 507

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0009451 "RNA modification" evidence=IMP

TAIR|locus:2011892 AT1G50270 "AT1G50270" [Arabidopsis thaliana (taxid:3702)]

 Score = 721 (258.9 bits), Expect = 2.9e-71, P = 2.9e-71
 Identities = 153/453 (33%), Positives = 254/453 (56%)

Query:     9 NHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFS-AHQI 67
             + +TF   LKA           + HAH++++G   D F++NSL+  Y +   +F  A ++
Sbjct:   103 SRHTFPPLLKAVFKLRD-SNPFQFHAHIVKFGLDSDPFVRNSLISGYSS-SGLFDFASRL 160

Query:    68 FNSVVFPDVVSWTTIISGLSKCGFHKEAIDMFCGID---VKPNANTXXXXXXXXXXXXXH 124
             F+     DVV+WT +I G  + G   EA+  F  +    V  N  T              
Sbjct:   161 FDGAEDKDVVTWTAMIDGFVRNGSASEAMVYFVEMKKTGVAANEMTVVSVLKAAGKVEDV 220

Query:   125 KLGKAIHAHSLRNLNEN-NIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGG 183
             + G+++H   L       ++ + ++++D Y +C        +F +MP RNVV+WT +I G
Sbjct:   221 RFGRSVHGLYLETGRVKCDVFIGSSLVDMYGKCSCYDDAQKVFDEMPSRNVVTWTALIAG 280

Query:   184 YAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLS 243
             Y +     + + VF+EM K+  A PNE TL +VLSAC+ + AL  G+ VH Y+  +  + 
Sbjct:   281 YVQSRCFDKGMLVFEEMLKSDVA-PNEKTLSSVLSACAHVGALHRGRRVHCYM-IKNSIE 338

Query:   244 VSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLM 303
             ++   G  +I++YVKCG +  AI VF  L  K+  +W+ +I+G A +G  R A  LF  M
Sbjct:   339 INTTAGTTLIDLYVKCGCLEEAILVFERLHEKNVYTWTAMINGFAAHGYARDAFDLFYTM 398

Query:   304 IINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGL 363
             + + V P++VTF+A++SAC+HGGLV++G  LF +M   + + P+  HYAC+VD++GR GL
Sbjct:   399 LSSHVSPNEVTFMAVLSACAHGGLVEEGRRLFLSMKGRFNMEPKADHYACMVDLFGRKGL 458

Query:   364 LEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNT 423
             LEEA+A I  MP+E    VWGAL  +C +H++ E+       ++  +    G + L++N 
Sbjct:   459 LEEAKALIERMPMEPTNVVWGALFGSCLLHKDYELGKYAASRVIKLQPSHSGRYTLLANL 518

Query:   424 FAGADRWEDTNKIRDEIRRMGLKKKTGCSWIEV 456
             ++ +  W++  ++R +++   + K  G SWIEV
Sbjct:   519 YSESQNWDEVARVRKQMKDQQVVKSPGFSWIEV 551

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0007059 "chromosome segregation" evidence=RCA

GO:0007062 "sister chromatid cohesion" evidence=RCA

GO:0007129 "synapsis" evidence=RCA

GO:0007131 "reciprocal meiotic recombination" evidence=RCA

GO:0009887 "organ morphogenesis" evidence=RCA

GO:0009888 "tissue development" evidence=RCA

GO:0010638 "positive regulation of organelle organization" evidence=RCA

GO:0033044 "regulation of chromosome organization" evidence=RCA

GO:0042138 "meiotic DNA double-strand break formation" evidence=RCA

GO:0045132 "meiotic chromosome segregation" evidence=RCA

TAIR|locus:2094812 AT3G29230 "AT3G29230" [Arabidopsis thaliana (taxid:3702)]

 Score = 717 (257.5 bits), Expect = 7.7e-71, P = 7.7e-71
 Identities = 152/456 (33%), Positives = 257/456 (56%)

Query:     9 NHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKD--IFSAHQ 66
             +++T+   LKACS          +H H+ + G   DI++ N+L+  Y       +  A +
Sbjct:   116 DNFTYPFLLKACSGQSWLPVVKMMHNHIEKLGLSSDIYVPNALIDCYSRCGGLGVRDAMK 175

Query:    67 IFNSVVFPDVVSWTTIISGLSKCGFHKEAIDMFCGIDVKPNANTXXXXXXXXXXXXXHKL 126
             +F  +   D VSW +++ GL K G  ++A  +F   D  P  +               ++
Sbjct:   176 LFEKMSERDTVSWNSMLGGLVKAGELRDARRLF---DEMPQRDLISWNTMLDGYARCREM 232

Query:   127 GKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMP--KRNVVSWTTMIGGY 184
              KA        + E N +  + ++  Y + G +     +F KMP   +NVV+WT +I GY
Sbjct:   233 SKAFEL--FEKMPERNTVSWSTMVMGYSKAGDMEMARVMFDKMPLPAKNVVTWTIIIAGY 290

Query:   185 AERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSV 244
             AE+G  KEA  +  +M  +   + + A ++++L+AC+    LS G  +HS +  R +L  
Sbjct:   291 AEKGLLKEADRLVDQMVASG-LKFDAAAVISILAACTESGLLSLGMRIHSILK-RSNLGS 348

Query:   245 SNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMI 304
             +  V NA+++MY KCG++  A  VFN +  KD +SW+T++ GL ++G G++A++LFS M 
Sbjct:   349 NAYVLNALLDMYAKCGNLKKAFDVFNDIPKKDLVSWNTMLHGLGVHGHGKEAIELFSRMR 408

Query:   305 INAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLL 364
                + PD VTFIA++ +C+H GL+D+G+  F +M  VY++VPQ++HY C+VD+ GR G L
Sbjct:   409 REGIRPDKVTFIAVLCSCNHAGLIDEGIDYFYSMEKVYDLVPQVEHYGCLVDLLGRVGRL 468

Query:   365 EEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTF 424
             +EA   ++ MP+E    +WGALL ACR+H   ++   +  +LV       G ++L+SN +
Sbjct:   469 KEAIKVVQTMPMEPNVVIWGALLGACRMHNEVDIAKEVLDNLVKLDPCDPGNYSLLSNIY 528

Query:   425 AGADRWEDTNKIRDEIRRMGLKKKTGCSWIEVNPSI 460
             A A+ WE    IR +++ MG++K +G S +E+   I
Sbjct:   529 AAAEDWEGVADIRSKMKSMGVEKPSGASSVELEDGI 564

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2077878 AT3G08820 "AT3G08820" [Arabidopsis thaliana (taxid:3702)]

 Score = 710 (255.0 bits), Expect = 4.3e-70, P = 4.3e-70
 Identities = 144/457 (31%), Positives = 254/457 (55%)

Query:     8 YNH-YTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQ 66
             Y H +TF   LKAC+ A   +  +++H+ V++ G  HD+    SLL  Y     +  AH+
Sbjct:   108 YLHGFTFPLVLKACTRASSRKLGIDLHSLVVKCGFNHDVAAMTSLLSIYSGSGRLNDAHK 167

Query:    67 IFNSVVFPDVVSWTTIISGLSKCGFHKEAIDMF---CGIDVKPNANTXXXXXXXXXXXXX 123
             +F+ +    VV+WT + SG +  G H+EAID+F     + VKP++               
Sbjct:   168 LFDEIPDRSVVTWTALFSGYTTSGRHREAIDLFKKMVEMGVKPDSYFIVQVLSACVHVGD 227

Query:   124 HKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGG 183
                G+ I  +      + N  +   +++ Y +CG +     +F  M ++++V+W+TMI G
Sbjct:   228 LDSGEWIVKYMEEMEMQKNSFVRTTLVNLYAKCGKMEKARSVFDSMVEKDIVTWSTMIQG 287

Query:   184 YAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLS 243
             YA   F KE + +F +M + +  +P++ ++V  LS+C+S+ AL  G++  S I  R++  
Sbjct:   288 YASNSFPKEGIELFLQMLQ-ENLKPDQFSIVGFLSSCASLGALDLGEWGISLID-RHEFL 345

Query:   244 VSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLM 303
              +  + NA+I+MY KCG +    +VF  +  KD +  +  ISGLA NG  + +  +F   
Sbjct:   346 TNLFMANALIDMYAKCGAMARGFEVFKEMKEKDIVIMNAAISGLAKNGHVKLSFAVFGQT 405

Query:   304 IINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGL 363
                 + PD  TF+ L+  C H GL+  GL  F A+S VY +   ++HY C+VD++GRAG+
Sbjct:   406 EKLGISPDGSTFLGLLCGCVHAGLIQDGLRFFNAISCVYALKRTVEHYGCMVDLWGRAGM 465

Query:   364 LEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNT 423
             L++A   I +MP+     VWGALL+ CR+ ++ ++ + + ++L+  +  + G +  +SN 
Sbjct:   466 LDDAYRLICDMPMRPNAIVWGALLSGCRLVKDTQLAETVLKELIALEPWNAGNYVQLSNI 525

Query:   424 FAGADRWEDTNKIRDEIRRMGLKKKTGCSWIEVNPSI 460
             ++   RW++  ++RD + + G+KK  G SWIE+   +
Sbjct:   526 YSVGGRWDEAAEVRDMMNKKGMKKIPGYSWIELEGKV 562

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	461
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-111
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	3e-79
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-57
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-38
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-35
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-10
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-07
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-07
pfam13041	50	pfam13041, PPR_2, PPR repeat family	7e-07
pfam13041	50	pfam13041, PPR_2, PPR repeat family	6e-06
pfam01535	31	pfam01535, PPR, PPR repeat	3e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-04
pfam12854	34	pfam12854, PPR_1, PPR repeat	5e-04
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	0.001
pfam12854	34	pfam12854, PPR_1, PPR repeat	0.001
pfam13041	50	pfam13041, PPR_2, PPR repeat family	0.004

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

 Score =  347 bits (891), Expect = e-111
 Identities = 166/448 (37%), Positives = 266/448 (59%), Gaps = 7/448 (1%)

Query: 12  TFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSV 71
           T T  + AC L    +   E+H +V++ G   D+ + NSL+  Y+++     A ++F+ +
Sbjct: 290 TITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRM 349

Query: 72  VFPDVVSWTTIISGLSKCGFHKEAIDMFCGID---VKPNANTLVSVLSACSSLVSHKLGK 128
              D VSWT +ISG  K G   +A++ +  ++   V P+  T+ SVLSAC+ L    +G 
Sbjct: 350 ETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGV 409

Query: 129 AIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYAERG 188
            +H  + R    + +++ NA+++ Y +C  +     +F  +P+++V+SWT++I G     
Sbjct: 410 KLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNN 469

Query: 189 FCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLV 248
            C EA+  F++M  T   +PN  TL+  LSAC+ I AL  GK +H+++  R  +     +
Sbjct: 470 RCFEALIFFRQMLLT--LKPNSVTLIAALSACARIGALMCGKEIHAHV-LRTGIGFDGFL 526

Query: 249 GNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAV 308
            NA++++YV+CG +  A   FN    KD +SW+ +++G   +G G  A++LF+ M+ + V
Sbjct: 527 PNALLDLYVRCGRMNYAWNQFNSHE-KDVVSWNILLTGYVAHGKGSMAVELFNRMVESGV 585

Query: 309 FPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAE 368
            PD+VTFI+L+ ACS  G+V QGL  F +M   Y I P ++HYACVVD+ GRAG L EA 
Sbjct: 586 NPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAY 645

Query: 369 AFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGAD 428
            FI +MPI  + +VWGALLNACRIHR+ E+ +   Q +      SVG + L+ N +A A 
Sbjct: 646 NFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAG 705

Query: 429 RWEDTNKIRDEIRRMGLKKKTGCSWIEV 456
           +W++  ++R  +R  GL    GCSW+EV
Sbjct: 706 KWDEVARVRKTMRENGLTVDPGCSWVEV 733

Length = 857

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

 Score =  259 bits (663), Expect = 3e-79
 Identities = 138/460 (30%), Positives = 241/460 (52%), Gaps = 9/460 (1%)

Query: 2   LSCPSSYNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDI 61
             CP +    T+   ++AC      +    ++ HV   G   D ++ N +L  +V    +
Sbjct: 115 AGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGML 174

Query: 62  FSAHQIFNSVVFPDVVSWTTIISGLSKCGFHKEAIDMF---CGIDVKPNANTLVSVLSAC 118
             A ++F+ +   ++ SW TII GL   G ++EA  +F             T V +L A 
Sbjct: 175 IDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRAS 234

Query: 119 SSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWT 178
           + L S + G+ +H   L+     +  +  A++D Y +CG +     +F  MP++  V+W 
Sbjct: 235 AGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWN 294

Query: 179 TMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVH-SYIS 237
           +M+ GYA  G+ +EA+ ++ EM  +     ++ T   ++   S ++ L   K  H   I 
Sbjct: 295 SMLAGYALHGYSEEALCLYYEMRDSG-VSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIR 353

Query: 238 TRYDLSVSNLVGN-AVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQA 296
           T + L +   V N A++++Y K G +  A  VF+ +  K+ ISW+ +I+G   +G G +A
Sbjct: 354 TGFPLDI---VANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKA 410

Query: 297 LQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVD 356
           +++F  MI   V P+ VTF+A++SAC + GL +QG  +F++MS  + I P+  HYAC+++
Sbjct: 411 VEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIE 470

Query: 357 MYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGT 416
           + GR GLL+EA A IR  P +   ++W ALL ACRIH+N E+     + L       +  
Sbjct: 471 LLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNN 530

Query: 417 FALMSNTFAGADRWEDTNKIRDEIRRMGLKKKTGCSWIEV 456
           + ++ N +  + R  +  K+ + ++R GL     C+WIEV
Sbjct: 531 YVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPACTWIEV 570

Length = 697

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

 Score =  202 bits (516), Expect = 2e-57
 Identities = 113/419 (26%), Positives = 211/419 (50%), Gaps = 18/419 (4%)

Query: 12  TFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSV 71
            +    + C      ++   + +  +       + + N++L  +V   ++  A  +F  +
Sbjct: 88  AYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKM 147

Query: 72  VFPDVVSWTTIISGLSKCGFHKEAIDMFCGI---DVKPNANTLVSVLSACSSLVSHKLGK 128
              D+ SW  ++ G +K G+  EA+ ++  +    V+P+  T   VL  C  +     G+
Sbjct: 148 PERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGR 207

Query: 129 AIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYAERG 188
            +HAH +R   E ++ + NA++  Y++CG + S   +F +MP+R+ +SW  MI GY E G
Sbjct: 208 EVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENG 267

Query: 189 FCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSY-ISTRYDLSVSNL 247
            C E + +F  M +    +P+  T+ +V+SAC  +     G+ +H Y + T + + VS  
Sbjct: 268 ECLEGLELFFTM-RELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVS-- 324

Query: 248 VGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINA 307
           V N++I MY+  G  G A +VF+ +  KD +SW+ +ISG   NG   +AL+ ++LM  + 
Sbjct: 325 VCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDN 384

Query: 308 VFPDDVTFIALISACSHGGLVDQGLILF----KAMSTVYEIVPQMQHYACVVDMYGRAGL 363
           V PD++T  +++SAC+  G +D G+ L     +     Y +V        +++MY +   
Sbjct: 385 VSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVAN-----ALIEMYSKCKC 439

Query: 364 LEEAEAFIREMPIEAEWSVWGALLNACRI-HRNDEMFDRIRQDLVNKKGVSVGTFALMS 421
           +++A      +P E +   W +++   R+ +R  E     RQ L+  K  SV   A +S
Sbjct: 440 IDKALEVFHNIP-EKDVISWTSIIAGLRLNNRCFEALIFFRQMLLTLKPNSVTLIAALS 497

Length = 857

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

 Score =  149 bits (377), Expect = 1e-38
 Identities = 89/292 (30%), Positives = 147/292 (50%), Gaps = 10/292 (3%)

Query: 102 IDVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLAS 161
           + V  + +  V++   C    + + G  + + +L +     + L NA+L  ++R G L  
Sbjct: 80  LRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVH 139

Query: 162 CGYLFVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACS 221
             Y+F KMP+R++ SW  ++GGYA+ G+  EA+ ++  M       P+  T   VL  C 
Sbjct: 140 AWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAG-VRPDVYTFPCVLRTCG 198

Query: 222 SISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWS 281
            I  L+ G+ VH+++  R+   +   V NA+I MYVKCGDV  A  VF+ +  +D ISW+
Sbjct: 199 GIPDLARGREVHAHV-VRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWN 257

Query: 282 TVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGL---ILFKAM 338
            +ISG   NG   + L+LF  M   +V PD +T  ++ISAC    L D+ L   +    +
Sbjct: 258 AMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISAC--ELLGDERLGREMHGYVV 315

Query: 339 STVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNAC 390
            T + +   +     ++ MY   G   EAE     M  +   S W A+++  
Sbjct: 316 KTGFAV--DVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVS-WTAMISGY 364

Length = 857

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

 Score =  139 bits (351), Expect = 2e-35
 Identities = 105/346 (30%), Positives = 174/346 (50%), Gaps = 36/346 (10%)

Query: 77  VSWTTIISGLSKCGFHKEAIDMFCGIDV----KPNANTLVSVLSACSSLVSHKLGKAIHA 132
           VS  + I  L  CG H+EA+++F  ++        A+T  +++ AC +L S +  KA++ 
Sbjct: 88  VSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYW 147

Query: 133 HSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYAERGFCKE 192
           H   +  E +  + N +L  +++CG L     LF +MP+RN+ SW T+IGG  + G  +E
Sbjct: 148 HVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYRE 207

Query: 193 AVSVFQEM-EKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNA 251
           A ++F+EM E   +AEP   T V +L A + + +   G+ +H     +  +     V  A
Sbjct: 208 AFALFREMWEDGSDAEPR--TFVVMLRASAGLGSARAGQQLHC-CVLKTGVVGDTFVSCA 264

Query: 252 VINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPD 311
           +I+MY KCGD+  A  VF+ +  K  ++W+++++G A++G   +AL L+  M  + V  D
Sbjct: 265 LIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSID 324

Query: 312 DVTFIALISACS-----------HGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGR 360
             TF  +I   S           H GL+  G  L        +IV        +VD+Y +
Sbjct: 325 QFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPL--------DIVAN----TALVDLYSK 372

Query: 361 AGLLEEAEAFIREMPIEAEWSVWGALLNACRIH-RND---EMFDRI 402
            G +E+A      MP +   S W AL+     H R     EMF+R+
Sbjct: 373 WGRMEDARNVFDRMPRKNLIS-WNALIAGYGNHGRGTKAVEMFERM 417

Length = 697

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

 Score = 63.7 bits (155), Expect = 1e-10
 Identities = 41/114 (35%), Positives = 55/114 (48%), Gaps = 4/114 (3%)

Query: 9   NHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIF 68
           N  T   AL AC+         EIHAHV+  G   D F+ N+LL  YV    +  A   F
Sbjct: 488 NSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQF 547

Query: 69  NSVVFPDVVSWTTIISGLSKCGFHKEAIDMF---CGIDVKPNANTLVSVLSACS 119
           NS    DVVSW  +++G    G    A+++F       V P+  T +S+L ACS
Sbjct: 548 NSHE-KDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACS 600

Length = 857

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

 Score = 47.4 bits (114), Expect = 1e-07
 Identities = 16/40 (40%), Positives = 28/40 (70%), Gaps = 1/40 (2%)

Query: 173 NVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEAT 212
           +VV++ T+I GY ++G  +EA+ +F EM+K +  +PN  T
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKK-RGIKPNVYT 40

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 = 52.6 bits (126), Expect = 3e-07
 Identities = 63/292 (21%), Positives = 123/292 (42%), Gaps = 31/292 (10%)

Query: 177 WTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISAL--SFGKYVHS 234
           +TT+I   A+ G       VF EM      E N  T   ++  C+    +  +FG Y   
Sbjct: 475 YTTLISTCAKSGKVDAMFEVFHEMVNA-GVEANVHTFGALIDGCARAGQVAKAFGAY--- 530

Query: 235 YISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLA---------YKDKISWSTVIS 285
            I    ++    +V NA+I+    CG  G   + F++LA           D I+   ++ 
Sbjct: 531 GIMRSKNVKPDRVVFNALIS---ACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMK 587

Query: 286 GLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIV 345
             A  G   +A +++ ++    +      +   +++CS  G  D  L ++  M     + 
Sbjct: 588 ACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDM-KKKGVK 646

Query: 346 PQMQHYACVVDMYGRAGLLEEAEAFIREMPIE-------AEWSVWGALLNACRIHRNDEM 398
           P    ++ +VD+ G AG L++A   +++   +       +  S+ GA  NA    +  E+
Sbjct: 647 PDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALEL 706

Query: 399 FDRIRQDLVNKKGVSVGTF-ALMSNTFAGADRWEDTNKIRDEIRRMGLKKKT 449
           ++ I+     K   +V T  AL++      ++     ++  E++R+GL   T
Sbjct: 707 YEDIKS---IKLRPTVSTMNALIT-ALCEGNQLPKALEVLSEMKRLGLCPNT 754

Length = 1060

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

 Score = 45.5 bits (109), Expect = 7e-07
 Identities = 14/50 (28%), Positives = 25/50 (50%)

Query: 275 KDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSH 324
            D ++++T+I G    G   +AL+LF+ M    + P+  T+  LI     
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 = 42.8 bits (102), Expect = 6e-06
 Identities = 16/48 (33%), Positives = 25/48 (52%), Gaps = 3/48 (6%)

Query: 74  PDVVSWTTIISGLSKCGFHKEAIDMF---CGIDVKPNANTLVSVLSAC 118
           PDVV++ T+I G  K G  +EA+ +F       +KPN  T   ++   
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 40.5 bits (96), Expect = 3e-05
 Identities = 10/28 (35%), Positives = 21/28 (75%)

Query: 175 VSWTTMIGGYAERGFCKEAVSVFQEMEK 202
           V++ ++I GY + G  +EA+ +F+EM++
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKE 28

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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 42.6 bits (100), Expect = 4e-04
 Identities = 58/294 (19%), Positives = 108/294 (36%), Gaps = 81/294 (27%)

Query: 49  NSLLHFYVTVKDIFSAHQIFNSV----VFPDVVSWTTIISGLSKCGFHKEAIDMFCGID- 103
           N L+    + +DI  A ++   V    +  D   +TT+IS  +K G      ++F  +  
Sbjct: 441 NMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVN 500

Query: 104 --VKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLAS 161
             V+ N +T  +++  C+   + ++ KA  A+                            
Sbjct: 501 AGVEANVHTFGALIDGCAR--AGQVAKAFGAY---------------------------- 530

Query: 162 CGYLFVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEME-KTKEAEPNEATLVNVLSAC 220
            G +  K  K + V +  +I    + G    A  V  EM+ +T   +P+  T+  ++ AC
Sbjct: 531 -GIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKAC 589

Query: 221 SSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISW 280
                                                  G V  A +V+ M+ ++  I  
Sbjct: 590 ------------------------------------ANAGQVDRAKEVYQMI-HEYNIKG 612

Query: 281 STVISGLAMNGCGRQ-----ALQLFSLMIINAVFPDDVTFIALISACSHGGLVD 329
           +  +  +A+N C ++     AL ++  M    V PD+V F AL+    H G +D
Sbjct: 613 TPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLD 666

Length = 1060

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

 Score = 36.9 bits (87), Expect = 5e-04
 Identities = 14/34 (41%), Positives = 19/34 (55%)

Query: 168 KMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEME 201
           K  K +VV++ T+I G    G   EAV +  EME
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 41.0 bits (96), Expect = 0.001
 Identities = 26/100 (26%), Positives = 47/100 (47%), Gaps = 8/100 (8%)

Query: 296 ALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVV 355
           AL++  L+    +  D   +  LIS C+  G VD    +F  M     +   +  +  ++
Sbjct: 456 ALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMV-NAGVEANVHTFGALI 514

Query: 356 DMYGRAGLLEEAEAF-----IREMPIEAEWSVWGALLNAC 390
           D   RAG +  A+AF     +R   ++ +  V+ AL++AC
Sbjct: 515 DGCARAGQV--AKAFGAYGIMRSKNVKPDRVVFNALISAC 552

Length = 1060

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

 Score = 35.8 bits (84), Expect = 0.001
 Identities = 11/28 (39%), Positives = 19/28 (67%)

Query: 72 VFPDVVSWTTIISGLSKCGFHKEAIDMF 99
          + PDVV++ T+I GL + G   EA+++ 
Sbjct: 3  LKPDVVTYNTLIDGLCRAGRVDEAVELL 30

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

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

 Score = 35.1 bits (82), Expect = 0.004
 Identities = 13/49 (26%), Positives = 26/49 (53%), Gaps = 4/49 (8%)

Query: 44 DIFIQNSLLHFYVTVKDIFSAHQIFNSV----VFPDVVSWTTIISGLSK 88
          D+   N+L+  Y     +  A ++FN +    + P+V +++ +I GL K
Sbjct: 2  DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	461
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	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.93
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.93
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.92
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.91
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.91
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.91
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.89
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.89
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.88
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.87
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.87
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.86
PRK14574	822	hmsH outer membrane protein; Provisional	99.86
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.83
PRK14574	822	hmsH outer membrane protein; Provisional	99.82
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.81
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.78
KOG2003	840	consensus TPR repeat-containing protein [General f	99.77
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.77
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.75
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.69
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.68
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.68
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.67
KOG2076	895	consensus RNA polymerase III transcription factor	99.66
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.66
KOG2076	895	consensus RNA polymerase III transcription factor	99.66
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.65
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.63
KOG2003	840	consensus TPR repeat-containing protein [General f	99.62
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.61
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.6
KOG1126	638	consensus DNA-binding cell division cycle control	99.6
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.6
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.6
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.59
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.59
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.58
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.57
KOG1126	638	consensus DNA-binding cell division cycle control	99.56
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.54
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.52
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.52
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.49
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.48
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.46
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.44
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.44
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.44
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.41
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.4
PF13041	50	PPR_2: PPR repeat family	99.39
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.38
PF13041	50	PPR_2: PPR repeat family	99.37
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.36
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.36
PRK12370	553	invasion protein regulator; Provisional	99.35
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.34
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.33
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.32
KOG1129	478	consensus TPR repeat-containing protein [General f	99.3
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.29
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.28
PRK12370	553	invasion protein regulator; Provisional	99.24
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.22
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.22
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.2
PRK11189	296	lipoprotein NlpI; Provisional	99.18
KOG1129	478	consensus TPR repeat-containing protein [General f	99.18
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.17
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.16
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.14
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.14
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.13
PRK11189	296	lipoprotein NlpI; Provisional	99.11
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.1
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.06
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.05
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.04
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.03
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.94
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.93
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.93
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.93
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.93
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.92
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.92
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.92
PRK04841	903	transcriptional regulator MalT; Provisional	98.9
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.9
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.88
PF12854	34	PPR_1: PPR repeat	98.87
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.85
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.82
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.82
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.81
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.81
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.81
KOG1125	579	consensus TPR repeat-containing protein [General f	98.81
KOG1125	579	consensus TPR repeat-containing protein [General f	98.8
PF12854	34	PPR_1: PPR repeat	98.79
PRK04841	903	transcriptional regulator MalT; Provisional	98.78
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.72
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.7
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.69
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.62
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.62
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.6
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.59
PRK15359	144	type III secretion system chaperone protein SscB;	98.59
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.59
PRK15359	144	type III secretion system chaperone protein SscB;	98.58
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.57
PLN02789	320	farnesyltranstransferase	98.55
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.55
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.54
PLN02789	320	farnesyltranstransferase	98.51
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.47
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.47
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.43
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.41
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.4
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.38
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.35
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.34
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.33
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.33
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.33
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.26
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.26
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.26
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.25
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.22
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.17
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.14
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.13
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	98.13
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.12
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.1
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.06
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	98.04
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.04
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.03
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.0
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.96
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.94
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.91
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.89
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.88
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.86
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.85
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.84
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.84
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.84
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.84
KOG0553	304	consensus TPR repeat-containing protein [General f	97.8
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.8
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.79
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.74
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.74
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.73
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.72
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.72
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.71
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.7
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.69
KOG0553	304	consensus TPR repeat-containing protein [General f	97.67
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.64
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.63
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.63
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.62
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.62
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.6
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.6
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.59
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.58
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.56
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.53
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.49
PF13371	73	TPR_9: Tetratricopeptide repeat	97.48
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.46
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.45
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.42
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.41
PF12688	120	TPR_5: Tetratrico peptide repeat	97.41
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.41
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.4
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.39
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	97.38
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.37
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.28
PRK10803	263	tol-pal system protein YbgF; Provisional	97.26
PF12688	120	TPR_5: Tetratrico peptide repeat	97.26
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.26
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.24
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.19
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.18
PRK15331	165	chaperone protein SicA; Provisional	97.13
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.11
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.11
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.05
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.01
PRK10803	263	tol-pal system protein YbgF; Provisional	96.92
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.92
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.9
PF13431	34	TPR_17: Tetratricopeptide repeat	96.89
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.83
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.81
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.76
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.66
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.65
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.65
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.53
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.52
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	96.51
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.49
PF13371	73	TPR_9: Tetratricopeptide repeat	96.47
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.47
PF13428	44	TPR_14: Tetratricopeptide repeat	96.44
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	96.26
KOG1585	308	consensus Protein required for fusion of vesicles	96.2
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.17
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	96.14
KOG1258	577	consensus mRNA processing protein [RNA processing	96.13
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.13
PRK11619	644	lytic murein transglycosylase; Provisional	96.1
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.08
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.93
KOG1585	308	consensus Protein required for fusion of vesicles	95.86
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.79
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.78
KOG3941	406	consensus Intermediate in Toll signal transduction	95.77
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.74
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	95.72
KOG1941	518	consensus Acetylcholine receptor-associated protei	95.64
KOG4555	175	consensus TPR repeat-containing protein [Function	95.62
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.61
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	95.54
KOG2610	491	consensus Uncharacterized conserved protein [Funct	95.52
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.46
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.35
COG4105	254	ComL DNA uptake lipoprotein [General function pred	95.27
COG3118	304	Thioredoxin domain-containing protein [Posttransla	95.26
KOG4555	175	consensus TPR repeat-containing protein [Function	95.19
PRK15331	165	chaperone protein SicA; Provisional	95.1
COG3629	280	DnrI DNA-binding transcriptional activator of the	95.0
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	94.96
PF13512	142	TPR_18: Tetratricopeptide repeat	94.93
KOG1258	577	consensus mRNA processing protein [RNA processing	94.89
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.83
PF13512	142	TPR_18: Tetratricopeptide repeat	94.77
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	94.76
KOG1941	518	consensus Acetylcholine receptor-associated protei	94.71
PRK11906	458	transcriptional regulator; Provisional	94.7
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	94.64
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.61
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.48
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	94.41
COG4105	254	ComL DNA uptake lipoprotein [General function pred	94.34
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	94.3
KOG3941	406	consensus Intermediate in Toll signal transduction	94.28
COG3118	304	Thioredoxin domain-containing protein [Posttransla	94.15
COG0457	291	NrfG FOG: TPR repeat [General function prediction	94.1
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	93.98
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	93.89
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	93.84
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	93.8
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	93.8
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	93.74
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	93.74
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	93.73
KOG2610	491	consensus Uncharacterized conserved protein [Funct	93.7
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	93.64
PF13428	44	TPR_14: Tetratricopeptide repeat	93.4
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	93.29
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	93.28
COG0457	291	NrfG FOG: TPR repeat [General function prediction	93.26
KOG4234	271	consensus TPR repeat-containing protein [General f	93.22
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	93.2
PRK11906	458	transcriptional regulator; Provisional	93.19
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	93.08
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	92.81
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	92.71
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	92.5
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	92.26
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	92.1
COG3629	280	DnrI DNA-binding transcriptional activator of the	92.04
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	91.87
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	91.85
PRK09687	280	putative lyase; Provisional	91.78
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	91.77
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	91.73
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	91.71
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	91.47
PF13431	34	TPR_17: Tetratricopeptide repeat	91.42
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	91.37
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	91.35
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	91.33
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	91.32
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	91.27
KOG4570	418	consensus Uncharacterized conserved protein [Funct	91.23
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	91.14
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	90.87
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	90.75
PRK11619	644	lytic murein transglycosylase; Provisional	90.5
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	90.44
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	90.37
KOG4648	536	consensus Uncharacterized conserved protein, conta	90.31
KOG0403	645	consensus Neoplastic transformation suppressor Pdc	90.09
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	89.87
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	89.81
PRK09687	280	putative lyase; Provisional	89.8
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	89.74
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	89.54
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	89.27
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	89.16
KOG4234	271	consensus TPR repeat-containing protein [General f	89.14
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	88.79
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	88.59
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	88.21
KOG1586	288	consensus Protein required for fusion of vesicles	88.14
KOG1550	552	consensus Extracellular protein SEL-1 and related	88.13
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	87.67
KOG4648	536	consensus Uncharacterized conserved protein, conta	87.59
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	87.2
COG3947	361	Response regulator containing CheY-like receiver a	86.34
COG3947	361	Response regulator containing CheY-like receiver a	85.7
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	85.42
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	85.24
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	84.24
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	83.7
PHA02875	413	ankyrin repeat protein; Provisional	82.84
KOG4570	418	consensus Uncharacterized conserved protein [Funct	82.64
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	81.79
COG1747	711	Uncharacterized N-terminal domain of the transcrip	81.59
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	81.35
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	81.16
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	80.38
cd08819	88	CARD_MDA5_2 Caspase activation and recruitment dom	80.11

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

Probab=100.00  E-value=3.3e-77  Score=584.62  Aligned_cols=455  Identities=29%  Similarity=0.549  Sum_probs=448.2

Q ss_pred             CCCCCcchHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCceeHHHHHH
Q 038303            5 PSSYNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWTTIIS   84 (461)
Q Consensus         5 g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~   84 (461)
                      ++.||..+|+.++.+|++.++++.+.+++..|.+.|+.|+..+|+.|+.+|++.|+++.|.++|++|..||..+||++|.
T Consensus       118 ~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~  197 (697)
T PLN03081        118 PFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIG  197 (697)
T ss_pred             CCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHH
Confidence            57899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHcCCChHHHHHHHhcC---CCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhh
Q 038303           85 GLSKCGFHKEAIDMFCGI---DVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLAS  161 (461)
Q Consensus        85 ~~~~~~~~~~a~~~~~~m---~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  161 (461)
                      +|++.|++++|+++|++|   |..||..||+.++.+|++.|+.+.+.+++..+.+.|..||..+|++|+++|++.|++++
T Consensus       198 ~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~  277 (697)
T PLN03081        198 GLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIED  277 (697)
T ss_pred             HHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHH
Confidence            999999999999999999   99999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcC
Q 038303          162 CGYLFVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYD  241 (461)
Q Consensus       162 a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~  241 (461)
                      |.++|++|.++|..+||+||.+|++.|++++|.++|++|.+.| +.||..||+.++.+|++.|+++.|.+++..+.+ .|
T Consensus       278 A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g-~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~-~g  355 (697)
T PLN03081        278 ARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSG-VSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIR-TG  355 (697)
T ss_pred             HHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHhccchHHHHHHHHHHHH-hC
Confidence            9999999999999999999999999999999999999999999 999999999999999999999999999999999 89


Q ss_pred             CCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHH
Q 038303          242 LSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISA  321 (461)
Q Consensus       242 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~  321 (461)
                      +.|+..+++.|+.+|++.|++++|.++|++|.++|..+||+||.+|++.|+.++|+++|++|.+.|+.||..||+.++.+
T Consensus       356 ~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a  435 (697)
T PLN03081        356 FPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSA  435 (697)
T ss_pred             CCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCchhhHHHHHHHHHHhcCChHHHHH
Q 038303          322 CSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDR  401 (461)
Q Consensus       322 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  401 (461)
                      |++.|.+++|.++|+.|.+..|+.|+..+|+.++++|++.|++++|.+++++|+..|+..+|++++.+|...|+.+.|..
T Consensus       436 ~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~  515 (697)
T PLN03081        436 CRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRL  515 (697)
T ss_pred             HhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHH
Confidence            99999999999999999886899999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcCCccccCccccccCCCCC
Q 038303          402 IRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGLKKKTGCSWIEVNPSIF  461 (461)
Q Consensus       402 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~~~~~~~  461 (461)
                      +++++.+..|.+..+|..++.+|++.|++++|.+++++|.++|+++.|+++|+++++.+|
T Consensus       516 ~~~~l~~~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~k~~g~s~i~~~~~~~  575 (697)
T PLN03081        516 AAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPACTWIEVKKQDH  575 (697)
T ss_pred             HHHHHhCCCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHcCCccCCCeeEEEECCeEE
Confidence            999999999999999999999999999999999999999999999999999999998875

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.5e-75  Score=586.22  Aligned_cols=457  Identities=36%  Similarity=0.673  Sum_probs=448.6

Q ss_pred             CCCCCCCCCcchHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCceeHH
Q 038303            1 MLSCPSSYNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWT   80 (461)
Q Consensus         1 M~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~   80 (461)
                      |++.|+.||..||+.++.+|++.|+++.|.+++..|.+.|+.||..+|++|+.+|++.|++++|.++|++|..||..+||
T Consensus       279 M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n  358 (857)
T PLN03077        279 MRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWT  358 (857)
T ss_pred             HHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHH
Confidence            56789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHcCCChHHHHHHHhcC---CCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcC
Q 038303           81 TIISGLSKCGFHKEAIDMFCGI---DVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCG  157 (461)
Q Consensus        81 ~li~~~~~~~~~~~a~~~~~~m---~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  157 (461)
                      ++|.+|++.|++++|+++|++|   ++.||..||+.++.+|++.|+++.|.++++.+.+.|+.|+..+|++|+++|++.|
T Consensus       359 ~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g  438 (857)
T PLN03077        359 AMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCK  438 (857)
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcC
Confidence            9999999999999999999999   9999999999999999999999999999999999999999999999999999999


Q ss_pred             ChhhHHHHHhcCCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHH
Q 038303          158 SLASCGYLFVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYIS  237 (461)
Q Consensus       158 ~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~  237 (461)
                      ++++|.++|++|.++|..+|+.+|.+|++.|+.++|+.+|++|.. + ++||..||+.++.+|++.|+++.+.+++..+.
T Consensus       439 ~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~-~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~  516 (857)
T PLN03077        439 CIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-T-LKPNSVTLIAALSACARIGALMCGKEIHAHVL  516 (857)
T ss_pred             CHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-C-CCCCHhHHHHHHHHHhhhchHHHhHHHHHHHH
Confidence            999999999999999999999999999999999999999999986 4 99999999999999999999999999999999


Q ss_pred             hhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHH
Q 038303          238 TRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIA  317 (461)
Q Consensus       238 ~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~  317 (461)
                      + .|+.++..++++|+.+|++.|++++|.++|+.+ .+|..+||++|.+|++.|+.++|+++|++|.+.|+.||..||+.
T Consensus       517 ~-~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~-~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~  594 (857)
T PLN03077        517 R-TGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFIS  594 (857)
T ss_pred             H-hCCCccceechHHHHHHHHcCCHHHHHHHHHhc-CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHH
Confidence            9 899999999999999999999999999999999 89999999999999999999999999999999999999999999


Q ss_pred             HHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCchhhHHHHHHHHHHhcCChH
Q 038303          318 LISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDE  397 (461)
Q Consensus       318 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  397 (461)
                      ++.+|++.|++++|.++|+.|.+..|+.|+..+|+.++.+|++.|++++|.+++++|+.+||..+|++|+.+|..+|+.+
T Consensus       595 ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m~~~pd~~~~~aLl~ac~~~~~~e  674 (857)
T PLN03077        595 LLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVE  674 (857)
T ss_pred             HHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChH
Confidence            99999999999999999999996589999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcCCccccCccccccCCCCC
Q 038303          398 MFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGLKKKTGCSWIEVNPSIF  461 (461)
Q Consensus       398 ~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~~~~~~~  461 (461)
                      .++...+++.+..|.+...|..+...|.+.|+|++|.++.+.|+++|++++|++|||++++++|
T Consensus       675 ~~e~~a~~l~~l~p~~~~~y~ll~n~ya~~g~~~~a~~vr~~M~~~g~~k~~g~s~ie~~~~~~  738 (857)
T PLN03077        675 LGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEVKGKVH  738 (857)
T ss_pred             HHHHHHHHHHhhCCCCcchHHHHHHHHHHCCChHHHHHHHHHHHHcCCCCCCCccEEEECCEEE
Confidence            9999999999999999999999999999999999999999999999999999999999999876

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=2.5e-70  Score=548.58  Aligned_cols=450  Identities=27%  Similarity=0.445  Sum_probs=419.7

Q ss_pred             CCCCCCCCCcchHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCceeHH
Q 038303            1 MLSCPSSYNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWT   80 (461)
Q Consensus         1 M~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~   80 (461)
                      |.+.|+.||..||+.++++|+..+++..+.+++..|.+.|+.|+..+|++|+.+|++.|++++|.++|++|..||..+||
T Consensus       178 M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n  257 (857)
T PLN03077        178 MLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWN  257 (857)
T ss_pred             HHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhH
Confidence            44557777777777777777777777777777777777777778888899999999999999999999999999999999


Q ss_pred             HHHHHHHcCCChHHHHHHHhcC---CCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcC
Q 038303           81 TIISGLSKCGFHKEAIDMFCGI---DVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCG  157 (461)
Q Consensus        81 ~li~~~~~~~~~~~a~~~~~~m---~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  157 (461)
                      ++|.+|++.|++++|+++|++|   |+.||..||+.++.+|++.|+.+.+.+++..+.+.|+.||..+||+|+.+|++.|
T Consensus       258 ~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g  337 (857)
T PLN03077        258 AMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLG  337 (857)
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcC
Confidence            9999999999999999999999   9999999999999999999999999999999999999999999999999999999


Q ss_pred             ChhhHHHHHhcCCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHH
Q 038303          158 SLASCGYLFVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYIS  237 (461)
Q Consensus       158 ~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~  237 (461)
                      ++++|.++|++|.+||..+||++|.+|++.|++++|+++|++|.+.| +.||..||+.++.+|++.|+++.+.++++.+.
T Consensus       338 ~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g-~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~  416 (857)
T PLN03077        338 SWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDN-VSPDEITIASVLSACACLGDLDVGVKLHELAE  416 (857)
T ss_pred             CHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CCCCceeHHHHHHHHhccchHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999 99999999999999999999999999999999


Q ss_pred             hhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHH
Q 038303          238 TRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIA  317 (461)
Q Consensus       238 ~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~  317 (461)
                      + .|+.|+..+++.|+.+|++.|++++|.++|++|.++|..+|+.+|.+|++.|+.++|+.+|++|.. ++.||..||+.
T Consensus       417 ~-~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~  494 (857)
T PLN03077        417 R-KGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIA  494 (857)
T ss_pred             H-hCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHH
Confidence            9 899999999999999999999999999999999999999999999999999999999999999986 59999999999


Q ss_pred             HHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCchhhHHHHHHHHHHhcCChH
Q 038303          318 LISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDE  397 (461)
Q Consensus       318 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  397 (461)
                      ++.+|++.|+++.+.+++..+.+ .|+.++..++++|+.+|++.|++++|.++|+++  .||..+|++++.+|++.|+.+
T Consensus       495 lL~a~~~~g~l~~~~~i~~~~~~-~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~--~~d~~s~n~lI~~~~~~G~~~  571 (857)
T PLN03077        495 ALSACARIGALMCGKEIHAHVLR-TGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH--EKDVVSWNILLTGYVAHGKGS  571 (857)
T ss_pred             HHHHHhhhchHHHhHHHHHHHHH-hCCCccceechHHHHHHHHcCCHHHHHHHHHhc--CCChhhHHHHHHHHHHcCCHH
Confidence            99999999999999999999998 799999999999999999999999999999998  789999999999999999999


Q ss_pred             HHHHHHHHHhh-cCCCChhHHHHHHHHHhccCChhhHHHHHHHHH-HcCCccccCcccccc
Q 038303          398 MFDRIRQDLVN-KKGVSVGTFALMSNTFAGADRWEDTNKIRDEIR-RMGLKKKTGCSWIEV  456 (461)
Q Consensus       398 ~a~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~-~~g~~~~~~~~~~~~  456 (461)
                      +|.++|++|.+ +..||..+|..++.+|.+.|++++|.++|++|. +.|+.|+..++..+|
T Consensus       572 ~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv  632 (857)
T PLN03077        572 MAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVV  632 (857)
T ss_pred             HHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHH
Confidence            99999999887 457888899999999999999999999999998 678988876554433

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=5.9e-67  Score=515.02  Aligned_cols=438  Identities=15%  Similarity=0.215  Sum_probs=414.8

Q ss_pred             CCcchHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCC----CCCceeHHHHH
Q 038303            8 YNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVV----FPDVVSWTTII   83 (461)
Q Consensus         8 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~li   83 (461)
                      ||..+|+.+|.+|++.|+++.|.++|+.|.+.|+.||..+|+.||.+|++.|++++|.++|++|.    .||..+|+.+|
T Consensus       435 pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI  514 (1060)
T PLN03218        435 PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALI  514 (1060)
T ss_pred             CCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            89999999999999999999999999999999999999999999999999999999999999994    69999999999


Q ss_pred             HHHHcCCChHHHHHHHhcC---CCCCCchhHHHHHHHhcccchhHHHHHHHHHHHh--hcCCCChhHHHHHHHHHHHcCC
Q 038303           84 SGLSKCGFHKEAIDMFCGI---DVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLR--NLNENNIILDNAILDFYIRCGS  158 (461)
Q Consensus        84 ~~~~~~~~~~~a~~~~~~m---~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~g~  158 (461)
                      .+|++.|++++|+++|++|   ++.||..+|+.+|.+|++.|++++|.++|++|.+  .|+.||..+|++++.+|++.|+
T Consensus       515 ~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~  594 (1060)
T PLN03218        515 DGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQ  594 (1060)
T ss_pred             HHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCC
Confidence            9999999999999999999   9999999999999999999999999999999986  6789999999999999999999


Q ss_pred             hhhHHHHHhcCCC----CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHH
Q 038303          159 LASCGYLFVKMPK----RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHS  234 (461)
Q Consensus       159 ~~~a~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~  234 (461)
                      +++|.++|++|.+    |+..+|+.+|.+|++.|++++|.++|++|.+.| +.||..||+.++.+|++.|+++.|.++++
T Consensus       595 ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~G-v~PD~~TynsLI~a~~k~G~~eeA~~l~~  673 (1060)
T PLN03218        595 VDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKG-VKPDEVFFSALVDVAGHAGDLDKAFEILQ  673 (1060)
T ss_pred             HHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            9999999999985    778999999999999999999999999999999 99999999999999999999999999999


Q ss_pred             HHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHcc----CCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC
Q 038303          235 YISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLA----YKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFP  310 (461)
Q Consensus       235 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p  310 (461)
                      .|.+ .|+.|+..+|+.||.+|++.|++++|.++|++|.    .||..+|+.||.+|++.|++++|.++|++|.+.|+.|
T Consensus       674 eM~k-~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~P  752 (1060)
T PLN03218        674 DARK-QGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCP  752 (1060)
T ss_pred             HHHH-cCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCC
Confidence            9999 8999999999999999999999999999999995    6899999999999999999999999999999999999


Q ss_pred             CHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhh----c-------------------CCHHHH
Q 038303          311 DDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGR----A-------------------GLLEEA  367 (461)
Q Consensus       311 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~-------------------g~~~~A  367 (461)
                      |..||+.++.+|++.|+++.|.++|+.|.+ .|+.||..+|+.++..|.+    +                   +..+.|
T Consensus       753 d~~Ty~sLL~a~~k~G~le~A~~l~~~M~k-~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~A  831 (1060)
T PLN03218        753 NTITYSILLVASERKDDADVGLDLLSQAKE-DGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWA  831 (1060)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHH
Confidence            999999999999999999999999999999 8999999999999876432    1                   124679


Q ss_pred             HHHHHhC---CCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhh-cCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHc
Q 038303          368 EAFIREM---PIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVN-KKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRM  443 (461)
Q Consensus       368 ~~~~~~~---~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  443 (461)
                      ..+|++|   ++.||..+|+.++.++.+.+..+.+..+++.+.. ..+++..+|+.++.++.+.  .++|..++++|...
T Consensus       832 l~lf~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~~--~~~A~~l~~em~~~  909 (1060)
T PLN03218        832 LMVYRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEY--DPRAFSLLEEAASL  909 (1060)
T ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhccC--hHHHHHHHHHHHHc
Confidence            9999999   8899999999999888888999999999988775 5688899999999998432  36899999999999


Q ss_pred             CCccccC
Q 038303          444 GLKKKTG  450 (461)
Q Consensus       444 g~~~~~~  450 (461)
                      |+.|+..
T Consensus       910 Gi~p~~~  916 (1060)
T PLN03218        910 GVVPSVS  916 (1060)
T ss_pred             CCCCCcc
Confidence            9999986

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=6.8e-67  Score=514.62  Aligned_cols=448  Identities=13%  Similarity=0.158  Sum_probs=423.7

Q ss_pred             CCCCcchHHHHHHHHHhhCCHHHHHHHHHHHHHhCC-CccHHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCceeHHHHHH
Q 038303            6 SSYNHYTFTQALKACSLAHPHQKALEIHAHVIEYGH-LHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWTTIIS   84 (461)
Q Consensus         6 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~   84 (461)
                      -.++...|..++..|++.|++++|+++|++|.+.|+ .++..+++.++..|.+.|.+++|..+|+.|..||..+|+.++.
T Consensus       366 ~~~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~pd~~Tyn~LL~  445 (1060)
T PLN03218        366 GKRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRNPTLSTFNMLMS  445 (1060)
T ss_pred             CCCCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            456788899999999999999999999999999986 4678888899999999999999999999999999999999999


Q ss_pred             HHHcCCChHHHHHHHhcC---CCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhh
Q 038303           85 GLSKCGFHKEAIDMFCGI---DVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLAS  161 (461)
Q Consensus        85 ~~~~~~~~~~a~~~~~~m---~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  161 (461)
                      +|++.|++++|.++|++|   |+.||..+|+.+|.+|++.|+++.|.++|++|.+.|+.||..+|+.+|.+|++.|++++
T Consensus       446 a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~ee  525 (1060)
T PLN03218        446 VCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAK  525 (1060)
T ss_pred             HHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHH
Confidence            999999999999999999   99999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCCC----CchhHHHHHHHHHHhcCChHHHHHHHHHHHh--cCCCCCChhhHHHHHHHhhccchhhhHHHHHHH
Q 038303          162 CGYLFVKMPK----RNVVSWTTMIGGYAERGFCKEAVSVFQEMEK--TKEAEPNEATLVNVLSACSSISALSFGKYVHSY  235 (461)
Q Consensus       162 a~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~  235 (461)
                      |.++|++|.+    ||..+|+.||.+|++.|++++|.++|++|..  .| +.||..+|+.++.+|++.|++++|.++|+.
T Consensus       526 Al~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~g-i~PD~vTynaLI~ay~k~G~ldeA~elf~~  604 (1060)
T PLN03218        526 AFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHP-IDPDHITVGALMKACANAGQVDRAKEVYQM  604 (1060)
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCC-CCCcHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            9999999964    9999999999999999999999999999986  45 899999999999999999999999999999


Q ss_pred             HHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHcc----CCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC
Q 038303          236 ISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLA----YKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPD  311 (461)
Q Consensus       236 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~  311 (461)
                      |.+ .++.|+..+|+.+|.+|++.|++++|.++|++|.    .||..+|+.++.+|++.|++++|.+++++|.+.|+.||
T Consensus       605 M~e-~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd  683 (1060)
T PLN03218        605 IHE-YNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLG  683 (1060)
T ss_pred             HHH-cCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCC
Confidence            999 8999999999999999999999999999999998    46899999999999999999999999999999999999


Q ss_pred             HhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC---CCCchhhHHHHHHH
Q 038303          312 DVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM---PIEAEWSVWGALLN  388 (461)
Q Consensus       312 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~---~~~p~~~~~~~l~~  388 (461)
                      ..+|+.+|.+|++.|++++|.++|++|.. .|+.||..+|+.||.+|++.|++++|.++|++|   +..||..+|+.++.
T Consensus       684 ~~tynsLI~ay~k~G~~eeA~~lf~eM~~-~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~  762 (1060)
T PLN03218        684 TVSYSSLMGACSNAKNWKKALELYEDIKS-IKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLV  762 (1060)
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            99999999999999999999999999998 799999999999999999999999999999999   78899999999999


Q ss_pred             HHHhcCChHHHHHHHHHHhh-cCCCChhHHHHHHHHHhc----cC-------------------ChhhHHHHHHHHHHcC
Q 038303          389 ACRIHRNDEMFDRIRQDLVN-KKGVSVGTFALMSNTFAG----AD-------------------RWEDTNKIRDEIRRMG  444 (461)
Q Consensus       389 ~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~l~~~~~~----~g-------------------~~~~A~~~~~~m~~~g  444 (461)
                      +|++.|+.+.|.+++++|.+ +..|+..+|+.++..|.+    ++                   ..++|..+|++|.+.|
T Consensus       763 a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~~~G  842 (1060)
T PLN03218        763 ASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETISAG  842 (1060)
T ss_pred             HHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHHHHCC
Confidence            99999999999999999998 558899999999865432    11                   2367999999999999


Q ss_pred             CccccCcccccc
Q 038303          445 LKKKTGCSWIEV  456 (461)
Q Consensus       445 ~~~~~~~~~~~~  456 (461)
                      +.|+..+...++
T Consensus       843 i~Pd~~T~~~vL  854 (1060)
T PLN03218        843 TLPTMEVLSQVL  854 (1060)
T ss_pred             CCCCHHHHHHHH
Confidence            999987766554

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

Probab=100.00  E-value=5.1e-59  Score=456.37  Aligned_cols=427  Identities=13%  Similarity=0.112  Sum_probs=403.0

Q ss_pred             CCCCcchHHHHHHHHHhhCCHHHHHHHHHHHHHhC-CCccHHHHHHHHHHHHhcCCHHHHHHHHhhC----CCCCceeHH
Q 038303            6 SSYNHYTFTQALKACSLAHPHQKALEIHAHVIEYG-HLHDIFIQNSLLHFYVTVKDIFSAHQIFNSV----VFPDVVSWT   80 (461)
Q Consensus         6 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~   80 (461)
                      ..++..+++.+|..+.+.|++++|+++|+.|.+.+ +.|+..+|+.++.+|++.++++.|.+++..|    ..||..+||
T Consensus        83 ~~~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n  162 (697)
T PLN03081         83 IRKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMN  162 (697)
T ss_pred             CCCCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHH
Confidence            34466789999999999999999999999999864 7899999999999999999999999999988    469999999


Q ss_pred             HHHHHHHcCCChHHHHHHHhcCCCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChh
Q 038303           81 TIISGLSKCGFHKEAIDMFCGIDVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLA  160 (461)
Q Consensus        81 ~li~~~~~~~~~~~a~~~~~~m~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  160 (461)
                      .++.+|++.|++++|.++|++| ..||..+|+.++.+|++.|++++|.++|++|.+.|+.|+..+|+.++.++++.|+.+
T Consensus       163 ~Li~~y~k~g~~~~A~~lf~~m-~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~  241 (697)
T PLN03081        163 RVLLMHVKCGMLIDARRLFDEM-PERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSAR  241 (697)
T ss_pred             HHHHHHhcCCCHHHHHHHHhcC-CCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHH
Confidence            9999999999999999999999 469999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHhcCCC----CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHH
Q 038303          161 SCGYLFVKMPK----RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYI  236 (461)
Q Consensus       161 ~a~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~  236 (461)
                      .+.+++..+.+    +|..+||+||.+|++.|++++|.++|++|     .++|..+|+.++.+|++.|+.++|..+|++|
T Consensus       242 ~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m-----~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M  316 (697)
T PLN03081        242 AGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGM-----PEKTTVAWNSMLAGYALHGYSEEALCLYYEM  316 (697)
T ss_pred             HHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhC-----CCCChhHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            99999887764    89999999999999999999999999999     4578999999999999999999999999999


Q ss_pred             HhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHcc----CCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH
Q 038303          237 STRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLA----YKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDD  312 (461)
Q Consensus       237 ~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~  312 (461)
                      .+ .|+.||..+|+.++.+|++.|++++|.+++..|.    .+|..+|++++.+|++.|++++|.++|++|.    .||.
T Consensus       317 ~~-~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~----~~d~  391 (697)
T PLN03081        317 RD-SGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP----RKNL  391 (697)
T ss_pred             HH-cCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCC----CCCe
Confidence            98 8999999999999999999999999999999987    4688999999999999999999999999995    4799


Q ss_pred             hHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC----CCCchhhHHHHHHH
Q 038303          313 VTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM----PIEAEWSVWGALLN  388 (461)
Q Consensus       313 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~p~~~~~~~l~~  388 (461)
                      .+|+.+|.+|++.|+.++|.++|++|.+ .|+.||..||+.++.+|++.|..++|.++|+.|    ++.|+..+|+.++.
T Consensus       392 ~t~n~lI~~y~~~G~~~~A~~lf~~M~~-~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~  470 (697)
T PLN03081        392 ISWNALIAGYGNHGRGTKAVEMFERMIA-EGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIE  470 (697)
T ss_pred             eeHHHHHHHHHHcCCHHHHHHHHHHHHH-hCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHH
Confidence            9999999999999999999999999998 799999999999999999999999999999999    67899999999999


Q ss_pred             HHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcCCccc
Q 038303          389 ACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGLKKK  448 (461)
Q Consensus       389 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~~~  448 (461)
                      +|.+.|+.++|.++++++  ...|+..+|..++.+|...|+++.|..+++++.+  +.|+
T Consensus       471 ~l~r~G~~~eA~~~~~~~--~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~--~~p~  526 (697)
T PLN03081        471 LLGREGLLDEAYAMIRRA--PFKPTVNMWAALLTACRIHKNLELGRLAAEKLYG--MGPE  526 (697)
T ss_pred             HHHhcCCHHHHHHHHHHC--CCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhC--CCCC
Confidence            999999999999999876  4567888999999999999999999999999964  4454

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

Probab=100.00  E-value=1.3e-29  Score=260.28  Aligned_cols=421  Identities=11%  Similarity=0.037  Sum_probs=201.8

Q ss_pred             HHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCceeHHHHHHHHHcC
Q 038303           13 FTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVV---FPDVVSWTTIISGLSKC   89 (461)
Q Consensus        13 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~   89 (461)
                      ...++..+.+.|++++|..+++.+.+.. ++++.++..+...+...|++++|.+.|+++.   +.+...+..+...+...
T Consensus       434 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~  512 (899)
T TIGR02917       434 DLLLILSYLRSGQFDKALAAAKKLEKKQ-PDNASLHNLLGAIYLGKGDLAKAREAFEKALSIEPDFFPAAANLARIDIQE  512 (899)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHC
Confidence            3344455555555555555555555432 2344455555555555555555555555542   22233444445555555


Q ss_pred             CChHHHHHHHhcC-CCCC-CchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHh
Q 038303           90 GFHKEAIDMFCGI-DVKP-NANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFV  167 (461)
Q Consensus        90 ~~~~~a~~~~~~m-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  167 (461)
                      |++++|.+.|+++ ...| +..++..+...+.+.|+.++|...++++.+.++. +...+..++..+.+.|++++|..+++
T Consensus       513 g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~  591 (899)
T TIGR02917       513 GNPDDAIQRFEKVLTIDPKNLRAILALAGLYLRTGNEEEAVAWLEKAAELNPQ-EIEPALALAQYYLGKGQLKKALAILN  591 (899)
T ss_pred             CCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-chhHHHHHHHHHHHCCCHHHHHHHHH
Confidence            5555555555555 2222 3344445555555555555555555555444322 33444445555555555555555555


Q ss_pred             cCCC---CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCC
Q 038303          168 KMPK---RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSV  244 (461)
Q Consensus       168 ~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~  244 (461)
                      ++.+   .+...|..+..++...|++++|...|+++.+.  .+.+...+..+...+...|+++.|...++.+.+  ..+.
T Consensus       592 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~  667 (899)
T TIGR02917       592 EAADAAPDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLAL--QPDSALALLLLADAYAVMKNYAKAITSLKRALE--LKPD  667 (899)
T ss_pred             HHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCC
Confidence            5432   23444555555555555555555555555443  222334444444555555555555555555444  1222


Q ss_pred             cchHHHHHHHHHHhcCCHHHHHHHHHHccCC---ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHH
Q 038303          245 SNLVGNAVINMYVKCGDVGIAIQVFNMLAYK---DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISA  321 (461)
Q Consensus       245 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~  321 (461)
                      +...+..++..+...|++++|.++++.+.+.   +...+..+...+...|++++|.+.++++.+.+  |+..++..+..+
T Consensus       668 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~  745 (899)
T TIGR02917       668 NTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHPKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRA  745 (899)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHH
Confidence            3344444555555555555555555544421   23344444444555555555555555554432  233444444444


Q ss_pred             HHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC--CCCchhhHHHHHHHHHHhcCChHHH
Q 038303          322 CSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM--PIEAEWSVWGALLNACRIHRNDEMF  399 (461)
Q Consensus       322 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~~~~~~a  399 (461)
                      +.+.|++++|.+.++.+.+  ..+.+...+..+...|.+.|++++|...|+++  ..+++...++.+...+...|+ .+|
T Consensus       746 ~~~~g~~~~A~~~~~~~l~--~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~-~~A  822 (899)
T TIGR02917       746 LLASGNTAEAVKTLEAWLK--THPNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKD-PRA  822 (899)
T ss_pred             HHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCc-HHH
Confidence            5555555555555544444  22333444444444555555555555555444  112233344444444444444 444


Q ss_pred             HHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcC
Q 038303          400 DRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMG  444 (461)
Q Consensus       400 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  444 (461)
                      +..++++.+..|.++.++..++.++...|++++|.+.++++.+.+
T Consensus       823 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~  867 (899)
T TIGR02917       823 LEYAEKALKLAPNIPAILDTLGWLLVEKGEADRALPLLRKAVNIA  867 (899)
T ss_pred             HHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            444444444444444444444444444444444444444444433

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

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

Probab=100.00  E-value=7.7e-29  Score=254.54  Aligned_cols=426  Identities=11%  Similarity=-0.005  Sum_probs=259.9

Q ss_pred             cchHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCceeHHHHHHHH
Q 038303           10 HYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVF---PDVVSWTTIISGL   86 (461)
Q Consensus        10 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~   86 (461)
                      ...+..+...+.+.|++++|.++|+.+.+..+ .+...+..+...+...|++++|.+.|+....   .+......++..+
T Consensus       363 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~  441 (899)
T TIGR02917       363 PAALSLLGEAYLALGDFEKAAEYLAKATELDP-ENAAARTQLGISKLSQGDPSEAIADLETAAQLDPELGRADLLLILSY  441 (899)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHhCCChHHHHHHHHHHHhhCCcchhhHHHHHHHH
Confidence            34455555555566666666666666555432 1344444555555555555555555554421   1223334445555


Q ss_pred             HcCCChHHHHHHHhcC--CCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHH
Q 038303           87 SKCGFHKEAIDMFCGI--DVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGY  164 (461)
Q Consensus        87 ~~~~~~~~a~~~~~~m--~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  164 (461)
                      .+.|++++|+++++.+  ..+++..++..+...+...|++++|.+.|+++.+..+. +...+..+...+...|++++|..
T Consensus       442 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~g~~~~A~~  520 (899)
T TIGR02917       442 LRSGQFDKALAAAKKLEKKQPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIEPD-FFPAAANLARIDIQEGNPDDAIQ  520 (899)
T ss_pred             HhcCCHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCC-cHHHHHHHHHHHHHCCCHHHHHH
Confidence            5666666666666665  33334556666666677777777777777776665433 44555566666666777777777


Q ss_pred             HHhcCCC---CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcC
Q 038303          165 LFVKMPK---RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYD  241 (461)
Q Consensus       165 ~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~  241 (461)
                      .|+++.+   .+..++..+...+.+.|+.++|..+++++.+.  .+.+...+..+...+...|+++.|..+++.+.+  .
T Consensus       521 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~  596 (899)
T TIGR02917       521 RFEKVLTIDPKNLRAILALAGLYLRTGNEEEAVAWLEKAAEL--NPQEIEPALALAQYYLGKGQLKKALAILNEAAD--A  596 (899)
T ss_pred             HHHHHHHhCcCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CccchhHHHHHHHHHHHCCCHHHHHHHHHHHHH--c
Confidence            6666643   34556666666666667777777777666554  334445555666666667777777777766655  3


Q ss_pred             CCCcchHHHHHHHHHHhcCCHHHHHHHHHHccC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHH
Q 038303          242 LSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAY---KDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIAL  318 (461)
Q Consensus       242 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l  318 (461)
                      .+.+...+..+...|.+.|++++|...|+.+.+   .+...+..+...+.+.|++++|...++++.+.. +.+..++..+
T Consensus       597 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l  675 (899)
T TIGR02917       597 APDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQPDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGL  675 (899)
T ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHH
Confidence            344555666667777777777777777766542   244556666666667777777777777666542 2234566666


Q ss_pred             HHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCchhhHHHHHHHHHHhcCChH
Q 038303          319 ISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAEWSVWGALLNACRIHRNDE  397 (461)
Q Consensus       319 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~  397 (461)
                      ...+...|++++|..+++.+..  ..+++...+..+...+.+.|++++|.+.++++ ...|+..++..+...+...|+.+
T Consensus       676 ~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  753 (899)
T TIGR02917       676 AQLLLAAKRTESAKKIAKSLQK--QHPKAALGFELEGDLYLRQKDYPAAIQAYRKALKRAPSSQNAIKLHRALLASGNTA  753 (899)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHh--hCcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHCCCHH
Confidence            6666666777777777666665  23445555666666666777777777777666 44455555556666666667777


Q ss_pred             HHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcC
Q 038303          398 MFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMG  444 (461)
Q Consensus       398 ~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  444 (461)
                      +|.+.++++.+..|.+..++..++..|.+.|++++|.+.++++.+..
T Consensus       754 ~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~  800 (899)
T TIGR02917       754 EAVKTLEAWLKTHPNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKA  800 (899)
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC
Confidence            77777766666666666666667777776777777777776666543

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

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.93  E-value=1.5e-21  Score=201.50  Aligned_cols=417  Identities=10%  Similarity=-0.002  Sum_probs=325.2

Q ss_pred             HHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCC--CCce---eHHH----------
Q 038303           17 LKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVF--PDVV---SWTT----------   81 (461)
Q Consensus        17 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~--~~~~---~~~~----------   81 (461)
                      ...+...|++++|+..|++..+..+ .+...+..+..++.+.|++++|...|++..+  |+..   .|..          
T Consensus       276 G~~~~~~g~~~~A~~~l~~aL~~~P-~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~  354 (1157)
T PRK11447        276 GLAAVDSGQGGKAIPELQQAVRANP-KDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLL  354 (1157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHH
Confidence            3456778999999999999998754 2678888899999999999999999998843  3221   1221          


Q ss_pred             --HHHHHHcCCChHHHHHHHhcC-CCCC-CchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcC
Q 038303           82 --IISGLSKCGFHKEAIDMFCGI-DVKP-NANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCG  157 (461)
Q Consensus        82 --li~~~~~~~~~~~a~~~~~~m-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  157 (461)
                        ....+.+.|++++|+..|++. ...| +...+..+...+...|++++|.+.|+++++..+. +...+..+...|. .+
T Consensus       355 ~~~g~~~~~~g~~~eA~~~~~~Al~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~-~~~a~~~L~~l~~-~~  432 (1157)
T PRK11447        355 IQQGDAALKANNLAQAERLYQQARQVDNTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPG-NTNAVRGLANLYR-QQ  432 (1157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH-hc
Confidence              234677899999999999999 6666 4556777888899999999999999999987554 5566667777774 56


Q ss_pred             ChhhHHHHHhcCCCCc------------hhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccch
Q 038303          158 SLASCGYLFVKMPKRN------------VVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISA  225 (461)
Q Consensus       158 ~~~~a~~~~~~~~~~~------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~  225 (461)
                      +.++|..+++.+....            ...+..+...+...|++++|.+.|++..+.  .+-+...+..+...+.+.|+
T Consensus       433 ~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~--~P~~~~~~~~LA~~~~~~G~  510 (1157)
T PRK11447        433 SPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLAL--DPGSVWLTYRLAQDLRQAGQ  510 (1157)
T ss_pred             CHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCC
Confidence            7899999998876421            224556677888999999999999999984  33456677788888999999


Q ss_pred             hhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCCC----h---------hhHHHHHHHHHhcCC
Q 038303          226 LSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKD----K---------ISWSTVISGLAMNGC  292 (461)
Q Consensus       226 ~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~----~---------~~~~~l~~~~~~~~~  292 (461)
                      +++|...++.+.+..  +.+...+..+...+...++.++|...++.+....    .         ..+..+...+...|+
T Consensus       511 ~~~A~~~l~~al~~~--P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~  588 (1157)
T PRK11447        511 RSQADALMRRLAQQK--PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGK  588 (1157)
T ss_pred             HHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCC
Confidence            999999999987722  2334444555566778999999999999886421    1         112345667889999


Q ss_pred             hHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHH
Q 038303          293 GRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIR  372 (461)
Q Consensus       293 ~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  372 (461)
                      .++|..+++.     .+++...+..+...+.+.|++++|+..|+...+  .-+.+...+..++..|...|++++|++.++
T Consensus       589 ~~eA~~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~--~~P~~~~a~~~la~~~~~~g~~~eA~~~l~  661 (1157)
T PRK11447        589 EAEAEALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLT--REPGNADARLGLIEVDIAQGDLAAARAQLA  661 (1157)
T ss_pred             HHHHHHHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            9999999882     234556777888889999999999999999988  345567888999999999999999999999


Q ss_pred             hC-CCCch-hhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCC------hhHHHHHHHHHhccCChhhHHHHHHHHHH-c
Q 038303          373 EM-PIEAE-WSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVS------VGTFALMSNTFAGADRWEDTNKIRDEIRR-M  443 (461)
Q Consensus       373 ~~-~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~------~~~~~~l~~~~~~~g~~~~A~~~~~~m~~-~  443 (461)
                      .. ...|+ ...+..+..++...|++++|.++++++....|.+      ...+..++..+.+.|++++|++.+++... .
T Consensus       662 ~ll~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~~~  741 (1157)
T PRK11447        662 KLPATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMVAS  741 (1157)
T ss_pred             HHhccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc
Confidence            88 44444 4456667777889999999999999999855433      24677789999999999999999999853 4


Q ss_pred             CCcc
Q 038303          444 GLKK  447 (461)
Q Consensus       444 g~~~  447 (461)
                      |+.|
T Consensus       742 ~~~~  745 (1157)
T PRK11447        742 GITP  745 (1157)
T ss_pred             CCCC
Confidence            5543

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.93  E-value=6.9e-21  Score=196.72  Aligned_cols=422  Identities=10%  Similarity=-0.021  Sum_probs=249.7

Q ss_pred             HHHHHHHhhCCHHHHHHHHHHHHHhCCCccHH-HHHHHHHHHHhcCCHHHHHHHHhhCCC---CCceeHHHHHHHHHcCC
Q 038303           15 QALKACSLAHPHQKALEIHAHVIEYGHLHDIF-IQNSLLHFYVTVKDIFSAHQIFNSVVF---PDVVSWTTIISGLSKCG   90 (461)
Q Consensus        15 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~   90 (461)
                      .+...+...|++++|++.|+.+.+.+. |+.. ............|+.++|.+.|+++..   .+...+..+...+...|
T Consensus       117 ~~A~ll~~~g~~~eA~~~~~~~l~~~p-~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~P~~~~~~~~LA~ll~~~g  195 (1157)
T PRK11447        117 QQARLLATTGRTEEALASYDKLFNGAP-PELDLAVEYWRLVAKLPAQRPEAINQLQRLNADYPGNTGLRNTLALLLFSSG  195 (1157)
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHccCCC-CChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHccC
Confidence            334467788899999999998887543 2322 111111222345888888888888843   34456777778888888


Q ss_pred             ChHHHHHHHhcC-CCC----------------------------------CCchhHH---------------------HH
Q 038303           91 FHKEAIDMFCGI-DVK----------------------------------PNANTLV---------------------SV  114 (461)
Q Consensus        91 ~~~~a~~~~~~m-~~~----------------------------------p~~~~~~---------------------~l  114 (461)
                      +.++|++.++++ ...                                  |+...+.                     ..
T Consensus       196 ~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~~~~~  275 (1157)
T PRK11447        196 RRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFRARAQ  275 (1157)
T ss_pred             CHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchHHHHH
Confidence            888888888776 111                                  1100000                     11


Q ss_pred             HHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCCC--Cch---hHHH-----------
Q 038303          115 LSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPK--RNV---VSWT-----------  178 (461)
Q Consensus       115 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~~---~~~~-----------  178 (461)
                      ...+...|++++|...|++.++..+. +...+..+...+.+.|++++|+..|++..+  |+.   ..|.           
T Consensus       276 G~~~~~~g~~~~A~~~l~~aL~~~P~-~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~  354 (1157)
T PRK11447        276 GLAAVDSGQGGKAIPELQQAVRANPK-DSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLL  354 (1157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHH
Confidence            22345668888888888888877544 677778888888888888888888887764  321   1121           


Q ss_pred             -HHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHH---
Q 038303          179 -TMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVIN---  254 (461)
Q Consensus       179 -~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~---  254 (461)
                       .....+.+.|++++|...|++..+.  .+.+...+..+...+...|++++|...|+.+.+..  +.+...+..+..   
T Consensus       355 ~~~g~~~~~~g~~~eA~~~~~~Al~~--~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~--p~~~~a~~~L~~l~~  430 (1157)
T PRK11447        355 IQQGDAALKANNLAQAERLYQQARQV--DNTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD--PGNTNAVRGLANLYR  430 (1157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHH
Confidence             1234567788888888888888875  34455566677778888888888888888887622  222223333333   


Q ss_pred             ---------------------------------------HHHhcCCHHHHHHHHHHccC--C-ChhhHHHHHHHHHhcCC
Q 038303          255 ---------------------------------------MYVKCGDVGIAIQVFNMLAY--K-DKISWSTVISGLAMNGC  292 (461)
Q Consensus       255 ---------------------------------------~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~  292 (461)
                                                             .+...|++++|.+.|++..+  | +...+..+...+.+.|+
T Consensus       431 ~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~~~~~~~~LA~~~~~~G~  510 (1157)
T PRK11447        431 QQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPGSVWLTYRLAQDLRQAGQ  510 (1157)
T ss_pred             hcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC
Confidence                                                   33345566666666655542  2 33445555566666666


Q ss_pred             hHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhc------------------------------
Q 038303          293 GRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVY------------------------------  342 (461)
Q Consensus       293 ~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~------------------------------  342 (461)
                      +++|...++++.+... .+...+..+...+...++.++|...++.+....                              
T Consensus       511 ~~~A~~~l~~al~~~P-~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~  589 (1157)
T PRK11447        511 RSQADALMRRLAQQKP-NDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKE  589 (1157)
T ss_pred             HHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCH
Confidence            6666666666654321 122233333333455666666666665542200                              


Q ss_pred             --------CCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCC
Q 038303          343 --------EIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGV  412 (461)
Q Consensus       343 --------~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  412 (461)
                              ..+.+...+..+...+.+.|++++|+..|++. ...| +...+..+...+...|+.++|+..++.+.+..|.
T Consensus       590 ~eA~~~l~~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p~  669 (1157)
T PRK11447        590 AEAEALLRQQPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLAAARAQLAKLPATAND  669 (1157)
T ss_pred             HHHHHHHHhCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCC
Confidence                    01122233344455555556666666665555 2222 3344555555566666666666666666555555


Q ss_pred             ChhHHHHHHHHHhccCChhhHHHHHHHHHHc
Q 038303          413 SVGTFALMSNTFAGADRWEDTNKIRDEIRRM  443 (461)
Q Consensus       413 ~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  443 (461)
                      ++.++..++.++.+.|++++|.++++++...
T Consensus       670 ~~~~~~~la~~~~~~g~~~eA~~~~~~al~~  700 (1157)
T PRK11447        670 SLNTQRRVALAWAALGDTAAAQRTFNRLIPQ  700 (1157)
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHhhh
Confidence            5556666666666666666666666666554

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

Probab=99.92  E-value=1.1e-22  Score=180.11  Aligned_cols=417  Identities=10%  Similarity=0.103  Sum_probs=230.9

Q ss_pred             HHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCceeHHHHHHHHHcC
Q 038303           13 FTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVV---FPDVVSWTTIISGLSKC   89 (461)
Q Consensus        13 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~   89 (461)
                      ...|.+-..+.|++.+|++.....-..+.. +....-.+-..+....+.+....--...+   ..-..+|..+.+.+-..
T Consensus        51 ~l~lah~~yq~gd~~~a~~h~nmv~~~d~t-~~~~llll~ai~~q~~r~d~s~a~~~~a~r~~~q~ae~ysn~aN~~ker  129 (966)
T KOG4626|consen   51 RLELAHRLYQGGDYKQAEKHCNMVGQEDPT-NTERLLLLSAIFFQGSRLDKSSAGSLLAIRKNPQGAEAYSNLANILKER  129 (966)
T ss_pred             HHHHHHHHHhccCHHHHHHHHhHhhccCCC-cccceeeehhhhhcccchhhhhhhhhhhhhccchHHHHHHHHHHHHHHh
Confidence            334555566677888777766655443321 11111111122333333333222211111   12234566666666666


Q ss_pred             CChHHHHHHHhcC-CCCC-CchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHh
Q 038303           90 GFHKEAIDMFCGI-DVKP-NANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFV  167 (461)
Q Consensus        90 ~~~~~a~~~~~~m-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  167 (461)
                      |++++|+..++.+ ..+| ....|..+..++...|+.+.|.+.|.+.++..+. ..-..+.+...+...|++.+|...+.
T Consensus       130 g~~~~al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alqlnP~-l~ca~s~lgnLlka~Grl~ea~~cYl  208 (966)
T KOG4626|consen  130 GQLQDALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQLNPD-LYCARSDLGNLLKAEGRLEEAKACYL  208 (966)
T ss_pred             chHHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcCcc-hhhhhcchhHHHHhhcccchhHHHHH
Confidence            6666666666666 5555 3455666666666666666666666666554322 11222333444445566666666555


Q ss_pred             cCCC--Cc-hhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCC-hhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCC
Q 038303          168 KMPK--RN-VVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPN-EATLVNVLSACSSISALSFGKYVHSYISTRYDLS  243 (461)
Q Consensus       168 ~~~~--~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~  243 (461)
                      +..+  |. .+.|+.|...+-.+|+...|+..|++..+   +.|+ ...|..+-..|...+.++.|...+.....   ..
T Consensus       209 kAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvk---ldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~---lr  282 (966)
T KOG4626|consen  209 KAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVK---LDPNFLDAYINLGNVYKEARIFDRAVSCYLRALN---LR  282 (966)
T ss_pred             HHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhc---CCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHh---cC
Confidence            5443  22 34566666666666666666666666655   3343 34555555666666666666665555533   22


Q ss_pred             Cc-chHHHHHHHHHHhcCCHHHHHHHHHHccC--CC-hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-HhHHHHH
Q 038303          244 VS-NLVGNAVINMYVKCGDVGIAIQVFNMLAY--KD-KISWSTVISGLAMNGCGRQALQLFSLMIINAVFPD-DVTFIAL  318 (461)
Q Consensus       244 ~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~--~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~l  318 (461)
                      |+ ..++..+...|...|.++.|++.+++..+  |+ ...|+.|..++-..|++.+|...|.+....  .|+ ..+.+.|
T Consensus       283 pn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l--~p~hadam~NL  360 (966)
T KOG4626|consen  283 PNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRL--CPNHADAMNNL  360 (966)
T ss_pred             CcchhhccceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHh--CCccHHHHHHH
Confidence            32 33455555566666666666666666553  22 345666666666666666666666666553  232 2555566


Q ss_pred             HHHHHcCCChHHHHHHHHHhHhhcCCCCC-cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCchhh-HHHHHHHHHHhcCC
Q 038303          319 ISACSHGGLVDQGLILFKAMSTVYEIVPQ-MQHYACVVDMYGRAGLLEEAEAFIREM-PIEAEWS-VWGALLNACRIHRN  395 (461)
Q Consensus       319 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~-~~~~l~~~~~~~~~  395 (461)
                      ...|...|.++.|..+|....+   +.|. ....+.|...|-+.|++++|..-+++. .+.|+.. .++.+...|...|+
T Consensus       361 gni~~E~~~~e~A~~ly~~al~---v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAda~~NmGnt~ke~g~  437 (966)
T KOG4626|consen  361 GNIYREQGKIEEATRLYLKALE---VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFADALSNMGNTYKEMGD  437 (966)
T ss_pred             HHHHHHhccchHHHHHHHHHHh---hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHHHHHhcchHHHHhhh
Confidence            6666666666666666665554   2232 345556666666666666666666665 5555433 45556666666666


Q ss_pred             hHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHH
Q 038303          396 DEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRR  442 (461)
Q Consensus       396 ~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  442 (461)
                      .+.|++.+.+++...|.-..+++.|+.+|..+|++.+|++-++...+
T Consensus       438 v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLk  484 (966)
T KOG4626|consen  438 VSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALK  484 (966)
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHc
Confidence            66666666666666666666666666666666666666666666544

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

Probab=99.91  E-value=1.4e-21  Score=173.30  Aligned_cols=378  Identities=13%  Similarity=0.088  Sum_probs=320.8

Q ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCceeHHHHHHHHHcCCChHHHHHHHhcC-CCCCCchhHHHHH-HHh
Q 038303           44 DIFIQNSLLHFYVTVKDIFSAHQIFNSVVF---PDVVSWTTIISGLSKCGFHKEAIDMFCGI-DVKPNANTLVSVL-SAC  118 (461)
Q Consensus        44 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m-~~~p~~~~~~~ll-~~~  118 (461)
                      -..+|+.+.+.+...|++++|+.+++.+++   ..+..|..+..++...|+.+.|.++|.+. .+.|+.....+-+ ..+
T Consensus       115 ~ae~ysn~aN~~kerg~~~~al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alqlnP~l~ca~s~lgnLl  194 (966)
T KOG4626|consen  115 GAEAYSNLANILKERGQLQDALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQLNPDLYCARSDLGNLL  194 (966)
T ss_pred             HHHHHHHHHHHHHHhchHHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcCcchhhhhcchhHHH
Confidence            567899999999999999999999998843   35678999999999999999999999888 8888766554433 334


Q ss_pred             cccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCCC--Cc-hhHHHHHHHHHHhcCChHHHHH
Q 038303          119 SSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPK--RN-VVSWTTMIGGYAERGFCKEAVS  195 (461)
Q Consensus       119 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~-~~~~~~li~~~~~~~~~~~a~~  195 (461)
                      ...|++.+|...+.+.++..+. =...|+.|...+-..|+...|+..|++..+  |+ ...|-.|...|-..+.+++|+.
T Consensus       195 ka~Grl~ea~~cYlkAi~~qp~-fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs  273 (966)
T KOG4626|consen  195 KAEGRLEEAKACYLKAIETQPC-FAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAVS  273 (966)
T ss_pred             HhhcccchhHHHHHHHHhhCCc-eeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHHH
Confidence            5679999999999998887543 456788899999999999999999999987  33 4678999999999999999999


Q ss_pred             HHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCc-chHHHHHHHHHHhcCCHHHHHHHHHHccC
Q 038303          196 VFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVS-NLVGNAVINMYVKCGDVGIAIQVFNMLAY  274 (461)
Q Consensus       196 ~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~  274 (461)
                      .|.+....  -+.....+..+...|-..|.++.|+..++...+   +.|+ +..|+.|..++-..|++.+|.+.+++...
T Consensus       274 ~Y~rAl~l--rpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~---~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~  348 (966)
T KOG4626|consen  274 CYLRALNL--RPNHAVAHGNLACIYYEQGLLDLAIDTYKRALE---LQPNFPDAYNNLANALKDKGSVTEAVDCYNKALR  348 (966)
T ss_pred             HHHHHHhc--CCcchhhccceEEEEeccccHHHHHHHHHHHHh---cCCCchHHHhHHHHHHHhccchHHHHHHHHHHHH
Confidence            99999874  344466777888889999999999999999876   3344 45789999999999999999999998873


Q ss_pred             --C-ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH-hHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCC-cc
Q 038303          275 --K-DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDD-VTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQ-MQ  349 (461)
Q Consensus       275 --~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~  349 (461)
                        | ...+.+.|...+...|.+++|..+|....+  +.|.. ..++.|...|-++|++++|+..+++..+   +.|+ ..
T Consensus       349 l~p~hadam~NLgni~~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr---I~P~fAd  423 (966)
T KOG4626|consen  349 LCPNHADAMNNLGNIYREQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR---IKPTFAD  423 (966)
T ss_pred             hCCccHHHHHHHHHHHHHhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh---cCchHHH
Confidence              3 467889999999999999999999999988  45655 6788999999999999999999999876   6777 57


Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHhC-CCCchhh-HHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhcc
Q 038303          350 HYACVVDMYGRAGLLEEAEAFIREM-PIEAEWS-VWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGA  427 (461)
Q Consensus       350 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  427 (461)
                      .|+.+...|-..|+.+.|.+.+.+. .+.|... ..+.|...|...|+..+|++.++......|+.+.+|..++.++--.
T Consensus       424 a~~NmGnt~ke~g~v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA~cNllh~lq~v  503 (966)
T KOG4626|consen  424 ALSNMGNTYKEMGDVSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDAYCNLLHCLQIV  503 (966)
T ss_pred             HHHhcchHHHHhhhHHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchhhhHHHHHHHHH
Confidence            8899999999999999999999988 6677544 6778888899999999999999999999999999999999887655


Q ss_pred             CChhh
Q 038303          428 DRWED  432 (461)
Q Consensus       428 g~~~~  432 (461)
                      .+|.+
T Consensus       504 cdw~D  508 (966)
T KOG4626|consen  504 CDWTD  508 (966)
T ss_pred             hcccc
Confidence            55443

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.91  E-value=1.2e-21  Score=181.01  Aligned_cols=292  Identities=12%  Similarity=0.050  Sum_probs=197.8

Q ss_pred             HHHcCChhhHHHHHhcCCC--C-chhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCC---hhhHHHHHHHhhccchh
Q 038303          153 YIRCGSLASCGYLFVKMPK--R-NVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPN---EATLVNVLSACSSISAL  226 (461)
Q Consensus       153 ~~~~g~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~---~~~~~~~l~~~~~~~~~  226 (461)
                      +...|++++|...|+++.+  | +..++..+...+...|++++|..+++.+...+ ..++   ...+..+...+...|++
T Consensus        45 ~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~~~~~La~~~~~~g~~  123 (389)
T PRK11788         45 FLLNEQPDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRP-DLTREQRLLALQELGQDYLKAGLL  123 (389)
T ss_pred             HHhcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCC-CCCHHHHHHHHHHHHHHHHHCCCH
Confidence            3445555555555555543  2 23345555555555666666666665555432 1111   12344455555555666


Q ss_pred             hhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCCC--------hhhHHHHHHHHHhcCChHHHHH
Q 038303          227 SFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKD--------KISWSTVISGLAMNGCGRQALQ  298 (461)
Q Consensus       227 ~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~--------~~~~~~l~~~~~~~~~~~~a~~  298 (461)
                      +.|..+|+.+.+  ..+.+..++..++..+.+.|++++|.+.++.+.+.+        ...+..+...+.+.|++++|..
T Consensus       124 ~~A~~~~~~~l~--~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~  201 (389)
T PRK11788        124 DRAEELFLQLVD--EGDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARA  201 (389)
T ss_pred             HHHHHHHHHHHc--CCcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHH
Confidence            666666665554  122344556666677777777777777776665321        1134556677788899999999


Q ss_pred             HHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCC
Q 038303          299 LFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIE  377 (461)
Q Consensus       299 ~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~  377 (461)
                      .++++.+.. +.+...+..+...+.+.|++++|.++++++.. .+......++..++.+|.+.|++++|...++++ ...
T Consensus       202 ~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~-~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~  279 (389)
T PRK11788        202 LLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEE-QDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEY  279 (389)
T ss_pred             HHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH-HChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            999888753 22346777788888899999999999998876 222222456788889999999999999999988 556


Q ss_pred             chhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhc---cCChhhHHHHHHHHHHcCCccccC
Q 038303          378 AEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAG---ADRWEDTNKIRDEIRRMGLKKKTG  450 (461)
Q Consensus       378 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~---~g~~~~A~~~~~~m~~~g~~~~~~  450 (461)
                      |+...+..+...+.+.|++++|..+++++.+..|.+. .+..++..+..   .|+.+++..++++|.+++++|+|.
T Consensus       280 p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~-~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        280 PGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLR-GFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             CCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHH-HHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC
Confidence            7777777788889999999999999999888776655 56666655553   568999999999999999998886

>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=99.91  E-value=1.2e-19  Score=176.37  Aligned_cols=419  Identities=10%  Similarity=-0.051  Sum_probs=289.0

Q ss_pred             HHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCceeHHHHHHHHHcC
Q 038303           13 FTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVF---PDVVSWTTIISGLSKC   89 (461)
Q Consensus        13 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~   89 (461)
                      +...-..+...|++++|+..|+..++..  |++..|..+..+|.+.|++++|.+.++....   .+...|..+..+|...
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 LKEKGNKAYRNKDFNKAIKLYSKAIECK--PDPVYYSNRAACHNALGDWEKVVEDTTAALELDPDYSKALNRRANAYDGL  207 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHc
Confidence            4455667778899999999999988754  6777888888889999999999999988743   3455778888889999


Q ss_pred             CChHHHHHHHhcC-CCCC-CchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHh
Q 038303           90 GFHKEAIDMFCGI-DVKP-NANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFV  167 (461)
Q Consensus        90 ~~~~~a~~~~~~m-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  167 (461)
                      |++++|+..|... ...+ +......++..+..    ..+........+.... +...+..+.. +...........-+.
T Consensus       208 g~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~----~~a~~~~~~~l~~~~~-~~~~~~~~~~-~~~~~~~~~~~~~~~  281 (615)
T TIGR00990       208 GKYADALLDLTASCIIDGFRNEQSAQAVERLLK----KFAESKAKEILETKPE-NLPSVTFVGN-YLQSFRPKPRPAGLE  281 (615)
T ss_pred             CCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHH----HHHHHHHHHHHhcCCC-CCCCHHHHHH-HHHHccCCcchhhhh
Confidence            9999998877655 2222 11111111111111    1222222222222221 2222222222 222222222222222


Q ss_pred             cCCCCc---hhHHHHHHHH---HHhcCChHHHHHHHHHHHhcCCCCC-ChhhHHHHHHHhhccchhhhHHHHHHHHHhhc
Q 038303          168 KMPKRN---VVSWTTMIGG---YAERGFCKEAVSVFQEMEKTKEAEP-NEATLVNVLSACSSISALSFGKYVHSYISTRY  240 (461)
Q Consensus       168 ~~~~~~---~~~~~~li~~---~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~  240 (461)
                      ...+.+   ...+..+...   ....+++++|.+.|++..+.+...| ....+..+...+...|++++|...++...+  
T Consensus       282 ~~~~~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~--  359 (615)
T TIGR00990       282 DSNELDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIE--  359 (615)
T ss_pred             cccccccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--
Confidence            211111   1111111111   1234689999999999987642334 345667777778889999999999999876  


Q ss_pred             CCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHH
Q 038303          241 DLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAY---KDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIA  317 (461)
Q Consensus       241 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~  317 (461)
                      ..+.....+..+...+...|++++|...|+...+   .+...|..+...+...|++++|...|++..+... .+...+..
T Consensus       360 l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P-~~~~~~~~  438 (615)
T TIGR00990       360 LDPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDP-DFIFSHIQ  438 (615)
T ss_pred             cCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCc-cCHHHHHH
Confidence            2223355778888889999999999999988764   2567888899999999999999999999988532 24566777


Q ss_pred             HHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCchh-h-------HHHHHHH
Q 038303          318 LISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAEW-S-------VWGALLN  388 (461)
Q Consensus       318 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~-~-------~~~~l~~  388 (461)
                      +...+.+.|++++|+..|+....  ..+.+...+..+...+...|++++|.+.|++. ...|+. .       .++....
T Consensus       439 la~~~~~~g~~~eA~~~~~~al~--~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~  516 (615)
T TIGR00990       439 LGVTQYKEGSIASSMATFRRCKK--NFPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALA  516 (615)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH--hCCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHH
Confidence            88888999999999999999887  34556788889999999999999999999987 433321 1       1111122


Q ss_pred             HHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcC
Q 038303          389 ACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMG  444 (461)
Q Consensus       389 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  444 (461)
                      .+...|++++|..+++++.+..|.+..++..++.++.+.|++++|.+.+++..+..
T Consensus       517 ~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l~  572 (615)
T TIGR00990       517 LFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALKLFERAAELA  572 (615)
T ss_pred             HHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHh
Confidence            24456999999999999999889888899999999999999999999999986653

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.89  E-value=2.4e-20  Score=172.24  Aligned_cols=289  Identities=13%  Similarity=0.079  Sum_probs=198.4

Q ss_pred             HHHHcCCChHHHHHHHhcC-CCCCC-chhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCC---hhHHHHHHHHHHHcCC
Q 038303           84 SGLSKCGFHKEAIDMFCGI-DVKPN-ANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENN---IILDNAILDFYIRCGS  158 (461)
Q Consensus        84 ~~~~~~~~~~~a~~~~~~m-~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~  158 (461)
                      ..+...|++++|+..|+++ ...|+ ..++..+...+...|++++|..+++.+.+.+..++   ...+..+...|.+.|+
T Consensus        43 ~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~  122 (389)
T PRK11788         43 LNFLLNEQPDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGL  122 (389)
T ss_pred             HHHHhcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCC
Confidence            3445667777777777777 55553 33556666666667777777777766665432211   1344555556666666


Q ss_pred             hhhHHHHHhcCCC---CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHH
Q 038303          159 LASCGYLFVKMPK---RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSY  235 (461)
Q Consensus       159 ~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~  235 (461)
                      +++|..+|+++.+   .+..+++.++..+.+.|++++|.+.++.+.+.+ ..+...                        
T Consensus       123 ~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~------------------------  177 (389)
T PRK11788        123 LDRAEELFLQLVDEGDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLG-GDSLRV------------------------  177 (389)
T ss_pred             HHHHHHHHHHHHcCCcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhc-CCcchH------------------------
Confidence            6666666665543   344455556666666666666666666655432 111000                        


Q ss_pred             HHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccC--C-ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH
Q 038303          236 ISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAY--K-DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDD  312 (461)
Q Consensus       236 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~  312 (461)
                              .....+..+...+.+.|++++|...|+++.+  | +...+..+...+.+.|++++|.+.++++.+.+.....
T Consensus       178 --------~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~  249 (389)
T PRK11788        178 --------EIAHFYCELAQQALARGDLDAARALLKKALAADPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLS  249 (389)
T ss_pred             --------HHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHH
Confidence                    0011335566777888888888888888763  2 3556777888899999999999999999875433334


Q ss_pred             hHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCchhhHHHHHHHHHH
Q 038303          313 VTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAEWSVWGALLNACR  391 (461)
Q Consensus       313 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~  391 (461)
                      .++..+..+|...|++++|...++++.+   ..|+...+..++..+.+.|++++|..+++++ ...|+...++.++..+.
T Consensus       250 ~~~~~l~~~~~~~g~~~~A~~~l~~~~~---~~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~~~~~l~~~~~  326 (389)
T PRK11788        250 EVLPKLMECYQALGDEAEGLEFLRRALE---EYPGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLRGFHRLLDYHL  326 (389)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHHHHHHHHHHhh
Confidence            6678888999999999999999999877   2467677788899999999999999999887 66788888888887755


Q ss_pred             h---cCChHHHHHHHHHHhh
Q 038303          392 I---HRNDEMFDRIRQDLVN  408 (461)
Q Consensus       392 ~---~~~~~~a~~~~~~~~~  408 (461)
                      .   .|+.+++..+++++.+
T Consensus       327 ~~~~~g~~~~a~~~~~~~~~  346 (389)
T PRK11788        327 AEAEEGRAKESLLLLRDLVG  346 (389)
T ss_pred             hccCCccchhHHHHHHHHHH
Confidence            3   5588899999998886

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.89  E-value=2e-18  Score=170.85  Aligned_cols=401  Identities=9%  Similarity=-0.014  Sum_probs=244.5

Q ss_pred             CcchHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhC---CCCCceeHHHHHHH
Q 038303            9 NHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSV---VFPDVVSWTTIISG   85 (461)
Q Consensus         9 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~~~~~~~~li~~   85 (461)
                      +.....-.+......|+.++|++++....... +.+...+..+...+...|++++|..+|++.   .+.+...+..+...
T Consensus        14 ~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~   92 (765)
T PRK10049         14 SNNQIADWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLILT   92 (765)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            34445556667778888888888888877633 234456777778888888888888888885   33445566777778


Q ss_pred             HHcCCChHHHHHHHhcC-CCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHH
Q 038303           86 LSKCGFHKEAIDMFCGI-DVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGY  164 (461)
Q Consensus        86 ~~~~~~~~~a~~~~~~m-~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  164 (461)
                      +...|++++|+..+++. ...|+...+..+..++...|+.++|...++++.+..+. +...+..+...+...|..++|+.
T Consensus        93 l~~~g~~~eA~~~l~~~l~~~P~~~~~~~la~~l~~~g~~~~Al~~l~~al~~~P~-~~~~~~~la~~l~~~~~~e~Al~  171 (765)
T PRK10049         93 LADAGQYDEALVKAKQLVSGAPDKANLLALAYVYKRAGRHWDELRAMTQALPRAPQ-TQQYPTEYVQALRNNRLSAPALG  171 (765)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCChHHHHH
Confidence            88888888888888887 55554333666677777888888888888888887655 55555667777777788888888


Q ss_pred             HHhcCCC-Cch------hHHHHHHHHHH-----hcCCh---HHHHHHHHHHHhcCCCCCChh-hHHHHHHHhhccchhhh
Q 038303          165 LFVKMPK-RNV------VSWTTMIGGYA-----ERGFC---KEAVSVFQEMEKTKEAEPNEA-TLVNVLSACSSISALSF  228 (461)
Q Consensus       165 ~~~~~~~-~~~------~~~~~li~~~~-----~~~~~---~~a~~~~~~m~~~~~~~~~~~-~~~~~l~~~~~~~~~~~  228 (461)
                      .++.... |+.      .....++....     ..+++   ++|++.++.+.+.-...|+.. .+..             
T Consensus       172 ~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~-------------  238 (765)
T PRK10049        172 AIDDANLTPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQR-------------  238 (765)
T ss_pred             HHHhCCCCHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHH-------------
Confidence            8877665 221      01111111111     11122   445555555543200111111 0000             


Q ss_pred             HHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCCC--hh--hHHHHHHHHHhcCChHHHHHHHHHHH
Q 038303          229 GKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKD--KI--SWSTVISGLAMNGCGRQALQLFSLMI  304 (461)
Q Consensus       229 a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~--~~--~~~~l~~~~~~~~~~~~a~~~~~~m~  304 (461)
                                         .....+..+...|++++|+..|+.+.+.+  ..  .-..+...+...|++++|+..|+++.
T Consensus       239 -------------------a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~~l~~~l  299 (765)
T PRK10049        239 -------------------ARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEKAQSILTELF  299 (765)
T ss_pred             -------------------HHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHh
Confidence                               00011223344566666666666665431  11  11223456666677777777777665


Q ss_pred             hcCCCC---CHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcC----------CCCC---cchHHHHHHHHhhcCCHHHHH
Q 038303          305 INAVFP---DDVTFIALISACSHGGLVDQGLILFKAMSTVYE----------IVPQ---MQHYACVVDMYGRAGLLEEAE  368 (461)
Q Consensus       305 ~~g~~p---~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~----------~~~~---~~~~~~l~~~~~~~g~~~~A~  368 (461)
                      +.....   .......+..++...|++++|...++.+.....          -.|+   ...+..+...+...|+.++|+
T Consensus       300 ~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~  379 (765)
T PRK10049        300 YHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAE  379 (765)
T ss_pred             hcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHH
Confidence            432111   123344555566667777777777776655110          0122   123445666777778888888


Q ss_pred             HHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHc
Q 038303          369 AFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRM  443 (461)
Q Consensus       369 ~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  443 (461)
                      ++++++ ...| +...+..+...+...|++++|++.++++.+..|.+...+...+..+.+.|++++|..+++++.+.
T Consensus       380 ~~l~~al~~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~  456 (765)
T PRK10049        380 MRARELAYNAPGNQGLRIDYASVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAR  456 (765)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            888776 2233 34456666666777788888888888888777777777777777788888888888888777654

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.88  E-value=5.3e-19  Score=171.23  Aligned_cols=327  Identities=8%  Similarity=-0.042  Sum_probs=187.4

Q ss_pred             HHHHHHHHHcCCChHHHHHHHhcC-CCCCC-chhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHc
Q 038303           79 WTTIISGLSKCGFHKEAIDMFCGI-DVKPN-ANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRC  156 (461)
Q Consensus        79 ~~~li~~~~~~~~~~~a~~~~~~m-~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  156 (461)
                      ...++..+.+.|++++|+.+++.. ...|+ ......++.++...|+++.|...++.+.+..+. +...+..+...+...
T Consensus        45 ~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P~-~~~a~~~la~~l~~~  123 (656)
T PRK15174         45 IILFAIACLRKDETDVGLTLLSDRVLTAKNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVNVC-QPEDVLLVASVLLKS  123 (656)
T ss_pred             HHHHHHHHHhcCCcchhHHHhHHHHHhCCCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHc
Confidence            344455555666666666666555 33332 333444444455566666666666666655433 445555566666666


Q ss_pred             CChhhHHHHHhcCCC---CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHH
Q 038303          157 GSLASCGYLFVKMPK---RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVH  233 (461)
Q Consensus       157 g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~  233 (461)
                      |++++|...+++..+   .+...+..+...+...|++++|...++.+....  +.+...+.. +..+...|++++|...+
T Consensus       124 g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~--P~~~~a~~~-~~~l~~~g~~~eA~~~~  200 (656)
T PRK15174        124 KQYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLARTQAQEV--PPRGDMIAT-CLSFLNKSRLPEDHDLA  200 (656)
T ss_pred             CCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC--CCCHHHHHH-HHHHHHcCCHHHHHHHH
Confidence            666666666666543   234455566666666666666666666655431  112222222 22355566666666666


Q ss_pred             HHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCC---ChhhHHHHHHHHHhcCChHH----HHHHHHHHHhc
Q 038303          234 SYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYK---DKISWSTVISGLAMNGCGRQ----ALQLFSLMIIN  306 (461)
Q Consensus       234 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~----a~~~~~~m~~~  306 (461)
                      +.+.+ ....++......+...+.+.|++++|...++.....   +...+..+...+...|++++    |...+++..+.
T Consensus       201 ~~~l~-~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l  279 (656)
T PRK15174        201 RALLP-FFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQF  279 (656)
T ss_pred             HHHHh-cCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhh
Confidence            66554 221222233344455666677777777777665532   34556666667777777664    67777776664


Q ss_pred             CCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCchhhHHH-
Q 038303          307 AVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAEWSVWG-  384 (461)
Q Consensus       307 g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~-  384 (461)
                      .. .+...+..+...+...|++++|...+++...  ..+.+...+..+..++.+.|++++|...++++ ...|+...+. 
T Consensus       280 ~P-~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~--l~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~~~~~~~  356 (656)
T PRK15174        280 NS-DNVRIVTLYADALIRTGQNEKAIPLLQQSLA--THPDLPYVRAMYARALRQVGQYTAASDEFVQLAREKGVTSKWNR  356 (656)
T ss_pred             CC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccchHHHH
Confidence            22 1345666666677777777777777777665  22333445566667777777777777777766 3445443322 


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhhcCCCC
Q 038303          385 ALLNACRIHRNDEMFDRIRQDLVNKKGVS  413 (461)
Q Consensus       385 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  413 (461)
                      .+..++...|+.++|...++++.+..|.+
T Consensus       357 ~~a~al~~~G~~deA~~~l~~al~~~P~~  385 (656)
T PRK15174        357 YAAAALLQAGKTSEAESVFEHYIQARASH  385 (656)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhChhh
Confidence            23445667777777777777777655543

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.87  E-value=2.9e-17  Score=163.00  Aligned_cols=187  Identities=11%  Similarity=0.004  Sum_probs=136.4

Q ss_pred             HHHHHhcCCHHHHHHHHHHccC--CChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH-hHHHHHHHHHHcCCChH
Q 038303          253 INMYVKCGDVGIAIQVFNMLAY--KDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDD-VTFIALISACSHGGLVD  329 (461)
Q Consensus       253 i~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~  329 (461)
                      ...+...|++++|...|+++..  ++...+..+...+.+.|++++|...+++..+..  |+. ..+..+.......|+++
T Consensus       516 A~al~~~Gr~eeAi~~~rka~~~~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~--P~~~~l~~~La~~l~~~Gr~~  593 (987)
T PRK09782        516 AYQAYQVEDYATALAAWQKISLHDMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG--LGDNALYWWLHAQRYIPGQPE  593 (987)
T ss_pred             HHHHHHCCCHHHHHHHHHHHhccCCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHhCCCHH
Confidence            3444567777777777776553  333445566667777788888888888777653  333 23333333444568888


Q ss_pred             HHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCchh-hHHHHHHHHHHhcCChHHHHHHHHHHh
Q 038303          330 QGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAEW-SVWGALLNACRIHRNDEMFDRIRQDLV  407 (461)
Q Consensus       330 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~  407 (461)
                      +|...+++..+   ..|+...+..+...+.+.|++++|...+++. ...|+. ..++.+..++...|+.++|+..++++.
T Consensus       594 eAl~~~~~AL~---l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL  670 (987)
T PRK09782        594 LALNDLTRSLN---IAPSANAYVARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAALGYALWDSGDIAQSREMLERAH  670 (987)
T ss_pred             HHHHHHHHHHH---hCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            88888888866   3466777888888888889999998888887 445543 455666667888889999999999988


Q ss_pred             hcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcC
Q 038303          408 NKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMG  444 (461)
Q Consensus       408 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  444 (461)
                      +..|.++..+..++.++...|++++|...+++..+..
T Consensus       671 ~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~  707 (987)
T PRK09782        671 KGLPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDI  707 (987)
T ss_pred             HhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            8888888889999999999999999999888887643

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.87  E-value=1.9e-18  Score=167.38  Aligned_cols=350  Identities=9%  Similarity=-0.038  Sum_probs=274.6

Q ss_pred             HcCCChHHHHHHHhcC-----CCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhh
Q 038303           87 SKCGFHKEAIDMFCGI-----DVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLAS  161 (461)
Q Consensus        87 ~~~~~~~~a~~~~~~m-----~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  161 (461)
                      .+..+++.-.-.|...     .-..+......++..+.+.|+++.|..+++..+...+.+ ......++.+....|++++
T Consensus        16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~-~~~l~~l~~~~l~~g~~~~   94 (656)
T PRK15174         16 LKQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKNG-RDLLRRWVISPLASSQPDA   94 (656)
T ss_pred             hhhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCCc-hhHHHHHhhhHhhcCCHHH
Confidence            3445555544444443     111233345566777889999999999999999987774 4444456677778999999


Q ss_pred             HHHHHhcCCC---CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHh
Q 038303          162 CGYLFVKMPK---RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYIST  238 (461)
Q Consensus       162 a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~  238 (461)
                      |...|+++..   .+...+..+...+...|++++|...+++..+.  .+.+...+..+...+...|+.+.|...++.+..
T Consensus        95 A~~~l~~~l~~~P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l--~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~  172 (656)
T PRK15174         95 VLQVVNKLLAVNVCQPEDVLLVASVLLKSKQYATVADLAEQAWLA--FSGNSQIFALHLRTLVLMDKELQAISLARTQAQ  172 (656)
T ss_pred             HHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHH
Confidence            9999999975   35667888899999999999999999999984  344566778888899999999999999998866


Q ss_pred             hcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCC----ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhH
Q 038303          239 RYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYK----DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVT  314 (461)
Q Consensus       239 ~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~  314 (461)
                      ....  +...+..+ ..+...|++++|...++.+.+.    +...+..+...+...|++++|+..+++..+... .+...
T Consensus       173 ~~P~--~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p-~~~~~  248 (656)
T PRK15174        173 EVPP--RGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGL-DGAAL  248 (656)
T ss_pred             hCCC--CHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CCHHH
Confidence            2222  22233333 3478899999999999987653    233445566788999999999999999998642 24577


Q ss_pred             HHHHHHHHHcCCChHH----HHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCch-hhHHHHHHH
Q 038303          315 FIALISACSHGGLVDQ----GLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAE-WSVWGALLN  388 (461)
Q Consensus       315 ~~~ll~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~  388 (461)
                      +..+...+...|++++    |...|++..+  ..+.+...+..+...+.+.|++++|...+++. ...|+ ...+..+..
T Consensus       249 ~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~--l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~La~  326 (656)
T PRK15174        249 RRSLGLAYYQSGRSREAKLQAAEHWRHALQ--FNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYAR  326 (656)
T ss_pred             HHHHHHHHHHcCCchhhHHHHHHHHHHHHh--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            7788889999999986    8999999987  33456778889999999999999999999998 44454 345666777


Q ss_pred             HHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcCC
Q 038303          389 ACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGL  445 (461)
Q Consensus       389 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~  445 (461)
                      ++...|++++|+..++++.+..|.+...+..++.++...|++++|...+++..+...
T Consensus       327 ~l~~~G~~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P  383 (656)
T PRK15174        327 ALRQVGQYTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARA  383 (656)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCh
Confidence            799999999999999999998888877777788899999999999999999877643

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.86  E-value=7.2e-17  Score=160.16  Aligned_cols=427  Identities=10%  Similarity=-0.000  Sum_probs=307.6

Q ss_pred             CCCcchHHHH-HHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHh-cCCHHHHHHHHhhCCCCCceeHHHHHH
Q 038303            7 SYNHYTFTQA-LKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVT-VKDIFSAHQIFNSVVFPDVVSWTTIIS   84 (461)
Q Consensus         7 ~p~~~~~~~l-l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~li~   84 (461)
                      .|+..+.... .+.|...|++++|+.++..+.+.++. +..-...|-.+|.. .++ +++..+++...+.++..+..+..
T Consensus       178 ~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~k~~pl-~~~~~~~L~~ay~q~l~~-~~a~al~~~~lk~d~~l~~ala~  255 (987)
T PRK09782        178 SPEGKTLRTDLLQRAIYLKQWSQADTLYNEARQQNTL-SAAERRQWFDVLLAGQLD-DRLLALQSQGIFTDPQSRITYAT  255 (987)
T ss_pred             CCCcHHHHHHHHHHHHHHhCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHhhCH-HHHHHHhchhcccCHHHHHHHHH
Confidence            3445555555 88999999999999999999998754 44445666667776 366 88888877655667888889999


Q ss_pred             HHHcCCChHHHHHHHhcC-C---CCCCchhHHHH------------------------------HHHhcccchh------
Q 038303           85 GLSKCGFHKEAIDMFCGI-D---VKPNANTLVSV------------------------------LSACSSLVSH------  124 (461)
Q Consensus        85 ~~~~~~~~~~a~~~~~~m-~---~~p~~~~~~~l------------------------------l~~~~~~~~~------  124 (461)
                      .|.+.|+.++|.++++++ .   ..|...++..+                              +..+.+.+++      
T Consensus       256 ~yi~~G~~~~A~~~L~~~~~~~~~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  335 (987)
T PRK09782        256 ALAYRGEKARLQHYLIENKPLFTTDAQEKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKL  335 (987)
T ss_pred             HHHHCCCHHHHHHHHHhCcccccCCCccHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHH
Confidence            999999999999999888 2   22333222211                              1222222333      


Q ss_pred             ---------------------------------------------------------HHHHHHHHHHHhh-c-CCCChhH
Q 038303          125 ---------------------------------------------------------KLGKAIHAHSLRN-L-NENNIIL  145 (461)
Q Consensus       125 ---------------------------------------------------------~~a~~~~~~~~~~-~-~~~~~~~  145 (461)
                                                                               ++|.++++..... + -.++...
T Consensus       336 ~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l  415 (987)
T PRK09782        336 LATLPANEMLEERYAVSVATRNKAEALRLARLLYQQEPANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTL  415 (987)
T ss_pred             hcCCCcchHHHHHHhhccccCchhHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHH
Confidence                                                                     3333333333221 0 1112223


Q ss_pred             HHHHHHHHHHcCCh---hhHHHH------------HhcC-------------CC---C--chhHHHHHHHHHHhcCChHH
Q 038303          146 DNAILDFYIRCGSL---ASCGYL------------FVKM-------------PK---R--NVVSWTTMIGGYAERGFCKE  192 (461)
Q Consensus       146 ~~~l~~~~~~~g~~---~~a~~~------------~~~~-------------~~---~--~~~~~~~li~~~~~~~~~~~  192 (461)
                      .+.++..|.+.+.+   .++..+            ..+.             ..   +  +...|..+..++.. +++++
T Consensus       416 ~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~e  494 (987)
T PRK09782        416 MARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGV  494 (987)
T ss_pred             HHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHH
Confidence            33555566555552   222222            1111             00   2  44566677766666 78888


Q ss_pred             HHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHc
Q 038303          193 AVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNML  272 (461)
Q Consensus       193 a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  272 (461)
                      |...+.+...   ..|+......+...+...|+++.|...++.+..   .+|+...+..+..++.+.|+.++|...++..
T Consensus       495 Ai~a~~~Al~---~~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~---~~p~~~a~~~la~all~~Gd~~eA~~~l~qA  568 (987)
T PRK09782        495 ALYAWLQAEQ---RQPDAWQHRAVAYQAYQVEDYATALAAWQKISL---HDMSNEDLLAAANTAQAAGNGAARDRWLQQA  568 (987)
T ss_pred             HHHHHHHHHH---hCCchHHHHHHHHHHHHCCCHHHHHHHHHHHhc---cCCCcHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            9998888877   556665544555556789999999999998755   2444555667788899999999999999988


Q ss_pred             cCCChhhHHH---HHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcc
Q 038303          273 AYKDKISWST---VISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQ  349 (461)
Q Consensus       273 ~~~~~~~~~~---l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  349 (461)
                      .+.++.....   +...+...|++++|...+++..+.  .|+...+..+...+.+.|++++|+..+++...  .-+.+..
T Consensus       569 L~l~P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~--l~Pd~~~  644 (987)
T PRK09782        569 EQRGLGDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPAAVSDLRAALE--LEPNNSN  644 (987)
T ss_pred             HhcCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHH
Confidence            7654333333   333444569999999999999984  56788899999999999999999999999987  3445577


Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhcc
Q 038303          350 HYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGA  427 (461)
Q Consensus       350 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  427 (461)
                      .+..+...+...|++++|...+++. ...| +...+..+..++...|++++|+..++++.+..|.+..+....+....+.
T Consensus       645 a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~P~~a~i~~~~g~~~~~~  724 (987)
T PRK09782        645 YQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDIDNQALITPLTPEQNQQR  724 (987)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCchhhhhhhHHHHHH
Confidence            8888888999999999999999988 4445 4557788888899999999999999999999999999999999999999


Q ss_pred             CChhhHHHHHHHHHHcCCc
Q 038303          428 DRWEDTNKIRDEIRRMGLK  446 (461)
Q Consensus       428 g~~~~A~~~~~~m~~~g~~  446 (461)
                      .+++.|.+-+++-...++.
T Consensus       725 ~~~~~a~~~~~r~~~~~~~  743 (987)
T PRK09782        725 FNFRRLHEEVGRRWTFSFD  743 (987)
T ss_pred             HHHHHHHHHHHHHhhcCcc
Confidence            9999999988887665544

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.86  E-value=5.9e-17  Score=157.55  Aligned_cols=425  Identities=7%  Similarity=-0.031  Sum_probs=309.1

Q ss_pred             HHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCceeHHHH---HHHHHcC
Q 038303           13 FTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWTTI---ISGLSKC   89 (461)
Q Consensus        13 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l---i~~~~~~   89 (461)
                      |...| ...+.|+++.|+..|++..+..+.-.+..+ .++..+...|+.++|+..+++...|+...+..+   ...+...
T Consensus        38 y~~ai-i~~r~Gd~~~Al~~L~qaL~~~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p~n~~~~~llalA~ly~~~  115 (822)
T PRK14574         38 YDSLI-IRARAGDTAPVLDYLQEESKAGPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSSMNISSRGLASAARAYRNE  115 (822)
T ss_pred             HHHHH-HHHhCCCHHHHHHHHHHHHhhCccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccCCCCCHHHHHHHHHHHHHc
Confidence            33333 346899999999999999987643223344 888888899999999999999987755544443   3467788


Q ss_pred             CChHHHHHHHhcC-CCCCC-chhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHh
Q 038303           90 GFHKEAIDMFCGI-DVKPN-ANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFV  167 (461)
Q Consensus        90 ~~~~~a~~~~~~m-~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  167 (461)
                      |++++|+++|+++ ...|+ ...+..++..+...++.++|.+.++.+.+..+  +...+..++..+...++..+|+..++
T Consensus       116 gdyd~Aiely~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp--~~~~~l~layL~~~~~~~~~AL~~~e  193 (822)
T PRK14574        116 KRWDQALALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELAERDP--TVQNYMTLSYLNRATDRNYDALQASS  193 (822)
T ss_pred             CCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCc--chHHHHHHHHHHHhcchHHHHHHHHH
Confidence            9999999999999 66664 55666777778899999999999999988743  34445445444545666666999999


Q ss_pred             cCCC--C-chhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhH------HHHHHHh-----hccch---hhhHH
Q 038303          168 KMPK--R-NVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATL------VNVLSAC-----SSISA---LSFGK  230 (461)
Q Consensus       168 ~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~------~~~l~~~-----~~~~~---~~~a~  230 (461)
                      ++.+  | +...+..+..++.+.|-...|.++..+-.+.  +.+...-.      ...+..-     ....+   .+.+.
T Consensus       194 kll~~~P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~--f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~al  271 (822)
T PRK14574        194 EAVRLAPTSEEVLKNHLEILQRNRIVEPALRLAKENPNL--VSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKAL  271 (822)
T ss_pred             HHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccc--cCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHH
Confidence            9875  4 5667788888999999999998777664332  22222111      1111110     01122   34444


Q ss_pred             HHHHHHHhhcCCCCcc-hHH----HHHHHHHHhcCCHHHHHHHHHHccCC----ChhhHHHHHHHHHhcCChHHHHHHHH
Q 038303          231 YVHSYISTRYDLSVSN-LVG----NAVINMYVKCGDVGIAIQVFNMLAYK----DKISWSTVISGLAMNGCGRQALQLFS  301 (461)
Q Consensus       231 ~~~~~~~~~~~~~~~~-~~~----~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~  301 (461)
                      .-++.+....+-.|.. ..|    .-.+.++...|++.++++.|+.+..+    ...+-..+..+|...+++++|+.+++
T Consensus       272 a~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~  351 (822)
T PRK14574        272 ADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILS  351 (822)
T ss_pred             HHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHH
Confidence            5555554433333432 222    23456778899999999999999954    33456678899999999999999999


Q ss_pred             HHHhcC-----CCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcC----------CCCCc---chHHHHHHHHhhcCC
Q 038303          302 LMIINA-----VFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYE----------IVPQM---QHYACVVDMYGRAGL  363 (461)
Q Consensus       302 ~m~~~g-----~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~----------~~~~~---~~~~~l~~~~~~~g~  363 (461)
                      .+....     ..++......|.-++..++++++|..+++.+.+...          -.|+.   ..+..++..+...|+
T Consensus       352 ~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gd  431 (822)
T PRK14574        352 SLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALND  431 (822)
T ss_pred             HHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCC
Confidence            987643     122334457889999999999999999999987211          01221   234456778889999


Q ss_pred             HHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHH
Q 038303          364 LEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIR  441 (461)
Q Consensus       364 ~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  441 (461)
                      ..+|++.++++ ...| |......+...+...|.+.+|++.++.+....|.+..+....+.++...|+|++|..+.+.+.
T Consensus       432 l~~Ae~~le~l~~~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~  511 (822)
T PRK14574        432 LPTAQKKLEDLSSTAPANQNLRIALASIYLARDLPRKAEQELKAVESLAPRSLILERAQAETAMALQEWHQMELLTDDVI  511 (822)
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCccHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            99999999999 3334 666777777889999999999999999888999999999999999999999999999987775


Q ss_pred             Hc
Q 038303          442 RM  443 (461)
Q Consensus       442 ~~  443 (461)
                      +.
T Consensus       512 ~~  513 (822)
T PRK14574        512 SR  513 (822)
T ss_pred             hh
Confidence            54

>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=99.83  E-value=1.6e-16  Score=154.50  Aligned_cols=394  Identities=10%  Similarity=-0.066  Sum_probs=259.3

Q ss_pred             CCCCcchHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCCCC---ceeHHHH
Q 038303            6 SSYNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFPD---VVSWTTI   82 (461)
Q Consensus         6 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~l   82 (461)
                      +.|+...|..+..++...|++++|+..++..++... .+...|..+..+|...|++++|..-|......+   ......+
T Consensus       156 ~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p-~~~~a~~~~a~a~~~lg~~~eA~~~~~~~~~~~~~~~~~~~~~  234 (615)
T TIGR00990       156 CKPDPVYYSNRAACHNALGDWEKVVEDTTAALELDP-DYSKALNRRANAYDGLGKYADALLDLTASCIIDGFRNEQSAQA  234 (615)
T ss_pred             cCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccHHHHHH
Confidence            467888899999999999999999999999998753 256688888999999999999998887652211   1111122


Q ss_pred             HHHHHcCCChHHHHHHHhcCCCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCC-hhHHHHHHHH---HHHcCC
Q 038303           83 ISGLSKCGFHKEAIDMFCGIDVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENN-IILDNAILDF---YIRCGS  158 (461)
Q Consensus        83 i~~~~~~~~~~~a~~~~~~m~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~---~~~~g~  158 (461)
                      +..+........+...++.-  .++...+..+. .+...........-+....+.  .+. ...+..+...   ....++
T Consensus       235 ~~~~l~~~a~~~~~~~l~~~--~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~e~~~~~~  309 (615)
T TIGR00990       235 VERLLKKFAESKAKEILETK--PENLPSVTFVG-NYLQSFRPKPRPAGLEDSNEL--DEETGNGQLQLGLKSPESKADES  309 (615)
T ss_pred             HHHHHHHHHHHHHHHHHhcC--CCCCCCHHHHH-HHHHHccCCcchhhhhccccc--ccccccchHHHHHHHHHhhhhhh
Confidence            22111111122333333322  11222222221 111111111111111111111  111 0111111111   123467


Q ss_pred             hhhHHHHHhcCCC------CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCC-hhhHHHHHHHhhccchhhhHHH
Q 038303          159 LASCGYLFVKMPK------RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPN-EATLVNVLSACSSISALSFGKY  231 (461)
Q Consensus       159 ~~~a~~~~~~~~~------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~~~l~~~~~~~~~~~a~~  231 (461)
                      +++|...|++..+      .....|+.+...+...|++++|...|++..+   ..|+ ...|..+...+...|++++|..
T Consensus       310 y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~---l~P~~~~~~~~la~~~~~~g~~~eA~~  386 (615)
T TIGR00990       310 YEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIE---LDPRVTQSYIKRASMNLELGDPDKAEE  386 (615)
T ss_pred             HHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---cCCCcHHHHHHHHHHHHHCCCHHHHHH
Confidence            8888888887653      2345677788888888999999999998887   4444 5577777888888899999999


Q ss_pred             HHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccC--C-ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCC
Q 038303          232 VHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAY--K-DKISWSTVISGLAMNGCGRQALQLFSLMIINAV  308 (461)
Q Consensus       232 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~  308 (461)
                      .++...+.  .+.+..++..+...+...|++++|...|++..+  | +...+..+...+.+.|++++|+..+++..+.. 
T Consensus       387 ~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-  463 (615)
T TIGR00990       387 DFDKALKL--NSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNF-  463 (615)
T ss_pred             HHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-
Confidence            98888772  334466788888889999999999999988764  3 45667778888899999999999999988742 


Q ss_pred             CCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCc---c---hHHHHHHHHhhcCCHHHHHHHHHhC-CCCchh-
Q 038303          309 FPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQM---Q---HYACVVDMYGRAGLLEEAEAFIREM-PIEAEW-  380 (461)
Q Consensus       309 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~---~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~-  380 (461)
                      +.+...+..+...+...|++++|+..|+.... ..-..+.   .   .++.....+...|++++|.+++++. ...|+. 
T Consensus       464 P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~-l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~~~  542 (615)
T TIGR00990       464 PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIE-LEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDPECD  542 (615)
T ss_pred             CCChHHHHHHHHHHHHccCHHHHHHHHHHHHh-cCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcH
Confidence            22457788888889999999999999998876 2111111   1   1222233344568999999999886 444544 


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHhhcCCC
Q 038303          381 SVWGALLNACRIHRNDEMFDRIRQDLVNKKGV  412 (461)
Q Consensus       381 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  412 (461)
                      ..+..+...+...|++++|+..|+++.+..+.
T Consensus       543 ~a~~~la~~~~~~g~~~eAi~~~e~A~~l~~~  574 (615)
T TIGR00990       543 IAVATMAQLLLQQGDVDEALKLFERAAELART  574 (615)
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHHhcc
Confidence            35777888899999999999999999876554

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.82  E-value=2.2e-15  Score=146.71  Aligned_cols=398  Identities=10%  Similarity=0.016  Sum_probs=299.8

Q ss_pred             HHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCceeHHHHHHHHHcCCC
Q 038303           15 QALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVF---PDVVSWTTIISGLSKCGF   91 (461)
Q Consensus        15 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~   91 (461)
                      .++..+...|+.++|+..++...... .........+...+...|++++|.++|+++..   .++..+..++..+...++
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 DWLQIAGWAGRDQEVIDVYERYQSSM-NISSRGLASAARAYRNEKRWDQALALWQSSLKKDPTNPDLISGMIMTQADAGR  151 (822)
T ss_pred             HHHHHHHHcCCcHHHHHHHHHhccCC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHhhcCC
Confidence            78888889999999999999988211 11223333335678888999999999999943   345667777888999999


Q ss_pred             hHHHHHHHhcC-CCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCC
Q 038303           92 HKEAIDMFCGI-DVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMP  170 (461)
Q Consensus        92 ~~~a~~~~~~m-~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  170 (461)
                      .++|++.++++ ...|+...+..++..+...++..+|.+.++++.+..+. +...+..+..++.+.|-...|.++..+-+
T Consensus       152 ~~eAl~~l~~l~~~dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~~P~-n~e~~~~~~~~l~~~~~~~~a~~l~~~~p  230 (822)
T PRK14574        152 GGVVLKQATELAERDPTVQNYMTLSYLNRATDRNYDALQASSEAVRLAPT-SEEVLKNHLEILQRNRIVEPALRLAKENP  230 (822)
T ss_pred             HHHHHHHHHHhcccCcchHHHHHHHHHHHhcchHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCcHHHHHHHHhCc
Confidence            99999999999 77888777755555555566666699999999998655 77888889999999999999999988876


Q ss_pred             C---CchhHH--HHHHHHHHh---------cCC---hHHHHHHHHHHHhc-CCCCCChh----hHHHHHHHhhccchhhh
Q 038303          171 K---RNVVSW--TTMIGGYAE---------RGF---CKEAVSVFQEMEKT-KEAEPNEA----TLVNVLSACSSISALSF  228 (461)
Q Consensus       171 ~---~~~~~~--~~li~~~~~---------~~~---~~~a~~~~~~m~~~-~~~~~~~~----~~~~~l~~~~~~~~~~~  228 (461)
                      .   +....+  ...+.-.++         ..+   .+.|+.-++.+... +..++...    ...-.+.++...++...
T Consensus       231 ~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~  310 (822)
T PRK14574        231 NLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTAD  310 (822)
T ss_pred             cccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHH
Confidence            4   111101  000111111         112   35566666666552 10233222    23345667889999999


Q ss_pred             HHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCCC---------hhhHHHHHHHHHhcCChHHHHHH
Q 038303          229 GKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKD---------KISWSTVISGLAMNGCGRQALQL  299 (461)
Q Consensus       229 a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~---------~~~~~~l~~~~~~~~~~~~a~~~  299 (461)
                      ++..++.+.. .+.+....+-..+..+|...++.++|+.+|..+..++         ......|.-++...+++++|..+
T Consensus       311 vi~~y~~l~~-~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~  389 (822)
T PRK14574        311 LIKEYEAMEA-EGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQF  389 (822)
T ss_pred             HHHHHHHhhh-cCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHH
Confidence            9999999998 6766666688999999999999999999999986432         22356788999999999999999


Q ss_pred             HHHHHhcCC-----------CCCH---hHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHH
Q 038303          300 FSLMIINAV-----------FPDD---VTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLE  365 (461)
Q Consensus       300 ~~~m~~~g~-----------~p~~---~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  365 (461)
                      ++++.+.-.           .|+.   ..+..++..+...|++.+|++.++++..  .-|-|......+...+...|.+.
T Consensus       390 l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~--~aP~n~~l~~~~A~v~~~Rg~p~  467 (822)
T PRK14574        390 AVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSS--TAPANQNLRIALASIYLARDLPR  467 (822)
T ss_pred             HHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHhcCCHH
Confidence            999987322           1222   2344556678889999999999999977  56778889999999999999999


Q ss_pred             HHHHHHHhC-CCCchh-hHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHH
Q 038303          366 EAEAFIREM-PIEAEW-SVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTF  417 (461)
Q Consensus       366 ~A~~~~~~~-~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  417 (461)
                      +|++.++.. ...|+. .+......++...+++.+|..+.+.+.+..|.+..+-
T Consensus       468 ~A~~~~k~a~~l~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~~~Pe~~~~~  521 (822)
T PRK14574        468 KAEQELKAVESLAPRSLILERAQAETAMALQEWHQMELLTDDVISRSPEDIPSQ  521 (822)
T ss_pred             HHHHHHHHHhhhCCccHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhCCCchhHH
Confidence            999999877 455654 3555666778889999999999999999999887443

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.81  E-value=8.5e-17  Score=159.32  Aligned_cols=364  Identities=7%  Similarity=-0.015  Sum_probs=243.9

Q ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCceeHHHHHHHHHcCCChHHHHHHHhcC-CCCCC-chhHHHHHHHh
Q 038303           44 DIFIQNSLLHFYVTVKDIFSAHQIFNSVVF---PDVVSWTTIISGLSKCGFHKEAIDMFCGI-DVKPN-ANTLVSVLSAC  118 (461)
Q Consensus        44 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m-~~~p~-~~~~~~ll~~~  118 (461)
                      ++....-.+.+....|+.++|++++.+..+   .+...+..+...+...|++++|.++|++. ...|+ ......+...+
T Consensus        14 ~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~l   93 (765)
T PRK10049         14 SNNQIADWLQIALWAGQDAEVITVYNRYRVHMQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLILTL   93 (765)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            445555666777778888888888877643   23334777777788888888888888876 55554 44455666667


Q ss_pred             cccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCCC--C-chhHHHHHHHHHHhcCChHHHHH
Q 038303          119 SSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPK--R-NVVSWTTMIGGYAERGFCKEAVS  195 (461)
Q Consensus       119 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~  195 (461)
                      ...|+.++|...++++++..+. +.. +..+..++...|+.++|+..++++.+  | +...+..+...+...+..++|+.
T Consensus        94 ~~~g~~~eA~~~l~~~l~~~P~-~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la~~l~~~~~~e~Al~  171 (765)
T PRK10049         94 ADAGQYDEALVKAKQLVSGAPD-KAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYVQALRNNRLSAPALG  171 (765)
T ss_pred             HHCCCHHHHHHHHHHHHHhCCC-CHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCChHHHHH
Confidence            7777888888887777776433 444 66677777777777777777777664  3 34445556666667777777777


Q ss_pred             HHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHH-----HhcCCH---HHHHH
Q 038303          196 VFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMY-----VKCGDV---GIAIQ  267 (461)
Q Consensus       196 ~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~-----~~~g~~---~~a~~  267 (461)
                      .++....    .|+....   +       ..                    .....++...     ...+++   ++|++
T Consensus       172 ~l~~~~~----~p~~~~~---l-------~~--------------------~~~~~~~r~~~~~~~~~~~r~~~ad~Al~  217 (765)
T PRK10049        172 AIDDANL----TPAEKRD---L-------EA--------------------DAAAELVRLSFMPTRSEKERYAIADRALA  217 (765)
T ss_pred             HHHhCCC----CHHHHHH---H-------HH--------------------HHHHHHHHhhcccccChhHHHHHHHHHHH
Confidence            6665443    1220000   0       00                    0001111111     112223   56676


Q ss_pred             HHHHccC---CChh---hH----HHHHHHHHhcCChHHHHHHHHHHHhcCCC-CCHhHHHHHHHHHHcCCChHHHHHHHH
Q 038303          268 VFNMLAY---KDKI---SW----STVISGLAMNGCGRQALQLFSLMIINAVF-PDDVTFIALISACSHGGLVDQGLILFK  336 (461)
Q Consensus       268 ~~~~~~~---~~~~---~~----~~l~~~~~~~~~~~~a~~~~~~m~~~g~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~  336 (461)
                      .++.+.+   .++.   .+    ...+..+...|++++|+..|+++.+.+.. |+. ....+...|...|++++|+..|+
T Consensus       218 ~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~  296 (765)
T PRK10049        218 QYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILT  296 (765)
T ss_pred             HHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHH
Confidence            6666652   1211   11    11134556779999999999999987532 333 22235678999999999999999


Q ss_pred             HhHhhcCCCC--CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-------------h---hhHHHHHHHHHHhcCChH
Q 038303          337 AMSTVYEIVP--QMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-------------E---WSVWGALLNACRIHRNDE  397 (461)
Q Consensus       337 ~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-------------~---~~~~~~l~~~~~~~~~~~  397 (461)
                      .+.......+  .......+..++...|++++|..+++++ ...|             +   ...+..+...+...|+.+
T Consensus       297 ~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~  376 (765)
T PRK10049        297 ELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLP  376 (765)
T ss_pred             HHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHH
Confidence            9876221111  1244566777889999999999999988 3223             2   123345556688999999


Q ss_pred             HHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcC
Q 038303          398 MFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMG  444 (461)
Q Consensus       398 ~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  444 (461)
                      +|+..++++....|.+...+..++..+...|++++|++.+++..+..
T Consensus       377 eA~~~l~~al~~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~  423 (765)
T PRK10049        377 QAEMRARELAYNAPGNQGLRIDYASVLQARGWPRAAENELKKAEVLE  423 (765)
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhC
Confidence            99999999999999999999999999999999999999999987754

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.78  E-value=6.8e-14  Score=119.70  Aligned_cols=174  Identities=14%  Similarity=0.125  Sum_probs=93.5

Q ss_pred             hHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcC--CHHHH-HH----------------------
Q 038303           12 TFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVK--DIFSA-HQ----------------------   66 (461)
Q Consensus        12 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~--~~~~a-~~----------------------   66 (461)
                      +=|.|++ +..+|.++++.-+++.|...|++.+...-..|+..-+-.+  +..-| .+                      
T Consensus       118 ~E~nL~k-mIS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK~G~vA  196 (625)
T KOG4422|consen  118 TENNLLK-MISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWKSGAVA  196 (625)
T ss_pred             chhHHHH-HHhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccccccccccccccHH
Confidence            4455554 4577899999999999999998888877777766544322  21111 11                      


Q ss_pred             -HHhhCCCCCceeHHHHHHHHHcCCChHHHHHHHhcC---CCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCC
Q 038303           67 -IFNSVVFPDVVSWTTIISGLSKCGFHKEAIDMFCGI---DVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENN  142 (461)
Q Consensus        67 -~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m---~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  142 (461)
                       ++-+..+....+|.++|.++|+-...+.|.+++++.   ..+.+..+||.+|.+-+-.    ...+++.+|......||
T Consensus       197 dL~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~----~~K~Lv~EMisqkm~Pn  272 (625)
T KOG4422|consen  197 DLLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYS----VGKKLVAEMISQKMTPN  272 (625)
T ss_pred             HHHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhh----ccHHHHHHHHHhhcCCc
Confidence             122222334445555555555555555555555555   4445555555555542211    12455555555555555


Q ss_pred             hhHHHHHHHHHHHcCChhhHH----HHHhcCCC----CchhHHHHHHHHHHhcCCh
Q 038303          143 IILDNAILDFYIRCGSLASCG----YLFVKMPK----RNVVSWTTMIGGYAERGFC  190 (461)
Q Consensus       143 ~~~~~~l~~~~~~~g~~~~a~----~~~~~~~~----~~~~~~~~li~~~~~~~~~  190 (461)
                      ..|+|+++++..+.|+++.|.    +++.+|++    |...+|..+|..+++.++.
T Consensus       273 l~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp  328 (625)
T KOG4422|consen  273 LFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDP  328 (625)
T ss_pred             hHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCc
Confidence            555555555555555544332    22233322    4445555555555544444

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

Probab=99.77  E-value=3e-16  Score=134.88  Aligned_cols=413  Identities=12%  Similarity=0.078  Sum_probs=289.8

Q ss_pred             hHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHH-HHHHHHHhcCCHHHHHHHHhhCC--CCCc------eeHHHH
Q 038303           12 TFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQN-SLLHFYVTVKDIFSAHQIFNSVV--FPDV------VSWTTI   82 (461)
Q Consensus        12 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~ll~~~~~~~~~~~a~~~~~~~~--~~~~------~~~~~l   82 (461)
                      .+..|...|.......+|+..++-+.+...-|+..... .+-..+.+.+.+.+|++.|+-..  .|++      ...+.+
T Consensus       203 vl~nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~ni  282 (840)
T KOG2003|consen  203 VLFNLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNI  282 (840)
T ss_pred             HHHHHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhc
Confidence            34455566667778889999999998887777765432 23456778889999999887552  1222      234555


Q ss_pred             HHHHHcCCChHHHHHHHhcC-CCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCC------------hhHHHH-
Q 038303           83 ISGLSKCGFHKEAIDMFCGI-DVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENN------------IILDNA-  148 (461)
Q Consensus        83 i~~~~~~~~~~~a~~~~~~m-~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~------------~~~~~~-  148 (461)
                      .-.+.+.|.++.|+.-|+.. ...|+..+-..|+-++...|+-++..+.|..|+..-..||            ....+. 
T Consensus       283 gvtfiq~gqy~dainsfdh~m~~~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~ea  362 (840)
T KOG2003|consen  283 GVTFIQAGQYDDAINSFDHCMEEAPNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLNEA  362 (840)
T ss_pred             CeeEEecccchhhHhhHHHHHHhCccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHHHH
Confidence            56788999999999999887 8889887766677677778999999999999986533322            222222 


Q ss_pred             ----HHHHHHHcCC--hhhHHHHHhcCC----CCchh-------------HHHH--------HHHHHHhcCChHHHHHHH
Q 038303          149 ----ILDFYIRCGS--LASCGYLFVKMP----KRNVV-------------SWTT--------MIGGYAERGFCKEAVSVF  197 (461)
Q Consensus       149 ----l~~~~~~~g~--~~~a~~~~~~~~----~~~~~-------------~~~~--------li~~~~~~~~~~~a~~~~  197 (461)
                          .++-.-+...  .++++..--++.    .|+..             .+..        -...+.++|+++.|++++
T Consensus       363 i~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~aieil  442 (840)
T KOG2003|consen  363 IKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGAIEIL  442 (840)
T ss_pred             HhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHHHHHH
Confidence                1222222221  222222222222    22211             0111        123578999999999999


Q ss_pred             HHHHhcCCCCCChh--------------------hHHHHH---------------HHhhccchhhhHHHHHHHHHhhcCC
Q 038303          198 QEMEKTKEAEPNEA--------------------TLVNVL---------------SACSSISALSFGKYVHSYISTRYDL  242 (461)
Q Consensus       198 ~~m~~~~~~~~~~~--------------------~~~~~l---------------~~~~~~~~~~~a~~~~~~~~~~~~~  242 (461)
                      +-..+..+-..+..                    .|....               +.....|++++|...+++... ..-
T Consensus       443 kv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn~~a~~nkgn~~f~ngd~dka~~~ykeal~-nda  521 (840)
T KOG2003|consen  443 KVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRYNAAALTNKGNIAFANGDLDKAAEFYKEALN-NDA  521 (840)
T ss_pred             HHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccCHHHhhcCCceeeecCcHHHHHHHHHHHHc-Cch
Confidence            88765431111111                    111110               001125788888888888776 333


Q ss_pred             CCcchHHHHHHHHHHhcCCHHHHHHHHHHcc---CCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHH
Q 038303          243 SVSNLVGNAVINMYVKCGDVGIAIQVFNMLA---YKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALI  319 (461)
Q Consensus       243 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll  319 (461)
                      ......|| +...+-..|++++|++.|-++.   ..+....-.+...|-...+..+|++++.+.... ++.|+.....|.
T Consensus       522 sc~ealfn-iglt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~~~q~~sl-ip~dp~ilskl~  599 (840)
T KOG2003|consen  522 SCTEALFN-IGLTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQANSL-IPNDPAILSKLA  599 (840)
T ss_pred             HHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhccc-CCCCHHHHHHHH
Confidence            33333333 3445667888999998886654   457777777888888888999999988777654 445668888899


Q ss_pred             HHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCchhhHHHHHHHH-HHhcCChH
Q 038303          320 SACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAEWSVWGALLNA-CRIHRNDE  397 (461)
Q Consensus       320 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~-~~~~~~~~  397 (461)
                      ..|-+.|+-..|.+.+-+--+  -++.+..+..-|..-|....-+++|..+|++. -+.|+..-|..++.. +.+.|++.
T Consensus       600 dlydqegdksqafq~~ydsyr--yfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlmiasc~rrsgnyq  677 (840)
T KOG2003|consen  600 DLYDQEGDKSQAFQCHYDSYR--YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLMIASCFRRSGNYQ  677 (840)
T ss_pred             HHhhcccchhhhhhhhhhccc--ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHhcccHH
Confidence            999999999999998765544  57788999999999999999999999999998 778999999999888 56889999


Q ss_pred             HHHHHHHHHhhcCCCChhHHHHHHHHHhccCC
Q 038303          398 MFDRIRQDLVNKKGVSVGTFALMSNTFAGADR  429 (461)
Q Consensus       398 ~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  429 (461)
                      .|..+++...+..|.+..+...|++.+...|.
T Consensus       678 ka~d~yk~~hrkfpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  678 KAFDLYKDIHRKFPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHHHHHHHhCccchHHHHHHHHHhccccc
Confidence            99999999999999999999999999988774

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

Probab=99.77  E-value=6.9e-15  Score=137.84  Aligned_cols=431  Identities=10%  Similarity=0.012  Sum_probs=282.5

Q ss_pred             CCcchHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCc--cHHHHHHHHHHHHhcCCHHHHHHHHhhCCC--CCc--eeHHH
Q 038303            8 YNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLH--DIFIQNSLLHFYVTVKDIFSAHQIFNSVVF--PDV--VSWTT   81 (461)
Q Consensus         8 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~--~~~--~~~~~   81 (461)
                      -|+...+.|.+.+...|+++.++.+...+......-  -..+|-.+.++|-..|++++|...|.+..+  +|-  ..+--
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            356667777777778888888888877777643211  123455566777777888888887766532  322  23444


Q ss_pred             HHHHHHcCCChHHHHHHHhcC-CCCCC-chhHHHHHHHhcccc----hhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHH
Q 038303           82 IISGLSKCGFHKEAIDMFCGI-DVKPN-ANTLVSVLSACSSLV----SHKLGKAIHAHSLRNLNENNIILDNAILDFYIR  155 (461)
Q Consensus        82 li~~~~~~~~~~~a~~~~~~m-~~~p~-~~~~~~ll~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  155 (461)
                      +...+.+.|+.+.+..+|+.. ...|| ..|...+...|+..+    ..+.|..++....+.-+. |...|-.+...+..
T Consensus       348 lgQm~i~~~dle~s~~~fEkv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~~~-d~~a~l~laql~e~  426 (1018)
T KOG2002|consen  348 LGQMYIKRGDLEESKFCFEKVLKQLPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQTPV-DSEAWLELAQLLEQ  426 (1018)
T ss_pred             hhHHHHHhchHHHHHHHHHHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcccc-cHHHHHHHHHHHHh
Confidence            667778888888888888777 44454 445555555555443    445566666655555432 66666666665544


Q ss_pred             cCChhhHHHHHhcC--------CCCchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCC--CCCChh------hHHHHHHH
Q 038303          156 CGSLASCGYLFVKM--------PKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKE--AEPNEA------TLVNVLSA  219 (461)
Q Consensus       156 ~g~~~~a~~~~~~~--------~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~~~~~~------~~~~~l~~  219 (461)
                      ..-+ .++.+|...        ....+...|.+...+...|++.+|...|.+....-.  ..+|..      +--.+...
T Consensus       427 ~d~~-~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl  505 (1018)
T KOG2002|consen  427 TDPW-ASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARL  505 (1018)
T ss_pred             cChH-HHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHH
Confidence            4332 223333332        225566778888888888888888888887765400  122221      12223344


Q ss_pred             hhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccC---CChhhHHHHHHHHHhcCChHHH
Q 038303          220 CSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAY---KDKISWSTVISGLAMNGCGRQA  296 (461)
Q Consensus       220 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a  296 (461)
                      .-..++.+.|..+|..+.+.+  +.-...|--+.......+...+|..+++.+..   .++..++.+...+.+...+..|
T Consensus       506 ~E~l~~~~~A~e~Yk~Ilkeh--p~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~G~~~l~k~~~~~a  583 (1018)
T KOG2002|consen  506 LEELHDTEVAEEMYKSILKEH--PGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLLGNLHLKKSEWKPA  583 (1018)
T ss_pred             HHhhhhhhHHHHHHHHHHHHC--chhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHHHHHHHhhhhhccc
Confidence            455677888888888887721  11112222222222233567778888877663   3666777777777777788888


Q ss_pred             HHHHHHHHhcC-CCCCHhHHHHHHHHHHc------------CCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCC
Q 038303          297 LQLFSLMIINA-VFPDDVTFIALISACSH------------GGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGL  363 (461)
Q Consensus       297 ~~~~~~m~~~g-~~p~~~~~~~ll~~~~~------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  363 (461)
                      .+-|....+.- ..+|..+...|...|..            .+..++|+++|....+  ..+.|...-+-+.-.++..|+
T Consensus       584 ~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~--~dpkN~yAANGIgiVLA~kg~  661 (1018)
T KOG2002|consen  584 KKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLR--NDPKNMYAANGIGIVLAEKGR  661 (1018)
T ss_pred             ccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHh--cCcchhhhccchhhhhhhccC
Confidence            77666655432 22455555555554432            2456788888888877  456677788888888999999


Q ss_pred             HHHHHHHHHhC--CCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhc--CCCChhHHHHHHHHHhccCChhhHHHHHHH
Q 038303          364 LEEAEAFIREM--PIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNK--KGVSVGTFALMSNTFAGADRWEDTNKIRDE  439 (461)
Q Consensus       364 ~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  439 (461)
                      +.+|..+|.+.  .......+|..+.++|...|++..|++.|+...+.  ...++.+...|++++.+.|++.+|.+.+..
T Consensus       662 ~~~A~dIFsqVrEa~~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~  741 (1018)
T KOG2002|consen  662 FSEARDIFSQVREATSDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLK  741 (1018)
T ss_pred             chHHHHHHHHHHHHHhhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            99999999988  22234567888999999999999999999998874  366788999999999999999999998877


Q ss_pred             HHHcC
Q 038303          440 IRRMG  444 (461)
Q Consensus       440 m~~~g  444 (461)
                      .....
T Consensus       742 a~~~~  746 (1018)
T KOG2002|consen  742 ARHLA  746 (1018)
T ss_pred             HHHhC
Confidence            76643

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

Probab=99.75  E-value=4.5e-14  Score=132.48  Aligned_cols=364  Identities=12%  Similarity=0.062  Sum_probs=221.0

Q ss_pred             CCceeHHHHHHHHHcCCChHHHHHHHhcC----CCC-CCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHH
Q 038303           74 PDVVSWTTIISGLSKCGFHKEAIDMFCGI----DVK-PNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNA  148 (461)
Q Consensus        74 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m----~~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  148 (461)
                      .|++..+.|-+-|.-.|++..+..+...+    ... .-...|-.+.+++-..|++++|..+|.+..+....--...+--
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            45566666666667777777777766665    111 1234466677777777777777777776666543322334445


Q ss_pred             HHHHHHHcCChhhHHHHHhcCCC--C-chhHHHHHHHHHHhcC----ChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhh
Q 038303          149 ILDFYIRCGSLASCGYLFVKMPK--R-NVVSWTTMIGGYAERG----FCKEAVSVFQEMEKTKEAEPNEATLVNVLSACS  221 (461)
Q Consensus       149 l~~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~----~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~  221 (461)
                      +...+.+.|+++.+...|+.+.+  | +..+...|...|+..+    ..+.|..++.+..+.  .+.|...|..+...+.
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            66777777777777777777654  2 3445555555555553    456666666666554  4555566655555554


Q ss_pred             ccchhhhHHHHHHHH----HhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCC-------Ch------hhHHHHH
Q 038303          222 SISALSFGKYVHSYI----STRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYK-------DK------ISWSTVI  284 (461)
Q Consensus       222 ~~~~~~~a~~~~~~~----~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-------~~------~~~~~l~  284 (461)
                      ....+.. ...+..+    .. .+-.+.+.+.|.+...+...|++.+|...|......       +.      .+--.+.
T Consensus       426 ~~d~~~s-L~~~~~A~d~L~~-~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNla  503 (1018)
T KOG2002|consen  426 QTDPWAS-LDAYGNALDILES-KGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLA  503 (1018)
T ss_pred             hcChHHH-HHHHHHHHHHHHH-cCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHH
Confidence            4433322 4333332    23 445566777788888888888888888888766522       22      1122234


Q ss_pred             HHHHhcCChHHHHHHHHHHHhcCCCCCH-hHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCC
Q 038303          285 SGLAMNGCGRQALQLFSLMIINAVFPDD-VTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGL  363 (461)
Q Consensus       285 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  363 (461)
                      ..+-..++++.|.+.|....+.  .|+- ..|--+.......++..+|...++....  ....++..++.+...+.+...
T Consensus       504 rl~E~l~~~~~A~e~Yk~Ilke--hp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~--~d~~np~arsl~G~~~l~k~~  579 (1018)
T KOG2002|consen  504 RLLEELHDTEVAEEMYKSILKE--HPGYIDAYLRLGCMARDKNNLYEASLLLKDALN--IDSSNPNARSLLGNLHLKKSE  579 (1018)
T ss_pred             HHHHhhhhhhHHHHHHHHHHHH--CchhHHHHHHhhHHHHhccCcHHHHHHHHHHHh--cccCCcHHHHHHHHHHHhhhh
Confidence            4455566778888888887764  2433 3333333223335677777777777766  444555555656667777777


Q ss_pred             HHHHHHHHHhC----CCCchhhHHHHHHHHHH------------hcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhcc
Q 038303          364 LEEAEAFIREM----PIEAEWSVWGALLNACR------------IHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGA  427 (461)
Q Consensus       364 ~~~A~~~~~~~----~~~p~~~~~~~l~~~~~------------~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  427 (461)
                      +..|.+-|..+    ...+|..+...|.+.|.            ..+..+.|++.|.++++..|.|..+=+.++-+++..
T Consensus       580 ~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~dpkN~yAANGIgiVLA~k  659 (1018)
T KOG2002|consen  580 WKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRNDPKNMYAANGIGIVLAEK  659 (1018)
T ss_pred             hcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcCcchhhhccchhhhhhhc
Confidence            77776644444    22345554444444332            234466777777777777777777777777777777


Q ss_pred             CChhhHHHHHHHHHHcCC
Q 038303          428 DRWEDTNKIRDEIRRMGL  445 (461)
Q Consensus       428 g~~~~A~~~~~~m~~~g~  445 (461)
                      |++.+|..+|.++.+...
T Consensus       660 g~~~~A~dIFsqVrEa~~  677 (1018)
T KOG2002|consen  660 GRFSEARDIFSQVREATS  677 (1018)
T ss_pred             cCchHHHHHHHHHHHHHh
Confidence            777777777777776654

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

Probab=99.69  E-value=7e-12  Score=113.14  Aligned_cols=427  Identities=10%  Similarity=0.025  Sum_probs=233.2

Q ss_pred             HHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhC--------CCCCceeHHHHHHHHH
Q 038303           16 ALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSV--------VFPDVVSWTTIISGLS   87 (461)
Q Consensus        16 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~--------~~~~~~~~~~li~~~~   87 (461)
                      |..++++..-++.|..+++..++. ++.+...|.+-...=-..|+.+...+++++.        ...+...|-.=...+-
T Consensus       412 LwlAlarLetYenAkkvLNkaRe~-iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e  490 (913)
T KOG0495|consen  412 LWLALARLETYENAKKVLNKAREI-IPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACE  490 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhh-CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHh
Confidence            455777888888888888888774 4557777777666666778888887777654        1112222222222233


Q ss_pred             cCCChHHHHHHHhcC---CCCC--CchhHHHHHHHhcccchhHHHH----------------------------------
Q 038303           88 KCGFHKEAIDMFCGI---DVKP--NANTLVSVLSACSSLVSHKLGK----------------------------------  128 (461)
Q Consensus        88 ~~~~~~~a~~~~~~m---~~~p--~~~~~~~ll~~~~~~~~~~~a~----------------------------------  128 (461)
                      ..|.+-.+..+....   |+.-  -..||..-...|.+.+.++-|.                                  
T Consensus       491 ~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqvfp~k~slWlra~~~ek~hgt~Esl~  570 (913)
T KOG0495|consen  491 DAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRESLE  570 (913)
T ss_pred             hcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHHHHH
Confidence            333333333333222   1111  1233444444444444444444                                  


Q ss_pred             HHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCCC---CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCC
Q 038303          129 AIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPK---RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKE  205 (461)
Q Consensus       129 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  205 (461)
                      .++++++..-++ ....|-...+-+-..|++..|..++...-+   .+...|-.-+.....+.+++.|..+|.+...   
T Consensus       571 Allqkav~~~pk-ae~lwlM~ake~w~agdv~~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llakar~---  646 (913)
T KOG0495|consen  571 ALLQKAVEQCPK-AEILWLMYAKEKWKAGDVPAARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKARS---  646 (913)
T ss_pred             HHHHHHHHhCCc-chhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhc---
Confidence            444444444322 333444444444444555555544444432   2233444444444445555555555555444   


Q ss_pred             CCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccC--C-ChhhHHH
Q 038303          206 AEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAY--K-DKISWST  282 (461)
Q Consensus       206 ~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~  282 (461)
                      ..|+...|..-+..-.-.+..++|.+++++..+  .++.-...|-.+.+.+-+.++++.|.+.|..-.+  | .+..|-.
T Consensus       647 ~sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk--~fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWll  724 (913)
T KOG0495|consen  647 ISGTERVWMKSANLERYLDNVEEALRLLEEALK--SFPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLL  724 (913)
T ss_pred             cCCcchhhHHHhHHHHHhhhHHHHHHHHHHHHH--hCCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHH
Confidence            334444444444444444455555555544444  2222233444444445555555555555544332  2 2333444


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcC
Q 038303          283 VISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAG  362 (461)
Q Consensus       283 l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  362 (461)
                      +...--+.|.+-+|..++++..-.+.. +...|-..|+.=.+.|+.+.|..+..+..+  .++.+...|..-|....+.+
T Consensus       725 LakleEk~~~~~rAR~ildrarlkNPk-~~~lwle~Ir~ElR~gn~~~a~~lmakALQ--ecp~sg~LWaEaI~le~~~~  801 (913)
T KOG0495|consen  725 LAKLEEKDGQLVRARSILDRARLKNPK-NALLWLESIRMELRAGNKEQAELLMAKALQ--ECPSSGLLWAEAIWLEPRPQ  801 (913)
T ss_pred             HHHHHHHhcchhhHHHHHHHHHhcCCC-cchhHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCccchhHHHHHHhccCcc
Confidence            444444455555555555555544332 444555555555555555555555555544  34445555555555555555


Q ss_pred             CHHHHHHHHHhCCCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHH
Q 038303          363 LLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRR  442 (461)
Q Consensus       363 ~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  442 (461)
                      +-......+++.  ..|++....+...+....+++.|.+-|.+.....|.+..+|..+.+.+.+.|.-++-.+++.+...
T Consensus       802 rkTks~DALkkc--e~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d~GD~wa~fykfel~hG~eed~kev~~~c~~  879 (913)
T KOG0495|consen  802 RKTKSIDALKKC--EHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPDNGDAWAWFYKFELRHGTEEDQKEVLKKCET  879 (913)
T ss_pred             cchHHHHHHHhc--cCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCccchHHHHHHHHHHHhCCHHHHHHHHHHHhc
Confidence            544444444444  345555666677788899999999999999999999999999999999999999999999988866


Q ss_pred             cCCccccCcccccc
Q 038303          443 MGLKKKTGCSWIEV  456 (461)
Q Consensus       443 ~g~~~~~~~~~~~~  456 (461)
                      .  .|.-|..|.-|
T Consensus       880 ~--EP~hG~~W~av  891 (913)
T KOG0495|consen  880 A--EPTHGELWQAV  891 (913)
T ss_pred             c--CCCCCcHHHHH
Confidence            4  45555555543

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.68  E-value=5.2e-13  Score=114.39  Aligned_cols=345  Identities=7%  Similarity=0.010  Sum_probs=184.8

Q ss_pred             CcchHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhC----CCCCceeHHHHHH
Q 038303            9 NHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSV----VFPDVVSWTTIIS   84 (461)
Q Consensus         9 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~~li~   84 (461)
                      +..+|..+|.++|+-...+.|..++++-.+...+.+..++|.+|.+-.-..+    .+++.+|    ..||..++|+++.
T Consensus       206 T~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisqkm~Pnl~TfNalL~  281 (625)
T KOG4422|consen  206 TDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----KKLVAEMISQKMTPNLFTFNALLS  281 (625)
T ss_pred             CchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----HHHHHHHHHhhcCCchHhHHHHHH
Confidence            4556667777776666666677776666666556666666666655433222    3444444    4566777777777


Q ss_pred             HHHcCCChHHHH----HHHhcC---CCCCCchhHHHHHHHhcccchhHH-HHHHHHHHHh----hcCCC----ChhHHHH
Q 038303           85 GLSKCGFHKEAI----DMFCGI---DVKPNANTLVSVLSACSSLVSHKL-GKAIHAHSLR----NLNEN----NIILDNA  148 (461)
Q Consensus        85 ~~~~~~~~~~a~----~~~~~m---~~~p~~~~~~~ll~~~~~~~~~~~-a~~~~~~~~~----~~~~~----~~~~~~~  148 (461)
                      +..+.|+++.|.    +++-+|   |+.|...+|..+|..+.+.++..+ +..+..+...    ..++|    +...+.+
T Consensus       282 c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~  361 (625)
T KOG4422|consen  282 CAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQS  361 (625)
T ss_pred             HHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHH
Confidence            666666655433    333444   667776677666666666655433 2222222221    12222    3334455


Q ss_pred             HHHHHHHcCChhhHHHHHhcCCC--------Cc---hhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHH
Q 038303          149 ILDFYIRCGSLASCGYLFVKMPK--------RN---VVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVL  217 (461)
Q Consensus       149 l~~~~~~~g~~~~a~~~~~~~~~--------~~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l  217 (461)
                      .+..|.+..+.+-|.++-.-...        ++   ..-|..+....+.....+.-...|+.|.-.- .-|+..+...++
T Consensus       362 AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~-y~p~~~~m~~~l  440 (625)
T KOG4422|consen  362 AMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSA-YFPHSQTMIHLL  440 (625)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccce-ecCCchhHHHHH
Confidence            55566666666666555443332        11   1234445555566666666666666666554 566666666666


Q ss_pred             HHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCCChhh---HHHHHHHHHhcCChH
Q 038303          218 SACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKIS---WSTVISGLAMNGCGR  294 (461)
Q Consensus       218 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~  294 (461)
                      .+....+.++...+++..+.. .|..-+.....-++..+++..-            .|+...   +.....- +...-.+
T Consensus       441 rA~~v~~~~e~ipRiw~D~~~-~ght~r~~l~eeil~~L~~~k~------------hp~tp~r~Ql~~~~ak-~aad~~e  506 (625)
T KOG4422|consen  441 RALDVANRLEVIPRIWKDSKE-YGHTFRSDLREEILMLLARDKL------------HPLTPEREQLQVAFAK-CAADIKE  506 (625)
T ss_pred             HHHhhcCcchhHHHHHHHHHH-hhhhhhHHHHHHHHHHHhcCCC------------CCCChHHHHHHHHHHH-HHHHHHH
Confidence            666666666666666666655 4433332222222222222110            111110   1111111 1111122


Q ss_pred             HHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHH---HHHHHHhhcCCHHHHHHHH
Q 038303          295 QALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYA---CVVDMYGRAGLLEEAEAFI  371 (461)
Q Consensus       295 ~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---~l~~~~~~~g~~~~A~~~~  371 (461)
                      .....-.+|.+..+.  ....+.+.-.+.+.|+.++|.++|..+.+...-.|-....+   -+++.-.+.+....|...+
T Consensus       507 ~~e~~~~R~r~~~~~--~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~l  584 (625)
T KOG4422|consen  507 AYESQPIRQRAQDWP--ATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVL  584 (625)
T ss_pred             HHHhhHHHHHhccCC--hhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHH
Confidence            222333445544443  34555666667888888888888888855333334444444   4555566777888888888


Q ss_pred             HhC
Q 038303          372 REM  374 (461)
Q Consensus       372 ~~~  374 (461)
                      +-|
T Consensus       585 Q~a  587 (625)
T KOG4422|consen  585 QLA  587 (625)
T ss_pred             HHH
Confidence            877

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

Probab=99.68  E-value=6.4e-12  Score=113.39  Aligned_cols=410  Identities=10%  Similarity=0.024  Sum_probs=304.3

Q ss_pred             hhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhC---CCCCceeHHHHHHHHHcCCChHHHHHH
Q 038303           22 LAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSV---VFPDVVSWTTIISGLSKCGFHKEAIDM   98 (461)
Q Consensus        22 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~~~~~~~~li~~~~~~~~~~~a~~~   98 (461)
                      ...+.+.|..++....+.- +.+..    |.-+|++..-++.|..++++.   ++.+...|-+-...=-.+|+.+...++
T Consensus       388 elE~~~darilL~rAvecc-p~s~d----LwlAlarLetYenAkkvLNkaRe~iptd~~IWitaa~LEE~ngn~~mv~ki  462 (913)
T KOG0495|consen  388 ELEEPEDARILLERAVECC-PQSMD----LWLALARLETYENAKKVLNKAREIIPTDREIWITAAKLEEANGNVDMVEKI  462 (913)
T ss_pred             hccChHHHHHHHHHHHHhc-cchHH----HHHHHHHHHHHHHHHHHHHHHHhhCCCChhHHHHHHHHHHhcCCHHHHHHH
Confidence            3444555666666666632 11222    334566677777888887766   566777787766666678888887777


Q ss_pred             HhcC-------CCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCC--ChhHHHHHHHHHHHcCChhhHHHHHhcC
Q 038303           99 FCGI-------DVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNEN--NIILDNAILDFYIRCGSLASCGYLFVKM  169 (461)
Q Consensus        99 ~~~m-------~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~  169 (461)
                      +.+-       |+..+...|..=..+|-..|..-.+..+....+..|++-  -..+|+.-...|.+.+.++-|..+|...
T Consensus       463 i~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~a  542 (913)
T KOG0495|consen  463 IDRGLSELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHA  542 (913)
T ss_pred             HHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHH
Confidence            7654       888888888888888888888888888888888887653  2467788888888888888888888887


Q ss_pred             CC---CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcc
Q 038303          170 PK---RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSN  246 (461)
Q Consensus       170 ~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  246 (461)
                      .+   .+...|......--..|..++...+|++....  ++-....+.......-..|++..|..++..+.+.  .+-+.
T Consensus       543 lqvfp~k~slWlra~~~ek~hgt~Esl~Allqkav~~--~pkae~lwlM~ake~w~agdv~~ar~il~~af~~--~pnse  618 (913)
T KOG0495|consen  543 LQVFPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQ--CPKAEILWLMYAKEKWKAGDVPAARVILDQAFEA--NPNSE  618 (913)
T ss_pred             HhhccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHh--CCCcH
Confidence            76   45667777777767778888888899988885  5555555555566677778999999988888772  22256


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHcc--CCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH-hHHHHHHHHHH
Q 038303          247 LVGNAVINMYVKCGDVGIAIQVFNMLA--YKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDD-VTFIALISACS  323 (461)
Q Consensus       247 ~~~~~li~~~~~~g~~~~a~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~ll~~~~  323 (461)
                      .++-.-+........++.|..+|.+..  .++...|.--+...--.++.++|.+++++..+.  -|+. ..|..+.+.+.
T Consensus       619 eiwlaavKle~en~e~eraR~llakar~~sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e  696 (913)
T KOG0495|consen  619 EIWLAAVKLEFENDELERARDLLAKARSISGTERVWMKSANLERYLDNVEEALRLLEEALKS--FPDFHKLWLMLGQIEE  696 (913)
T ss_pred             HHHHHHHHHhhccccHHHHHHHHHHHhccCCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh--CCchHHHHHHHhHHHH
Confidence            677788888888888999999997766  456677777777777778889999999888774  4555 56667777788


Q ss_pred             cCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC--CCCchhhHHHHHHHHHHhcCChHHHHH
Q 038303          324 HGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM--PIEAEWSVWGALLNACRIHRNDEMFDR  401 (461)
Q Consensus       324 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~~~~~~a~~  401 (461)
                      +.++++.|...|..-.+  .++-.+-.|-.|.+.=-+.|.+-.|..++++.  +.+.+...|-..|+.-.+.|+.+.|..
T Consensus       697 ~~~~ie~aR~aY~~G~k--~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNPk~~~lwle~Ir~ElR~gn~~~a~~  774 (913)
T KOG0495|consen  697 QMENIEMAREAYLQGTK--KCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNPKNALLWLESIRMELRAGNKEQAEL  774 (913)
T ss_pred             HHHHHHHHHHHHHhccc--cCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCCCcchhHHHHHHHHHHcCCHHHHHH
Confidence            88888888888866554  45555667777777777888888899998887  444567788888888888888888888


Q ss_pred             HHHHHhhcCCC------------------------------ChhHHHHHHHHHhccCChhhHHHHHHHHHHcC
Q 038303          402 IRQDLVNKKGV------------------------------SVGTFALMSNTFAGADRWEDTNKIRDEIRRMG  444 (461)
Q Consensus       402 ~~~~~~~~~~~------------------------------~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  444 (461)
                      +..++.+..|.                              |+.+...++..|....+++.|.+.|.+....+
T Consensus       775 lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d  847 (913)
T KOG0495|consen  775 LMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKD  847 (913)
T ss_pred             HHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccC
Confidence            88877765443                              55666777777777888888888888876644

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.67  E-value=2.7e-12  Score=111.85  Aligned_cols=403  Identities=10%  Similarity=0.012  Sum_probs=256.3

Q ss_pred             HHHHHHhhCCHHHHHHHHHHHHHhCCCcc-HHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCce---eHHHHHHHHHcCCC
Q 038303           16 ALKACSLAHPHQKALEIHAHVIEYGHLHD-IFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVV---SWTTIISGLSKCGF   91 (461)
Q Consensus        16 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~li~~~~~~~~   91 (461)
                      .-+-|.+.|.+++|++.+.+.++..  |+ +..|.....+|...|+|+++.+---+..+-++.   .+..-.+++-..|+
T Consensus       121 ~GN~~f~~kkY~eAIkyY~~AI~l~--p~epiFYsNraAcY~~lgd~~~Vied~TkALEl~P~Y~KAl~RRA~A~E~lg~  198 (606)
T KOG0547|consen  121 KGNKFFRNKKYDEAIKYYTQAIELC--PDEPIFYSNRAACYESLGDWEKVIEDCTKALELNPDYVKALLRRASAHEQLGK  198 (606)
T ss_pred             hhhhhhhcccHHHHHHHHHHHHhcC--CCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcCcHHHHHHHHHHHHHHhhcc
Confidence            3455778899999999999998854  56 778888888899999999988877766544443   33334456666777


Q ss_pred             hHHHHHHHhcCCCCCCchhHHHHHHHhcccchhHHHHHHHHH--------HHhhcCCCChhHHHHHHHHHHHcCChhhHH
Q 038303           92 HKEAIDMFCGIDVKPNANTLVSVLSACSSLVSHKLGKAIHAH--------SLRNLNENNIILDNAILDFYIRCGSLASCG  163 (461)
Q Consensus        92 ~~~a~~~~~~m~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~--------~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  163 (461)
                      +++|+.-.          |...++..+....-...+.+++..        -.+.+-+|.... .+.+..|...=..+--.
T Consensus       199 ~~eal~D~----------tv~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS-~~fi~syf~sF~~~~~~  267 (606)
T KOG0547|consen  199 FDEALFDV----------TVLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPS-ATFIASYFGSFHADPKP  267 (606)
T ss_pred             HHHHHHhh----------hHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCc-HHHHHHHHhhccccccc
Confidence            77776433          333333333332222223333222        122111222222 12222222110000000


Q ss_pred             HHHhcCCCCchhHHHHHHHHHH--hcC---ChHHHHHHHHHHHhcCCCCCChh----hHHHHHHH-------hhccchhh
Q 038303          164 YLFVKMPKRNVVSWTTMIGGYA--ERG---FCKEAVSVFQEMEKTKEAEPNEA----TLVNVLSA-------CSSISALS  227 (461)
Q Consensus       164 ~~~~~~~~~~~~~~~~li~~~~--~~~---~~~~a~~~~~~m~~~~~~~~~~~----~~~~~l~~-------~~~~~~~~  227 (461)
                      .    +..+....+..+..++-  ..+   .+..|...+.+-.......++..    -...+..+       +.-.|+.-
T Consensus       268 ~----~~~~~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~  343 (606)
T KOG0547|consen  268 L----FDNKSDKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSL  343 (606)
T ss_pred             c----ccCCCccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCch
Confidence            0    00011111222221111  111   24444444443322111112111    00112222       34457788


Q ss_pred             hHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccC---CChhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 038303          228 FGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAY---KDKISWSTVISGLAMNGCGRQALQLFSLMI  304 (461)
Q Consensus       228 ~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  304 (461)
                      .+..-|+...+ .. +.+...|--+..+|....+.++.+..|+....   .|+.+|..-.+...-.+++++|..=|++.+
T Consensus       344 ~a~~d~~~~I~-l~-~~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~aDF~Kai  421 (606)
T KOG0547|consen  344 GAQEDFDAAIK-LD-PAFNSLYIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAIADFQKAI  421 (606)
T ss_pred             hhhhhHHHHHh-cC-cccchHHHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHHHHHHHHh
Confidence            88888888877 22 22223366777789999999999999988773   367888888888888899999999999998


Q ss_pred             hcCCCCC-HhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCch---
Q 038303          305 INAVFPD-DVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAE---  379 (461)
Q Consensus       305 ~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~---  379 (461)
                      ..  .|. ...|..+.-+..+.+++++++..|++..+  .++-.+..|+...+.+...++++.|.+.|+.. ...|+   
T Consensus       422 ~L--~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kk--kFP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~  497 (606)
T KOG0547|consen  422 SL--DPENAYAYIQLCCALYRQHKIAESMKTFEEAKK--KFPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHL  497 (606)
T ss_pred             hc--ChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hCCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhcccccc
Confidence            74  343 35666666666788999999999999988  67788899999999999999999999999987 44443   


Q ss_pred             ------hhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHH
Q 038303          380 ------WSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRR  442 (461)
Q Consensus       380 ------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  442 (461)
                            +.+.-.++-.-. .+++..|..+++++++.+|....+|..|+..-.+.|+.++|+++|++-..
T Consensus       498 ~~v~~~plV~Ka~l~~qw-k~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  498 IIVNAAPLVHKALLVLQW-KEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             ccccchhhhhhhHhhhch-hhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence                  222222232222 39999999999999999999999999999999999999999999998643

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

Probab=99.66  E-value=2.9e-13  Score=126.28  Aligned_cols=316  Identities=11%  Similarity=0.028  Sum_probs=214.4

Q ss_pred             ccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCC---CCchhHHHHHHHHHHhcCChHHHHHH
Q 038303          120 SLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMP---KRNVVSWTTMIGGYAERGFCKEAVSV  196 (461)
Q Consensus       120 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~  196 (461)
                      ..|++++|.+++.+.++..+. +...|.+|...|-..|+.+++...+-...   ..|...|-.+..-..+.|++++|.-+
T Consensus       151 arg~~eeA~~i~~EvIkqdp~-~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls~~~~~i~qA~~c  229 (895)
T KOG2076|consen  151 ARGDLEEAEEILMEVIKQDPR-NPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLSEQLGNINQARYC  229 (895)
T ss_pred             HhCCHHHHHHHHHHHHHhCcc-chhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcccHHHHHHH
Confidence            347777777777777666544 55666667777777777766665554332   24556666666666667777777777


Q ss_pred             HHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcch----HHHHHHHHHHhcCCHHHHHHHHHHc
Q 038303          197 FQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNL----VGNAVINMYVKCGDVGIAIQVFNML  272 (461)
Q Consensus       197 ~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----~~~~li~~~~~~g~~~~a~~~~~~~  272 (461)
                      |.+.++.  .+++...+---...|-+.|+...|..-|.++....+ +.|..    .....++.+...++.+.|.+.++..
T Consensus       230 y~rAI~~--~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p-~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~  306 (895)
T KOG2076|consen  230 YSRAIQA--NPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDP-PVDIERIEDLIRRVAHYFITHNERERAAKALEGA  306 (895)
T ss_pred             HHHHHhc--CCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCC-chhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            7777664  344444444445556666777777666666655211 11111    1233455566666667777777665


Q ss_pred             cC-----CChhhHHHHHHHHHhcCChHHHHHHHHHHHhcC---------------------------CCCCHhHHHHHHH
Q 038303          273 AY-----KDKISWSTVISGLAMNGCGRQALQLFSLMIINA---------------------------VFPDDVTFIALIS  320 (461)
Q Consensus       273 ~~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g---------------------------~~p~~~~~~~ll~  320 (461)
                      ..     -+...++.++..+.+...++.|......+....                           ..++... -.+.-
T Consensus       307 ~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v-~rl~i  385 (895)
T KOG2076|consen  307 LSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRV-IRLMI  385 (895)
T ss_pred             HhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchh-HhHhh
Confidence            53     144567777777777777777777776665521                           1222222 12333


Q ss_pred             HHHcCCChHHHHHHHHHhHhhcCCC--CCcchHHHHHHHHhhcCCHHHHHHHHHhCC-CCc--hhhHHHHHHHHHHhcCC
Q 038303          321 ACSHGGLVDQGLILFKAMSTVYEIV--PQMQHYACVVDMYGRAGLLEEAEAFIREMP-IEA--EWSVWGALLNACRIHRN  395 (461)
Q Consensus       321 ~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p--~~~~~~~l~~~~~~~~~  395 (461)
                      ++.+....+....+...... ..+.  -+...|.-+.++|...|++.+|+.+|..+. ..+  +...|-.+..+|...|.
T Consensus       386 cL~~L~~~e~~e~ll~~l~~-~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e  464 (895)
T KOG2076|consen  386 CLVHLKERELLEALLHFLVE-DNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGE  464 (895)
T ss_pred             hhhcccccchHHHHHHHHHH-hcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhh
Confidence            45555666666666666665 4533  347788899999999999999999999992 222  34578888889999999


Q ss_pred             hHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHH
Q 038303          396 DEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIR  441 (461)
Q Consensus       396 ~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  441 (461)
                      +++|++.+++++...|.+..+-..|...+.+.|+.++|.++++.+.
T Consensus       465 ~e~A~e~y~kvl~~~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~  510 (895)
T KOG2076|consen  465 YEEAIEFYEKVLILAPDNLDARITLASLYQQLGNHEKALETLEQII  510 (895)
T ss_pred             HHHHHHHHHHHHhcCCCchhhhhhHHHHHHhcCCHHHHHHHHhccc
Confidence            9999999999999999999999999999999999999999999876

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.66  E-value=2e-13  Score=125.05  Aligned_cols=284  Identities=9%  Similarity=-0.030  Sum_probs=172.1

Q ss_pred             CCChHHHHHHHhcC-CCCCCchhHHH-HHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHH
Q 038303           89 CGFHKEAIDMFCGI-DVKPNANTLVS-VLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLF  166 (461)
Q Consensus        89 ~~~~~~a~~~~~~m-~~~p~~~~~~~-ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  166 (461)
                      .|+++.|.+.+... ...+++..+.. ...+..+.|+.+.+.+.+.++.+....+...........+...|++++|...+
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~~~~~~~~~l~~a~l~l~~g~~~~Al~~l  176 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAELADNDQLPVEITRVRIQLARNENHAARHGV  176 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            46666666555544 11111122211 12223455566666666665554322221122122244555555665555555


Q ss_pred             hcCCC---CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCC
Q 038303          167 VKMPK---RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLS  243 (461)
Q Consensus       167 ~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~  243 (461)
                      +++.+   .+......+...|.+.|++++|.+++..+.+.+ ..+ ......+-                          
T Consensus       177 ~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~-~~~-~~~~~~l~--------------------------  228 (398)
T PRK10747        177 DKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAH-VGD-EEHRAMLE--------------------------  228 (398)
T ss_pred             HHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcC-CCC-HHHHHHHH--------------------------
Confidence            55543   234445555555566666666666666655543 111 11110000                          


Q ss_pred             CcchHHHHHHHHHHhcCCHHHHHHHHHHccC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHH
Q 038303          244 VSNLVGNAVINMYVKCGDVGIAIQVFNMLAY---KDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALIS  320 (461)
Q Consensus       244 ~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~  320 (461)
                        ...+..++.......+.+...++++.+.+   .++.....+...+...|+.++|.+++++..+.  .|+...  .++.
T Consensus       229 --~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l--~~l~  302 (398)
T PRK10747        229 --QQAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERL--VLLI  302 (398)
T ss_pred             --HHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHH--HHHH
Confidence              01222333333444556666666666653   36777888888899999999999999888774  344422  2334


Q ss_pred             HHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCchhhHHHHHHHHHHhcCChHHH
Q 038303          321 ACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAEWSVWGALLNACRIHRNDEMF  399 (461)
Q Consensus       321 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a  399 (461)
                      +....++.+++.+..+...+  ..+-|...+..+...+.+.|++++|.+.|+.. ...|+...+..+...+.+.|+.++|
T Consensus       303 ~~l~~~~~~~al~~~e~~lk--~~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~~~~~La~~~~~~g~~~~A  380 (398)
T PRK10747        303 PRLKTNNPEQLEKVLRQQIK--QHGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAYDYAWLADALDRLHKPEEA  380 (398)
T ss_pred             hhccCCChHHHHHHHHHHHh--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHH
Confidence            44566889999999988877  45566677888889999999999999999988 7778888888888889999999999


Q ss_pred             HHHHHHHhh
Q 038303          400 DRIRQDLVN  408 (461)
Q Consensus       400 ~~~~~~~~~  408 (461)
                      .+++++...
T Consensus       381 ~~~~~~~l~  389 (398)
T PRK10747        381 AAMRRDGLM  389 (398)
T ss_pred             HHHHHHHHh
Confidence            999988865

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

Probab=99.66  E-value=6.3e-12  Score=117.58  Aligned_cols=431  Identities=12%  Similarity=0.071  Sum_probs=298.8

Q ss_pred             cchHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhC---CCCCceeHHHHHHHH
Q 038303           10 HYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSV---VFPDVVSWTTIISGL   86 (461)
Q Consensus        10 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~~~~~~~~li~~~   86 (461)
                      ....-...+.+...|+.++|.+++.+.++..+. ....|-.|...|-..|+.+++...+--.   .+.|...|-.+-...
T Consensus       139 l~~ll~eAN~lfarg~~eeA~~i~~EvIkqdp~-~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls  217 (895)
T KOG2076|consen  139 LRQLLGEANNLFARGDLEEAEEILMEVIKQDPR-NPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLS  217 (895)
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcc-chhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHH
Confidence            333444444555569999999999999998754 7788999999999999999998877443   566778899999999


Q ss_pred             HcCCChHHHHHHHhcC-CCCC-CchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHH----HHHHHHHHHcCChh
Q 038303           87 SKCGFHKEAIDMFCGI-DVKP-NANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILD----NAILDFYIRCGSLA  160 (461)
Q Consensus        87 ~~~~~~~~a~~~~~~m-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~g~~~  160 (461)
                      .+.|++++|.-+|.+. ...| +...+---...|-+.|+...|.+-|.++....++.+..-.    ...++.+...++-+
T Consensus       218 ~~~~~i~qA~~cy~rAI~~~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e  297 (895)
T KOG2076|consen  218 EQLGNINQARYCYSRAIQANPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERE  297 (895)
T ss_pred             HhcccHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHH
Confidence            9999999999999998 5555 4445555667788999999999999999998664333322    33456677777778


Q ss_pred             hHHHHHhcCCC-----CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCC----------------------hhhH
Q 038303          161 SCGYLFVKMPK-----RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPN----------------------EATL  213 (461)
Q Consensus       161 ~a~~~~~~~~~-----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~----------------------~~~~  213 (461)
                      .|.+.++....     -+...++.++..+.+...++.|......+.... ..+|                      ...|
T Consensus       298 ~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~-~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~  376 (895)
T KOG2076|consen  298 RAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRE-SEKDDSEWDTDERRREEPNALCEVGKELSY  376 (895)
T ss_pred             HHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccc-cCCChhhhhhhhhccccccccccCCCCCCc
Confidence            88888877754     355678899999999999999999988887611 1111                      1111


Q ss_pred             H----HHHHHhhccchhhhHHHHHHHHHhhcC--CCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCC----ChhhHHHH
Q 038303          214 V----NVLSACSSISALSFGKYVHSYISTRYD--LSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYK----DKISWSTV  283 (461)
Q Consensus       214 ~----~~l~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~~~~l  283 (461)
                      .    .+.-++......+....+...+.. ..  ..-+...|.-+..+|...|++.+|..+|..+...    +...|-.+
T Consensus       377 ~l~v~rl~icL~~L~~~e~~e~ll~~l~~-~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~  455 (895)
T KOG2076|consen  377 DLRVIRLMICLVHLKERELLEALLHFLVE-DNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKL  455 (895)
T ss_pred             cchhHhHhhhhhcccccchHHHHHHHHHH-hcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHH
Confidence            1    223334455555555556666655 44  3344567888999999999999999999998853    56789999


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCCCCCH-hHHHHHHHHHHcCCChHHHHHHHHHhHh-------hcCCCCCcchHHHHH
Q 038303          284 ISGLAMNGCGRQALQLFSLMIINAVFPDD-VTFIALISACSHGGLVDQGLILFKAMST-------VYEIVPQMQHYACVV  355 (461)
Q Consensus       284 ~~~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~~l~  355 (461)
                      ..+|-..|..+.|.+.|+.....  .|+. ..-..|-..+.+.|+.++|.+.++.+..       ..+..|+........
T Consensus       456 a~c~~~l~e~e~A~e~y~kvl~~--~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~  533 (895)
T KOG2076|consen  456 ARCYMELGEYEEAIEFYEKVLIL--APDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRC  533 (895)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhc--CCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHH
Confidence            99999999999999999999884  4544 4455666678889999999999988532       134555666666667


Q ss_pred             HHHhhcCCHHHHHHHHHhC--------CCCc-----------------hhhHHHHHHHHHHhcCChHHHHHHHHHH----
Q 038303          356 DMYGRAGLLEEAEAFIREM--------PIEA-----------------EWSVWGALLNACRIHRNDEMFDRIRQDL----  406 (461)
Q Consensus       356 ~~~~~~g~~~~A~~~~~~~--------~~~p-----------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~----  406 (461)
                      ..+.+.|+.++=......|        -+-|                 .......++.+-.+.++..........-    
T Consensus       534 d~l~~~gk~E~fi~t~~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~d~~~~~  613 (895)
T KOG2076|consen  534 DILFQVGKREEFINTASTLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKATDDNVMEKALSDGTEFR  613 (895)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHHhccCchHHhhhcccchhhhh
Confidence            7788888887755444433        0001                 1111122222222333322222211111    


Q ss_pred             ----hhcCCCC-hhHHHHHHHHHhccCChhhHHHHHHHHHHcCC
Q 038303          407 ----VNKKGVS-VGTFALMSNTFAGADRWEDTNKIRDEIRRMGL  445 (461)
Q Consensus       407 ----~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~  445 (461)
                          ......+ -..+..++..+.+.+++++|+.+...+.+..+
T Consensus       614 ~~e~~~Lsiddwfel~~e~i~~L~k~~r~qeAl~vv~~a~~~~~  657 (895)
T KOG2076|consen  614 AVELRGLSIDDWFELFRELILSLAKLQRVQEALSVVFTALEAYI  657 (895)
T ss_pred             hhhhccCcHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhh
Confidence                0011111 13556677788999999999999988876544

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

Probab=99.65  E-value=8.4e-16  Score=134.54  Aligned_cols=256  Identities=13%  Similarity=0.056  Sum_probs=110.3

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHH-HHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhc
Q 038303          181 IGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVN-VLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKC  259 (461)
Q Consensus       181 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~-~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~  259 (461)
                      ...+.+.|++++|++++++..... .+|+...|-. +...+...++.+.|...++.+.. .+.. ++..+..++.. ...
T Consensus        15 A~~~~~~~~~~~Al~~L~~~~~~~-~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~-~~~~-~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   15 ARLLYQRGDYEKALEVLKKAAQKI-APPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLA-SDKA-NPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccc-cccccccccccccccccccccccccccccccccc-cccc-ccccccccccc-ccc
Confidence            334445555555555554333221 1233333222 22333444555555555555544 2211 34445566665 678


Q ss_pred             CCHHHHHHHHHHccC--CChhhHHHHHHHHHhcCChHHHHHHHHHHHhcC-CCCCHhHHHHHHHHHHcCCChHHHHHHHH
Q 038303          260 GDVGIAIQVFNMLAY--KDKISWSTVISGLAMNGCGRQALQLFSLMIINA-VFPDDVTFIALISACSHGGLVDQGLILFK  336 (461)
Q Consensus       260 g~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  336 (461)
                      +++++|.++++..-+  ++...+...+..+.+.++++++.+++++..... ..++...|..+...+.+.|+.++|++.++
T Consensus        91 ~~~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~  170 (280)
T PF13429_consen   91 GDPEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYR  170 (280)
T ss_dssp             ---------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHH
T ss_pred             ccccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            888888888876543  456667778888889999999999999977543 34566777888888999999999999999


Q ss_pred             HhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC--CCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCh
Q 038303          337 AMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM--PIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSV  414 (461)
Q Consensus       337 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  414 (461)
                      +..+  -.|.+......++..+...|+.+++.++++..  ..+.++..+..+..++...|+.++|...+++.....|.|+
T Consensus       171 ~al~--~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d~  248 (280)
T PF13429_consen  171 KALE--LDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDDP  248 (280)
T ss_dssp             HHHH--H-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-H
T ss_pred             HHHH--cCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhcccccccccccccccccccccccc
Confidence            9987  23345778888999999999999988888777  2234556778888889999999999999999999999999


Q ss_pred             hHHHHHHHHHhccCChhhHHHHHHHHHH
Q 038303          415 GTFALMSNTFAGADRWEDTNKIRDEIRR  442 (461)
Q Consensus       415 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~  442 (461)
                      .+...++.++...|+.++|.++.++..+
T Consensus       249 ~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  249 LWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HHHHHHHHHHT-----------------
T ss_pred             cccccccccccccccccccccccccccc
Confidence            9999999999999999999999887643

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.63  E-value=1.3e-12  Score=119.71  Aligned_cols=276  Identities=9%  Similarity=0.018  Sum_probs=196.0

Q ss_pred             cCChhhHHHHHhcCCCC--chhHHHHH-HHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHH--HHHHHhhccchhhhHH
Q 038303          156 CGSLASCGYLFVKMPKR--NVVSWTTM-IGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLV--NVLSACSSISALSFGK  230 (461)
Q Consensus       156 ~g~~~~a~~~~~~~~~~--~~~~~~~l-i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~--~~l~~~~~~~~~~~a~  230 (461)
                      .|++++|++.+....+.  +...+..+ .....+.|+++.|...+.++.+   ..|+.....  .....+...|+++.|.
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            57777777777765442  22222222 3344677788888888887766   555554333  2245667778888888


Q ss_pred             HHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCCCh-----------hhHHHHHHHHHhcCChHHHHHH
Q 038303          231 YVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDK-----------ISWSTVISGLAMNGCGRQALQL  299 (461)
Q Consensus       231 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~-----------~~~~~l~~~~~~~~~~~~a~~~  299 (461)
                      ..++.+.+  ..+-++.+...+...|.+.|++++|.+++..+.+...           ..|..++.......+.+...++
T Consensus       174 ~~l~~~~~--~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~  251 (398)
T PRK10747        174 HGVDKLLE--VAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRW  251 (398)
T ss_pred             HHHHHHHh--cCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            88777766  2344456677788888888888888888888774321           1333444444455566777777


Q ss_pred             HHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc
Q 038303          300 FSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA  378 (461)
Q Consensus       300 ~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p  378 (461)
                      ++.+.+. .+.+......+...+...|+.++|.+++++..+ .  +|+...  .++.+....++.+++.+..+.. +..|
T Consensus       252 w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~-~--~~~~~l--~~l~~~l~~~~~~~al~~~e~~lk~~P  325 (398)
T PRK10747        252 WKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLK-R--QYDERL--VLLIPRLKTNNPEQLEKVLRQQIKQHG  325 (398)
T ss_pred             HHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh-c--CCCHHH--HHHHhhccCCChHHHHHHHHHHHhhCC
Confidence            7776543 345778888899999999999999999998876 2  344432  2344445669999999999988 5556


Q ss_pred             hhh-HHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHc
Q 038303          379 EWS-VWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRM  443 (461)
Q Consensus       379 ~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  443 (461)
                      +.. ....+...|...+++++|.+.|+.+.+..|. ...+..+..++.+.|+.++|.+++++-...
T Consensus       326 ~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~-~~~~~~La~~~~~~g~~~~A~~~~~~~l~~  390 (398)
T PRK10747        326 DTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPD-AYDYAWLADALDRLHKPEEAAAMRRDGLML  390 (398)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            554 5667777799999999999999999987765 457889999999999999999999877543

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

Probab=99.62  E-value=2e-12  Score=111.73  Aligned_cols=386  Identities=12%  Similarity=0.056  Sum_probs=250.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhCCC----CCcee-HHHHHHHHHcCCChHHHHHHHhcC-CCCCCc------hhHHHHHHH
Q 038303           50 SLLHFYVTVKDIFSAHQIFNSVVF----PDVVS-WTTIISGLSKCGFHKEAIDMFCGI-DVKPNA------NTLVSVLSA  117 (461)
Q Consensus        50 ~ll~~~~~~~~~~~a~~~~~~~~~----~~~~~-~~~li~~~~~~~~~~~a~~~~~~m-~~~p~~------~~~~~ll~~  117 (461)
                      .|..-|.......+|+..|+-+++    ||.-. --.+.+.+.+..++.+|+++|+-. ...|+.      ...+.+.-.
T Consensus       206 nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~nigvt  285 (840)
T KOG2003|consen  206 NLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNIGVT  285 (840)
T ss_pred             HHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhcCee
Confidence            344455556778889888876643    33322 223456788899999999999766 333432      334555556


Q ss_pred             hcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCCC----------------CchhHHHH--
Q 038303          118 CSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPK----------------RNVVSWTT--  179 (461)
Q Consensus       118 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~----------------~~~~~~~~--  179 (461)
                      +.+.|.++.|..-|+...+.  .|+..+-..|+-++..-|+.++..+.|.+|..                |+....|.  
T Consensus       286 fiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~eai  363 (840)
T KOG2003|consen  286 FIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLNEAI  363 (840)
T ss_pred             EEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHHHHH
Confidence            88999999999999999886  35655555566677778999999999988863                23333322  


Q ss_pred             ---HHHHHHhcCC--hHHHHHHHHHHHhcCCCCCChhh-H------------H--------HHHHHhhccchhhhHHHHH
Q 038303          180 ---MIGGYAERGF--CKEAVSVFQEMEKTKEAEPNEAT-L------------V--------NVLSACSSISALSFGKYVH  233 (461)
Q Consensus       180 ---li~~~~~~~~--~~~a~~~~~~m~~~~~~~~~~~~-~------------~--------~~l~~~~~~~~~~~a~~~~  233 (461)
                         .+.-+-+.+.  .++++-.-.+++.-- +.|+-.. +            .        .-...+.+.|+++.|.+++
T Consensus       364 ~nd~lk~~ek~~ka~aek~i~ta~kiiapv-i~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~aieil  442 (840)
T KOG2003|consen  364 KNDHLKNMEKENKADAEKAIITAAKIIAPV-IAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGAIEIL  442 (840)
T ss_pred             hhHHHHHHHHhhhhhHHHHHHHHHHHhccc-cccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHHHHHH
Confidence               2222222222  222222222222211 2222110 0            0        0112267889999999999


Q ss_pred             HHHHhhcCCCCcchHHHHHHHH------------------------------------HHhcCCHHHHHHHHHHccCCCh
Q 038303          234 SYISTRYDLSVSNLVGNAVINM------------------------------------YVKCGDVGIAIQVFNMLAYKDK  277 (461)
Q Consensus       234 ~~~~~~~~~~~~~~~~~~li~~------------------------------------~~~~g~~~~a~~~~~~~~~~~~  277 (461)
                      +-+.++ ........-+.|...                                    ....|++++|.+.+.+....|.
T Consensus       443 kv~~~k-dnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn~~a~~nkgn~~f~ngd~dka~~~ykeal~nda  521 (840)
T KOG2003|consen  443 KVFEKK-DNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRYNAAALTNKGNIAFANGDLDKAAEFYKEALNNDA  521 (840)
T ss_pred             HHHHhc-cchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccCHHHhhcCCceeeecCcHHHHHHHHHHHHcCch
Confidence            888773 222222222222111                                    1134677788888877777665


Q ss_pred             hhHHHHHH---HHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHH
Q 038303          278 ISWSTVIS---GLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACV  354 (461)
Q Consensus       278 ~~~~~l~~---~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  354 (461)
                      ..-.+|..   .+-..|+.++|++.|-++..- +..+......+...|....+...|++++.....  -++.|+.+.+.|
T Consensus       522 sc~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~s--lip~dp~ilskl  598 (840)
T KOG2003|consen  522 SCTEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQANS--LIPNDPAILSKL  598 (840)
T ss_pred             HHHHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcc--cCCCCHHHHHHH
Confidence            54444433   356678999999988877543 233566777778888888999999999877755  567778999999


Q ss_pred             HHHHhhcCCHHHHHHHHHhC-CC-CchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHH-HHHhccCChh
Q 038303          355 VDMYGRAGLLEEAEAFIREM-PI-EAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMS-NTFAGADRWE  431 (461)
Q Consensus       355 ~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~-~~~~~~g~~~  431 (461)
                      ...|-+.|+-..|.+..-+- .. +.+..+..-|...|....-.+.++.+|++..-..| +..-|..++ .++.+.|++.
T Consensus       599 ~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp-~~~kwqlmiasc~rrsgnyq  677 (840)
T KOG2003|consen  599 ADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQP-NQSKWQLMIASCFRRSGNYQ  677 (840)
T ss_pred             HHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCc-cHHHHHHHHHHHHHhcccHH
Confidence            99999999999999876554 32 33555666666667778888999999999865555 445555554 5566789999


Q ss_pred             hHHHHHHHHHHc
Q 038303          432 DTNKIRDEIRRM  443 (461)
Q Consensus       432 ~A~~~~~~m~~~  443 (461)
                      .|.++++...++
T Consensus       678 ka~d~yk~~hrk  689 (840)
T KOG2003|consen  678 KAFDLYKDIHRK  689 (840)
T ss_pred             HHHHHHHHHHHh
Confidence            999999998765

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.61  E-value=1.2e-12  Score=121.79  Aligned_cols=127  Identities=16%  Similarity=0.060  Sum_probs=92.9

Q ss_pred             HHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhCC-----CCchhhHHHHHHHHHH
Q 038303          317 ALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMP-----IEAEWSVWGALLNACR  391 (461)
Q Consensus       317 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~p~~~~~~~l~~~~~  391 (461)
                      .++..|++.-+..+++..-++... .-++   ..|..||+.++...+.+.|..+.++..     ..-|..-+..+.....
T Consensus       464 ql~l~l~se~n~lK~l~~~ekye~-~lf~---g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~l~dLL~  539 (1088)
T KOG4318|consen  464 QLHLTLNSEYNKLKILCDEEKYED-LLFA---GLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTSLQDLLQ  539 (1088)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH-HHhh---hHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHHHHHHHH
Confidence            344445554555555544433333 1221   578889999999999999999998882     2345556777888888


Q ss_pred             hcCChHHHHHHHHHHhh---cCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcCCcc
Q 038303          392 IHRNDEMFDRIRQDLVN---KKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGLKK  447 (461)
Q Consensus       392 ~~~~~~~a~~~~~~~~~---~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~~  447 (461)
                      +.+....+..+++++.+   +.+....++..+.......|+.+...++.+-+...|+.-
T Consensus       540 r~~~l~dl~tiL~e~ks~a~n~~~~a~~~f~~lns~a~agqqe~Lkkl~d~lvslgl~e  598 (1088)
T KOG4318|consen  540 RLAILYDLSTILYEDKSSAENEPLVAIILFPLLNSGAPAGQQEKLKKLADILVSLGLSE  598 (1088)
T ss_pred             HhHHHHHHHHHHhhhhHHhhCCchHHHHHHHHHhhhhhccCHHHHHHHHHHHHHhhhhh
Confidence            89999999999998887   334456778888888899999999999999998888765

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

Probab=99.60  E-value=2e-11  Score=105.90  Aligned_cols=191  Identities=11%  Similarity=0.054  Sum_probs=131.0

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHccCCC---hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHH
Q 038303          247 LVGNAVINMYVKCGDVGIAIQVFNMLAYKD---KISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACS  323 (461)
Q Consensus       247 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~  323 (461)
                      .++..+.+-|+-.++.++|...|++..+-|   ...|+.+.+-|...++...|.+.++..++-.. -|-..|-.|.++|.
T Consensus       331 ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~p-~DyRAWYGLGQaYe  409 (559)
T KOG1155|consen  331 ETCCIIANYYSLRSEHEKAVMYFKRALKLNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDINP-RDYRAWYGLGQAYE  409 (559)
T ss_pred             cceeeehhHHHHHHhHHHHHHHHHHHHhcCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcCc-hhHHHHhhhhHHHH
Confidence            445666677777777778888777776433   35677777777777888888888887777532 25577777888888


Q ss_pred             cCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC--CCCchhhHHHHHHHHHHhcCChHHHHH
Q 038303          324 HGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM--PIEAEWSVWGALLNACRIHRNDEMFDR  401 (461)
Q Consensus       324 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~~~~~~a~~  401 (461)
                      -.+...-|+-+|++..+  --+-|...|.+|.++|.+.++.++|.+.|.+.  ....+...+..+...|.+.++.++|.+
T Consensus       410 im~Mh~YaLyYfqkA~~--~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~LakLye~l~d~~eAa~  487 (559)
T KOG1155|consen  410 IMKMHFYALYYFQKALE--LKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAKLYEELKDLNEAAQ  487 (559)
T ss_pred             HhcchHHHHHHHHHHHh--cCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhHHHHHH
Confidence            88888888888877765  23445777788888888888888888887777  222244567777777778888888877


Q ss_pred             HHHHHhh-------cCCCChhHHHHHHHHHhccCChhhHHHHHHHH
Q 038303          402 IRQDLVN-------KKGVSVGTFALMSNTFAGADRWEDTNKIRDEI  440 (461)
Q Consensus       402 ~~~~~~~-------~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  440 (461)
                      .+++-++       ..+....+..-|+.-+.+.+++++|.......
T Consensus       488 ~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~  533 (559)
T KOG1155|consen  488 YYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLV  533 (559)
T ss_pred             HHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHH
Confidence            7777665       11223334444666677777777776655444

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

Probab=99.60  E-value=2.1e-13  Score=123.22  Aligned_cols=281  Identities=10%  Similarity=-0.061  Sum_probs=211.7

Q ss_pred             ChhhHHHHHhcCCC--Cch-hHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CChhhHHHHHHHhhccchhhhHHHHH
Q 038303          158 SLASCGYLFVKMPK--RNV-VSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAE-PNEATLVNVLSACSSISALSFGKYVH  233 (461)
Q Consensus       158 ~~~~a~~~~~~~~~--~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~~~l~~~~~~~~~~~a~~~~  233 (461)
                      +..+|...|.+.++  +++ .+...+..+|...+++++|.++|+.+.+..... -+..+|.+.+--+-+    +.+...+
T Consensus       334 ~~~~A~~~~~klp~h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~----~v~Ls~L  409 (638)
T KOG1126|consen  334 NCREALNLFEKLPSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD----EVALSYL  409 (638)
T ss_pred             HHHHHHHHHHhhHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh----hHHHHHH
Confidence            45788888888654  333 445567788999999999999999998742111 134556655543321    1222222


Q ss_pred             HHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCC---ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC
Q 038303          234 SYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYK---DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFP  310 (461)
Q Consensus       234 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p  310 (461)
                      .+-.- ...+-.+.+|.++.++|.-+++.+.|++.|++..+-   ...+|+.+..-+....++|+|...|+..+..  .|
T Consensus       410 aq~Li-~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~--~~  486 (638)
T KOG1126|consen  410 AQDLI-DTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKALGV--DP  486 (638)
T ss_pred             HHHHH-hhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhhcC--Cc
Confidence            22222 244556789999999999999999999999998864   4578888888899999999999999998653  23


Q ss_pred             CH-hHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHH
Q 038303          311 DD-VTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALL  387 (461)
Q Consensus       311 ~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~  387 (461)
                      .. ..|--+...|.+.++++.|+-.|+++.+  --+.+......+...+.+.|+.++|+.+++++ ...| |+..----.
T Consensus       487 rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~--INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~  564 (638)
T KOG1126|consen  487 RHYNAWYGLGTVYLKQEKLEFAEFHFQKAVE--INPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRA  564 (638)
T ss_pred             hhhHHHHhhhhheeccchhhHHHHHHHhhhc--CCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHH
Confidence            22 4455566779999999999999999976  22345667777888899999999999999998 3333 333333344


Q ss_pred             HHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcCCcc
Q 038303          388 NACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGLKK  447 (461)
Q Consensus       388 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~~  447 (461)
                      ..+...+++++|.+.++++++..|.+..+|..+++.|.+.|+.+.|+.-|.-+.+...++
T Consensus       565 ~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpkg  624 (638)
T KOG1126|consen  565 SILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDPKG  624 (638)
T ss_pred             HHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCcc
Confidence            557788999999999999999999999999999999999999999999998887755443

>TIGR00540 hemY_coli hemY protein

Probab=99.60  E-value=1.9e-12  Score=119.34  Aligned_cols=287  Identities=9%  Similarity=-0.010  Sum_probs=175.1

Q ss_pred             cCCChHHHHHHHhcC-CCCCCchhH-HHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHH
Q 038303           88 KCGFHKEAIDMFCGI-DVKPNANTL-VSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYL  165 (461)
Q Consensus        88 ~~~~~~~a~~~~~~m-~~~p~~~~~-~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  165 (461)
                      ..|+++.|.+.+.+. ...|+...+ -....+....|+.+.+.+.+....+..+.+...........+...|++++|...
T Consensus        96 ~~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~~  175 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARHG  175 (409)
T ss_pred             hCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHHH
Confidence            456777777776665 444543332 223344556667777777776665544333323333345556666666666666


Q ss_pred             HhcCCC--C-chhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCC
Q 038303          166 FVKMPK--R-NVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDL  242 (461)
Q Consensus       166 ~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~  242 (461)
                      ++.+.+  | +..++..+...+...|++++|.+++....+.+ .. +...+..+-.                        
T Consensus       176 l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~-~~-~~~~~~~l~~------------------------  229 (409)
T TIGR00540       176 VDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAG-LF-DDEEFADLEQ------------------------  229 (409)
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcC-CC-CHHHHHHHHH------------------------
Confidence            666554  2 44455566666666666666666666666653 22 1111110000                        


Q ss_pred             CCcchHHHHHHHHHHhcCCHHHHHHHHHHccC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhH--HHH
Q 038303          243 SVSNLVGNAVINMYVKCGDVGIAIQVFNMLAY---KDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVT--FIA  317 (461)
Q Consensus       243 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~--~~~  317 (461)
                          ..+..++..-......+...+.++...+   .+...+..+...+...|+.++|.+++++..+..  ||...  +..
T Consensus       230 ----~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~--pd~~~~~~~~  303 (409)
T TIGR00540       230 ----KAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL--GDDRAISLPL  303 (409)
T ss_pred             ----HHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC--CCcccchhHH
Confidence                0011111111122233444555555543   367778888888889999999999999888853  34331  111


Q ss_pred             HH-HHHHcCCChHHHHHHHHHhHhhcCCCCCc--chHHHHHHHHhhcCCHHHHHHHHHh--C-CCCchhhHHHHHHHHHH
Q 038303          318 LI-SACSHGGLVDQGLILFKAMSTVYEIVPQM--QHYACVVDMYGRAGLLEEAEAFIRE--M-PIEAEWSVWGALLNACR  391 (461)
Q Consensus       318 ll-~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~A~~~~~~--~-~~~p~~~~~~~l~~~~~  391 (461)
                      +. -.....++.+.+.+.++...+.  .+-|+  ....++...+.+.|++++|.+.|+.  . ...|+...+..+...+.
T Consensus       304 l~~~~~l~~~~~~~~~~~~e~~lk~--~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~  381 (409)
T TIGR00540       304 CLPIPRLKPEDNEKLEKLIEKQAKN--VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFD  381 (409)
T ss_pred             HHHhhhcCCCChHHHHHHHHHHHHh--CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHH
Confidence            21 2234457788888888887763  33334  5667888899999999999999994  3 66788888888888899


Q ss_pred             hcCChHHHHHHHHHHhh
Q 038303          392 IHRNDEMFDRIRQDLVN  408 (461)
Q Consensus       392 ~~~~~~~a~~~~~~~~~  408 (461)
                      +.|+.++|.+++++...
T Consensus       382 ~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       382 QAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            99999999999998765

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.

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

Probab=99.60  E-value=5e-15  Score=129.64  Aligned_cols=154  Identities=16%  Similarity=0.131  Sum_probs=64.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHcc-----CCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-HhHHHHHHHHHH
Q 038303          250 NAVINMYVKCGDVGIAIQVFNMLA-----YKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPD-DVTFIALISACS  323 (461)
Q Consensus       250 ~~li~~~~~~g~~~~a~~~~~~~~-----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~  323 (461)
                      ..++..+.+.++++++.++++.+.     ..+...|..+...+.+.|+.++|++.+++..+.  .|+ ......++..+.
T Consensus       114 ~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~--~P~~~~~~~~l~~~li  191 (280)
T PF13429_consen  114 LSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALEL--DPDDPDARNALAWLLI  191 (280)
T ss_dssp             ----H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH---TT-HHHHHHHHHHHC
T ss_pred             hHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHH
Confidence            344444444555555555444432     123344455555555555555555555555553  232 344455555555


Q ss_pred             cCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHH
Q 038303          324 HGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDR  401 (461)
Q Consensus       324 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~  401 (461)
                      ..|+.+++.++++...+  ..+.++..+..+..+|...|+.++|+.++++. ...| |+.....+..++...|+.++|.+
T Consensus       192 ~~~~~~~~~~~l~~~~~--~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d~~~~~~~a~~l~~~g~~~~A~~  269 (280)
T PF13429_consen  192 DMGDYDEAREALKRLLK--AAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDDPLWLLAYADALEQAGRKDEALR  269 (280)
T ss_dssp             TTCHHHHHHHHHHHHHH--H-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHT----------
T ss_pred             HCCChHHHHHHHHHHHH--HCcCHHHHHHHHHHHhccccccccccccccccccccccccccccccccccccccccccccc
Confidence            55555555555555544  12344445555555555556666666665555 2222 44444445555555566666655


Q ss_pred             HHHHHh
Q 038303          402 IRQDLV  407 (461)
Q Consensus       402 ~~~~~~  407 (461)
                      +.+++.
T Consensus       270 ~~~~~~  275 (280)
T PF13429_consen  270 LRRQAL  275 (280)
T ss_dssp             ------
T ss_pred             cccccc
Confidence            555543

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

Probab=99.59  E-value=3.7e-11  Score=104.31  Aligned_cols=318  Identities=7%  Similarity=-0.027  Sum_probs=224.2

Q ss_pred             HhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCCCCch-hHHHHHHHHHHhcCChHHHHH
Q 038303          117 ACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNV-VSWTTMIGGYAERGFCKEAVS  195 (461)
Q Consensus       117 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~li~~~~~~~~~~~a~~  195 (461)
                      .+.+.|..+.|...|...+.. .+..-..|..|..   -..+.+.+..+.......+. ..=-.+..++....+.+++..
T Consensus       173 v~k~~~~~s~A~~sfv~~v~~-~P~~W~AWleL~~---lit~~e~~~~l~~~l~~~~h~M~~~F~~~a~~el~q~~e~~~  248 (559)
T KOG1155|consen  173 VLKELGLLSLAIDSFVEVVNR-YPWFWSAWLELSE---LITDIEILSILVVGLPSDMHWMKKFFLKKAYQELHQHEEALQ  248 (559)
T ss_pred             HHHhhchHHHHHHHHHHHHhc-CCcchHHHHHHHH---hhchHHHHHHHHhcCcccchHHHHHHHHHHHHHHHHHHHHHH
Confidence            345566666666666666554 1122333332222   22233333333323322111 111123345555567788888


Q ss_pred             HHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCC-cchHHHHHHHHHHhcCCHHHHHHHHHHccC
Q 038303          196 VFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSV-SNLVGNAVINMYVKCGDVGIAIQVFNMLAY  274 (461)
Q Consensus       196 ~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  274 (461)
                      -.+.....| ++.+...-+....+.-...+++.|+.+|+++.+...... |..+|+.++-.--...++.---...-.+.+
T Consensus       249 k~e~l~~~g-f~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA~~v~~idK  327 (559)
T KOG1155|consen  249 KKERLSSVG-FPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLAQNVSNIDK  327 (559)
T ss_pred             HHHHHHhcc-CCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHHHHHHHhcc
Confidence            788887776 666666666666667778889999999999988433332 344666555332222222221122222334


Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHH
Q 038303          275 KDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACV  354 (461)
Q Consensus       275 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  354 (461)
                      --+.|..++.+-|.-.++.++|...|++..+.+.. ....|+.+.+-|...++...|.+-++...+  -.+.|-..|-.|
T Consensus       328 yR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~sYRrAvd--i~p~DyRAWYGL  404 (559)
T KOG1155|consen  328 YRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIESYRRAVD--INPRDYRAWYGL  404 (559)
T ss_pred             CCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHHHHHHHHh--cCchhHHHHhhh
Confidence            45677778888888899999999999999985432 346788888889999999999999999988  456678899999


Q ss_pred             HHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhh
Q 038303          355 VDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWED  432 (461)
Q Consensus       355 ~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  432 (461)
                      .++|.-.+.+.-|+-+|++. ..+| |...|.+|..+|.+.++.++|+..|+.+......+...+..+++.|-+.++.++
T Consensus       405 GQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~LakLye~l~d~~e  484 (559)
T KOG1155|consen  405 GQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAKLYEELKDLNE  484 (559)
T ss_pred             hHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhHHH
Confidence            99999999999999999999 4555 777999999999999999999999999999887788899999999999999999


Q ss_pred             HHHHHHHHHH
Q 038303          433 TNKIRDEIRR  442 (461)
Q Consensus       433 A~~~~~~m~~  442 (461)
                      |.+.+++-.+
T Consensus       485 Aa~~yek~v~  494 (559)
T KOG1155|consen  485 AAQYYEKYVE  494 (559)
T ss_pred             HHHHHHHHHH
Confidence            9999988755

>TIGR00540 hemY_coli hemY protein

Probab=99.59  E-value=9.7e-12  Score=114.66  Aligned_cols=280  Identities=12%  Similarity=0.021  Sum_probs=170.2

Q ss_pred             HcCChhhHHHHHhcCCC--Cchh-HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChh--hHHHHHHHhhccchhhhH
Q 038303          155 RCGSLASCGYLFVKMPK--RNVV-SWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEA--TLVNVLSACSSISALSFG  229 (461)
Q Consensus       155 ~~g~~~~a~~~~~~~~~--~~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~--~~~~~l~~~~~~~~~~~a  229 (461)
                      ..|+++.|.+.+.+..+  |+.. .+-....+....|+++.|.+.+.+..+   ..|+..  ........+...|+++.|
T Consensus        96 ~~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~---~~p~~~l~~~~~~a~l~l~~~~~~~A  172 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAE---LAGNDNILVEIARTRILLAQNELHAA  172 (409)
T ss_pred             hCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCcCchHHHHHHHHHHHHCCCHHHH
Confidence            34566666666555443  2221 222233445555666666666666554   233332  222234555556666666


Q ss_pred             HHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCC---ChhhHH----HHHHHHHhcCChHHHHHHHHH
Q 038303          230 KYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYK---DKISWS----TVISGLAMNGCGRQALQLFSL  302 (461)
Q Consensus       230 ~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~~~----~l~~~~~~~~~~~~a~~~~~~  302 (461)
                      ...++.+.+.  .+-+..+...+...+...|++++|.+.+..+.+.   +...+.    ....++...+..+++.+.+..
T Consensus       173 l~~l~~l~~~--~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~  250 (409)
T TIGR00540       173 RHGVDKLLEM--APRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLN  250 (409)
T ss_pred             HHHHHHHHHh--CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            6666666552  2223345566667777777777777777666633   222221    111122223333333445555


Q ss_pred             HHhcCC---CCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcch--HHHHHHHHhhcCCHHHHHHHHHhC-CC
Q 038303          303 MIINAV---FPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQH--YACVVDMYGRAGLLEEAEAFIREM-PI  376 (461)
Q Consensus       303 m~~~g~---~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~g~~~~A~~~~~~~-~~  376 (461)
                      +.+...   +.+...+..+...+...|+.++|.+++++..+.  .+.+...  ...........++.+.+.+.+++. ..
T Consensus       251 ~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~--~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~  328 (409)
T TIGR00540       251 WWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK--LGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKN  328 (409)
T ss_pred             HHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh--CCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHh
Confidence            544322   137788888899999999999999999999872  2222221  111222234457888888888877 44


Q ss_pred             Cchh---hHHHHHHHHHHhcCChHHHHHHHHH--HhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHH
Q 038303          377 EAEW---SVWGALLNACRIHRNDEMFDRIRQD--LVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRR  442 (461)
Q Consensus       377 ~p~~---~~~~~l~~~~~~~~~~~~a~~~~~~--~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  442 (461)
                      .|+.   ....++...+.+.|++++|.+.|+.  ..+.. |++..+..++..+.+.|+.++|.+++++...
T Consensus       329 ~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~-p~~~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       329 VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQ-LDANDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4544   4456777789999999999999995  44444 4566688999999999999999999998643

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.

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.58  E-value=7.6e-11  Score=104.93  Aligned_cols=422  Identities=11%  Similarity=-0.039  Sum_probs=295.5

Q ss_pred             chHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhh--CCCCCceeHHHHHHHHHc
Q 038303           11 YTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNS--VVFPDVVSWTTIISGLSK   88 (461)
Q Consensus        11 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~--~~~~~~~~~~~li~~~~~   88 (461)
                      .-+..+++-+..+.++.-|+-+-+.....+..|+..-  -+.+++.-.|+++.|..+...  +...|..+......++.+
T Consensus        17 ~~~~~~~r~~l~q~~y~~a~f~adkV~~l~~dp~d~~--~~aq~l~~~~~y~ra~~lit~~~le~~d~~cryL~~~~l~~   94 (611)
T KOG1173|consen   17 EKYRRLVRDALMQHRYKTALFWADKVAGLTNDPADIY--WLAQVLYLGRQYERAAHLITTYKLEKRDIACRYLAAKCLVK   94 (611)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHhccCChHHHH--HHHHHHHhhhHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHH
Confidence            3355666666666677777777777766554444433  356777778888888777754  466788888888888899


Q ss_pred             CCChHHHHHHHh----cC-CC-----------CCCchh----HHHHHHH-------hcccchhHHHHHHHHHHHhhcCCC
Q 038303           89 CGFHKEAIDMFC----GI-DV-----------KPNANT----LVSVLSA-------CSSLVSHKLGKAIHAHSLRNLNEN  141 (461)
Q Consensus        89 ~~~~~~a~~~~~----~m-~~-----------~p~~~~----~~~ll~~-------~~~~~~~~~a~~~~~~~~~~~~~~  141 (461)
                      ..++++|+.++.    .+ .+           .+|..-    -+.-.+.       +....+.++|...|.+.....+. 
T Consensus        95 lk~~~~al~vl~~~~~~~~~f~yy~~~~~~~l~~n~~~~~~~~~~essic~lRgk~y~al~n~~~ar~~Y~~Al~~D~~-  173 (611)
T KOG1173|consen   95 LKEWDQALLVLGRGHVETNPFSYYEKDAANTLELNSAGEDLMINLESSICYLRGKVYVALDNREEARDKYKEALLADAK-  173 (611)
T ss_pred             HHHHHHHHHHhcccchhhcchhhcchhhhceeccCcccccccccchhceeeeeeehhhhhccHHHHHHHHHHHHhcchh-
Confidence            999999999887    33 11           111111    1111122       33344566666666665544322 


Q ss_pred             ChhHHHHHHHHHHH------------------cCChhhHHHHHhcC----CC----------------CchhHHHHHHHH
Q 038303          142 NIILDNAILDFYIR------------------CGSLASCGYLFVKM----PK----------------RNVVSWTTMIGG  183 (461)
Q Consensus       142 ~~~~~~~l~~~~~~------------------~g~~~~a~~~~~~~----~~----------------~~~~~~~~li~~  183 (461)
                      .-..+..++....-                  ..+.+.-..+|+-.    ..                .+.........-
T Consensus       174 c~Ea~~~lvs~~mlt~~Ee~~ll~~l~~a~~~~ed~e~l~~lyel~~~k~~n~~~~~r~~~~sl~~l~~~~dll~~~ad~  253 (611)
T KOG1173|consen  174 CFEAFEKLVSAHMLTAQEEFELLESLDLAMLTKEDVERLEILYELKLCKNRNEESLTRNEDESLIGLAENLDLLAEKADR  253 (611)
T ss_pred             hHHHHHHHHHHHhcchhHHHHHHhcccHHhhhhhHHHHHHHHHHhhhhhhccccccccCchhhhhhhhhcHHHHHHHHHH
Confidence            11111111111110                  00111122222211    00                233344444556


Q ss_pred             HHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHH
Q 038303          184 YAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVG  263 (461)
Q Consensus       184 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  263 (461)
                      +...+++.+..++.+...+.  .++....+..-|.++...|+..+-..+-..+.+  ..+..+.+|-++.--|...|+..
T Consensus       254 ~y~~c~f~~c~kit~~lle~--dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~--~yP~~a~sW~aVg~YYl~i~k~s  329 (611)
T KOG1173|consen  254 LYYGCRFKECLKITEELLEK--DPFHLPCLPLHIACLYELGKSNKLFLLSHKLVD--LYPSKALSWFAVGCYYLMIGKYS  329 (611)
T ss_pred             HHHcChHHHHHHHhHHHHhh--CCCCcchHHHHHHHHHHhcccchHHHHHHHHHH--hCCCCCcchhhHHHHHHHhcCcH
Confidence            77789999999999999887  677777777778888888888777777777776  55666778899999999999999


Q ss_pred             HHHHHHHHccCCC---hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHh
Q 038303          264 IAIQVFNMLAYKD---KISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMST  340 (461)
Q Consensus       264 ~a~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  340 (461)
                      +|.+.|.+...-|   ...|-.+..+|+-.|..|+|+..+...-+. ++-....+--+.--|.+.++++.|.++|.....
T Consensus       330 eARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl-~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~a  408 (611)
T KOG1173|consen  330 EARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL-MPGCHLPSLYLGMEYMRTNNLKLAEKFFKQALA  408 (611)
T ss_pred             HHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh-ccCCcchHHHHHHHHHHhccHHHHHHHHHHHHh
Confidence            9999998876433   468999999999999999999999887663 111222333344568889999999999998876


Q ss_pred             hcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC--------CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCC
Q 038303          341 VYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM--------PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKG  411 (461)
Q Consensus       341 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--------~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  411 (461)
                        -.|-|+...+-+.-.....+.+.+|..+|+..        +..+ -..+++.|..+|.+.+.+++|+..+++.+...|
T Consensus       409 --i~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~  486 (611)
T KOG1173|consen  409 --IAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLSP  486 (611)
T ss_pred             --cCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcCC
Confidence              44556777787777777889999999999876        1112 344688889999999999999999999999999


Q ss_pred             CChhHHHHHHHHHhccCChhhHHHHHHHHHH
Q 038303          412 VSVGTFALMSNTFAGADRWEDTNKIRDEIRR  442 (461)
Q Consensus       412 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  442 (461)
                      .+..++..++-.|...|+++.|.+.|.+..-
T Consensus       487 k~~~~~asig~iy~llgnld~Aid~fhKaL~  517 (611)
T KOG1173|consen  487 KDASTHASIGYIYHLLGNLDKAIDHFHKALA  517 (611)
T ss_pred             CchhHHHHHHHHHHHhcChHHHHHHHHHHHh
Confidence            9999999999999999999999999988654

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.57  E-value=3.1e-10  Score=98.97  Aligned_cols=420  Identities=8%  Similarity=0.023  Sum_probs=299.0

Q ss_pred             HHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCC--CCc-eeHHHHHHHHHcCCCh
Q 038303           16 ALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVF--PDV-VSWTTIISGLSKCGFH   92 (461)
Q Consensus        16 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~--~~~-~~~~~li~~~~~~~~~   92 (461)
                      ..+.=...+++..|.++|+..+.... .+...|..-+..=.+...+..|..+|+..+.  |-+ ..|--.+..=-..|++
T Consensus        79 YaqwEesq~e~~RARSv~ERALdvd~-r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdqlWyKY~ymEE~LgNi  157 (677)
T KOG1915|consen   79 YAQWEESQKEIQRARSVFERALDVDY-RNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQLWYKYIYMEEMLGNI  157 (677)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHhccc-ccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccc
Confidence            33344456788889999999988664 4777787778888888999999999988743  222 2233333333456899


Q ss_pred             HHHHHHHhcC-CCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCCC
Q 038303           93 KEAIDMFCGI-DVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPK  171 (461)
Q Consensus        93 ~~a~~~~~~m-~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  171 (461)
                      ..|.++|+.. ...|+...|.+.++.=.+...++.|..+++..+-.  .|+...|-...+.-.+.|+..-|..+|+...+
T Consensus       158 ~gaRqiferW~~w~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~VyerAie  235 (677)
T KOG1915|consen  158 AGARQIFERWMEWEPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALARSVYERAIE  235 (677)
T ss_pred             HHHHHHHHHHHcCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            9999999877 99999999999999988999999999999988754  47888888888888899999999999888764


Q ss_pred             ------CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCC--hhhHHHHHHHhhccch---hhhHHHH-----HHH
Q 038303          172 ------RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPN--EATLVNVLSACSSISA---LSFGKYV-----HSY  235 (461)
Q Consensus       172 ------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~--~~~~~~~l~~~~~~~~---~~~a~~~-----~~~  235 (461)
                            .+...+.++..--..+..++.|..+|+-..+.  ++.+  ...|.....---+-|+   ++.+.--     ++.
T Consensus       236 ~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~--~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~  313 (677)
T KOG1915|consen  236 FLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDH--IPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEK  313 (677)
T ss_pred             HhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--cCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHH
Confidence                  23334555555555677888999999888875  4444  3334333333223344   3333221     233


Q ss_pred             HHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCC--Ch---hhHHHHH--------HHHHhcCChHHHHHHHHH
Q 038303          236 ISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYK--DK---ISWSTVI--------SGLAMNGCGRQALQLFSL  302 (461)
Q Consensus       236 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--~~---~~~~~l~--------~~~~~~~~~~~a~~~~~~  302 (461)
                      ..+  ..+.|-.+|--.++.-...|+.+...++|+.....  ..   ..|..-|        -.-....+++.+.++++.
T Consensus       314 ~v~--~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIanvpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~  391 (677)
T KOG1915|consen  314 EVS--KNPYNYDSWFDYLRLEESVGDKDRIRETYERAIANVPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQA  391 (677)
T ss_pred             HHH--hCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHccCCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            333  33444556667777777889999999999888742  11   1122111        112346788899999998


Q ss_pred             HHhcCCCCCHhHHHHHHHHH----HcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCC
Q 038303          303 MIINAVFPDDVTFIALISAC----SHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIE  377 (461)
Q Consensus       303 m~~~g~~p~~~~~~~ll~~~----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~  377 (461)
                      ..+. ++....||..+=-.|    .++.++..|.+++....   |.-|-..++...|..-.+.+.++.+..++++. ...
T Consensus       392 ~l~l-IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI---G~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~  467 (677)
T KOG1915|consen  392 CLDL-IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI---GKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFS  467 (677)
T ss_pred             HHhh-cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh---ccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            8883 444556766554333    45789999999998774   67788899999999989999999999999987 444


Q ss_pred             c-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCC--hhHHHHHHHHHhccCChhhHHHHHHHHHHcCCc
Q 038303          378 A-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVS--VGTFALMSNTFAGADRWEDTNKIRDEIRRMGLK  446 (461)
Q Consensus       378 p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~  446 (461)
                      | +-.+|......-...|+.+.|..+|+.+++....+  ...|...+.--...|.++.|..+++++.+..-.
T Consensus       468 Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt~h  539 (677)
T KOG1915|consen  468 PENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRTQH  539 (677)
T ss_pred             hHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhccc
Confidence            4 55567766666778899999999999988754222  346667777777889999999999999876543

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

Probab=99.56  E-value=1.2e-12  Score=118.47  Aligned_cols=281  Identities=12%  Similarity=0.003  Sum_probs=158.3

Q ss_pred             hHHHHHHHhcC-CCCCC-chhHHHHHHHhcccchhHHHHHHHHHHHhhcC--CCChhHHHHHHHHHHHcCChhh-HHHHH
Q 038303           92 HKEAIDMFCGI-DVKPN-ANTLVSVLSACSSLVSHKLGKAIHAHSLRNLN--ENNIILDNAILDFYIRCGSLAS-CGYLF  166 (461)
Q Consensus        92 ~~~a~~~~~~m-~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~-a~~~~  166 (461)
                      ..+|+..|+.. ...+| ......+..+|...+++++++++|+.+.+..+  .-+..+|.+.+.-+-+.=.+.- |..+.
T Consensus       335 ~~~A~~~~~klp~h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~Li  414 (638)
T KOG1126|consen  335 CREALNLFEKLPSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQDLI  414 (638)
T ss_pred             HHHHHHHHHhhHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHHHH
Confidence            44555555555 22232 23333445555555555555555555554422  1244445444433322111111 11111


Q ss_pred             hcCCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcc
Q 038303          167 VKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSN  246 (461)
Q Consensus       167 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  246 (461)
                      +.. +..+.+|-++.++|.-+++.+.|++.|++..+   +.|                                   -..
T Consensus       415 ~~~-~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQ---ldp-----------------------------------~fa  455 (638)
T KOG1126|consen  415 DTD-PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQ---LDP-----------------------------------RFA  455 (638)
T ss_pred             hhC-CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhc---cCC-----------------------------------ccc
Confidence            111 23345555555555555555555555555544   222                                   133


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHccCCChhhHHH---HHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHH
Q 038303          247 LVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWST---VISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACS  323 (461)
Q Consensus       247 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~---l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~  323 (461)
                      .+|+.+..-+.....+|.|...|+.....|+..|++   +...|.+.++++.|+-.|++..+-+.. +.+....+...+.
T Consensus       456 YayTLlGhE~~~~ee~d~a~~~fr~Al~~~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~-nsvi~~~~g~~~~  534 (638)
T KOG1126|consen  456 YAYTLLGHESIATEEFDKAMKSFRKALGVDPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPS-NSVILCHIGRIQH  534 (638)
T ss_pred             hhhhhcCChhhhhHHHHhHHHHHHhhhcCCchhhHHHHhhhhheeccchhhHHHHHHHhhhcCCcc-chhHHhhhhHHHH
Confidence            444555555566666777777777776666655555   455677778888888888877774322 3355556666677


Q ss_pred             cCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCchhh-HHHHHHHHHHhcCChHHHHH
Q 038303          324 HGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAEWS-VWGALLNACRIHRNDEMFDR  401 (461)
Q Consensus       324 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~-~~~~l~~~~~~~~~~~~a~~  401 (461)
                      +.|+.++|+++++++..  --+.|+..--..+..+...+++++|+..++++ .+-|+.. .+..+...|.+.|+.+.|+.
T Consensus       535 ~~k~~d~AL~~~~~A~~--ld~kn~l~~~~~~~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~  612 (638)
T KOG1126|consen  535 QLKRKDKALQLYEKAIH--LDPKNPLCKYHRASILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALL  612 (638)
T ss_pred             HhhhhhHHHHHHHHHHh--cCCCCchhHHHHHHHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHH
Confidence            77888888888887765  12223333334455666778888888888877 4445444 44555555888888888888


Q ss_pred             HHHHHhhcCCCCh
Q 038303          402 IRQDLVNKKGVSV  414 (461)
Q Consensus       402 ~~~~~~~~~~~~~  414 (461)
                      -|..+.+.+|...
T Consensus       613 ~f~~A~~ldpkg~  625 (638)
T KOG1126|consen  613 HFSWALDLDPKGA  625 (638)
T ss_pred             hhHHHhcCCCccc
Confidence            8888777766543

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.54  E-value=4e-10  Score=98.28  Aligned_cols=380  Identities=11%  Similarity=0.062  Sum_probs=293.7

Q ss_pred             hcCCHHHHHHHHhhCCC---CCceeHHHHHHHHHcCCChHHHHHHHhcC-CCCCCch-hHHHHHHHhcccchhHHHHHHH
Q 038303           57 TVKDIFSAHQIFNSVVF---PDVVSWTTIISGLSKCGFHKEAIDMFCGI-DVKPNAN-TLVSVLSACSSLVSHKLGKAIH  131 (461)
Q Consensus        57 ~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m-~~~p~~~-~~~~ll~~~~~~~~~~~a~~~~  131 (461)
                      ..+++..|.++|+....   .+...|--.+..=.++..+..|..+++.. .+-|.+. .|.-.+..=-..|++..|.++|
T Consensus        85 sq~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdqlWyKY~ymEE~LgNi~gaRqif  164 (677)
T KOG1915|consen   85 SQKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQLWYKYIYMEEMLGNIAGARQIF  164 (677)
T ss_pred             hHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHHHHHHHHHHHHhcccHHHHHHH
Confidence            45778889999998844   45566766777778899999999999988 6666543 3444555556779999999999


Q ss_pred             HHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCC--CCchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCC
Q 038303          132 AHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMP--KRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPN  209 (461)
Q Consensus       132 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~  209 (461)
                      +.-.+  ..|+...|++.++.-.+-..++.|..++++..  .|++.+|--...---+.|+...|..+|+...+.   -.|
T Consensus       165 erW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~---~~~  239 (677)
T KOG1915|consen  165 ERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARSVYERAIEF---LGD  239 (677)
T ss_pred             HHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH---hhh
Confidence            98876  47899999999999999999999999999976  499999999888889999999999999998874   233


Q ss_pred             hh----hHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCc--chHHHHHHHHHHhcCCHHHHHHHH--------HHccCC
Q 038303          210 EA----TLVNVLSACSSISALSFGKYVHSYISTRYDLSVS--NLVGNAVINMYVKCGDVGIAIQVF--------NMLAYK  275 (461)
Q Consensus       210 ~~----~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~--------~~~~~~  275 (461)
                      ..    .+.++..--.....++.|..+|+....  .++.+  ...|..+...--+-|+.....+..        +.+.+.
T Consensus       240 d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld--~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~  317 (677)
T KOG1915|consen  240 DEEAEILFVAFAEFEERQKEYERARFIYKYALD--HIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSK  317 (677)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHh
Confidence            33    344444444556788999999998887  33333  456666665555667755554432        333333


Q ss_pred             ---ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHh-------HHHHHHHHH---HcCCChHHHHHHHHHhHhhc
Q 038303          276 ---DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDV-------TFIALISAC---SHGGLVDQGLILFKAMSTVY  342 (461)
Q Consensus       276 ---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~-------~~~~ll~~~---~~~~~~~~a~~~~~~~~~~~  342 (461)
                         |-.+|--.+..--..|+.+...++|++.+.. ++|-..       .|..+=-+|   ....+.+.+.++|+...+  
T Consensus       318 np~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~--  394 (677)
T KOG1915|consen  318 NPYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLD--  394 (677)
T ss_pred             CCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh--
Confidence               4566777777777889999999999999876 555331       122221122   347899999999999887  


Q ss_pred             CCCCCcchHHHH----HHHHhhcCCHHHHHHHHHhC-CCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHH
Q 038303          343 EIVPQMQHYACV----VDMYGRAGLLEEAEAFIREM-PIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTF  417 (461)
Q Consensus       343 ~~~~~~~~~~~l----~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  417 (461)
                      -++....|+..+    .....+..++..|.+++... |.-|...++...|..-.+.++++....++++.++-.|.+..+|
T Consensus       395 lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~Pe~c~~W  474 (677)
T KOG1915|consen  395 LIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFSPENCYAW  474 (677)
T ss_pred             hcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcChHhhHHH
Confidence            555566666654    34445788999999999988 8889999999999998999999999999999999999999999


Q ss_pred             HHHHHHHhccCChhhHHHHHHHHHHcCCc
Q 038303          418 ALMSNTFAGADRWEDTNKIRDEIRRMGLK  446 (461)
Q Consensus       418 ~~l~~~~~~~g~~~~A~~~~~~m~~~g~~  446 (461)
                      ...+..-...|+++.|..+|+-..++...
T Consensus       475 ~kyaElE~~LgdtdRaRaifelAi~qp~l  503 (677)
T KOG1915|consen  475 SKYAELETSLGDTDRARAIFELAISQPAL  503 (677)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHhcCccc
Confidence            99999999999999999999988876543

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.52  E-value=1.1e-10  Score=99.77  Aligned_cols=284  Identities=8%  Similarity=-0.003  Sum_probs=163.5

Q ss_pred             CCChHHHHHHHhcC-CCCCC-chhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHH
Q 038303           89 CGFHKEAIDMFCGI-DVKPN-ANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLF  166 (461)
Q Consensus        89 ~~~~~~a~~~~~~m-~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  166 (461)
                      .|++..|.++..+- ...+. ...|..-..+.-..||.+.+-.++.+..+....++....-+........|+++.|..-+
T Consensus        97 eG~~~qAEkl~~rnae~~e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~v  176 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARENV  176 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcchHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHHH
Confidence            35555555555444 11111 12233333344455555555555555555444444445555555555555555555444


Q ss_pred             hcCCC---CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCC
Q 038303          167 VKMPK---RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLS  243 (461)
Q Consensus       167 ~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~  243 (461)
                      ++..+   .++........+|.+.|++.....++.++.+.| .-.|+..-.                             
T Consensus       177 ~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~-~l~~~e~~~-----------------------------  226 (400)
T COG3071         177 DQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAG-LLSDEEAAR-----------------------------  226 (400)
T ss_pred             HHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHcc-CCChHHHHH-----------------------------
Confidence            44332   344455555555555555555555555555544 222211100                             


Q ss_pred             CcchHHHHHHHHHHhcCCHHHHHHHHHHcc---CCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHH
Q 038303          244 VSNLVGNAVINMYVKCGDVGIAIQVFNMLA---YKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALIS  320 (461)
Q Consensus       244 ~~~~~~~~li~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~  320 (461)
                      ....+++.+++-....+..+.-...|+...   +.++..-.+++.-+.+.|+.++|.++..+..+++..|..    ...-
T Consensus       227 le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L----~~~~  302 (400)
T COG3071         227 LEQQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRL----CRLI  302 (400)
T ss_pred             HHHHHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhH----HHHH
Confidence            001233444444444444444455666655   235666667777778888888888888888777766651    1222


Q ss_pred             HHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCchhhHHHHHHHHHHhcCChHHH
Q 038303          321 ACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAEWSVWGALLNACRIHRNDEMF  399 (461)
Q Consensus       321 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a  399 (461)
                      .+.+.++.+.-++..+.-.+.  .+-++..+.+|...|.+.+.|.+|...|+.. +..|+..+|+.+..++.+.|+.+.|
T Consensus       303 ~~l~~~d~~~l~k~~e~~l~~--h~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~~g~~~~A  380 (400)
T COG3071         303 PRLRPGDPEPLIKAAEKWLKQ--HPEDPLLLSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALDQLGEPEEA  380 (400)
T ss_pred             hhcCCCCchHHHHHHHHHHHh--CCCChhHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHcCChHHH
Confidence            455677777777777666663  3334467777888888888888888888866 6777888888888888888888888


Q ss_pred             HHHHHHHhh
Q 038303          400 DRIRQDLVN  408 (461)
Q Consensus       400 ~~~~~~~~~  408 (461)
                      .+..++...
T Consensus       381 ~~~r~e~L~  389 (400)
T COG3071         381 EQVRREALL  389 (400)
T ss_pred             HHHHHHHHH
Confidence            877777664

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.52  E-value=1.7e-11  Score=101.52  Aligned_cols=197  Identities=11%  Similarity=0.053  Sum_probs=101.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHccCCCh--------hhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHH
Q 038303          251 AVINMYVKCGDVGIAIQVFNMLAYKDK--------ISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISAC  322 (461)
Q Consensus       251 ~li~~~~~~g~~~~a~~~~~~~~~~~~--------~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~  322 (461)
                      .|+..|-...+|++|+++-+++.+.+.        ..|.-+...+....++++|..++.+..+.+.+ ....-..+.+..
T Consensus       146 qLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~~~-cvRAsi~lG~v~  224 (389)
T COG2956         146 QLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQADKK-CVRASIILGRVE  224 (389)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhCcc-ceehhhhhhHHH
Confidence            344444445555555544443332211        12334444444556666666666666654322 112222334455


Q ss_pred             HcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCchhhHHHHHHHHHHhcCChHHHHH
Q 038303          323 SHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAEWSVWGALLNACRIHRNDEMFDR  401 (461)
Q Consensus       323 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~  401 (461)
                      ...|+++.|.+.++.+.+ .+..--+.+...|..+|...|+.++....+.++ ...+....-..+...-....-.+.|..
T Consensus       225 ~~~g~y~~AV~~~e~v~e-Qn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~~~~l~l~~lie~~~G~~~Aq~  303 (389)
T COG2956         225 LAKGDYQKAVEALERVLE-QNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGADAELMLADLIELQEGIDAAQA  303 (389)
T ss_pred             HhccchHHHHHHHHHHHH-hChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCccHHHHHHHHHHHhhChHHHHH
Confidence            666777777776666665 333333455566666677777777776666665 333333333444444333444444444


Q ss_pred             HHHHHhhcCCCChhHHHHHHHHHh---ccCChhhHHHHHHHHHHcCCccccC
Q 038303          402 IRQDLVNKKGVSVGTFALMSNTFA---GADRWEDTNKIRDEIRRMGLKKKTG  450 (461)
Q Consensus       402 ~~~~~~~~~~~~~~~~~~l~~~~~---~~g~~~~A~~~~~~m~~~g~~~~~~  450 (461)
                      .+.+-.... |+...+..++....   ..|++.+-+..++.|...-++.+|.
T Consensus       304 ~l~~Ql~r~-Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvge~l~~~~~  354 (389)
T COG2956         304 YLTRQLRRK-PTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVGEQLRRKPR  354 (389)
T ss_pred             HHHHHHhhC-CcHHHHHHHHHhhhccccccchhhhHHHHHHHHHHHHhhcCC
Confidence            444444333 34445555555443   2345666667777776666655553

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.49  E-value=6.1e-10  Score=100.87  Aligned_cols=442  Identities=11%  Similarity=-0.009  Sum_probs=284.6

Q ss_pred             CCCCcch-HHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCceeHHH
Q 038303            6 SSYNHYT-FTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVF---PDVVSWTT   81 (461)
Q Consensus         6 ~~p~~~~-~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~   81 (461)
                      ++|-..+ |-.+++ |...+++...++..+.+++.- +--..|....--.+...|+-++|........+   .+.++|..
T Consensus         3 l~~KE~~lF~~~lk-~yE~kQYkkgLK~~~~iL~k~-~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~~S~vCwHv   80 (700)
T KOG1156|consen    3 LSPKENALFRRALK-CYETKQYKKGLKLIKQILKKF-PEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDLKSHVCWHV   80 (700)
T ss_pred             CChHHHHHHHHHHH-HHHHHHHHhHHHHHHHHHHhC-CccchhHHhccchhhcccchHHHHHHHHHHhccCcccchhHHH
Confidence            3444444 444444 457788999999999988843 22233333222345568999999999887754   45678998


Q ss_pred             HHHHHHcCCChHHHHHHHhcC-CCCCC-chhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCh
Q 038303           82 IISGLSKCGFHKEAIDMFCGI-DVKPN-ANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSL  159 (461)
Q Consensus        82 li~~~~~~~~~~~a~~~~~~m-~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  159 (461)
                      +.-.+-...++++|+++|... .+.|| ...+.-+--.-++.|+++..........+..+. ....|..++.++.-.|+.
T Consensus        81 ~gl~~R~dK~Y~eaiKcy~nAl~~~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~~-~ra~w~~~Avs~~L~g~y  159 (700)
T KOG1156|consen   81 LGLLQRSDKKYDEAIKCYRNALKIEKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLRPS-QRASWIGFAVAQHLLGEY  159 (700)
T ss_pred             HHHHHhhhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhh-hHHHHHHHHHHHHHHHHH
Confidence            888888889999999999988 77775 445555544456778888888777777776444 566788888888889999


Q ss_pred             hhHHHHHhcCCC-----CchhHHHHH------HHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhh
Q 038303          160 ASCGYLFVKMPK-----RNVVSWTTM------IGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSF  228 (461)
Q Consensus       160 ~~a~~~~~~~~~-----~~~~~~~~l------i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~  228 (461)
                      ..|..++++..+     |+...|...      .....+.|..+.|++.+..-...  +......-.+-...+.+.+++++
T Consensus       160 ~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~--i~Dkla~~e~ka~l~~kl~~lEe  237 (700)
T KOG1156|consen  160 KMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ--IVDKLAFEETKADLLMKLGQLEE  237 (700)
T ss_pred             HHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH--HHHHHHHhhhHHHHHHHHhhHHh
Confidence            999888877654     444443322      23466788888888887765542  22222333344566788899999


Q ss_pred             HHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHH-HHHHHccCC---ChhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 038303          229 GKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAI-QVFNMLAYK---DKISWSTVISGLAMNGCGRQALQLFSLMI  304 (461)
Q Consensus       229 a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~-~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  304 (461)
                      |..++..+..  ..+-+...|..+..++.+-.+.-++. .+|....+.   ....-..=+..+....-.+..-+++..+.
T Consensus       238 A~~~y~~Ll~--rnPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l  315 (700)
T KOG1156|consen  238 AVKVYRRLLE--RNPDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRRLPLSVLNGEELKEIVDKYLRPLL  315 (700)
T ss_pred             HHHHHHHHHh--hCchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchhccHHHhCcchhHHHHHHHHHHHh
Confidence            9999998877  33333334445555554333333333 555544421   11111111111111223344556677778


Q ss_pred             hcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHh---hcC----------CCCCcchH--HHHHHHHhhcCCHHHHHH
Q 038303          305 INAVFPDDVTFIALISACSHGGLVDQGLILFKAMST---VYE----------IVPQMQHY--ACVVDMYGRAGLLEEAEA  369 (461)
Q Consensus       305 ~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---~~~----------~~~~~~~~--~~l~~~~~~~g~~~~A~~  369 (461)
                      +.|+++-...   +...|-.....+-..++.-.+..   ..|          -+|+...|  -.++..+-+.|+++.|..
T Consensus       316 ~Kg~p~vf~d---l~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~  392 (700)
T KOG1156|consen  316 SKGVPSVFKD---LRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALE  392 (700)
T ss_pred             hcCCCchhhh---hHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHH
Confidence            8887654333   33333222222211111111111   010          14554444  457888899999999999


Q ss_pred             HHHhC-CCCchhhH-HHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcCCc-
Q 038303          370 FIREM-PIEAEWSV-WGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGLK-  446 (461)
Q Consensus       370 ~~~~~-~~~p~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~-  446 (461)
                      +++.. +..|+..- |..=.+.+...|+.++|...++++.+.+.+|...-..-++-..++.+.++|.+++....+.|.. 
T Consensus       393 yId~AIdHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~~~~  472 (700)
T KOG1156|consen  393 YIDLAIDHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTADRAINSKCAKYMLRANEIEEAEEVLSKFTREGFGA  472 (700)
T ss_pred             HHHHHhccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchhHHHHHHHHHHHHHccccHHHHHHHHHhhhcccch
Confidence            99988 66676553 3333455889999999999999999999888877778899999999999999999999888852 


Q ss_pred             ----cccCccccccC
Q 038303          447 ----KKTGCSWIEVN  457 (461)
Q Consensus       447 ----~~~~~~~~~~~  457 (461)
                          .+..|.|..+.
T Consensus       473 ~~~L~~mqcmWf~~E  487 (700)
T KOG1156|consen  473 VNNLAEMQCMWFQLE  487 (700)
T ss_pred             hhhHHHhhhHHHhHh
Confidence                23457777664

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.48  E-value=1.8e-10  Score=98.47  Aligned_cols=274  Identities=11%  Similarity=0.057  Sum_probs=167.1

Q ss_pred             cCCHHHHHHHHhhCCC---CCceeHHHHHHHHHcCCChHHHHHHHhcC-CCCCCch--hHHHHHHHhcccchhHHHHHHH
Q 038303           58 VKDIFSAHQIFNSVVF---PDVVSWTTIISGLSKCGFHKEAIDMFCGI-DVKPNAN--TLVSVLSACSSLVSHKLGKAIH  131 (461)
Q Consensus        58 ~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m-~~~p~~~--~~~~ll~~~~~~~~~~~a~~~~  131 (461)
                      .|+|..|+++..+..+   .....|-.-..+--..|+.+.+-..+.+. ...+|..  .+-+........|+.+.|..-+
T Consensus        97 eG~~~qAEkl~~rnae~~e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~v  176 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARENV  176 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcchHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHHH
Confidence            6999999999987632   22334444456666789999999999999 6644444  4455556688999999999999


Q ss_pred             HHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCCCCc-----------hhHHHHHHHHHHhcCChHHHHHHHHHH
Q 038303          132 AHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRN-----------VVSWTTMIGGYAERGFCKEAVSVFQEM  200 (461)
Q Consensus       132 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-----------~~~~~~li~~~~~~~~~~~a~~~~~~m  200 (461)
                      +.+.+.++. ++.+......+|.+.|++++...++.++.+..           ..+|+.++.-....+..+.-...++..
T Consensus       177 ~~ll~~~pr-~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~  255 (400)
T COG3071         177 DQLLEMTPR-HPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQ  255 (400)
T ss_pred             HHHHHhCcC-ChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhc
Confidence            999999877 67777889999999999999999999998622           235666665555555555544555555


Q ss_pred             HhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCCChhhH
Q 038303          201 EKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISW  280 (461)
Q Consensus       201 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~  280 (461)
                      -..  .+.++..-..++.-+.+.|+.+.|.++..+..+ .+..|+                                   
T Consensus       256 pr~--lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk-~~~D~~-----------------------------------  297 (400)
T COG3071         256 PRK--LRNDPELVVAYAERLIRLGDHDEAQEIIEDALK-RQWDPR-----------------------------------  297 (400)
T ss_pred             cHH--hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHH-hccChh-----------------------------------
Confidence            443  344444444444444445555555554444444 333333                                   


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhh
Q 038303          281 STVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGR  360 (461)
Q Consensus       281 ~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  360 (461)
                      -...-.+.+-++.+.-.+..++-.+. .+-++..+.+|...|.+.+.+.+|...|+...+   ..|+..+|+.+..++.+
T Consensus       298 L~~~~~~l~~~d~~~l~k~~e~~l~~-h~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~---~~~s~~~~~~la~~~~~  373 (400)
T COG3071         298 LCRLIPRLRPGDPEPLIKAAEKWLKQ-HPEDPLLLSTLGRLALKNKLWGKASEALEAALK---LRPSASDYAELADALDQ  373 (400)
T ss_pred             HHHHHhhcCCCCchHHHHHHHHHHHh-CCCChhHHHHHHHHHHHhhHHHHHHHHHHHHHh---cCCChhhHHHHHHHHHH
Confidence            11112233444444444444443332 111224445555555555555555555554433   34555555555555555


Q ss_pred             cCCHHHHHHHHHhC
Q 038303          361 AGLLEEAEAFIREM  374 (461)
Q Consensus       361 ~g~~~~A~~~~~~~  374 (461)
                      .|+.++|.++.++.
T Consensus       374 ~g~~~~A~~~r~e~  387 (400)
T COG3071         374 LGEPEEAEQVRREA  387 (400)
T ss_pred             cCChHHHHHHHHHH
Confidence            56555555555543

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.46  E-value=4.9e-11  Score=101.83  Aligned_cols=198  Identities=9%  Similarity=0.019  Sum_probs=162.3

Q ss_pred             cchHHHHHHHHHHhcCCHHHHHHHHHHccC--C-ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHH
Q 038303          245 SNLVGNAVINMYVKCGDVGIAIQVFNMLAY--K-DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISA  321 (461)
Q Consensus       245 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~  321 (461)
                      ....+..+...+...|++++|.+.+++..+  | +...+..+...+...|++++|.+.+++..+... .+...+..+...
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~~~~~  108 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLNP-NNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCHHHHHHHHHH
Confidence            345667788889999999999999988763  2 456778888899999999999999999988643 345677778888


Q ss_pred             HHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHH
Q 038303          322 CSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMF  399 (461)
Q Consensus       322 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a  399 (461)
                      +...|++++|...++........+.....+..+...+...|++++|...+++. ...| +...+..+...+...|++++|
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  188 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKDA  188 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHHH
Confidence            99999999999999999873223334556777888999999999999999988 3334 345677777889999999999


Q ss_pred             HHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHc
Q 038303          400 DRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRM  443 (461)
Q Consensus       400 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  443 (461)
                      ...+++..+..|.++..+..++..+...|+.++|..+.+.+...
T Consensus       189 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       189 RAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            99999999887778888889999999999999999998887653

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.

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.44  E-value=2.9e-10  Score=104.03  Aligned_cols=241  Identities=14%  Similarity=0.162  Sum_probs=129.1

Q ss_pred             hHHHHHHHHHHHcCChhhHHHHHhcCCC----------CchhH-HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhh
Q 038303          144 ILDNAILDFYIRCGSLASCGYLFVKMPK----------RNVVS-WTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEAT  212 (461)
Q Consensus       144 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~----------~~~~~-~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~  212 (461)
                      .+...+...|...|+++.|+.+++...+          +.+.+ .+.+...|...+++++|..+|+++..--        
T Consensus       200 ~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~--------  271 (508)
T KOG1840|consen  200 RTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIR--------  271 (508)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHH--------
Confidence            3444466677777777777777665542          22222 3346667888888888888888876521        


Q ss_pred             HHHHHHHhhccchhhhHHHHHHHHHhhcCCCCc-chHHHHHHHHHHhcCCHHHHHHHHHHccCCChhhHHHHHHHHHhcC
Q 038303          213 LVNVLSACSSISALSFGKYVHSYISTRYDLSVS-NLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNG  291 (461)
Q Consensus       213 ~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~  291 (461)
                                           +...  ....|. ..+++.|..+|.+.|++++|...++..                   
T Consensus       272 ---------------------e~~~--G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~A-------------------  309 (508)
T KOG1840|consen  272 ---------------------EEVF--GEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERA-------------------  309 (508)
T ss_pred             ---------------------HHhc--CCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHH-------------------
Confidence                                 0000  011111 234566667777777777777665432                   


Q ss_pred             ChHHHHHHHHHHHhcCC-CCCH-hHHHHHHHHHHcCCChHHHHHHHHHhHhhcC--CCC----CcchHHHHHHHHhhcCC
Q 038303          292 CGRQALQLFSLMIINAV-FPDD-VTFIALISACSHGGLVDQGLILFKAMSTVYE--IVP----QMQHYACVVDMYGRAGL  363 (461)
Q Consensus       292 ~~~~a~~~~~~m~~~g~-~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~~~~l~~~~~~~g~  363 (461)
                           ++++++.  .|. .|.. ..++.+...|+..+++++|..++....+...  +.+    -..+++.|...|.+.|+
T Consensus       310 -----l~I~~~~--~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk  382 (508)
T KOG1840|consen  310 -----LEIYEKL--LGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGK  382 (508)
T ss_pred             -----HHHHHHh--hccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcc
Confidence                 3333331  111 1111 1233333334444555555444443332111  111    12445555666666666


Q ss_pred             HHHHHHHHHhC---------CCCch-hhHHHHHHHHHHhcCChHHHHHHHHHHhh-------cCCCChhHHHHHHHHHhc
Q 038303          364 LEEAEAFIREM---------PIEAE-WSVWGALLNACRIHRNDEMFDRIRQDLVN-------KKGVSVGTFALMSNTFAG  426 (461)
Q Consensus       364 ~~~A~~~~~~~---------~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~l~~~~~~  426 (461)
                      +++|.++++++         +..+. ...++.+...|.+.+++++|.++|.+...       ..|....+|..|+..|.+
T Consensus       383 ~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~  462 (508)
T KOG1840|consen  383 YKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRA  462 (508)
T ss_pred             hhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHH
Confidence            66666665554         11111 22344555556666666666666665543       224456678888888888


Q ss_pred             cCChhhHHHHHHHHH
Q 038303          427 ADRWEDTNKIRDEIR  441 (461)
Q Consensus       427 ~g~~~~A~~~~~~m~  441 (461)
                      .|+++.|.++.+.+.
T Consensus       463 ~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  463 QGNYEAAEELEEKVL  477 (508)
T ss_pred             cccHHHHHHHHHHHH
Confidence            888888888877764

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.44  E-value=2.1e-08  Score=90.25  Aligned_cols=409  Identities=10%  Similarity=0.046  Sum_probs=231.3

Q ss_pred             HHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCceeHHH--HHHHHH--c
Q 038303           13 FTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWTT--IISGLS--K   88 (461)
Q Consensus        13 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--li~~~~--~   88 (461)
                      +-+=++-+...|++++|.+..+.++..+. .+...+..=+-++...+++++|+.+.+.-...+  +++.  +=.+||  +
T Consensus        15 l~t~ln~~~~~~e~e~a~k~~~Kil~~~p-dd~~a~~cKvValIq~~ky~~ALk~ikk~~~~~--~~~~~~fEKAYc~Yr   91 (652)
T KOG2376|consen   15 LLTDLNRHGKNGEYEEAVKTANKILSIVP-DDEDAIRCKVVALIQLDKYEDALKLIKKNGALL--VINSFFFEKAYCEYR   91 (652)
T ss_pred             HHHHHHHhccchHHHHHHHHHHHHHhcCC-CcHhhHhhhHhhhhhhhHHHHHHHHHHhcchhh--hcchhhHHHHHHHHH
Confidence            33445566778899999999999998763 345555566667889999999997776553212  1222  234444  7


Q ss_pred             CCChHHHHHHHhcCCCCCCc-hhHHHHHHHhcccchhHHHHHHHHHHHhhcCCC-ChhHHHHHHHHHHHcCChhhHHHHH
Q 038303           89 CGFHKEAIDMFCGIDVKPNA-NTLVSVLSACSSLVSHKLGKAIHAHSLRNLNEN-NIILDNAILDFYIRCGSLASCGYLF  166 (461)
Q Consensus        89 ~~~~~~a~~~~~~m~~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~  166 (461)
                      .++.++|+..++.  ..++. .+...-...|.+.|++++|.++|+.+.+.+.+- +...-..++.    .+-.-.+. +.
T Consensus        92 lnk~Dealk~~~~--~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a----~~a~l~~~-~~  164 (652)
T KOG2376|consen   92 LNKLDEALKTLKG--LDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLA----VAAALQVQ-LL  164 (652)
T ss_pred             cccHHHHHHHHhc--ccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHH----HHHhhhHH-HH
Confidence            8999999999984  44433 356666667899999999999999997764331 1111111111    11111111 23


Q ss_pred             hcCCCCchhHHHH---HHHHHHhcCChHHHHHHHHHHHhcCC------CCCChh-------hHHHHHHHhhccchhhhHH
Q 038303          167 VKMPKRNVVSWTT---MIGGYAERGFCKEAVSVFQEMEKTKE------AEPNEA-------TLVNVLSACSSISALSFGK  230 (461)
Q Consensus       167 ~~~~~~~~~~~~~---li~~~~~~~~~~~a~~~~~~m~~~~~------~~~~~~-------~~~~~l~~~~~~~~~~~a~  230 (461)
                      +........+|..   ....+...|++.+|+++++...+-+.      ..-+..       .-.-+.-.+-..|+.++|.
T Consensus       165 q~v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~  244 (652)
T KOG2376|consen  165 QSVPEVPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEAS  244 (652)
T ss_pred             HhccCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHH
Confidence            3333211222222   23344556666666666666521100      000000       1111222344456666666


Q ss_pred             HHHHHHHhhcCCCCcch----HHHHHHHHH---------------------------------------------HhcCC
Q 038303          231 YVHSYISTRYDLSVSNL----VGNAVINMY---------------------------------------------VKCGD  261 (461)
Q Consensus       231 ~~~~~~~~~~~~~~~~~----~~~~li~~~---------------------------------------------~~~g~  261 (461)
                      .++..+.+  ...+|..    ..|.|+..-                                             .-.+.
T Consensus       245 ~iy~~~i~--~~~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~tnk  322 (652)
T KOG2376|consen  245 SIYVDIIK--RNPADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFTNK  322 (652)
T ss_pred             HHHHHHHH--hcCCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            66666555  1222211    112221110                                             01122


Q ss_pred             HHHHHHHHHHccCC-ChhhHHHHHHHHH--hcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHH--
Q 038303          262 VGIAIQVFNMLAYK-DKISWSTVISGLA--MNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFK--  336 (461)
Q Consensus       262 ~~~a~~~~~~~~~~-~~~~~~~l~~~~~--~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~--  336 (461)
                      .+.+.++-...... ....+.+++....  +...+.++.+++...-+....-....--..+......|+++.|.+++.  
T Consensus       323 ~~q~r~~~a~lp~~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~  402 (652)
T KOG2376|consen  323 MDQVRELSASLPGMSPESLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLF  402 (652)
T ss_pred             HHHHHHHHHhCCccCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            22222222222211 1233444444332  233466777777777664322223444455666788999999999998  


Q ss_pred             ------HhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-----CCCchhhHHHHH----HHHHHhcCChHHHHH
Q 038303          337 ------AMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-----PIEAEWSVWGAL----LNACRIHRNDEMFDR  401 (461)
Q Consensus       337 ------~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-----~~~p~~~~~~~l----~~~~~~~~~~~~a~~  401 (461)
                            .+.+ .+..|  .+...+...+.+.++.+.|..++.+.     ...+.......+    ...-.+.|+.++|..
T Consensus       403 ~~~~~ss~~~-~~~~P--~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s  479 (652)
T KOG2376|consen  403 LESWKSSILE-AKHLP--GTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASS  479 (652)
T ss_pred             hhhhhhhhhh-hccCh--hHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHH
Confidence                  5544 34444  44566777788888877777766655     111222222232    233456799999999


Q ss_pred             HHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHH
Q 038303          402 IRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIR  437 (461)
Q Consensus       402 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  437 (461)
                      +++++.+.+|++..+...++.+|++. +.+.|..+-
T Consensus       480 ~leel~k~n~~d~~~l~~lV~a~~~~-d~eka~~l~  514 (652)
T KOG2376|consen  480 LLEELVKFNPNDTDLLVQLVTAYARL-DPEKAESLS  514 (652)
T ss_pred             HHHHHHHhCCchHHHHHHHHHHHHhc-CHHHHHHHh
Confidence            99999999999999999999999887 566666554

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.44  E-value=2.1e-10  Score=95.22  Aligned_cols=284  Identities=12%  Similarity=0.090  Sum_probs=182.0

Q ss_pred             CCChHHHHHHHhcC-CCCC-CchhHHHHHHHhcccchhHHHHHHHHHHHhhc-CCCC--hhHHHHHHHHHHHcCChhhHH
Q 038303           89 CGFHKEAIDMFCGI-DVKP-NANTLVSVLSACSSLVSHKLGKAIHAHSLRNL-NENN--IILDNAILDFYIRCGSLASCG  163 (461)
Q Consensus        89 ~~~~~~a~~~~~~m-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~--~~~~~~l~~~~~~~g~~~~a~  163 (461)
                      +.+.++|.++|-+| ...| +..+-.+|.+.+.+.|..+.|.++++.+.++- .+-+  ......|..-|...|-+|.|+
T Consensus        48 s~Q~dKAvdlF~e~l~~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE  127 (389)
T COG2956          48 SNQPDKAVDLFLEMLQEDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAE  127 (389)
T ss_pred             hcCcchHHHHHHHHHhcCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHH
Confidence            35677777777777 3333 23333455556666777777777777666541 1111  122334555666677777777


Q ss_pred             HHHhcCCC-C--chhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhc
Q 038303          164 YLFVKMPK-R--NVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRY  240 (461)
Q Consensus       164 ~~~~~~~~-~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~  240 (461)
                      .+|..+.+ +  -......|+..|-...+|++|+++-+++.+.+ ..+...-.                           
T Consensus       128 ~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~-~q~~~~eI---------------------------  179 (389)
T COG2956         128 DIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLG-GQTYRVEI---------------------------  179 (389)
T ss_pred             HHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcC-CccchhHH---------------------------
Confidence            77766655 2  22345556666777777777777777666643 11111100                           


Q ss_pred             CCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCCCh---hhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHH
Q 038303          241 DLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDK---ISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIA  317 (461)
Q Consensus       241 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~  317 (461)
                           ...|.-|...+....+++.|..++.+..+.|.   ..--.+.+.....|++++|.+.++...+.+..--..+...
T Consensus       180 -----AqfyCELAq~~~~~~~~d~A~~~l~kAlqa~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~  254 (389)
T COG2956         180 -----AQFYCELAQQALASSDVDRARELLKKALQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEM  254 (389)
T ss_pred             -----HHHHHHHHHHHhhhhhHHHHHHHHHHHHhhCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHH
Confidence                 12345566666677888888888888775433   3344456778889999999999999998765555577888


Q ss_pred             HHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHH-HhCCCCchhhHHHHHHHHHH---hc
Q 038303          318 LISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFI-REMPIEAEWSVWGALLNACR---IH  393 (461)
Q Consensus       318 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~-~~~~~~p~~~~~~~l~~~~~---~~  393 (461)
                      |..+|...|+.++...++..+.+   ..+....-..+.+.-....-.+.|..++ +.+..+|+...+..++..-.   ..
T Consensus       255 L~~~Y~~lg~~~~~~~fL~~~~~---~~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~Pt~~gf~rl~~~~l~daee  331 (389)
T COG2956         255 LYECYAQLGKPAEGLNFLRRAME---TNTGADAELMLADLIELQEGIDAAQAYLTRQLRRKPTMRGFHRLMDYHLADAEE  331 (389)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHH---ccCCccHHHHHHHHHHHhhChHHHHHHHHHHHhhCCcHHHHHHHHHhhhccccc
Confidence            89999999999999999988877   2344444455555444444555565554 45577899999999998843   33


Q ss_pred             CChHHHHHHHHHHhh
Q 038303          394 RNDEMFDRIRQDLVN  408 (461)
Q Consensus       394 ~~~~~a~~~~~~~~~  408 (461)
                      |...+....++.|..
T Consensus       332 g~~k~sL~~lr~mvg  346 (389)
T COG2956         332 GRAKESLDLLRDMVG  346 (389)
T ss_pred             cchhhhHHHHHHHHH
Confidence            446666666666664

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.41  E-value=3.2e-08  Score=89.89  Aligned_cols=422  Identities=11%  Similarity=0.045  Sum_probs=260.5

Q ss_pred             HHHHHHHHhhCCHHHHHHHHHHHHHh-CCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCceeHHHHHHHHHcCCCh
Q 038303           14 TQALKACSLAHPHQKALEIHAHVIEY-GHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWTTIISGLSKCGFH   92 (461)
Q Consensus        14 ~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~   92 (461)
                      -..+..+..+|++......|+..+.. .+.-....|...+......+-.+-+..++++..+-++..-+-.|..+++.+++
T Consensus       106 l~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~~P~~~eeyie~L~~~d~~  185 (835)
T KOG2047|consen  106 LDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKVAPEAREEYIEYLAKSDRL  185 (835)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhccch
Confidence            33445556677777788888777653 23333446777777777778888888888888777777788888889999999


Q ss_pred             HHHHHHHhcC---------CCCCCchhHHHHHHHhcccchhH---HHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChh
Q 038303           93 KEAIDMFCGI---------DVKPNANTLVSVLSACSSLVSHK---LGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLA  160 (461)
Q Consensus        93 ~~a~~~~~~m---------~~~p~~~~~~~ll~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  160 (461)
                      ++|-+.+...         ..+.+...|.-+-+..++..+.-   .+..++..+..+-...-...|++|.+.|.+.|.++
T Consensus       186 ~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdYYIr~g~~e  265 (835)
T KOG2047|consen  186 DEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADYYIRSGLFE  265 (835)
T ss_pred             HHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHHHHHhhhhH
Confidence            9998888776         22233444555444444443322   23344444333322222467899999999999999


Q ss_pred             hHHHHHhcCCC--CchhHHHHHHHHHHhc----------------CC------hHHHHHHHHHHHhcCCC----------
Q 038303          161 SCGYLFVKMPK--RNVVSWTTMIGGYAER----------------GF------CKEAVSVFQEMEKTKEA----------  206 (461)
Q Consensus       161 ~a~~~~~~~~~--~~~~~~~~li~~~~~~----------------~~------~~~a~~~~~~m~~~~~~----------  206 (461)
                      +|..+|++..+  ..+.-|+.+.++|+.-                ++      ++-.+.-|+.+...+..          
T Consensus       266 karDvyeeai~~v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsVlLRQn  345 (835)
T KOG2047|consen  266 KARDVYEEAIQTVMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNSVLLRQN  345 (835)
T ss_pred             HHHHHHHHHHHhheehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHHHHhcC
Confidence            99999988765  2233333333333321                11      22233334443332211          


Q ss_pred             CCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCc------chHHHHHHHHHHhcCCHHHHHHHHHHccCCCh---
Q 038303          207 EPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVS------NLVGNAVINMYVKCGDVGIAIQVFNMLAYKDK---  277 (461)
Q Consensus       207 ~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~---  277 (461)
                      +.+..+|..-+  -...|+..+....+.++.+  .+.|.      ...|..+...|-..|+++.|..+|++..+-+-   
T Consensus       346 ~~nV~eW~kRV--~l~e~~~~~~i~tyteAv~--~vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v  421 (835)
T KOG2047|consen  346 PHNVEEWHKRV--KLYEGNAAEQINTYTEAVK--TVDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTV  421 (835)
T ss_pred             CccHHHHHhhh--hhhcCChHHHHHHHHHHHH--ccCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccch
Confidence            11112222111  1224556666777777766  33333      23567888899999999999999999886543   


Q ss_pred             ----hhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-----------------CHhHHHHHHHHHHcCCChHHHHHHHH
Q 038303          278 ----ISWSTVISGLAMNGCGRQALQLFSLMIINAVFP-----------------DDVTFIALISACSHGGLVDQGLILFK  336 (461)
Q Consensus       278 ----~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p-----------------~~~~~~~ll~~~~~~~~~~~a~~~~~  336 (461)
                          .+|..-...-.++.+++.|+++++......-.|                 +...|...+..-...|-++....+++
T Consensus       422 ~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYd  501 (835)
T KOG2047|consen  422 EDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYD  501 (835)
T ss_pred             HHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHH
Confidence                345555555567888999999888765421111                 11234444555555688888899999


Q ss_pred             HhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CC--Cchh-hHHHHHHHHHH---hcCChHHHHHHHHHHhhc
Q 038303          337 AMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PI--EAEW-SVWGALLNACR---IHRNDEMFDRIRQDLVNK  409 (461)
Q Consensus       337 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~--~p~~-~~~~~l~~~~~---~~~~~~~a~~~~~~~~~~  409 (461)
                      ++..-.-..|...  -...-.+-...-++++.+++++- +.  .|++ ..|+..+.-+.   .....+.|..+|+++.++
T Consensus       502 riidLriaTPqii--~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~~  579 (835)
T KOG2047|consen  502 RIIDLRIATPQII--INYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALDG  579 (835)
T ss_pred             HHHHHhcCCHHHH--HHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHhc
Confidence            9887322334322  22222344566788999999887 22  2333 36666665543   345789999999999998


Q ss_pred             CCCChh--HHHHHHHHHhccCChhhHHHHHHHHH
Q 038303          410 KGVSVG--TFALMSNTFAGADRWEDTNKIRDEIR  441 (461)
Q Consensus       410 ~~~~~~--~~~~l~~~~~~~g~~~~A~~~~~~m~  441 (461)
                      .||...  .|...+..--+.|....|+.++++..
T Consensus       580 Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat  613 (835)
T KOG2047|consen  580 CPPEHAKTIYLLYAKLEEEHGLARHAMSIYERAT  613 (835)
T ss_pred             CCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            876533  34444444456688888898888853

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.40  E-value=4.4e-09  Score=97.37  Aligned_cols=399  Identities=11%  Similarity=-0.004  Sum_probs=267.2

Q ss_pred             hCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCceeHHHHHHHHHcCCChHHHHHHHhcC-CCC--CCchh-H
Q 038303           39 YGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVF---PDVVSWTTIISGLSKCGFHKEAIDMFCGI-DVK--PNANT-L  111 (461)
Q Consensus        39 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m-~~~--p~~~~-~  111 (461)
                      ..+..++..|..|.-++.+.|+++.+.+.|++..+   .....|+.+-..|...|.-..|+.+++.. ...  |+..+ +
T Consensus       317 ~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~  396 (799)
T KOG4162|consen  317 KKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVL  396 (799)
T ss_pred             hhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHH
Confidence            35667888999999999999999999999998743   34567888889999999999999999887 555  54343 3


Q ss_pred             HHHHHHhc-ccchhHHHHHHHHHHHhh--cC--CCChhHHHHHHHHHHHc-----------CChhhHHHHHhcCCC---C
Q 038303          112 VSVLSACS-SLVSHKLGKAIHAHSLRN--LN--ENNIILDNAILDFYIRC-----------GSLASCGYLFVKMPK---R  172 (461)
Q Consensus       112 ~~ll~~~~-~~~~~~~a~~~~~~~~~~--~~--~~~~~~~~~l~~~~~~~-----------g~~~~a~~~~~~~~~---~  172 (461)
                      -..-..|. +.+..+++..+-.+++..  +.  ......|..+.-+|...           ....++.+.+++..+   .
T Consensus       397 Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~  476 (799)
T KOG4162|consen  397 LMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPT  476 (799)
T ss_pred             HHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCC
Confidence            33334444 446777777777776662  11  12334444444444332           123456677777644   2


Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHH
Q 038303          173 NVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAV  252 (461)
Q Consensus       173 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  252 (461)
                      |..+.-.+.--|+..++.+.|.+...+..+.+ -..+...|..+.-.++..+++..|+.+.+......|..-....  .-
T Consensus       477 dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~-~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~l~~--~~  553 (799)
T KOG4162|consen  477 DPLVIFYLALQYAEQRQLTSALDYAREALALN-RGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHVLMD--GK  553 (799)
T ss_pred             CchHHHHHHHHHHHHHhHHHHHHHHHHHHHhc-CCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhhhch--hh
Confidence            33333334445778889999999999999876 6677888888888889999999999998888774444222111  11


Q ss_pred             HHHHHhcCCHHHHHHHHHHccC------------------------------C--ChhhHHHHHHHHHhcCChHHHHHHH
Q 038303          253 INMYVKCGDVGIAIQVFNMLAY------------------------------K--DKISWSTVISGLAMNGCGRQALQLF  300 (461)
Q Consensus       253 i~~~~~~g~~~~a~~~~~~~~~------------------------------~--~~~~~~~l~~~~~~~~~~~~a~~~~  300 (461)
                      +..-...++.+++......+..                              +  .+.++..+..-....+  ..+..-.
T Consensus       554 ~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~--~~~~se~  631 (799)
T KOG4162|consen  554 IHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQL--KSAGSEL  631 (799)
T ss_pred             hhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhh--hhccccc
Confidence            1122234555555443322210                              0  1122222222111110  0000000


Q ss_pred             HHHHhcCCCCCH--------hHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHH
Q 038303          301 SLMIINAVFPDD--------VTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIR  372 (461)
Q Consensus       301 ~~m~~~g~~p~~--------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  372 (461)
                      . +...-+.|+.        ..+......+.+.++.++|...+.+...  -.+-....|......+...|.+++|.+.|.
T Consensus       632 ~-Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~--~~~l~~~~~~~~G~~~~~~~~~~EA~~af~  708 (799)
T KOG4162|consen  632 K-LPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASK--IDPLSASVYYLRGLLLEVKGQLEEAKEAFL  708 (799)
T ss_pred             c-cCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHh--cchhhHHHHHHhhHHHHHHHhhHHHHHHHH
Confidence            0 2222222222        2344555667888999999988888876  445566777777788889999999999998


Q ss_pred             hC-CCCch-hhHHHHHHHHHHhcCChHHHHH--HHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcCC
Q 038303          373 EM-PIEAE-WSVWGALLNACRIHRNDEMFDR--IRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGL  445 (461)
Q Consensus       373 ~~-~~~p~-~~~~~~l~~~~~~~~~~~~a~~--~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~  445 (461)
                      .. .+.|+ +.+..++...+.+.|+..-|..  ++..+.+.+|.++.+|..++..+.+.|+.++|.+.|+...+...
T Consensus       709 ~Al~ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe~  785 (799)
T KOG4162|consen  709 VALALDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLEE  785 (799)
T ss_pred             HHHhcCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhcc
Confidence            87 55564 5577888888999999888888  99999999999999999999999999999999999999877543

>PF13041 PPR_2: PPR repeat family

Probab=99.39  E-value=1.4e-12  Score=80.29  Aligned_cols=50  Identities=32%  Similarity=0.466  Sum_probs=40.6

Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHc
Q 038303          275 KDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSH  324 (461)
Q Consensus       275 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~  324 (461)
                      ||+.+||++|.+|++.|++++|.++|++|.+.|+.||..||+.+|++|++
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            56778888888888888888888888888888888888888888888764

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.38  E-value=1.8e-09  Score=94.72  Aligned_cols=339  Identities=11%  Similarity=-0.014  Sum_probs=218.1

Q ss_pred             HHHHHHHHHcCCChHHHHHHHhcC-CCCCC-chhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHc
Q 038303           79 WTTIISGLSKCGFHKEAIDMFCGI-DVKPN-ANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRC  156 (461)
Q Consensus        79 ~~~li~~~~~~~~~~~a~~~~~~m-~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  156 (461)
                      +-...+-|.++|++++|+++|.+. ...|| +..|.....+|...|+|+++.+.-...++..+. -+..+..-.+++-..
T Consensus       118 lK~~GN~~f~~kkY~eAIkyY~~AI~l~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl~P~-Y~KAl~RRA~A~E~l  196 (606)
T KOG0547|consen  118 LKTKGNKFFRNKKYDEAIKYYTQAIELCPDEPIFYSNRAACYESLGDWEKVIEDCTKALELNPD-YVKALLRRASAHEQL  196 (606)
T ss_pred             HHhhhhhhhhcccHHHHHHHHHHHHhcCCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcCcH-HHHHHHHHHHHHHhh
Confidence            344567788999999999999999 88898 777888888899999999999988888776544 344556667788888


Q ss_pred             CChhhHHHHHhcCCCCchhHHHHHHHHHHhcCChHHHHHHHH--------H-HHhc-CCCCCChhhHHHHHHHhhccchh
Q 038303          157 GSLASCGYLFVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQ--------E-MEKT-KEAEPNEATLVNVLSACSSISAL  226 (461)
Q Consensus       157 g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~--------~-m~~~-~~~~~~~~~~~~~l~~~~~~~~~  226 (461)
                      |++++|+.-.         |-.++...+....-.--+.++++        + +.+. ..+-|+.....+....+...-..
T Consensus       197 g~~~eal~D~---------tv~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~~  267 (606)
T KOG0547|consen  197 GKFDEALFDV---------TVLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHADPKP  267 (606)
T ss_pred             ccHHHHHHhh---------hHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhccccccc
Confidence            8888876521         22222222222222222222222        1 2211 11334444444444333211000


Q ss_pred             hhHHHHHHHHHhhcCCCCcchHHHHHHHHH----Hh-cCCHHHHHHHHHHcc-------CC---Chh------hHHHHHH
Q 038303          227 SFGKYVHSYISTRYDLSVSNLVGNAVINMY----VK-CGDVGIAIQVFNMLA-------YK---DKI------SWSTVIS  285 (461)
Q Consensus       227 ~~a~~~~~~~~~~~~~~~~~~~~~~li~~~----~~-~g~~~~a~~~~~~~~-------~~---~~~------~~~~l~~  285 (461)
                                   ....+.......+..++    .. ...+..|...+.+-.       ..   |..      +......
T Consensus       268 -------------~~~~~~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gt  334 (606)
T KOG0547|consen  268 -------------LFDNKSDKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGT  334 (606)
T ss_pred             -------------cccCCCccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhh
Confidence                         00000111111111111    11 012333433332211       11   111      1111122


Q ss_pred             HHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHH
Q 038303          286 GLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLE  365 (461)
Q Consensus       286 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  365 (461)
                      .+.-.|+.-.|.+-|+..+.....++. .|-.+...|....+.++..+.|++...  --+-++.+|..-.+.+.-.++++
T Consensus       335 F~fL~g~~~~a~~d~~~~I~l~~~~~~-lyI~~a~~y~d~~~~~~~~~~F~~A~~--ldp~n~dvYyHRgQm~flL~q~e  411 (606)
T KOG0547|consen  335 FHFLKGDSLGAQEDFDAAIKLDPAFNS-LYIKRAAAYADENQSEKMWKDFNKAED--LDPENPDVYYHRGQMRFLLQQYE  411 (606)
T ss_pred             hhhhcCCchhhhhhHHHHHhcCcccch-HHHHHHHHHhhhhccHHHHHHHHHHHh--cCCCCCchhHhHHHHHHHHHHHH
Confidence            234468888999999999886544333 277777789999999999999999877  23446778888888888899999


Q ss_pred             HHHHHHHhC-CCCchh-hHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHc
Q 038303          366 EAEAFIREM-PIEAEW-SVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRM  443 (461)
Q Consensus       366 ~A~~~~~~~-~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  443 (461)
                      +|..-|++. .+.|.. ..|..+-.+..+.+.+++++..|++.++..|..+..|+..+.++...++++.|.+.++...+.
T Consensus       412 ~A~aDF~Kai~L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkkFP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~L  491 (606)
T KOG0547|consen  412 EAIADFQKAISLDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKKFPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIEL  491 (606)
T ss_pred             HHHHHHHHHhhcChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhh
Confidence            999999998 555643 345555555668889999999999999999999999999999999999999999999998764

>PF13041 PPR_2: PPR repeat family

Probab=99.37  E-value=1.7e-12  Score=79.83  Aligned_cols=50  Identities=16%  Similarity=0.188  Sum_probs=48.7

Q ss_pred             CCcchHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHh
Q 038303            8 YNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVT   57 (461)
Q Consensus         8 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~   57 (461)
                      ||..+||.+|++|++.|++++|.++|++|.+.|+.||..||+.+|++|++
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            89999999999999999999999999999999999999999999999975

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.36  E-value=1.9e-08  Score=84.91  Aligned_cols=179  Identities=9%  Similarity=0.022  Sum_probs=114.4

Q ss_pred             HHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhC---CCCCceeHHHHHHHHHcCCChH
Q 038303           17 LKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSV---VFPDVVSWTTIISGLSKCGFHK   93 (461)
Q Consensus        17 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~~~~~~~~li~~~~~~~~~~   93 (461)
                      +.-+...+++..|..+++.-...+-+-...+-.-+...+.+.|++++|...+..+   ..++...+-.|.-++.-.|.+.
T Consensus        29 Ledfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~~~~~el~vnLAcc~FyLg~Y~  108 (557)
T KOG3785|consen   29 LEDFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKDDAPAELGVNLACCKFYLGQYI  108 (557)
T ss_pred             HHHHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccCCCCcccchhHHHHHHHHHHHH
Confidence            4556677888999998887765443322222223445667889999999999877   2355566666666666778888


Q ss_pred             HHHHHHhcCCCCCCchhHH-HHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCCC-
Q 038303           94 EAIDMFCGIDVKPNANTLV-SVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPK-  171 (461)
Q Consensus        94 ~a~~~~~~m~~~p~~~~~~-~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-  171 (461)
                      +|..+-...   |+..... .+....-+.++-++-..+.+.+...     ..---+|.......-.+++|++++.++.. 
T Consensus       109 eA~~~~~ka---~k~pL~~RLlfhlahklndEk~~~~fh~~LqD~-----~EdqLSLAsvhYmR~HYQeAIdvYkrvL~d  180 (557)
T KOG3785|consen  109 EAKSIAEKA---PKTPLCIRLLFHLAHKLNDEKRILTFHSSLQDT-----LEDQLSLASVHYMRMHYQEAIDVYKRVLQD  180 (557)
T ss_pred             HHHHHHhhC---CCChHHHHHHHHHHHHhCcHHHHHHHHHHHhhh-----HHHHHhHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            888887654   4444433 3444455667766666666555432     12234455555556678899999988875 


Q ss_pred             -CchhHHHH-HHHHHHhcCChHHHHHHHHHHHhc
Q 038303          172 -RNVVSWTT-MIGGYAERGFCKEAVSVFQEMEKT  203 (461)
Q Consensus       172 -~~~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~  203 (461)
                       |+-...|. +.-+|.+..-++-+.++++--.+.
T Consensus       181 n~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q  214 (557)
T KOG3785|consen  181 NPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ  214 (557)
T ss_pred             ChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh
Confidence             44444443 334667777777777777776663

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.36  E-value=3.5e-09  Score=94.60  Aligned_cols=409  Identities=11%  Similarity=-0.003  Sum_probs=268.9

Q ss_pred             CcchHHHHHHHHHhhCCHHHHHHHHHHH----HHhCC---------CccHHH----HHHH-------HHHHHhcCCHHHH
Q 038303            9 NHYTFTQALKACSLAHPHQKALEIHAHV----IEYGH---------LHDIFI----QNSL-------LHFYVTVKDIFSA   64 (461)
Q Consensus         9 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~---------~~~~~~----~~~l-------l~~~~~~~~~~~a   64 (461)
                      |..+.......+.+..++++|..++...    .....         .++..-    -+.-       -..|....++++|
T Consensus        81 d~~cryL~~~~l~~lk~~~~al~vl~~~~~~~~~f~yy~~~~~~~l~~n~~~~~~~~~~essic~lRgk~y~al~n~~~a  160 (611)
T KOG1173|consen   81 DIACRYLAAKCLVKLKEWDQALLVLGRGHVETNPFSYYEKDAANTLELNSAGEDLMINLESSICYLRGKVYVALDNREEA  160 (611)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhcccchhhcchhhcchhhhceeccCcccccccccchhceeeeeeehhhhhccHHHH
Confidence            4455666677788888889988888722    11100         011000    0000       1233344567777


Q ss_pred             HHHHhhCCCCCceeHHHHHHHHHcC-CChHHHHHHHhcCCCC----CCchhHHHHHHHh-cccchhHHHHHHHHHHHhhc
Q 038303           65 HQIFNSVVFPDVVSWTTIISGLSKC-GFHKEAIDMFCGIDVK----PNANTLVSVLSAC-SSLVSHKLGKAIHAHSLRNL  138 (461)
Q Consensus        65 ~~~~~~~~~~~~~~~~~li~~~~~~-~~~~~a~~~~~~m~~~----p~~~~~~~ll~~~-~~~~~~~~a~~~~~~~~~~~  138 (461)
                      ...|.+....|+..|..+....... -...+-..+|+.+...    -+......+.... ++..+ +.....-....-.+
T Consensus       161 r~~Y~~Al~~D~~c~Ea~~~lvs~~mlt~~Ee~~ll~~l~~a~~~~ed~e~l~~lyel~~~k~~n-~~~~~r~~~~sl~~  239 (611)
T KOG1173|consen  161 RDKYKEALLADAKCFEAFEKLVSAHMLTAQEEFELLESLDLAMLTKEDVERLEILYELKLCKNRN-EESLTRNEDESLIG  239 (611)
T ss_pred             HHHHHHHHhcchhhHHHHHHHHHHHhcchhHHHHHHhcccHHhhhhhHHHHHHHHHHhhhhhhcc-ccccccCchhhhhh
Confidence            7777777666666665544322211 1122334444433111    1111111111111 00000 00000000011112


Q ss_pred             CCCChhHHHHHHHHHHHcCChhhHHHHHhcCCC---CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHH
Q 038303          139 NENNIILDNAILDFYIRCGSLASCGYLFVKMPK---RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVN  215 (461)
Q Consensus       139 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~  215 (461)
                      ..-+........+-+...+++.+..++++...+   +....+..-|.++...|+..+-..+=.++.+.  .|-.+.+|-.
T Consensus       240 l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~--yP~~a~sW~a  317 (611)
T KOG1173|consen  240 LAENLDLLAEKADRLYYGCRFKECLKITEELLEKDPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL--YPSKALSWFA  317 (611)
T ss_pred             hhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhCCCCcchHHHHHHHHHHhcccchHHHHHHHHHHh--CCCCCcchhh
Confidence            334566666777788889999999999998876   45566777788999999999999999999986  6777889999


Q ss_pred             HHHHhhccchhhhHHHHHHHHHhhcCCCCc-chHHHHHHHHHHhcCCHHHHHHHHHHccCC---ChhhHHHHHHHHHhcC
Q 038303          216 VLSACSSISALSFGKYVHSYISTRYDLSVS-NLVGNAVINMYVKCGDVGIAIQVFNMLAYK---DKISWSTVISGLAMNG  291 (461)
Q Consensus       216 ~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~  291 (461)
                      +.-.|...|..++|++.|.+...   +.|. ...|-.+...|.-.|..++|...+....+-   ....+--+.--|.+.+
T Consensus       318 Vg~YYl~i~k~seARry~SKat~---lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~  394 (611)
T KOG1173|consen  318 VGCYYLMIGKYSEARRYFSKATT---LDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTN  394 (611)
T ss_pred             HHHHHHHhcCcHHHHHHHHHHhh---cCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhc
Confidence            99999999999999999998854   3333 346788889999999999999888665431   2222233344577789


Q ss_pred             ChHHHHHHHHHHHhcCCCC-CHhHHHHHHHHHHcCCChHHHHHHHHHhHhhc-CCCC----CcchHHHHHHHHhhcCCHH
Q 038303          292 CGRQALQLFSLMIINAVFP-DDVTFIALISACSHGGLVDQGLILFKAMSTVY-EIVP----QMQHYACVVDMYGRAGLLE  365 (461)
Q Consensus       292 ~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~----~~~~~~~l~~~~~~~g~~~  365 (461)
                      ++..|.+.|.+....  -| |+...+-+.-.....+.+.+|..+|+...... ...+    -..+++.|..+|.+.++++
T Consensus       395 n~kLAe~Ff~~A~ai--~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~  472 (611)
T KOG1173|consen  395 NLKLAEKFFKQALAI--APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYE  472 (611)
T ss_pred             cHHHHHHHHHHHHhc--CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHH
Confidence            999999999988774  44 45666666655667899999999998876311 1111    2345788899999999999


Q ss_pred             HHHHHHHhC--CCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHh
Q 038303          366 EAEAFIREM--PIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFA  425 (461)
Q Consensus       366 ~A~~~~~~~--~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  425 (461)
                      +|+..+++.  ..+.+..++.++.-.|...|+++.|++.|.+.....|.+..+-..|..+..
T Consensus       473 eAI~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~lL~~aie  534 (611)
T KOG1173|consen  473 EAIDYYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISELLKLAIE  534 (611)
T ss_pred             HHHHHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHHHHHHHH
Confidence            999999998  445577788888888999999999999999999999999766666555443

>PRK12370 invasion protein regulator; Provisional

Probab=99.35  E-value=5.3e-10  Score=107.21  Aligned_cols=260  Identities=11%  Similarity=-0.024  Sum_probs=178.2

Q ss_pred             chhHHHHHHHHHHh-----cCChHHHHHHHHHHHhcCCCCCC-hhhHHHHHHHhh---------ccchhhhHHHHHHHHH
Q 038303          173 NVVSWTTMIGGYAE-----RGFCKEAVSVFQEMEKTKEAEPN-EATLVNVLSACS---------SISALSFGKYVHSYIS  237 (461)
Q Consensus       173 ~~~~~~~li~~~~~-----~~~~~~a~~~~~~m~~~~~~~~~-~~~~~~~l~~~~---------~~~~~~~a~~~~~~~~  237 (461)
                      +...|...+.+...     .++.++|..+|++..+   ..|+ ...+..+..++.         ..++.++|...++...
T Consensus       255 ~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~---ldP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al  331 (553)
T PRK12370        255 SIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVN---MSPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKAT  331 (553)
T ss_pred             ChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHh---cCCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHH
Confidence            44555555555322     2346799999999988   4454 444544443332         3355788999999887


Q ss_pred             hhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccC--C-ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH-h
Q 038303          238 TRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAY--K-DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDD-V  313 (461)
Q Consensus       238 ~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~-~  313 (461)
                      +  -.+.+...+..+...+...|++++|...|++..+  | +...|..+...+...|++++|...+++..+..  |+. .
T Consensus       332 ~--ldP~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~--P~~~~  407 (553)
T PRK12370        332 E--LDHNNPQALGLLGLINTIHSEYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLKLD--PTRAA  407 (553)
T ss_pred             h--cCCCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCChh
Confidence            7  2334556777888888999999999999998774  3 45678888899999999999999999998854  443 2


Q ss_pred             HHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCC-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCchhhHHHH-HHHHH
Q 038303          314 TFIALISACSHGGLVDQGLILFKAMSTVYEIVP-QMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAEWSVWGA-LLNAC  390 (461)
Q Consensus       314 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~-l~~~~  390 (461)
                      .+..++..+...|++++|...++++.. . .+| ++..+..+..++...|+.++|...++++ ...|+...... +...+
T Consensus       408 ~~~~~~~~~~~~g~~eeA~~~~~~~l~-~-~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~  485 (553)
T PRK12370        408 AGITKLWITYYHTGIDDAIRLGDELRS-Q-HLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEY  485 (553)
T ss_pred             hHHHHHHHHHhccCHHHHHHHHHHHHH-h-ccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHH
Confidence            333444456668999999999998876 2 234 4455677888889999999999999988 44555444433 44446


Q ss_pred             HhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcC
Q 038303          391 RIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMG  444 (461)
Q Consensus       391 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  444 (461)
                      ...|  +.|...++.+.+.....+.-.......|.-.|+.+.+..+ +++.+.|
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            6666  4777777777763221111222255566667777777666 7776654

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.34  E-value=4e-10  Score=105.47  Aligned_cols=243  Identities=11%  Similarity=-0.019  Sum_probs=141.0

Q ss_pred             CCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCCCCchhHHHHHHH
Q 038303          103 DVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIG  182 (461)
Q Consensus       103 ~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~  182 (461)
                      |+.|+..||..+|.-|+..|+.+.|- +|..|.-...+.+...++.++.++...++.+.+.       .|...+|..|..
T Consensus        20 gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-------ep~aDtyt~Ll~   91 (1088)
T KOG4318|consen   20 GILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-------EPLADTYTNLLK   91 (1088)
T ss_pred             cCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-------CCchhHHHHHHH
Confidence            78888888888888888888888887 8888877777777888888888888777776555       577788888888


Q ss_pred             HHHhcCChHHHHHHHHH-HH-------hcCCCCCChhhHHHHHHH--------------hhccchhhhHHHHHHHHHhhc
Q 038303          183 GYAERGFCKEAVSVFQE-ME-------KTKEAEPNEATLVNVLSA--------------CSSISALSFGKYVHSYISTRY  240 (461)
Q Consensus       183 ~~~~~~~~~~a~~~~~~-m~-------~~~~~~~~~~~~~~~l~~--------------~~~~~~~~~a~~~~~~~~~~~  240 (461)
                      +|...||... ++..++ |.       ..| +.....-+-..+.+              ..-.|.++.+.+++..+....
T Consensus        92 ayr~hGDli~-fe~veqdLe~i~~sfs~~G-vgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~~Pvsa  169 (1088)
T KOG4318|consen   92 AYRIHGDLIL-FEVVEQDLESINQSFSDHG-VGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAKVPVSA  169 (1088)
T ss_pred             HHHhccchHH-HHHHHHHHHHHHhhhhhhc-cCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhhCCccc
Confidence            8888887654 222222 11       111 11111111111111              111222333333322221101


Q ss_pred             CCCCcchHHHHHHHHHHh-cCCHHHHHHHHHHccC-CChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHH
Q 038303          241 DLSVSNLVGNAVINMYVK-CGDVGIAIQVFNMLAY-KDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIAL  318 (461)
Q Consensus       241 ~~~~~~~~~~~li~~~~~-~g~~~~a~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l  318 (461)
                      ...|...    +++-... ...+++-...-....+ ++..+|.+++..-...|+.+.|..++.+|.+.|++.+.+-|-.|
T Consensus       170 ~~~p~~v----fLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpL  245 (1088)
T KOG4318|consen  170 WNAPFQV----FLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPL  245 (1088)
T ss_pred             ccchHHH----HHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhh
Confidence            1111111    1111111 1122333333333333 57777777777777777777777777777777777777666666


Q ss_pred             HHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCC
Q 038303          319 ISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGL  363 (461)
Q Consensus       319 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  363 (461)
                      +-+   .++...++.+++.|.. .|+.|+..|+...+..+...|.
T Consensus       246 l~g---~~~~q~~e~vlrgmqe-~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  246 LLG---INAAQVFEFVLRGMQE-KGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             hhc---CccchHHHHHHHHHHH-hcCCCCcchhHHHHHhhhcchh
Confidence            544   6677777777777776 6777777777766666655443

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.33  E-value=7.3e-09  Score=85.24  Aligned_cols=423  Identities=10%  Similarity=0.032  Sum_probs=255.4

Q ss_pred             CCCCCCCCCcchHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCC--CCCcee
Q 038303            1 MLSCPSSYNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVV--FPDVVS   78 (461)
Q Consensus         1 M~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~--~~~~~~   78 (461)
                      |...|+....--+++++..+.+..++.+|.+++..-.+...+ +....+.|-..|.+..++..|...++++.  .|...-
T Consensus         1 M~~~g~~i~EGeftaviy~lI~d~ry~DaI~~l~s~~Er~p~-~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~q   79 (459)
T KOG4340|consen    1 MAGSGAQIPEGEFTAVVYRLIRDARYADAIQLLGSELERSPR-SRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQ   79 (459)
T ss_pred             CCcccccCCCCchHHHHHHHHHHhhHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHH
Confidence            566777777777899999999999999999999988776632 66677778888889999999999999983  354444


Q ss_pred             HHHH-HHHHHcCCChHHHHHHHhcCCCCCCchhHHHHHHH--hcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHH
Q 038303           79 WTTI-ISGLSKCGFHKEAIDMFCGIDVKPNANTLVSVLSA--CSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIR  155 (461)
Q Consensus        79 ~~~l-i~~~~~~~~~~~a~~~~~~m~~~p~~~~~~~ll~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  155 (461)
                      |... ...+-+.+.+..|+++...|+-.|+...-..-+.+  ....+|+..+..++++....|   +..+.+...-...+
T Consensus        80 YrlY~AQSLY~A~i~ADALrV~~~~~D~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllyk  156 (459)
T KOG4340|consen   80 YRLYQAQSLYKACIYADALRVAFLLLDNPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYK  156 (459)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHhcCCHHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeec
Confidence            4432 35667788999999999988544544433333333  345678888888777765432   34444444555668


Q ss_pred             cCChhhHHHHHhcCCC----CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHH
Q 038303          156 CGSLASCGYLFVKMPK----RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKY  231 (461)
Q Consensus       156 ~g~~~~a~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~  231 (461)
                      .|+++.|.+-|+...+    .....||.-+ ++.+.|+++.|+++..++++.| ++..+..-..+..--.....+.....
T Consensus       157 egqyEaAvqkFqaAlqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIieRG-~r~HPElgIGm~tegiDvrsvgNt~~  234 (459)
T KOG4340|consen  157 EGQYEAAVQKFQAALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIERG-IRQHPELGIGMTTEGIDVRSVGNTLV  234 (459)
T ss_pred             cccHHHHHHHHHHHHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHhh-hhcCCccCccceeccCchhcccchHH
Confidence            8999999999988876    3455666554 4556788999999999988887 54332211000000000000000000


Q ss_pred             HHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCC-----ChhhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 038303          232 VHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYK-----DKISWSTVISGLAMNGCGRQALQLFSLMIIN  306 (461)
Q Consensus       232 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  306 (461)
                      +....        -...+|.-...+.+.|+.+.|.+.+-.|..+     |++|...+.-. -..+++.+..+-+.-+.+.
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            10000        0112333344567889999999999999843     66666554322 2245566666666666665


Q ss_pred             CCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHh-hcCCHHHHHHHHHhCCCCchhhHHHH
Q 038303          307 AVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYG-RAGLLEEAEAFIREMPIEAEWSVWGA  385 (461)
Q Consensus       307 g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~g~~~~A~~~~~~~~~~p~~~~~~~  385 (461)
                      .. -...||..++-.||+..-++.|-.++.+-....-.-.+...|+ |++++. ..-..++|.+-++.+...-....-..
T Consensus       306 nP-fP~ETFANlLllyCKNeyf~lAADvLAEn~~lTyk~L~~Yly~-LLdaLIt~qT~pEea~KKL~~La~~l~~kLRkl  383 (459)
T KOG4340|consen  306 NP-FPPETFANLLLLYCKNEYFDLAADVLAENAHLTYKFLTPYLYD-LLDALITCQTAPEEAFKKLDGLAGMLTEKLRKL  383 (459)
T ss_pred             CC-CChHHHHHHHHHHhhhHHHhHHHHHHhhCcchhHHHhhHHHHH-HHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            43 3458999999999999999999988865433111112334444 334433 34466777766655511111111111


Q ss_pred             HHHH--HHhcCChHHH---HHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHc
Q 038303          386 LLNA--CRIHRNDEMF---DRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRM  443 (461)
Q Consensus       386 l~~~--~~~~~~~~~a---~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  443 (461)
                      .+..  -...++-.+.   +.-+++..+.   -..+...-++.|.+..++..+.++|..-.+-
T Consensus       384 Ai~vQe~r~~~dd~a~R~ai~~Yd~~LE~---YLPVlMa~AkiyW~~~Dy~~vEk~Fr~Svef  443 (459)
T KOG4340|consen  384 AIQVQEARHNRDDEAIRKAVNEYDETLEK---YLPVLMAQAKIYWNLEDYPMVEKIFRKSVEF  443 (459)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHHHHHH---HHHHHHHHHHhhccccccHHHHHHHHHHHhh
Confidence            1111  1122222222   2222222222   1234556667788889999999999876553

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.32  E-value=6e-10  Score=95.11  Aligned_cols=124  Identities=10%  Similarity=0.005  Sum_probs=67.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHccCC-----ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHH
Q 038303          248 VGNAVINMYVKCGDVGIAIQVFNMLAYK-----DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISAC  322 (461)
Q Consensus       248 ~~~~li~~~~~~g~~~~a~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~  322 (461)
                      .+..+...+...|++++|.+.++.....     ....+..+...+...|++++|...+++..+... .+...+..+...+
T Consensus       101 ~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~  179 (234)
T TIGR02521       101 VLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDP-QRPESLLELAELY  179 (234)
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CChHHHHHHHHHH
Confidence            3344444555555555555555554321     223444455556666666666666666655321 1334555556666


Q ss_pred             HcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC
Q 038303          323 SHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM  374 (461)
Q Consensus       323 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  374 (461)
                      ...|++++|...+++....  .+.+...+..+...+...|+.++|..+.+.+
T Consensus       180 ~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  229 (234)
T TIGR02521       180 YLRGQYKDARAYLERYQQT--YNQTAESLWLGIRIARALGDVAAAQRYGAQL  229 (234)
T ss_pred             HHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            6666666666666666552  2334445555556666666666666665544

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.30  E-value=2.9e-10  Score=94.46  Aligned_cols=229  Identities=11%  Similarity=0.039  Sum_probs=149.9

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHH
Q 038303          178 TTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYV  257 (461)
Q Consensus       178 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~  257 (461)
                      +.+..+|.+.|.+.+|.+.++...+   ..|-..||..+-.+|.+..++..|..++.+-.+  ..+-+.....-..+.+-
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~---q~~~~dTfllLskvY~ridQP~~AL~~~~~gld--~fP~~VT~l~g~ARi~e  301 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLT---QFPHPDTFLLLSKVYQRIDQPERALLVIGEGLD--SFPFDVTYLLGQARIHE  301 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhh---cCCchhHHHHHHHHHHHhccHHHHHHHHhhhhh--cCCchhhhhhhhHHHHH
Confidence            5678889999999999999988877   567777888888888888888888887777655  33333333344555666


Q ss_pred             hcCCHHHHHHHHHHccCC---ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHH
Q 038303          258 KCGDVGIAIQVFNMLAYK---DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLIL  334 (461)
Q Consensus       258 ~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~  334 (461)
                      ..++.++|.++++...+.   |+....++...|.-.++++-|+..|+++.+.|+. +...|..+.-+|.-.++++-++.-
T Consensus       302 am~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~s  380 (478)
T KOG1129|consen  302 AMEQQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPS  380 (478)
T ss_pred             HHHhHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHH
Confidence            666666666666665532   4444455555566666666666666666666654 555666666666666666665555


Q ss_pred             HHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCh
Q 038303          335 FKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSV  414 (461)
Q Consensus       335 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  414 (461)
                      |.+... .                  .-+.++|.+            .|..+.......||+..|.+.|+.....++.+.
T Consensus       381 f~RAls-t------------------at~~~~aaD------------vWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~  429 (478)
T KOG1129|consen  381 FQRALS-T------------------ATQPGQAAD------------VWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHG  429 (478)
T ss_pred             HHHHHh-h------------------ccCcchhhh------------hhhccceeEEeccchHHHHHHHHHHhccCcchH
Confidence            554443 1                  111122222            233333444556777777777777777777777


Q ss_pred             hHHHHHHHHHhccCChhhHHHHHHHHHHc
Q 038303          415 GTFALMSNTFAGADRWEDTNKIRDEIRRM  443 (461)
Q Consensus       415 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  443 (461)
                      ..++.|+-.-.+.|++++|..+++.....
T Consensus       430 ealnNLavL~~r~G~i~~Arsll~~A~s~  458 (478)
T KOG1129|consen  430 EALNNLAVLAARSGDILGARSLLNAAKSV  458 (478)
T ss_pred             HHHHhHHHHHhhcCchHHHHHHHHHhhhh
Confidence            78888887777888888888887776554

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.29  E-value=2e-07  Score=80.45  Aligned_cols=306  Identities=8%  Similarity=-0.053  Sum_probs=163.7

Q ss_pred             CCchhHHHHHHHhc--ccchhHHHHHHHHHHHhh-cCCCChhHHHHHHHHHHHcCChhhHHHHHhcCCCCchhHHHH---
Q 038303          106 PNANTLVSVLSACS--SLVSHKLGKAIHAHSLRN-LNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTT---  179 (461)
Q Consensus       106 p~~~~~~~ll~~~~--~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~---  179 (461)
                      |...+....+.+++  -.++...+...+-.+... -++.|......+.+.+...|+.++|+..|++....|..+...   
T Consensus       192 ~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~MD~  271 (564)
T KOG1174|consen  192 DHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAMDL  271 (564)
T ss_pred             CCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhhHHH
Confidence            33344444444432  223333333333333222 244466666777777777777777777777665433332211   


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhc
Q 038303          180 MIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKC  259 (461)
Q Consensus       180 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~  259 (461)
                      ....+...|+.++...+...+...  ..-....|..-....-...+++.|..+-++..+  -.+-+...+-.-...+...
T Consensus       272 Ya~LL~~eg~~e~~~~L~~~Lf~~--~~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~--~~~r~~~alilKG~lL~~~  347 (564)
T KOG1174|consen  272 YAVLLGQEGGCEQDSALMDYLFAK--VKYTASHWFVHAQLLYDEKKFERALNFVEKCID--SEPRNHEALILKGRLLIAL  347 (564)
T ss_pred             HHHHHHhccCHhhHHHHHHHHHhh--hhcchhhhhhhhhhhhhhhhHHHHHHHHHHHhc--cCcccchHHHhccHHHHhc
Confidence            122345566666666666665442  112222222222223334455555555554433  1111222232233455566


Q ss_pred             CCHHHHHHHHHHcc--CC-ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHH-HHH-HcCCChHHHHHH
Q 038303          260 GDVGIAIQVFNMLA--YK-DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALI-SAC-SHGGLVDQGLIL  334 (461)
Q Consensus       260 g~~~~a~~~~~~~~--~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll-~~~-~~~~~~~~a~~~  334 (461)
                      +++++|.-.|....  .| +..+|.-|+.+|...|++.+|...-++..+. +..+..+...+. ..| ....--++|.++
T Consensus       348 ~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf  426 (564)
T KOG1174|consen  348 ERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKF  426 (564)
T ss_pred             cchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHH
Confidence            77777777776544  32 5667777777777777777766655554432 223444444332 222 223334566666


Q ss_pred             HHHhHhhcCCCCC-cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCC
Q 038303          335 FKAMSTVYEIVPQ-MQHYACVVDMYGRAGLLEEAEAFIREM-PIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGV  412 (461)
Q Consensus       335 ~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  412 (461)
                      +++..+   +.|+ ....+.+.+.+...|+.+++..++++. ...||....+.|...+...+.+.+|.+.|..+.+.+|.
T Consensus       427 ~ek~L~---~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~  503 (564)
T KOG1174|consen  427 AEKSLK---INPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPK  503 (564)
T ss_pred             HHhhhc---cCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCcc
Confidence            665544   3333 334455666667777777777777766 55677777777777777777777777777777777776


Q ss_pred             ChhHHHH
Q 038303          413 SVGTFAL  419 (461)
Q Consensus       413 ~~~~~~~  419 (461)
                      +..+...
T Consensus       504 ~~~sl~G  510 (564)
T KOG1174|consen  504 SKRTLRG  510 (564)
T ss_pred             chHHHHH
Confidence            6544433

>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=99.28  E-value=1.6e-07  Score=87.38  Aligned_cols=411  Identities=10%  Similarity=0.025  Sum_probs=256.2

Q ss_pred             HHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCC--CCce-eHHHHHHHHHcC----
Q 038303           17 LKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVF--PDVV-SWTTIISGLSKC----   89 (461)
Q Consensus        17 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~--~~~~-~~~~li~~~~~~----   89 (461)
                      ...+...|++++|++.++.-... +.............+.+.|+.++|..+|..++.  |+-. -|..+..+..-.    
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            35578899999999999875543 434566677778899999999999999999954  3333 344455554222    


Q ss_pred             -CChHHHHHHHhcC-CCCCCchhHHHHHHHhcccch-hHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHH
Q 038303           90 -GFHKEAIDMFCGI-DVKPNANTLVSVLSACSSLVS-HKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLF  166 (461)
Q Consensus        90 -~~~~~a~~~~~~m-~~~p~~~~~~~ll~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  166 (461)
                       ...+...++|+++ ...|.......+.-.+..... -..+..++..++..|++   .+++.+-..|....+.+-...++
T Consensus        90 ~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~~i~~l~  166 (517)
T PF12569_consen   90 DEDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAAIIESLV  166 (517)
T ss_pred             cccHHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhHHHHHHHHH
Confidence             3567788888888 555766555444333333223 34566777777888765   34445555555444444444444


Q ss_pred             hcCC------------------CCchh--HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchh
Q 038303          167 VKMP------------------KRNVV--SWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISAL  226 (461)
Q Consensus       167 ~~~~------------------~~~~~--~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~  226 (461)
                      ....                  .|...  ++..+...|...|++++|++++++.++.  .|.....|..-...+-+.|++
T Consensus       167 ~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G~~  244 (517)
T PF12569_consen  167 EEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILKHAGDL  244 (517)
T ss_pred             HHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCCCH
Confidence            3321                  13333  4466678888999999999999999995  344467788888899999999


Q ss_pred             hhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCCChh----------hH--HHHHHHHHhcCChH
Q 038303          227 SFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKI----------SW--STVISGLAMNGCGR  294 (461)
Q Consensus       227 ~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~----------~~--~~l~~~~~~~~~~~  294 (461)
                      .+|....+....  -...|..+-+..+..+.+.|++++|.+++....+++..          .|  .....+|.+.|++.
T Consensus       245 ~~Aa~~~~~Ar~--LD~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~  322 (517)
T PF12569_consen  245 KEAAEAMDEARE--LDLADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYG  322 (517)
T ss_pred             HHHHHHHHHHHh--CChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHH
Confidence            999999999877  34456667777888999999999999999988866421          12  33467889999999


Q ss_pred             HHHHHHHHHHhc--CC---CCCHh----------HHHHHHHHHHcCCC-------hHHHHHHHHHhHhhcCCCCCc----
Q 038303          295 QALQLFSLMIIN--AV---FPDDV----------TFIALISACSHGGL-------VDQGLILFKAMSTVYEIVPQM----  348 (461)
Q Consensus       295 ~a~~~~~~m~~~--g~---~p~~~----------~~~~ll~~~~~~~~-------~~~a~~~~~~~~~~~~~~~~~----  348 (461)
                      .|++-|....+.  .+   +-|.+          +|..+++..-+...       ...|.+++-.+..........    
T Consensus       323 ~ALk~~~~v~k~f~~~~~DQfDFH~Yc~RK~t~r~Y~~~L~~ed~l~~~~~y~raa~~ai~iYl~l~d~~~~~~~~~~~~  402 (517)
T PF12569_consen  323 LALKRFHAVLKHFDDFEEDQFDFHSYCLRKMTLRAYVDMLRWEDKLRSHPFYRRAAKGAIRIYLELHDKPEAKQGEEQEA  402 (517)
T ss_pred             HHHHHHHHHHHHHHHHhcccccHHHHHHhhccHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHhcCccccccccccc
Confidence            988877665432  01   12323          33334433222111       223444444443311000000    


Q ss_pred             -------chHHHHHHHH---hhcCCHHHHHHHHH-----------hC------CCCchhhHHHHHHHHHHhcCChHHHHH
Q 038303          349 -------QHYACVVDMY---GRAGLLEEAEAFIR-----------EM------PIEAEWSVWGALLNACRIHRNDEMFDR  401 (461)
Q Consensus       349 -------~~~~~l~~~~---~~~g~~~~A~~~~~-----------~~------~~~p~~~~~~~l~~~~~~~~~~~~a~~  401 (461)
                             .--..+..-.   .+...-+++...-.           ..      +..||+.- ..|   .....-.++|.+
T Consensus       403 ~~~~~~~~e~Kk~~kK~kK~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~Dp~G-ekL---~~t~dPLe~A~k  478 (517)
T PF12569_consen  403 DNENMSAAERKKAKKKAKKAAKKAKKEEAEKAAKKEPKKQQNKSKKKEKVEPKKKDDDPLG-EKL---LKTEDPLEEAMK  478 (517)
T ss_pred             ccccCChHHHHHHHHHHHHHHHHHhHHHHHHHHhhhhhhhhccccccccccCCcCCCCccH-HHH---hcCCcHHHHHHH
Confidence                   0000111100   11111111111110           00      11122211 111   123446788999


Q ss_pred             HHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHH
Q 038303          402 IRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDE  439 (461)
Q Consensus       402 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  439 (461)
                      +++-+.+..|.+..+|..-...|.+.|++--|++.+.+
T Consensus       479 fl~pL~~~a~~~~et~~laFeVy~Rk~K~LLaLqaL~k  516 (517)
T PF12569_consen  479 FLKPLLELAPDNIETHLLAFEVYLRKGKYLLALQALKK  516 (517)
T ss_pred             HHHHHHHhCccchhhHHHHhHHHHhcCcHHHHHHHHHh
Confidence            99999999999999999999999999999999888764

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 [], [].

>PRK12370 invasion protein regulator; Provisional

Probab=99.24  E-value=2e-09  Score=103.22  Aligned_cols=256  Identities=14%  Similarity=-0.010  Sum_probs=170.0

Q ss_pred             ChhHHHHHHHHHHH-----cCChhhHHHHHhcCCC--C-chhHHHHHHHHHH---------hcCChHHHHHHHHHHHhcC
Q 038303          142 NIILDNAILDFYIR-----CGSLASCGYLFVKMPK--R-NVVSWTTMIGGYA---------ERGFCKEAVSVFQEMEKTK  204 (461)
Q Consensus       142 ~~~~~~~l~~~~~~-----~g~~~~a~~~~~~~~~--~-~~~~~~~li~~~~---------~~~~~~~a~~~~~~m~~~~  204 (461)
                      +...|...+.+-..     .+++++|..+|++..+  | +...|..+..++.         ..+++++|...+++..+. 
T Consensus       255 ~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ldP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~l-  333 (553)
T PRK12370        255 SIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMSPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATEL-  333 (553)
T ss_pred             ChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhc-
Confidence            34444455554322     2345788888888775  3 3345555554443         234578999999998885 


Q ss_pred             CCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCCCh---hhHH
Q 038303          205 EAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDK---ISWS  281 (461)
Q Consensus       205 ~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~---~~~~  281 (461)
                       .+.+...+..+...+...|++++|...++...+  -.+.+...+..+...+...|++++|...+++..+-++   ..+.
T Consensus       334 -dP~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~--l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~~~~~~~  410 (553)
T PRK12370        334 -DHNNPQALGLLGLINTIHSEYIVGSLLFKQANL--LSPISADIKYYYGWNLFMAGQLEEALQTINECLKLDPTRAAAGI  410 (553)
T ss_pred             -CCCCHHHHHHHHHHHHHccCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCChhhHH
Confidence             344566777777778888999999999999877  2233455677888899999999999999998874322   2334


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhcCCCCC-HhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhh
Q 038303          282 TVISGLAMNGCGRQALQLFSLMIINAVFPD-DVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGR  360 (461)
Q Consensus       282 ~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  360 (461)
                      .++..+...|++++|...+++..+.. .|+ ...+..+..++...|++++|...++++..  ..+.+....+.+...|..
T Consensus       411 ~~~~~~~~~g~~eeA~~~~~~~l~~~-~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~--~~~~~~~~~~~l~~~~~~  487 (553)
T PRK12370        411 TKLWITYYHTGIDDAIRLGDELRSQH-LQDNPILLSMQVMFLSLKGKHELARKLTKEIST--QEITGLIAVNLLYAEYCQ  487 (553)
T ss_pred             HHHHHHHhccCHHHHHHHHHHHHHhc-cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhh--ccchhHHHHHHHHHHHhc
Confidence            44555677899999999999987653 243 44566677788889999999999988765  222334444556666677


Q ss_pred             cCCHHHHHHHHHhC----CCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhc
Q 038303          361 AGLLEEAEAFIREM----PIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNK  409 (461)
Q Consensus       361 ~g~~~~A~~~~~~~----~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  409 (461)
                      .|  ++|...++.+    ...|...-+  +-..+.-.|+.+.+... +++.+.
T Consensus       488 ~g--~~a~~~l~~ll~~~~~~~~~~~~--~~~~~~~~g~~~~~~~~-~~~~~~  535 (553)
T PRK12370        488 NS--ERALPTIREFLESEQRIDNNPGL--LPLVLVAHGEAIAEKMW-NKFKNE  535 (553)
T ss_pred             cH--HHHHHHHHHHHHHhhHhhcCchH--HHHHHHHHhhhHHHHHH-HHhhcc
Confidence            77  4777766666    222333333  22335556677766666 666553

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.22  E-value=1.2e-06  Score=79.96  Aligned_cols=352  Identities=11%  Similarity=0.089  Sum_probs=196.1

Q ss_pred             chHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCCC----------CceeHH
Q 038303           11 YTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFP----------DVVSWT   80 (461)
Q Consensus        11 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----------~~~~~~   80 (461)
                      ..|...+......|-++-+..+++..++.    ++..-.--+..+++.+++++|.+.+......          +-..|.
T Consensus       139 rIW~lyl~Fv~~~~lPets~rvyrRYLk~----~P~~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~  214 (835)
T KOG2047|consen  139 RIWDLYLKFVESHGLPETSIRVYRRYLKV----APEAREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWL  214 (835)
T ss_pred             cchHHHHHHHHhCCChHHHHHHHHHHHhc----CHHHHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHH
Confidence            44666677777778888888888888774    3334566678888999999999999877432          233455


Q ss_pred             HHHHHHHcCCChH---HHHHHHhcC-CCCCCc--hhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHH
Q 038303           81 TIISGLSKCGFHK---EAIDMFCGI-DVKPNA--NTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYI  154 (461)
Q Consensus        81 ~li~~~~~~~~~~---~a~~~~~~m-~~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  154 (461)
                      -+-+..+++.+.-   ..-.++..+ +.-+|.  ..|.+|.+-|.+.|.++.|..++++....-.  +..-+..+.++|+
T Consensus       215 elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~v~--tvrDFt~ifd~Ya  292 (835)
T KOG2047|consen  215 ELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQTVM--TVRDFTQIFDAYA  292 (835)
T ss_pred             HHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhe--ehhhHHHHHHHHH
Confidence            5555554443322   223444444 445553  3567788888888888888888888776532  2222333333333


Q ss_pred             HcCC----------------------hhhHHHHHhcCCC---------------CchhHHHHHHHHHHhcCChHHHHHHH
Q 038303          155 RCGS----------------------LASCGYLFVKMPK---------------RNVVSWTTMIGGYAERGFCKEAVSVF  197 (461)
Q Consensus       155 ~~g~----------------------~~~a~~~~~~~~~---------------~~~~~~~~li~~~~~~~~~~~a~~~~  197 (461)
                      ....                      ++-....|+.+..               .++..|..-.  -+..|+..+-...|
T Consensus       293 ~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV--~l~e~~~~~~i~ty  370 (835)
T KOG2047|consen  293 QFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNSVLLRQNPHNVEEWHKRV--KLYEGNAAEQINTY  370 (835)
T ss_pred             HHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHHHHhcCCccHHHHHhhh--hhhcCChHHHHHHH
Confidence            2211                      1112222222221               1222232222  22346677777777


Q ss_pred             HHHHhcCCCCCCh------hhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCc---chHHHHHHHHHHhcCCHHHHHHH
Q 038303          198 QEMEKTKEAEPNE------ATLVNVLSACSSISALSFGKYVHSYISTRYDLSVS---NLVGNAVINMYVKCGDVGIAIQV  268 (461)
Q Consensus       198 ~~m~~~~~~~~~~------~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~a~~~  268 (461)
                      .+..+.  +.|..      ..|..+..-|-..|+++.|..+|+...+ ...+.-   ..+|..-...-.+..+++.|.++
T Consensus       371 teAv~~--vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~-V~y~~v~dLa~vw~~waemElrh~~~~~Al~l  447 (835)
T KOG2047|consen  371 TEAVKT--VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATK-VPYKTVEDLAEVWCAWAEMELRHENFEAALKL  447 (835)
T ss_pred             HHHHHc--cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhc-CCccchHHHHHHHHHHHHHHHhhhhHHHHHHH
Confidence            777765  44432      2466667777888888888888888766 333222   33455555555667778888887


Q ss_pred             HHHccC-C--------------------ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCC
Q 038303          269 FNMLAY-K--------------------DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGL  327 (461)
Q Consensus       269 ~~~~~~-~--------------------~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~  327 (461)
                      .+.... |                    +...|...++..-..|-++....+|+++.+..+. ++.........+....-
T Consensus       448 m~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLria-TPqii~NyAmfLEeh~y  526 (835)
T KOG2047|consen  448 MRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIA-TPQIIINYAMFLEEHKY  526 (835)
T ss_pred             HHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhhHH
Confidence            776541 1                    2234555555555566777777777777665443 22222222222333444


Q ss_pred             hHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhh---cCCHHHHHHHHHhC
Q 038303          328 VDQGLILFKAMSTVYEIVPQMQHYACVVDMYGR---AGLLEEAEAFIREM  374 (461)
Q Consensus       328 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~g~~~~A~~~~~~~  374 (461)
                      ++++.+++++-...+..+.-...|+..+.-+.+   ..+++.|..+|++.
T Consensus       527 feesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqa  576 (835)
T KOG2047|consen  527 FEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQA  576 (835)
T ss_pred             HHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHH
Confidence            555555555444422222223444444433332   12455566666555

>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=99.22  E-value=5.4e-08  Score=90.48  Aligned_cols=125  Identities=12%  Similarity=-0.006  Sum_probs=92.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHccCCC---hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHc
Q 038303          248 VGNAVINMYVKCGDVGIAIQVFNMLAYKD---KISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSH  324 (461)
Q Consensus       248 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~  324 (461)
                      ++.-+...|-..|++++|.+++++..+.+   +..|..-...+-+.|++.+|.+.++........ |...-+.....+.+
T Consensus       196 ~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LR  274 (517)
T PF12569_consen  196 TLYFLAQHYDYLGDYEKALEYIDKAIEHTPTLVELYMTKARILKHAGDLKEAAEAMDEARELDLA-DRYINSKCAKYLLR  274 (517)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChh-hHHHHHHHHHHHHH
Confidence            34556777888899999999998877543   456777888888999999999999988876543 66666677778888


Q ss_pred             CCChHHHHHHHHHhHhhcCCCCCcchH--------HHHHHHHhhcCCHHHHHHHHHhC
Q 038303          325 GGLVDQGLILFKAMSTVYEIVPQMQHY--------ACVVDMYGRAGLLEEAEAFIREM  374 (461)
Q Consensus       325 ~~~~~~a~~~~~~~~~~~~~~~~~~~~--------~~l~~~~~~~g~~~~A~~~~~~~  374 (461)
                      .|++++|.+++....+ .+..|....+        .....+|.+.|++..|++.|...
T Consensus       275 a~~~e~A~~~~~~Ftr-~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v  331 (517)
T PF12569_consen  275 AGRIEEAEKTASLFTR-EDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAV  331 (517)
T ss_pred             CCCHHHHHHHHHhhcC-CCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            9999999999888877 4433433222        34467788888888888766554

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 [], [].

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.20  E-value=7.6e-07  Score=81.39  Aligned_cols=412  Identities=13%  Similarity=0.030  Sum_probs=256.7

Q ss_pred             HHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhC---CCCCceeHHHHHHHHHcCCChHHH
Q 038303           19 ACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSV---VFPDVVSWTTIISGLSKCGFHKEA   95 (461)
Q Consensus        19 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~~~~~~~~li~~~~~~~~~~~a   95 (461)
                      .+...|+-++|........+..+. +.+.|+.+--.+....++++|++.|...   .+.|...|..+--.=+..|+++..
T Consensus        50 ~L~~lg~~~ea~~~vr~glr~d~~-S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~~dN~qilrDlslLQ~QmRd~~~~  128 (700)
T KOG1156|consen   50 TLNCLGKKEEAYELVRLGLRNDLK-SHVCWHVLGLLQRSDKKYDEAIKCYRNALKIEKDNLQILRDLSLLQIQMRDYEGY  128 (700)
T ss_pred             hhhcccchHHHHHHHHHHhccCcc-cchhHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHhhhhH
Confidence            355678889999999888886654 7778887777777789999999999887   334556666655555666777777


Q ss_pred             HHHHhcC-CCCCC-chhHHHHHHHhcccchhHHHHHHHHHHHhhcC-CCChhHHHHH------HHHHHHcCChhhHHHHH
Q 038303           96 IDMFCGI-DVKPN-ANTLVSVLSACSSLVSHKLGKAIHAHSLRNLN-ENNIILDNAI------LDFYIRCGSLASCGYLF  166 (461)
Q Consensus        96 ~~~~~~m-~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l------~~~~~~~g~~~~a~~~~  166 (461)
                      ...-.+. ...|+ ...|.....+..-.|+...|..+.++..+... .|+...+...      .....+.|..++|.+.+
T Consensus       129 ~~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  129 LETRNQLLQLRPSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHL  208 (700)
T ss_pred             HHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHH
Confidence            7666666 55664 45677788888889999999999999987753 4555554322      23456788899999888


Q ss_pred             hcCCC--CchhH-HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhh--ccchhhhHHHHHHHHHhhcC
Q 038303          167 VKMPK--RNVVS-WTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACS--SISALSFGKYVHSYISTRYD  241 (461)
Q Consensus       167 ~~~~~--~~~~~-~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~--~~~~~~~a~~~~~~~~~~~~  241 (461)
                      .....  -|... -..-...+.+.++.++|..++..+...   .||...|...+..+.  -.+..+....+|....+.  
T Consensus       209 ~~~e~~i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~r---nPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~--  283 (700)
T KOG1156|consen  209 LDNEKQIVDKLAFEETKADLLMKLGQLEEAVKVYRRLLER---NPDNLDYYEGLEKALGKIKDMLEALKALYAILSEK--  283 (700)
T ss_pred             HhhhhHHHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhh---CchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhc--
Confidence            87765  22222 234456688999999999999999984   466666655554443  233344444666665441  


Q ss_pred             CCCcchHHHHHHHHHHhcCCH-HHHHHHHHHccCCC-hhhHHHHHHHHHhcCChHHHHHHHHHHHh----cC--------
Q 038303          242 LSVSNLVGNAVINMYVKCGDV-GIAIQVFNMLAYKD-KISWSTVISGLAMNGCGRQALQLFSLMII----NA--------  307 (461)
Q Consensus       242 ~~~~~~~~~~li~~~~~~g~~-~~a~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~----~g--------  307 (461)
                       .|....-..+-.......++ +....++....+.. +.++..+...+-.-...+-..++.-.+..    .|        
T Consensus       284 -y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~  362 (700)
T KOG1156|consen  284 -YPRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPSVFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDG  362 (700)
T ss_pred             -CcccccchhccHHHhCcchhHHHHHHHHHHHhhcCCCchhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCccccc
Confidence             11111001111111111222 22333333333332 33444444444332222211122222111    11        


Q ss_pred             --CCCCH--hHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCC-cchHHHHHHHHhhcCCHHHHHHHHHhC-C-CCchh
Q 038303          308 --VFPDD--VTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQ-MQHYACVVDMYGRAGLLEEAEAFIREM-P-IEAEW  380 (461)
Q Consensus       308 --~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~  380 (461)
                        -+|..  .|+-.++..+-..|+++.|+.+++....   ..|+ +..|..-.+.+...|.+++|..++++. . ..||.
T Consensus       363 ~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AId---HTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR  439 (700)
T KOG1156|consen  363 KQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAID---HTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTADR  439 (700)
T ss_pred             ccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhc---cCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchhH
Confidence              13444  4555667778889999999999988865   4455 556666678888999999999999988 2 23555


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHhhcCCC---C----hhHHH--HHHHHHhccCChhhHHHHHHHH
Q 038303          381 SVWGALLNACRIHRNDEMFDRIRQDLVNKKGV---S----VGTFA--LMSNTFAGADRWEDTNKIRDEI  440 (461)
Q Consensus       381 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~----~~~~~--~l~~~~~~~g~~~~A~~~~~~m  440 (461)
                      ..-.--..-..+.++.++|.++.....+....   +    .-.|.  .=+.+|.+.|++.+|++=|..+
T Consensus       440 ~INsKcAKYmLrAn~i~eA~~~~skFTr~~~~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i  508 (700)
T KOG1156|consen  440 AINSKCAKYMLRANEIEEAEEVLSKFTREGFGAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHEI  508 (700)
T ss_pred             HHHHHHHHHHHHccccHHHHHHHHHhhhcccchhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhH
Confidence            44334444456788899999888887763321   1    11222  2356788888888887766554

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.18  E-value=5.1e-09  Score=91.96  Aligned_cols=221  Identities=8%  Similarity=-0.084  Sum_probs=112.1

Q ss_pred             HHhcCChHHHHHHHHHHHhcCCCCCC--hhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCC
Q 038303          184 YAERGFCKEAVSVFQEMEKTKEAEPN--EATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGD  261 (461)
Q Consensus       184 ~~~~~~~~~a~~~~~~m~~~~~~~~~--~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  261 (461)
                      ....+..+.++.-+.++.......|+  ...|......+...|+.+.|...|+...+  ..+.+...++.+...+...|+
T Consensus        36 ~~~~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~--l~P~~~~a~~~lg~~~~~~g~  113 (296)
T PRK11189         36 LQPTLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALA--LRPDMADAYNYLGIYLTQAGN  113 (296)
T ss_pred             cCCchHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--cCCCCHHHHHHHHHHHHHCCC
Confidence            33345566677777776654322222  23344555556666666666666666655  222334566666666666666


Q ss_pred             HHHHHHHHHHccC--C-ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHh
Q 038303          262 VGIAIQVFNMLAY--K-DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAM  338 (461)
Q Consensus       262 ~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  338 (461)
                      +++|...|+...+  | +...|..+...+...|++++|.+.+++..+.  .|+..........+...++.++|...|+..
T Consensus       114 ~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~  191 (296)
T PRK11189        114 FDAAYEAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQR  191 (296)
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHH
Confidence            6666666666543  2 3445555666666666666666666666653  233221111122233455666666666554


Q ss_pred             HhhcCCCCCcchHHHHHHHHhhcCCHHHH--HHHHHhC-CCCc-----hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcC
Q 038303          339 STVYEIVPQMQHYACVVDMYGRAGLLEEA--EAFIREM-PIEA-----EWSVWGALLNACRIHRNDEMFDRIRQDLVNKK  410 (461)
Q Consensus       339 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A--~~~~~~~-~~~p-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  410 (461)
                      ..  ...|+...+ .+.  ....|+..++  ...+.+. ...+     ....|..+...+...|++++|+..|+++.+..
T Consensus       192 ~~--~~~~~~~~~-~~~--~~~lg~~~~~~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~  266 (296)
T PRK11189        192 YE--KLDKEQWGW-NIV--EFYLGKISEETLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN  266 (296)
T ss_pred             Hh--hCCccccHH-HHH--HHHccCCCHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            33  222322211 122  2223443332  2112111 1111     12345555566666666666666666666665


Q ss_pred             CCC
Q 038303          411 GVS  413 (461)
Q Consensus       411 ~~~  413 (461)
                      |++
T Consensus       267 ~~~  269 (296)
T PRK11189        267 VYN  269 (296)
T ss_pred             Cch
Confidence            544

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.18  E-value=1.4e-09  Score=90.53  Aligned_cols=227  Identities=10%  Similarity=0.024  Sum_probs=186.6

Q ss_pred             HHHHHHHHHcCChhhHHHHHhcCCC--CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhH-HHHHHHhhcc
Q 038303          147 NAILDFYIRCGSLASCGYLFVKMPK--RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATL-VNVLSACSSI  223 (461)
Q Consensus       147 ~~l~~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~-~~~l~~~~~~  223 (461)
                      +-+.++|.+.|.+.+|++.|+...+  |-+.||-.|-..|.+..++..|+.++.+-.+   ..|-.+|| ..+...+...
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld---~fP~~VT~l~g~ARi~eam  303 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLD---SFPFDVTYLLGQARIHEAM  303 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhh---cCCchhhhhhhhHHHHHHH
Confidence            6788999999999999999998765  7888999999999999999999999999988   44555554 4566778888


Q ss_pred             chhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccC---CChhhHHHHHHHHHhcCChHHHHHHH
Q 038303          224 SALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAY---KDKISWSTVISGLAMNGCGRQALQLF  300 (461)
Q Consensus       224 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~  300 (461)
                      ++.+.+.++++...+  -.+.+......+...|.-.++.+.|..++.++.+   .+...|+.+.-+|.-.+++|-++..|
T Consensus       304 ~~~~~a~~lYk~vlk--~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~speLf~NigLCC~yaqQ~D~~L~sf  381 (478)
T KOG1129|consen  304 EQQEDALQLYKLVLK--LHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQSPELFCNIGLCCLYAQQIDLVLPSF  381 (478)
T ss_pred             HhHHHHHHHHHHHHh--cCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCCChHHHhhHHHHHHhhcchhhhHHHH
Confidence            999999999999988  3344455556677788888999999999998874   57888999999999999999999999


Q ss_pred             HHHHhcCCCCCH--hHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCC
Q 038303          301 SLMIINAVFPDD--VTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIE  377 (461)
Q Consensus       301 ~~m~~~g~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~  377 (461)
                      ++....--.|+.  ..|-.+-......|++..|.+.|+-...  .-..+...++.|.-.-.+.|++++|..+++.. ...
T Consensus       382 ~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~--~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~~  459 (478)
T KOG1129|consen  382 QRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALT--SDAQHGEALNNLAVLAARSGDILGARSLLNAAKSVM  459 (478)
T ss_pred             HHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhc--cCcchHHHHHhHHHHHhhcCchHHHHHHHHHhhhhC
Confidence            998876544554  4566677777788999999999988776  34456778888888888999999999999887 444


Q ss_pred             chh
Q 038303          378 AEW  380 (461)
Q Consensus       378 p~~  380 (461)
                      |+.
T Consensus       460 P~m  462 (478)
T KOG1129|consen  460 PDM  462 (478)
T ss_pred             ccc
Confidence            553

>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=99.17  E-value=6.9e-09  Score=89.77  Aligned_cols=226  Identities=14%  Similarity=0.041  Sum_probs=137.6

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHH
Q 038303          177 WTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMY  256 (461)
Q Consensus       177 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~  256 (461)
                      ...+.+++...|+++.++   .+....  -.|.......+...+....+-+.+..-++..........+..+.......+
T Consensus        38 ~~~~~Rs~iAlg~~~~vl---~ei~~~--~~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~  112 (290)
T PF04733_consen   38 DFYQYRSYIALGQYDSVL---SEIKKS--SSPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAATIL  112 (290)
T ss_dssp             HHHHHHHHHHTT-HHHHH---HHS-TT--SSCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCChhHHH---HHhccC--CChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHHH
Confidence            334455556666555332   232222  344444444444444433333333333333222111112223333334456


Q ss_pred             HhcCCHHHHHHHHHHccCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHc----CCChHHHH
Q 038303          257 VKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSH----GGLVDQGL  332 (461)
Q Consensus       257 ~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~~~~~~a~  332 (461)
                      ...|++++|+++++..  .+.......+..+.+.++++.|.+.++.|.+.  . +..+...+..++..    .+++..|.
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--D-EDSILTQLAEAWVNLATGGEKYQDAF  187 (290)
T ss_dssp             CCCCHHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--S-CCHHHHHHHHHHHHHHHTTTCCCHHH
T ss_pred             HHcCCHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--C-CcHHHHHHHHHHHHHHhCchhHHHHH
Confidence            6778888888887765  45666777888899999999999999999874  2 34555556555443    44799999


Q ss_pred             HHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC--CCCchhhHHHHHHHHHHhcCCh-HHHHHHHHHHhhc
Q 038303          333 ILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM--PIEAEWSVWGALLNACRIHRND-EMFDRIRQDLVNK  409 (461)
Q Consensus       333 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~  409 (461)
                      .+|+++..  ...+++.+.+.+..+....|++++|.+++.+.  ..+.+..+...++......|+. +.+.+++.++...
T Consensus       188 y~f~El~~--~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  188 YIFEELSD--KFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             HHHHHHHC--CS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             HHHHHHHh--ccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence            99999877  56678888888999999999999999999887  2233455666666666666666 7788888888877


Q ss_pred             CCCCh
Q 038303          410 KGVSV  414 (461)
Q Consensus       410 ~~~~~  414 (461)
                      .|..+
T Consensus       266 ~p~h~  270 (290)
T PF04733_consen  266 NPNHP  270 (290)
T ss_dssp             TTTSH
T ss_pred             CCCCh
Confidence            77654

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.

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.16  E-value=3.5e-09  Score=84.01  Aligned_cols=193  Identities=9%  Similarity=0.008  Sum_probs=145.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHccCCC---hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-HhHHHHHHHHHH
Q 038303          248 VGNAVINMYVKCGDVGIAIQVFNMLAYKD---KISWSTVISGLAMNGCGRQALQLFSLMIINAVFPD-DVTFIALISACS  323 (461)
Q Consensus       248 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~  323 (461)
                      +...|.-.|...|+...|..-+++..+.|   ..+|..+...|.+.|+.+.|.+-|++..+.  .|+ ....|.....+|
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl--~p~~GdVLNNYG~FLC  114 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSL--APNNGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhc--CCCccchhhhhhHHHH
Confidence            44566777888888888888888887543   456777888888888888888888888774  343 366777777778


Q ss_pred             cCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHH
Q 038303          324 HGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDR  401 (461)
Q Consensus       324 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~  401 (461)
                      ..|++++|...|+....+....--..+|..+.-+..+.|+.+.|...|++. ...| .......+.....+.|++..|..
T Consensus       115 ~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         115 AQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAPARL  194 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchHHHH
Confidence            888888888888888775555555678888888888888888888888877 3333 33355556666778888888888


Q ss_pred             HHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHH
Q 038303          402 IRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRR  442 (461)
Q Consensus       402 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  442 (461)
                      +++......+.+......-++.-.+.|+-+.|-+.=.++.+
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            88888887778888888888888888888777776655544

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.14  E-value=1.3e-07  Score=81.54  Aligned_cols=296  Identities=10%  Similarity=-0.017  Sum_probs=195.9

Q ss_pred             CCCCCcchHHHHHHHHHhh--CCHHHHHHHHHHHHHh-CCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCceeHH-
Q 038303            5 PSSYNHYTFTQALKACSLA--HPHQKALEIHAHVIEY-GHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWT-   80 (461)
Q Consensus         5 g~~p~~~~~~~ll~~~~~~--~~~~~a~~~~~~~~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-   80 (461)
                      .+.|+..+...-+.+++..  ++-..+.+.+-.+... -++.+......+.+.+...|+.++|...|++....|+.+.. 
T Consensus       189 ~~~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~  268 (564)
T KOG1174|consen  189 TVPDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEA  268 (564)
T ss_pred             ecCCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhh
Confidence            3455555555555555433  4444444444444332 35556778888888888899999999999887444433222 


Q ss_pred             --HHHHHHHcCCChHHHHHHHhcC-C-CCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHc
Q 038303           81 --TIISGLSKCGFHKEAIDMFCGI-D-VKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRC  156 (461)
Q Consensus        81 --~li~~~~~~~~~~~a~~~~~~m-~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  156 (461)
                        ...-.+...|+.+....+...+ . ..-....|..-+.......++..|..+-+..++.... +...+-.-...+...
T Consensus       269 MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r-~~~alilKG~lL~~~  347 (564)
T KOG1174|consen  269 MDLYAVLLGQEGGCEQDSALMDYLFAKVKYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPR-NHEALILKGRLLIAL  347 (564)
T ss_pred             HHHHHHHHHhccCHhhHHHHHHHHHhhhhcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcc-cchHHHhccHHHHhc
Confidence              2223345677777776666655 2 2233333444444455667788888887777766433 444444445667788


Q ss_pred             CChhhHHHHHhcCCC---CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHH-HH-hhccchhhhHHH
Q 038303          157 GSLASCGYLFVKMPK---RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVL-SA-CSSISALSFGKY  231 (461)
Q Consensus       157 g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l-~~-~~~~~~~~~a~~  231 (461)
                      |+.++|.-.|+....   -+..+|.-|+.+|...|++.+|.-.-+...+.  .+.+..+...+- .. +.....-++|..
T Consensus       348 ~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~--~~~sA~~LtL~g~~V~~~dp~~rEKAKk  425 (564)
T KOG1174|consen  348 ERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRL--FQNSARSLTLFGTLVLFPDPRMREKAKK  425 (564)
T ss_pred             cchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH--hhcchhhhhhhcceeeccCchhHHHHHH
Confidence            889998888887654   36788999999999999999988888777665  566666665552 33 233445677777


Q ss_pred             HHHHHHhhcCCCCc-chHHHHHHHHHHhcCCHHHHHHHHHHcc--CCChhhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 038303          232 VHSYISTRYDLSVS-NLVGNAVINMYVKCGDVGIAIQVFNMLA--YKDKISWSTVISGLAMNGCGRQALQLFSLMIIN  306 (461)
Q Consensus       232 ~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  306 (461)
                      +++...+   +.|+ ....+.+...+...|..+++..+++...  .+|....+.|.+.+...+.+.+|++.|......
T Consensus       426 f~ek~L~---~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~  500 (564)
T KOG1174|consen  426 FAEKSLK---INPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQ  500 (564)
T ss_pred             HHHhhhc---cCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            7776544   3333 3345667777888888888888887765  468888888888888888888888888887764

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.14  E-value=7.8e-09  Score=94.87  Aligned_cols=224  Identities=11%  Similarity=0.066  Sum_probs=115.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhCCC----------CCce-eHHHHHHHHHcCCChHHHHHHHhcC---------CCCC
Q 038303           47 IQNSLLHFYVTVKDIFSAHQIFNSVVF----------PDVV-SWTTIISGLSKCGFHKEAIDMFCGI---------DVKP  106 (461)
Q Consensus        47 ~~~~ll~~~~~~~~~~~a~~~~~~~~~----------~~~~-~~~~li~~~~~~~~~~~a~~~~~~m---------~~~p  106 (461)
                      +...+...|...|+++.|..+++...+          |.+. ..+.+...|...+++++|..+|+++         ...|
T Consensus       201 ~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~  280 (508)
T KOG1840|consen  201 TLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHP  280 (508)
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCH
Confidence            334455555556666666555554411          1111 1222444555566666666666555         1222


Q ss_pred             C-chhHHHHHHHhcccchhHHHHHHHHHHHhh-----cC-CCC-hhHHHHHHHHHHHcCChhhHHHHHhcCCC-------
Q 038303          107 N-ANTLVSVLSACSSLVSHKLGKAIHAHSLRN-----LN-ENN-IILDNAILDFYIRCGSLASCGYLFVKMPK-------  171 (461)
Q Consensus       107 ~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-------  171 (461)
                      . ..+++.|..+|.+.|++++|...++...+.     |. .|. ...++.+...++..+++++|..++....+       
T Consensus       281 ~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g  360 (508)
T KOG1840|consen  281 AVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPG  360 (508)
T ss_pred             HHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhcc
Confidence            1 234455555566666666666666555432     11 111 12345555666677777777766654432       


Q ss_pred             Cc----hhHHHHHHHHHHhcCChHHHHHHHHHHHhc-----CCCCCC-hhhHHHHHHHhhccchhhhHHHHHHHHHhh--
Q 038303          172 RN----VVSWTTMIGGYAERGFCKEAVSVFQEMEKT-----KEAEPN-EATLVNVLSACSSISALSFGKYVHSYISTR--  239 (461)
Q Consensus       172 ~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~~~~~~-~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~--  239 (461)
                      ++    .-+++.|...|.+.|++++|.+++++....     |+..+. ...++.+...|.+.+....|.++|.....-  
T Consensus       361 ~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~  440 (508)
T KOG1840|consen  361 EDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMK  440 (508)
T ss_pred             ccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHH
Confidence            11    235777777888888888888877776542     111222 345556666677777777776666654330  


Q ss_pred             -cC-CCC-cchHHHHHHHHHHhcCCHHHHHHHHH
Q 038303          240 -YD-LSV-SNLVGNAVINMYVKCGDVGIAIQVFN  270 (461)
Q Consensus       240 -~~-~~~-~~~~~~~li~~~~~~g~~~~a~~~~~  270 (461)
                       .| ..| ...+|..|...|.+.|++++|.++.+
T Consensus       441 ~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~  474 (508)
T KOG1840|consen  441 LCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEE  474 (508)
T ss_pred             HhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHH
Confidence             11 111 12344444444544555444444443

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.13  E-value=5.7e-07  Score=83.81  Aligned_cols=400  Identities=10%  Similarity=0.009  Sum_probs=254.2

Q ss_pred             CCCCCcchHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCC----CCce-eH
Q 038303            5 PSSYNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVF----PDVV-SW   79 (461)
Q Consensus         5 g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~~~-~~   79 (461)
                      .+..|...|..+.-++.+.|++..+-+.|++....-+ -....|..+--.+...|.-..|..+++.-..    |+.. .+
T Consensus       318 ~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~-~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~  396 (799)
T KOG4162|consen  318 KFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSF-GEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVL  396 (799)
T ss_pred             hhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhh-hhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHH
Confidence            3556888899999999999999999999999887544 3667888888888899999999999987632    3222 22


Q ss_pred             HHHHHHHH-cCCChHHHHHHHhcC---------CCCCCchhHHHHHHHhc-----------ccchhHHHHHHHHHHHhhc
Q 038303           80 TTIISGLS-KCGFHKEAIDMFCGI---------DVKPNANTLVSVLSACS-----------SLVSHKLGKAIHAHSLRNL  138 (461)
Q Consensus        80 ~~li~~~~-~~~~~~~a~~~~~~m---------~~~p~~~~~~~ll~~~~-----------~~~~~~~a~~~~~~~~~~~  138 (461)
                      -..-..|. +.+.+++++++-.+.         .+.|-  .|..+.-+|.           +.....++.+.+++.++.+
T Consensus       397 Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~--~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d  474 (799)
T KOG4162|consen  397 LMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPR--GYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFD  474 (799)
T ss_pred             HHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhh--HHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcC
Confidence            22223333 345666666555444         22232  3333333322           1123456778888888876


Q ss_pred             CCCChhHHHHHHHHHHHcCChhhHHHHHhcCCC----CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHH
Q 038303          139 NENNIILDNAILDFYIRCGSLASCGYLFVKMPK----RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLV  214 (461)
Q Consensus       139 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~  214 (461)
                      .. |+.+.-.+.--|+..++++.|.....+..+    .+...|..|.-.+...+++.+|+.+.+.....  .+-|..-..
T Consensus       475 ~~-dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E--~~~N~~l~~  551 (799)
T KOG4162|consen  475 PT-DPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEE--FGDNHVLMD  551 (799)
T ss_pred             CC-CchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHH--hhhhhhhch
Confidence            65 333333344557888999999988887654    57889999999999999999999999987664  222211111


Q ss_pred             HHHHHhhccchhhhHHHHHHHHHhh--------------------cCCC-------CcchHHHHHHHHHH---hcCCHHH
Q 038303          215 NVLSACSSISALSFGKYVHSYISTR--------------------YDLS-------VSNLVGNAVINMYV---KCGDVGI  264 (461)
Q Consensus       215 ~~l~~~~~~~~~~~a~~~~~~~~~~--------------------~~~~-------~~~~~~~~li~~~~---~~g~~~~  264 (461)
                      .-+..-..-++.+++......+..-                    .|..       ....++..+.....   +.-..+.
T Consensus       552 ~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~  631 (799)
T KOG4162|consen  552 GKIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSEL  631 (799)
T ss_pred             hhhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhccccc
Confidence            1111111223333322221111110                    1110       01112221111111   0001111


Q ss_pred             HHHHHHHccCCC------hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHh
Q 038303          265 AIQVFNMLAYKD------KISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAM  338 (461)
Q Consensus       265 a~~~~~~~~~~~------~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  338 (461)
                      ....+.....++      ...|......+.+.+..++|...+.+.... ..-....|......+...|..++|.+.|...
T Consensus       632 ~Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~-~~l~~~~~~~~G~~~~~~~~~~EA~~af~~A  710 (799)
T KOG4162|consen  632 KLPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKI-DPLSASVYYLRGLLLEVKGQLEEAKEAFLVA  710 (799)
T ss_pred             ccCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhc-chhhHHHHHHhhHHHHHHHhhHHHHHHHHHH
Confidence            111111111222      123556667788899999999888888764 2334466776777788899999999999887


Q ss_pred             HhhcCCCCC-cchHHHHHHHHhhcCCHHHHHH--HHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCC
Q 038303          339 STVYEIVPQ-MQHYACVVDMYGRAGLLEEAEA--FIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVS  413 (461)
Q Consensus       339 ~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~--~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  413 (461)
                      ..   +.|+ +....++..++.+.|+..-|..  ++..+ ...| +...|..+...+.+.|+.++|.+.|....+..+.+
T Consensus       711 l~---ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe~S~  787 (799)
T KOG4162|consen  711 LA---LDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLEESN  787 (799)
T ss_pred             Hh---cCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhccCC
Confidence            65   4444 6778889999999999888888  88888 5544 56689999999999999999999999999865444


Q ss_pred             h
Q 038303          414 V  414 (461)
Q Consensus       414 ~  414 (461)
                      |
T Consensus       788 P  788 (799)
T KOG4162|consen  788 P  788 (799)
T ss_pred             C
Confidence            3

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.11  E-value=1.4e-07  Score=83.03  Aligned_cols=212  Identities=11%  Similarity=-0.029  Sum_probs=106.0

Q ss_pred             hhhhHHHHHHHHHhhcCCCCc--chHHHHHHHHHHhcCCHHHHHHHHHHccC--C-ChhhHHHHHHHHHhcCChHHHHHH
Q 038303          225 ALSFGKYVHSYISTRYDLSVS--NLVGNAVINMYVKCGDVGIAIQVFNMLAY--K-DKISWSTVISGLAMNGCGRQALQL  299 (461)
Q Consensus       225 ~~~~a~~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~  299 (461)
                      ..+.+..-+.++.......|+  ...+..+...|.+.|+.++|...|++..+  | +...|+.+...+...|++++|.+.
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            344444444444432222222  23455555566666666666666665542  2 345666666666666666666666


Q ss_pred             HHHHHhcCCCCC-HhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC--CC
Q 038303          300 FSLMIINAVFPD-DVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM--PI  376 (461)
Q Consensus       300 ~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~  376 (461)
                      |++..+.  .|+ ..++..+..++...|++++|.+.|+...+   ..|+..........+...++.++|...|++.  ..
T Consensus       121 ~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~---~~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~  195 (296)
T PRK11189        121 FDSVLEL--DPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQ---DDPNDPYRALWLYLAESKLDPKQAKENLKQRYEKL  195 (296)
T ss_pred             HHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhC
Confidence            6666653  333 34555555556666666666666666655   1232211111112233445666666666543  21


Q ss_pred             CchhhHHHHHHHHHHhcCChHHHHHHHHHHhh-------cCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcCC
Q 038303          377 EAEWSVWGALLNACRIHRNDEMFDRIRQDLVN-------KKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGL  445 (461)
Q Consensus       377 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~  445 (461)
                      .|+...+ .  ......|+...+ ..++.+.+       ..|....+|..++..+.+.|++++|...|++..+.++
T Consensus       196 ~~~~~~~-~--~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~  267 (296)
T PRK11189        196 DKEQWGW-N--IVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNV  267 (296)
T ss_pred             CccccHH-H--HHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            2222111 1  111223333322 23333331       2233345666666666666666666666666665443

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.10  E-value=5.5e-08  Score=77.36  Aligned_cols=160  Identities=8%  Similarity=-0.077  Sum_probs=76.7

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcC
Q 038303          283 VISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAG  362 (461)
Q Consensus       283 l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  362 (461)
                      |.-+|...|+...|..-+++..+.... +..++..+...|.+.|..+.|.+-|+....  --+-+..+.|.....+|..|
T Consensus        41 Lal~YL~~gd~~~A~~nlekAL~~DPs-~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAls--l~p~~GdVLNNYG~FLC~qg  117 (250)
T COG3063          41 LALGYLQQGDYAQAKKNLEKALEHDPS-YYLAHLVRAHYYQKLGENDLADESYRKALS--LAPNNGDVLNNYGAFLCAQG  117 (250)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHh--cCCCccchhhhhhHHHHhCC
Confidence            444455555555555555555543211 224444444455555555555555555544  12223444445555555555


Q ss_pred             CHHHHHHHHHhCCCCc----hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHH
Q 038303          363 LLEEAEAFIREMPIEA----EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRD  438 (461)
Q Consensus       363 ~~~~A~~~~~~~~~~p----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  438 (461)
                      ++++|...|++.-..|    ...+|..+..+..+.|+.+.|...|++.++..|..+.+...+.+...+.|++-.|...++
T Consensus       118 ~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~Ar~~~~  197 (250)
T COG3063         118 RPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAPARLYLE  197 (250)
T ss_pred             ChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchHHHHHHH
Confidence            5555555555541111    112344444444455555555555555555555555555555555555555555555555


Q ss_pred             HHHHcCC
Q 038303          439 EIRRMGL  445 (461)
Q Consensus       439 ~m~~~g~  445 (461)
                      .....|.
T Consensus       198 ~~~~~~~  204 (250)
T COG3063         198 RYQQRGG  204 (250)
T ss_pred             HHHhccc
Confidence            5544433

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.06  E-value=1.7e-06  Score=78.32  Aligned_cols=378  Identities=8%  Similarity=-0.021  Sum_probs=224.3

Q ss_pred             HHHHHhcCCHHHHHHHHhhC---CCCCceeHHHHHHHHHcCCChHHHHHHHhcC-CCCCCchhHHHHHHHhcccchhHHH
Q 038303           52 LHFYVTVKDIFSAHQIFNSV---VFPDVVSWTTIISGLSKCGFHKEAIDMFCGI-DVKPNANTLVSVLSACSSLVSHKLG  127 (461)
Q Consensus        52 l~~~~~~~~~~~a~~~~~~~---~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m-~~~p~~~~~~~ll~~~~~~~~~~~a  127 (461)
                      ++.+...|++++|.+...++   .+.+...+..-+-++...+++++|+++.+.- ++..+..-+.-=..+..+.+..++|
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~~pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~~~~~~~~fEKAYc~Yrlnk~Dea   98 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSIVPDDEDAIRCKVVALIQLDKYEDALKLIKKNGALLVINSFFFEKAYCEYRLNKLDEA   98 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhcCCCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchhhhcchhhHHHHHHHHHcccHHHH
Confidence            56677889999999999888   3345677888888889999999999887655 2222222211222334477889999


Q ss_pred             HHHHHHHHhhcCCCC-hhHHHHHHHHHHHcCChhhHHHHHhcCCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCC
Q 038303          128 KAIHAHSLRNLNENN-IILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEA  206 (461)
Q Consensus       128 ~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~  206 (461)
                      ...++     |..++ ..+...-...+.+.|++++|..+|+.+.+.+...+...+.+-+..--......   .+.... .
T Consensus        99 lk~~~-----~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~---~~q~v~-~  169 (652)
T KOG2376|consen   99 LKTLK-----GLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQ---LLQSVP-E  169 (652)
T ss_pred             HHHHh-----cccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHH---HHHhcc-C
Confidence            88877     33333 33555556778899999999999999977665555554443221111111111   232222 2


Q ss_pred             CCChhhHHHHHHH---hhccchhhhHHHHHHHHHhh----c--CCCCcc-------hHHHHHHHHHHhcCCHHHHHHHHH
Q 038303          207 EPNEATLVNVLSA---CSSISALSFGKYVHSYISTR----Y--DLSVSN-------LVGNAVINMYVKCGDVGIAIQVFN  270 (461)
Q Consensus       207 ~~~~~~~~~~l~~---~~~~~~~~~a~~~~~~~~~~----~--~~~~~~-------~~~~~li~~~~~~g~~~~a~~~~~  270 (461)
                      .| ..+|..+.+.   +...|++..|+++++...+.    .  +...+.       .+--.|...+...|+.++|..++.
T Consensus       170 v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~  248 (652)
T KOG2376|consen  170 VP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYV  248 (652)
T ss_pred             CC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHH
Confidence            33 4466666554   45679999999999988220    0  111111       111335556778999999999998


Q ss_pred             HccCC---Chh----hHHHHHHHHHh---------------------------------------------cCChHHHHH
Q 038303          271 MLAYK---DKI----SWSTVISGLAM---------------------------------------------NGCGRQALQ  298 (461)
Q Consensus       271 ~~~~~---~~~----~~~~l~~~~~~---------------------------------------------~~~~~~a~~  298 (461)
                      .+.+.   |..    .-|.++..-..                                             .+..+.+.+
T Consensus       249 ~~i~~~~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~tnk~~q~r~  328 (652)
T KOG2376|consen  249 DIIKRNPADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFTNKMDQVRE  328 (652)
T ss_pred             HHHHhcCCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH
Confidence            87643   111    11111110000                                             001111111


Q ss_pred             HHHHHHhcCCCCCHhHHHHHHHHHHc--CCChHHHHHHHHHhHhhcCCCCC-cchHHHHHHHHhhcCCHHHHHHHHH---
Q 038303          299 LFSLMIINAVFPDDVTFIALISACSH--GGLVDQGLILFKAMSTVYEIVPQ-MQHYACVVDMYGRAGLLEEAEAFIR---  372 (461)
Q Consensus       299 ~~~~m~~~g~~p~~~~~~~ll~~~~~--~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~---  372 (461)
                      +....  -+..|. ..+..++..+.+  ...+..|..++.....  +.+-. ..+.-.++......|+++.|.+++.   
T Consensus       329 ~~a~l--p~~~p~-~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~--~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~  403 (652)
T KOG2376|consen  329 LSASL--PGMSPE-SLFPILLQEATKVREKKHKKAIELLLQFAD--GHPEKSKVVLLLRAQLKISQGNPEVALEILSLFL  403 (652)
T ss_pred             HHHhC--CccCch-HHHHHHHHHHHHHHHHHHhhhHHHHHHHhc--cCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Confidence            11111  011222 334444444322  2357778888877766  44333 4555667788889999999999998   


Q ss_pred             -----hC-CCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhh----cCC---CChhHHHHHHHHHhccCChhhHHHHHHH
Q 038303          373 -----EM-PIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVN----KKG---VSVGTFALMSNTFAGADRWEDTNKIRDE  439 (461)
Q Consensus       373 -----~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~  439 (461)
                           .+ ...-.+.+...+...+.+.++.+.|..+++.++.    ..+   .-..++..++..-.+.|+.++|..++++
T Consensus       404 ~~~~ss~~~~~~~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~lee  483 (652)
T KOG2376|consen  404 ESWKSSILEAKHLPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEE  483 (652)
T ss_pred             hhhhhhhhhhccChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHH
Confidence                 33 2223334455566667888888888888888775    112   2233444555555678999999999999


Q ss_pred             HHHcC
Q 038303          440 IRRMG  444 (461)
Q Consensus       440 m~~~g  444 (461)
                      +.+..
T Consensus       484 l~k~n  488 (652)
T KOG2376|consen  484 LVKFN  488 (652)
T ss_pred             HHHhC
Confidence            98743

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=99.05  E-value=9.2e-07  Score=80.74  Aligned_cols=258  Identities=9%  Similarity=-0.051  Sum_probs=153.1

Q ss_pred             HHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHH---HHHHhhccchhhhHHHHHHHHHhhcCCCCcc-hHHHHHHHHHH
Q 038303          182 GGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVN---VLSACSSISALSFGKYVHSYISTRYDLSVSN-LVGNAVINMYV  257 (461)
Q Consensus       182 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~---~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~li~~~~  257 (461)
                      ..+...|++++|.+++++..+.  .|.+...+..   ........+..+.+.+.+..  . .+..|+. .....+...+.
T Consensus        51 ~~~~~~g~~~~A~~~~~~~l~~--~P~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~--~-~~~~~~~~~~~~~~a~~~~  125 (355)
T cd05804          51 LSAWIAGDLPKALALLEQLLDD--YPRDLLALKLHLGAFGLGDFSGMRDHVARVLPL--W-APENPDYWYLLGMLAFGLE  125 (355)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHhHHHHHhcccccCchhHHHHHhc--c-CcCCCCcHHHHHHHHHHHH
Confidence            3456677888888888887764  3333333331   11111223444444444433  1 2233333 34445667788


Q ss_pred             hcCCHHHHHHHHHHccC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCC-CCH--hHHHHHHHHHHcCCChHHH
Q 038303          258 KCGDVGIAIQVFNMLAY---KDKISWSTVISGLAMNGCGRQALQLFSLMIINAVF-PDD--VTFIALISACSHGGLVDQG  331 (461)
Q Consensus       258 ~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~-p~~--~~~~~ll~~~~~~~~~~~a  331 (461)
                      ..|++++|...+++..+   .+...+..+...+...|++++|...+++....... |+.  ..|..+...+...|++++|
T Consensus       126 ~~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A  205 (355)
T cd05804         126 EAGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAA  205 (355)
T ss_pred             HcCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHH
Confidence            89999999999988764   24566778888889999999999999888764321 232  2355677788889999999


Q ss_pred             HHHHHHhHhhcCCCCCcchH-H--HHHHHHhhcCCHHHHHHH--H-HhC-CCCc-hhhHHH--HHHHHHHhcCChHHHHH
Q 038303          332 LILFKAMSTVYEIVPQMQHY-A--CVVDMYGRAGLLEEAEAF--I-REM-PIEA-EWSVWG--ALLNACRIHRNDEMFDR  401 (461)
Q Consensus       332 ~~~~~~~~~~~~~~~~~~~~-~--~l~~~~~~~g~~~~A~~~--~-~~~-~~~p-~~~~~~--~l~~~~~~~~~~~~a~~  401 (461)
                      ..++++........+..... +  .++..+...|....+.++  + ... +..| ....+.  ....++...|+.+.|..
T Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~  285 (355)
T cd05804         206 LAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDK  285 (355)
T ss_pred             HHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHH
Confidence            99998875411111211111 1  223333344433333332  1 111 1101 111222  34455788899999999


Q ss_pred             HHHHHhhcCCC---------ChhHHHHHHHHHhccCChhhHHHHHHHHHHcC
Q 038303          402 IRQDLVNKKGV---------SVGTFALMSNTFAGADRWEDTNKIRDEIRRMG  444 (461)
Q Consensus       402 ~~~~~~~~~~~---------~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  444 (461)
                      +++.+......         ........+.++...|++++|.+.+......+
T Consensus       286 ~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~a  337 (355)
T cd05804         286 LLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDDL  337 (355)
T ss_pred             HHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            99888762211         23344555666779999999999998886654

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.

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.04  E-value=1.3e-06  Score=81.15  Aligned_cols=220  Identities=15%  Similarity=0.084  Sum_probs=110.5

Q ss_pred             HHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCH
Q 038303          183 GYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDV  262 (461)
Q Consensus       183 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  262 (461)
                      +....++|.+|+.+++.+.++   +.-..-|..+..-|+..|+++.|+++|-+.-.          ++-.|.+|.+.|++
T Consensus       741 aai~akew~kai~ildniqdq---k~~s~yy~~iadhyan~~dfe~ae~lf~e~~~----------~~dai~my~k~~kw  807 (1636)
T KOG3616|consen  741 AAIGAKEWKKAISILDNIQDQ---KTASGYYGEIADHYANKGDFEIAEELFTEADL----------FKDAIDMYGKAGKW  807 (1636)
T ss_pred             HHhhhhhhhhhHhHHHHhhhh---ccccccchHHHHHhccchhHHHHHHHHHhcch----------hHHHHHHHhccccH
Confidence            334455566666666655542   23333455555666666666666666554311          24455666666666


Q ss_pred             HHHHHHHHHccCC--ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHh
Q 038303          263 GIAIQVFNMLAYK--DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMST  340 (461)
Q Consensus       263 ~~a~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  340 (461)
                      ++|.++-++...|  .+..|-+-..-+-.+|++.+|.++|-...    .|+     ..|..|-+.|..+..+++.++-.-
T Consensus       808 ~da~kla~e~~~~e~t~~~yiakaedldehgkf~eaeqlyiti~----~p~-----~aiqmydk~~~~ddmirlv~k~h~  878 (1636)
T KOG3616|consen  808 EDAFKLAEECHGPEATISLYIAKAEDLDEHGKFAEAEQLYITIG----EPD-----KAIQMYDKHGLDDDMIRLVEKHHG  878 (1636)
T ss_pred             HHHHHHHHHhcCchhHHHHHHHhHHhHHhhcchhhhhheeEEcc----Cch-----HHHHHHHhhCcchHHHHHHHHhCh
Confidence            6666666555544  33445555555556666666665554332    132     234556666666665555543321


Q ss_pred             hcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHH
Q 038303          341 VYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALM  420 (461)
Q Consensus       341 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l  420 (461)
                          ..-..|...+..-|-..|+...|..-|-+.+.      |.+.++.|..++.++.|-++.+.   ....+..-....
T Consensus       879 ----d~l~dt~~~f~~e~e~~g~lkaae~~flea~d------~kaavnmyk~s~lw~dayriakt---egg~n~~k~v~f  945 (1636)
T KOG3616|consen  879 ----DHLHDTHKHFAKELEAEGDLKAAEEHFLEAGD------FKAAVNMYKASELWEDAYRIAKT---EGGANAEKHVAF  945 (1636)
T ss_pred             ----hhhhHHHHHHHHHHHhccChhHHHHHHHhhhh------HHHHHHHhhhhhhHHHHHHHHhc---cccccHHHHHHH
Confidence                11123344455556666666666666655531      33444455555555555444322   233333333333


Q ss_pred             HHHHhccCChhhHHHHHHH
Q 038303          421 SNTFAGADRWEDTNKIRDE  439 (461)
Q Consensus       421 ~~~~~~~g~~~~A~~~~~~  439 (461)
                      +++-.--  -+.|.+++++
T Consensus       946 lwaksig--gdaavkllnk  962 (1636)
T KOG3616|consen  946 LWAKSIG--GDAAVKLLNK  962 (1636)
T ss_pred             HHHHhhC--cHHHHHHHHh
Confidence            3332222  3456666655

>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=99.03  E-value=1.5e-08  Score=87.69  Aligned_cols=245  Identities=11%  Similarity=-0.003  Sum_probs=166.7

Q ss_pred             HHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCC
Q 038303          182 GGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGD  261 (461)
Q Consensus       182 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  261 (461)
                      +-+.-.|++..++.-.+ ..... ...+......+.+++...|+.+.+   ..++..  +-.|.......+...+...++
T Consensus         9 rn~fy~G~Y~~~i~e~~-~~~~~-~~~~~e~~~~~~Rs~iAlg~~~~v---l~ei~~--~~~~~l~av~~la~y~~~~~~   81 (290)
T PF04733_consen    9 RNQFYLGNYQQCINEAS-LKSFS-PENKLERDFYQYRSYIALGQYDSV---LSEIKK--SSSPELQAVRLLAEYLSSPSD   81 (290)
T ss_dssp             HHHHCTT-HHHHCHHHH-CHTST-CHHHHHHHHHHHHHHHHTT-HHHH---HHHS-T--TSSCCCHHHHHHHHHHCTSTT
T ss_pred             HHHHHhhhHHHHHHHhh-ccCCC-chhHHHHHHHHHHHHHHcCChhHH---HHHhcc--CCChhHHHHHHHHHHHhCccc
Confidence            34455788888876555 22221 222344555667777778876643   344444  336777666666555544456


Q ss_pred             HHHHHHHHHHcc-CC----ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHH
Q 038303          262 VGIAIQVFNMLA-YK----DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFK  336 (461)
Q Consensus       262 ~~~a~~~~~~~~-~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  336 (461)
                      -+.+..-+++.. .+    +..........+...|++++|++++.+-      .+.......+..|.+.++++.|.+.++
T Consensus        82 ~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~  155 (290)
T PF04733_consen   82 KESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELK  155 (290)
T ss_dssp             HHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHH
Confidence            666766665544 22    1222222334567789999999988753      356777888999999999999999999


Q ss_pred             HhHhhcCCCCCcchHHHHHHHHhh----cCCHHHHHHHHHhC--CCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcC
Q 038303          337 AMSTVYEIVPQMQHYACVVDMYGR----AGLLEEAEAFIREM--PIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKK  410 (461)
Q Consensus       337 ~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  410 (461)
                      .|.+   +..| .+...+..++..    .+++.+|..+|+++  ...+++.+.+.+..++...|++++|.+++.+..+..
T Consensus       156 ~~~~---~~eD-~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~  231 (290)
T PF04733_consen  156 NMQQ---IDED-SILTQLAEAWVNLATGGEKYQDAFYIFEELSDKFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD  231 (290)
T ss_dssp             HHHC---CSCC-HHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCCS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-
T ss_pred             HHHh---cCCc-HHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc
Confidence            9976   3333 334445554443    34799999999999  445777888888888999999999999999999999


Q ss_pred             CCChhHHHHHHHHHhccCCh-hhHHHHHHHHHHc
Q 038303          411 GVSVGTFALMSNTFAGADRW-EDTNKIRDEIRRM  443 (461)
Q Consensus       411 ~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~m~~~  443 (461)
                      |.++.+...++.+....|+. +.+.+.+.++...
T Consensus       232 ~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  232 PNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             cCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence            99999999999999999988 6677888888764

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.94  E-value=4.5e-06  Score=76.24  Aligned_cols=94  Identities=13%  Similarity=0.060  Sum_probs=46.0

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcc--hHHHHHHHH
Q 038303          178 TTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSN--LVGNAVINM  255 (461)
Q Consensus       178 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~~li~~  255 (461)
                      ..+...+...|++++|...+++..+.  .+.+...+..+...+...|++++|...++.........++.  ..+..+...
T Consensus       118 ~~~a~~~~~~G~~~~A~~~~~~al~~--~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~  195 (355)
T cd05804         118 GMLAFGLEEAGQYDRAEEAARRALEL--NPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALF  195 (355)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHH
Confidence            34445566667777777777776663  22333344444444555555555555555444311111111  122334445


Q ss_pred             HHhcCCHHHHHHHHHHcc
Q 038303          256 YVKCGDVGIAIQVFNMLA  273 (461)
Q Consensus       256 ~~~~g~~~~a~~~~~~~~  273 (461)
                      +...|++++|..++++..
T Consensus       196 ~~~~G~~~~A~~~~~~~~  213 (355)
T cd05804         196 YLERGDYEAALAIYDTHI  213 (355)
T ss_pred             HHHCCCHHHHHHHHHHHh
Confidence            555555555555555543

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.

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.93  E-value=3.6e-06  Score=78.24  Aligned_cols=305  Identities=14%  Similarity=0.077  Sum_probs=153.3

Q ss_pred             CCHHHHHHHHhhCCCCCceeHHHHHHHHHcCCChHHHHHHHhcCCCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhc
Q 038303           59 KDIFSAHQIFNSVVFPDVVSWTTIISGLSKCGFHKEAIDMFCGIDVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNL  138 (461)
Q Consensus        59 ~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  138 (461)
                      .++.+|..+|-+-   |  .-...|..|....++++|+.+-+..|.+.-...-.+.+.++...|+-+.|-++-.    . 
T Consensus       545 kkfk~ae~ifleq---n--~te~aigmy~~lhkwde~i~lae~~~~p~~eklk~sy~q~l~dt~qd~ka~elk~----s-  614 (1636)
T KOG3616|consen  545 KKFKEAEMIFLEQ---N--ATEEAIGMYQELHKWDEAIALAEAKGHPALEKLKRSYLQALMDTGQDEKAAELKE----S-  614 (1636)
T ss_pred             hhhhHHHHHHHhc---c--cHHHHHHHHHHHHhHHHHHHHHHhcCChHHHHHHHHHHHHHHhcCchhhhhhhcc----c-
Confidence            4556666555321   1  1234456666667777777776655333223333444555555555555444311    0 


Q ss_pred             CCCChhHHHHHHHHHHHcCChhhHHHHHhcCCC--CchhHHHHHHHHHHhc-------------CChHHHHHHHHHHHhc
Q 038303          139 NENNIILDNAILDFYIRCGSLASCGYLFVKMPK--RNVVSWTTMIGGYAER-------------GFCKEAVSVFQEMEKT  203 (461)
Q Consensus       139 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~li~~~~~~-------------~~~~~a~~~~~~m~~~  203 (461)
                         +-. -.+.|..|.+.|..-+|.+....-..  .|......+..++.+.             .++++|++.|++-..-
T Consensus       615 ---dgd-~laaiqlyika~~p~~a~~~a~n~~~l~~de~il~~ia~alik~elydkagdlfeki~d~dkale~fkkgdaf  690 (1636)
T KOG3616|consen  615 ---DGD-GLAAIQLYIKAGKPAKAARAALNDEELLADEEILEHIAAALIKGELYDKAGDLFEKIHDFDKALECFKKGDAF  690 (1636)
T ss_pred             ---cCc-cHHHHHHHHHcCCchHHHHhhcCHHHhhccHHHHHHHHHHHHhhHHHHhhhhHHHHhhCHHHHHHHHHcccHH
Confidence               111 13456777777777666554322211  3333333333333333             3344444444331110


Q ss_pred             CC--------CCCChhhHH-HHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccC
Q 038303          204 KE--------AEPNEATLV-NVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAY  274 (461)
Q Consensus       204 ~~--------~~~~~~~~~-~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  274 (461)
                      |.        +|...++.. ..-.-+...|+++.|...|-+...          ....+.+......+.+|+.+++.+..
T Consensus       691 ~kaielarfafp~evv~lee~wg~hl~~~~q~daainhfiea~~----------~~kaieaai~akew~kai~ildniqd  760 (1636)
T KOG3616|consen  691 GKAIELARFAFPEEVVKLEEAWGDHLEQIGQLDAAINHFIEANC----------LIKAIEAAIGAKEWKKAISILDNIQD  760 (1636)
T ss_pred             HHHHHHHHhhCcHHHhhHHHHHhHHHHHHHhHHHHHHHHHHhhh----------HHHHHHHHhhhhhhhhhHhHHHHhhh
Confidence            00        111111111 001112333444444443333211          12234455566778888888887776


Q ss_pred             CChh--hHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHH
Q 038303          275 KDKI--SWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYA  352 (461)
Q Consensus       275 ~~~~--~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  352 (461)
                      .+..  -|..+...|+..|+++.|.++|-+.-         .++-.|..|.+.|+++.|.++-++..   |-......|-
T Consensus       761 qk~~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~da~kla~e~~---~~e~t~~~yi  828 (1636)
T KOG3616|consen  761 QKTASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWEDAFKLAEECH---GPEATISLYI  828 (1636)
T ss_pred             hccccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHHHHHHHHHHhc---CchhHHHHHH
Confidence            5443  36667778888888888888776542         24556777888888888777665542   3334445555


Q ss_pred             HHHHHHhhcCCHHHHHHHHHhCCCCchhhHHHHHHHHHHhcCChHHHHHHHHH
Q 038303          353 CVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQD  405 (461)
Q Consensus       353 ~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  405 (461)
                      +-..-+-+.|++.+|.+++-.++ .|+.     .|..|.+.|..+..+++.++
T Consensus       829 akaedldehgkf~eaeqlyiti~-~p~~-----aiqmydk~~~~ddmirlv~k  875 (1636)
T KOG3616|consen  829 AKAEDLDEHGKFAEAEQLYITIG-EPDK-----AIQMYDKHGLDDDMIRLVEK  875 (1636)
T ss_pred             HhHHhHHhhcchhhhhheeEEcc-CchH-----HHHHHHhhCcchHHHHHHHH
Confidence            55555666677776666665553 2322     23444555555555544443

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.93  E-value=1.8e-06  Score=72.91  Aligned_cols=55  Identities=13%  Similarity=0.129  Sum_probs=26.9

Q ss_pred             HHHHHHHcCCChHHHHHHHhcCCCCCCchhHHHHHH---HhcccchhHHHHHHHHHHHh
Q 038303           81 TIISGLSKCGFHKEAIDMFCGIDVKPNANTLVSVLS---ACSSLVSHKLGKAIHAHSLR  136 (461)
Q Consensus        81 ~li~~~~~~~~~~~a~~~~~~m~~~p~~~~~~~ll~---~~~~~~~~~~a~~~~~~~~~  136 (461)
                      -+...+...|++..|+.-|... +..|+..|..+.+   .|...|+...|..-+...++
T Consensus        43 ElGk~lla~~Q~sDALt~yHaA-ve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVle  100 (504)
T KOG0624|consen   43 ELGKELLARGQLSDALTHYHAA-VEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLE  100 (504)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHH-HcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHh
Confidence            3555556666666666666554 3333333433332   24444444444444444444

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.93  E-value=8.1e-06  Score=78.58  Aligned_cols=374  Identities=10%  Similarity=0.072  Sum_probs=225.1

Q ss_pred             HHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCceeHHHHHHHHHcCCChHHH
Q 038303           16 ALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWTTIISGLSKCGFHKEA   95 (461)
Q Consensus        16 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a   95 (461)
                      |+.-+-+.++++--+..++.....|.. ++.++|+|.+.|...++-.+-  .+    +.|..-=+..+.-||..+++.-|
T Consensus       844 Lv~EvEkRNRLklLlp~LE~~i~eG~~-d~a~hnAlaKIyIDSNNnPE~--fL----keN~yYDs~vVGkYCEKRDP~lA  916 (1666)
T KOG0985|consen  844 LVEEVEKRNRLKLLLPWLESLIQEGSQ-DPATHNALAKIYIDSNNNPER--FL----KENPYYDSKVVGKYCEKRDPHLA  916 (1666)
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHhccCc-chHHHhhhhheeecCCCChHH--hc----ccCCcchhhHHhhhhcccCCceE
Confidence            444556677777888888888888886 899999999999876654331  11    12222222333445554444433


Q ss_pred             HHHHhcC-------CCCCCchhHHHHHHHhcccchhHH-----------HHHHHHHHHhhcCC--CChhHHHHHHHHHHH
Q 038303           96 IDMFCGI-------DVKPNANTLVSVLSACSSLVSHKL-----------GKAIHAHSLRNLNE--NNIILDNAILDFYIR  155 (461)
Q Consensus        96 ~~~~~~m-------~~~p~~~~~~~ll~~~~~~~~~~~-----------a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~  155 (461)
                      .-.|++-       .+-.....|....+-+.+..|.+.           -.++.++.++.+++  .|+.-...-+.++..
T Consensus       917 ~vaYerGqcD~elI~vcNeNSlfK~~aRYlv~R~D~~LW~~VL~e~n~~rRqLiDqVv~tal~E~~dPe~vS~tVkAfMt  996 (1666)
T KOG0985|consen  917 CVAYERGQCDLELINVCNENSLFKSQARYLVERSDPDLWAKVLNEENPYRRQLIDQVVQTALPETQDPEEVSVTVKAFMT  996 (1666)
T ss_pred             EEeecccCCcHHHHHhcCchhHHHHHHHHHHhccChHHHHHHHhccChHHHHHHHHHHHhcCCccCChHHHHHHHHHHHh
Confidence            3222222       111122223333333333333221           12344455554432  344555666788888


Q ss_pred             cCChhhHHHHHhcCCC-Cc-----hhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhH
Q 038303          156 CGSLASCGYLFVKMPK-RN-----VVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFG  229 (461)
Q Consensus       156 ~g~~~~a~~~~~~~~~-~~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a  229 (461)
                      .+-..+-+++++++.- ++     ...-|.||-...+. +..++.++.+++..-  ..|+      +...+...+-+++|
T Consensus       997 adLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAika-d~trVm~YI~rLdny--Da~~------ia~iai~~~LyEEA 1067 (1666)
T KOG0985|consen  997 ADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIKA-DRTRVMEYINRLDNY--DAPD------IAEIAIENQLYEEA 1067 (1666)
T ss_pred             cCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhhc-ChHHHHHHHHHhccC--Cchh------HHHHHhhhhHHHHH
Confidence            8888888888888752 22     22334444444443 456677777776543  2333      23345566677888


Q ss_pred             HHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCC
Q 038303          230 KYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVF  309 (461)
Q Consensus       230 ~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~  309 (461)
                      ..+|+....      +....+.|+.   .-+.++.|.++-++..+|  ..|..+..+-.+.|.+.+|.+-|-+.      
T Consensus      1068 F~ifkkf~~------n~~A~~VLie---~i~~ldRA~efAe~~n~p--~vWsqlakAQL~~~~v~dAieSyika------ 1130 (1666)
T KOG0985|consen 1068 FAIFKKFDM------NVSAIQVLIE---NIGSLDRAYEFAERCNEP--AVWSQLAKAQLQGGLVKDAIESYIKA------ 1130 (1666)
T ss_pred             HHHHHHhcc------cHHHHHHHHH---HhhhHHHHHHHHHhhCCh--HHHHHHHHHHHhcCchHHHHHHHHhc------
Confidence            888776432      3333344443   346777777777776654  46888888888888888888777654      


Q ss_pred             CCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCchhhHHHHHHHH
Q 038303          310 PDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNA  389 (461)
Q Consensus       310 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~  389 (461)
                      -|+..|..+++.+.+.|.+++-.+++....+ ..-.|.+.  +.||-+|.+.++..+-++++.    .|+......+..-
T Consensus      1131 dDps~y~eVi~~a~~~~~~edLv~yL~MaRk-k~~E~~id--~eLi~AyAkt~rl~elE~fi~----gpN~A~i~~vGdr 1203 (1666)
T KOG0985|consen 1131 DDPSNYLEVIDVASRTGKYEDLVKYLLMARK-KVREPYID--SELIFAYAKTNRLTELEEFIA----GPNVANIQQVGDR 1203 (1666)
T ss_pred             CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHH-hhcCccch--HHHHHHHHHhchHHHHHHHhc----CCCchhHHHHhHH
Confidence            3667888888888888999888888876666 45556555  567888888888877666542    3555555566666


Q ss_pred             HHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHH
Q 038303          390 CRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIR  437 (461)
Q Consensus       390 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  437 (461)
                      |...+.++.|.-++..        .+-|..|+..+...|++..|...-
T Consensus      1204 cf~~~~y~aAkl~y~~--------vSN~a~La~TLV~LgeyQ~AVD~a 1243 (1666)
T KOG0985|consen 1204 CFEEKMYEAAKLLYSN--------VSNFAKLASTLVYLGEYQGAVDAA 1243 (1666)
T ss_pred             HhhhhhhHHHHHHHHH--------hhhHHHHHHHHHHHHHHHHHHHHh
Confidence            7777777777766654        334555555555555555554433

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.93  E-value=6.6e-07  Score=74.02  Aligned_cols=278  Identities=12%  Similarity=0.014  Sum_probs=127.1

Q ss_pred             HHHHHHcCChhhHHHHHhcCCC---CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHH-HHHhhccch
Q 038303          150 LDFYIRCGSLASCGYLFVKMPK---RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNV-LSACSSISA  225 (461)
Q Consensus       150 ~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~-l~~~~~~~~  225 (461)
                      +..+.+..++..|++++..-.+   ++......|..+|-...++..|...|+++..   ..|...-|..- ..++.+.+.
T Consensus        17 iy~lI~d~ry~DaI~~l~s~~Er~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~q---l~P~~~qYrlY~AQSLY~A~i   93 (459)
T KOG4340|consen   17 VYRLIRDARYADAIQLLGSELERSPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQ---LHPELEQYRLYQAQSLYKACI   93 (459)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHh---hChHHHHHHHHHHHHHHHhcc
Confidence            3334444455555554444333   1333444455555555555555555555544   33444433322 233444455


Q ss_pred             hhhHHHHHHHHHhhcCCCCcchHHHHHHH--HHHhcCCHHHHHHHHHHccC-CChhhHHHHHHHHHhcCChHHHHHHHHH
Q 038303          226 LSFGKYVHSYISTRYDLSVSNLVGNAVIN--MYVKCGDVGIAIQVFNMLAY-KDKISWSTVISGLAMNGCGRQALQLFSL  302 (461)
Q Consensus       226 ~~~a~~~~~~~~~~~~~~~~~~~~~~li~--~~~~~g~~~~a~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~  302 (461)
                      +..|.++...|...    ++...-..-+.  .....+++..+..++++... .+..+.+.......+.|+++.|.+-|+.
T Consensus        94 ~ADALrV~~~~~D~----~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkFqa  169 (459)
T KOG4340|consen   94 YADALRVAFLLLDN----PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKFQA  169 (459)
T ss_pred             cHHHHHHHHHhcCC----HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHHHHH
Confidence            55555555544331    11110001111  11234555555555555552 3344444444444555666666666665


Q ss_pred             HHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCC-------------Cc--------chHHHHHH-----
Q 038303          303 MIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVP-------------QM--------QHYACVVD-----  356 (461)
Q Consensus       303 m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-------------~~--------~~~~~l~~-----  356 (461)
                      ..+.+---....|+..+ +..+.++++.|++...++.+ .|++.             |+        ..-+.+++     
T Consensus       170 AlqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIie-RG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLK  247 (459)
T KOG4340|consen  170 ALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIE-RGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLK  247 (459)
T ss_pred             HHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHH-hhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhh
Confidence            55533222334444433 33345555666655555554 33221             10        01122222     


Q ss_pred             --HHhhcCCHHHHHHHHHhCC----CCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCCh
Q 038303          357 --MYGRAGLLEEAEAFIREMP----IEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRW  430 (461)
Q Consensus       357 --~~~~~g~~~~A~~~~~~~~----~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  430 (461)
                        .+.+.|+++.|.+-+..|+    ...|++|...+.-. -..+++.+..+-+.-+.+..|-...+|..++-.||+..-+
T Consensus       248 aAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~-n~~~~p~~g~~KLqFLL~~nPfP~ETFANlLllyCKNeyf  326 (459)
T KOG4340|consen  248 AAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM-NMDARPTEGFEKLQFLLQQNPFPPETFANLLLLYCKNEYF  326 (459)
T ss_pred             hhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh-cccCCccccHHHHHHHHhcCCCChHHHHHHHHHHhhhHHH
Confidence              2345666666666666662    22344443332211 1223344444444444555555566666666666666666


Q ss_pred             hhHHHHH
Q 038303          431 EDTNKIR  437 (461)
Q Consensus       431 ~~A~~~~  437 (461)
                      +-|-.++
T Consensus       327 ~lAADvL  333 (459)
T KOG4340|consen  327 DLAADVL  333 (459)
T ss_pred             hHHHHHH
Confidence            6665554

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.92  E-value=7e-06  Score=69.81  Aligned_cols=124  Identities=13%  Similarity=-0.026  Sum_probs=58.1

Q ss_pred             CCcchHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCceeHHHHHHHHH
Q 038303            8 YNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWTTIISGLS   87 (461)
Q Consensus         8 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~   87 (461)
                      |+....-.|.....-.|.+.+|.++-....     .++..-..|+..--+.++-++-..+-+.+.... .---+|....-
T Consensus        89 ~~~el~vnLAcc~FyLg~Y~eA~~~~~ka~-----k~pL~~RLlfhlahklndEk~~~~fh~~LqD~~-EdqLSLAsvhY  162 (557)
T KOG3785|consen   89 APAELGVNLACCKFYLGQYIEAKSIAEKAP-----KTPLCIRLLFHLAHKLNDEKRILTFHSSLQDTL-EDQLSLASVHY  162 (557)
T ss_pred             CCcccchhHHHHHHHHHHHHHHHHHHhhCC-----CChHHHHHHHHHHHHhCcHHHHHHHHHHHhhhH-HHHHhHHHHHH
Confidence            444455555555555677777766654321     133333333444445555555554444442211 11112222222


Q ss_pred             cCCChHHHHHHHhcC-CCCCCchhHHHHHHH-hcccchhHHHHHHHHHHHhh
Q 038303           88 KCGFHKEAIDMFCGI-DVKPNANTLVSVLSA-CSSLVSHKLGKAIHAHSLRN  137 (461)
Q Consensus        88 ~~~~~~~a~~~~~~m-~~~p~~~~~~~ll~~-~~~~~~~~~a~~~~~~~~~~  137 (461)
                      -.-.+.+|++++... .-.|+-...|.-+.. |.+..-++-+.+++.-.++.
T Consensus       163 mR~HYQeAIdvYkrvL~dn~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q  214 (557)
T KOG3785|consen  163 MRMHYQEAIDVYKRVLQDNPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ  214 (557)
T ss_pred             HHHHHHHHHHHHHHHHhcChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh
Confidence            223456666666665 444444444443333 34555556666665555544

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.92  E-value=2.5e-06  Score=76.52  Aligned_cols=90  Identities=6%  Similarity=-0.048  Sum_probs=75.1

Q ss_pred             HHHHhhcCCHHHHHHHHHhC--CCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhh
Q 038303          355 VDMYGRAGLLEEAEAFIREM--PIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWED  432 (461)
Q Consensus       355 ~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  432 (461)
                      ...+.+.|++..|++.+.++  ..+.|...|..-..+|.+.|.+..|+.-.+..++..|+....|..=+.++.-..+|+.
T Consensus       365 Gne~Fk~gdy~~Av~~YteAIkr~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydk  444 (539)
T KOG0548|consen  365 GNEAFKKGDYPEAVKHYTEAIKRDPEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDK  444 (539)
T ss_pred             HHHHHhccCHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHH
Confidence            45677889999999999988  3344666788888888999999999999999999999999999998999989999999


Q ss_pred             HHHHHHHHHHcC
Q 038303          433 TNKIRDEIRRMG  444 (461)
Q Consensus       433 A~~~~~~m~~~g  444 (461)
                      |.+.|++-.+..
T Consensus       445 Aleay~eale~d  456 (539)
T KOG0548|consen  445 ALEAYQEALELD  456 (539)
T ss_pred             HHHHHHHHHhcC
Confidence            999987776654

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.92  E-value=8.3e-06  Score=73.25  Aligned_cols=395  Identities=10%  Similarity=-0.009  Sum_probs=241.3

Q ss_pred             HHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCC--CCC-ceeHHHHHHHHHcCCChHH
Q 038303           18 KACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVV--FPD-VVSWTTIISGLSKCGFHKE   94 (461)
Q Consensus        18 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~--~~~-~~~~~~li~~~~~~~~~~~   94 (461)
                      ++....|+++.|...|.+.+...+. |...|+.-..+|++.|++++|.+=-.+-+  .|+ +..|+....++.-.|++++
T Consensus        10 naa~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   10 NAAFSSGDFETAIRLFTEAIMLSPT-NHVLYSNRSAAYASLGSYEKALKDATKTRRLNPDWAKGYSRKGAALFGLGDYEE   88 (539)
T ss_pred             HhhcccccHHHHHHHHHHHHccCCC-ccchhcchHHHHHHHhhHHHHHHHHHHHHhcCCchhhHHHHhHHHHHhcccHHH
Confidence            4567889999999999999987764 88889988999999999999987666553  343 4679999999999999999


Q ss_pred             HHHHHhcC-CCCCC-chhHHHHHHHhccc---chhHHHHHHHHHHHhhc---CCCChhHHHHHHH----------HHHHc
Q 038303           95 AIDMFCGI-DVKPN-ANTLVSVLSACSSL---VSHKLGKAIHAHSLRNL---NENNIILDNAILD----------FYIRC  156 (461)
Q Consensus        95 a~~~~~~m-~~~p~-~~~~~~ll~~~~~~---~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~----------~~~~~  156 (461)
                      |+.-|.+- ...|+ ...+..+..+....   ++.-.--.++..+...-   .......|..++.          .|...
T Consensus        89 A~~ay~~GL~~d~~n~~L~~gl~~a~~~~~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~~~l~d  168 (539)
T KOG0548|consen   89 AILAYSEGLEKDPSNKQLKTGLAQAYLEDYAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLKLYLND  168 (539)
T ss_pred             HHHHHHHHhhcCCchHHHHHhHHHhhhHHHHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhhccccc
Confidence            99999887 56664 44556666665111   00000000111110000   0000011111111          11111


Q ss_pred             CChhhHHHHHhcCC----------------CC------------c----------hhHHHHHHHHHHhcCChHHHHHHHH
Q 038303          157 GSLASCGYLFVKMP----------------KR------------N----------VVSWTTMIGGYAERGFCKEAVSVFQ  198 (461)
Q Consensus       157 g~~~~a~~~~~~~~----------------~~------------~----------~~~~~~li~~~~~~~~~~~a~~~~~  198 (461)
                      .++..|...+....                .|            |          ..-.-.+.++..+..+++.|.+.+.
T Consensus       169 ~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~~a~q~y~  248 (539)
T KOG0548|consen  169 PRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFETAIQHYA  248 (539)
T ss_pred             HHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHHHHHHHHH
Confidence            11222222221110                01            0          1135567888888999999999999


Q ss_pred             HHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCc------chHHHHHHHHHHhcCCHHHHHHHHHHc
Q 038303          199 EMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVS------NLVGNAVINMYVKCGDVGIAIQVFNML  272 (461)
Q Consensus       199 ~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~~li~~~~~~g~~~~a~~~~~~~  272 (461)
                      ...+   +.-+..-++....++...|.+......-+...+ .|...-      ......+..+|.+.++++.+...|++.
T Consensus       249 ~a~e---l~~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E-~gre~rad~klIak~~~r~g~a~~k~~~~~~ai~~~~ka  324 (539)
T KOG0548|consen  249 KALE---LATDITYLNNIAAVYLERGKYAECIELCEKAVE-VGRELRADYKLIAKALARLGNAYTKREDYEGAIKYYQKA  324 (539)
T ss_pred             HHHh---HhhhhHHHHHHHHHHHhccHHHHhhcchHHHHH-HhHHHHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHHHHH
Confidence            9988   443333444445557777776666555554444 221111      011122344777788899999999886


Q ss_pred             cCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH-hHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchH
Q 038303          273 AYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDD-VTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHY  351 (461)
Q Consensus       273 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  351 (461)
                      ..+...     -..+.+....++++.......-.  .|.. .-...-...+.+.|++..|...|.++.+  .-+-|...|
T Consensus       325 Lte~Rt-----~~~ls~lk~~Ek~~k~~e~~a~~--~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIk--r~P~Da~lY  395 (539)
T KOG0548|consen  325 LTEHRT-----PDLLSKLKEAEKALKEAERKAYI--NPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIK--RDPEDARLY  395 (539)
T ss_pred             hhhhcC-----HHHHHHHHHHHHHHHHHHHHHhh--ChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHh--cCCchhHHH
Confidence            533111     11223334455555555554442  2333 1122225567788999999999998887  336678888


Q ss_pred             HHHHHHHhhcCCHHHHHHHHHhC-CCCch-hhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhc
Q 038303          352 ACVVDMYGRAGLLEEAEAFIREM-PIEAE-WSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAG  426 (461)
Q Consensus       352 ~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  426 (461)
                      ..-.-+|.+.|.+..|++-.+.. ...|+ ...|..=..++....+++.|.+.|.+..+.+|.+......+.++...
T Consensus       396 sNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eale~dp~~~e~~~~~~rc~~a  472 (539)
T KOG0548|consen  396 SNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEALELDPSNAEAIDGYRRCVEA  472 (539)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHH
Confidence            88888999999999888877666 33343 33444444456667788899999999988888887777776666654

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.90  E-value=4.7e-06  Score=86.20  Aligned_cols=325  Identities=10%  Similarity=-0.066  Sum_probs=202.1

Q ss_pred             cccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCCC----C----c----hhHHHHHHHHHHh
Q 038303          119 SSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPK----R----N----VVSWTTMIGGYAE  186 (461)
Q Consensus       119 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~----~----~----~~~~~~li~~~~~  186 (461)
                      ...|+.+.+...++.+.......+..........+...|++++|..++.....    .    +    ......+...+..
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            34566666666655542221122233334455566778999998888875532    1    1    1112223345668


Q ss_pred             cCChHHHHHHHHHHHhcCCCCCCh----hhHHHHHHHhhccchhhhHHHHHHHHHhhcCC--CC--cchHHHHHHHHHHh
Q 038303          187 RGFCKEAVSVFQEMEKTKEAEPNE----ATLVNVLSACSSISALSFGKYVHSYISTRYDL--SV--SNLVGNAVINMYVK  258 (461)
Q Consensus       187 ~~~~~~a~~~~~~m~~~~~~~~~~----~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~--~~--~~~~~~~li~~~~~  258 (461)
                      .|++++|...+++..+.- ...+.    .....+...+...|+++.|...+........-  .+  .......+...+..
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            899999999999887631 11121    23344455567789999999888887652111  11  12344566777888


Q ss_pred             cCCHHHHHHHHHHccCC-------C----hhhHHHHHHHHHhcCChHHHHHHHHHHHhcC--CCCC--HhHHHHHHHHHH
Q 038303          259 CGDVGIAIQVFNMLAYK-------D----KISWSTVISGLAMNGCGRQALQLFSLMIINA--VFPD--DVTFIALISACS  323 (461)
Q Consensus       259 ~g~~~~a~~~~~~~~~~-------~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g--~~p~--~~~~~~ll~~~~  323 (461)
                      .|++++|...+++....       +    ...+..+...+...|++++|...+++.....  ..+.  ...+..+...+.
T Consensus       544 ~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~  623 (903)
T PRK04841        544 QGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISL  623 (903)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHH
Confidence            99999999988765421       1    1234445566777899999999998875531  1122  234444556677


Q ss_pred             cCCChHHHHHHHHHhHhhcCCCCCcchH-----HHHHHHHhhcCCHHHHHHHHHhCCC-C-chhh----HHHHHHHHHHh
Q 038303          324 HGGLVDQGLILFKAMSTVYEIVPQMQHY-----ACVVDMYGRAGLLEEAEAFIREMPI-E-AEWS----VWGALLNACRI  392 (461)
Q Consensus       324 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~-----~~l~~~~~~~g~~~~A~~~~~~~~~-~-p~~~----~~~~l~~~~~~  392 (461)
                      ..|+++.|...++..............+     ...+..+...|+.+.|..++..... . ....    .+..+..++..
T Consensus       624 ~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~  703 (903)
T PRK04841        624 ARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQIL  703 (903)
T ss_pred             HcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHH
Confidence            8999999999988875421111111111     1122445568999999999877621 1 1111    13345556788


Q ss_pred             cCChHHHHHHHHHHhhcC-----C-CChhHHHHHHHHHhccCChhhHHHHHHHHHHcC
Q 038303          393 HRNDEMFDRIRQDLVNKK-----G-VSVGTFALMSNTFAGADRWEDTNKIRDEIRRMG  444 (461)
Q Consensus       393 ~~~~~~a~~~~~~~~~~~-----~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  444 (461)
                      .|+.++|...++++....     + ....++..++.++.+.|+.++|...+.+..+..
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            899999999999987621     1 124567788889999999999999999987654

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.90  E-value=4e-05  Score=72.52  Aligned_cols=160  Identities=11%  Similarity=0.004  Sum_probs=81.9

Q ss_pred             hhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCC-CCceeHHHHHHHHHcCCChHHHHHHHh
Q 038303           22 LAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVF-PDVVSWTTIISGLSKCGFHKEAIDMFC  100 (461)
Q Consensus        22 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~  100 (461)
                      ..|.+++|+.++.+-++.+         .|=+.|-..|.+++|.++-+.--+ .=..+|.....-+-..++.+.|++.|+
T Consensus       812 eLgMlEeA~~lYr~ckR~D---------LlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Lear~Di~~AleyyE  882 (1416)
T KOG3617|consen  812 ELGMLEEALILYRQCKRYD---------LLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLEARRDIEAALEYYE  882 (1416)
T ss_pred             HHhhHHHHHHHHHHHHHHH---------HHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHHhhccHHHHHHHHH
Confidence            4455555555555554421         223344455666666665544311 111234444444445566666666665


Q ss_pred             cCCC----------------------CCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCC
Q 038303          101 GIDV----------------------KPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGS  158 (461)
Q Consensus       101 ~m~~----------------------~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  158 (461)
                      +.+.                      ..|...|.....-+-..|+.+.|..+|.....         |-++++..|-.|+
T Consensus       883 K~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~C~qGk  953 (1416)
T KOG3617|consen  883 KAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIKCIQGK  953 (1416)
T ss_pred             hcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeEeeccC
Confidence            5511                      11222223333333344555555555443332         2344444455555


Q ss_pred             hhhHHHHHhcCCCCchhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 038303          159 LASCGYLFVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEME  201 (461)
Q Consensus       159 ~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  201 (461)
                      .++|-++-++-  .|......|.+.|-..|++.+|..+|.+..
T Consensus       954 ~~kAa~iA~es--gd~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  954 TDKAARIAEES--GDKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             chHHHHHHHhc--ccHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            55555544433  355666677888888888888888887764

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.88  E-value=4.2e-07  Score=89.84  Aligned_cols=205  Identities=8%  Similarity=0.029  Sum_probs=159.1

Q ss_pred             CCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCC--------ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHh
Q 038303          242 LSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYK--------DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDV  313 (461)
Q Consensus       242 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--------~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~  313 (461)
                      .+-+...|-..|......+++++|.++.++....        -...|.++++.....|.-+...++|++..+..  -.-.
T Consensus      1454 sPNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~~ 1531 (1710)
T KOG1070|consen 1454 SPNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC--DAYT 1531 (1710)
T ss_pred             CCCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc--chHH
Confidence            3344556777788888888888888888887632        23467777777777777788888888887741  1235


Q ss_pred             HHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc---hhhHHHHHHHH
Q 038303          314 TFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA---EWSVWGALLNA  389 (461)
Q Consensus       314 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p---~~~~~~~l~~~  389 (461)
                      .|..|...|.+.+.+++|.++++.|.+.++  .....|...+..+.+..+-+.|..++.++ ..-|   ......-.+..
T Consensus      1532 V~~~L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqL 1609 (1710)
T KOG1070|consen 1532 VHLKLLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQL 1609 (1710)
T ss_pred             HHHHHHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHH
Confidence            677888888999999999999999988555  67788888889998888888898888887 2223   33344445555


Q ss_pred             HHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcCCccccC
Q 038303          390 CRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGLKKKTG  450 (461)
Q Consensus       390 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~~~~~  450 (461)
                      -.+.|+.+++..+|+......|.....|+.+++.-.+.|+.+.+..+|+++...++.|...
T Consensus      1610 EFk~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkm 1670 (1710)
T KOG1070|consen 1610 EFKYGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKM 1670 (1710)
T ss_pred             HhhcCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHh
Confidence            6788999999999999988888888899999999999999999999999998888876543

>PF12854 PPR_1: PPR repeat

Probab=98.87  E-value=2.5e-09  Score=58.88  Aligned_cols=33  Identities=12%  Similarity=0.136  Sum_probs=22.8

Q ss_pred             CCCCCCcchHHHHHHHHHhhCCHHHHHHHHHHH
Q 038303            4 CPSSYNHYTFTQALKACSLAHPHQKALEIHAHV   36 (461)
Q Consensus         4 ~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~   36 (461)
                      +|+.||..||+.+|+++++.|++++|.++|++|
T Consensus         1 ~G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    1 RGCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            466677777777777777777777777777665

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.85  E-value=1.5e-05  Score=75.15  Aligned_cols=367  Identities=9%  Similarity=0.017  Sum_probs=185.3

Q ss_pred             HHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCC-----------CCc-eeHHHHHHHHH
Q 038303           20 CSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVF-----------PDV-VSWTTIISGLS   87 (461)
Q Consensus        20 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-----------~~~-~~~~~li~~~~   87 (461)
                      |..-|+.+.|.+-.+.++      +...|..|...|.+.++++-|.-.+-.|..           .|. ..-.-..-...
T Consensus       738 yvtiG~MD~AfksI~~Ik------S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~e~eakvAvLAi  811 (1416)
T KOG3617|consen  738 YVTIGSMDAAFKSIQFIK------SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGEEDEAKVAVLAI  811 (1416)
T ss_pred             EEEeccHHHHHHHHHHHh------hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCcchhhHHHHHHH
Confidence            445566666666555543      334666777777777666666655555510           111 11111111123


Q ss_pred             cCCChHHHHHHHhcCCCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHh
Q 038303           88 KCGFHKEAIDMFCGIDVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFV  167 (461)
Q Consensus        88 ~~~~~~~a~~~~~~m~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  167 (461)
                      ..|.+++|..+|.+-      .-|..+=..|-..|.+++|.++-+.--+.-   =..||-.....+-..++.+.|++.|+
T Consensus       812 eLgMlEeA~~lYr~c------kR~DLlNKlyQs~g~w~eA~eiAE~~DRiH---Lr~Tyy~yA~~Lear~Di~~AleyyE  882 (1416)
T KOG3617|consen  812 ELGMLEEALILYRQC------KRYDLLNKLYQSQGMWSEAFEIAETKDRIH---LRNTYYNYAKYLEARRDIEAALEYYE  882 (1416)
T ss_pred             HHhhHHHHHHHHHHH------HHHHHHHHHHHhcccHHHHHHHHhhcccee---hhhhHHHHHHHHHhhccHHHHHHHHH
Confidence            445666666666443      122223333444556666655533211111   12334444444555566666666665


Q ss_pred             cCCC-----------------------CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccc
Q 038303          168 KMPK-----------------------RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSIS  224 (461)
Q Consensus       168 ~~~~-----------------------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~  224 (461)
                      +...                       +|...|.-...-+-..|+.+.|+.+|....+          |-.++...|-.|
T Consensus       883 K~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D----------~fs~VrI~C~qG  952 (1416)
T KOG3617|consen  883 KAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD----------YFSMVRIKCIQG  952 (1416)
T ss_pred             hcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh----------hhhheeeEeecc
Confidence            5432                       2333444444445556777777777777654          445666677778


Q ss_pred             hhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCCChhhHHHHHHHH-------------H--h
Q 038303          225 ALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGL-------------A--M  289 (461)
Q Consensus       225 ~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~-------------~--~  289 (461)
                      +.++|-++-++-       -|......|.+.|-..|++.+|..+|-+..     ++...|+.|             .  .
T Consensus       953 k~~kAa~iA~es-------gd~AAcYhlaR~YEn~g~v~~Av~FfTrAq-----afsnAIRlcKEnd~~d~L~nlal~s~ 1020 (1416)
T KOG3617|consen  953 KTDKAARIAEES-------GDKAACYHLARMYENDGDVVKAVKFFTRAQ-----AFSNAIRLCKENDMKDRLANLALMSG 1020 (1416)
T ss_pred             CchHHHHHHHhc-------ccHHHHHHHHHHhhhhHHHHHHHHHHHHHH-----HHHHHHHHHHhcCHHHHHHHHHhhcC
Confidence            888877776553       234455677888888888888888886654     222222211             1  1


Q ss_pred             cCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHH---------HHHhHhhcCCCCCcchHHHHHHHHhh
Q 038303          290 NGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLIL---------FKAMSTVYEIVPQMQHYACVVDMYGR  360 (461)
Q Consensus       290 ~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~---------~~~~~~~~~~~~~~~~~~~l~~~~~~  360 (461)
                      ..+.-.|-.+|++.   |..     +...+..|-+.|.+.+|+++         ++-+.++..-..|+...+.-.+.++.
T Consensus      1021 ~~d~v~aArYyEe~---g~~-----~~~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa~DLd~~sDp~ll~RcadFF~~ 1092 (1416)
T KOG3617|consen 1021 GSDLVSAARYYEEL---GGY-----AHKAVMLYHKAGMIGKALELAFRTQQFSALDLIAKDLDAGSDPKLLRRCADFFEN 1092 (1416)
T ss_pred             chhHHHHHHHHHHc---chh-----hhHHHHHHHhhcchHHHHHHHHhhcccHHHHHHHHhcCCCCCHHHHHHHHHHHHh
Confidence            11222233333332   111     22334456667777666643         23333323333456666666666777


Q ss_pred             cCCHHHHHHHHHhCCCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhh---cCCCC---hhHHHHHHHHHhccCChhhHH
Q 038303          361 AGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVN---KKGVS---VGTFALMSNTFAGADRWEDTN  434 (461)
Q Consensus       361 ~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~---~~~~~~l~~~~~~~g~~~~A~  434 (461)
                      ..++++|..++-...      -|.-.+. .++..+..--+++.+.|.-   ..|+.   ......++..|.+.|.+..|.
T Consensus      1093 ~~qyekAV~lL~~ar------~~~~Alq-lC~~~nv~vtee~aE~mTp~Kd~~~~e~~R~~vLeqvae~c~qQG~Yh~At 1165 (1416)
T KOG3617|consen 1093 NQQYEKAVNLLCLAR------EFSGALQ-LCKNRNVRVTEEFAELMTPTKDDMPNEQERKQVLEQVAELCLQQGAYHAAT 1165 (1416)
T ss_pred             HHHHHHHHHHHHHHH------HHHHHHH-HHhcCCCchhHHHHHhcCcCcCCCccHHHHHHHHHHHHHHHHhccchHHHH
Confidence            777777777665441      0111122 2233333333333333332   11111   235556666666666666655


Q ss_pred             HHHH
Q 038303          435 KIRD  438 (461)
Q Consensus       435 ~~~~  438 (461)
                      +-|.
T Consensus      1166 KKfT 1169 (1416)
T KOG3617|consen 1166 KKFT 1169 (1416)
T ss_pred             HHHh
Confidence            4443

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.82  E-value=2.6e-05  Score=66.22  Aligned_cols=283  Identities=10%  Similarity=0.021  Sum_probs=164.8

Q ss_pred             HHHHHHhcCCHHHHHHHHhhCCCCCceeHHHHH---HHHHcCCChHHHHHHHhcC-CCCCCchhHHH-HHHHhcccchhH
Q 038303           51 LLHFYVTVKDIFSAHQIFNSVVFPDVVSWTTII---SGLSKCGFHKEAIDMFCGI-DVKPNANTLVS-VLSACSSLVSHK  125 (461)
Q Consensus        51 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li---~~~~~~~~~~~a~~~~~~m-~~~p~~~~~~~-ll~~~~~~~~~~  125 (461)
                      +-..+...|++..|+.-|...+..|+..|.++.   ..|...|+-..|+.-+... .++||...-.. -...+.+.|.++
T Consensus        44 lGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlelKpDF~~ARiQRg~vllK~Gele  123 (504)
T KOG0624|consen   44 LGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLELKPDFMAARIQRGVVLLKQGELE  123 (504)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhcCccHHHHHHHhchhhhhcccHH
Confidence            334455566677777777766666666666654   3455666666666655555 66666433221 223355667777


Q ss_pred             HHHHHHHHHHhhcCCCCh------------h--HHHHHHHHHHHcCChhhHHHHHhcCCC---CchhHHHHHHHHHHhcC
Q 038303          126 LGKAIHAHSLRNLNENNI------------I--LDNAILDFYIRCGSLASCGYLFVKMPK---RNVVSWTTMIGGYAERG  188 (461)
Q Consensus       126 ~a~~~~~~~~~~~~~~~~------------~--~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~  188 (461)
                      .|..-|+.+++..+..+.            .  .....+..+...|+...|+.....+.+   -|...|..-..+|...|
T Consensus       124 ~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~~Wda~l~~~Rakc~i~~~  203 (504)
T KOG0624|consen  124 QAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQPWDASLRQARAKCYIAEG  203 (504)
T ss_pred             HHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcCcchhHHHHHHHHHHHhcC
Confidence            777777776665432111            1  112344455566777777777776654   35566666677777777


Q ss_pred             ChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHH-------------HHH
Q 038303          189 FCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAV-------------INM  255 (461)
Q Consensus       189 ~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l-------------i~~  255 (461)
                      ++..|+.=++...+.  -..+..++-.+-..+...|+.+.+....++..+   +.|+...+...             +..
T Consensus       204 e~k~AI~Dlk~askL--s~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLK---ldpdHK~Cf~~YKklkKv~K~les~e~  278 (504)
T KOG0624|consen  204 EPKKAIHDLKQASKL--SQDNTEGHYKISQLLYTVGDAENSLKEIRECLK---LDPDHKLCFPFYKKLKKVVKSLESAEQ  278 (504)
T ss_pred             cHHHHHHHHHHHHhc--cccchHHHHHHHHHHHhhhhHHHHHHHHHHHHc---cCcchhhHHHHHHHHHHHHHHHHHHHH
Confidence            777777666666553  233444444555555666666666665555543   33443222111             122


Q ss_pred             HHhcCCHHHHHHHHHHccCCCh----h---hHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-HhHHHHHHHHHHcCCC
Q 038303          256 YVKCGDVGIAIQVFNMLAYKDK----I---SWSTVISGLAMNGCGRQALQLFSLMIINAVFPD-DVTFIALISACSHGGL  327 (461)
Q Consensus       256 ~~~~g~~~~a~~~~~~~~~~~~----~---~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~  327 (461)
                      ....+++.++.+..+...+.++    .   .+..+-.++...+++.+|+....+..+  +.|| ..++.--..+|.-...
T Consensus       279 ~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~--~d~~dv~~l~dRAeA~l~dE~  356 (504)
T KOG0624|consen  279 AIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLD--IDPDDVQVLCDRAEAYLGDEM  356 (504)
T ss_pred             HHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHh--cCchHHHHHHHHHHHHhhhHH
Confidence            3345666666666655543221    1   233344555666778888887777776  3454 5677777777777778


Q ss_pred             hHHHHHHHHHhHh
Q 038303          328 VDQGLILFKAMST  340 (461)
Q Consensus       328 ~~~a~~~~~~~~~  340 (461)
                      ++.|+.-|+...+
T Consensus       357 YD~AI~dye~A~e  369 (504)
T KOG0624|consen  357 YDDAIHDYEKALE  369 (504)
T ss_pred             HHHHHHHHHHHHh
Confidence            8888887777766

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.82  E-value=9.7e-06  Score=78.02  Aligned_cols=161  Identities=8%  Similarity=-0.022  Sum_probs=101.1

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHH
Q 038303          276 DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVV  355 (461)
Q Consensus       276 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  355 (461)
                      +..+|+.|.-. ...|++.-|...|-+-.... +....+|..+.-.|....+++.|...|.....  -.+.+...|-...
T Consensus       816 n~~~WnaLGVl-sg~gnva~aQHCfIks~~se-p~~~~~W~NlgvL~l~n~d~E~A~~af~~~qS--LdP~nl~~WlG~A  891 (1238)
T KOG1127|consen  816 NEGLWNALGVL-SGIGNVACAQHCFIKSRFSE-PTCHCQWLNLGVLVLENQDFEHAEPAFSSVQS--LDPLNLVQWLGEA  891 (1238)
T ss_pred             cHHHHHHHHHh-hccchhhhhhhhhhhhhhcc-ccchhheeccceeEEecccHHHhhHHHHhhhh--cCchhhHHHHHHH
Confidence            45556655443 45566666666665554432 22445666666677788889999999987765  3344556665555


Q ss_pred             HHHhhcCCHHHHHHHHHhC-------CCCchhhHHHHHHHHHHhcCChHHHHH----------HHHHHhhcCCCChhHHH
Q 038303          356 DMYGRAGLLEEAEAFIREM-------PIEAEWSVWGALLNACRIHRNDEMFDR----------IRQDLVNKKGVSVGTFA  418 (461)
Q Consensus       356 ~~~~~~g~~~~A~~~~~~~-------~~~p~~~~~~~l~~~~~~~~~~~~a~~----------~~~~~~~~~~~~~~~~~  418 (461)
                      ......|+.-++..+|..-       +.-|+..-|.....-....|+.++-+.          .+++...+.|....+|.
T Consensus       892 li~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs~al~~yf~~~p~~~fAy~  971 (1238)
T KOG1127|consen  892 LIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTARKISSASLALSYYFLGHPQLCFAYA  971 (1238)
T ss_pred             HhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhhhhhhhHHHHHHHHhcCcchhHHHH
Confidence            5556678888888887752       333555444443333445555444433          34444456788888888


Q ss_pred             HHHHHHhccCChhhHHHHHHHH
Q 038303          419 LMSNTFAGADRWEDTNKIRDEI  440 (461)
Q Consensus       419 ~l~~~~~~~g~~~~A~~~~~~m  440 (461)
                      ..+...-+.+.+.+|.+...+.
T Consensus       972 ~~gstlEhL~ey~~a~ela~Rl  993 (1238)
T KOG1127|consen  972 ANGSTLEHLEEYRAALELATRL  993 (1238)
T ss_pred             HHHhHHHHHHHHHHHHHHHHHH
Confidence            8888888888888887776664

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.81  E-value=5.4e-07  Score=76.87  Aligned_cols=183  Identities=8%  Similarity=-0.108  Sum_probs=117.5

Q ss_pred             cchHHHHHHHHHHhcCCHHHHHHHHHHccC--CC-h---hhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH--hHHH
Q 038303          245 SNLVGNAVINMYVKCGDVGIAIQVFNMLAY--KD-K---ISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDD--VTFI  316 (461)
Q Consensus       245 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~--~~-~---~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~--~~~~  316 (461)
                      ....+..+...+...|++++|...|+++..  |+ .   ..+..+..++...|++++|...++++.+.......  .++.
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~  111 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYY  111 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHH
Confidence            344566677777888888888888877663  22 1   35566777788888888888888888774322111  1344


Q ss_pred             HHHHHHHcC--------CChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCchhhHHHHHHH
Q 038303          317 ALISACSHG--------GLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLN  388 (461)
Q Consensus       317 ~ll~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~  388 (461)
                      .+..++...        |+++.|.+.|+.+...  .+-+...+..+...    +......          . .....+..
T Consensus       112 ~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~----~~~~~~~----------~-~~~~~~a~  174 (235)
T TIGR03302       112 LRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRM----DYLRNRL----------A-GKELYVAR  174 (235)
T ss_pred             HHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHH----HHHHHHH----------H-HHHHHHHH
Confidence            444445443        6677777777777661  22222222222111    0000000          0 00123445


Q ss_pred             HHHhcCChHHHHHHHHHHhhcCCC---ChhHHHHHHHHHhccCChhhHHHHHHHHHHcC
Q 038303          389 ACRIHRNDEMFDRIRQDLVNKKGV---SVGTFALMSNTFAGADRWEDTNKIRDEIRRMG  444 (461)
Q Consensus       389 ~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  444 (461)
                      .+.+.|++++|+..++.+.+..|.   .+..+..++.++.+.|++++|..+++.+....
T Consensus       175 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~  233 (235)
T TIGR03302       175 FYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANY  233 (235)
T ss_pred             HHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            588999999999999999986554   46799999999999999999999999887654

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).

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.81  E-value=3.9e-05  Score=74.11  Aligned_cols=314  Identities=10%  Similarity=0.018  Sum_probs=173.8

Q ss_pred             CCceeHHHHHHHHHcCCChHHHHHHHhcCCCCCCchh-----HHHHHHHhcccchhHHHHHHHHHHHhhc----------
Q 038303           74 PDVVSWTTIISGLSKCGFHKEAIDMFCGIDVKPNANT-----LVSVLSACSSLVSHKLGKAIHAHSLRNL----------  138 (461)
Q Consensus        74 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~p~~~~-----~~~ll~~~~~~~~~~~a~~~~~~~~~~~----------  138 (461)
                      .|+..-+.-+.++...+-+.+-++++++.-+.|+.++     -+.++-...+ -+...+.++.+++-.-.          
T Consensus       982 ~dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAik-ad~trVm~YI~rLdnyDa~~ia~iai~ 1060 (1666)
T KOG0985|consen  982 QDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIK-ADRTRVMEYINRLDNYDAPDIAEIAIE 1060 (1666)
T ss_pred             CChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhh-cChHHHHHHHHHhccCCchhHHHHHhh
Confidence            4556667777888888888888888888733333222     2222222211 22233333333332211          


Q ss_pred             -------------CCCChhHHHHHHHHHHHcCChhhHHHHHhcCCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCC
Q 038303          139 -------------NENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKE  205 (461)
Q Consensus       139 -------------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  205 (461)
                                   ...+....+.|+.   .-+.++.|.++-++..+  ...|..+..+-.+.|...+|++-|-+.     
T Consensus      1061 ~~LyEEAF~ifkkf~~n~~A~~VLie---~i~~ldRA~efAe~~n~--p~vWsqlakAQL~~~~v~dAieSyika----- 1130 (1666)
T KOG0985|consen 1061 NQLYEEAFAIFKKFDMNVSAIQVLIE---NIGSLDRAYEFAERCNE--PAVWSQLAKAQLQGGLVKDAIESYIKA----- 1130 (1666)
T ss_pred             hhHHHHHHHHHHHhcccHHHHHHHHH---HhhhHHHHHHHHHhhCC--hHHHHHHHHHHHhcCchHHHHHHHHhc-----
Confidence                         1112222222221   22444444444444443  457899999999999999988877554     


Q ss_pred             CCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCCChhhHHHHHH
Q 038303          206 AEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVIS  285 (461)
Q Consensus       206 ~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~  285 (461)
                        .|+..|..++..+.+.|.+++-.+++....+ ..-+|...  +.||-+|++.+++.+.++++.   -||......+..
T Consensus      1131 --dDps~y~eVi~~a~~~~~~edLv~yL~MaRk-k~~E~~id--~eLi~AyAkt~rl~elE~fi~---gpN~A~i~~vGd 1202 (1666)
T KOG0985|consen 1131 --DDPSNYLEVIDVASRTGKYEDLVKYLLMARK-KVREPYID--SELIFAYAKTNRLTELEEFIA---GPNVANIQQVGD 1202 (1666)
T ss_pred             --CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHH-hhcCccch--HHHHHHHHHhchHHHHHHHhc---CCCchhHHHHhH
Confidence              3566899999999999999999999888877 66677666  789999999999888776643   345555555555


Q ss_pred             HHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHH
Q 038303          286 GLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLE  365 (461)
Q Consensus       286 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  365 (461)
                      -|...|.++.|.-+|..         ...|..|...+...|+++.|...-++.       .+..+|..+-.+|...+.+.
T Consensus      1203 rcf~~~~y~aAkl~y~~---------vSN~a~La~TLV~LgeyQ~AVD~aRKA-------ns~ktWK~VcfaCvd~~EFr 1266 (1666)
T KOG0985|consen 1203 RCFEEKMYEAAKLLYSN---------VSNFAKLASTLVYLGEYQGAVDAARKA-------NSTKTWKEVCFACVDKEEFR 1266 (1666)
T ss_pred             HHhhhhhhHHHHHHHHH---------hhhHHHHHHHHHHHHHHHHHHHHhhhc-------cchhHHHHHHHHHhchhhhh
Confidence            56666666666555542         233444555555555555554433222       23444544444444433332


Q ss_pred             HHHHHHHhCCCC--chhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhc
Q 038303          366 EAEAFIREMPIE--AEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAG  426 (461)
Q Consensus       366 ~A~~~~~~~~~~--p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  426 (461)
                      -|.    ..+..  ....-..-++..|...|-+++.+.+++............|..|+-.|++
T Consensus      1267 lAQ----iCGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LGLERAHMgmfTELaiLYsk 1325 (1666)
T KOG0985|consen 1267 LAQ----ICGLNIIVHADELEELIEYYQDRGYFEELISLLEAGLGLERAHMGMFTELAILYSK 1325 (1666)
T ss_pred             HHH----hcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhchhHHHHHHHHHHHHHHHh
Confidence            221    11111  1222233444555555555555555555544444444444444444443

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.81  E-value=5.8e-06  Score=67.55  Aligned_cols=248  Identities=15%  Similarity=0.075  Sum_probs=144.5

Q ss_pred             HHHcCChhhHHHHHhcCCC--CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHH
Q 038303          153 YIRCGSLASCGYLFVKMPK--RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGK  230 (461)
Q Consensus       153 ~~~~g~~~~a~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~  230 (461)
                      +.-.|.+..++..-.....  .+...--.+-++|...|.+.....   +. +.| -.|....+..+.......++.+.-.
T Consensus        18 ~fY~Gnyq~~ine~~~~~~~~~~~e~d~y~~raylAlg~~~~~~~---eI-~~~-~~~~lqAvr~~a~~~~~e~~~~~~~   92 (299)
T KOG3081|consen   18 YFYLGNYQQCINEAEKFSSSKTDVELDVYMYRAYLALGQYQIVIS---EI-KEG-KATPLQAVRLLAEYLELESNKKSIL   92 (299)
T ss_pred             HHHhhHHHHHHHHHHhhccccchhHHHHHHHHHHHHccccccccc---cc-ccc-cCChHHHHHHHHHHhhCcchhHHHH
Confidence            4445666665554444332  222223333445555555443221   11 112 2233333333333333344433322


Q ss_pred             -HHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCC
Q 038303          231 -YVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVF  309 (461)
Q Consensus       231 -~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~  309 (461)
                       .+.+.+.. .....+......-...|+..|++++|.+.....  .+....-.=+..+.+..+++-|.+.+++|.+-   
T Consensus        93 ~~l~E~~a~-~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~--~~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i---  166 (299)
T KOG3081|consen   93 ASLYELVAD-STDGSNLIDLLLAAIIYMHDGDFDEALKALHLG--ENLEAAALNVQILLKMHRFDLAEKELKKMQQI---  166 (299)
T ss_pred             HHHHHHHHh-hccchhHHHHHHhhHHhhcCCChHHHHHHHhcc--chHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc---
Confidence             22333333 333333333334445677888888888888773  34444444455667788889999999999873   


Q ss_pred             CCHhHHHHHHHHHHc----CCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC--CCCchhhHH
Q 038303          310 PDDVTFIALISACSH----GGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM--PIEAEWSVW  383 (461)
Q Consensus       310 p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~  383 (461)
                      -+..|.+.|..++.+    .+.+..|.-+|++|.+  ..+|++.+.+....++...|++++|..++++.  +...++.+.
T Consensus       167 ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~--k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL  244 (299)
T KOG3081|consen  167 DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSE--KTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETL  244 (299)
T ss_pred             chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhc--ccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHH
Confidence            256777777777654    4668889999999976  57788888888888888899999999998888  333455555


Q ss_pred             HHHHHH-HHhcCChHHHHHHHHHHhhcCCCC
Q 038303          384 GALLNA-CRIHRNDEMFDRIRQDLVNKKGVS  413 (461)
Q Consensus       384 ~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~  413 (461)
                      ..++-. .....+.+.-.+.+.+++...|..
T Consensus       245 ~Nliv~a~~~Gkd~~~~~r~l~QLk~~~p~h  275 (299)
T KOG3081|consen  245 ANLIVLALHLGKDAEVTERNLSQLKLSHPEH  275 (299)
T ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHhcCCcc
Confidence            445444 444445555666666666655544

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.81  E-value=2.3e-07  Score=83.59  Aligned_cols=220  Identities=10%  Similarity=-0.019  Sum_probs=165.1

Q ss_pred             hhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCC---ChhhHHHHHHHHHhcCChHHH
Q 038303          220 CSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYK---DKISWSTVISGLAMNGCGRQA  296 (461)
Q Consensus       220 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a  296 (461)
                      +.+.|++.+|.-.|+...+  .-+-+...|..|.......++-..|+..+.+..+-   |......|.-.|...|.-..|
T Consensus       295 lm~nG~L~~A~LafEAAVk--qdP~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~A  372 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVK--QDPQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQA  372 (579)
T ss_pred             HHhcCCchHHHHHHHHHHh--hChHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHH
Confidence            3456667777777777766  44555667777777777888878888888777643   556667777788888888888


Q ss_pred             HHHHHHHHhcCCC-----C---CHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHH
Q 038303          297 LQLFSLMIINAVF-----P---DDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAE  368 (461)
Q Consensus       297 ~~~~~~m~~~g~~-----p---~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  368 (461)
                      +..++.-+...++     +   +...-..  ..+.....+.+..++|-++....+..+|+.+...|.-.|--.|++++|.
T Consensus       373 l~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdrai  450 (579)
T KOG1125|consen  373 LKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAV  450 (579)
T ss_pred             HHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHH
Confidence            8888887654321     0   0000000  1222233344555666666654666688888999999999999999999


Q ss_pred             HHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHc
Q 038303          369 AFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRM  443 (461)
Q Consensus       369 ~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  443 (461)
                      ..|+.+ ..+| |...||.|...++...+.++|+..|.++++..|.-..+...|+-.|...|.+++|.+.|=.....
T Consensus       451 Dcf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~m  527 (579)
T KOG1125|consen  451 DCFEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSM  527 (579)
T ss_pred             HHHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHh
Confidence            999998 5566 66689999999999999999999999999999999999999999999999999999988776443

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.80  E-value=5.3e-07  Score=81.36  Aligned_cols=216  Identities=11%  Similarity=0.069  Sum_probs=159.2

Q ss_pred             hcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCCC---CchhHHHHHHHHHHhcCChHHHH
Q 038303          118 CSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPK---RNVVSWTTMIGGYAERGFCKEAV  194 (461)
Q Consensus       118 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~  194 (461)
                      +.+.|++.+|.-.|+..++..+. +...|..|.......++-..|+..+.+..+   .+..+.-.|.-+|...|.-..|+
T Consensus       295 lm~nG~L~~A~LafEAAVkqdP~-haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~Al  373 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQDPQ-HAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQAL  373 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhChH-HHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHHH
Confidence            56788899999999999988776 888899999999999988888888888776   45667778888899999999999


Q ss_pred             HHHHHHHhcCCCC--------CChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHH
Q 038303          195 SVFQEMEKTKEAE--------PNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAI  266 (461)
Q Consensus       195 ~~~~~m~~~~~~~--------~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  266 (461)
                      +.++..+... .+        ++..+-..  ........+....++|-++....+..+|+.+...|.-.|--.|++++|.
T Consensus       374 ~~L~~Wi~~~-p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdrai  450 (579)
T KOG1125|consen  374 KMLDKWIRNK-PKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAV  450 (579)
T ss_pred             HHHHHHHHhC-ccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHH
Confidence            9998886532 00        00000000  2233334455566666666665666677778888888888888999999


Q ss_pred             HHHHHccC--C-ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH-hHHHHHHHHHHcCCChHHHHHHHHHhH
Q 038303          267 QVFNMLAY--K-DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDD-VTFIALISACSHGGLVDQGLILFKAMS  339 (461)
Q Consensus       267 ~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~  339 (461)
                      +.|+....  | |...||.|...++...+.++|+..|.+.++  ++|+- .....|.-+|...|.+++|.+.|=...
T Consensus       451 Dcf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALq--LqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL  525 (579)
T KOG1125|consen  451 DCFEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQ--LQPGYVRVRYNLGISCMNLGAYKEAVKHLLEAL  525 (579)
T ss_pred             HHHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHh--cCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHH
Confidence            98888763  4 667888888888888888899999988887  56665 233334456888888888887765543

>PF12854 PPR_1: PPR repeat

Probab=98.79  E-value=8.5e-09  Score=56.74  Aligned_cols=33  Identities=24%  Similarity=0.344  Sum_probs=25.2

Q ss_pred             cCCCChhHHHHHHHHHHHcCChhhHHHHHhcCC
Q 038303          138 LNENNIILDNAILDFYIRCGSLASCGYLFVKMP  170 (461)
Q Consensus       138 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  170 (461)
                      |+.||..+|++||++||+.|++++|.++|++|+
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            667777777777777777777777777777764

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.78  E-value=4.6e-05  Score=78.92  Aligned_cols=324  Identities=9%  Similarity=-0.037  Sum_probs=203.2

Q ss_pred             HHHcCCChHHHHHHHhcC--C-CCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCC------CC--hhHHHHHHHHH
Q 038303           85 GLSKCGFHKEAIDMFCGI--D-VKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNE------NN--IILDNAILDFY  153 (461)
Q Consensus        85 ~~~~~~~~~~a~~~~~~m--~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~------~~--~~~~~~l~~~~  153 (461)
                      .+...|++..+...++.+  . ...+..........+...|+++++...+....+.-..      +.  ......+...+
T Consensus       383 ~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~  462 (903)
T PRK04841        383 SLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVA  462 (903)
T ss_pred             HHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHH
Confidence            445567777777777766  1 1112222233344456778999999888877553111      11  11222334456


Q ss_pred             HHcCChhhHHHHHhcCCC----Cc----hhHHHHHHHHHHhcCChHHHHHHHHHHHhcCC----CCCChhhHHHHHHHhh
Q 038303          154 IRCGSLASCGYLFVKMPK----RN----VVSWTTMIGGYAERGFCKEAVSVFQEMEKTKE----AEPNEATLVNVLSACS  221 (461)
Q Consensus       154 ~~~g~~~~a~~~~~~~~~----~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~----~~~~~~~~~~~l~~~~  221 (461)
                      ...|++++|...+++...    .+    ....+.+...+...|++++|...+.+......    ..+...+...+...+.
T Consensus       463 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~  542 (903)
T PRK04841        463 INDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILF  542 (903)
T ss_pred             HhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHH
Confidence            688999999988877543    22    13455666778889999999999988765320    1111234445566678


Q ss_pred             ccchhhhHHHHHHHHHhh---cCCC--C-cchHHHHHHHHHHhcCCHHHHHHHHHHccC------C--ChhhHHHHHHHH
Q 038303          222 SISALSFGKYVHSYISTR---YDLS--V-SNLVGNAVINMYVKCGDVGIAIQVFNMLAY------K--DKISWSTVISGL  287 (461)
Q Consensus       222 ~~~~~~~a~~~~~~~~~~---~~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~------~--~~~~~~~l~~~~  287 (461)
                      ..|+++.|...++.....   .+..  + ....+..+...+...|++++|...+.+...      +  ....+..+...+
T Consensus       543 ~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~  622 (903)
T PRK04841        543 AQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKIS  622 (903)
T ss_pred             HCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHH
Confidence            899999999988876552   2211  1 123344556677788999999998877642      1  123344566677


Q ss_pred             HhcCChHHHHHHHHHHHhcCCCC-CHhHH-----HHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcc----hHHHHHHH
Q 038303          288 AMNGCGRQALQLFSLMIINAVFP-DDVTF-----IALISACSHGGLVDQGLILFKAMSTVYEIVPQMQ----HYACVVDM  357 (461)
Q Consensus       288 ~~~~~~~~a~~~~~~m~~~g~~p-~~~~~-----~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----~~~~l~~~  357 (461)
                      ...|++++|...+++........ ....+     ...+..+...|+.+.|...+..... ... ....    .+..+..+
T Consensus       623 ~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~-~~~-~~~~~~~~~~~~~a~~  700 (903)
T PRK04841        623 LARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPK-PEF-ANNHFLQGQWRNIARA  700 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCC-CCC-ccchhHHHHHHHHHHH
Confidence            88999999999998875421111 11111     1122344558999999999877654 111 1111    13456778


Q ss_pred             HhhcCCHHHHHHHHHhC-------CCCch-hhHHHHHHHHHHhcCChHHHHHHHHHHhhcC
Q 038303          358 YGRAGLLEEAEAFIREM-------PIEAE-WSVWGALLNACRIHRNDEMFDRIRQDLVNKK  410 (461)
Q Consensus       358 ~~~~g~~~~A~~~~~~~-------~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  410 (461)
                      +...|++++|...+++.       +..++ ..+...+..++...|+.++|...+.++.+..
T Consensus       701 ~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        701 QILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKLA  761 (903)
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            88999999999998877       22221 2244445556889999999999999999854

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.72  E-value=2.1e-05  Score=75.88  Aligned_cols=395  Identities=10%  Similarity=-0.030  Sum_probs=204.7

Q ss_pred             HHHHHHHHHHHHHhCCCcc-HHHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCceeHHHHHHHHHcCCChHHHHHHHhc
Q 038303           26 HQKALEIHAHVIEYGHLHD-IFIQNSLLHFYVTVKDIFSAHQIFNSVVF---PDVVSWTTIISGLSKCGFHKEAIDMFCG  101 (461)
Q Consensus        26 ~~~a~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~  101 (461)
                      ...|...|-...+..  |+ ...|..|-..|+..-+...|.+.|++...   .+...+......|++..+++.|..+.-.
T Consensus       474 ~~~al~ali~alrld--~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~l~  551 (1238)
T KOG1127|consen  474 SALALHALIRALRLD--VSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEICLR  551 (1238)
T ss_pred             HHHHHHHHHHHHhcc--cchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHHHH
Confidence            444444444443322  22 33566677777766677777777777633   3455667777888888888888777433


Q ss_pred             C-CCCC-Cchh--HHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCCCCchh-H
Q 038303          102 I-DVKP-NANT--LVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVV-S  176 (461)
Q Consensus       102 m-~~~p-~~~~--~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~  176 (461)
                      . ...| -...  |..+.-.+.+.++...+..-|+...+..+. |...|..+..+|.++|++..|.++|.+...-++. .
T Consensus       552 ~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dPk-D~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~  630 (1238)
T KOG1127|consen  552 AAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDPK-DYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLSK  630 (1238)
T ss_pred             HhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCch-hHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHhH
Confidence            3 1111 1111  222223356677777777777777776655 7777888888888888888888888777652222 2


Q ss_pred             HHH--HHHHHHhcCChHHHHHHHHHHHhcCC-----CCCChhhHHHHHHHhhccchhhhHHHHHHHHHhh------cCCC
Q 038303          177 WTT--MIGGYAERGFCKEAVSVFQEMEKTKE-----AEPNEATLVNVLSACSSISALSFGKYVHSYISTR------YDLS  243 (461)
Q Consensus       177 ~~~--li~~~~~~~~~~~a~~~~~~m~~~~~-----~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~------~~~~  243 (461)
                      |..  ..-..+..|.+.+|+..+........     ..--..++..+...+...|-...+..+++...+.      ....
T Consensus       631 y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~  710 (1238)
T KOG1127|consen  631 YGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQ  710 (1238)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhh
Confidence            222  12234567778888877777654210     1111222222222233333333333333332220      0001


Q ss_pred             CcchHHHHHHHHHHhcCCHHHHHHHHHHccCCChh--hHHHHHHH-HHhcCCh---H---HHHHHHHHHHhcCCCCCHhH
Q 038303          244 VSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKI--SWSTVISG-LAMNGCG---R---QALQLFSLMIINAVFPDDVT  314 (461)
Q Consensus       244 ~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~l~~~-~~~~~~~---~---~a~~~~~~m~~~g~~p~~~~  314 (461)
                      .+...|..          ..+|..+|-... |+.+  .+..++.. +-..+..   |   -+.+.+-.-.+  ...+..+
T Consensus       711 ~~~~~Wi~----------asdac~~f~q~e-~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hls--l~~~~~~  777 (1238)
T KOG1127|consen  711 SDRLQWIV----------ASDACYIFSQEE-PSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLS--LAIHMYP  777 (1238)
T ss_pred             hhHHHHHH----------HhHHHHHHHHhc-ccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHH--Hhhccch
Confidence            11111111          112222332222 2211  11111111 1111111   1   01111111111  1112333


Q ss_pred             HHHHHHHHHc--------CCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC--CCCchhhHHH
Q 038303          315 FIALISACSH--------GGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM--PIEAEWSVWG  384 (461)
Q Consensus       315 ~~~ll~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~  384 (461)
                      |..+...|.+        ..+...|+..+....+  -..-+..+|+.|.-. ...|.+.-|..-|-+.  ..+....+|.
T Consensus       778 WyNLGinylr~f~~l~et~~~~~~Ai~c~KkaV~--L~ann~~~WnaLGVl-sg~gnva~aQHCfIks~~sep~~~~~W~  854 (1238)
T KOG1127|consen  778 WYNLGINYLRYFLLLGETMKDACTAIRCCKKAVS--LCANNEGLWNALGVL-SGIGNVACAQHCFIKSRFSEPTCHCQWL  854 (1238)
T ss_pred             HHHHhHHHHHHHHHcCCcchhHHHHHHHHHHHHH--HhhccHHHHHHHHHh-hccchhhhhhhhhhhhhhccccchhhee
Confidence            3333333222        2233466677766655  222345555555443 5566777776666544  3333455676


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHH
Q 038303          385 ALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDE  439 (461)
Q Consensus       385 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  439 (461)
                      .+.-.+.+..+++.|...|.+.....|.+...|..........|+.-++..+|..
T Consensus       855 NlgvL~l~n~d~E~A~~af~~~qSLdP~nl~~WlG~Ali~eavG~ii~~~~lfaH  909 (1238)
T KOG1127|consen  855 NLGVLVLENQDFEHAEPAFSSVQSLDPLNLVQWLGEALIPEAVGRIIERLILFAH  909 (1238)
T ss_pred             ccceeEEecccHHHhhHHHHhhhhcCchhhHHHHHHHHhHHHHHHHHHHHHHHHh
Confidence            6666678888888888888888888888888888777777777877777777755

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.70  E-value=1.8e-06  Score=70.62  Aligned_cols=118  Identities=8%  Similarity=0.062  Sum_probs=58.3

Q ss_pred             CCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHH-HHhcCC--hHHH
Q 038303          325 GGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNA-CRIHRN--DEMF  399 (461)
Q Consensus       325 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~-~~~~~~--~~~a  399 (461)
                      .++.+++...++...+  .-+.+...|..+...|...|++++|...+++. ...| +...+..+..+ +...|+  .++|
T Consensus        52 ~~~~~~~i~~l~~~L~--~~P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         52 QQTPEAQLQALQDKIR--ANPQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHH
Confidence            3344444444444443  22344455555555555555555555555554 2223 22333333333 234344  3555


Q ss_pred             HHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcC
Q 038303          400 DRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMG  444 (461)
Q Consensus       400 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  444 (461)
                      .++++++.+..|.++.++..++..+.+.|++++|...|+++.+..
T Consensus       130 ~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~  174 (198)
T PRK10370        130 REMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKVLDLN  174 (198)
T ss_pred             HHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            555555555555555555555555555555555555555554443

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.69  E-value=6.6e-06  Score=81.82  Aligned_cols=226  Identities=12%  Similarity=0.044  Sum_probs=158.2

Q ss_pred             CchhHHHHHHHhcccchhHHHHHHHHHHHhhc-CC---CChhHHHHHHHHHHHcCChhhHHHHHhcCCC--CchhHHHHH
Q 038303          107 NANTLVSVLSACSSLVSHKLGKAIHAHSLRNL-NE---NNIILDNAILDFYIRCGSLASCGYLFVKMPK--RNVVSWTTM  180 (461)
Q Consensus       107 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~---~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~l  180 (461)
                      +...|-..|......++.++|.++.++++..- +.   --..+|.++++.-..-|.-+...++|++..+  .....|..|
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            34556667777778888888888888877641 11   1345677777777777777788888888776  234567788


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcC
Q 038303          181 IGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCG  260 (461)
Q Consensus       181 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  260 (461)
                      ...|.+.+..++|.++|+.|.+.  +......|...+..+.+.++-+.|..++....+...-.-........+..-.+.|
T Consensus      1537 ~~iy~k~ek~~~A~ell~~m~KK--F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~G 1614 (1710)
T KOG1070|consen 1537 LGIYEKSEKNDEADELLRLMLKK--FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKYG 1614 (1710)
T ss_pred             HHHHHHhhcchhHHHHHHHHHHH--hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhcC
Confidence            88888888888888888888876  5666777777788888888888888888877662222223445566666677788


Q ss_pred             CHHHHHHHHHHccCC---ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH--hHHHHHHHHHHcCCChHHHHHH
Q 038303          261 DVGIAIQVFNMLAYK---DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDD--VTFIALISACSHGGLVDQGLIL  334 (461)
Q Consensus       261 ~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~--~~~~~ll~~~~~~~~~~~a~~~  334 (461)
                      +.+.+..+|+.....   -...|+..+..-.++|+.+.+..+|++....++.|-.  ..|...+..=-+.|+-..++.+
T Consensus      1615 DaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~vE~V 1693 (1710)
T KOG1070|consen 1615 DAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNVEYV 1693 (1710)
T ss_pred             CchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhHHHH
Confidence            888888888777633   4567888888888888888888888888887776654  4455555544445555444443

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.62  E-value=1.2e-05  Score=74.87  Aligned_cols=212  Identities=14%  Similarity=0.108  Sum_probs=177.0

Q ss_pred             hhHHHHHHHHHHHcCChhhHHHHHhcCCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhc
Q 038303          143 IILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSS  222 (461)
Q Consensus       143 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~  222 (461)
                      ...-..+...+...|-..+|..+|++..     .|.-+|.+|+..|+..+|..+..+-.+   -+||+.-|..+.+....
T Consensus       398 Wq~q~~laell~slGitksAl~I~Erle-----mw~~vi~CY~~lg~~~kaeei~~q~le---k~~d~~lyc~LGDv~~d  469 (777)
T KOG1128|consen  398 WQLQRLLAELLLSLGITKSALVIFERLE-----MWDPVILCYLLLGQHGKAEEINRQELE---KDPDPRLYCLLGDVLHD  469 (777)
T ss_pred             chHHHHHHHHHHHcchHHHHHHHHHhHH-----HHHHHHHHHHHhcccchHHHHHHHHhc---CCCcchhHHHhhhhccC
Confidence            3344667888899999999999999874     688889999999999999999998877   67999999999999998


Q ss_pred             cchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCC---ChhhHHHHHHHHHhcCChHHHHHH
Q 038303          223 ISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYK---DKISWSTVISGLAMNGCGRQALQL  299 (461)
Q Consensus       223 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~  299 (461)
                      ..-+++|.++.+....+        .-..+.....+.++++++.+.|+.-.+-   -..+|-....+..+.+++..|.+.
T Consensus       470 ~s~yEkawElsn~~sar--------A~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~av~a  541 (777)
T KOG1128|consen  470 PSLYEKAWELSNYISAR--------AQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQAAVKA  541 (777)
T ss_pred             hHHHHHHHHHhhhhhHH--------HHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHHHHHH
Confidence            88899999998887652        1122222334578999999999876543   456888888888899999999999


Q ss_pred             HHHHHhcCCCCCH-hHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC
Q 038303          300 FSLMIINAVFPDD-VTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM  374 (461)
Q Consensus       300 ~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  374 (461)
                      |..-..  ..||. ..|+.+-.+|.+.++-.+|...+.+..+ .+ ..+...|...+-...+.|.+++|.+.+.++
T Consensus       542 F~rcvt--L~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlK-cn-~~~w~iWENymlvsvdvge~eda~~A~~rl  613 (777)
T KOG1128|consen  542 FHRCVT--LEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALK-CN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRL  613 (777)
T ss_pred             HHHHhh--cCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhh-cC-CCCCeeeechhhhhhhcccHHHHHHHHHHH
Confidence            999887  45665 7899999999999999999999999988 66 666777888888889999999999999888

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.62  E-value=2.6e-06  Score=79.16  Aligned_cols=220  Identities=10%  Similarity=-0.040  Sum_probs=161.9

Q ss_pred             CCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHcc--CCChhhHHHHH
Q 038303          207 EPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLA--YKDKISWSTVI  284 (461)
Q Consensus       207 ~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~--~~~~~~~~~l~  284 (461)
                      +|-...-..+...+.+.|-...|..+++.+..          +..++.+|...|+..+|..+..+-.  .|+...|..+.
T Consensus       395 pp~Wq~q~~laell~slGitksAl~I~Erlem----------w~~vi~CY~~lg~~~kaeei~~q~lek~~d~~lyc~LG  464 (777)
T KOG1128|consen  395 PPIWQLQRLLAELLLSLGITKSALVIFERLEM----------WDPVILCYLLLGQHGKAEEINRQELEKDPDPRLYCLLG  464 (777)
T ss_pred             CCcchHHHHHHHHHHHcchHHHHHHHHHhHHH----------HHHHHHHHHHhcccchHHHHHHHHhcCCCcchhHHHhh
Confidence            33333444555666777777777777776643          4667888888888888888775544  35677788877


Q ss_pred             HHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCH
Q 038303          285 SGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLL  364 (461)
Q Consensus       285 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  364 (461)
                      +......-+++|.++.+..-..       .-..+.....+.++++++.+.|+.-.+  --+....+|-.+.-+..+.+++
T Consensus       465 Dv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~--~nplq~~~wf~~G~~ALqlek~  535 (777)
T KOG1128|consen  465 DVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLE--INPLQLGTWFGLGCAALQLEKE  535 (777)
T ss_pred             hhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhh--cCccchhHHHhccHHHHHHhhh
Confidence            7777666777777777654322       112222223447888888888877766  2234566777788888899999


Q ss_pred             HHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHH
Q 038303          365 EEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRR  442 (461)
Q Consensus       365 ~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  442 (461)
                      +.|.+.|... ...| +...||.+-.+|.+.++-.+|...++++.+-+..+...|.+..-...+.|.+++|.+.+.++.+
T Consensus       536 q~av~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w~iWENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  536 QAAVKAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHWQIWENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             HHHHHHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCCeeeechhhhhhhcccHHHHHHHHHHHHH
Confidence            9999999887 4555 4558999999999999999999999999987777788888888888999999999999999866


Q ss_pred             cCC
Q 038303          443 MGL  445 (461)
Q Consensus       443 ~g~  445 (461)
                      ...
T Consensus       616 ~~~  618 (777)
T KOG1128|consen  616 LRK  618 (777)
T ss_pred             hhh
Confidence            543

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.60  E-value=1.2e-05  Score=65.70  Aligned_cols=156  Identities=10%  Similarity=0.061  Sum_probs=115.3

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhh
Q 038303          281 STVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGR  360 (461)
Q Consensus       281 ~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  360 (461)
                      ..+-..+...|+-+....+........ .-|.......+....+.|++..|...+++...  .-++|...|+.+.-+|-+
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~--l~p~d~~~~~~lgaaldq  146 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAAR--LAPTDWEAWNLLGAALDQ  146 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhc--cCCCChhhhhHHHHHHHH
Confidence            445556666777777777766654421 22334455577777888888888888888876  667788888888888888


Q ss_pred             cCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHH
Q 038303          361 AGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRD  438 (461)
Q Consensus       361 ~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  438 (461)
                      .|+.++|..-|.+. ...| ++...+.+...+.-.|+.+.|..++.......+.+..+-..+..+....|++++|..+..
T Consensus       147 ~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A~~i~~  226 (257)
T COG5010         147 LGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREAEDIAV  226 (257)
T ss_pred             ccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHHHhhcc
Confidence            88888888888777 3333 444567777778888888888888888887777788888888888888888888887664


Q ss_pred             H
Q 038303          439 E  439 (461)
Q Consensus       439 ~  439 (461)
                      .
T Consensus       227 ~  227 (257)
T COG5010         227 Q  227 (257)
T ss_pred             c
Confidence            3

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.59  E-value=1.8e-05  Score=77.01  Aligned_cols=141  Identities=11%  Similarity=0.055  Sum_probs=97.9

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH-hHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHH
Q 038303          276 DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDD-VTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACV  354 (461)
Q Consensus       276 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  354 (461)
                      +...+..|.....+.|++++|..+++...+  +.|+. .....+...+.+.+++++|....+....  .-+-+......+
T Consensus        85 ~~~~~~~La~i~~~~g~~~ea~~~l~~~~~--~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~--~~p~~~~~~~~~  160 (694)
T PRK15179         85 TELFQVLVARALEAAHRSDEGLAVWRGIHQ--RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFS--GGSSSAREILLE  160 (694)
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHHh--hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhh--cCCCCHHHHHHH
Confidence            466677777777778888888888887777  45555 4555666677778888888887777766  334445566667


Q ss_pred             HHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHH
Q 038303          355 VDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALM  420 (461)
Q Consensus       355 ~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l  420 (461)
                      ..++.+.|++++|..+|++. ...| +...+..+..++...|+.++|...|+++.+...+....|+.+
T Consensus       161 a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~~~~~~  228 (694)
T PRK15179        161 AKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGARKLTRR  228 (694)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchHHHHHH
Confidence            77777788888888888877 2223 355667777777778888888888888877655554555443

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.59  E-value=1.6e-06  Score=66.99  Aligned_cols=108  Identities=9%  Similarity=-0.084  Sum_probs=62.2

Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHh
Q 038303          315 FIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRI  392 (461)
Q Consensus       315 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~  392 (461)
                      +..+...+...|++++|...|+....  --+.+...|..+..++.+.|++++|...|++. ...| +...+..+..++..
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~--~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~~  104 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVM--AQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTGVCLKM  104 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH--cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHH
Confidence            33445555666666666666666654  22334555566666666666666666666665 2222 44455555555666


Q ss_pred             cCChHHHHHHHHHHhhcCCCChhHHHHHHHHH
Q 038303          393 HRNDEMFDRIRQDLVNKKGVSVGTFALMSNTF  424 (461)
Q Consensus       393 ~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  424 (461)
                      .|+.++|+..++..++..|.++..+.....+.
T Consensus       105 ~g~~~eAi~~~~~Al~~~p~~~~~~~~~~~~~  136 (144)
T PRK15359        105 MGEPGLAREAFQTAIKMSYADASWSEIRQNAQ  136 (144)
T ss_pred             cCCHHHHHHHHHHHHHhCCCChHHHHHHHHHH
Confidence            66666666666666666666665555544443

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.59  E-value=1.1e-05  Score=68.91  Aligned_cols=183  Identities=13%  Similarity=0.044  Sum_probs=120.8

Q ss_pred             CChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCc-chHHHHHHHHHHhcCCHHHHHHHHHHccC--CC-hh---hH
Q 038303          208 PNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVS-NLVGNAVINMYVKCGDVGIAIQVFNMLAY--KD-KI---SW  280 (461)
Q Consensus       208 ~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~--~~-~~---~~  280 (461)
                      .....+......+...|+++.|...++.+.+.....|. ...+..+..++.+.|++++|...++.+.+  |+ ..   .+
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            34556777778889999999999999999773332222 24667788999999999999999999874  32 22   34


Q ss_pred             HHHHHHHHhc--------CChHHHHHHHHHHHhcCCCCCHh-HHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchH
Q 038303          281 STVISGLAMN--------GCGRQALQLFSLMIINAVFPDDV-TFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHY  351 (461)
Q Consensus       281 ~~l~~~~~~~--------~~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  351 (461)
                      ..+..++...        |++++|.+.++++.+.  .|+.. ....+... ..         .......         ..
T Consensus       111 ~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~-~~---------~~~~~~~---------~~  169 (235)
T TIGR03302       111 YLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRM-DY---------LRNRLAG---------KE  169 (235)
T ss_pred             HHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHH-HH---------HHHHHHH---------HH
Confidence            5555555544        7789999999999875  34432 22222111 00         0000000         11


Q ss_pred             HHHHHHHhhcCCHHHHHHHHHhC-CC---Cc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCC
Q 038303          352 ACVVDMYGRAGLLEEAEAFIREM-PI---EA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKG  411 (461)
Q Consensus       352 ~~l~~~~~~~g~~~~A~~~~~~~-~~---~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  411 (461)
                      ..+...+.+.|++++|...+++. ..   .| ....+..+..++...|++++|...++.+....|
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            24556678888888888888877 22   22 234677777778888888888888877765443

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).

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.58  E-value=2.8e-06  Score=65.66  Aligned_cols=93  Identities=6%  Similarity=-0.121  Sum_probs=61.7

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccC
Q 038303          351 YACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGAD  428 (461)
Q Consensus       351 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  428 (461)
                      +..+...+...|++++|...|+.. ...| +...+..+..++...|++++|...|+++.+..|.++.++..++.++.+.|
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~~~g  106 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTGVCLKMMG  106 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHcC
Confidence            444556666677777777777766 3333 44455566666777777777777777777777777777777777777777


Q ss_pred             ChhhHHHHHHHHHHc
Q 038303          429 RWEDTNKIRDEIRRM  443 (461)
Q Consensus       429 ~~~~A~~~~~~m~~~  443 (461)
                      ++++|...+++..+.
T Consensus       107 ~~~eAi~~~~~Al~~  121 (144)
T PRK15359        107 EPGLAREAFQTAIKM  121 (144)
T ss_pred             CHHHHHHHHHHHHHh
Confidence            777777777776554

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.57  E-value=0.00046  Score=62.53  Aligned_cols=127  Identities=9%  Similarity=-0.017  Sum_probs=72.3

Q ss_pred             HHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCC-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCchhhH-HHHHHHHH
Q 038303          314 TFIALISACSHGGLVDQGLILFKAMSTVYEIVP-QMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAEWSV-WGALLNAC  390 (461)
Q Consensus       314 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~-~~~l~~~~  390 (461)
                      +|..+++.-.+..-+..|..+|.+..++ +..+ ++.++++++.-|| .++.+-|.++|+-- ..-+|... ....+.-+
T Consensus       368 v~~~~mn~irR~eGlkaaR~iF~kaR~~-~r~~hhVfVa~A~mEy~c-skD~~~AfrIFeLGLkkf~d~p~yv~~YldfL  445 (656)
T KOG1914|consen  368 VYCQYMNFIRRAEGLKAARKIFKKARED-KRTRHHVFVAAALMEYYC-SKDKETAFRIFELGLKKFGDSPEYVLKYLDFL  445 (656)
T ss_pred             ehhHHHHHHHHhhhHHHHHHHHHHHhhc-cCCcchhhHHHHHHHHHh-cCChhHHHHHHHHHHHhcCCChHHHHHHHHHH
Confidence            4555555555666666666666666663 3333 5566666666554 35666666666654 22233332 23344445


Q ss_pred             HhcCChHHHHHHHHHHhhc-CCC--ChhHHHHHHHHHhccCChhhHHHHHHHHHH
Q 038303          391 RIHRNDEMFDRIRQDLVNK-KGV--SVGTFALMSNTFAGADRWEDTNKIRDEIRR  442 (461)
Q Consensus       391 ~~~~~~~~a~~~~~~~~~~-~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  442 (461)
                      ...++-+.+..+|+++... .++  ....|..++.--..-|+...+.++-+++..
T Consensus       446 ~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~  500 (656)
T KOG1914|consen  446 SHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFT  500 (656)
T ss_pred             HHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            5666666666666666654 222  235666666666666666666666666544

>PLN02789 farnesyltranstransferase

Probab=98.55  E-value=7.4e-05  Score=65.86  Aligned_cols=224  Identities=11%  Similarity=0.043  Sum_probs=120.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhh-HHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHH
Q 038303          176 SWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEAT-LVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVIN  254 (461)
Q Consensus       176 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~-~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  254 (461)
                      ++..+-..+...++.++|+.++.++++   ..|+..| |..--..+...+.                             
T Consensus        39 a~~~~ra~l~~~e~serAL~lt~~aI~---lnP~~ytaW~~R~~iL~~L~~-----------------------------   86 (320)
T PLN02789         39 AMDYFRAVYASDERSPRALDLTADVIR---LNPGNYTVWHFRRLCLEALDA-----------------------------   86 (320)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHH---HCchhHHHHHHHHHHHHHcch-----------------------------
Confidence            455555666667778888888888777   4444432 2222222222221                             


Q ss_pred             HHHhcCCHHHHHHHHHHccCC---ChhhHHHHHHHHHhcCCh--HHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChH
Q 038303          255 MYVKCGDVGIAIQVFNMLAYK---DKISWSTVISGLAMNGCG--RQALQLFSLMIINAVFPDDVTFIALISACSHGGLVD  329 (461)
Q Consensus       255 ~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~--~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~  329 (461)
                            ++++++..++++.+.   +..+|+.....+.+.|+.  ++++.+++++.+...+ +..+|......+...|+++
T Consensus        87 ------~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~~el~~~~kal~~dpk-Ny~AW~~R~w~l~~l~~~~  159 (320)
T PLN02789         87 ------DLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAANKELEFTRKILSLDAK-NYHAWSHRQWVLRTLGGWE  159 (320)
T ss_pred             ------hHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHhhhHH
Confidence                  345555555544422   223344333333333332  4455566566554322 4455555555555666666


Q ss_pred             HHHHHHHHhHhhcCCCCCcchHHHHHHHHhhc---CCH----HHHHHHHHhC-CCCc-hhhHHHHHHHHHHhc----CCh
Q 038303          330 QGLILFKAMSTVYEIVPQMQHYACVVDMYGRA---GLL----EEAEAFIREM-PIEA-EWSVWGALLNACRIH----RND  396 (461)
Q Consensus       330 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~----~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~----~~~  396 (461)
                      ++++.++++.+ .. +.+...|+.....+.+.   |+.    +++..+..++ ...| +...|+.+...+...    +..
T Consensus       160 eeL~~~~~~I~-~d-~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~  237 (320)
T PLN02789        160 DELEYCHQLLE-ED-VRNNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAILANPRNESPWRYLRGLFKDDKEALVSD  237 (320)
T ss_pred             HHHHHHHHHHH-HC-CCchhHHHHHHHHHHhccccccccccHHHHHHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccc
Confidence            66666666655 11 23333444333333332   222    3455555343 3333 455666666666552    344


Q ss_pred             HHHHHHHHHHhhcCCCChhHHHHHHHHHhccC------------------ChhhHHHHHHHH
Q 038303          397 EMFDRIRQDLVNKKGVSVGTFALMSNTFAGAD------------------RWEDTNKIRDEI  440 (461)
Q Consensus       397 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g------------------~~~~A~~~~~~m  440 (461)
                      .+|.+.+.++.+..+.++.+...|+..|+...                  ..++|.++++.+
T Consensus       238 ~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~l  299 (320)
T PLN02789        238 PEVSSVCLEVLSKDSNHVFALSDLLDLLCEGLQPTAEFRDTVDTLAEELSDSTLAQAVCSEL  299 (320)
T ss_pred             hhHHHHHHHhhcccCCcHHHHHHHHHHHHhhhccchhhhhhhhccccccccHHHHHHHHHHH
Confidence            56777787777777888888888888887632                  346788888888

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.55  E-value=1.4e-05  Score=65.45  Aligned_cols=155  Identities=13%  Similarity=0.079  Sum_probs=113.4

Q ss_pred             HHHHHhcCCHHHHHHHHHHccCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHH
Q 038303          253 INMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGL  332 (461)
Q Consensus       253 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~  332 (461)
                      +..|...|+++.+....+.+..+.        ..+...++.+++...++...+.. +.+...|..+...|...|+++.|.
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~~~--------~~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~   93 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLADPL--------HQFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNAL   93 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhCcc--------ccccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            456788888888766654443321        01223567778888888877754 336688888888999999999999


Q ss_pred             HHHHHhHhhcCCCCCcchHHHHHHHH-hhcCC--HHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHh
Q 038303          333 ILFKAMSTVYEIVPQMQHYACVVDMY-GRAGL--LEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLV  407 (461)
Q Consensus       333 ~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~--~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  407 (461)
                      ..|++..+  -.+.+...+..+..++ ...|+  .++|.+++++. ...| +...+..+...+...|++++|+..|+++.
T Consensus        94 ~a~~~Al~--l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL  171 (198)
T PRK10370         94 LAYRQALQ--LRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKVL  171 (198)
T ss_pred             HHHHHHHH--hCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            99998877  2344677777777764 67677  58999999988 4445 45566667777899999999999999999


Q ss_pred             hcCCCChhHHH
Q 038303          408 NKKGVSVGTFA  418 (461)
Q Consensus       408 ~~~~~~~~~~~  418 (461)
                      +..|++..-+.
T Consensus       172 ~l~~~~~~r~~  182 (198)
T PRK10370        172 DLNSPRVNRTQ  182 (198)
T ss_pred             hhCCCCccHHH
Confidence            98877765543

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.54  E-value=1.7e-05  Score=77.17  Aligned_cols=133  Identities=9%  Similarity=0.004  Sum_probs=115.1

Q ss_pred             CCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCC-cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCchhh-HHH
Q 038303          308 VFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQ-MQHYACVVDMYGRAGLLEEAEAFIREM-PIEAEWS-VWG  384 (461)
Q Consensus       308 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~-~~~  384 (461)
                      ...+...+..|.....+.|.+++|+.+++...+   +.|+ ......++..+.+.+++++|+..+++. ...|+.. ...
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~---~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~~~~~~~  158 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQ---RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSSSAREIL  158 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHh---hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCCCHHHHH
Confidence            445688899999999999999999999999987   4455 566677888999999999999999998 5566555 445


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHc
Q 038303          385 ALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRM  443 (461)
Q Consensus       385 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  443 (461)
                      .+..++...|++++|..+|+++....|.+..++..++.++...|+.++|...|++..+.
T Consensus       159 ~~a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~  217 (694)
T PRK15179        159 LEAKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDA  217 (694)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            55666899999999999999999988999999999999999999999999999998654

>PLN02789 farnesyltranstransferase

Probab=98.51  E-value=0.0003  Score=62.11  Aligned_cols=208  Identities=10%  Similarity=0.011  Sum_probs=106.1

Q ss_pred             HHHHHHHHHHHcCChhhHHHHHhcCCC--C-chhHHHHHHHHHHhcC-ChHHHHHHHHHHHhcCCCCCChhhHHHHHHHh
Q 038303          145 LDNAILDFYIRCGSLASCGYLFVKMPK--R-NVVSWTTMIGGYAERG-FCKEAVSVFQEMEKTKEAEPNEATLVNVLSAC  220 (461)
Q Consensus       145 ~~~~l~~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~  220 (461)
                      ++..+-..+...++.++|+.+.+++.+  | +..+|+....++...| ++++++..++++.+.  .+.+..+|...-..+
T Consensus        39 a~~~~ra~l~~~e~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~--npknyqaW~~R~~~l  116 (320)
T PLN02789         39 AMDYFRAVYASDERSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAED--NPKNYQIWHHRRWLA  116 (320)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHH--CCcchHHhHHHHHHH
Confidence            344455566677899999999999876  3 3445666666666777 679999999999885  233333443322222


Q ss_pred             hccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccC---CChhhHHHHHHHHHhcCChHHHH
Q 038303          221 SSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAY---KDKISWSTVISGLAMNGCGRQAL  297 (461)
Q Consensus       221 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~  297 (461)
                      .+.+..                                  ..+++..+++.+.+   .|..+|+....++...|++++++
T Consensus       117 ~~l~~~----------------------------------~~~~el~~~~kal~~dpkNy~AW~~R~w~l~~l~~~~eeL  162 (320)
T PLN02789        117 EKLGPD----------------------------------AANKELEFTRKILSLDAKNYHAWSHRQWVLRTLGGWEDEL  162 (320)
T ss_pred             HHcCch----------------------------------hhHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhhhHHHHH
Confidence            222221                                  01233444444332   23445555555555555566666


Q ss_pred             HHHHHHHhcCCCCCHhHHHHHHHHHHcC---CCh----HHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhc----CCHHH
Q 038303          298 QLFSLMIINAVFPDDVTFIALISACSHG---GLV----DQGLILFKAMSTVYEIVPQMQHYACVVDMYGRA----GLLEE  366 (461)
Q Consensus       298 ~~~~~m~~~g~~p~~~~~~~ll~~~~~~---~~~----~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----g~~~~  366 (461)
                      +.++++++.++. +...|+.....+.+.   |..    ++.+.+...+..  ..+-+...|+.+...+...    ++..+
T Consensus       163 ~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~--~~P~N~SaW~Yl~~ll~~~~~~l~~~~~  239 (320)
T PLN02789        163 EYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAIL--ANPRNESPWRYLRGLFKDDKEALVSDPE  239 (320)
T ss_pred             HHHHHHHHHCCC-chhHHHHHHHHHHhccccccccccHHHHHHHHHHHHH--hCCCCcCHHHHHHHHHhcCCcccccchh
Confidence            666666554433 334444443333322   111    234444434433  2233445555555555442    23344


Q ss_pred             HHHHHHhC-CCCc-hhhHHHHHHHHHH
Q 038303          367 AEAFIREM-PIEA-EWSVWGALLNACR  391 (461)
Q Consensus       367 A~~~~~~~-~~~p-~~~~~~~l~~~~~  391 (461)
                      |.+.+.+. ...| +......|+..|+
T Consensus       240 ~~~~~~~~~~~~~~s~~al~~l~d~~~  266 (320)
T PLN02789        240 VSSVCLEVLSKDSNHVFALSDLLDLLC  266 (320)
T ss_pred             HHHHHHHhhcccCCcHHHHHHHHHHHH
Confidence            55555554 2222 3334444555544

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.47  E-value=0.00011  Score=60.44  Aligned_cols=216  Identities=8%  Similarity=0.004  Sum_probs=139.9

Q ss_pred             HHHHHHHHcCChhhHHHHHhcCCCCchhHHHHHHHHHHhcCChHHHHH-HHHHHHhcCCCCCChhhHHHHHHHhhccchh
Q 038303          148 AILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYAERGFCKEAVS-VFQEMEKTKEAEPNEATLVNVLSACSSISAL  226 (461)
Q Consensus       148 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~-~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~  226 (461)
                      -+.++|...|++.....-...-..+.......+......-++.++-+. +.+.+.... ...+......-...|+..+++
T Consensus        46 y~~raylAlg~~~~~~~eI~~~~~~~lqAvr~~a~~~~~e~~~~~~~~~l~E~~a~~~-~~sn~i~~l~aa~i~~~~~~~  124 (299)
T KOG3081|consen   46 YMYRAYLALGQYQIVISEIKEGKATPLQAVRLLAEYLELESNKKSILASLYELVADST-DGSNLIDLLLAAIIYMHDGDF  124 (299)
T ss_pred             HHHHHHHHcccccccccccccccCChHHHHHHHHHHhhCcchhHHHHHHHHHHHHhhc-cchhHHHHHHhhHHhhcCCCh
Confidence            345566666766544433333333444444444443433444444333 344444432 344434444445568888999


Q ss_pred             hhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCCC-hhhHHHHHHHHHh----cCChHHHHHHHH
Q 038303          227 SFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKD-KISWSTVISGLAM----NGCGRQALQLFS  301 (461)
Q Consensus       227 ~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~l~~~~~~----~~~~~~a~~~~~  301 (461)
                      +.|.+......       +......=+..+.+..+++-|.+.++.|.+-| ..+.+.|..++.+    .+...+|.-+|+
T Consensus       125 deAl~~~~~~~-------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~ided~tLtQLA~awv~la~ggek~qdAfyife  197 (299)
T KOG3081|consen  125 DEALKALHLGE-------NLEAAALNVQILLKMHRFDLAEKELKKMQQIDEDATLTQLAQAWVKLATGGEKIQDAFYIFE  197 (299)
T ss_pred             HHHHHHHhccc-------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhccchhhhhHHHHHH
Confidence            99888877521       22222333556678889999999999999764 4566767776654    456889999999


Q ss_pred             HHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHH-HHHHHhC
Q 038303          302 LMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEA-EAFIREM  374 (461)
Q Consensus       302 ~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A-~~~~~~~  374 (461)
                      +|-++ ..|+..+.+....++...|++++|..+++....  .-..++.+...++.+-...|...++ .+.+.+.
T Consensus       198 E~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~--kd~~dpetL~Nliv~a~~~Gkd~~~~~r~l~QL  268 (299)
T KOG3081|consen  198 ELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALD--KDAKDPETLANLIVLALHLGKDAEVTERNLSQL  268 (299)
T ss_pred             HHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHh--ccCCCHHHHHHHHHHHHHhCCChHHHHHHHHHH
Confidence            99875 678999999999999999999999999999987  3345566666666666666765443 4455555

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.47  E-value=8.8e-06  Score=66.54  Aligned_cols=135  Identities=15%  Similarity=0.108  Sum_probs=114.9

Q ss_pred             CCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC--CCCchhhHHHHH
Q 038303          309 FPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM--PIEAEWSVWGAL  386 (461)
Q Consensus       309 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l  386 (461)
                      .|+......+-..+...|+-+....+......  ..+.+......++....+.|++.+|...+++.  ..++|...|+.+
T Consensus        63 ~p~d~~i~~~a~a~~~~G~a~~~l~~~~~~~~--~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~l  140 (257)
T COG5010          63 NPEDLSIAKLATALYLRGDADSSLAVLQKSAI--AYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNLL  140 (257)
T ss_pred             CcchHHHHHHHHHHHhcccccchHHHHhhhhc--cCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccCCCChhhhhHH
Confidence            45443335566677788888888888877654  44556667777999999999999999999999  666788899999


Q ss_pred             HHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcCC
Q 038303          387 LNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGL  445 (461)
Q Consensus       387 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~  445 (461)
                      .-+|.+.|+++.|...+.+..+..|.++..++.++-.|.-.|+.+.|..++......+.
T Consensus       141 gaaldq~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~  199 (257)
T COG5010         141 GAALDQLGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPA  199 (257)
T ss_pred             HHHHHHccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCC
Confidence            99999999999999999999999999999999999999999999999999998876654

>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=98.43  E-value=7.3e-06  Score=73.58  Aligned_cols=121  Identities=12%  Similarity=0.079  Sum_probs=96.6

Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHh
Q 038303          315 FIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRI  392 (461)
Q Consensus       315 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~  392 (461)
                      ...|+..+...++++.|..+|+++.+. .  |+  ....+++.+...++-.+|.+++.+. ...| +......-...|.+
T Consensus       172 v~~Ll~~l~~t~~~~~ai~lle~L~~~-~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~d~~LL~~Qa~fLl~  246 (395)
T PF09295_consen  172 VDTLLKYLSLTQRYDEAIELLEKLRER-D--PE--VAVLLARVYLLMNEEVEAIRLLNEALKENPQDSELLNLQAEFLLS  246 (395)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHhc-C--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHh
Confidence            445566667788899999999998872 2  44  4556788888888888999888887 3334 44444444555889


Q ss_pred             cCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHH
Q 038303          393 HRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEI  440 (461)
Q Consensus       393 ~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  440 (461)
                      .++++.|+.+.+++.+..|.+..+|..|+.+|.+.|++++|+..++.+
T Consensus       247 k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~  294 (395)
T PF09295_consen  247 KKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLALNSC  294 (395)
T ss_pred             cCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcC
Confidence            999999999999999999999999999999999999999999998876

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.41  E-value=0.00014  Score=71.75  Aligned_cols=148  Identities=5%  Similarity=-0.035  Sum_probs=87.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHccCC---ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHc
Q 038303          248 VGNAVINMYVKCGDVGIAIQVFNMLAYK---DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSH  324 (461)
Q Consensus       248 ~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~  324 (461)
                      .+..+..+|-+.|+.++|..+|+++.+-   |+...|.+...|... +.++|++++.+....               +..
T Consensus       118 Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~---------------~i~  181 (906)
T PRK14720        118 ALRTLAEAYAKLNENKKLKGVWERLVKADRDNPEIVKKLATSYEEE-DKEKAITYLKKAIYR---------------FIK  181 (906)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH---------------HHh
Confidence            4455666666666666666666666532   455566666666666 666666666655442               444


Q ss_pred             CCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCchhhHHHHHHHHHHhcCChHHHHHHHH
Q 038303          325 GGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQ  404 (461)
Q Consensus       325 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  404 (461)
                      .+++..+.++|.++..  ..+.+...+..+.+.....            .+..--..++..+-..|...++++++..+++
T Consensus       182 ~kq~~~~~e~W~k~~~--~~~~d~d~f~~i~~ki~~~------------~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK  247 (906)
T PRK14720        182 KKQYVGIEEIWSKLVH--YNSDDFDFFLRIERKVLGH------------REFTRLVGLLEDLYEPYKALEDWDEVIYILK  247 (906)
T ss_pred             hhcchHHHHHHHHHHh--cCcccchHHHHHHHHHHhh------------hccchhHHHHHHHHHHHhhhhhhhHHHHHHH
Confidence            4566666666666655  2222222222222221111            1112223344455566788888999999999


Q ss_pred             HHhhcCCCChhHHHHHHHHHh
Q 038303          405 DLVNKKGVSVGTFALMSNTFA  425 (461)
Q Consensus       405 ~~~~~~~~~~~~~~~l~~~~~  425 (461)
                      .+.+..|.|..+...++.+|.
T Consensus       248 ~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        248 KILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             HHHhcCCcchhhHHHHHHHHH
Confidence            999988888888888888886

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.40  E-value=0.0024  Score=61.58  Aligned_cols=413  Identities=11%  Similarity=0.026  Sum_probs=207.2

Q ss_pred             HhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHH--HHhcCCHHHHHHHHhhC---CCCCceeHHHHHHHHHcCCChHHH
Q 038303           21 SLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHF--YVTVKDIFSAHQIFNSV---VFPDVVSWTTIISGLSKCGFHKEA   95 (461)
Q Consensus        21 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~--~~~~~~~~~a~~~~~~~---~~~~~~~~~~li~~~~~~~~~~~a   95 (461)
                      ...+++..|++....+.+..  |+.. |..++.+  +.+.|+.++|..+++..   ...|..+...+-..|-+.++.++|
T Consensus        20 ld~~qfkkal~~~~kllkk~--Pn~~-~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~D~~tLq~l~~~y~d~~~~d~~   96 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKKH--PNAL-YAKVLKALSLFRLGKGDEALKLLEALYGLKGTDDLTLQFLQNVYRDLGKLDEA   96 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHHC--CCcH-HHHHHHHHHHHHhcCchhHHHHHhhhccCCCCchHHHHHHHHHHHHHhhhhHH
Confidence            45667788888877777653  3322 2333333  34778888888777766   234666777777888888888888


Q ss_pred             HHHHhcC-CCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCC----------hhhHHH
Q 038303           96 IDMFCGI-DVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGS----------LASCGY  164 (461)
Q Consensus        96 ~~~~~~m-~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----------~~~a~~  164 (461)
                      ..+|+.. +..|+......+..++.+.+++.+-.++--++-+.-++ +...+=++++.....-.          ..-|.+
T Consensus        97 ~~~Ye~~~~~~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~~pk-~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~  175 (932)
T KOG2053|consen   97 VHLYERANQKYPSEELLYHLFMAYVREKSYKKQQKAALQLYKNFPK-RAYYFWSVISLILQSIFSENELLDPILLALAEK  175 (932)
T ss_pred             HHHHHHHHhhCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCc-ccchHHHHHHHHHHhccCCcccccchhHHHHHH
Confidence            8888888 77777666677777777777776655554444443222 33333233333332211          123455


Q ss_pred             HHhcCCCCc--hhH---HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhh
Q 038303          165 LFVKMPKRN--VVS---WTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTR  239 (461)
Q Consensus       165 ~~~~~~~~~--~~~---~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~  239 (461)
                      .++.+.+.+  ..+   .-.-...+-..|++++|++++..-....-...+...-+.-+..+...+++.+..++-.++.. 
T Consensus       176 m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~-  254 (932)
T KOG2053|consen  176 MVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLE-  254 (932)
T ss_pred             HHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHH-
Confidence            555554422  111   11112234456778888887733222210222333333445556666677776666666655 


Q ss_pred             cCCCCcchHHHHHHHH----------------HHhcCCHHHHHHHHHHccCC-ChhhHHHHHHHHH---hcCChHHHHHH
Q 038303          240 YDLSVSNLVGNAVINM----------------YVKCGDVGIAIQVFNMLAYK-DKISWSTVISGLA---MNGCGRQALQL  299 (461)
Q Consensus       240 ~~~~~~~~~~~~li~~----------------~~~~g~~~~a~~~~~~~~~~-~~~~~~~l~~~~~---~~~~~~~a~~~  299 (461)
                      .+...    |...+..                +...+..+...+...+.... .-..|-+-+.+..   .-|+.+++...
T Consensus       255 k~~Dd----y~~~~~sv~klLe~~~~~~a~~~~s~~~~l~~~~ek~~~~i~~~~Rgp~LA~lel~kr~~~~gd~ee~~~~  330 (932)
T KOG2053|consen  255 KGNDD----YKIYTDSVFKLLELLNKEPAEAAHSLSKSLDECIEKAQKNIGSKSRGPYLARLELDKRYKLIGDSEEMLSY  330 (932)
T ss_pred             hCCcc----hHHHHHHHHHHHHhcccccchhhhhhhhhHHHHHHHHHHhhcccccCcHHHHHHHHHHhcccCChHHHHHH
Confidence            22221    2221111                11222333333333333221 1223333333333   34677765544


Q ss_pred             HHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcc-------hHHHHHHHHhhcCC-----HHHH
Q 038303          300 FSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQ-------HYACVVDMYGRAGL-----LEEA  367 (461)
Q Consensus       300 ~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-------~~~~l~~~~~~~g~-----~~~A  367 (461)
                      |-+-  .|-.|   .|..=+..|...=..+.-..++.....   ..++..       -+...+..-.-.|.     -+.-
T Consensus       331 y~~k--fg~kp---cc~~Dl~~yl~~l~~~q~~~l~~~l~~---~~~~~s~~~k~l~~h~c~l~~~rl~G~~~~l~ad~i  402 (932)
T KOG2053|consen  331 YFKK--FGDKP---CCAIDLNHYLGHLNIDQLKSLMSKLVL---ADDDSSGDEKVLQQHLCVLLLLRLLGLYEKLPADSI  402 (932)
T ss_pred             HHHH--hCCCc---HhHhhHHHhhccCCHHHHHHHHHHhhc---cCCcchhhHHHHHHHHHHHHHHHHhhccccCChHHH
Confidence            4322  12111   111111222222222222222222211   001100       00011111111111     1111


Q ss_pred             HHHHHhC------C------CCchh---------hHHHHHHHHHHhcCChH---HHHHHHHHHhhcCCCChhHHHHHHHH
Q 038303          368 EAFIREM------P------IEAEW---------SVWGALLNACRIHRNDE---MFDRIRQDLVNKKGVSVGTFALMSNT  423 (461)
Q Consensus       368 ~~~~~~~------~------~~p~~---------~~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~l~~~  423 (461)
                      ..++++.      +      .-|+.         .+.+.++..|.+.++..   +|+-+++......|.|..+-..++++
T Consensus       403 ~a~~~kl~~~ye~gls~~K~ll~TE~~~g~~~llLav~~Lid~~rktnd~~~l~eaI~LLE~glt~s~hnf~~KLlLiri  482 (932)
T KOG2053|consen  403 LAYVRKLKLTYEKGLSLSKDLLPTEYSFGDELLLLAVNHLIDLWRKTNDLTDLFEAITLLENGLTKSPHNFQTKLLLIRI  482 (932)
T ss_pred             HHHHHHHHHHHhccccccccccccccccHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhcCCccHHHHHHHHHH
Confidence            1222111      1      11221         13456677777776654   56777777777888888888899999


Q ss_pred             HhccCChhhHHHHHHHHHHcCCccccC
Q 038303          424 FAGADRWEDTNKIRDEIRRMGLKKKTG  450 (461)
Q Consensus       424 ~~~~g~~~~A~~~~~~m~~~g~~~~~~  450 (461)
                      |+-.|-+..|.++++.+.-+.|+.|.-
T Consensus       483 Y~~lGa~p~a~~~y~tLdIK~IQ~DTl  509 (932)
T KOG2053|consen  483 YSYLGAFPDAYELYKTLDIKNIQTDTL  509 (932)
T ss_pred             HHHhcCChhHHHHHHhcchHHhhhccc
Confidence            999999999999999887777776654

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.38  E-value=9e-05  Score=73.09  Aligned_cols=234  Identities=9%  Similarity=0.009  Sum_probs=141.9

Q ss_pred             cchHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCceeHHHHHHHHHcC
Q 038303           10 HYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWTTIISGLSKC   89 (461)
Q Consensus        10 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~   89 (461)
                      ...+..|+..+...+++++|.++.+...+..+. ....|-.+...+.+.++.+.+..+             .++..+...
T Consensus        31 ~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~-~i~~yy~~G~l~~q~~~~~~~~lv-------------~~l~~~~~~   96 (906)
T PRK14720         31 FKELDDLIDAYKSENLTDEAKDICEEHLKEHKK-SISALYISGILSLSRRPLNDSNLL-------------NLIDSFSQN   96 (906)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCc-ceehHHHHHHHHHhhcchhhhhhh-------------hhhhhcccc
Confidence            344666677776777777777777765554322 122222222245555554444333             223333333


Q ss_pred             CChHHHHHHHhcCCCCC-CchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhc
Q 038303           90 GFHKEAIDMFCGIDVKP-NANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVK  168 (461)
Q Consensus        90 ~~~~~a~~~~~~m~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  168 (461)
                      .++.-...+...++..| +...+..+..+|-+.|+.+++..+++++++..+. |+.+.|.+...|... ++++|+.++.+
T Consensus        97 ~~~~~ve~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~-n~~aLNn~AY~~ae~-dL~KA~~m~~K  174 (906)
T PRK14720         97 LKWAIVEHICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKADRD-NPEIVKKLATSYEEE-DKEKAITYLKK  174 (906)
T ss_pred             cchhHHHHHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHh-hHHHHHHHHHH
Confidence            34433333333332222 3456777788888888899999999998888744 788888888888888 88888887766


Q ss_pred             CCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchH
Q 038303          169 MPKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLV  248 (461)
Q Consensus       169 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  248 (461)
                      ..           ..+...+++.++.+++.++...   .|+...+               -.++.+.+....+..--..+
T Consensus       175 AV-----------~~~i~~kq~~~~~e~W~k~~~~---~~~d~d~---------------f~~i~~ki~~~~~~~~~~~~  225 (906)
T PRK14720        175 AI-----------YRFIKKKQYVGIEEIWSKLVHY---NSDDFDF---------------FLRIERKVLGHREFTRLVGL  225 (906)
T ss_pred             HH-----------HHHHhhhcchHHHHHHHHHHhc---CcccchH---------------HHHHHHHHHhhhccchhHHH
Confidence            54           3367777888888888888773   3433222               22333333332333333445


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHccCC---ChhhHHHHHHHHH
Q 038303          249 GNAVINMYVKCGDVGIAIQVFNMLAYK---DKISWSTVISGLA  288 (461)
Q Consensus       249 ~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~  288 (461)
                      +-.+-..|-...+++++..++..+.+.   |.....-++..|.
T Consensus       226 ~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        226 LEDLYEPYKALEDWDEVIYILKKILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             HHHHHHHHhhhhhhhHHHHHHHHHHhcCCcchhhHHHHHHHHH
Confidence            556667777888888999998888743   4455555666554

>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=98.35  E-value=2.3e-05  Score=70.39  Aligned_cols=126  Identities=11%  Similarity=0.060  Sum_probs=103.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHccCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCC
Q 038303          248 VGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGL  327 (461)
Q Consensus       248 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~  327 (461)
                      ....|+..+...++++.|..+|+++.+.++.....++..+...++..+|.+++++..+.. +-+......-...|.+.++
T Consensus       171 Lv~~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k~~  249 (395)
T PF09295_consen  171 LVDTLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSKKK  249 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCC
Confidence            345667777778899999999999998887777888888888899999999999988753 2255566666667889999


Q ss_pred             hHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhCCC
Q 038303          328 VDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPI  376 (461)
Q Consensus       328 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  376 (461)
                      ++.|+.+.+++..  -.+-+..+|..|..+|.+.|++++|+..+..++.
T Consensus       250 ~~lAL~iAk~av~--lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm  296 (395)
T PF09295_consen  250 YELALEIAKKAVE--LSPSEFETWYQLAECYIQLGDFENALLALNSCPM  296 (395)
T ss_pred             HHHHHHHHHHHHH--hCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcC
Confidence            9999999999987  3344567999999999999999999999998853

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.34  E-value=1e-05  Score=62.25  Aligned_cols=93  Identities=11%  Similarity=0.046  Sum_probs=48.6

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccC
Q 038303          351 YACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGAD  428 (461)
Q Consensus       351 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  428 (461)
                      ...+...+...|++++|.+.++.. ...| +...+..+...+...|++++|...+++..+..|.++..+..++.+|...|
T Consensus        20 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~g   99 (135)
T TIGR02552        20 IYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLLALG   99 (135)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHcC
Confidence            333444455555555555555554 2222 33344444444555555555555555555555555555555555555555


Q ss_pred             ChhhHHHHHHHHHHc
Q 038303          429 RWEDTNKIRDEIRRM  443 (461)
Q Consensus       429 ~~~~A~~~~~~m~~~  443 (461)
                      ++++|...+++..+.
T Consensus       100 ~~~~A~~~~~~al~~  114 (135)
T TIGR02552       100 EPESALKALDLAIEI  114 (135)
T ss_pred             CHHHHHHHHHHHHHh
Confidence            555555555555443

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.33  E-value=9.7e-05  Score=65.99  Aligned_cols=134  Identities=16%  Similarity=0.095  Sum_probs=69.0

Q ss_pred             HhcCChHHHHHHHHHHHhcCCCCCHhHH-HHHHHHHHcCCChHHHHHHHHHhHhhcCCCCC-cchHHHHHHHHhhcCCHH
Q 038303          288 AMNGCGRQALQLFSLMIINAVFPDDVTF-IALISACSHGGLVDQGLILFKAMSTVYEIVPQ-MQHYACVVDMYGRAGLLE  365 (461)
Q Consensus       288 ~~~~~~~~a~~~~~~m~~~g~~p~~~~~-~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~  365 (461)
                      ...|++++|+..++.+...  .|+..-| ......+...++..+|.+.++++..   ..|+ ....-.+.++|.+.|++.
T Consensus       317 ~~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~---l~P~~~~l~~~~a~all~~g~~~  391 (484)
T COG4783         317 YLAGQYDEALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKALA---LDPNSPLLQLNLAQALLKGGKPQ  391 (484)
T ss_pred             HHhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh---cCCCccHHHHHHHHHHHhcCChH
Confidence            3455566666666665543  3333333 2333345556666666666665554   2233 344444555566666666


Q ss_pred             HHHHHHHhC--CCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHc
Q 038303          366 EAEAFIREM--PIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRM  443 (461)
Q Consensus       366 ~A~~~~~~~--~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  443 (461)
                      +|..++++.  ..+.|+..|..|..+|...|+..++.....+                 .|...|++++|...+....++
T Consensus       392 eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~AE-----------------~~~~~G~~~~A~~~l~~A~~~  454 (484)
T COG4783         392 EAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARAE-----------------GYALAGRLEQAIIFLMRASQQ  454 (484)
T ss_pred             HHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHHHH-----------------HHHhCCCHHHHHHHHHHHHHh
Confidence            666665555  3333455566666666666555555443332                 334445555555555555444

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.33  E-value=1e-06  Score=49.36  Aligned_cols=33  Identities=36%  Similarity=0.617  Sum_probs=27.8

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC
Q 038303          279 SWSTVISGLAMNGCGRQALQLFSLMIINAVFPD  311 (461)
Q Consensus       279 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~  311 (461)
                      +|++++.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            688888888888888888888888888888886

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.

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.33  E-value=0.00017  Score=64.45  Aligned_cols=115  Identities=14%  Similarity=0.063  Sum_probs=58.0

Q ss_pred             cCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCch-hhHHHHHHHHHHhcCChHHHHH
Q 038303          324 HGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAE-WSVWGALLNACRIHRNDEMFDR  401 (461)
Q Consensus       324 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~~~~~~a~~  401 (461)
                      ..|.++.|+..++.+..  ..+-|+.......+.+.+.++.++|.+.++++ ...|+ ....-.+..++.+.|++.+|+.
T Consensus       318 ~~~~~d~A~~~l~~L~~--~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g~~~eai~  395 (484)
T COG4783         318 LAGQYDEALKLLQPLIA--AQPDNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQEAIR  395 (484)
T ss_pred             HhcccchHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCChHHHHH
Confidence            44555555555555544  33344444444455555555555555555555 33333 2233334444555555555555


Q ss_pred             HHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHH
Q 038303          402 IRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEI  440 (461)
Q Consensus       402 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  440 (461)
                      +++......|.++..|..|+++|...|+..+|....-+.
T Consensus       396 ~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~  434 (484)
T COG4783         396 ILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARAEG  434 (484)
T ss_pred             HHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHHHHH
Confidence            555555555555555555555555555555555444443

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.26  E-value=0.00014  Score=59.24  Aligned_cols=187  Identities=10%  Similarity=0.035  Sum_probs=143.5

Q ss_pred             hcCCHHHHHHHHHHccC--------CCh-hhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHH-HHHcCCC
Q 038303          258 KCGDVGIAIQVFNMLAY--------KDK-ISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALIS-ACSHGGL  327 (461)
Q Consensus       258 ~~g~~~~a~~~~~~~~~--------~~~-~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~-~~~~~~~  327 (461)
                      ...+.++..+++.++..        ++. ..|..++-+....|+.+.|...++.+.+. + |...-...+=. -+...|+
T Consensus        24 ~~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~-f-p~S~RV~~lkam~lEa~~~  101 (289)
T KOG3060|consen   24 TVRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDR-F-PGSKRVGKLKAMLLEATGN  101 (289)
T ss_pred             cccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHh-C-CCChhHHHHHHHHHHHhhc
Confidence            45678888888887762        122 34666677777889999999999998876 3 55543333322 2455899


Q ss_pred             hHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC--CCCchhhHHHHHHHHHHhcCChHHHHHHHHH
Q 038303          328 VDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM--PIEAEWSVWGALLNACRIHRNDEMFDRIRQD  405 (461)
Q Consensus       328 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  405 (461)
                      +++|+++++.+.+  .-+.|..++-.-+...-..|+.-+|++-+.+.  ....|...|.-+...|...|+++.|.-.+++
T Consensus       102 ~~~A~e~y~~lL~--ddpt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE  179 (289)
T KOG3060|consen  102 YKEAIEYYESLLE--DDPTDTVIRKRKLAILKAQGKNLEAIKELNEYLDKFMNDQEAWHELAEIYLSEGDFEKAAFCLEE  179 (289)
T ss_pred             hhhHHHHHHHHhc--cCcchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhHhHHHHHHHHHHH
Confidence            9999999999988  33666777777777777788888888877766  5557888999999999999999999999999


Q ss_pred             HhhcCCCChhHHHHHHHHHhccC---ChhhHHHHHHHHHHcCCccc
Q 038303          406 LVNKKGVSVGTFALMSNTFAGAD---RWEDTNKIRDEIRRMGLKKK  448 (461)
Q Consensus       406 ~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~m~~~g~~~~  448 (461)
                      +.-..|-++..+..++..+.-.|   +.+-|.+.+.+..+...+..
T Consensus       180 ~ll~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~~~~  225 (289)
T KOG3060|consen  180 LLLIQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNPKNL  225 (289)
T ss_pred             HHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhChHhH
Confidence            99999999999999999876655   56778888888877655433

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.26  E-value=2.2e-06  Score=47.56  Aligned_cols=34  Identities=26%  Similarity=0.349  Sum_probs=31.9

Q ss_pred             cchHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCc
Q 038303           10 HYTFTQALKACSLAHPHQKALEIHAHVIEYGHLH   43 (461)
Q Consensus        10 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~   43 (461)
                      ..+|+.++.+|++.|+++.|.++|++|.+.|++|
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            3689999999999999999999999999999987

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.26  E-value=2e-06  Score=47.69  Aligned_cols=33  Identities=30%  Similarity=0.370  Sum_probs=25.5

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC
Q 038303          278 ISWSTVISGLAMNGCGRQALQLFSLMIINAVFP  310 (461)
Q Consensus       278 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p  310 (461)
                      .+|+.++.+|++.|+++.|.++|++|.+.|++|
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            467777777777777777888888877777776

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.25  E-value=2e-06  Score=48.12  Aligned_cols=35  Identities=34%  Similarity=0.621  Sum_probs=31.5

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCh
Q 038303          175 VSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNE  210 (461)
Q Consensus       175 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~  210 (461)
                      .+||++|.+|++.|++++|.++|++|.+.| ++||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g-~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERG-IEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCCC
Confidence            379999999999999999999999999988 88873

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.

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.22  E-value=0.0041  Score=56.66  Aligned_cols=418  Identities=10%  Similarity=0.038  Sum_probs=234.7

Q ss_pred             CCCcchHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhC--CCCCceeHHHHHH
Q 038303            7 SYNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSV--VFPDVVSWTTIIS   84 (461)
Q Consensus         7 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~--~~~~~~~~~~li~   84 (461)
                      +-|..+|+.||+-+... ..+++.+.++++... ++-.+..|..-+..-.+..+++..+.+|.+-  ..-+...|...+.
T Consensus        17 P~di~sw~~lire~qt~-~~~~~R~~YEq~~~~-FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkvLnlDLW~lYl~   94 (656)
T KOG1914|consen   17 PYDIDSWSQLIREAQTQ-PIDKVRETYEQLVNV-FPSSPRAWKLYIERELASKDFESVEKLFSRCLVKVLNLDLWKLYLS   94 (656)
T ss_pred             CccHHHHHHHHHHHccC-CHHHHHHHHHHHhcc-CCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhhHhHHHHHHH
Confidence            45888899999988776 899999999998763 3345678888888888899999999999876  2345666666665


Q ss_pred             HHHc-CCChHHHH----HHHhcC----CCCCCc-hhHHHHHH---H------hcccchhHHHHHHHHHHHhhcCCCChhH
Q 038303           85 GLSK-CGFHKEAI----DMFCGI----DVKPNA-NTLVSVLS---A------CSSLVSHKLGKAIHAHSLRNLNENNIIL  145 (461)
Q Consensus        85 ~~~~-~~~~~~a~----~~~~~m----~~~p~~-~~~~~ll~---~------~~~~~~~~~a~~~~~~~~~~~~~~~~~~  145 (461)
                      ---+ .++...+.    +.|+-.    |+.+-+ ..|+..+.   .      +....+++...+++++++..-+.-=...
T Consensus        95 YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~nlEkL  174 (656)
T KOG1914|consen   95 YVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMHNLEKL  174 (656)
T ss_pred             HHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCccccHHHH
Confidence            3222 23322211    222111    544422 22333332   2      3344566677777777765422211111


Q ss_pred             HHHH-----------HHHH--HHcCChhhHHHHHhcCCC---------Cc------------hhHHHHHHHHHHhcCC--
Q 038303          146 DNAI-----------LDFY--IRCGSLASCGYLFVKMPK---------RN------------VVSWTTMIGGYAERGF--  189 (461)
Q Consensus       146 ~~~l-----------~~~~--~~~g~~~~a~~~~~~~~~---------~~------------~~~~~~li~~~~~~~~--  189 (461)
                      |+-.           .+-+  -+...+..|.+++++...         |.            ...|-.+|.---.++-  
T Consensus       175 W~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~wEksNpL~t  254 (656)
T KOG1914|consen  175 WKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKWEKSNPLRT  254 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHHHhcCCccc
Confidence            2110           0111  122334555555555431         00            1123333322111110  


Q ss_pred             ------hHHHHHHHHHHHhc-CCCCCChhhH-HHHHH----Hhhccch-------hhhHHHHHHHHHhhcCCCCcchHHH
Q 038303          190 ------CKEAVSVFQEMEKT-KEAEPNEATL-VNVLS----ACSSISA-------LSFGKYVHSYISTRYDLSVSNLVGN  250 (461)
Q Consensus       190 ------~~~a~~~~~~m~~~-~~~~~~~~~~-~~~l~----~~~~~~~-------~~~a~~~~~~~~~~~~~~~~~~~~~  250 (461)
                            .....-.+++...- + ..|+..-. ...+.    .+...|+       .+++..+++.... .-...+..+|.
T Consensus       255 ~~~~~~~~Rv~yayeQ~ll~l~-~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~-~l~~~~~~Ly~  332 (656)
T KOG1914|consen  255 LDGTMLTRRVMYAYEQCLLYLG-YHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIE-GLLKENKLLYF  332 (656)
T ss_pred             ccccHHHHHHHHHHHHHHHHHh-cCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHH-HHHHHHHHHHH
Confidence                  01111222222111 1 22222110 00011    1222222       3344444444433 11222233333


Q ss_pred             HHHHHHHhc---CCHHHHHHHHHHccC----CChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHhHHHHHHHHH
Q 038303          251 AVINMYVKC---GDVGIAIQVFNMLAY----KDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFP-DDVTFIALISAC  322 (461)
Q Consensus       251 ~li~~~~~~---g~~~~a~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~  322 (461)
                      .+...--..   +..+.....+++...    .-..+|...+..-.+......|..+|.+..+.+..+ .....++++..+
T Consensus       333 ~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~  412 (656)
T KOG1914|consen  333 ALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYY  412 (656)
T ss_pred             HHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHH
Confidence            332211111   124444555555542    234678888998889999999999999999988877 566777777766


Q ss_pred             HcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC---CCCch--hhHHHHHHHHHHhcCChH
Q 038303          323 SHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM---PIEAE--WSVWGALLNACRIHRNDE  397 (461)
Q Consensus       323 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~---~~~p~--~~~~~~l~~~~~~~~~~~  397 (461)
                      | +++.+.|.++|+.-.+.+  .-++..-...+.-+...++-..|..+|++.   ...|+  ...|..++.--...|+.+
T Consensus       413 c-skD~~~AfrIFeLGLkkf--~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~  489 (656)
T KOG1914|consen  413 C-SKDKETAFRIFELGLKKF--GDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLN  489 (656)
T ss_pred             h-cCChhHHHHHHHHHHHhc--CCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHH
Confidence            5 588899999998877733  345555567788889999999999999998   23333  358999999999999999


Q ss_pred             HHHHHHHHHhhcCCCC----hhHHHHHHHHHhccCChh
Q 038303          398 MFDRIRQDLVNKKGVS----VGTFALMSNTFAGADRWE  431 (461)
Q Consensus       398 ~a~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~  431 (461)
                      .+..+-++.....|.+    ...-..++.-|.-.+.+.
T Consensus       490 si~~lekR~~~af~~~qe~~~~~~~~~v~RY~~~d~~~  527 (656)
T KOG1914|consen  490 SILKLEKRRFTAFPADQEYEGNETALFVDRYGILDLYP  527 (656)
T ss_pred             HHHHHHHHHHHhcchhhcCCCChHHHHHHHHhhccccc
Confidence            9999998887654421    123334444454444443

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.17  E-value=7.1e-05  Score=57.46  Aligned_cols=101  Identities=12%  Similarity=-0.025  Sum_probs=67.2

Q ss_pred             hHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHH
Q 038303          313 VTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNAC  390 (461)
Q Consensus       313 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~  390 (461)
                      .....+...+...|++++|...|+.+..  ..+.+...+..+...+.+.|++++|...+++. ...| +...+..+...+
T Consensus        18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~--~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~   95 (135)
T TIGR02552        18 EQIYALAYNLYQQGRYDEALKLFQLLAA--YDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECL   95 (135)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHH
Confidence            3445555666777777777777777765  23445666777777777777777777777766 3333 344555556667


Q ss_pred             HhcCChHHHHHHHHHHhhcCCCChh
Q 038303          391 RIHRNDEMFDRIRQDLVNKKGVSVG  415 (461)
Q Consensus       391 ~~~~~~~~a~~~~~~~~~~~~~~~~  415 (461)
                      ...|+++.|...+++..+..|.+..
T Consensus        96 ~~~g~~~~A~~~~~~al~~~p~~~~  120 (135)
T TIGR02552        96 LALGEPESALKALDLAIEICGENPE  120 (135)
T ss_pred             HHcCCHHHHHHHHHHHHHhccccch
Confidence            7777888888888777776665543

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.14  E-value=3.2e-05  Score=58.92  Aligned_cols=97  Identities=9%  Similarity=-0.047  Sum_probs=79.4

Q ss_pred             cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCchh-hHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHh
Q 038303          348 MQHYACVVDMYGRAGLLEEAEAFIREM-PIEAEW-SVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFA  425 (461)
Q Consensus       348 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  425 (461)
                      ....-.+...+...|++++|.++|+-. ...|.. .-|..|..+|...|++++|+..|..+....|.++.++..++.++.
T Consensus        35 l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~L  114 (157)
T PRK15363         35 LNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECYL  114 (157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHH
Confidence            334445566677899999999999988 445544 455666667888999999999999999999999999999999999


Q ss_pred             ccCChhhHHHHHHHHHHcC
Q 038303          426 GADRWEDTNKIRDEIRRMG  444 (461)
Q Consensus       426 ~~g~~~~A~~~~~~m~~~g  444 (461)
                      ..|+.+.|.+.|+......
T Consensus       115 ~lG~~~~A~~aF~~Ai~~~  133 (157)
T PRK15363        115 ACDNVCYAIKALKAVVRIC  133 (157)
T ss_pred             HcCCHHHHHHHHHHHHHHh
Confidence            9999999999999876653

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.13  E-value=9e-06  Score=56.34  Aligned_cols=78  Identities=12%  Similarity=0.114  Sum_probs=49.0

Q ss_pred             cCCHHHHHHHHHhC-CCC---chhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHH
Q 038303          361 AGLLEEAEAFIREM-PIE---AEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKI  436 (461)
Q Consensus       361 ~g~~~~A~~~~~~~-~~~---p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  436 (461)
                      .|+++.|+.+++++ ...   |+...+..+..++.+.|++++|..++++ .+..+.+......++.++.+.|++++|+++
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            35667777777766 222   2334444456667777777777777777 444445556666667778888888888877


Q ss_pred             HHH
Q 038303          437 RDE  439 (461)
Q Consensus       437 ~~~  439 (461)
                      +++
T Consensus        81 l~~   83 (84)
T PF12895_consen   81 LEK   83 (84)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            765

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=98.13  E-value=0.0052  Score=54.19  Aligned_cols=110  Identities=18%  Similarity=0.138  Sum_probs=74.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHccCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCC
Q 038303          248 VGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGL  327 (461)
Q Consensus       248 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~  327 (461)
                      +.+..+.-+...|+...|.++-.+..-|+..-|-..+.+++..++|++-..+...      +-++..|..++.+|.+.|+
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~  252 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGN  252 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCC
Confidence            3344566666777777888887777777777788888888888887776654332      1134667777777777777


Q ss_pred             hHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC
Q 038303          328 VDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM  374 (461)
Q Consensus       328 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  374 (461)
                      ..+|..+...+.           +..-+..|.++|++.+|.+.-.+.
T Consensus       253 ~~eA~~yI~k~~-----------~~~rv~~y~~~~~~~~A~~~A~~~  288 (319)
T PF04840_consen  253 KKEASKYIPKIP-----------DEERVEMYLKCGDYKEAAQEAFKE  288 (319)
T ss_pred             HHHHHHHHHhCC-----------hHHHHHHHHHCCCHHHHHHHHHHc
Confidence            777777765521           144567777777777777665544

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=98.12  E-value=0.00013  Score=56.62  Aligned_cols=112  Identities=7%  Similarity=-0.002  Sum_probs=53.5

Q ss_pred             CCChHHHHHHHHHhHhhcCCCCC---cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCchhh----HHHHHHHHHHhcCCh
Q 038303          325 GGLVDQGLILFKAMSTVYEIVPQ---MQHYACVVDMYGRAGLLEEAEAFIREM-PIEAEWS----VWGALLNACRIHRND  396 (461)
Q Consensus       325 ~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~----~~~~l~~~~~~~~~~  396 (461)
                      .++...+...++.+...  .+.+   ....-.+...+...|++++|...|+.. ...|+..    ....+...+...|++
T Consensus        24 ~~~~~~~~~~~~~l~~~--~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~  101 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKD--YPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQY  101 (145)
T ss_pred             CCCHHHHHHHHHHHHHH--CCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCH
Confidence            45555555555555442  1111   122222334455555555555555555 1112221    122233335555666


Q ss_pred             HHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHH
Q 038303          397 EMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDE  439 (461)
Q Consensus       397 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  439 (461)
                      ++|+..++.. ...+..+..+...+.+|.+.|++++|...|++
T Consensus       102 d~Al~~L~~~-~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen  102 DEALATLQQI-PDEAFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHHHhc-cCcchHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            6666655442 22233445566666666666666666666654

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.10  E-value=0.00059  Score=55.75  Aligned_cols=197  Identities=12%  Similarity=0.048  Sum_probs=144.1

Q ss_pred             ccchhhhHHHHHHHHHhh--cC-CCCcch-HHHHHHHHHHhcCCHHHHHHHHHHccCCChhhHHHH---HHHHHhcCChH
Q 038303          222 SISALSFGKYVHSYISTR--YD-LSVSNL-VGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTV---ISGLAMNGCGR  294 (461)
Q Consensus       222 ~~~~~~~a~~~~~~~~~~--~~-~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l---~~~~~~~~~~~  294 (461)
                      ...+.++..+++..+...  .| ..++.. +|..++-+....|+.+.|...++.+...-+.++...   ..-+-..|+++
T Consensus        24 ~~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~~  103 (289)
T KOG3060|consen   24 TVRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNYK  103 (289)
T ss_pred             cccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhchh
Confidence            345677888888877653  23 444443 556677778889999999999998875323222221   12244578999


Q ss_pred             HHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC
Q 038303          295 QALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM  374 (461)
Q Consensus       295 ~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  374 (461)
                      +|+++++.+.+.. +.|..++..=+...-..|+--+|++-+....+  .+..|...|.-+.+.|...|++++|.-.++++
T Consensus       104 ~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~--~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~  180 (289)
T KOG3060|consen  104 EAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLD--KFMNDQEAWHELAEIYLSEGDFEKAAFCLEEL  180 (289)
T ss_pred             hHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHH--HhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHH
Confidence            9999999999876 33567777667677778888899999888887  67899999999999999999999999999999


Q ss_pred             -CCCchhh-HHHHHHHH-H--HhcCChHHHHHHHHHHhhcCCCChhHHHHHH
Q 038303          375 -PIEAEWS-VWGALLNA-C--RIHRNDEMFDRIRQDLVNKKGVSVGTFALMS  421 (461)
Q Consensus       375 -~~~p~~~-~~~~l~~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~  421 (461)
                       -+.|..+ .+..+... |  ....+.+.+..++.+..+..|.+...+..+-
T Consensus       181 ll~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~~~~ral~GI~  232 (289)
T KOG3060|consen  181 LLIQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNPKNLRALFGIY  232 (289)
T ss_pred             HHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhChHhHHHHHHHH
Confidence             5556544 34445444 3  3345678899999999998886655554443

>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=98.06  E-value=5.4e-05  Score=53.78  Aligned_cols=93  Identities=9%  Similarity=0.085  Sum_probs=71.6

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC-CCCch-hhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccC
Q 038303          351 YACVVDMYGRAGLLEEAEAFIREM-PIEAE-WSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGAD  428 (461)
Q Consensus       351 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  428 (461)
                      +..+...+...|++++|...+++. ...|+ ...+..+...+...++++.|...++...+..|.+..++..++..+...|
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLG   82 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHH
Confidence            455666777788888888888876 33333 3456666666778888888998888888877877788888888899999


Q ss_pred             ChhhHHHHHHHHHHc
Q 038303          429 RWEDTNKIRDEIRRM  443 (461)
Q Consensus       429 ~~~~A~~~~~~m~~~  443 (461)
                      ++++|...+++..+.
T Consensus        83 ~~~~a~~~~~~~~~~   97 (100)
T cd00189          83 KYEEALEAYEKALEL   97 (100)
T ss_pred             hHHHHHHHHHHHHcc
Confidence            999999888877653

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.04  E-value=0.012  Score=55.87  Aligned_cols=129  Identities=16%  Similarity=0.173  Sum_probs=83.3

Q ss_pred             HHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCC
Q 038303          230 KYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVF  309 (461)
Q Consensus       230 ~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~  309 (461)
                      ..+.+.+....+..-...+.+--+.-+...|+..+|.++-.+.+-||-..|-.-+.+++..+++++-+++-+.+.     
T Consensus       668 l~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~FkipdKr~~wLk~~aLa~~~kweeLekfAkskk-----  742 (829)
T KOG2280|consen  668 LKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFKIPDKRLWWLKLTALADIKKWEELEKFAKSKK-----  742 (829)
T ss_pred             HHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcCCcchhhHHHHHHHHHhhhhHHHHHHHHhccC-----
Confidence            344444444455444444555566666777888888888888877777777777777888777777665555442     


Q ss_pred             CCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC
Q 038303          310 PDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM  374 (461)
Q Consensus       310 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  374 (461)
                       .+.-|..+..+|.+.|+.++|.+++.+...   .   .    -...+|.+.|++.+|.++--+-
T Consensus       743 -sPIGy~PFVe~c~~~~n~~EA~KYiprv~~---l---~----ekv~ay~~~~~~~eAad~A~~~  796 (829)
T KOG2280|consen  743 -SPIGYLPFVEACLKQGNKDEAKKYIPRVGG---L---Q----EKVKAYLRVGDVKEAADLAAEH  796 (829)
T ss_pred             -CCCCchhHHHHHHhcccHHHHhhhhhccCC---h---H----HHHHHHHHhccHHHHHHHHHHh
Confidence             245566677778888888888777754421   1   1    3566777777777776654433

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.04  E-value=0.00042  Score=53.83  Aligned_cols=125  Identities=13%  Similarity=0.045  Sum_probs=64.6

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC--HhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCC--cchHHHHH
Q 038303          280 WSTVISGLAMNGCGRQALQLFSLMIINAVFPD--DVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQ--MQHYACVV  355 (461)
Q Consensus       280 ~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~  355 (461)
                      |..++..+ ..++...+...++.+.+....-.  ....-.+...+...|++++|...|+.+.. ....|+  ......|.
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-QAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALA-NAPDPELKPLARLRLA   92 (145)
T ss_pred             HHHHHHHH-HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh-hCCCHHHHHHHHHHHH
Confidence            33344443 35666666666666665422110  12222233455666777777777766665 221222  12333455


Q ss_pred             HHHhhcCCHHHHHHHHHhCCCC-chhhHHHHHHHHHHhcCChHHHHHHHHHH
Q 038303          356 DMYGRAGLLEEAEAFIREMPIE-AEWSVWGALLNACRIHRNDEMFDRIRQDL  406 (461)
Q Consensus       356 ~~~~~~g~~~~A~~~~~~~~~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  406 (461)
                      ..+...|++++|+..++..... .....+......+...|+.++|...|+..
T Consensus        93 ~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   93 RILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            6666667777777776665222 22223334444466777777777766654

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.03  E-value=9e-05  Score=55.40  Aligned_cols=100  Identities=11%  Similarity=0.005  Sum_probs=44.2

Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHhHhhcCCCC-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCch----hhHHHHHHH
Q 038303          315 FIALISACSHGGLVDQGLILFKAMSTVYEIVP-QMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAE----WSVWGALLN  388 (461)
Q Consensus       315 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~  388 (461)
                      +..+...+.+.|++++|...|+.+.....-.+ ....+..+..++.+.|++++|...++.+ ...|+    ...+..+..
T Consensus         5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~   84 (119)
T TIGR02795         5 YYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGM   84 (119)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHH
Confidence            33444445555555555555555544111000 1223334455555555555555555544 11122    123333334


Q ss_pred             HHHhcCChHHHHHHHHHHhhcCCCCh
Q 038303          389 ACRIHRNDEMFDRIRQDLVNKKGVSV  414 (461)
Q Consensus       389 ~~~~~~~~~~a~~~~~~~~~~~~~~~  414 (461)
                      .+...|+.++|...++++.+..|.+.
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~~p~~~  110 (119)
T TIGR02795        85 SLQELGDKEKAKATLQQVIKRYPGSS  110 (119)
T ss_pred             HHHHhCChHHHHHHHHHHHHHCcCCh
Confidence            44445555555555555555444443

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.

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.00  E-value=0.00015  Score=54.20  Aligned_cols=93  Identities=11%  Similarity=-0.036  Sum_probs=45.6

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC-CCCch----hhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCC---hhHHHHHHH
Q 038303          351 YACVVDMYGRAGLLEEAEAFIREM-PIEAE----WSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVS---VGTFALMSN  422 (461)
Q Consensus       351 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~l~~  422 (461)
                      +..++..+.+.|++++|.+.|+.+ ...|+    ...+..+...+.+.|+++.|...++.+....|.+   +.++..++.
T Consensus         5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~   84 (119)
T TIGR02795         5 YYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGM   84 (119)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHH
Confidence            334444555555555555555555 11222    1223334444555555555555555555433332   334555555


Q ss_pred             HHhccCChhhHHHHHHHHHHc
Q 038303          423 TFAGADRWEDTNKIRDEIRRM  443 (461)
Q Consensus       423 ~~~~~g~~~~A~~~~~~m~~~  443 (461)
                      ++.+.|++++|.+.++++.+.
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        85 SLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHhCChHHHHHHHHHHHHH
Confidence            555555555555555555544

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.96  E-value=1.2e-05  Score=43.32  Aligned_cols=30  Identities=27%  Similarity=0.427  Sum_probs=21.5

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhcCC
Q 038303          279 SWSTVISGLAMNGCGRQALQLFSLMIINAV  308 (461)
Q Consensus       279 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~  308 (461)
                      +|+.++++|++.|++++|.++|++|.+.|+
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            577777777777777777777777776653

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.

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.94  E-value=0.004  Score=52.87  Aligned_cols=173  Identities=10%  Similarity=0.001  Sum_probs=103.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHHccCC--Ch-hh---HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHc-
Q 038303          252 VINMYVKCGDVGIAIQVFNMLAYK--DK-IS---WSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSH-  324 (461)
Q Consensus       252 li~~~~~~g~~~~a~~~~~~~~~~--~~-~~---~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~-  324 (461)
                      ....+.+.|++++|.+.|+.+...  +. ..   .-.++.++.+.+++++|...+++..+.-..-....+...+.+.+. 
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            344456678888888888887643  21 11   234556778888888888888888775333222344444444331 


Q ss_pred             -C---------------CCh---HHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCchhhHHHH
Q 038303          325 -G---------------GLV---DQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGA  385 (461)
Q Consensus       325 -~---------------~~~---~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~  385 (461)
                       .               .+.   ..|...|+.+.                +-|=.+.-..+|...+..+...--...+ .
T Consensus       118 ~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li----------------~~yP~S~ya~~A~~rl~~l~~~la~~e~-~  180 (243)
T PRK10866        118 ALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLV----------------RGYPNSQYTTDATKRLVFLKDRLAKYEL-S  180 (243)
T ss_pred             hcchhhhhhccCCCccccCHHHHHHHHHHHHHHH----------------HHCcCChhHHHHHHHHHHHHHHHHHHHH-H
Confidence             1               111   22333333333                3333333344444444433111111111 2


Q ss_pred             HHHHHHhcCChHHHHHHHHHHhhcCCC---ChhHHHHHHHHHhccCChhhHHHHHHHHH
Q 038303          386 LLNACRIHRNDEMFDRIRQDLVNKKGV---SVGTFALMSNTFAGADRWEDTNKIRDEIR  441 (461)
Q Consensus       386 l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  441 (461)
                      +..-|.+.|.+..|..-++.+++.-|.   ...+...+..+|.+.|..++|.++...+.
T Consensus       181 ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        181 VAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            334488899999999999999986554   46678889999999999999998876653

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.91  E-value=0.018  Score=55.89  Aligned_cols=121  Identities=16%  Similarity=0.225  Sum_probs=77.3

Q ss_pred             HhcCCHHHHHHHHhhCCC--CCceeHHHHHHH--HHcCCChHHHHHHHhcC-CCCC-CchhHHHHHHHhcccchhHHHHH
Q 038303           56 VTVKDIFSAHQIFNSVVF--PDVVSWTTIISG--LSKCGFHKEAIDMFCGI-DVKP-NANTLVSVLSACSSLVSHKLGKA  129 (461)
Q Consensus        56 ~~~~~~~~a~~~~~~~~~--~~~~~~~~li~~--~~~~~~~~~a~~~~~~m-~~~p-~~~~~~~ll~~~~~~~~~~~a~~  129 (461)
                      ...+++..|.+...++.+  ||.. |...+.+  +.+.|+.++|..+++.. +..+ |..|...+-..|...+..++|..
T Consensus        20 ld~~qfkkal~~~~kllkk~Pn~~-~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~D~~tLq~l~~~y~d~~~~d~~~~   98 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKKHPNAL-YAKVLKALSLFRLGKGDEALKLLEALYGLKGTDDLTLQFLQNVYRDLGKLDEAVH   98 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHHCCCcH-HHHHHHHHHHHHhcCchhHHHHHhhhccCCCCchHHHHHHHHHHHHHhhhhHHHH
Confidence            346778888888877733  4332 3344443  35778888888888877 4443 56677777777778888888888


Q ss_pred             HHHHHHhhcCCCChhHHHHHHHHHHHcCChh----hHHHHHhcCCCCchhHHHH
Q 038303          130 IHAHSLRNLNENNIILDNAILDFYIRCGSLA----SCGYLFVKMPKRNVVSWTT  179 (461)
Q Consensus       130 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~----~a~~~~~~~~~~~~~~~~~  179 (461)
                      +|++..+..+  +......+..+|.+.+++.    .|.+++...++.--.-|+.
T Consensus        99 ~Ye~~~~~~P--~eell~~lFmayvR~~~yk~qQkaa~~LyK~~pk~~yyfWsV  150 (932)
T KOG2053|consen   99 LYERANQKYP--SEELLYHLFMAYVREKSYKKQQKAALQLYKNFPKRAYYFWSV  150 (932)
T ss_pred             HHHHHHhhCC--cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcccchHHHH
Confidence            8887776533  3445555666666666653    3566666655544444544

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.89  E-value=0.00017  Score=51.01  Aligned_cols=80  Identities=11%  Similarity=0.135  Sum_probs=64.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCC-CCCHhHHHHHHHHHHcCC--------ChHHHHHHHHHhHhhcCCCCCcch
Q 038303          280 WSTVISGLAMNGCGRQALQLFSLMIINAV-FPDDVTFIALISACSHGG--------LVDQGLILFKAMSTVYEIVPQMQH  350 (461)
Q Consensus       280 ~~~l~~~~~~~~~~~~a~~~~~~m~~~g~-~p~~~~~~~ll~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~  350 (461)
                      ....|..+...+++...-.+|+.+++.|+ .|+..+|+.++.+.++..        ++-..+.+|+.|.. .+++|+..+
T Consensus        28 ~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~-~~lKP~~et  106 (120)
T PF08579_consen   28 QIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILS-NKLKPNDET  106 (120)
T ss_pred             HHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHH-hccCCcHHH
Confidence            34456666677999999999999999999 899999999999877642        34567788888888 789999999


Q ss_pred             HHHHHHHHhh
Q 038303          351 YACVVDMYGR  360 (461)
Q Consensus       351 ~~~l~~~~~~  360 (461)
                      |+.++..+.+
T Consensus       107 Ynivl~~Llk  116 (120)
T PF08579_consen  107 YNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHH
Confidence            9998887765

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 [, , ].

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.88  E-value=0.00038  Score=58.76  Aligned_cols=112  Identities=9%  Similarity=0.024  Sum_probs=89.3

Q ss_pred             CCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCC-chhhHHHHHHHHH---HhcCChHHHHHHHHHHhhcCCCChhHHH
Q 038303          344 IVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIE-AEWSVWGALLNAC---RIHRNDEMFDRIRQDLVNKKGVSVGTFA  418 (461)
Q Consensus       344 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~---~~~~~~~~a~~~~~~~~~~~~~~~~~~~  418 (461)
                      -+-|...|-.|...|...|+...|..-|++. .+. ++...+..+..++   ....+..++..+++++...+|.++.+..
T Consensus       152 nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~  231 (287)
T COG4235         152 NPGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALS  231 (287)
T ss_pred             CCCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHH
Confidence            4567889999999999999999999999888 333 3333444454542   2334567899999999999999999999


Q ss_pred             HHHHHHhccCChhhHHHHHHHHHHcCCccccCccccc
Q 038303          419 LMSNTFAGADRWEDTNKIRDEIRRMGLKKKTGCSWIE  455 (461)
Q Consensus       419 ~l~~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~~  455 (461)
                      .|+..+...|++.+|...|+.|.+.....+|..+.|+
T Consensus       232 lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~~rr~~ie  268 (287)
T COG4235         232 LLAFAAFEQGDYAEAAAAWQMLLDLLPADDPRRSLIE  268 (287)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhcCCCCCchHHHHH
Confidence            9999999999999999999999998887777665543

>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=97.86  E-value=8.2e-05  Score=49.25  Aligned_cols=64  Identities=6%  Similarity=0.023  Sum_probs=57.9

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccC-ChhhHHHHHHHHHHc
Q 038303          380 WSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGAD-RWEDTNKIRDEIRRM  443 (461)
Q Consensus       380 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~m~~~  443 (461)
                      ..+|..+...+...|++++|+..|++.++..|.++.+|..++.+|.+.| ++++|++.+++..+.
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            4567777888999999999999999999999999999999999999999 799999999988764

...

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.85  E-value=8.5e-05  Score=48.45  Aligned_cols=58  Identities=5%  Similarity=0.035  Sum_probs=50.7

Q ss_pred             HHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcC
Q 038303          387 LNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMG  444 (461)
Q Consensus       387 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  444 (461)
                      ...+...|++++|+..|+++++..|.++..+..++.++...|++++|...++++.+..
T Consensus         4 a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~   61 (65)
T PF13432_consen    4 ARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELD   61 (65)
T ss_dssp             HHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            4557889999999999999999999999999999999999999999999999987643

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.84  E-value=0.029  Score=53.04  Aligned_cols=27  Identities=11%  Similarity=0.017  Sum_probs=13.7

Q ss_pred             ccHHHHHHHHHHHHhcCCHHHHHHHHh
Q 038303           43 HDIFIQNSLLHFYVTVKDIFSAHQIFN   69 (461)
Q Consensus        43 ~~~~~~~~ll~~~~~~~~~~~a~~~~~   69 (461)
                      |.+..|..+.......-.++.|+..|-
T Consensus       690 PHprLWrllAe~Al~Kl~l~tAE~AFV  716 (1189)
T KOG2041|consen  690 PHPRLWRLLAEYALFKLALDTAEHAFV  716 (1189)
T ss_pred             CchHHHHHHHHHHHHHHhhhhHhhhhh
Confidence            455555555554444445555554443

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.84  E-value=2.7e-05  Score=41.99  Aligned_cols=31  Identities=19%  Similarity=0.280  Sum_probs=26.2

Q ss_pred             chHHHHHHHHHhhCCHHHHHHHHHHHHHhCC
Q 038303           11 YTFTQALKACSLAHPHQKALEIHAHVIEYGH   41 (461)
Q Consensus        11 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~   41 (461)
                      .+|+.++++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            4788888899999999999999888888764

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.

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.84  E-value=0.00074  Score=58.83  Aligned_cols=132  Identities=8%  Similarity=0.049  Sum_probs=86.1

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHH-HHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHH
Q 038303          279 SWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISA-CSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDM  357 (461)
Q Consensus       279 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  357 (461)
                      +|..++...-+.+..+.|..+|.+..+.+ ..+...|...... +...++.+.|..+|+...+  .++.+...|...++.
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 VWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLK--KFPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHH--HHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHH
Confidence            56677777777777888888888877532 1233344433333 3345667778888888877  355667777777888


Q ss_pred             HhhcCCHHHHHHHHHhC--CCCch---hhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCC
Q 038303          358 YGRAGLLEEAEAFIREM--PIEAE---WSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVS  413 (461)
Q Consensus       358 ~~~~g~~~~A~~~~~~~--~~~p~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  413 (461)
                      +.+.|+.+.|..+|++.  ...++   ...|...+.--.+.|+.+.+..+.+++.+..|.+
T Consensus        80 l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~~~  140 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFPED  140 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTTS
T ss_pred             HHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhh
Confidence            88888888888888877  22222   2377777777777888888888888877765553

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.

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.84  E-value=0.00015  Score=65.51  Aligned_cols=106  Identities=9%  Similarity=-0.078  Sum_probs=85.9

Q ss_pred             HHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCCh
Q 038303          319 ISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRND  396 (461)
Q Consensus       319 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~  396 (461)
                      ...+...|+++.|+..|+++.+  ..+.+...|..+..+|.+.|++++|+..++++ ...| +...|..+..+|...|++
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~--~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~   86 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAID--LDPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEY   86 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCH
Confidence            4456778999999999999987  33455778888889999999999999999988 4445 455677777789999999


Q ss_pred             HHHHHHHHHHhhcCCCChhHHHHHHHHHhc
Q 038303          397 EMFDRIRQDLVNKKGVSVGTFALMSNTFAG  426 (461)
Q Consensus       397 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  426 (461)
                      ++|+..|+++++..|.+......+..+..+
T Consensus        87 ~eA~~~~~~al~l~P~~~~~~~~l~~~~~k  116 (356)
T PLN03088         87 QTAKAALEKGASLAPGDSRFTKLIKECDEK  116 (356)
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            999999999999999988877776555433

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.80  E-value=0.00033  Score=58.77  Aligned_cols=100  Identities=17%  Similarity=0.131  Sum_probs=65.3

Q ss_pred             HHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCC-cchHHHHHHHHhhcCCH
Q 038303          286 GLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQ-MQHYACVVDMYGRAGLL  364 (461)
Q Consensus       286 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~  364 (461)
                      -+.+.+++.+|+..|.+.++.... |.+-|..-..+|++.|.++.|++-.+....   +.|. ...|..|..+|...|++
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~l~P~-nAVyycNRAAAy~~Lg~~~~AVkDce~Al~---iDp~yskay~RLG~A~~~~gk~  165 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIELDPT-NAVYYCNRAAAYSKLGEYEDAVKDCESALS---IDPHYSKAYGRLGLAYLALGKY  165 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHhcCCC-cchHHHHHHHHHHHhcchHHHHHHHHHHHh---cChHHHHHHHHHHHHHHccCcH
Confidence            455667777777777777774221 445566666677777777777776666654   2333 56777777777777777


Q ss_pred             HHHHHHHHhC-CCCchhhHHHHHHHH
Q 038303          365 EEAEAFIREM-PIEAEWSVWGALLNA  389 (461)
Q Consensus       365 ~~A~~~~~~~-~~~p~~~~~~~l~~~  389 (461)
                      ++|.+.|++. .+.|+-.+|-.=+..
T Consensus       166 ~~A~~aykKaLeldP~Ne~~K~nL~~  191 (304)
T KOG0553|consen  166 EEAIEAYKKALELDPDNESYKSNLKI  191 (304)
T ss_pred             HHHHHHHHhhhccCCCcHHHHHHHHH
Confidence            7777777776 666666665444433

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.80  E-value=0.022  Score=50.34  Aligned_cols=109  Identities=11%  Similarity=0.112  Sum_probs=84.3

Q ss_pred             hHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCchhhHHHHHHHHHHh
Q 038303          313 VTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRI  392 (461)
Q Consensus       313 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~  392 (461)
                      .+.+..+.-|...|+...|.++-.+.    .+ |+...|...+.+|+..++|++-.++-..   +..+.-|..++.+|.+
T Consensus       178 ~Sl~~Ti~~li~~~~~k~A~kl~k~F----kv-~dkrfw~lki~aLa~~~~w~eL~~fa~s---kKsPIGyepFv~~~~~  249 (319)
T PF04840_consen  178 LSLNDTIRKLIEMGQEKQAEKLKKEF----KV-PDKRFWWLKIKALAENKDWDELEKFAKS---KKSPIGYEPFVEACLK  249 (319)
T ss_pred             CCHHHHHHHHHHCCCHHHHHHHHHHc----CC-cHHHHHHHHHHHHHhcCCHHHHHHHHhC---CCCCCChHHHHHHHHH
Confidence            45555677777888888887776555    33 8899999999999999999988876543   3345778999999999


Q ss_pred             cCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHH
Q 038303          393 HRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRD  438 (461)
Q Consensus       393 ~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  438 (461)
                      .|+..+|..+..++         .+..-+..|.+.|++.+|.+..-
T Consensus       250 ~~~~~eA~~yI~k~---------~~~~rv~~y~~~~~~~~A~~~A~  286 (319)
T PF04840_consen  250 YGNKKEASKYIPKI---------PDEERVEMYLKCGDYKEAAQEAF  286 (319)
T ss_pred             CCCHHHHHHHHHhC---------ChHHHHHHHHHCCCHHHHHHHHH
Confidence            99999999888772         23666778889999999876543

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

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.79  E-value=0.00038  Score=55.88  Aligned_cols=91  Identities=7%  Similarity=-0.049  Sum_probs=44.7

Q ss_pred             HHHHHHHhhcCCHHHHHHHHHhC-CCCch----hhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhc
Q 038303          352 ACVVDMYGRAGLLEEAEAFIREM-PIEAE----WSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAG  426 (461)
Q Consensus       352 ~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  426 (461)
                      ..+...+...|++++|...|++. ...|+    ...+..+...+...|+++.|...++++.+..|.+...+..++.++..
T Consensus        39 ~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~  118 (172)
T PRK02603         39 YRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALNNIAVIYHK  118 (172)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence            33344444444444444444443 11111    12344444445555555555555555555555555555555555555


Q ss_pred             cCC--------------hhhHHHHHHHHHH
Q 038303          427 ADR--------------WEDTNKIRDEIRR  442 (461)
Q Consensus       427 ~g~--------------~~~A~~~~~~m~~  442 (461)
                      .|+              +++|.+++++..+
T Consensus       119 ~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~  148 (172)
T PRK02603        119 RGEKAEEAGDQDEAEALFDKAAEYWKQAIR  148 (172)
T ss_pred             cCChHhHhhCHHHHHHHHHHHHHHHHHHHh
Confidence            444              4556666655544

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.74  E-value=0.00037  Score=63.13  Aligned_cols=119  Identities=12%  Similarity=0.091  Sum_probs=65.1

Q ss_pred             CCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhc-CCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccC----CChhhH
Q 038303          206 AEPNEATLVNVLSACSSISALSFGKYVHSYISTRY-DLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAY----KDKISW  280 (461)
Q Consensus       206 ~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~----~~~~~~  280 (461)
                      .+.+......+++.+.+..+++.+..++-...... ....-+.+..++++.|.+.|..+.+..++..=..    ||..++
T Consensus        62 ~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~  141 (429)
T PF10037_consen   62 KPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSF  141 (429)
T ss_pred             CCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhH
Confidence            45566666667777776666666666666555421 1112223334566666666666655555543322    455556


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHc
Q 038303          281 STVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSH  324 (461)
Q Consensus       281 ~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~  324 (461)
                      |.|+..+.+.|++..|.++..+|...+...+..|+...+.+|.+
T Consensus       142 n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~  185 (429)
T PF10037_consen  142 NLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYK  185 (429)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHH
Confidence            66666666666666666655555555544455555544444443

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 [].

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.74  E-value=0.00012  Score=50.74  Aligned_cols=81  Identities=12%  Similarity=0.144  Sum_probs=39.8

Q ss_pred             cCChHHHHHHHHHHHhcCCC-CCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHH
Q 038303          290 NGCGRQALQLFSLMIINAVF-PDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAE  368 (461)
Q Consensus       290 ~~~~~~a~~~~~~m~~~g~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  368 (461)
                      .|+++.|+.+++++.+.... |+...+..+..+|.+.|++++|+.+++. .+ .+. .+....-.+..++.+.|++++|+
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~-~~~-~~~~~~~l~a~~~~~l~~y~eAi   78 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LK-LDP-SNPDIHYLLARCLLKLGKYEEAI   78 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HT-HHH-CHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hC-CCC-CCHHHHHHHHHHHHHhCCHHHHH
Confidence            35566666666666654321 1233333455566666666666666655 21 111 12233334455566666666666


Q ss_pred             HHHHh
Q 038303          369 AFIRE  373 (461)
Q Consensus       369 ~~~~~  373 (461)
                      +.+++
T Consensus        79 ~~l~~   83 (84)
T PF12895_consen   79 KALEK   83 (84)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            66553

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.73  E-value=0.0038  Score=54.63  Aligned_cols=132  Identities=12%  Similarity=0.037  Sum_probs=60.3

Q ss_pred             HHHHHHHHHhhCCHHHHHHHHHHHHHhCC--C-c--cHHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCceeHHHHHHHHH
Q 038303           13 FTQALKACSLAHPHQKALEIHAHVIEYGH--L-H--DIFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWTTIISGLS   87 (461)
Q Consensus        13 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~-~--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~   87 (461)
                      |......|-..|++++|...|....+...  . +  ....|......|. ..++++|.+.           |...+..|.
T Consensus        38 y~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k-~~~~~~Ai~~-----------~~~A~~~y~  105 (282)
T PF14938_consen   38 YEKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYK-KGDPDEAIEC-----------YEKAIEIYR  105 (282)
T ss_dssp             HHHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHH-HTTHHHHHHH-----------HHHHHHHHH
T ss_pred             HHHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH-hhCHHHHHHH-----------HHHHHHHHH
Confidence            55555555566666666666665533211  0 0  0112222222222 2244444443           333456666


Q ss_pred             cCCChHHHHHHHhcCCCCCCchhHHHHHHHhccc-chhHHHHHHHHHHHhhcC---CC--ChhHHHHHHHHHHHcCChhh
Q 038303           88 KCGFHKEAIDMFCGIDVKPNANTLVSVLSACSSL-VSHKLGKAIHAHSLRNLN---EN--NIILDNAILDFYIRCGSLAS  161 (461)
Q Consensus        88 ~~~~~~~a~~~~~~m~~~p~~~~~~~ll~~~~~~-~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~~~~~~g~~~~  161 (461)
                      ..|++..|-+++..            +...|... |+++.|.+.|++..+.-.   .+  -...+..+...+.+.|++++
T Consensus       106 ~~G~~~~aA~~~~~------------lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~  173 (282)
T PF14938_consen  106 EAGRFSQAAKCLKE------------LAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEE  173 (282)
T ss_dssp             HCT-HHHHHHHHHH------------HHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHH
T ss_pred             hcCcHHHHHHHHHH------------HHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHH
Confidence            77777776666544            44555565 777777777777654310   00  01223334444445555555


Q ss_pred             HHHHHhc
Q 038303          162 CGYLFVK  168 (461)
Q Consensus       162 a~~~~~~  168 (461)
                      |..+|++
T Consensus       174 A~~~~e~  180 (282)
T PF14938_consen  174 AIEIYEE  180 (282)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5555444

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.72  E-value=0.0012  Score=59.86  Aligned_cols=117  Identities=7%  Similarity=0.020  Sum_probs=90.1

Q ss_pred             CCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCC-CC-----CceeHHHHHHHHHcCCChHHHHHHHhcC---CCCCCchh
Q 038303           40 GHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVV-FP-----DVVSWTTIISGLSKCGFHKEAIDMFCGI---DVKPNANT  110 (461)
Q Consensus        40 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~-~~-----~~~~~~~li~~~~~~~~~~~a~~~~~~m---~~~p~~~~  110 (461)
                      +...+......+++.+....+++.+..++-+.. .|     -..+..++|+.|.+.|..+++++++..-   |+-||..+
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            334456666777777777778888888877662 11     2345678999999999999999999776   99999999


Q ss_pred             HHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHc
Q 038303          111 LVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRC  156 (461)
Q Consensus       111 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  156 (461)
                      |+.+++.+.+.|++..|.++...|...+...+..++..-+.+|.+.
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            9999999999999999999998888877776777766666665555

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 [].

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.72  E-value=0.012  Score=54.84  Aligned_cols=65  Identities=12%  Similarity=0.003  Sum_probs=39.5

Q ss_pred             HHHHHccCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHh
Q 038303          267 QVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMST  340 (461)
Q Consensus       267 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  340 (461)
                      ++-.++...+..+...+..-+.+...+.-|-++|.+|-+.         ..+++.....+++++|..+-+...+
T Consensus       737 dI~rkld~~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe  801 (1081)
T KOG1538|consen  737 DIARKLDKAEREPLLLCATYLKKLDSPGLAAEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPE  801 (1081)
T ss_pred             HHHhhcchhhhhHHHHHHHHHhhccccchHHHHHHHhccH---------HHHhhheeecccchHhHhhhhhCcc
Confidence            3333333344455555555566666777777777776432         3456667777888887777666544

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.71  E-value=0.05  Score=51.94  Aligned_cols=116  Identities=9%  Similarity=0.057  Sum_probs=89.2

Q ss_pred             CCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCchhhHHHHH
Q 038303          307 AVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGAL  386 (461)
Q Consensus       307 g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l  386 (461)
                      |..-...+.+--+.-+...|+..+|.++-.+.+-     ||...|-.-+.++...++|++-+++-+..+   .+.-|..+
T Consensus       679 ~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fki-----pdKr~~wLk~~aLa~~~kweeLekfAkskk---sPIGy~PF  750 (829)
T KOG2280|consen  679 GGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFKI-----PDKRLWWLKLTALADIKKWEELEKFAKSKK---SPIGYLPF  750 (829)
T ss_pred             ccccccCcHHHHHHHHHHccchHHHHHHHHhcCC-----cchhhHHHHHHHHHhhhhHHHHHHHHhccC---CCCCchhH
Confidence            3334445566666777888999999888776654     888888888999999999999888877773   24557778


Q ss_pred             HHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHH
Q 038303          387 LNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRD  438 (461)
Q Consensus       387 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  438 (461)
                      ..+|.+.|+.++|..++-+...        +.....+|.+.|++.+|.++--
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            8999999999999998876532        1167788999999998877643

>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=97.70  E-value=0.00048  Score=48.72  Aligned_cols=92  Identities=14%  Similarity=0.028  Sum_probs=43.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHh
Q 038303          280 WSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYG  359 (461)
Q Consensus       280 ~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  359 (461)
                      +..+...+...|++++|...+++..+... .+...+..+...+...++++.|.+.++....  ..+.+...+..+...+.
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~~~~~   79 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDP-DNADAYYNLAAAYYKLGKYEEALEDYEKALE--LDPDNAKAYYNLGLAYY   79 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--CCCcchhHHHHHHHHHH
Confidence            33444455555555666555555554321 1223444444455555555555555555444  11222234444445555


Q ss_pred             hcCCHHHHHHHHHhC
Q 038303          360 RAGLLEEAEAFIREM  374 (461)
Q Consensus       360 ~~g~~~~A~~~~~~~  374 (461)
                      ..|++++|...+.+.
T Consensus        80 ~~~~~~~a~~~~~~~   94 (100)
T cd00189          80 KLGKYEEALEAYEKA   94 (100)
T ss_pred             HHHhHHHHHHHHHHH
Confidence            555555555554443

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.69  E-value=0.00052  Score=54.89  Aligned_cols=93  Identities=10%  Similarity=-0.114  Sum_probs=66.1

Q ss_pred             cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCch----hhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHH
Q 038303          348 MQHYACVVDMYGRAGLLEEAEAFIREM-PIEAE----WSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSN  422 (461)
Q Consensus       348 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  422 (461)
                      ...|..+...+...|++++|...|++. ...|+    ..++..+...+...|++++|+..++++.+..|.....+..++.
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            445566666677778888888877776 22222    2356667777888888888888888888877777777777777


Q ss_pred             HHh-------ccCChhhHHHHHHHH
Q 038303          423 TFA-------GADRWEDTNKIRDEI  440 (461)
Q Consensus       423 ~~~-------~~g~~~~A~~~~~~m  440 (461)
                      .+.       +.|++++|...+++.
T Consensus       115 i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        115 ICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHhhHHHHHcccHHHHHHHHHHH
Confidence            777       778877666655543

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.67  E-value=0.00016  Score=60.56  Aligned_cols=124  Identities=10%  Similarity=-0.051  Sum_probs=94.8

Q ss_pred             HHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCch-hhHHHHHHHHHHhcCChHH
Q 038303          321 ACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAE-WSVWGALLNACRIHRNDEM  398 (461)
Q Consensus       321 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~~~~~~  398 (461)
                      -..+.+++++|+..|.....  -.+-|...|..-..+|++.|.++.|.+-.+.. .+.|. ..+|..|..+|...|++++
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~--l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIE--LDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHh--cCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHH
Confidence            46788999999999999987  33456777778889999999999999988887 55554 4589999999999999999


Q ss_pred             HHHHHHHHhhcCCCChhHHHHHHHHHhccCChh---hHHHHHHHHHHcCCc
Q 038303          399 FDRIRQDLVNKKGVSVGTFALMSNTFAGADRWE---DTNKIRDEIRRMGLK  446 (461)
Q Consensus       399 a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~---~A~~~~~~m~~~g~~  446 (461)
                      |++.|++.++..|.+......|-.+-.+.+...   .+..-++.....|..
T Consensus       168 A~~aykKaLeldP~Ne~~K~nL~~Ae~~l~e~~~~~~~~~~~d~~~~ig~~  218 (304)
T KOG0553|consen  168 AIEAYKKALELDPDNESYKSNLKIAEQKLNEPKSSAQASGSFDMAGLIGAF  218 (304)
T ss_pred             HHHHHHhhhccCCCcHHHHHHHHHHHHHhcCCCcccccccchhhhhhccCC
Confidence            999999999999999866666666555555444   333334333444443

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.64  E-value=0.0012  Score=59.84  Aligned_cols=104  Identities=10%  Similarity=-0.055  Sum_probs=82.9

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcC
Q 038303          283 VISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAG  362 (461)
Q Consensus       283 l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  362 (461)
                      ....+...|++++|++.|++.++.... +...|..+..+|...|++++|+..++.+..  --+.+...|..+..+|...|
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~~P~-~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~--l~P~~~~a~~~lg~~~~~lg   84 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDLDPN-NAELYADRAQANIKLGNFTEAVADANKAIE--LDPSLAKAYLRKGTACMKLE   84 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCcCCHHHHHHHHHHHHHhC
Confidence            345677889999999999999986432 557788888899999999999999999987  23346778888999999999


Q ss_pred             CHHHHHHHHHhC-CCCchhhHHHHHHHH
Q 038303          363 LLEEAEAFIREM-PIEAEWSVWGALLNA  389 (461)
Q Consensus       363 ~~~~A~~~~~~~-~~~p~~~~~~~l~~~  389 (461)
                      ++++|...|++. ...|+.......+..
T Consensus        85 ~~~eA~~~~~~al~l~P~~~~~~~~l~~  112 (356)
T PLN03088         85 EYQTAKAALEKGASLAPGDSRFTKLIKE  112 (356)
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            999999999998 555665544444433

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=97.63  E-value=0.043  Score=49.18  Aligned_cols=130  Identities=10%  Similarity=0.003  Sum_probs=67.6

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhcC-CCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHH
Q 038303          279 SWSTVISGLAMNGCGRQALQLFSLMIINA-VFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDM  357 (461)
Q Consensus       279 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~g-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  357 (461)
                      .|...+..-.+....+.|..+|-+..+.| +.++...++.++..++ .|+...|..+|+.-..  .++.+...-...+.-
T Consensus       399 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         399 VFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLL--KFPDSTLYKEKYLLF  475 (660)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHH--hCCCchHHHHHHHHH
Confidence            34555555555555666666666666655 4455555555555433 3555566666654443  222222233344455


Q ss_pred             HhhcCCHHHHHHHHHhC--CCCch--hhHHHHHHHHHHhcCChHHHHHHHHHHhhcCC
Q 038303          358 YGRAGLLEEAEAFIREM--PIEAE--WSVWGALLNACRIHRNDEMFDRIRQDLVNKKG  411 (461)
Q Consensus       358 ~~~~g~~~~A~~~~~~~--~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  411 (461)
                      +.+.++-+.|..+|+..  .+..+  ...|..+|.--...|+...+..+-+++.+..|
T Consensus       476 Li~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~~p  533 (660)
T COG5107         476 LIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRELVP  533 (660)
T ss_pred             HHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHHcC
Confidence            55666666666666644  22222  33455555555555666655555555555443

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.63  E-value=0.011  Score=51.85  Aligned_cols=90  Identities=7%  Similarity=0.035  Sum_probs=42.5

Q ss_pred             HHHHHHhc-CChHHHHHHHHHHHhc----CCCCC--HhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCC-----CCcc-
Q 038303          283 VISGLAMN-GCGRQALQLFSLMIIN----AVFPD--DVTFIALISACSHGGLVDQGLILFKAMSTVYEIV-----PQMQ-  349 (461)
Q Consensus       283 l~~~~~~~-~~~~~a~~~~~~m~~~----g~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~-  349 (461)
                      +...|-.. |++++|++.|++..+.    | .+.  ...+..+...+.+.|++++|.++|+++... ...     .+.. 
T Consensus       120 lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~-~l~~~l~~~~~~~  197 (282)
T PF14938_consen  120 LAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKK-CLENNLLKYSAKE  197 (282)
T ss_dssp             HHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHT-CCCHCTTGHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH-hhcccccchhHHH
Confidence            33445455 5666666666655431    1 111  133445555566666777777777666541 111     1111 


Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHhC
Q 038303          350 HYACVVDMYGRAGLLEEAEAFIREM  374 (461)
Q Consensus       350 ~~~~l~~~~~~~g~~~~A~~~~~~~  374 (461)
                      .+-..+-++...|++..|.+.+++.
T Consensus       198 ~~l~a~l~~L~~~D~v~A~~~~~~~  222 (282)
T PF14938_consen  198 YFLKAILCHLAMGDYVAARKALERY  222 (282)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            1222333445566666666666665

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.62  E-value=0.047  Score=49.06  Aligned_cols=409  Identities=12%  Similarity=0.039  Sum_probs=220.0

Q ss_pred             HHhhCCHHHHHHHHHHHHHhCCCccH------HHHHHHHHHHHhcCCHHHHHHHHhhCC--CCCceeHHHHHHHH--HcC
Q 038303           20 CSLAHPHQKALEIHAHVIEYGHLHDI------FIQNSLLHFYVTVKDIFSAHQIFNSVV--FPDVVSWTTIISGL--SKC   89 (461)
Q Consensus        20 ~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~ll~~~~~~~~~~~a~~~~~~~~--~~~~~~~~~li~~~--~~~   89 (461)
                      +-+.++..+|..+|..+.+..- .++      ..-+.++++|.. ++++.....+....  .| ...|-.+..++  -+.
T Consensus        16 Lqkq~~~~esEkifskI~~e~~-~~~f~lkeEvl~grilnAffl-~nld~Me~~l~~l~~~~~-~s~~l~LF~~L~~Y~~   92 (549)
T PF07079_consen   16 LQKQKKFQESEKIFSKIYDEKE-SSPFLLKEEVLGGRILNAFFL-NNLDLMEKQLMELRQQFG-KSAYLPLFKALVAYKQ   92 (549)
T ss_pred             HHHHhhhhHHHHHHHHHHHHhh-cchHHHHHHHHhhHHHHHHHH-hhHHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHh
Confidence            4477899999999999876532 222      234566777763 45555544444442  23 33455555443  367


Q ss_pred             CChHHHHHHHhcC-----CCC------------CCchhHHHHHHHhcccchhHHHHHHHHHHHhhcC----CCChhHHHH
Q 038303           90 GFHKEAIDMFCGI-----DVK------------PNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLN----ENNIILDNA  148 (461)
Q Consensus        90 ~~~~~a~~~~~~m-----~~~------------p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~~  148 (461)
                      +.+++|++.+...     +-.            +|..-=+..++++...|.+.++..+++++...-.    ..+..+|+.
T Consensus        93 k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~  172 (549)
T PF07079_consen   93 KEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDR  172 (549)
T ss_pred             hhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHH
Confidence            8899998887655     111            1112224456678899999999999988876544    489999998


Q ss_pred             HHHHHHHcCChh---------------hHHHHHhcCCCCchhHH----------HHHHHHHHhc--CChHHHHHHHHHHH
Q 038303          149 ILDFYIRCGSLA---------------SCGYLFVKMPKRNVVSW----------TTMIGGYAER--GFCKEAVSVFQEME  201 (461)
Q Consensus       149 l~~~~~~~g~~~---------------~a~~~~~~~~~~~~~~~----------~~li~~~~~~--~~~~~a~~~~~~m~  201 (461)
                      ++-.++++--++               .+.-...+|...+...|          ..++....-.  .+..--.++++...
T Consensus       173 ~vlmlsrSYfLEl~e~~s~dl~pdyYemilfY~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~~We  252 (549)
T PF07079_consen  173 AVLMLSRSYFLELKESMSSDLYPDYYEMILFYLKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILENWE  252 (549)
T ss_pred             HHHHHhHHHHHHHHHhcccccChHHHHHHHHHHHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHHHHH
Confidence            776666542111               11111112211111111          1111111100  11112222333332


Q ss_pred             hcCCCCCChhh-HHHHHHHhhccchhhhHHHHHHHHHhhcCCCC----cchHHHHHHHHHHhcCCHHHHHHHHHHcc--C
Q 038303          202 KTKEAEPNEAT-LVNVLSACSSISALSFGKYVHSYISTRYDLSV----SNLVGNAVINMYVKCGDVGIAIQVFNMLA--Y  274 (461)
Q Consensus       202 ~~~~~~~~~~~-~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~~li~~~~~~g~~~~a~~~~~~~~--~  274 (461)
                      ..- +.|+-.. ...+...+.+  +.+.+..+-+.+.. ..+.+    =...+..++....+.++...|.+.+.-+.  +
T Consensus       253 ~~y-v~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~-~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~ld  328 (549)
T PF07079_consen  253 NFY-VHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIAS-SKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKILD  328 (549)
T ss_pred             hhc-cCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHH-HhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcC
Confidence            222 4454332 2233333333  44444444444433 11111    12345666677777888888887776655  3


Q ss_pred             CChhh-------HHHHHHHHHhc----CChHHHHHHHHHHHhcCCCCCHhHHHHHHHH---HHcCCC-hHHHHHHHHHhH
Q 038303          275 KDKIS-------WSTVISGLAMN----GCGRQALQLFSLMIINAVFPDDVTFIALISA---CSHGGL-VDQGLILFKAMS  339 (461)
Q Consensus       275 ~~~~~-------~~~l~~~~~~~----~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~---~~~~~~-~~~a~~~~~~~~  339 (461)
                      |+...       -..+-+..|..    -+..+=+.+|++....++. .......++.+   +-+.|. -++|+.+++.+.
T Consensus       329 p~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~DiD-rqQLvh~L~~~Ak~lW~~g~~dekalnLLk~il  407 (549)
T PF07079_consen  329 PRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDID-RQQLVHYLVFGAKHLWEIGQCDEKALNLLKLIL  407 (549)
T ss_pred             CcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhccc-HHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHH
Confidence            42221       11222223311    1233345566666654432 11223333333   344455 888999998887


Q ss_pred             hhcCCCC-CcchHHHHHH----HHhhcCCHH------HHHHHHHhCCCCc----hhhHHHHHHHH--HHhcCChHHHHHH
Q 038303          340 TVYEIVP-QMQHYACVVD----MYGRAGLLE------EAEAFIREMPIEA----EWSVWGALLNA--CRIHRNDEMFDRI  402 (461)
Q Consensus       340 ~~~~~~~-~~~~~~~l~~----~~~~~g~~~------~A~~~~~~~~~~p----~~~~~~~l~~~--~~~~~~~~~a~~~  402 (461)
                      +   +.| |...-+.+..    .|..+=...      .-...+++.++.|    +...-|.|..|  +..+|++..+.-.
T Consensus       408 ~---ft~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~y  484 (549)
T PF07079_consen  408 Q---FTNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLY  484 (549)
T ss_pred             H---hccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHH
Confidence            6   223 3333332221    222211111      1222334445554    34466777777  6789999999888


Q ss_pred             HHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHH
Q 038303          403 RQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEI  440 (461)
Q Consensus       403 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  440 (461)
                      -..+.+..| ++.+|..++-++....++++|..++..+
T Consensus       485 s~WL~~iaP-S~~~~RLlGl~l~e~k~Y~eA~~~l~~L  521 (549)
T PF07079_consen  485 SSWLTKIAP-SPQAYRLLGLCLMENKRYQEAWEYLQKL  521 (549)
T ss_pred             HHHHHHhCC-cHHHHHHHHHHHHHHhhHHHHHHHHHhC
Confidence            777777666 8999999999999999999999999764

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.62  E-value=0.0025  Score=60.34  Aligned_cols=63  Identities=5%  Similarity=0.007  Sum_probs=41.5

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcC
Q 038303          381 SVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMG  444 (461)
Q Consensus       381 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  444 (461)
                      ..+.++.-.....|++++|...++++.+..| +...|..+++++...|+.++|.+.+++..+..
T Consensus       421 ~~~~ala~~~~~~g~~~~A~~~l~rAl~L~p-s~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~  483 (517)
T PRK10153        421 RIYEILAVQALVKGKTDEAYQAINKAIDLEM-SWLNYVLLGKVYELKGDNRLAADAYSTAFNLR  483 (517)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            4455444444556777777777777777665 46677777777777777777777777665543

>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=97.60  E-value=0.00012  Score=48.30  Aligned_cols=54  Identities=2%  Similarity=0.116  Sum_probs=41.2

Q ss_pred             HhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcC
Q 038303          391 RIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMG  444 (461)
Q Consensus       391 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  444 (461)
                      ...|++++|++.++++.+..|.+..++..++.+|.+.|++++|.++++++....
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            356778888888888888888888888888888888888888888887766543

...

>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=97.60  E-value=0.00064  Score=54.54  Aligned_cols=97  Identities=16%  Similarity=0.223  Sum_probs=77.7

Q ss_pred             HHHHHHc--cCCChhhHHHHHHHHHh-----cCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcC-------------
Q 038303          266 IQVFNML--AYKDKISWSTVISGLAM-----NGCGRQALQLFSLMIINAVFPDDVTFIALISACSHG-------------  325 (461)
Q Consensus       266 ~~~~~~~--~~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~-------------  325 (461)
                      ...|+..  ..++..+|..++..|.+     .|..+=....+..|.+.|+.-|..+|+.|++.+=+.             
T Consensus        34 ~~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~  113 (228)
T PF06239_consen   34 EELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFM  113 (228)
T ss_pred             HHHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhc
Confidence            4455555  45677788888887764     467888888899999999999999999999987652             


Q ss_pred             ---CChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCC
Q 038303          326 ---GLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGL  363 (461)
Q Consensus       326 ---~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  363 (461)
                         .+-+-|+++++.|.. .|+-||..++..|++.+++.+.
T Consensus       114 hyp~Qq~c~i~lL~qME~-~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  114 HYPRQQECAIDLLEQMEN-NGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             cCcHHHHHHHHHHHHHHH-cCCCCcHHHHHHHHHHhccccH
Confidence               235678999999988 8999999999999999977654

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.59  E-value=0.0026  Score=51.04  Aligned_cols=129  Identities=10%  Similarity=0.014  Sum_probs=77.1

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC--HhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHH
Q 038303          277 KISWSTVISGLAMNGCGRQALQLFSLMIINAVFPD--DVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACV  354 (461)
Q Consensus       277 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  354 (461)
                      ...+..+...+...|++++|...+++..+....+.  ...+..+...+.+.|++++|...+++...  -.+.+...+..+
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~l  112 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALE--LNPKQPSALNNI  112 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCcccHHHHHHH
Confidence            44566666777777888888888877776433322  24566666777777777777777777766  122234455555


Q ss_pred             HHHHhhcCCHHHHHHHHHhCCCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccC
Q 038303          355 VDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGAD  428 (461)
Q Consensus       355 ~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  428 (461)
                      ...+...|+...+..-++..                  ...+++|.+.+++..+..|.+   |..++..+...|
T Consensus       113 g~~~~~~g~~~~a~~~~~~A------------------~~~~~~A~~~~~~a~~~~p~~---~~~~~~~~~~~~  165 (172)
T PRK02603        113 AVIYHKRGEKAEEAGDQDEA------------------EALFDKAAEYWKQAIRLAPNN---YIEAQNWLKTTG  165 (172)
T ss_pred             HHHHHHcCChHhHhhCHHHH------------------HHHHHHHHHHHHHHHhhCchh---HHHHHHHHHhcC
Confidence            66666666655444332221                  112566777777777766665   444444444444

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.58  E-value=0.0042  Score=54.65  Aligned_cols=155  Identities=10%  Similarity=0.009  Sum_probs=101.7

Q ss_pred             HHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHH--HHcCCChHHHHHHHHHhHhhcCCCCCcchHHH----------
Q 038303          286 GLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISA--CSHGGLVDQGLILFKAMSTVYEIVPQMQHYAC----------  353 (461)
Q Consensus       286 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~----------  353 (461)
                      ++.-.|++++|...--...+..   ....+...+++  +-..++.+.|...|++..+   +.|+...-..          
T Consensus       178 cl~~~~~~~~a~~ea~~ilkld---~~n~~al~vrg~~~yy~~~~~ka~~hf~qal~---ldpdh~~sk~~~~~~k~le~  251 (486)
T KOG0550|consen  178 CLAFLGDYDEAQSEAIDILKLD---ATNAEALYVRGLCLYYNDNADKAINHFQQALR---LDPDHQKSKSASMMPKKLEV  251 (486)
T ss_pred             hhhhcccchhHHHHHHHHHhcc---cchhHHHHhcccccccccchHHHHHHHhhhhc---cChhhhhHHhHhhhHHHHHH
Confidence            4556778888777766665532   12334444443  3346777788777776654   3344221111          


Q ss_pred             ---HHHHHhhcCCHHHHHHHHHhC-CCCc-----hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHH
Q 038303          354 ---VVDMYGRAGLLEEAEAFIREM-PIEA-----EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTF  424 (461)
Q Consensus       354 ---l~~~~~~~g~~~~A~~~~~~~-~~~p-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  424 (461)
                         =..-..+.|++..|.+.+.+. .+.|     +...|.....+..+.|+..+|+.-.+++...++.-...|..-+.++
T Consensus       252 ~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~syikall~ra~c~  331 (486)
T KOG0550|consen  252 KKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSSYIKALLRRANCH  331 (486)
T ss_pred             HHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHHHHHHHHHHHHHH
Confidence               122345678888888888877 4444     4444555555567888888888888888888887777888888888


Q ss_pred             hccCChhhHHHHHHHHHHcCCc
Q 038303          425 AGADRWEDTNKIRDEIRRMGLK  446 (461)
Q Consensus       425 ~~~g~~~~A~~~~~~m~~~g~~  446 (461)
                      ...++|++|.+-+++..+..-.
T Consensus       332 l~le~~e~AV~d~~~a~q~~~s  353 (486)
T KOG0550|consen  332 LALEKWEEAVEDYEKAMQLEKD  353 (486)
T ss_pred             HHHHHHHHHHHHHHHHHhhccc
Confidence            8888888888888887665443

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.56  E-value=0.0011  Score=57.72  Aligned_cols=130  Identities=7%  Similarity=0.019  Sum_probs=98.4

Q ss_pred             hHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC--CCCchhhHHHHHHHHH
Q 038303          313 VTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM--PIEAEWSVWGALLNAC  390 (461)
Q Consensus       313 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~  390 (461)
                      .+|..+++...+.+..+.|..+|.+..+.......+....++++ |...++.+.|.++|+..  ....+...|...+.-+
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E-~~~~~d~~~A~~Ife~glk~f~~~~~~~~~Y~~~l   80 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALME-YYCNKDPKRARKIFERGLKKFPSDPDFWLEYLDFL   80 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHH-HHTCS-HHHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHH-HHhCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Confidence            46778888888888899999999999873333344443344443 33356777799999998  3445666788888888


Q ss_pred             HhcCChHHHHHHHHHHhhcCCCCh---hHHHHHHHHHhccCChhhHHHHHHHHHHc
Q 038303          391 RIHRNDEMFDRIRQDLVNKKGVSV---GTFALMSNTFAGADRWEDTNKIRDEIRRM  443 (461)
Q Consensus       391 ~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  443 (461)
                      ...++.+.|..+|++.....+...   ..|...+..-.+.|+.+.+.++.+++.+.
T Consensus        81 ~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   81 IKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            999999999999999998765544   68999999999999999999999998775

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.

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.53  E-value=0.0031  Score=59.71  Aligned_cols=139  Identities=11%  Similarity=0.004  Sum_probs=97.1

Q ss_pred             CChhhHHHHHHHHHhc-----CChHHHHHHHHHHHhcCCCCCH-hHHHHHHHHHHcC--------CChHHHHHHHHHhHh
Q 038303          275 KDKISWSTVISGLAMN-----GCGRQALQLFSLMIINAVFPDD-VTFIALISACSHG--------GLVDQGLILFKAMST  340 (461)
Q Consensus       275 ~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~--------~~~~~a~~~~~~~~~  340 (461)
                      .+...|...+++....     ++.++|..+|++..+.  .|+. ..+..+..++...        .++..+.+..+....
T Consensus       335 ~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~a  412 (517)
T PRK10153        335 HQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVA  412 (517)
T ss_pred             CCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhh
Confidence            4677888888775443     2367899999999884  5654 4444443333221        122333444443322


Q ss_pred             hcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChh
Q 038303          341 VYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVG  415 (461)
Q Consensus       341 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  415 (461)
                      ....+.+...|..+.-.....|++++|...++++ ...|+...|..+...+...|+.++|.+.++++.+..|.++.
T Consensus       413 l~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~pt  488 (517)
T PRK10153        413 LPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGENT  488 (517)
T ss_pred             cccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCch
Confidence            1123445577877777777789999999999998 66788888888888999999999999999999998887763

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.49  E-value=0.0021  Score=45.61  Aligned_cols=80  Identities=16%  Similarity=0.083  Sum_probs=62.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCC-CCChhhHHHHHHHhhccc--------hhhhHHHHHHHHHhhcCCCCcch
Q 038303          177 WTTMIGGYAERGFCKEAVSVFQEMEKTKEA-EPNEATLVNVLSACSSIS--------ALSFGKYVHSYISTRYDLSVSNL  247 (461)
Q Consensus       177 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~~~~~~~~~~l~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~  247 (461)
                      -...|..+...+++.....+|+.+++.| + .|+..+|+.++.+.++..        ..-....+++.|.. .+++|+..
T Consensus        28 ~i~~I~~~~~~~d~N~I~~lYqslkRN~-i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~-~~lKP~~e  105 (120)
T PF08579_consen   28 QIDNINSCFENEDYNIINPLYQSLKRNG-ITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILS-NKLKPNDE  105 (120)
T ss_pred             HHHHHHHHHhhcchHHHHHHHHHHHhcC-CCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHH-hccCCcHH
Confidence            3445666777799999999999999988 7 899999999998876653        34456677888887 77888888


Q ss_pred             HHHHHHHHHHh
Q 038303          248 VGNAVINMYVK  258 (461)
Q Consensus       248 ~~~~li~~~~~  258 (461)
                      +|+.++..+.+
T Consensus       106 tYnivl~~Llk  116 (120)
T PF08579_consen  106 TYNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHHH
Confidence            88888877654

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 [, , ].

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.48  E-value=0.00043  Score=46.37  Aligned_cols=58  Identities=5%  Similarity=-0.036  Sum_probs=50.3

Q ss_pred             HHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcCC
Q 038303          388 NACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGL  445 (461)
Q Consensus       388 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~  445 (461)
                      ..|.+.++++.|.++++.+....|.++..+...+.++.+.|++++|.+.+++..+.+.
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p   60 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSP   60 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCC
Confidence            4577888999999999999998899999999999999999999999999998887654

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.46  E-value=0.034  Score=43.55  Aligned_cols=122  Identities=11%  Similarity=0.001  Sum_probs=55.0

Q ss_pred             CChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCC-----ChhhHHH
Q 038303          208 PNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYK-----DKISWST  282 (461)
Q Consensus       208 ~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----~~~~~~~  282 (461)
                      |+...-..+..+....|+..+|...|.+... .-..-|....-.+.++....++...|...++++.+-     .+.+.-.
T Consensus        87 pTvqnr~rLa~al~elGr~~EA~~hy~qals-G~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~Ll  165 (251)
T COG4700          87 PTVQNRYRLANALAELGRYHEAVPHYQQALS-GIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHLL  165 (251)
T ss_pred             hhHHHHHHHHHHHHHhhhhhhhHHHHHHHhc-cccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchHH
Confidence            3333333444444444444444444444444 223334444444555555555555555555544321     2233344


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHH
Q 038303          283 VISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGL  332 (461)
Q Consensus       283 l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~  332 (461)
                      +.+.+...|++.+|..-|+.....  -|+...-......+.++|+.+++.
T Consensus       166 ~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~  213 (251)
T COG4700         166 FARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREAN  213 (251)
T ss_pred             HHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHH
Confidence            445555555555555555555542  333333222333344444444443

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.45  E-value=0.015  Score=44.66  Aligned_cols=93  Identities=10%  Similarity=-0.004  Sum_probs=67.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHccC--C-ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCC
Q 038303          250 NAVINMYVKCGDVGIAIQVFNMLAY--K-DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGG  326 (461)
Q Consensus       250 ~~li~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~  326 (461)
                      -.+...+...|++++|.++|+.+..  | +..-|-.|..++-..|++++|+..|.......+ -|+..+-.+..++...|
T Consensus        39 Y~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~c~L~lG  117 (157)
T PRK15363         39 YRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAECYLACD  117 (157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHHHHcC
Confidence            4455556677888888888877653  3 455667777777778888888888888777553 35577777777888888


Q ss_pred             ChHHHHHHHHHhHhhcC
Q 038303          327 LVDQGLILFKAMSTVYE  343 (461)
Q Consensus       327 ~~~~a~~~~~~~~~~~~  343 (461)
                      +.+.|.+.|+......+
T Consensus       118 ~~~~A~~aF~~Ai~~~~  134 (157)
T PRK15363        118 NVCYAIKALKAVVRICG  134 (157)
T ss_pred             CHHHHHHHHHHHHHHhc
Confidence            88888888887766443

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.42  E-value=0.038  Score=43.28  Aligned_cols=129  Identities=6%  Similarity=-0.039  Sum_probs=84.0

Q ss_pred             CCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-C-----CCchhh
Q 038303          308 VFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-P-----IEAEWS  381 (461)
Q Consensus       308 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-----~~p~~~  381 (461)
                      ..|+...-..|..+....|++.+|...|++... .-+..|......+.++....+++..|...+++. .     ..||. 
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            456666666677777777888888888777766 344556666777777777778888887777776 1     22332 


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHH
Q 038303          382 VWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEI  440 (461)
Q Consensus       382 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  440 (461)
                       .-.+.+.+...|.+..|+..|+....--| ++..-......+.+.|+.++|..-+..+
T Consensus       163 -~Ll~aR~laa~g~~a~Aesafe~a~~~yp-g~~ar~~Y~e~La~qgr~~ea~aq~~~v  219 (251)
T COG4700         163 -HLLFARTLAAQGKYADAESAFEVAISYYP-GPQARIYYAEMLAKQGRLREANAQYVAV  219 (251)
T ss_pred             -hHHHHHHHHhcCCchhHHHHHHHHHHhCC-CHHHHHHHHHHHHHhcchhHHHHHHHHH
Confidence             33455567777888888888877776443 3344455555666777766665544444

>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=97.41  E-value=0.0006  Score=44.87  Aligned_cols=48  Identities=17%  Similarity=0.243  Sum_probs=23.2

Q ss_pred             CCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC
Q 038303          325 GGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM  374 (461)
Q Consensus       325 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  374 (461)
                      .|++++|+.+|+.+..  ..+-+...+..+..+|.+.|++++|.++++++
T Consensus         4 ~~~~~~A~~~~~~~l~--~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~   51 (68)
T PF14559_consen    4 QGDYDEAIELLEKALQ--RNPDNPEARLLLAQCYLKQGQYDEAEELLERL   51 (68)
T ss_dssp             TTHHHHHHHHHHHHHH--HTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCC
T ss_pred             ccCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            4455555555555544  22234444444555555555555555555555

...

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.41  E-value=0.0074  Score=44.48  Aligned_cols=92  Identities=16%  Similarity=0.119  Sum_probs=61.6

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCCCH--hHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCC-CcchHHHHHHHHh
Q 038303          283 VISGLAMNGCGRQALQLFSLMIINAVFPDD--VTFIALISACSHGGLVDQGLILFKAMSTVYEIVP-QMQHYACVVDMYG  359 (461)
Q Consensus       283 l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~  359 (461)
                      +..++-..|+.++|+.+|++....|.....  ..+-.+..++...|++++|..+++.....+.-.+ +......+.-++.
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~   86 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALY   86 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHH
Confidence            445667788888888888888887766543  4555666778888888888888888876321100 2222223344667


Q ss_pred             hcCCHHHHHHHHHhC
Q 038303          360 RAGLLEEAEAFIREM  374 (461)
Q Consensus       360 ~~g~~~~A~~~~~~~  374 (461)
                      ..|+.++|++.+-..
T Consensus        87 ~~gr~~eAl~~~l~~  101 (120)
T PF12688_consen   87 NLGRPKEALEWLLEA  101 (120)
T ss_pred             HCCCHHHHHHHHHHH
Confidence            788888888877554

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.41  E-value=0.00088  Score=43.58  Aligned_cols=61  Identities=10%  Similarity=-0.031  Sum_probs=38.2

Q ss_pred             HHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCh
Q 038303          354 VVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSV  414 (461)
Q Consensus       354 l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  414 (461)
                      +...+.+.|++++|.+.|++. ...| +...+..+..++...|++++|...++++.+..|.++
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~~p   65 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELDPDNP   65 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-H
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCC
Confidence            345566677777777777776 3334 444555566667777777777777777777666553

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.40  E-value=0.035  Score=47.22  Aligned_cols=58  Identities=10%  Similarity=0.078  Sum_probs=33.8

Q ss_pred             HHHHHHHcCCChHHHHHHHHHhHhhcCCC-CCcchHHHHHHHHhhcCCHHHHHHHHHhC
Q 038303          317 ALISACSHGGLVDQGLILFKAMSTVYEIV-PQMQHYACVVDMYGRAGLLEEAEAFIREM  374 (461)
Q Consensus       317 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  374 (461)
                      .+.+-|.+.|.+..|..-++.+.++..-. ........++.+|.+.|..++|..+.+.+
T Consensus       180 ~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l  238 (243)
T PRK10866        180 SVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKII  238 (243)
T ss_pred             HHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            34455666677777777777666532211 22344455666777777777776665543

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.39  E-value=0.0033  Score=50.26  Aligned_cols=62  Identities=11%  Similarity=0.000  Sum_probs=30.7

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC--HhHHHHHHHHHHcCCChHHHHHHHHHhHh
Q 038303          279 SWSTVISGLAMNGCGRQALQLFSLMIINAVFPD--DVTFIALISACSHGGLVDQGLILFKAMST  340 (461)
Q Consensus       279 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  340 (461)
                      .|..+...+...|++++|+..+++.......|.  ..++..+...+...|++++|+..++....
T Consensus        37 ~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~  100 (168)
T CHL00033         37 TYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALE  100 (168)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344445555555555555555555544321111  12444455555555555555555555544

>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=97.38  E-value=0.028  Score=41.16  Aligned_cols=141  Identities=12%  Similarity=0.184  Sum_probs=91.0

Q ss_pred             HHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHH
Q 038303          287 LAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEE  366 (461)
Q Consensus       287 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  366 (461)
                      +.-.|..++..+++.+....   .+..-++.+|--....-+-+...++++.+-+.+.+.|-. ....++.+|.+.|.   
T Consensus        12 ~ildG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDis~C~-NlKrVi~C~~~~n~---   84 (161)
T PF09205_consen   12 RILDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSIGKIFDISKCG-NLKRVIECYAKRNK---   84 (161)
T ss_dssp             HHHTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-GGG-S--THHHHHHHHHTT----
T ss_pred             HHHhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhhhcCchhhc-chHHHHHHHHHhcc---
Confidence            34567888888888888764   355667777766666666666677777765533332221 12334555555443   


Q ss_pred             HHHHHHhCCCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcCCc
Q 038303          367 AEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGLK  446 (461)
Q Consensus       367 A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~  446 (461)
                                  +.......+......|+-+...++...+.....+++.....++.+|.+.|+..++.+++.+.-++|++
T Consensus        85 ------------~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   85 ------------LSEYVDLALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             --------------HHHHHHHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             ------------hHHHHHHHHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence                        33345666777889999999999999998877888999999999999999999999999999999985

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.37  E-value=0.004  Score=54.74  Aligned_cols=130  Identities=12%  Similarity=-0.032  Sum_probs=86.2

Q ss_pred             hHHHHHHHHHHcCCChHHHHHHHHHh---HhhcCCCC-CcchHHHHHHHHhhcCCHHHHHHHHHhC-------C-CCchh
Q 038303          313 VTFIALISACSHGGLVDQGLILFKAM---STVYEIVP-QMQHYACVVDMYGRAGLLEEAEAFIREM-------P-IEAEW  380 (461)
Q Consensus       313 ~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~-~~p~~  380 (461)
                      ..|..|...|.-.|+++.|+...+.-   .+.+|-+. ....+..+..+++-.|+++.|.+.++..       + .....
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            44666666666678888887765432   12233322 2455667777888888888888877654       2 12344


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHhh------cCCCChhHHHHHHHHHhccCChhhHHHHHHHHHH
Q 038303          381 SVWGALLNACRIHRNDEMFDRIRQDLVN------KKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRR  442 (461)
Q Consensus       381 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~------~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  442 (461)
                      .++.+|..+|.-..+++.|+.++.+-..      .......++..|+.+|...|..++|+.+.+.-.+
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            4667777778888888888888776443      1234466888888888888888888887776544

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.28  E-value=0.06  Score=44.74  Aligned_cols=230  Identities=8%  Similarity=-0.054  Sum_probs=112.6

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHh-hccc-hhhhHHHH-HHHHHhhcCCCCcchHHH
Q 038303          174 VVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSAC-SSIS-ALSFGKYV-HSYISTRYDLSVSNLVGN  250 (461)
Q Consensus       174 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~-~~~~-~~~~a~~~-~~~~~~~~~~~~~~~~~~  250 (461)
                      ...|+.-+..+++.+..++|..-+....+.  ..||-. |...=..+ .+.| .+.-+.++ +.++....|   ++  ++
T Consensus        69 lq~wT~r~~~l~kLR~~~~a~~EL~~f~~l--D~pdl~-Yey~p~iyp~rrGSmVPFsmR~lhAe~~~~lg---np--qe  140 (366)
T KOG2796|consen   69 LQLWTVRLALLVKLRLFQNAEMELEPFGNL--DQPDLY-YEYYPHVYPGRRGSMVPFSMRILHAELQQYLG---NP--QE  140 (366)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHhhhhhhccC--CCccee-eeeccccCCCCcCccccHHHHHHHHHHHHhcC---Cc--HH
Confidence            345666677788888888887766666543  222211 11000000 0111 12222222 222222112   11  14


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHccCC----------ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHH
Q 038303          251 AVINMYVKCGDVGIAIQVFNMLAYK----------DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALIS  320 (461)
Q Consensus       251 ~li~~~~~~g~~~~a~~~~~~~~~~----------~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~  320 (461)
                      .|.+.+.-...+++-...++.-..+          -...-+.++..+.-.|.+.-.+..+.+.++...+-++.....|.+
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            4444444333333333333322221          122344555666666777777777777777655556666667777


Q ss_pred             HHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHH-----HHHHhhcCCHHHHHHHHHhCCCC--chhhHHHHHHHHHHhc
Q 038303          321 ACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACV-----VDMYGRAGLLEEAEAFIREMPIE--AEWSVWGALLNACRIH  393 (461)
Q Consensus       321 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l-----~~~~~~~g~~~~A~~~~~~~~~~--p~~~~~~~l~~~~~~~  393 (461)
                      .-.+.|+.+.|...|+...+..+ ..+-.+.+.+     ...|.-++++.+|...+.++...  .++...|.-.-+..-.
T Consensus       221 ~~MQ~GD~k~a~~yf~~vek~~~-kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYl  299 (366)
T KOG2796|consen  221 ISMQIGDIKTAEKYFQDVEKVTQ-KLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYL  299 (366)
T ss_pred             HHHhcccHHHHHHHHHHHHHHHh-hhhccchhHHHHhhhhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHH
Confidence            77777777777777776655222 2222222222     22344455666666666666222  1222222222223335


Q ss_pred             CChHHHHHHHHHHhhcCCC
Q 038303          394 RNDEMFDRIRQDLVNKKGV  412 (461)
Q Consensus       394 ~~~~~a~~~~~~~~~~~~~  412 (461)
                      |+...|++..+.+.+..|.
T Consensus       300 g~l~DAiK~~e~~~~~~P~  318 (366)
T KOG2796|consen  300 GKLKDALKQLEAMVQQDPR  318 (366)
T ss_pred             HHHHHHHHHHHHHhccCCc
Confidence            6666676666666665554

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.26  E-value=0.0035  Score=53.68  Aligned_cols=96  Identities=9%  Similarity=0.063  Sum_probs=41.5

Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCC----cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCch----hhHHHH
Q 038303          315 FIALISACSHGGLVDQGLILFKAMSTVYEIVPQ----MQHYACVVDMYGRAGLLEEAEAFIREM-PIEAE----WSVWGA  385 (461)
Q Consensus       315 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~  385 (461)
                      |...+....+.|++++|...|+.+.+.  . |+    ...+-.+...|...|++++|...|+.+ ...|+    ...+..
T Consensus       146 Y~~A~~l~~~~~~y~~Ai~af~~fl~~--y-P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~k  222 (263)
T PRK10803        146 YNAAIALVQDKSRQDDAIVAFQNFVKK--Y-PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFK  222 (263)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHH--C-cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHH
Confidence            333333334445555555555555541  1 22    123344445555555555555555544 11111    112222


Q ss_pred             HHHHHHhcCChHHHHHHHHHHhhcCCCC
Q 038303          386 LLNACRIHRNDEMFDRIRQDLVNKKGVS  413 (461)
Q Consensus       386 l~~~~~~~~~~~~a~~~~~~~~~~~~~~  413 (461)
                      +...+...|+.+.|...++.+++..|.+
T Consensus       223 lg~~~~~~g~~~~A~~~~~~vi~~yP~s  250 (263)
T PRK10803        223 VGVIMQDKGDTAKAKAVYQQVIKKYPGT  250 (263)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCcCC
Confidence            2333444455555555555555444443

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.26  E-value=0.012  Score=43.44  Aligned_cols=104  Identities=8%  Similarity=0.012  Sum_probs=51.6

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCCCC--hhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCC-CcchHHHHHHHHH
Q 038303          180 MIGGYAERGFCKEAVSVFQEMEKTKEAEPN--EATLVNVLSACSSISALSFGKYVHSYISTRYDLS-VSNLVGNAVINMY  256 (461)
Q Consensus       180 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~--~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~li~~~  256 (461)
                      +..++-..|+.++|+.+|++....| ....  ...+..+...+...|++++|..+++.......-. .+......+..++
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~g-L~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L   85 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAG-LSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALAL   85 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcC-CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHH
Confidence            3455667788888888888887765 4433  2234444445555566666666665554421110 0111112222344


Q ss_pred             HhcCCHHHHHHHHHHccCCChhhHHHHH
Q 038303          257 VKCGDVGIAIQVFNMLAYKDKISWSTVI  284 (461)
Q Consensus       257 ~~~g~~~~a~~~~~~~~~~~~~~~~~l~  284 (461)
                      ...|+.++|.+.+-....++...|..-|
T Consensus        86 ~~~gr~~eAl~~~l~~la~~~~~y~ra~  113 (120)
T PF12688_consen   86 YNLGRPKEALEWLLEALAETLPRYRRAI  113 (120)
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555555555555443333333333333

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.26  E-value=0.064  Score=44.30  Aligned_cols=165  Identities=10%  Similarity=0.015  Sum_probs=90.8

Q ss_pred             HHHHHhcCCHHHHHHHHHHccC--CC----hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcC-
Q 038303          253 INMYVKCGDVGIAIQVFNMLAY--KD----KISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHG-  325 (461)
Q Consensus       253 i~~~~~~g~~~~a~~~~~~~~~--~~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~-  325 (461)
                      ...+...|++++|.+.|+.+..  |+    ....-.++.++.+.|+++.|...++++.+.-..-....+...+.+.+.. 
T Consensus        12 a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~~~   91 (203)
T PF13525_consen   12 ALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSYYK   91 (203)
T ss_dssp             HHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHH
Confidence            3445567777777777777663  21    2334456667777788888888888877642221122233222222111 


Q ss_pred             ------------CChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCchhhHHHHHHHHHHhc
Q 038303          326 ------------GLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIH  393 (461)
Q Consensus       326 ------------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~  393 (461)
                                  +....|..                .+..++.-|=.+....+|...+..+...--...+ .+..-|.+.
T Consensus        92 ~~~~~~~~~~D~~~~~~A~~----------------~~~~li~~yP~S~y~~~A~~~l~~l~~~la~~e~-~ia~~Y~~~  154 (203)
T PF13525_consen   92 QIPGILRSDRDQTSTRKAIE----------------EFEELIKRYPNSEYAEEAKKRLAELRNRLAEHEL-YIARFYYKR  154 (203)
T ss_dssp             HHHHHH-TT---HHHHHHHH----------------HHHHHHHH-TTSTTHHHHHHHHHHHHHHHHHHHH-HHHHHHHCT
T ss_pred             hCccchhcccChHHHHHHHH----------------HHHHHHHHCcCchHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHc
Confidence                        11122222                3334444555555555565555544211111111 134458899


Q ss_pred             CChHHHHHHHHHHhhcCCCCh---hHHHHHHHHHhccCChhhHH
Q 038303          394 RNDEMFDRIRQDLVNKKGVSV---GTFALMSNTFAGADRWEDTN  434 (461)
Q Consensus       394 ~~~~~a~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~  434 (461)
                      |.+..|..-++.+++..|.+.   .+...++.+|.+.|..+.|.
T Consensus       155 ~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  155 GKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             T-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             ccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            999999999999999877764   45678888899999887544

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.24  E-value=0.1  Score=46.75  Aligned_cols=161  Identities=15%  Similarity=0.047  Sum_probs=96.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHccCC-------ChhhHHHHHHHHHh---cCChHHHHHHHHHHHhcCCCCCHhHHHHHH
Q 038303          250 NAVINMYVKCGDVGIAIQVFNMLAYK-------DKISWSTVISGLAM---NGCGRQALQLFSLMIINAVFPDDVTFIALI  319 (461)
Q Consensus       250 ~~li~~~~~~g~~~~a~~~~~~~~~~-------~~~~~~~l~~~~~~---~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll  319 (461)
                      -.++-+|-...+++...++.+.+...       ....-....-++.+   .|+.++|+.++..+....-.++..+|..+.
T Consensus       145 ~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~G  224 (374)
T PF13281_consen  145 INLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLG  224 (374)
T ss_pred             HHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHH
Confidence            34555677777777777777777653       11112233345556   788888888888866666677778887777


Q ss_pred             HHHHc---------CCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHH----HHHHHH---HhC-------CC
Q 038303          320 SACSH---------GGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLE----EAEAFI---REM-------PI  376 (461)
Q Consensus       320 ~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~----~A~~~~---~~~-------~~  376 (461)
                      +.|-.         ....++|+..|.+.-+   +.|+...--.++..+.-.|...    +..++-   ..+       ..
T Consensus       225 RIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe---~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~  301 (374)
T PF13281_consen  225 RIYKDLFLESNFTDRESLDKAIEWYRKGFE---IEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEK  301 (374)
T ss_pred             HHHHHHHHHcCccchHHHHHHHHHHHHHHc---CCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhccccc
Confidence            66532         2246677777776543   3454333222233333333322    222222   111       11


Q ss_pred             CchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCC
Q 038303          377 EAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVS  413 (461)
Q Consensus       377 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  413 (461)
                      ..+--.+.+++.++.-.|+.+.|.+..+++....||.
T Consensus       302 ~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~~~  338 (374)
T PF13281_consen  302 MQDYWDVATLLEASVLAGDYEKAIQAAEKAFKLKPPA  338 (374)
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCcc
Confidence            2344456677888888999999999999998877665

>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=97.19  E-value=0.0015  Score=50.81  Aligned_cols=71  Identities=13%  Similarity=0.145  Sum_probs=54.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHH-----HHcCCccccCcc
Q 038303          382 VWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEI-----RRMGLKKKTGCS  452 (461)
Q Consensus       382 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m-----~~~g~~~~~~~~  452 (461)
                      ....++..+...|+++.|...++.+....|-+...|..++.+|...|+..+|.+.++++     .+.|+.|++.+.
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            34556666788999999999999999999999999999999999999999999999887     346888887643

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.18  E-value=0.027  Score=46.64  Aligned_cols=140  Identities=11%  Similarity=0.028  Sum_probs=98.8

Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHH---
Q 038303          173 NVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVG---  249 (461)
Q Consensus       173 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~---  249 (461)
                      -..+.+.++.++.-.|.+.-....+++.++.. .+.++.....+.....+.|+.+.|...|+...+ .....+....   
T Consensus       176 l~~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~-~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek-~~~kL~~~q~~~~  253 (366)
T KOG2796|consen  176 LGRVMYSMANCLLGMKEYVLSVDAYHSVIKYY-PEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEK-VTQKLDGLQGKIM  253 (366)
T ss_pred             HHHHHHHHHHHHhcchhhhhhHHHHHHHHHhC-CcccHHHHHHHHHHHHhcccHHHHHHHHHHHHH-HHhhhhccchhHH
Confidence            34556778888888899999999999998865 566777788888888899999999999997766 3333333333   


Q ss_pred             --HHHHHHHHhcCCHHHHHHHHHHccCC---ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHH
Q 038303          250 --NAVINMYVKCGDVGIAIQVFNMLAYK---DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFI  316 (461)
Q Consensus       250 --~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~  316 (461)
                        ......|.-.+++..|...+.++...   |+..-|.-.-++.-.|+..+|++.++.|.+.  .|...+-+
T Consensus       254 V~~n~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~--~P~~~l~e  323 (366)
T KOG2796|consen  254 VLMNSAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ--DPRHYLHE  323 (366)
T ss_pred             HHhhhhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc--CCccchhh
Confidence              33334556677788888888777744   4444555555555678888888888888874  44444444

>PRK15331 chaperone protein SicA; Provisional

Probab=97.13  E-value=0.0045  Score=47.70  Aligned_cols=83  Identities=11%  Similarity=0.049  Sum_probs=40.6

Q ss_pred             hcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHH
Q 038303          360 RAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIR  437 (461)
Q Consensus       360 ~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  437 (461)
                      ..|++++|..+|+-+ -..| +..-|..|..++-..++++.|+..|.......+.|+..+...+.+|...|+.+.|...|
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~~~f  128 (165)
T PRK15331         49 NQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRKAAKARQCF  128 (165)
T ss_pred             HCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCCHHHHHHHH
Confidence            445555555555544 1111 22223333333445555555555555555544555555555555555555555555555


Q ss_pred             HHHHH
Q 038303          438 DEIRR  442 (461)
Q Consensus       438 ~~m~~  442 (461)
                      +...+
T Consensus       129 ~~a~~  133 (165)
T PRK15331        129 ELVNE  133 (165)
T ss_pred             HHHHh
Confidence            55444

>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=97.11  E-value=0.0069  Score=45.14  Aligned_cols=82  Identities=15%  Similarity=0.160  Sum_probs=54.4

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHH---------------HhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhc
Q 038303          278 ISWSTVISGLAMNGCGRQALQLFSLM---------------IINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVY  342 (461)
Q Consensus       278 ~~~~~l~~~~~~~~~~~~a~~~~~~m---------------~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  342 (461)
                      .++..++.++++.|+.+....+++..               ......|+..+..+++.+|+..+++..|.++++...+..
T Consensus         3 ~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y   82 (126)
T PF12921_consen    3 ELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKY   82 (126)
T ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHc
Confidence            34444455555555555544444332               122356778888888888888888888888888888877


Q ss_pred             CCCCCcchHHHHHHHHh
Q 038303          343 EIVPQMQHYACVVDMYG  359 (461)
Q Consensus       343 ~~~~~~~~~~~l~~~~~  359 (461)
                      +++.+..+|..|++-..
T Consensus        83 ~I~i~~~~W~~Ll~W~~   99 (126)
T PF12921_consen   83 PIPIPKEFWRRLLEWAY   99 (126)
T ss_pred             CCCCCHHHHHHHHHHHH
Confidence            87777778887776543

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>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=97.11  E-value=0.0018  Score=42.69  Aligned_cols=64  Identities=13%  Similarity=0.033  Sum_probs=40.8

Q ss_pred             cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcC-ChHHHHHHHHHHhhcCC
Q 038303          348 MQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHR-NDEMFDRIRQDLVNKKG  411 (461)
Q Consensus       348 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~  411 (461)
                      ...|..+...+...|++++|+..|++. ...| +...|..+..++...| ++++|+..+++.++..|
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            345666666677777777777777766 2223 4445666666667776 57777777777766544

...

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.05  E-value=0.0041  Score=54.66  Aligned_cols=260  Identities=10%  Similarity=-0.012  Sum_probs=152.5

Q ss_pred             hHHHHHH--HHHhhCCHHHHHHHHHHHHHhCCCccH----HHHHHHHHHHHhcCCHHHHHHHHhhC-------C--CCCc
Q 038303           12 TFTQALK--ACSLAHPHQKALEIHAHVIEYGHLHDI----FIQNSLLHFYVTVKDIFSAHQIFNSV-------V--FPDV   76 (461)
Q Consensus        12 ~~~~ll~--~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~~-------~--~~~~   76 (461)
                      .|...+.  -+++.|+......+|+..++.|.. |.    ..|..|-.+|.-.+++++|++.-..-       .  .-..
T Consensus        17 CleLalEGERLck~gdcraGv~ff~aA~qvGTe-Dl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEA   95 (639)
T KOG1130|consen   17 CLELALEGERLCKMGDCRAGVDFFKAALQVGTE-DLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEA   95 (639)
T ss_pred             HHHHHHHHHHHHhccchhhhHHHHHHHHHhcch-HHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccc
Confidence            3444443  488999999999999999998854 33    36677777888889999998875422       0  1122


Q ss_pred             eeHHHHHHHHHcCCChHHHHHHHh-cC------CC-CCCchhHHHHHHHhcccch--------------------hHHHH
Q 038303           77 VSWTTIISGLSKCGFHKEAIDMFC-GI------DV-KPNANTLVSVLSACSSLVS--------------------HKLGK  128 (461)
Q Consensus        77 ~~~~~li~~~~~~~~~~~a~~~~~-~m------~~-~p~~~~~~~ll~~~~~~~~--------------------~~~a~  128 (461)
                      .+...|.+.+--.|.+++|+-+.. .+      |- ......+..+...|...|+                    ++.|.
T Consensus        96 KssgNLGNtlKv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av  175 (639)
T KOG1130|consen   96 KSSGNLGNTLKVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAV  175 (639)
T ss_pred             cccccccchhhhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHH
Confidence            333445555556677777765432 22      11 1123334444444433222                    33344


Q ss_pred             HHHHHHHhh----cCC-CChhHHHHHHHHHHHcCChhhHHHHHhcCCC---------CchhHHHHHHHHHHhcCChHHHH
Q 038303          129 AIHAHSLRN----LNE-NNIILDNAILDFYIRCGSLASCGYLFVKMPK---------RNVVSWTTMIGGYAERGFCKEAV  194 (461)
Q Consensus       129 ~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---------~~~~~~~~li~~~~~~~~~~~a~  194 (461)
                      ++|.+-++.    |-. .--..|..|.+.|.-.|+++.|+...+.-..         .....+..+.+++.-.|+++.|.
T Consensus       176 ~fy~eNL~l~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~  255 (639)
T KOG1130|consen  176 KFYMENLELSEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAI  255 (639)
T ss_pred             HHHHHHHHHHHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHH
Confidence            444433221    100 0123345555566667888888766544321         23346777888888889999998


Q ss_pred             HHHHHHH----hcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhh----cCCCCcchHHHHHHHHHHhcCCHHHHH
Q 038303          195 SVFQEME----KTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTR----YDLSVSNLVGNAVINMYVKCGDVGIAI  266 (461)
Q Consensus       195 ~~~~~m~----~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~~li~~~~~~g~~~~a~  266 (461)
                      +.|+...    +.|+-.....+.-++-+.|.-..+++.|+.++..-...    ....-....+-+|..+|...|..++|.
T Consensus       256 ehYK~tl~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl  335 (639)
T KOG1130|consen  256 EHYKLTLNLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKAL  335 (639)
T ss_pred             HHHHHHHHHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHH
Confidence            8887653    33323334445556666666677777777766543321    112223446677888888888888887


Q ss_pred             HHHHHc
Q 038303          267 QVFNML  272 (461)
Q Consensus       267 ~~~~~~  272 (461)
                      .+.+.-
T Consensus       336 ~fae~h  341 (639)
T KOG1130|consen  336 YFAELH  341 (639)
T ss_pred             HHHHHH
Confidence            766543

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.01  E-value=0.18  Score=47.54  Aligned_cols=56  Identities=14%  Similarity=0.167  Sum_probs=33.1

Q ss_pred             HHHHHHHHHhhCCHH--HHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhC
Q 038303           13 FTQALKACSLAHPHQ--KALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSV   71 (461)
Q Consensus        13 ~~~ll~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~   71 (461)
                      ++..=++|.+-++..  +...-++++++.|-.|+...   +...++-.|++.+|.++|.+-
T Consensus       601 f~~ARkAY~rVRdl~~L~li~EL~~~k~rge~P~~iL---lA~~~Ay~gKF~EAAklFk~~  658 (1081)
T KOG1538|consen  601 FETARKAYIRVRDLRYLELISELEERKKRGETPNDLL---LADVFAYQGKFHEAAKLFKRS  658 (1081)
T ss_pred             hHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCchHHH---HHHHHHhhhhHHHHHHHHHHc
Confidence            344445555555433  23333455666676677654   445667788888888887654

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.92  E-value=0.019  Score=49.24  Aligned_cols=93  Identities=15%  Similarity=0.112  Sum_probs=41.0

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH----hHHHHHHHHHHcCCChHHHHHHHHHhHhhcCC-CCCcchHHHH
Q 038303          280 WSTVISGLAMNGCGRQALQLFSLMIINAVFPDD----VTFIALISACSHGGLVDQGLILFKAMSTVYEI-VPQMQHYACV  354 (461)
Q Consensus       280 ~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~l  354 (461)
                      |...+..+.+.|++++|...|+.+.+.-  |+.    ..+-.+..+|...|++++|...|+.+.+...- +.....+..+
T Consensus       146 Y~~A~~l~~~~~~y~~Ai~af~~fl~~y--P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~kl  223 (263)
T PRK10803        146 YNAAIALVQDKSRQDDAIVAFQNFVKKY--PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKV  223 (263)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHH
Confidence            3333333344455555555555555432  222    24444445555555555555555555441111 1112223333


Q ss_pred             HHHHhhcCCHHHHHHHHHhC
Q 038303          355 VDMYGRAGLLEEAEAFIREM  374 (461)
Q Consensus       355 ~~~~~~~g~~~~A~~~~~~~  374 (461)
                      ...+...|+.++|...+++.
T Consensus       224 g~~~~~~g~~~~A~~~~~~v  243 (263)
T PRK10803        224 GVIMQDKGDTAKAKAVYQQV  243 (263)
T ss_pred             HHHHHHcCCHHHHHHHHHHH
Confidence            44444555555555555544

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=96.92  E-value=0.013  Score=47.32  Aligned_cols=88  Identities=7%  Similarity=0.131  Sum_probs=60.7

Q ss_pred             CchhHHHHHHHHHHh-----cCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhcc----------------chhhhHH
Q 038303          172 RNVVSWTTMIGGYAE-----RGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSI----------------SALSFGK  230 (461)
Q Consensus       172 ~~~~~~~~li~~~~~-----~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~----------------~~~~~a~  230 (461)
                      .+..+|..++..|.+     .|..+=....+..|.+-| +.-|..+|+.+++.+=+.                .+-+-+.
T Consensus        45 k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efg-v~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i  123 (228)
T PF06239_consen   45 KDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFG-VEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAI  123 (228)
T ss_pred             ccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcC-CcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHH
Confidence            556666666666654     356666677777777777 888888888888775432                3455677


Q ss_pred             HHHHHHHhhcCCCCcchHHHHHHHHHHhcCC
Q 038303          231 YVHSYISTRYDLSVSNLVGNAVINMYVKCGD  261 (461)
Q Consensus       231 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  261 (461)
                      +++++|.. .|+-||..++..|++.+++.+.
T Consensus       124 ~lL~qME~-~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  124 DLLEQMEN-NGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHH-cCCCCcHHHHHHHHHHhccccH
Confidence            77777777 7777777777777777765544

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.90  E-value=0.32  Score=46.44  Aligned_cols=204  Identities=11%  Similarity=0.015  Sum_probs=111.8

Q ss_pred             CCChhHHHHHHHHHHHcCChhhHHHHHhcCCC-CchhHH------------HHHHHHHHhcCChHHHHHHHHHHHhcCCC
Q 038303          140 ENNIILDNAILDFYIRCGSLASCGYLFVKMPK-RNVVSW------------TTMIGGYAERGFCKEAVSVFQEMEKTKEA  206 (461)
Q Consensus       140 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~------------~~li~~~~~~~~~~~a~~~~~~m~~~~~~  206 (461)
                      .|.+..|..+.......-.++.|+..|-+... +.+..-            .+=|.+  --|++++|.++|-+|.+..  
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~--~~g~feeaek~yld~drrD--  764 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISA--FYGEFEEAEKLYLDADRRD--  764 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhh--hhcchhHhhhhhhccchhh--
Confidence            46677777777776666677777777666553 221111            111112  2367778877777775542  


Q ss_pred             CCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCCChhhHHHHHHH
Q 038303          207 EPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISG  286 (461)
Q Consensus       207 ~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~  286 (461)
                              ..+....+.|++-.+.++++.-........-...++.+...+.....+++|.+.|..-...     ...+.+
T Consensus       765 --------LAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~~-----e~~~ec  831 (1189)
T KOG2041|consen  765 --------LAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGDT-----ENQIEC  831 (1189)
T ss_pred             --------hhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccch-----HhHHHH
Confidence                    2344455556665555554431110011111235566666666666777777666544321     123444


Q ss_pred             HHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHH
Q 038303          287 LAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEE  366 (461)
Q Consensus       287 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  366 (461)
                      +.+...+++-+.+.+.+     +-+....-.+..++.+.|.-++|.+.|-+-..     |.     .-+..|...++|.+
T Consensus       832 ly~le~f~~LE~la~~L-----pe~s~llp~~a~mf~svGMC~qAV~a~Lr~s~-----pk-----aAv~tCv~LnQW~~  896 (1189)
T KOG2041|consen  832 LYRLELFGELEVLARTL-----PEDSELLPVMADMFTSVGMCDQAVEAYLRRSL-----PK-----AAVHTCVELNQWGE  896 (1189)
T ss_pred             HHHHHhhhhHHHHHHhc-----CcccchHHHHHHHHHhhchHHHHHHHHHhccC-----cH-----HHHHHHHHHHHHHH
Confidence            55555555544444433     22445555666777788888877776633221     22     23566777778888


Q ss_pred             HHHHHHhCC
Q 038303          367 AEAFIREMP  375 (461)
Q Consensus       367 A~~~~~~~~  375 (461)
                      |.++-++..
T Consensus       897 avelaq~~~  905 (1189)
T KOG2041|consen  897 AVELAQRFQ  905 (1189)
T ss_pred             HHHHHHhcc
Confidence            888777663

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=96.89  E-value=0.00087  Score=36.70  Aligned_cols=33  Identities=6%  Similarity=0.190  Sum_probs=30.2

Q ss_pred             HHHHhhcCCCChhHHHHHHHHHhccCChhhHHH
Q 038303          403 RQDLVNKKGVSVGTFALMSNTFAGADRWEDTNK  435 (461)
Q Consensus       403 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  435 (461)
                      +++.++..|.++.+|..++..|...|++++|++
T Consensus         2 y~kAie~~P~n~~a~~nla~~~~~~g~~~~A~~   34 (34)
T PF13431_consen    2 YKKAIELNPNNAEAYNNLANLYLNQGDYEEAIA   34 (34)
T ss_pred             hHHHHHHCCCCHHHHHHHHHHHHHCcCHHhhcC
Confidence            678888999999999999999999999999863

>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=96.83  E-value=0.0034  Score=42.60  Aligned_cols=61  Identities=8%  Similarity=0.071  Sum_probs=43.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhhc---CC----CChhHHHHHHHHHhccCChhhHHHHHHHHHH
Q 038303          382 VWGALLNACRIHRNDEMFDRIRQDLVNK---KG----VSVGTFALMSNTFAGADRWEDTNKIRDEIRR  442 (461)
Q Consensus       382 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~----~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  442 (461)
                      +++.+...|...|++++|+..+++..+.   .+    ....++..++.+|...|++++|++.+++..+
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            5566666677888888888888777752   11    1255788888888888998888888887654

...

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=96.81  E-value=0.05  Score=46.34  Aligned_cols=102  Identities=12%  Similarity=0.021  Sum_probs=71.8

Q ss_pred             CHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhc---CCHHHHHHHHHhC-CCCchhh-HHHH
Q 038303          311 DDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRA---GLLEEAEAFIREM-PIEAEWS-VWGA  385 (461)
Q Consensus       311 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~~~A~~~~~~~-~~~p~~~-~~~~  385 (461)
                      |...|..|...|...|+++.|..-|....+.  -++++..+..+.+++...   ....++..+|+++ ...|+.. ....
T Consensus       155 d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL--~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~l  232 (287)
T COG4235         155 DAEGWDLLGRAYMALGRASDALLAYRNALRL--AGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALSL  232 (287)
T ss_pred             CchhHHHHHHHHHHhcchhHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHHH
Confidence            5678888888888888888888888888773  335566666666665433   2355777888887 4445444 4444


Q ss_pred             HHHHHHhcCChHHHHHHHHHHhhcCCCCh
Q 038303          386 LLNACRIHRNDEMFDRIRQDLVNKKGVSV  414 (461)
Q Consensus       386 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  414 (461)
                      |...+...|++.+|...|+.|.+..|++.
T Consensus       233 LA~~afe~g~~~~A~~~Wq~lL~~lp~~~  261 (287)
T COG4235         233 LAFAAFEQGDYAEAAAAWQMLLDLLPADD  261 (287)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcCCCCC
Confidence            44558888888888888888888776654

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.76  E-value=0.0077  Score=54.44  Aligned_cols=97  Identities=9%  Similarity=0.049  Sum_probs=64.0

Q ss_pred             CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCchhh----HHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHH
Q 038303          347 QMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAEWS----VWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMS  421 (461)
Q Consensus       347 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~  421 (461)
                      +...++.+..+|.+.|++++|+..|++. .+.|+..    +|..+..+|...|+.++|+..++++++..++   .|..+.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALelsn~---~f~~i~  150 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRDYNL---KFSTIL  150 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcch---hHHHHH
Confidence            4567777888888888888888888875 5566643    4777778888888888888888888875322   222111


Q ss_pred             H--HHhccCChhhHHHHHHHHHHcCCc
Q 038303          422 N--TFAGADRWEDTNKIRDEIRRMGLK  446 (461)
Q Consensus       422 ~--~~~~~g~~~~A~~~~~~m~~~g~~  446 (461)
                      .  .+....+.++..++++...+-|..
T Consensus       151 ~DpdL~plR~~pef~eLlee~rk~G~~  177 (453)
T PLN03098        151 NDPDLAPFRASPEFKELQEEARKGGED  177 (453)
T ss_pred             hCcchhhhcccHHHHHHHHHHHHhCCc
Confidence            1  112233445666777777776654

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.66  E-value=0.43  Score=42.32  Aligned_cols=288  Identities=12%  Similarity=0.063  Sum_probs=156.6

Q ss_pred             eHHHHHHHHHc--CCChHHHHHHHhcC--CCCCCchhHHHHHHH--hcccchhHHHHHHHHHHHhhcCCCChhHHHHHHH
Q 038303           78 SWTTIISGLSK--CGFHKEAIDMFCGI--DVKPNANTLVSVLSA--CSSLVSHKLGKAIHAHSLRNLNENNIILDNAILD  151 (461)
Q Consensus        78 ~~~~li~~~~~--~~~~~~a~~~~~~m--~~~p~~~~~~~ll~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  151 (461)
                      .|..|-.++..  .|+-..|.+.-.+.  -+.-|......++.+  ..-.|+.+.|.+-|+.|... ++.-.--...|.-
T Consensus        84 gyqALStGliAagAGda~lARkmt~~~~~llssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d-PEtRllGLRgLyl  162 (531)
T COG3898          84 GYQALSTGLIAAGAGDASLARKMTARASKLLSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD-PETRLLGLRGLYL  162 (531)
T ss_pred             HHHHHhhhhhhhccCchHHHHHHHHHHHhhhhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC-hHHHHHhHHHHHH
Confidence            45555555543  46777777776665  344566666666655  33568888888888888763 1101111122333


Q ss_pred             HHHHcCChhhHHHHHhcCCC--C-chhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhH--HHHHHHhh---cc
Q 038303          152 FYIRCGSLASCGYLFVKMPK--R-NVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATL--VNVLSACS---SI  223 (461)
Q Consensus       152 ~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~--~~~l~~~~---~~  223 (461)
                      .--+.|+.+.|..+-++.-.  | -.-.+...+...+..|+|+.|+++++.-....-+.++..--  ..++.+-.   -.
T Consensus       163 eAqr~GareaAr~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ld  242 (531)
T COG3898         163 EAQRLGAREAARHYAERAAEKAPQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLD  242 (531)
T ss_pred             HHHhcccHHHHHHHHHHHHhhccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhc
Confidence            33466777777777666543  2 23467778888888999999998888776654344554322  12222211   01


Q ss_pred             chhhhHHHHHHHHHhhcCCCCcchHH-HHHHHHHHhcCCHHHHHHHHHHccCCChhhHHHHHHHHHhcCChHHHHHHHHH
Q 038303          224 SALSFGKYVHSYISTRYDLSVSNLVG-NAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSL  302 (461)
Q Consensus       224 ~~~~~a~~~~~~~~~~~~~~~~~~~~-~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  302 (461)
                      .+...|...-.+.   ..+.|+..-- -.-..++.+.|++.++-.+++.+-+..+..--..+....+.|+  .++.-+++
T Consensus       243 adp~~Ar~~A~~a---~KL~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~ia~lY~~ar~gd--ta~dRlkR  317 (531)
T COG3898         243 ADPASARDDALEA---NKLAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPDIALLYVRARSGD--TALDRLKR  317 (531)
T ss_pred             CChHHHHHHHHHH---hhcCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChHHHHHHHHhcCCC--cHHHHHHH
Confidence            1233333332222   3344443321 2234567777888877777777764322222222233344444  23333333


Q ss_pred             HHh-cCCCCCH-hHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHh-hcCCHHHHHHHHHhC
Q 038303          303 MII-NAVFPDD-VTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYG-RAGLLEEAEAFIREM  374 (461)
Q Consensus       303 m~~-~g~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~g~~~~A~~~~~~~  374 (461)
                      ... ..++||. .+...+.++-...|++..|..--+....   ..|....|..|.+.-. ..|+-.++..++.+.
T Consensus       318 a~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r---~~pres~~lLlAdIeeAetGDqg~vR~wlAqa  389 (531)
T COG3898         318 AKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAR---EAPRESAYLLLADIEEAETGDQGKVRQWLAQA  389 (531)
T ss_pred             HHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhh---hCchhhHHHHHHHHHhhccCchHHHHHHHHHH
Confidence            221 1134443 5555666666777777777665554433   4566666666655443 347777777777666

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.65  E-value=0.14  Score=42.38  Aligned_cols=85  Identities=14%  Similarity=0.162  Sum_probs=45.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCC-cchHHHHHHHH
Q 038303          280 WSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQ-MQHYACVVDMY  358 (461)
Q Consensus       280 ~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~  358 (461)
                      +..++.-|-...-..+|...+..+.+.    -...--.+...|.+.|.+..|..-++.+.++..-.+. ......++.+|
T Consensus       113 ~~~li~~yP~S~y~~~A~~~l~~l~~~----la~~e~~ia~~Y~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y  188 (203)
T PF13525_consen  113 FEELIKRYPNSEYAEEAKKRLAELRNR----LAEHELYIARFYYKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAY  188 (203)
T ss_dssp             HHHHHHH-TTSTTHHHHHHHHHHHHHH----HHHHHHHHHHHHHCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCcCchHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHH
Confidence            344455555555556665555555432    0111123556677888888888888887773211111 23455677778


Q ss_pred             hhcCCHHHHH
Q 038303          359 GRAGLLEEAE  368 (461)
Q Consensus       359 ~~~g~~~~A~  368 (461)
                      .+.|..+.|.
T Consensus       189 ~~l~~~~~a~  198 (203)
T PF13525_consen  189 YKLGLKQAAD  198 (203)
T ss_dssp             HHTT-HHHHH
T ss_pred             HHhCChHHHH
Confidence            8887777443

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.65  E-value=0.49  Score=42.81  Aligned_cols=128  Identities=9%  Similarity=0.068  Sum_probs=101.1

Q ss_pred             hHHHHHHHHHHcCCChHHHHHHHHHhHhhcC-CCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCchhhHH-HHHHHH
Q 038303          313 VTFIALISACSHGGLVDQGLILFKAMSTVYE-IVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAEWSVW-GALLNA  389 (461)
Q Consensus       313 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~-~~l~~~  389 (461)
                      ..|...+.+-.+..-++.|..+|-+..+ .+ ..+++.++++++..++ .|+...|.++|+-- ..-||...| +-.+.-
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 FVFCVHLNYVLRKRGLEAARKLFIKLRK-EGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLKFPDSTLYKEKYLLF  475 (660)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHhc-cCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHhCCCchHHHHHHHHH
Confidence            4566777777788889999999999988 56 6789999999998775 58899999999865 444666555 445556


Q ss_pred             HHhcCChHHHHHHHHHHhhcCCCC--hhHHHHHHHHHhccCChhhHHHHHHHHHH
Q 038303          390 CRIHRNDEMFDRIRQDLVNKKGVS--VGTFALMSNTFAGADRWEDTNKIRDEIRR  442 (461)
Q Consensus       390 ~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  442 (461)
                      +...++-+.|..+|+..++....+  ...|..++.--..-|+...|..+=++|.+
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            778899999999999877644333  56899999998999999888877777654

>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=96.53  E-value=0.0077  Score=40.79  Aligned_cols=59  Identities=14%  Similarity=0.093  Sum_probs=30.3

Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHhC-------C-CCch-hhHHHHHHHHHHhcCChHHHHHHHHHHhh
Q 038303          350 HYACVVDMYGRAGLLEEAEAFIREM-------P-IEAE-WSVWGALLNACRIHRNDEMFDRIRQDLVN  408 (461)
Q Consensus       350 ~~~~l~~~~~~~g~~~~A~~~~~~~-------~-~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  408 (461)
                      +++.+...|...|++++|+..|++.       + ..|+ ..++..+...+...|++++|++.+++..+
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3444555555555555555555444       1 1122 33455555556666666666666666543

...

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.52  E-value=0.54  Score=41.76  Aligned_cols=277  Identities=12%  Similarity=0.049  Sum_probs=162.9

Q ss_pred             cCChhhHHHHHhcCCC---CchhHHHHHHHH--HHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHH
Q 038303          156 CGSLASCGYLFVKMPK---RNVVSWTTMIGG--YAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGK  230 (461)
Q Consensus       156 ~g~~~~a~~~~~~~~~---~~~~~~~~li~~--~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~  230 (461)
                      .|+-..|.++-.+..+   .|....-.++.+  -.-.|+++.|.+-|+.|....  .--.--...+.-..-+.|..+.|.
T Consensus        97 AGda~lARkmt~~~~~llssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~dP--EtRllGLRgLyleAqr~GareaAr  174 (531)
T COG3898          97 AGDASLARKMTARASKLLSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDDP--ETRLLGLRGLYLEAQRLGAREAAR  174 (531)
T ss_pred             cCchHHHHHHHHHHHhhhhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcCh--HHHHHhHHHHHHHHHhcccHHHHH
Confidence            4566666655544432   344444444432  334678888888888886521  111112233333345567777777


Q ss_pred             HHHHHHHhhcCCCCc-chHHHHHHHHHHhcCCHHHHHHHHHHcc-----CCChh--hHHHHHHHHH---hcCChHHHHHH
Q 038303          231 YVHSYISTRYDLSVS-NLVGNAVINMYVKCGDVGIAIQVFNMLA-----YKDKI--SWSTVISGLA---MNGCGRQALQL  299 (461)
Q Consensus       231 ~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~-----~~~~~--~~~~l~~~~~---~~~~~~~a~~~  299 (461)
                      ++-+....   ..|. ......++...+..|+++.|+++++.-.     +++..  .--.|+.+-+   -.-+...|...
T Consensus       175 ~yAe~Aa~---~Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~  251 (531)
T COG3898         175 HYAERAAE---KAPQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDD  251 (531)
T ss_pred             HHHHHHHh---hccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHH
Confidence            77666644   2232 3456777888888888888888886544     23321  1122222211   12235555555


Q ss_pred             HHHHHhcCCCCCHhH-HHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC----
Q 038303          300 FSLMIINAVFPDDVT-FIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM----  374 (461)
Q Consensus       300 ~~~m~~~g~~p~~~~-~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----  374 (461)
                      -.+..+  +.||... -.....++.+.|+..++-.+++.+-+   ..|.+.++...+  +.+.|+  .+..-+++.    
T Consensus       252 A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK---~ePHP~ia~lY~--~ar~gd--ta~dRlkRa~~L~  322 (531)
T COG3898         252 ALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAWK---AEPHPDIALLYV--RARSGD--TALDRLKRAKKLE  322 (531)
T ss_pred             HHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHHh---cCCChHHHHHHH--HhcCCC--cHHHHHHHHHHHH
Confidence            554444  5666533 33345678899999999999999866   345555543332  334454  333333332    


Q ss_pred             CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhcc-CChhhHHHHHHHHHHcCCcc
Q 038303          375 PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGA-DRWEDTNKIRDEIRRMGLKK  447 (461)
Q Consensus       375 ~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~m~~~g~~~  447 (461)
                      ..+| +..+.-.+..+....|++..|..-.+...+..|. .+.|..|.+.-... |+-+++...+-+..+..-.|
T Consensus       323 slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~~pr-es~~lLlAdIeeAetGDqg~vR~wlAqav~APrdP  396 (531)
T COG3898         323 SLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAREAPR-ESAYLLLADIEEAETGDQGKVRQWLAQAVKAPRDP  396 (531)
T ss_pred             hcCccchHHHHHHHHHHHhccchHHHHHHHHHHhhhCch-hhHHHHHHHHHhhccCchHHHHHHHHHHhcCCCCC
Confidence            2333 4445566677778889999998888877766654 55788888876554 99999999887776654433

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.51  E-value=0.57  Score=41.90  Aligned_cols=148  Identities=9%  Similarity=-0.083  Sum_probs=85.0

Q ss_pred             hhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHH--HHHhcCCHHHHHHHHHHccCCChhh---------------HHH
Q 038303          220 CSSISALSFGKYVHSYISTRYDLSVSNLVGNAVIN--MYVKCGDVGIAIQVFNMLAYKDKIS---------------WST  282 (461)
Q Consensus       220 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~--~~~~~g~~~~a~~~~~~~~~~~~~~---------------~~~  282 (461)
                      +.-.++.++|..+-..+.+......    +..+++  ++.-.++.+.|...|++...-++..               +..
T Consensus       179 l~~~~~~~~a~~ea~~ilkld~~n~----~al~vrg~~~yy~~~~~ka~~hf~qal~ldpdh~~sk~~~~~~k~le~~k~  254 (486)
T KOG0550|consen  179 LAFLGDYDEAQSEAIDILKLDATNA----EALYVRGLCLYYNDNADKAINHFQQALRLDPDHQKSKSASMMPKKLEVKKE  254 (486)
T ss_pred             hhhcccchhHHHHHHHHHhcccchh----HHHHhcccccccccchHHHHHHHhhhhccChhhhhHHhHhhhHHHHHHHHh
Confidence            4455677777766666555111111    122222  2334567777777777766432221               222


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhc---CCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCC-cchHHHHHHHH
Q 038303          283 VISGLAMNGCGRQALQLFSLMIIN---AVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQ-MQHYACVVDMY  358 (461)
Q Consensus       283 l~~~~~~~~~~~~a~~~~~~m~~~---g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~  358 (461)
                      -..-..+.|++.+|.+.|.+.+..   ...|+...|........+.|+..+|+.--+....   +.|. ...|..-..++
T Consensus       255 ~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~---iD~syikall~ra~c~  331 (486)
T KOG0550|consen  255 RGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALK---IDSSYIKALLRRANCH  331 (486)
T ss_pred             hhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhh---cCHHHHHHHHHHHHHH
Confidence            233456778888888888887753   2344555566666667778888888877776655   2221 22333334455


Q ss_pred             hhcCCHHHHHHHHHhC
Q 038303          359 GRAGLLEEAEAFIREM  374 (461)
Q Consensus       359 ~~~g~~~~A~~~~~~~  374 (461)
                      .-.++|++|.+-++..
T Consensus       332 l~le~~e~AV~d~~~a  347 (486)
T KOG0550|consen  332 LALEKWEEAVEDYEKA  347 (486)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            5667788888877766

>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=96.49  E-value=0.089  Score=40.79  Aligned_cols=70  Identities=17%  Similarity=0.198  Sum_probs=41.6

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHh----hcCCCCCcch
Q 038303          280 WSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMST----VYEIVPQMQH  350 (461)
Q Consensus       280 ~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~~  350 (461)
                      ...++..+...|++++|..+++.+....+ -+...|..+|.+|...|+...|.+.|+.+.+    ..|+.|+..+
T Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~l~~dP-~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   65 LERLAEALLEAGDYEEALRLLQRALALDP-YDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHST-T-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            44455566667777777777777776532 2556777777777777777777777766633    2466666554

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.47  E-value=0.019  Score=38.24  Aligned_cols=59  Identities=10%  Similarity=-0.014  Sum_probs=30.3

Q ss_pred             HHhhcCCHHHHHHHHHhC-CCCch-hhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChh
Q 038303          357 MYGRAGLLEEAEAFIREM-PIEAE-WSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVG  415 (461)
Q Consensus       357 ~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  415 (461)
                      .|.+.+++++|.++++++ ...|+ ...+......+...|++++|.+.++...+..|.++.
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~~   64 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSPDDPD   64 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcHH
Confidence            445555556665555555 32232 223333444455566666666666666655554443

>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=96.47  E-value=0.041  Score=41.02  Aligned_cols=80  Identities=9%  Similarity=0.121  Sum_probs=41.1

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHh--------------cCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhc
Q 038303          175 VSWTTMIGGYAERGFCKEAVSVFQEMEK--------------TKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRY  240 (461)
Q Consensus       175 ~~~~~li~~~~~~~~~~~a~~~~~~m~~--------------~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~  240 (461)
                      .++..+|.++++.|+.+....+++..-.              .....|+..+..+++.+++..+++..|.++.+.+.+..
T Consensus         3 ~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y   82 (126)
T PF12921_consen    3 ELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKY   82 (126)
T ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHc
Confidence            3455555555666665555555544311              11134555555555555555555555555555555555


Q ss_pred             CCCCcchHHHHHHH
Q 038303          241 DLSVSNLVGNAVIN  254 (461)
Q Consensus       241 ~~~~~~~~~~~li~  254 (461)
                      +++.+..+|..|++
T Consensus        83 ~I~i~~~~W~~Ll~   96 (126)
T PF12921_consen   83 PIPIPKEFWRRLLE   96 (126)
T ss_pred             CCCCCHHHHHHHHH
Confidence            55555555555444

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.44  E-value=0.0092  Score=35.01  Aligned_cols=41  Identities=15%  Similarity=0.192  Sum_probs=32.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHH
Q 038303          382 VWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSN  422 (461)
Q Consensus       382 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  422 (461)
                      ++..+..+|...|++++|++.++++++..|.++..+..++.
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~La~   43 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRALAQ   43 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHhhh
Confidence            45667777888888888888888888888888888777654

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=96.26  E-value=1.7  Score=44.61  Aligned_cols=114  Identities=13%  Similarity=0.172  Sum_probs=65.5

Q ss_pred             CCCHhHHHHHHHH----HHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCchhhH--
Q 038303          309 FPDDVTFIALISA----CSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSV--  382 (461)
Q Consensus       309 ~p~~~~~~~ll~~----~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~--  382 (461)
                      +|+...+..+..+    +...+.+++|.-.|+..-+          ...-+.+|..+|+|.+|+.+..++....+...  
T Consensus       932 ~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gk----------lekAl~a~~~~~dWr~~l~~a~ql~~~~de~~~~ 1001 (1265)
T KOG1920|consen  932 KPDSEKQKVIYEAYADHLREELMSDEAALMYERCGK----------LEKALKAYKECGDWREALSLAAQLSEGKDELVIL 1001 (1265)
T ss_pred             ccCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhcc----------HHHHHHHHHHhccHHHHHHHHHhhcCCHHHHHHH
Confidence            4666655555544    3446777777777665432          12346777788888888888888744333332  


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHH
Q 038303          383 WGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDE  439 (461)
Q Consensus       383 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  439 (461)
                      -..|..-+...++.-+|-++..+..+.       ....+..|++...|++|.++...
T Consensus      1002 a~~L~s~L~e~~kh~eAa~il~e~~sd-------~~~av~ll~ka~~~~eAlrva~~ 1051 (1265)
T KOG1920|consen 1002 AEELVSRLVEQRKHYEAAKILLEYLSD-------PEEAVALLCKAKEWEEALRVASK 1051 (1265)
T ss_pred             HHHHHHHHHHcccchhHHHHHHHHhcC-------HHHHHHHHhhHhHHHHHHHHHHh
Confidence            244555577777777776666665432       12222334444456666555433

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.20  E-value=0.58  Score=38.73  Aligned_cols=46  Identities=9%  Similarity=0.103  Sum_probs=21.7

Q ss_pred             HHhcCChHHHHHHHHHHhh----cCCCChhHHHHHHHHHhccCChhhHHHH
Q 038303          390 CRIHRNDEMFDRIRQDLVN----KKGVSVGTFALMSNTFAGADRWEDTNKI  436 (461)
Q Consensus       390 ~~~~~~~~~a~~~~~~~~~----~~~~~~~~~~~l~~~~~~~g~~~~A~~~  436 (461)
                      +.-..++..|+..++.-.+    ..+.+..+...|+.+| ..|+.+++.++
T Consensus       200 ~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~~kv  249 (308)
T KOG1585|consen  200 YLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEIKKV  249 (308)
T ss_pred             HhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHHHHH
Confidence            3344455555555555332    2233444555555544 44555555443

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.17  E-value=0.93  Score=40.83  Aligned_cols=71  Identities=11%  Similarity=0.007  Sum_probs=41.0

Q ss_pred             HHHHHHHHcCChhhHHHHHhcCCCC-ch------hHHHHHHHHHHh---cCChHHHHHHHHHHHhcCCCCCChhhHHHHH
Q 038303          148 AILDFYIRCGSLASCGYLFVKMPKR-NV------VSWTTMIGGYAE---RGFCKEAVSVFQEMEKTKEAEPNEATLVNVL  217 (461)
Q Consensus       148 ~l~~~~~~~g~~~~a~~~~~~~~~~-~~------~~~~~li~~~~~---~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l  217 (461)
                      .++-.|-...+++..+++.+.+... +.      ..--...-++-+   .|+.++|+.++..+.... ..+++.|+..+.
T Consensus       146 ~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~-~~~~~d~~gL~G  224 (374)
T PF13281_consen  146 NLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESD-ENPDPDTLGLLG  224 (374)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhcc-CCCChHHHHHHH
Confidence            3444566777777777777777652 11      111122334445   677777777777754444 556666665555


Q ss_pred             HH
Q 038303          218 SA  219 (461)
Q Consensus       218 ~~  219 (461)
                      ..
T Consensus       225 RI  226 (374)
T PF13281_consen  225 RI  226 (374)
T ss_pred             HH
Confidence            44

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=96.14  E-value=1  Score=40.98  Aligned_cols=68  Identities=18%  Similarity=0.150  Sum_probs=47.3

Q ss_pred             HHhhCCHHHHHHHHHHHHHh--CCCc------------cHHHHHHHHHHHHhcCCHHHHHHHHhhCCC--------CCce
Q 038303           20 CSLAHPHQKALEIHAHVIEY--GHLH------------DIFIQNSLLHFYVTVKDIFSAHQIFNSVVF--------PDVV   77 (461)
Q Consensus        20 ~~~~~~~~~a~~~~~~~~~~--~~~~------------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~--------~~~~   77 (461)
                      +.+.+.+..|.+.+....+.  +..|            |...-+..++.+...|++.+++.+++++.+        -++.
T Consensus        89 ~Y~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d  168 (549)
T PF07079_consen   89 AYKQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSD  168 (549)
T ss_pred             HHHhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHH
Confidence            34778899999998887765  3222            222335566778889999999999988822        4777


Q ss_pred             eHHHHHHHHH
Q 038303           78 SWTTIISGLS   87 (461)
Q Consensus        78 ~~~~li~~~~   87 (461)
                      +||.++-.+.
T Consensus       169 ~yd~~vlmls  178 (549)
T PF07079_consen  169 MYDRAVLMLS  178 (549)
T ss_pred             HHHHHHHHHh
Confidence            8887554443

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=96.13  E-value=1.2  Score=41.92  Aligned_cols=84  Identities=10%  Similarity=0.040  Sum_probs=34.9

Q ss_pred             cCCChHHHHHHHhcC--CCCCCchhHHHHHHHh-cccchhHHHHHHHHHHHhh-cCC-CChhHHHHHHHHHHHcCChhhH
Q 038303           88 KCGFHKEAIDMFCGI--DVKPNANTLVSVLSAC-SSLVSHKLGKAIHAHSLRN-LNE-NNIILDNAILDFYIRCGSLASC  162 (461)
Q Consensus        88 ~~~~~~~a~~~~~~m--~~~p~~~~~~~ll~~~-~~~~~~~~a~~~~~~~~~~-~~~-~~~~~~~~l~~~~~~~g~~~~a  162 (461)
                      +.|..+.+.++|++-  +++-+...|...+.-+ ...|+.+.....|+.++.. |.. .+...|...+..-...+++...
T Consensus        91 klg~~~~s~~Vfergv~aip~SvdlW~~Y~~f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v  170 (577)
T KOG1258|consen   91 KLGNAENSVKVFERGVQAIPLSVDLWLSYLAFLKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRV  170 (577)
T ss_pred             HhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHH
Confidence            344555555555554  4433333333333322 2334444444444444432 111 1223334444444444444444


Q ss_pred             HHHHhcCCC
Q 038303          163 GYLFVKMPK  171 (461)
Q Consensus       163 ~~~~~~~~~  171 (461)
                      ..+++++.+
T Consensus       171 ~~iyeRile  179 (577)
T KOG1258|consen  171 ANIYERILE  179 (577)
T ss_pred             HHHHHHHHh
Confidence            444444443

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.13  E-value=0.3  Score=43.57  Aligned_cols=94  Identities=9%  Similarity=-0.089  Sum_probs=71.3

Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHhC--CCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhcc
Q 038303          350 HYACVVDMYGRAGLLEEAEAFIREM--PIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGA  427 (461)
Q Consensus       350 ~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  427 (461)
                      ++..|.-++.+.+++.+|+....+.  -.+++....-.=..+|...|+++.|+..|+++.+..|.|..+-..++..-.+.
T Consensus       259 ~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l~~k~  338 (397)
T KOG0543|consen  259 CHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKLKQKI  338 (397)
T ss_pred             HhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHH
Confidence            5566777888888888888887776  23456666666667788889999999999999998888888888888887777


Q ss_pred             CChhhH-HHHHHHHHHc
Q 038303          428 DRWEDT-NKIRDEIRRM  443 (461)
Q Consensus       428 g~~~~A-~~~~~~m~~~  443 (461)
                      .++.+. .++|..|...
T Consensus       339 ~~~~~kekk~y~~mF~k  355 (397)
T KOG0543|consen  339 REYEEKEKKMYANMFAK  355 (397)
T ss_pred             HHHHHHHHHHHHHHhhc
Confidence            666554 7788887543

>PRK11619 lytic murein transglycosylase; Provisional

Probab=96.10  E-value=1.6  Score=43.04  Aligned_cols=113  Identities=8%  Similarity=-0.051  Sum_probs=50.9

Q ss_pred             CChHHHHHHHHHHHhcC-CCCCH--hHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHH
Q 038303          291 GCGRQALQLFSLMIINA-VFPDD--VTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEA  367 (461)
Q Consensus       291 ~~~~~a~~~~~~m~~~g-~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  367 (461)
                      .+.+.|..++....... +.+..  .....+.......+...+|...++....   -..+......-+..-.+.++++.+
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            34466666666653322 22222  1222222222222224455555544332   112333334444444466666666


Q ss_pred             HHHHHhCCC--CchhhHHHHHHHHHHhcCChHHHHHHHHHH
Q 038303          368 EAFIREMPI--EAEWSVWGALLNACRIHRNDEMFDRIRQDL  406 (461)
Q Consensus       368 ~~~~~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  406 (461)
                      ...+..|+.  .....-..-+.+++...|+.++|...|+.+
T Consensus       332 ~~~i~~L~~~~~~~~rw~YW~aRa~~~~g~~~~A~~~~~~~  372 (644)
T PRK11619        332 NTWLARLPMEAKEKDEWRYWQADLLLEQGRKAEAEEILRQL  372 (644)
T ss_pred             HHHHHhcCHhhccCHhhHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            666666621  111122223444445566666666666665

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.08  E-value=0.46  Score=36.47  Aligned_cols=128  Identities=11%  Similarity=-0.015  Sum_probs=81.7

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHH
Q 038303          279 SWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMY  358 (461)
Q Consensus       279 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  358 (461)
                      ....++..+...+.+.....+++.+...+. .+...++.++..|++.+ .+.....++.  .     ++.......++.|
T Consensus         9 ~~~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~-~~~ll~~l~~--~-----~~~yd~~~~~~~c   79 (140)
T smart00299        9 DVSEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYD-PQKEIERLDN--K-----SNHYDIEKVGKLC   79 (140)
T ss_pred             CHHHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHC-HHHHHHHHHh--c-----cccCCHHHHHHHH
Confidence            345566677777778888888888877763 56667778888887653 3333444431  1     3344445577778


Q ss_pred             hhcCCHHHHHHHHHhCCCCchhhHHHHHHHHHHhc-CChHHHHHHHHHHhhcCCCChhHHHHHHHHHhc
Q 038303          359 GRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIH-RNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAG  426 (461)
Q Consensus       359 ~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  426 (461)
                      .+.+.++++.-++.+++...      ..+..+... ++++.|++++.+     ..++..|..++..+..
T Consensus        80 ~~~~l~~~~~~l~~k~~~~~------~Al~~~l~~~~d~~~a~~~~~~-----~~~~~lw~~~~~~~l~  137 (140)
T smart00299       80 EKAKLYEEAVELYKKDGNFK------DAIVTLIEHLGNYEKAIEYFVK-----QNNPELWAEVLKALLD  137 (140)
T ss_pred             HHcCcHHHHHHHHHhhcCHH------HHHHHHHHcccCHHHHHHHHHh-----CCCHHHHHHHHHHHHc
Confidence            88888888888888885422      223333333 778888887765     2356677777766654

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.93  E-value=0.06  Score=48.96  Aligned_cols=61  Identities=15%  Similarity=0.059  Sum_probs=52.4

Q ss_pred             CHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCc----chHHHHHHHHhhcCCHHHHHHHHHhC
Q 038303          311 DDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQM----QHYACVVDMYGRAGLLEEAEAFIREM  374 (461)
Q Consensus       311 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~A~~~~~~~  374 (461)
                      +...+..+..+|...|++++|+..|+...+   +.|+.    ..|..+..+|...|+.++|+..+++.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALe---L~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrA  138 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALE---LNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTA  138 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHh---hCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            457888899999999999999999999877   34664    35888999999999999999999988

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.86  E-value=0.33  Score=40.07  Aligned_cols=92  Identities=12%  Similarity=0.083  Sum_probs=46.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhc----CCCCCH-hHHHHHHHHHHcCCChHHHHHHHHHhHhhcCC--CCCcchHH
Q 038303          280 WSTVISGLAMNGCGRQALQLFSLMIIN----AVFPDD-VTFIALISACSHGGLVDQGLILFKAMSTVYEI--VPQMQHYA  352 (461)
Q Consensus       280 ~~~l~~~~~~~~~~~~a~~~~~~m~~~----g~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~  352 (461)
                      +...-..+.+...+++|-..+.+-...    .-.|+. ..|...|-.+....++..|.+.++.-.+..++  +-+..+..
T Consensus       153 ~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~le  232 (308)
T KOG1585|consen  153 YGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLE  232 (308)
T ss_pred             HHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHH
Confidence            344445566666666655544432211    111222 23444455556666777777777663331121  23355666


Q ss_pred             HHHHHHhhcCCHHHHHHHHH
Q 038303          353 CVVDMYGRAGLLEEAEAFIR  372 (461)
Q Consensus       353 ~l~~~~~~~g~~~~A~~~~~  372 (461)
                      .|+.+| ..|+.+++.+++.
T Consensus       233 nLL~ay-d~gD~E~~~kvl~  251 (308)
T KOG1585|consen  233 NLLTAY-DEGDIEEIKKVLS  251 (308)
T ss_pred             HHHHHh-ccCCHHHHHHHHc
Confidence            666666 3566666666543

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.79  E-value=2.2  Score=42.03  Aligned_cols=210  Identities=14%  Similarity=0.018  Sum_probs=125.3

Q ss_pred             chHHHHHHHHHhhCCHHHHHHHHHHHHH----hC------------CCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCCC
Q 038303           11 YTFTQALKACSLAHPHQKALEIHAHVIE----YG------------HLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFP   74 (461)
Q Consensus        11 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~------------~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~   74 (461)
                      ...+.++.++...+.+-.-.-++..+.+    .+            .....-....-+..+++...++-|..+-+.-.. 
T Consensus       284 ss~~~i~~~~d~~n~~v~ys~vl~~l~d~l~~w~~~~~vltsdg~~~~L~ek~le~kL~iL~kK~ly~~Ai~LAk~~~~-  362 (933)
T KOG2114|consen  284 SSSNRIFKAYDLRNRYVLYSSVLEDLSDNLIEWSFDCLVLTSDGVVHELIEKDLETKLDILFKKNLYKVAINLAKSQHL-  362 (933)
T ss_pred             cchhheeehhhhcCcccchHHhHHHHHHHHHhcCCcEEEEecCCceeeeeeccHHHHHHHHHHhhhHHHHHHHHHhcCC-
Confidence            3456777777777765544444443332    22            011112334557777888888888888876532 


Q ss_pred             CceeHH----HHHHHHHcCCChHHHHHHHhcC--CCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHH
Q 038303           75 DVVSWT----TIISGLSKCGFHKEAIDMFCGI--DVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNA  148 (461)
Q Consensus        75 ~~~~~~----~li~~~~~~~~~~~a~~~~~~m--~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  148 (461)
                      |.....    ...+-+.+.|++++|...|-+-  -++|.     .++.-+........-..+++.+.+.|.. +...-..
T Consensus       363 d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~le~s-----~Vi~kfLdaq~IknLt~YLe~L~~~gla-~~dhttl  436 (933)
T KOG2114|consen  363 DEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGFLEPS-----EVIKKFLDAQRIKNLTSYLEALHKKGLA-NSDHTTL  436 (933)
T ss_pred             CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHcccCChH-----HHHHHhcCHHHHHHHHHHHHHHHHcccc-cchhHHH
Confidence            222222    2334456789999999888665  33443     3566667777788888888899998888 5666678


Q ss_pred             HHHHHHHcCChhhHHHHHhcCCCCch-hHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhh
Q 038303          149 ILDFYIRCGSLASCGYLFVKMPKRNV-VSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALS  227 (461)
Q Consensus       149 l~~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~  227 (461)
                      |+.+|.+.++.++-.++.+...+... .-....+..+.+.+-.++|.-+-.+...      +......   .+-..++++
T Consensus       437 LLncYiKlkd~~kL~efI~~~~~g~~~fd~e~al~Ilr~snyl~~a~~LA~k~~~------he~vl~i---lle~~~ny~  507 (933)
T KOG2114|consen  437 LLNCYIKLKDVEKLTEFISKCDKGEWFFDVETALEILRKSNYLDEAELLATKFKK------HEWVLDI---LLEDLHNYE  507 (933)
T ss_pred             HHHHHHHhcchHHHHHHHhcCCCcceeeeHHHHHHHHHHhChHHHHHHHHHHhcc------CHHHHHH---HHHHhcCHH
Confidence            99999999999988888887763111 1133444555555555555444333221      1111111   233445666


Q ss_pred             hHHHHHHHH
Q 038303          228 FGKYVHSYI  236 (461)
Q Consensus       228 ~a~~~~~~~  236 (461)
                      +|.+.++.+
T Consensus       508 eAl~yi~sl  516 (933)
T KOG2114|consen  508 EALRYISSL  516 (933)
T ss_pred             HHHHHHhcC
Confidence            666665544

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=95.78  E-value=0.5  Score=44.09  Aligned_cols=165  Identities=13%  Similarity=0.050  Sum_probs=98.1

Q ss_pred             HHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCC
Q 038303          182 GGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGD  261 (461)
Q Consensus       182 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  261 (461)
                      ....-.++++++.++...-.-...++  ......++.-+.+.|-.+.|..+...-.             .-.....+.|+
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--KDQGQSIARFLEKKGYPELALQFVTDPD-------------HRFELALQLGN  333 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTGGG----HHHHHHHHHHHHHTT-HHHHHHHSS-HH-------------HHHHHHHHCT-
T ss_pred             HHHHHcCChhhhhhhhhhhhhcccCC--hhHHHHHHHHHHHCCCHHHHHhhcCChH-------------HHhHHHHhcCC
Confidence            34455667777666664211111022  3335566666667777777766544322             23444567888


Q ss_pred             HHHHHHHHHHccCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhh
Q 038303          262 VGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTV  341 (461)
Q Consensus       262 ~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  341 (461)
                      ++.|.++.++..  +...|..|.....+.|+++-|.+.|.+..+         |..|+-.|...|+.+.-.++.+.... 
T Consensus       334 L~~A~~~a~~~~--~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~-  401 (443)
T PF04053_consen  334 LDIALEIAKELD--DPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEE-  401 (443)
T ss_dssp             HHHHHHHCCCCS--THHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHhcC--cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHH-
Confidence            888887766555  566899999999999999999988887644         45666677778888777777766655 


Q ss_pred             cCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCch
Q 038303          342 YEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAE  379 (461)
Q Consensus       342 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~  379 (461)
                      .|      -++.-..++.-.|+.++..+++.+.+..|-
T Consensus       402 ~~------~~n~af~~~~~lgd~~~cv~lL~~~~~~~~  433 (443)
T PF04053_consen  402 RG------DINIAFQAALLLGDVEECVDLLIETGRLPE  433 (443)
T ss_dssp             TT-------HHHHHHHHHHHT-HHHHHHHHHHTT-HHH
T ss_pred             cc------CHHHHHHHHHHcCCHHHHHHHHHHcCCchH
Confidence            22      245555666677888888888887754443

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.

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=95.77  E-value=0.089  Score=44.24  Aligned_cols=99  Identities=14%  Similarity=0.161  Sum_probs=74.7

Q ss_pred             HHHHHHHcc--CCChhhHHHHHHHHHh-----cCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcC------------
Q 038303          265 AIQVFNMLA--YKDKISWSTVISGLAM-----NGCGRQALQLFSLMIINAVFPDDVTFIALISACSHG------------  325 (461)
Q Consensus       265 a~~~~~~~~--~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~------------  325 (461)
                      .++.|..+.  ++|..+|.+.+..+..     .+.++-....++.|.+.|+.-|..+|+.|+..+-+.            
T Consensus        53 ~e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F  132 (406)
T KOG3941|consen   53 VEKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVF  132 (406)
T ss_pred             hhhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHH
Confidence            345555555  5577778877777654     356777777888899999999999999998876543            


Q ss_pred             ----CChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCH
Q 038303          326 ----GLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLL  364 (461)
Q Consensus       326 ----~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  364 (461)
                          .+-+-++++++.|.. .|+.||..+-..|++++++.+..
T Consensus       133 ~HYP~QQ~C~I~vLeqME~-hGVmPdkE~e~~lvn~FGr~~~p  174 (406)
T KOG3941|consen  133 LHYPQQQNCAIKVLEQMEW-HGVMPDKEIEDILVNAFGRWNFP  174 (406)
T ss_pred             hhCchhhhHHHHHHHHHHH-cCCCCchHHHHHHHHHhcccccc
Confidence                233457888999988 89999999999999998877653

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.74  E-value=0.11  Score=43.75  Aligned_cols=58  Identities=7%  Similarity=-0.007  Sum_probs=33.7

Q ss_pred             HHHHHHhcCChHHHHHHHHHHhhcC---CCChhHHHHHHHHHhccCChhhHHHHHHHHHHc
Q 038303          386 LLNACRIHRNDEMFDRIRQDLVNKK---GVSVGTFALMSNTFAGADRWEDTNKIRDEIRRM  443 (461)
Q Consensus       386 l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  443 (461)
                      |..++...|+++.|...|..+.+..   |.-+..+.-|+.+..+.|+.++|..+|+++.++
T Consensus       184 LGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         184 LGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            5555556666666666666655533   233455666666666666666666666666554

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=95.72  E-value=0.057  Score=47.90  Aligned_cols=64  Identities=3%  Similarity=-0.073  Sum_probs=59.0

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcC
Q 038303          381 SVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMG  444 (461)
Q Consensus       381 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  444 (461)
                      ..+..+..++.+.+++..|++...++++..|+|......-++++...|+++.|+..|+++.+..
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~  321 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLE  321 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhC
Confidence            3567777889999999999999999999999999999999999999999999999999998743

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=95.64  E-value=0.41  Score=41.97  Aligned_cols=162  Identities=6%  Similarity=-0.040  Sum_probs=88.1

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhc-CCCCC---HhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCC----Ccch
Q 038303          279 SWSTVISGLAMNGCGRQALQLFSLMIIN-AVFPD---DVTFIALISACSHGGLVDQGLILFKAMSTVYEIVP----QMQH  350 (461)
Q Consensus       279 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~-g~~p~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~  350 (461)
                      .|..+.+++-+.-++.+++.+-..-... |..|.   .....++..++...+.++++++.|+...+-..-..    ...+
T Consensus        85 a~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqv  164 (518)
T KOG1941|consen   85 AYLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQV  164 (518)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeeh
Confidence            4445555555555555555554443321 22221   12233455566666777777777776654221111    2356


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC-------CCCchhhHHH-----HHHHHHHhcCChHHHHHHHHHHhh--cCCC----
Q 038303          351 YACVVDMYGRAGLLEEAEAFIREM-------PIEAEWSVWG-----ALLNACRIHRNDEMFDRIRQDLVN--KKGV----  412 (461)
Q Consensus       351 ~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p~~~~~~-----~l~~~~~~~~~~~~a~~~~~~~~~--~~~~----  412 (461)
                      +-.|...|.+..++++|.-+..+.       +...-..-|.     .+.-++...|....|.+..++..+  ....    
T Consensus       165 cv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~  244 (518)
T KOG1941|consen  165 CVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRAL  244 (518)
T ss_pred             hhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHH
Confidence            677777777777777776665544       2111111122     233346677777777777777665  1122    


Q ss_pred             ChhHHHHHHHHHhccCChhhHHHHHHHH
Q 038303          413 SVGTFALMSNTFAGADRWEDTNKIRDEI  440 (461)
Q Consensus       413 ~~~~~~~l~~~~~~~g~~~~A~~~~~~m  440 (461)
                      .......+++.|...|+.+.|..-++..
T Consensus       245 ~arc~~~~aDIyR~~gd~e~af~rYe~A  272 (518)
T KOG1941|consen  245 QARCLLCFADIYRSRGDLERAFRRYEQA  272 (518)
T ss_pred             HHHHHHHHHHHHHhcccHhHHHHHHHHH
Confidence            2334556777777778777777666653

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.62  E-value=0.17  Score=37.15  Aligned_cols=51  Identities=20%  Similarity=0.106  Sum_probs=23.8

Q ss_pred             HHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC
Q 038303          322 CSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM  374 (461)
Q Consensus       322 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  374 (461)
                      ....|+++.|++.|.....  -.+-....||.-.+++.-.|+.++|++-+++.
T Consensus        53 laE~g~Ld~AlE~F~qal~--l~P~raSayNNRAQa~RLq~~~e~ALdDLn~A  103 (175)
T KOG4555|consen   53 LAEAGDLDGALELFGQALC--LAPERASAYNNRAQALRLQGDDEEALDDLNKA  103 (175)
T ss_pred             HHhccchHHHHHHHHHHHH--hcccchHhhccHHHHHHHcCChHHHHHHHHHH
Confidence            3444555555555544443  22333444444445554455555555444443

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=95.61  E-value=0.43  Score=44.47  Aligned_cols=129  Identities=12%  Similarity=0.045  Sum_probs=71.5

Q ss_pred             HHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCCCCchhHHHHHHHHHHhcCCh
Q 038303          111 LVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYAERGFC  190 (461)
Q Consensus       111 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~  190 (461)
                      .+.+++-+.+.|..+.|.++..         |+.   .-.....+.|+++.|.++.++..  +...|..|.....+.|++
T Consensus       298 ~~~i~~fL~~~G~~e~AL~~~~---------D~~---~rFeLAl~lg~L~~A~~~a~~~~--~~~~W~~Lg~~AL~~g~~  363 (443)
T PF04053_consen  298 GQSIARFLEKKGYPELALQFVT---------DPD---HRFELALQLGNLDIALEIAKELD--DPEKWKQLGDEALRQGNI  363 (443)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHSS----------HH---HHHHHHHHCT-HHHHHHHCCCCS--THHHHHHHHHHHHHTTBH
T ss_pred             HHHHHHHHHHCCCHHHHHhhcC---------ChH---HHhHHHHhcCCHHHHHHHHHhcC--cHHHHHHHHHHHHHcCCH
Confidence            4445555555555555555422         221   23445667788888887777665  555788888888888888


Q ss_pred             HHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHH
Q 038303          191 KEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFN  270 (461)
Q Consensus       191 ~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  270 (461)
                      +-|.+.|.+..+          +..++-.|...|+.+...++.+.... .|.      ++....++.-.|+.++..+++.
T Consensus       364 ~lAe~c~~k~~d----------~~~L~lLy~~~g~~~~L~kl~~~a~~-~~~------~n~af~~~~~lgd~~~cv~lL~  426 (443)
T PF04053_consen  364 ELAEECYQKAKD----------FSGLLLLYSSTGDREKLSKLAKIAEE-RGD------INIAFQAALLLGDVEECVDLLI  426 (443)
T ss_dssp             HHHHHHHHHCT-----------HHHHHHHHHHCT-HHHHHHHHHHHHH-TT-------HHHHHHHHHHHT-HHHHHHHHH
T ss_pred             HHHHHHHHhhcC----------ccccHHHHHHhCCHHHHHHHHHHHHH-ccC------HHHHHHHHHHcCCHHHHHHHHH
Confidence            888888877654          33444455555665555555544443 111      2344444445566666555543

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.

>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=95.54  E-value=1.5  Score=38.34  Aligned_cols=17  Identities=6%  Similarity=-0.279  Sum_probs=10.4

Q ss_pred             HHhcCChHHHHHHHHHH
Q 038303          390 CRIHRNDEMFDRIRQDL  406 (461)
Q Consensus       390 ~~~~~~~~~a~~~~~~~  406 (461)
                      +.+.++++.|.+.|+-.
T Consensus       256 ~~~~k~y~~A~~w~~~a  272 (278)
T PF08631_consen  256 HYKAKNYDEAIEWYELA  272 (278)
T ss_pred             HHhhcCHHHHHHHHHHH
Confidence            44566666666666643

It is also involved in sporulation [].

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.52  E-value=0.79  Score=39.85  Aligned_cols=113  Identities=12%  Similarity=-0.021  Sum_probs=48.8

Q ss_pred             cCCHHHHHHHHHHccCC---ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHH----HHHHHHHcCCChHHH
Q 038303          259 CGDVGIAIQVFNMLAYK---DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFI----ALISACSHGGLVDQG  331 (461)
Q Consensus       259 ~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~----~ll~~~~~~~~~~~a  331 (461)
                      .|++.+|-..++++.+.   |...+...=.++...|+.+.-...+++.... ..||...|.    .+.-++...|-+++|
T Consensus       116 ~g~~h~a~~~wdklL~d~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y~dA  194 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKLLDDYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYDDA  194 (491)
T ss_pred             cccccHHHHHHHHHHHhCchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccchhH
Confidence            34444444444444421   3444444444555555555555555554432 223332221    112223345555555


Q ss_pred             HHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC
Q 038303          332 LILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM  374 (461)
Q Consensus       332 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  374 (461)
                      ++.-++..+  --+-|...-.++...+-..|+..++.++..+-
T Consensus       195 Ek~A~ralq--iN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~t  235 (491)
T KOG2610|consen  195 EKQADRALQ--INRFDCWASHAKAHVLEMNGRHKEGKEFMYKT  235 (491)
T ss_pred             HHHHHhhcc--CCCcchHHHHHHHHHHHhcchhhhHHHHHHhc
Confidence            555444433  11122333334444444555555555555444

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.46  E-value=1.6  Score=41.33  Aligned_cols=161  Identities=11%  Similarity=0.062  Sum_probs=94.6

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhcC-CCCCH-----hHHHHHHHHHHc----CCChHHHHHHHHHhHhhcCCCCCc
Q 038303          279 SWSTVISGLAMNGCGRQALQLFSLMIINA-VFPDD-----VTFIALISACSH----GGLVDQGLILFKAMSTVYEIVPQM  348 (461)
Q Consensus       279 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~g-~~p~~-----~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~  348 (461)
                      ....++....-.|+-+.+++.+.+..+.+ +.-..     -.|..++..++.    ....+.|.++++.+.+  .. |+.
T Consensus       190 ~~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~--~y-P~s  266 (468)
T PF10300_consen  190 KVLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLK--RY-PNS  266 (468)
T ss_pred             HHHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHH--hC-CCc
Confidence            34445555555667677776666654422 21111     123344443333    4567778888888876  23 555


Q ss_pred             chHHH-HHHHHhhcCCHHHHHHHHHhC-CCC---ch--hhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHH
Q 038303          349 QHYAC-VVDMYGRAGLLEEAEAFIREM-PIE---AE--WSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMS  421 (461)
Q Consensus       349 ~~~~~-l~~~~~~~g~~~~A~~~~~~~-~~~---p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~  421 (461)
                      ..|.. -.+.+...|++++|.+.|++. ..+   |.  ...+--+...+....++++|...|..+.+...-+..+|..+.
T Consensus       267 ~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~WSka~Y~Y~~  346 (468)
T PF10300_consen  267 ALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKWSKAFYAYLA  346 (468)
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccccHHHHHHHHH
Confidence            44443 345566778888888888875 111   11  112233444467788888888888888886666555555444


Q ss_pred             H-HHhccCCh-------hhHHHHHHHHHH
Q 038303          422 N-TFAGADRW-------EDTNKIRDEIRR  442 (461)
Q Consensus       422 ~-~~~~~g~~-------~~A~~~~~~m~~  442 (461)
                      - ++...|+.       ++|.+++.++..
T Consensus       347 a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  347 AACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            4 34456777       778888877633

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.

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.35  E-value=0.22  Score=42.00  Aligned_cols=95  Identities=17%  Similarity=0.118  Sum_probs=63.2

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhcCCC--CCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCC-cchHHHHH
Q 038303          279 SWSTVISGLAMNGCGRQALQLFSLMIINAVF--PDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQ-MQHYACVV  355 (461)
Q Consensus       279 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~--p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~  355 (461)
                      .|+.-+.. .+.|++..|...|...++....  -....+-.|..++...|+++.|..+|..+.+..+-.|. +..+-.|.
T Consensus       144 ~Y~~A~~~-~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg  222 (262)
T COG1729         144 LYNAALDL-YKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHHH-HHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            35555543 4556688888888888775322  12245667778888888888888888777774433333 35666677


Q ss_pred             HHHhhcCCHHHHHHHHHhC
Q 038303          356 DMYGRAGLLEEAEAFIREM  374 (461)
Q Consensus       356 ~~~~~~g~~~~A~~~~~~~  374 (461)
                      ....+.|+.++|...|++.
T Consensus       223 ~~~~~l~~~d~A~atl~qv  241 (262)
T COG1729         223 VSLGRLGNTDEACATLQQV  241 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHH
Confidence            7777777777777777776

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=95.27  E-value=1.5  Score=36.78  Aligned_cols=171  Identities=12%  Similarity=0.049  Sum_probs=93.6

Q ss_pred             HHhcCCHHHHHHHHHHccCC------ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHc-----
Q 038303          256 YVKCGDVGIAIQVFNMLAYK------DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSH-----  324 (461)
Q Consensus       256 ~~~~g~~~~a~~~~~~~~~~------~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~-----  324 (461)
                      -.+.|++++|.+.|+.+...      ...+--.++.++-+.+++++|+..+++....-......-|...|.+++.     
T Consensus        44 ~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgLs~~~~i~  123 (254)
T COG4105          44 ELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLSYFFQID  123 (254)
T ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhccCC
Confidence            45678888888888888743      2233445566777888888888888887764333222334444444432     


Q ss_pred             --CCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCchhhHHH-HHHHHHHhcCChHHHHH
Q 038303          325 --GGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWG-ALLNACRIHRNDEMFDR  401 (461)
Q Consensus       325 --~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~-~l~~~~~~~~~~~~a~~  401 (461)
                        ..+...+.+.+..+.+--.--|+..             -...|..-+..+.  ....-++ .+.+-|.+.|.+..|..
T Consensus       124 ~~~rDq~~~~~A~~~f~~~i~ryPnS~-------------Ya~dA~~~i~~~~--d~LA~~Em~IaryY~kr~~~~AA~n  188 (254)
T COG4105         124 DVTRDQSAARAAFAAFKELVQRYPNSR-------------YAPDAKARIVKLN--DALAGHEMAIARYYLKRGAYVAAIN  188 (254)
T ss_pred             ccccCHHHHHHHHHHHHHHHHHCCCCc-------------chhhHHHHHHHHH--HHHHHHHHHHHHHHHHhcChHHHHH
Confidence              2233333333333332101112211             1111111111110  0000111 13344788888888888


Q ss_pred             HHHHHhhcCCCC---hhHHHHHHHHHhccCChhhHHHHHHHHH
Q 038303          402 IRQDLVNKKGVS---VGTFALMSNTFAGADRWEDTNKIRDEIR  441 (461)
Q Consensus       402 ~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~m~  441 (461)
                      -++.+++.-+..   ...+..+..+|...|-.++|.+.-+-+.
T Consensus       189 R~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~  231 (254)
T COG4105         189 RFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLG  231 (254)
T ss_pred             HHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHH
Confidence            888888865444   4456677778888888888877665443

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=95.26  E-value=1.7  Score=37.29  Aligned_cols=147  Identities=11%  Similarity=0.024  Sum_probs=86.4

Q ss_pred             HHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCH
Q 038303          285 SGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLL  364 (461)
Q Consensus       285 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  364 (461)
                      ......|++.+|..+|+...+.... +...-..+..+|...|+.+.|..++..+..+ --.........-+..+.+....
T Consensus       142 ~~~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~-~~~~~~~~l~a~i~ll~qaa~~  219 (304)
T COG3118         142 KELIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPLQ-AQDKAAHGLQAQIELLEQAAAT  219 (304)
T ss_pred             hhhhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCccc-chhhHHHHHHHHHHHHHHHhcC
Confidence            3456677888888888877765322 3455566777788888888888888776541 1111112222234455555555


Q ss_pred             HHHHHHHHhCCCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhc--CCCChhHHHHHHHHHhccCChhhH
Q 038303          365 EEAEAFIREMPIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNK--KGVSVGTFALMSNTFAGADRWEDT  433 (461)
Q Consensus       365 ~~A~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A  433 (461)
                      .+...+-++....| |...-..+...+...|+.++|.+.+-.+.+.  .-.+...-..++..+.-.|.-+.+
T Consensus       220 ~~~~~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g~~Dp~  291 (304)
T COG3118         220 PEIQDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFGPADPL  291 (304)
T ss_pred             CCHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcCCCCHH
Confidence            55555555553344 4444445555577777777777766665552  234455666777777666644443

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.19  E-value=0.017  Score=42.16  Aligned_cols=91  Identities=13%  Similarity=0.073  Sum_probs=74.8

Q ss_pred             HHHHhhcCCHHHHHHHHHhC-CC-CchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCC-C---hhHHHHHHHHHhccC
Q 038303          355 VDMYGRAGLLEEAEAFIREM-PI-EAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGV-S---VGTFALMSNTFAGAD  428 (461)
Q Consensus       355 ~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~---~~~~~~l~~~~~~~g  428 (461)
                      .-++...|+.+.|++.|.+. .. +.....||.-..++.-.|+.++|..-+++..+...+ .   ...|..-+..|...|
T Consensus        50 ~valaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g  129 (175)
T KOG4555|consen   50 AIALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLG  129 (175)
T ss_pred             HHHHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhC
Confidence            34678899999999999987 33 345668999999999999999999999999984422 2   346777788899999


Q ss_pred             ChhhHHHHHHHHHHcCC
Q 038303          429 RWEDTNKIRDEIRRMGL  445 (461)
Q Consensus       429 ~~~~A~~~~~~m~~~g~  445 (461)
                      +-+.|..=|+...+.|-
T Consensus       130 ~dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  130 NDDAARADFEAAAQLGS  146 (175)
T ss_pred             chHHHHHhHHHHHHhCC
Confidence            99999999999988774

>PRK15331 chaperone protein SicA; Provisional

Probab=95.10  E-value=0.62  Score=36.21  Aligned_cols=21  Identities=5%  Similarity=-0.209  Sum_probs=10.0

Q ss_pred             HHHHHhhcCCHHHHHHHHHhC
Q 038303          354 VVDMYGRAGLLEEAEAFIREM  374 (461)
Q Consensus       354 l~~~~~~~g~~~~A~~~~~~~  374 (461)
                      ...+|...|+.+.|...|+..
T Consensus       111 agqC~l~l~~~~~A~~~f~~a  131 (165)
T PRK15331        111 TGQCQLLMRKAAKARQCFELV  131 (165)
T ss_pred             HHHHHHHhCCHHHHHHHHHHH
Confidence            344444445555555444444

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=95.00  E-value=0.16  Score=43.51  Aligned_cols=68  Identities=7%  Similarity=0.101  Sum_probs=47.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHH-----cCCcccc
Q 038303          382 VWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRR-----MGLKKKT  449 (461)
Q Consensus       382 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~-----~g~~~~~  449 (461)
                      ++..++..+...|+.+.+...++++....|-+...|..++.+|.+.|+...|+..++++.+     .|+.|.+
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~  227 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAP  227 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccH
Confidence            4555666666777777777777777777777777777777777777777777777777644     4555544

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.96  E-value=1.2  Score=34.86  Aligned_cols=130  Identities=12%  Similarity=0.029  Sum_probs=74.7

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHh-HHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHH--
Q 038303          278 ISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDV-TFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACV--  354 (461)
Q Consensus       278 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l--  354 (461)
                      ..|..-++ +++.+..++|+.-|..+.+.|...-+. .-..........|+...|...|+++-.+..+|.-..-...|  
T Consensus        60 d~flaAL~-lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlra  138 (221)
T COG4649          60 DAFLAALK-LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRA  138 (221)
T ss_pred             HHHHHHHH-HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHH
Confidence            34444443 466778888888888888766542211 11111223456788888888888887633322211122222  


Q ss_pred             HHHHhhcCCHHHHHHHHHhC--CCCch-hhHHHHHHHHHHhcCChHHHHHHHHHHhh
Q 038303          355 VDMYGRAGLLEEAEAFIREM--PIEAE-WSVWGALLNACRIHRNDEMFDRIRQDLVN  408 (461)
Q Consensus       355 ~~~~~~~g~~~~A~~~~~~~--~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  408 (461)
                      .-.+...|.++......+-+  ...|- ...-..|.-+-.+.|++..|.+.|..+..
T Consensus       139 a~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         139 AYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             HHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            12345677777777777766  22222 22334455556677888888888877765

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=94.93  E-value=0.74  Score=34.90  Aligned_cols=53  Identities=21%  Similarity=0.167  Sum_probs=25.8

Q ss_pred             HHcCCChHHHHHHHHHhHhhcCCCCC-cchHHHHHHHHhhcCCHHHHHHHHHhC
Q 038303          322 CSHGGLVDQGLILFKAMSTVYEIVPQ-MQHYACVVDMYGRAGLLEEAEAFIREM  374 (461)
Q Consensus       322 ~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~  374 (461)
                      ..+.|++++|.+.|+.+.......+- ...--.|+.+|.+.+++++|...+++.
T Consensus        20 ~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rF   73 (142)
T PF13512_consen   20 ALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRF   73 (142)
T ss_pred             HHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            34456666666666655552222111 222334455555555555555555544

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=94.89  E-value=3.6  Score=39.02  Aligned_cols=395  Identities=10%  Similarity=0.013  Sum_probs=216.0

Q ss_pred             hHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHH-HHHHHHHHHHhcCCHHHHHHHHhhCC---CCCceeHHHHHHHHH
Q 038303           12 TFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIF-IQNSLLHFYVTVKDIFSAHQIFNSVV---FPDVVSWTTIISGLS   87 (461)
Q Consensus        12 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~li~~~~   87 (461)
                      .++.+|.---...+.+.+..++..++..  .|-.. -|......=.+.|..+.+.++|++.+   +.++..|.....-+.
T Consensus        47 ~wt~li~~~~~~~~~~~~r~~y~~fL~k--yPl~~gyW~kfA~~E~klg~~~~s~~Vfergv~aip~SvdlW~~Y~~f~~  124 (577)
T KOG1258|consen   47 AWTTLIQENDSIEDVDALREVYDIFLSK--YPLCYGYWKKFADYEYKLGNAENSVKVFERGVQAIPLSVDLWLSYLAFLK  124 (577)
T ss_pred             chHHHHhccCchhHHHHHHHHHHHHHhh--CccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHh
Confidence            3455555544555566667777777643  24433 44555555567899999999999873   355566666554443


Q ss_pred             -cCCChHHHHHHHhcC----CCCC-CchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHH---c--
Q 038303           88 -KCGFHKEAIDMFCGI----DVKP-NANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIR---C--  156 (461)
Q Consensus        88 -~~~~~~~a~~~~~~m----~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~--  156 (461)
                       ..|+.+...+.|+..    |..- ....|...|.--...+++.....++++.++.    ....++....-|.+   .  
T Consensus       125 n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRilei----P~~~~~~~f~~f~~~l~~~~  200 (577)
T KOG1258|consen  125 NNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILEI----PLHQLNRHFDRFKQLLNQNE  200 (577)
T ss_pred             ccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHhh----hhhHhHHHHHHHHHHHhcCC
Confidence             457888888888877    4443 4556777777778888899999999988875    22233332222221   1  


Q ss_pred             ----CChhhHHHHHhcCCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhh--HHHHHHH-------hhcc
Q 038303          157 ----GSLASCGYLFVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEAT--LVNVLSA-------CSSI  223 (461)
Q Consensus       157 ----g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~--~~~~l~~-------~~~~  223 (461)
                          -..+++.++-......         ..-...++.  +..+=..+...+ .+.+..+  .+.+...       +-..
T Consensus       201 ~~~l~~~d~~~~l~~~~~~~---------~~~~~~~~~--~e~~~~~v~~~~-~~s~~l~~~~~~l~~~~~~~~~~~~~s  268 (577)
T KOG1258|consen  201 EKILLSIDELIQLRSDVAER---------SKITHSQEP--LEELEIGVKDST-DPSKSLTEEKTILKRIVSIHEKVYQKS  268 (577)
T ss_pred             hhhhcCHHHHHHHhhhHHhh---------hhcccccCh--hHHHHHHHhhcc-CccchhhHHHHHHHHHHHHHHHHHHhh
Confidence                1111111111111100         000000001  111111111111 0111000  0000000       1111


Q ss_pred             chhhhHHHHHHHHHhh------cCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCC---ChhhHHHHHHHHHhcCChH
Q 038303          224 SALSFGKYVHSYISTR------YDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYK---DKISWSTVISGLAMNGCGR  294 (461)
Q Consensus       224 ~~~~~a~~~~~~~~~~------~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~  294 (461)
                      -........++.-.+.      .-..++..+|..-+.--.+.|+.+.+.-+|+...-|   -...|-..+.-.-..|+.+
T Consensus       269 ~~~~~kr~~fE~~IkrpYfhvkpl~~aql~nw~~yLdf~i~~g~~~~~~~l~ercli~cA~Y~efWiky~~~m~~~~~~~  348 (577)
T KOG1258|consen  269 EEEEEKRWGFEEGIKRPYFHVKPLDQAQLKNWRYYLDFEITLGDFSRVFILFERCLIPCALYDEFWIKYARWMESSGDVS  348 (577)
T ss_pred             HhHHHHHHhhhhhccccccccCcccHHHHHHHHHHhhhhhhcccHHHHHHHHHHHHhHHhhhHHHHHHHHHHHHHcCchh
Confidence            1111222222222221      112223456777777778899999999999888765   2334444444444558888


Q ss_pred             HHHHHHHHHHhcCCCCCHhHHHHHHHH-HHcCCChHHHHHHHHHhHhhcCCCCCc-chHHHHHHHHhhcCCHHHHH---H
Q 038303          295 QALQLFSLMIINAVFPDDVTFIALISA-CSHGGLVDQGLILFKAMSTVYEIVPQM-QHYACVVDMYGRAGLLEEAE---A  369 (461)
Q Consensus       295 ~a~~~~~~m~~~g~~p~~~~~~~ll~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~---~  369 (461)
                      -|..++....+--. |+......+=.. +-..|+++.|..+++.+..  .. |+. ..-..-+....+.|..+.+.   .
T Consensus       349 ~~~~~~~~~~~i~~-k~~~~i~L~~a~f~e~~~n~~~A~~~lq~i~~--e~-pg~v~~~l~~~~~e~r~~~~~~~~~~~~  424 (577)
T KOG1258|consen  349 LANNVLARACKIHV-KKTPIIHLLEARFEESNGNFDDAKVILQRIES--EY-PGLVEVVLRKINWERRKGNLEDANYKNE  424 (577)
T ss_pred             HHHHHHHhhhhhcC-CCCcHHHHHHHHHHHhhccHHHHHHHHHHHHh--hC-CchhhhHHHHHhHHHHhcchhhhhHHHH
Confidence            88888777665433 233222222222 3447899999999999988  34 543 33333455566788888887   4


Q ss_pred             HHHhC-C--CCchhh--HHHHHHHH-HHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccC
Q 038303          370 FIREM-P--IEAEWS--VWGALLNA-CRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGAD  428 (461)
Q Consensus       370 ~~~~~-~--~~p~~~--~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  428 (461)
                      ++... .  ..+...  .+.-..+- +...++.+.|..++.++.+..|++...|..++......+
T Consensus       425 l~s~~~~~~~~~~i~~~l~~~~~r~~~~i~~d~~~a~~~l~~~~~~~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  425 LYSSIYEGKENNGILEKLYVKFARLRYKIREDADLARIILLEANDILPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             HHHHhcccccCcchhHHHHHHHHHHHHHHhcCHHHHHHHHHHhhhcCCccHHHHHHHHHHHHhCC
Confidence            44444 1  112211  22222222 566789999999999999999999999999888877665

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=94.83  E-value=1.3  Score=33.84  Aligned_cols=89  Identities=7%  Similarity=0.091  Sum_probs=61.7

Q ss_pred             cchHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCceeHHHHHHHHHcC
Q 038303           10 HYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWTTIISGLSKC   89 (461)
Q Consensus        10 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~   89 (461)
                      ......++..+...+.+.....+++.+...+. .+...++.++..|++.+ ..+..+.++.  ..+......+++.|.+.
T Consensus         7 ~~~~~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~-~~~ll~~l~~--~~~~yd~~~~~~~c~~~   82 (140)
T smart00299        7 PIDVSEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYD-PQKEIERLDN--KSNHYDIEKVGKLCEKA   82 (140)
T ss_pred             cCCHHHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHC-HHHHHHHHHh--ccccCCHHHHHHHHHHc
Confidence            34456788888888889999999999888764 57778888999888764 3444455552  23344455566777777


Q ss_pred             CChHHHHHHHhcC
Q 038303           90 GFHKEAIDMFCGI  102 (461)
Q Consensus        90 ~~~~~a~~~~~~m  102 (461)
                      +.++++.-++..+
T Consensus        83 ~l~~~~~~l~~k~   95 (140)
T smart00299       83 KLYEEAVELYKKD   95 (140)
T ss_pred             CcHHHHHHHHHhh
Confidence            7777777777665

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=94.77  E-value=1.2  Score=33.72  Aligned_cols=115  Identities=12%  Similarity=0.058  Sum_probs=67.7

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCC--CCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhh
Q 038303          283 VISGLAMNGCGRQALQLFSLMIINAVF--PDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGR  360 (461)
Q Consensus       283 l~~~~~~~~~~~~a~~~~~~m~~~g~~--p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  360 (461)
                      -.....+.|++++|.+.|+.+...-..  -....--.++.+|.+.++++.|...+++..+.+.-.|+ .-|...+.+++.
T Consensus        16 ~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~-vdYa~Y~~gL~~   94 (142)
T PF13512_consen   16 EAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPN-VDYAYYMRGLSY   94 (142)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCC-ccHHHHHHHHHH
Confidence            344456778888888888888775211  12355667788888888888888888888873333333 345555555544


Q ss_pred             cCCHHHHHHHHHhC-CCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCh
Q 038303          361 AGLLEEAEAFIREM-PIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSV  414 (461)
Q Consensus       361 ~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  414 (461)
                      -...+.   .+..+ +..-|             .+....|...|+.+++..|.+.
T Consensus        95 ~~~~~~---~~~~~~~~drD-------------~~~~~~A~~~f~~lv~~yP~S~  133 (142)
T PF13512_consen   95 YEQDEG---SLQSFFRSDRD-------------PTPARQAFRDFEQLVRRYPNSE  133 (142)
T ss_pred             HHHhhh---HHhhhcccccC-------------cHHHHHHHHHHHHHHHHCcCCh
Confidence            333222   22222 11111             1224567777777777777664

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=94.76  E-value=3.9  Score=38.84  Aligned_cols=153  Identities=11%  Similarity=0.021  Sum_probs=78.3

Q ss_pred             HHHHHHHcCCChHHHHHHHhcC----CCCCCc-----hhHHHHHHHhcc----cchhHHHHHHHHHHHhhcCCCChhHHH
Q 038303           81 TIISGLSKCGFHKEAIDMFCGI----DVKPNA-----NTLVSVLSACSS----LVSHKLGKAIHAHSLRNLNENNIILDN  147 (461)
Q Consensus        81 ~li~~~~~~~~~~~a~~~~~~m----~~~p~~-----~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  147 (461)
                      .++....-.|+-+.+++.+.+.    ++.-..     -.|..++..++.    ..+.+.+.++++.+.++=  |+...|.
T Consensus       193 kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~y--P~s~lfl  270 (468)
T PF10300_consen  193 KLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKRY--PNSALFL  270 (468)
T ss_pred             HHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHhC--CCcHHHH
Confidence            3344445556666666666555    111111     123333333222    345666777777766652  2333332


Q ss_pred             -HHHHHHHHcCChhhHHHHHhcCCC-------CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHH
Q 038303          148 -AILDFYIRCGSLASCGYLFVKMPK-------RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSA  219 (461)
Q Consensus       148 -~l~~~~~~~g~~~~a~~~~~~~~~-------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~  219 (461)
                       .-.+.+...|++++|++.|++...       -....+-.+..++.-..+|++|.+.|..+.+.  -..+..+|..+..+
T Consensus       271 ~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~--s~WSka~Y~Y~~a~  348 (468)
T PF10300_consen  271 FFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKE--SKWSKAFYAYLAAA  348 (468)
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhc--cccHHHHHHHHHHH
Confidence             233455566777777777775442       12223444555566677777777777777765  33444455544444


Q ss_pred             h-hccchh-------hhHHHHHHHHH
Q 038303          220 C-SSISAL-------SFGKYVHSYIS  237 (461)
Q Consensus       220 ~-~~~~~~-------~~a~~~~~~~~  237 (461)
                      | ...++.       ++|..++.++.
T Consensus       349 c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  349 CLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHHhhccchhhhhhHHHHHHHHHHHH
Confidence            3 223444       55555555543

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.

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=94.71  E-value=2.3  Score=37.56  Aligned_cols=195  Identities=8%  Similarity=-0.006  Sum_probs=109.6

Q ss_pred             HHHHHHHHHHHcCChhhHHHHHhc-------CCC--CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCC---hhh
Q 038303          145 LDNAILDFYIRCGSLASCGYLFVK-------MPK--RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPN---EAT  212 (461)
Q Consensus       145 ~~~~l~~~~~~~g~~~~a~~~~~~-------~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~---~~~  212 (461)
                      ++..+..+.++.|.+++++..--.       ..+  .-...|..+.+++-+--++.+++.+-..-....+..|.   -..
T Consensus        45 ~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq~  124 (518)
T KOG1941|consen   45 VLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQV  124 (518)
T ss_pred             HhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccchh
Confidence            444555566666666655443211       111  11234555555555555666666665554443223331   123


Q ss_pred             HHHHHHHhhccchhhhHHHHHHHHHhhcCCC----CcchHHHHHHHHHHhcCCHHHHHHHHHHcc-------CCChh-hH
Q 038303          213 LVNVLSACSSISALSFGKYVHSYISTRYDLS----VSNLVGNAVINMYVKCGDVGIAIQVFNMLA-------YKDKI-SW  280 (461)
Q Consensus       213 ~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~a~~~~~~~~-------~~~~~-~~  280 (461)
                      ..++-.++...+.++.+.+.|+...+...-.    ....++..|...|.+..++++|.-+..+..       -.|.. -|
T Consensus       125 ~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~ky  204 (518)
T KOG1941|consen  125 SLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKY  204 (518)
T ss_pred             hhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHH
Confidence            3345566667777778777777766522222    234577888888888888888776554332       12221 12


Q ss_pred             H-----HHHHHHHhcCChHHHHHHHHHHHh----cCCCCCH-hHHHHHHHHHHcCCChHHHHHHHHHhH
Q 038303          281 S-----TVISGLAMNGCGRQALQLFSLMII----NAVFPDD-VTFIALISACSHGGLVDQGLILFKAMS  339 (461)
Q Consensus       281 ~-----~l~~~~~~~~~~~~a~~~~~~m~~----~g~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~  339 (461)
                      .     .|.-++...|+...|.+.-++..+    .|-+|.. .....+.+.|...|+.+.|+.-|+...
T Consensus       205 r~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~Am  273 (518)
T KOG1941|consen  205 RAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQAM  273 (518)
T ss_pred             HHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHHH
Confidence            2     344467777888888877777543    3322221 233445566778899888887777653

>PRK11906 transcriptional regulator; Provisional

Probab=94.70  E-value=0.86  Score=41.85  Aligned_cols=158  Identities=8%  Similarity=-0.025  Sum_probs=90.1

Q ss_pred             hhH--HHHHHHHHhc-----CChHHHHHHHHHHHh-cCCCCCH-hHHHHHHHHHHcC---------CChHHHHHHHHHhH
Q 038303          278 ISW--STVISGLAMN-----GCGRQALQLFSLMII-NAVFPDD-VTFIALISACSHG---------GLVDQGLILFKAMS  339 (461)
Q Consensus       278 ~~~--~~l~~~~~~~-----~~~~~a~~~~~~m~~-~g~~p~~-~~~~~ll~~~~~~---------~~~~~a~~~~~~~~  339 (461)
                      ..|  ...+.+....     ...+.|+.+|.+... ....|+. ..|..+..++...         .+..+|.++-+...
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            445  5555554432     134567778888772 2245554 5566665554321         22334555555555


Q ss_pred             hhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCchhh-HHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChh--
Q 038303          340 TVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAEWS-VWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVG--  415 (461)
Q Consensus       340 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--  415 (461)
                      +  --+-|......+..++.-.++.+.|..+|++. ...|+.. .|......+.-.|+.++|.+.+++..+..|....  
T Consensus       332 e--ld~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~  409 (458)
T PRK11906        332 D--ITTVDGKILAIMGLITGLSGQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAV  409 (458)
T ss_pred             h--cCCCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHH
Confidence            4  22345555566666666677788888888877 4455443 3333333456678888888888888877765533  


Q ss_pred             HHHHHHHHHhccCChhhHHHHHH
Q 038303          416 TFALMSNTFAGADRWEDTNKIRD  438 (461)
Q Consensus       416 ~~~~l~~~~~~~g~~~~A~~~~~  438 (461)
                      .....+..|+.. ..++|.+++-
T Consensus       410 ~~~~~~~~~~~~-~~~~~~~~~~  431 (458)
T PRK11906        410 VIKECVDMYVPN-PLKNNIKLYY  431 (458)
T ss_pred             HHHHHHHHHcCC-chhhhHHHHh
Confidence            333444445544 4566666653

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.64  E-value=4.9  Score=39.42  Aligned_cols=102  Identities=7%  Similarity=-0.018  Sum_probs=72.6

Q ss_pred             HHHHHhhCCHHHHHHHHHHHHHhCCCc---cHHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCceeHHHHHHHHHcCCChH
Q 038303           17 LKACSLAHPHQKALEIHAHVIEYGHLH---DIFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWTTIISGLSKCGFHK   93 (461)
Q Consensus        17 l~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~   93 (461)
                      ++.+.+.+.+++|+.+-+....  ..|   ....+...+..+...|++++|-...-.|...+..-|..-+..+...++..
T Consensus       363 i~Wll~~k~yeeAl~~~k~~~~--~~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn~~~eWe~~V~~f~e~~~l~  440 (846)
T KOG2066|consen  363 IDWLLEKKKYEEALDAAKASIG--NEERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGNNAAEWELWVFKFAELDQLT  440 (846)
T ss_pred             HHHHHHhhHHHHHHHHHHhccC--CccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcchHHHHHHHHHHhccccccc
Confidence            6678888889999887766543  333   34466778888888999999999999998888888888888887777765


Q ss_pred             HHHHHHhcCCCCCCchhHHHHHHHhcc
Q 038303           94 EAIDMFCGIDVKPNANTLVSVLSACSS  120 (461)
Q Consensus        94 ~a~~~~~~m~~~p~~~~~~~ll~~~~~  120 (461)
                      ....++=.-.-..+...|..++..+..
T Consensus       441 ~Ia~~lPt~~~rL~p~vYemvLve~L~  467 (846)
T KOG2066|consen  441 DIAPYLPTGPPRLKPLVYEMVLVEFLA  467 (846)
T ss_pred             hhhccCCCCCcccCchHHHHHHHHHHH
Confidence            544433221222355668778777665

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.61  E-value=1.4  Score=40.81  Aligned_cols=63  Identities=11%  Similarity=0.031  Sum_probs=46.0

Q ss_pred             cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc---hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcC
Q 038303          348 MQHYACVVDMYGRAGLLEEAEAFIREM-PIEA---EWSVWGALLNACRIHRNDEMFDRIRQDLVNKK  410 (461)
Q Consensus       348 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  410 (461)
                      ..+-..|..++-+.|+.++|.+.++++ +..|   .......|+.++...+.+.++..++.+..+..
T Consensus       259 ~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~  325 (539)
T PF04184_consen  259 VYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDIS  325 (539)
T ss_pred             hhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcccc
Confidence            344455677777889999999888888 3223   33466778888888888999988888876543

The molecular function of this protein is uncertain.

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.48  E-value=0.078  Score=29.35  Aligned_cols=26  Identities=4%  Similarity=0.148  Sum_probs=21.6

Q ss_pred             HHHHHHHHHhccCChhhHHHHHHHHH
Q 038303          416 TFALMSNTFAGADRWEDTNKIRDEIR  441 (461)
Q Consensus       416 ~~~~l~~~~~~~g~~~~A~~~~~~m~  441 (461)
                      +|..|+.+|.+.|++++|++++++..
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            47789999999999999999999854

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.41  E-value=5.8  Score=39.31  Aligned_cols=53  Identities=13%  Similarity=0.073  Sum_probs=33.5

Q ss_pred             HHHHHhhcCCHHHHHHHHHhCCCCchhhHHHHHHHHHHhcCChHHHHHHHHHHh
Q 038303          354 VVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLV  407 (461)
Q Consensus       354 l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  407 (461)
                      ++..+.+..+++.+..+.+..+.. ++..|..++..+.+.+..+.-.+...++.
T Consensus       711 l~~~~~q~~d~E~~it~~~~~g~~-~p~l~~~~L~yF~~~~~i~~~~~~v~~vl  763 (933)
T KOG2114|consen  711 LMLYFQQISDPETVITLCERLGKE-DPSLWLHALKYFVSEESIEDCYEIVYKVL  763 (933)
T ss_pred             HHHHHHHhhChHHHHHHHHHhCcc-ChHHHHHHHHHHhhhcchhhHHHHHHHHH
Confidence            455666667777777777777533 66677777777777765555444444433

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=94.34  E-value=2.8  Score=35.32  Aligned_cols=65  Identities=9%  Similarity=0.038  Sum_probs=34.9

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhcCCCCCCh---hhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCc
Q 038303          179 TMIGGYAERGFCKEAVSVFQEMEKTKEAEPNE---ATLVNVLSACSSISALSFGKYVHSYISTRYDLSVS  245 (461)
Q Consensus       179 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~---~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~  245 (461)
                      .-+..-.+.|++++|.+.|+.+....  +-++   .+...++-++-+.++.+.|....+...+..+-.|+
T Consensus        39 ~~g~~~L~~gn~~~A~~~fe~l~~~~--p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n  106 (254)
T COG4105          39 NEGLTELQKGNYEEAIKYFEALDSRH--PFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPN  106 (254)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcC--CCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCC
Confidence            33445577888999999999888652  2222   22333333444444455554444444443333333

>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=94.30  E-value=1.4  Score=35.38  Aligned_cols=94  Identities=12%  Similarity=0.019  Sum_probs=56.7

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH--hHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCc------ch
Q 038303          279 SWSTVISGLAMNGCGRQALQLFSLMIINAVFPDD--VTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQM------QH  350 (461)
Q Consensus       279 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------~~  350 (461)
                      .+..+...|++.|+.+.|.+.|.++.+....|..  ..+-.+|+.....+++..+...+.+......-..+.      ..
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk~  117 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLKV  117 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHHH
Confidence            4566677777777777777777777776554444  445566677777777777777776665521111111      12


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC
Q 038303          351 YACVVDMYGRAGLLEEAEAFIREM  374 (461)
Q Consensus       351 ~~~l~~~~~~~g~~~~A~~~~~~~  374 (461)
                      |..|  .+...+++.+|.+.|-+.
T Consensus       118 ~~gL--~~l~~r~f~~AA~~fl~~  139 (177)
T PF10602_consen  118 YEGL--ANLAQRDFKEAAELFLDS  139 (177)
T ss_pred             HHHH--HHHHhchHHHHHHHHHcc
Confidence            2222  223467777777777666

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.

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=94.28  E-value=0.59  Score=39.54  Aligned_cols=98  Identities=11%  Similarity=0.095  Sum_probs=75.6

Q ss_pred             HHHHHhcCC--CCchhHHHHHHHHHHh-----cCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhcc-----------
Q 038303          162 CGYLFVKMP--KRNVVSWTTMIGGYAE-----RGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSI-----------  223 (461)
Q Consensus       162 a~~~~~~~~--~~~~~~~~~li~~~~~-----~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~-----------  223 (461)
                      .++.|....  ++|..+|-..+..+..     .+..+=....++.|.+-| +.-|..+|..+++.+-+.           
T Consensus        53 ~e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyG-VerDl~vYk~LlnvfPKgkfiP~nvfQ~~  131 (406)
T KOG3941|consen   53 VEKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYG-VERDLDVYKGLLNVFPKGKFIPQNVFQKV  131 (406)
T ss_pred             hhhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhc-chhhHHHHHHHHHhCcccccccHHHHHHH
Confidence            345566665  4777788777776654     356777777888899988 999999999999886553           


Q ss_pred             -----chhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCC
Q 038303          224 -----SALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGD  261 (461)
Q Consensus       224 -----~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  261 (461)
                           .+-.-+..++++|.. .|+.||..+-..|++++++.+-
T Consensus       132 F~HYP~QQ~C~I~vLeqME~-hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  132 FLHYPQQQNCAIKVLEQMEW-HGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             HhhCchhhhHHHHHHHHHHH-cCCCCchHHHHHHHHHhccccc
Confidence                 234557888999988 9999999998999999987765

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=94.15  E-value=3.4  Score=35.58  Aligned_cols=54  Identities=9%  Similarity=0.131  Sum_probs=38.9

Q ss_pred             HhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCCC
Q 038303          117 ACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPK  171 (461)
Q Consensus       117 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  171 (461)
                      .....|+...|..+|......... +...--.++.+|...|+.+.|..++..++.
T Consensus       143 ~~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~  196 (304)
T COG3118         143 ELIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPL  196 (304)
T ss_pred             hhhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCcc
Confidence            345667777888888877776555 345556677788888888888888888764

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=94.10  E-value=3  Score=34.81  Aligned_cols=182  Identities=15%  Similarity=0.039  Sum_probs=72.9

Q ss_pred             CChHHHHHHHHHHHhcCCCC-CChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHH
Q 038303          188 GFCKEAVSVFQEMEKTKEAE-PNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAI  266 (461)
Q Consensus       188 ~~~~~a~~~~~~m~~~~~~~-~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  266 (461)
                      +....+...+....... .. .....+......+...+....+...+...............+......+...++...+.
T Consensus        37 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (291)
T COG0457          37 GELAEALELLEEALELL-PNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEAL  115 (291)
T ss_pred             hhHHHHHHHHHHHHhcC-ccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHH
Confidence            34444444444444421 10 02344444444455555555555554444331012222233333444444444455555


Q ss_pred             HHHHHccCC--Ch-hhHHHHHH-HHHhcCChHHHHHHHHHHHhcCCCC----CHhHHHHHHHHHHcCCChHHHHHHHHHh
Q 038303          267 QVFNMLAYK--DK-ISWSTVIS-GLAMNGCGRQALQLFSLMIINAVFP----DDVTFIALISACSHGGLVDQGLILFKAM  338 (461)
Q Consensus       267 ~~~~~~~~~--~~-~~~~~l~~-~~~~~~~~~~a~~~~~~m~~~g~~p----~~~~~~~ll~~~~~~~~~~~a~~~~~~~  338 (461)
                      +.+......  +. ........ .+...|+++.|...+.+...  ..|    ....+......+...++.+.+...+...
T Consensus       116 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  193 (291)
T COG0457         116 ELLEKALALDPDPDLAEALLALGALYELGDYEEALELYEKALE--LDPELNELAEALLALGALLEALGRYEEALELLEKA  193 (291)
T ss_pred             HHHHHHHcCCCCcchHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHH
Confidence            555444421  11 11122222 34445555555555555433  111    1122222222233444455555554444


Q ss_pred             HhhcCCCC-CcchHHHHHHHHhhcCCHHHHHHHHHhC
Q 038303          339 STVYEIVP-QMQHYACVVDMYGRAGLLEEAEAFIREM  374 (461)
Q Consensus       339 ~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~  374 (461)
                      ..  ..+. ....+..+...+...++++.|...+...
T Consensus       194 ~~--~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  228 (291)
T COG0457         194 LK--LNPDDDAEALLNLGLLYLKLGKYEEALEYYEKA  228 (291)
T ss_pred             Hh--hCcccchHHHHHhhHHHHHcccHHHHHHHHHHH
Confidence            43  1112 2333444444444444444444444444

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=93.98  E-value=4.7  Score=36.64  Aligned_cols=148  Identities=7%  Similarity=-0.069  Sum_probs=75.3

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC---CHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCC--cch
Q 038303          276 DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFP---DDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQ--MQH  350 (461)
Q Consensus       276 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p---~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~  350 (461)
                      ...+|..++..+.+.|.++.|...+.++...+..+   ++.....-.+..-..|+.++|+..++.... ..+..+  ...
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~-~~~~~~~~~~~  223 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK-CRLSKNIDSIS  223 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH-HHhhhcccccc
Confidence            44567778888888888888888888877644222   223333445556667888888888777765 122211  111


Q ss_pred             HHHHHHHHhhcCCHHHHHHHH-HhCCCCchhhHHHHHHHHHHh------cCChHHHHHHHHHHhhcCCCChhHHHHHHHH
Q 038303          351 YACVVDMYGRAGLLEEAEAFI-REMPIEAEWSVWGALLNACRI------HRNDEMFDRIRQDLVNKKGVSVGTFALMSNT  423 (461)
Q Consensus       351 ~~~l~~~~~~~g~~~~A~~~~-~~~~~~p~~~~~~~l~~~~~~------~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  423 (461)
                      ...+...+..  ..+.....- .......-...+..+..-+..      .+..+++...|..+.+..|.....|..++..
T Consensus       224 ~~~~~~~~~~--~~~~~~~~~~~~~~~~~~a~~~l~~a~w~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~k~~~~~a~~  301 (352)
T PF02259_consen  224 NAELKSGLLE--SLEVISSTNLDKESKELKAKAFLLLAKWLDELYSKLSSESSDEILKYYKEATKLDPSWEKAWHSWALF  301 (352)
T ss_pred             HHHHhhcccc--ccccccccchhhhhHHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHhChhHHHHHHHHHHH
Confidence            1111111100  000000000 000000001112112222222      3777888888888888777777777777766


Q ss_pred             Hhc
Q 038303          424 FAG  426 (461)
Q Consensus       424 ~~~  426 (461)
                      +.+
T Consensus       302 ~~~  304 (352)
T PF02259_consen  302 NDK  304 (352)
T ss_pred             HHH
Confidence            654

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=93.89  E-value=3.5  Score=34.84  Aligned_cols=198  Identities=11%  Similarity=0.077  Sum_probs=100.3

Q ss_pred             CCCCCCcchHHHHHHHHH-hhCCHHHHHHHHHHHHHhCCCccHH---HHHHHHHHHHhcCCHHHHHHHHhhCC-------
Q 038303            4 CPSSYNHYTFTQALKACS-LAHPHQKALEIHAHVIEYGHLHDIF---IQNSLLHFYVTVKDIFSAHQIFNSVV-------   72 (461)
Q Consensus         4 ~g~~p~~~~~~~ll~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~ll~~~~~~~~~~~a~~~~~~~~-------   72 (461)
                      .+-.||+..=|..-++-+ +...+++|+.-|+...+........   ....++....+.+++++....|.++.       
T Consensus        20 s~sEpdVDlENQYYnsK~l~e~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAV   99 (440)
T KOG1464|consen   20 SNSEPDVDLENQYYNSKGLKEDEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAV   99 (440)
T ss_pred             cCCCCCcchHhhhhccccccccCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHH
Confidence            345666666554443322 3446778888888777653222222   34456677777777777777776651       


Q ss_pred             --CCCceeHHHHHHHHHcCCChHHHHHHHhcCCCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhh-cCCCChh----H
Q 038303           73 --FPDVVSWTTIISGLSKCGFHKEAIDMFCGIDVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRN-LNENNII----L  145 (461)
Q Consensus        73 --~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~----~  145 (461)
                        .-+..+.|++++-.....+.+                                ....+++.-++. .-..+..    +
T Consensus       100 TrNySEKsIN~IlDyiStS~~m~--------------------------------LLQ~FYeTTL~ALkdAKNeRLWFKT  147 (440)
T KOG1464|consen  100 TRNYSEKSINSILDYISTSKNMD--------------------------------LLQEFYETTLDALKDAKNERLWFKT  147 (440)
T ss_pred             hccccHHHHHHHHHHHhhhhhhH--------------------------------HHHHHHHHHHHHHHhhhcceeeeec
Confidence              112233444444333333333                                333332222111 0000111    1


Q ss_pred             HHHHHHHHHHcCChhhHHHHHhcCCC---------------CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCh
Q 038303          146 DNAILDFYIRCGSLASCGYLFVKMPK---------------RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNE  210 (461)
Q Consensus       146 ~~~l~~~~~~~g~~~~a~~~~~~~~~---------------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~  210 (461)
                      -..|...|...|.+.+..+++.++.+               .-...|..=|..|..+.+-.+...+|++...-....|.+
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            13345555555555555555555432               012356666777777777777777777765543355555


Q ss_pred             hhHHHHHHH----hhccchhhhHHHHH
Q 038303          211 ATLVNVLSA----CSSISALSFGKYVH  233 (461)
Q Consensus       211 ~~~~~~l~~----~~~~~~~~~a~~~~  233 (461)
                      .....+-.+    ..+.|.+++|..=|
T Consensus       228 lImGvIRECGGKMHlreg~fe~AhTDF  254 (440)
T KOG1464|consen  228 LIMGVIRECGGKMHLREGEFEKAHTDF  254 (440)
T ss_pred             HHHhHHHHcCCccccccchHHHHHhHH
Confidence            554443332    34456666665433

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=93.84  E-value=9.4  Score=39.59  Aligned_cols=53  Identities=17%  Similarity=0.211  Sum_probs=27.9

Q ss_pred             HHHHHHhcCCHHHHHHHHHHccCCChhh---HHHHHHHHHhcCChHHHHHHHHHHH
Q 038303          252 VINMYVKCGDVGIAIQVFNMLAYKDKIS---WSTVISGLAMNGCGRQALQLFSLMI  304 (461)
Q Consensus       252 li~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~a~~~~~~m~  304 (461)
                      .+.+|..+|++.+|..+-.++...-...   -..|+.-+...+++-+|-++..+..
T Consensus       971 Al~a~~~~~dWr~~l~~a~ql~~~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~ 1026 (1265)
T KOG1920|consen  971 ALKAYKECGDWREALSLAAQLSEGKDELVILAEELVSRLVEQRKHYEAAKILLEYL 1026 (1265)
T ss_pred             HHHHHHHhccHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHcccchhHHHHHHHHh
Confidence            4455555666666666665555432211   2445555555666666555555543

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.80  E-value=1.7  Score=34.07  Aligned_cols=118  Identities=14%  Similarity=0.082  Sum_probs=81.9

Q ss_pred             HHhcCCHHHHHHHHHHccCCChhhHHHHH-----HHHHhcCChHHHHHHHHHHHhcCCCCCHh-HHHHHHH--HHHcCCC
Q 038303          256 YVKCGDVGIAIQVFNMLAYKDKISWSTVI-----SGLAMNGCGRQALQLFSLMIINAVFPDDV-TFIALIS--ACSHGGL  327 (461)
Q Consensus       256 ~~~~g~~~~a~~~~~~~~~~~~~~~~~l~-----~~~~~~~~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~--~~~~~~~  327 (461)
                      +.+.+..++|+.-|..+.+.+...|-.|.     ....+.|+...|...|++.-.....|-.. -...|=.  .+...|.
T Consensus        68 lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gs  147 (221)
T COG4649          68 LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGS  147 (221)
T ss_pred             HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhcccc
Confidence            45678888888888888877665555543     34677899999999999987765555443 1122212  3567888


Q ss_pred             hHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC
Q 038303          328 VDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM  374 (461)
Q Consensus       328 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  374 (461)
                      ++....-.+-+.. .+-+.....-..|.-+-.+.|++.+|.++|..+
T Consensus       148 y~dV~srvepLa~-d~n~mR~sArEALglAa~kagd~a~A~~~F~qi  193 (221)
T COG4649         148 YDDVSSRVEPLAG-DGNPMRHSAREALGLAAYKAGDFAKAKSWFVQI  193 (221)
T ss_pred             HHHHHHHhhhccC-CCChhHHHHHHHHhHHHHhccchHHHHHHHHHH
Confidence            8888887777655 343344444556766777899999999999987

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=93.80  E-value=8.1  Score=38.71  Aligned_cols=194  Identities=13%  Similarity=0.075  Sum_probs=97.2

Q ss_pred             HhcCCHHHHHHHHHHcc----CCCh-------hhHHHHHH-HHHhcCChHHHHHHHHHHHhc----CCCCCHhHHHHHHH
Q 038303          257 VKCGDVGIAIQVFNMLA----YKDK-------ISWSTVIS-GLAMNGCGRQALQLFSLMIIN----AVFPDDVTFIALIS  320 (461)
Q Consensus       257 ~~~g~~~~a~~~~~~~~----~~~~-------~~~~~l~~-~~~~~~~~~~a~~~~~~m~~~----g~~p~~~~~~~ll~  320 (461)
                      ....++++|..++.+..    .++.       ..|+.+-. .....|++++|.++.+.....    -..+....+..+..
T Consensus       426 ~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~~  505 (894)
T COG2909         426 ASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLGE  505 (894)
T ss_pred             HHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhhH
Confidence            34566666666665543    2211       13444322 233467777877777666543    12334455566666


Q ss_pred             HHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHH-----HHHhhcCCH--HHHHHHHHhC-----CCC----chhhHHH
Q 038303          321 ACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVV-----DMYGRAGLL--EEAEAFIREM-----PIE----AEWSVWG  384 (461)
Q Consensus       321 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~-----~~~~~~g~~--~~A~~~~~~~-----~~~----p~~~~~~  384 (461)
                      +..-.|++++|..+.....+ ..-.-+...+....     ..+...|+.  ++.+..|...     +.+    +-..+..
T Consensus       506 a~~~~G~~~~Al~~~~~a~~-~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r~  584 (894)
T COG2909         506 AAHIRGELTQALALMQQAEQ-MARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIRA  584 (894)
T ss_pred             HHHHhchHHHHHHHHHHHHH-HHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHH
Confidence            66677888888777766655 22223333332222     223445522  2222223222     111    1223344


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhh----cCCCCh---hHHHHHHHHHhccCChhhHHHHHHHHHHcCCccccCcccc
Q 038303          385 ALLNACRIHRNDEMFDRIRQDLVN----KKGVSV---GTFALMSNTFAGADRWEDTNKIRDEIRRMGLKKKTGCSWI  454 (461)
Q Consensus       385 ~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~  454 (461)
                      .++.++.+   .+.+..-.....+    ..|...   ..+..|++.....|+.++|...++++......+++...|.
T Consensus       585 ~ll~~~~r---~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~~~~~~~~  658 (894)
T COG2909         585 QLLRAWLR---LDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNGQYHVDYL  658 (894)
T ss_pred             HHHHHHHH---HhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCCCchHH
Confidence            44444333   3333333332222    112211   1223677788888888888888888877766665554443

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.74  E-value=7.6  Score=38.21  Aligned_cols=169  Identities=14%  Similarity=0.063  Sum_probs=103.8

Q ss_pred             HHHHHHcCCChHHHHHHHhcC-CCCCC---chhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcC
Q 038303           82 IISGLSKCGFHKEAIDMFCGI-DVKPN---ANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCG  157 (461)
Q Consensus        82 li~~~~~~~~~~~a~~~~~~m-~~~p~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  157 (461)
                      =|+.+.+.+.+++|++..+.. |..|.   .......|..+...|++++|-...-.|...    +..-|.--+..+...+
T Consensus       362 hi~Wll~~k~yeeAl~~~k~~~~~~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn----~~~eWe~~V~~f~e~~  437 (846)
T KOG2066|consen  362 HIDWLLEKKKYEEALDAAKASIGNEERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGN----NAAEWELWVFKFAELD  437 (846)
T ss_pred             hHHHHHHhhHHHHHHHHHHhccCCccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcc----hHHHHHHHHHHhcccc
Confidence            366778889999999999888 66663   345667788888888888888887777665    5566666666666666


Q ss_pred             ChhhHHHHHhcCCC-CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHH
Q 038303          158 SLASCGYLFVKMPK-RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYI  236 (461)
Q Consensus       158 ~~~~a~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~  236 (461)
                      +......++-.-.. -+...|..++..++.    ... .-|.+..+.  -+++...-..++++.-.            ++
T Consensus       438 ~l~~Ia~~lPt~~~rL~p~vYemvLve~L~----~~~-~~F~e~i~~--Wp~~Lys~l~iisa~~~------------q~  498 (846)
T KOG2066|consen  438 QLTDIAPYLPTGPPRLKPLVYEMVLVEFLA----SDV-KGFLELIKE--WPGHLYSVLTIISATEP------------QI  498 (846)
T ss_pred             ccchhhccCCCCCcccCchHHHHHHHHHHH----HHH-HHHHHHHHh--CChhhhhhhHHHhhcch------------HH
Confidence            66554444333332 356678888887776    222 223333332  44444433333333111            01


Q ss_pred             HhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCCC
Q 038303          237 STRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKD  276 (461)
Q Consensus       237 ~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  276 (461)
                      .   ...-+......|+..|...+++.+|..++-..++++
T Consensus       499 ~---q~Se~~~L~e~La~LYl~d~~Y~~Al~~ylklk~~~  535 (846)
T KOG2066|consen  499 K---QNSESTALLEVLAHLYLYDNKYEKALPIYLKLQDKD  535 (846)
T ss_pred             H---hhccchhHHHHHHHHHHHccChHHHHHHHHhccChH
Confidence            0   011112223448888888999999998888877664

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=93.74  E-value=4.5  Score=35.59  Aligned_cols=134  Identities=9%  Similarity=0.130  Sum_probs=71.2

Q ss_pred             hHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhc--c----chhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHH
Q 038303          190 CKEAVSVFQEMEKTKEAEPNEATLVNVLSACSS--I----SALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVG  263 (461)
Q Consensus       190 ~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~--~----~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  263 (461)
                      +++...+++.|.+.| +.-+..+|.+.......  .    .....+..+++.|.+.+.+-.+                  
T Consensus        78 ~~~~~~~y~~L~~~g-Fk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs------------------  138 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAG-FKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTS------------------  138 (297)
T ss_pred             HHHHHHHHHHHHHhc-cCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccC------------------
Confidence            445667888888888 88887777654333222  1    1233344444444443222111                  


Q ss_pred             HHHHHHHHccCCChhhHHHHHHHHHhcCC----hHHHHHHHHHHHhcCCCCCHh--HHHHHHHHHHcCCC--hHHHHHHH
Q 038303          264 IAIQVFNMLAYKDKISWSTVISGLAMNGC----GRQALQLFSLMIINAVFPDDV--TFIALISACSHGGL--VDQGLILF  335 (461)
Q Consensus       264 ~a~~~~~~~~~~~~~~~~~l~~~~~~~~~----~~~a~~~~~~m~~~g~~p~~~--~~~~ll~~~~~~~~--~~~a~~~~  335 (461)
                                 ++..++..++..  ..++    .+.++.+|+.+.+.|+..+..  ....++..+.....  ..++..++
T Consensus       139 -----------~~D~~~a~lLA~--~~~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~  205 (297)
T PF13170_consen  139 -----------PEDYPFAALLAM--TSEDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELY  205 (297)
T ss_pred             -----------ccchhHHHHHhc--ccccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHH
Confidence                       122333333332  2222    245667777777777765542  33333333322222  44677788


Q ss_pred             HHhHhhcCCCCCcchHHHHHH
Q 038303          336 KAMSTVYEIVPQMQHYACVVD  356 (461)
Q Consensus       336 ~~~~~~~~~~~~~~~~~~l~~  356 (461)
                      +.+.+ .|+++....|..+.-
T Consensus       206 ~~l~~-~~~kik~~~yp~lGl  225 (297)
T PF13170_consen  206 NALKK-NGVKIKYMHYPTLGL  225 (297)
T ss_pred             HHHHH-cCCccccccccHHHH
Confidence            88877 688877777665543

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=93.73  E-value=5.8  Score=36.84  Aligned_cols=242  Identities=11%  Similarity=0.046  Sum_probs=137.2

Q ss_pred             HHHHHHHHHHHhcCCCCCChhhHHHHHHHhhcc------chhhhHHHHHHHHHhhcCCCCc-chHHHHHHHHHHhcCCHH
Q 038303          191 KEAVSVFQEMEKTKEAEPNEATLVNVLSACSSI------SALSFGKYVHSYISTRYDLSVS-NLVGNAVINMYVKCGDVG  263 (461)
Q Consensus       191 ~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~------~~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~  263 (461)
                      +....+|++..+   .-|+...+...|..|...      ..+.....+++...+..+..+. ...|..+.-.++..+...
T Consensus       299 s~~~~v~ee~v~---~l~t~sm~e~YI~~~lE~~~~~r~~~I~h~~~~~~~~~~~~~l~~~~~~~ys~~~l~~~t~~~~r  375 (568)
T KOG2396|consen  299 SRCCAVYEEAVK---TLPTESMWECYITFCLERFTFLRGKRILHTMCVFRKAHELKLLSECLYKQYSVLLLCLNTLNEAR  375 (568)
T ss_pred             HHHHHHHHHHHH---HhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHhccchHh
Confidence            344467777666   455555565555554332      2344555666666664454444 335566666666655544


Q ss_pred             H-HHHHHHHccCCChhhHHHHHHHHHhcC-ChHH-HHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCC-hHHH--HHHHHH
Q 038303          264 I-AIQVFNMLAYKDKISWSTVISGLAMNG-CGRQ-ALQLFSLMIINAVFPDDVTFIALISACSHGGL-VDQG--LILFKA  337 (461)
Q Consensus       264 ~-a~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~-a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~-~~~a--~~~~~~  337 (461)
                      + |..+..+....+...|..-++...+.. +++- -.+++......-..+-...++...     .++ ....  ..++..
T Consensus       376 ~~a~~l~~e~f~~s~k~~~~kl~~~~~s~sD~q~~f~~l~n~~r~~~~s~~~~~w~s~~-----~~dsl~~~~~~~Ii~a  450 (568)
T KOG2396|consen  376 EVAVKLTTELFRDSGKMWQLKLQVLIESKSDFQMLFEELFNHLRKQVCSELLISWASAS-----EGDSLQEDTLDLIISA  450 (568)
T ss_pred             HHHHHhhHHHhcchHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHhcchhHHHHHHHh-----hccchhHHHHHHHHHH
Confidence            4 333433555556666665555544321 2221 222233333322222223333332     122 1111  122333


Q ss_pred             hHhhcCCCCCcch-HHHHHHHHhhcCCHHHHHHHHHhC-CC-CchhhHHHHHHHHH--HhcCChHHHHHHHHHHhhcCCC
Q 038303          338 MSTVYEIVPQMQH-YACVVDMYGRAGLLEEAEAFIREM-PI-EAEWSVWGALLNAC--RIHRNDEMFDRIRQDLVNKKGV  412 (461)
Q Consensus       338 ~~~~~~~~~~~~~-~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~--~~~~~~~~a~~~~~~~~~~~~~  412 (461)
                      ...  -..|+..+ -+.+++-+-+.|-.++|...+..+ .. +|+...|..++..-  ...-+...+..+++.+......
T Consensus       451 ~~s--~~~~~~~tl~s~~l~~~~e~~~~~~ark~y~~l~~lpp~sl~l~r~miq~e~~~~sc~l~~~r~~yd~a~~~fg~  528 (568)
T KOG2396|consen  451 LLS--VIGADSVTLKSKYLDWAYESGGYKKARKVYKSLQELPPFSLDLFRKMIQFEKEQESCNLANIREYYDRALREFGA  528 (568)
T ss_pred             HHH--hcCCceeehhHHHHHHHHHhcchHHHHHHHHHHHhCCCccHHHHHHHHHHHhhHhhcCchHHHHHHHHHHHHhCC
Confidence            333  22344444 456788888999999999999988 22 34666677776651  2222378889999999986668


Q ss_pred             ChhHHHHHHHHHhccCChhhHHHHHHHHHH
Q 038303          413 SVGTFALMSNTFAGADRWEDTNKIRDEIRR  442 (461)
Q Consensus       413 ~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  442 (461)
                      ++..|.....--...|+.+.+-.++.+..+
T Consensus       529 d~~lw~~y~~~e~~~g~~en~~~~~~ra~k  558 (568)
T KOG2396|consen  529 DSDLWMDYMKEELPLGRPENCGQIYWRAMK  558 (568)
T ss_pred             ChHHHHHHHHhhccCCCcccccHHHHHHHH
Confidence            899999988888899999988887776643

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.70  E-value=4.5  Score=35.46  Aligned_cols=145  Identities=8%  Similarity=-0.088  Sum_probs=99.3

Q ss_pred             HhcCCHHHHHHHHhhC---CCCCceeHHHHHHHHHcCCChHHHHHHHhcC--CCCCCchhHHHHH----HHhcccchhHH
Q 038303           56 VTVKDIFSAHQIFNSV---VFPDVVSWTTIISGLSKCGFHKEAIDMFCGI--DVKPNANTLVSVL----SACSSLVSHKL  126 (461)
Q Consensus        56 ~~~~~~~~a~~~~~~~---~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m--~~~p~~~~~~~ll----~~~~~~~~~~~  126 (461)
                      .-.|++.+|-..++++   -+.|..+++..=.++.-.|+...-...+++.  .-.||...|.-+=    -++...|-+++
T Consensus       114 ~~~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  114 WGRGKHHEAAIEWDKLLDDYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDD  193 (491)
T ss_pred             hccccccHHHHHHHHHHHhCchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchh
Confidence            3467777877777777   3456667777778888889888888888877  3355554443332    23457788899


Q ss_pred             HHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCCC--Cc-----hhHHHHHHHHHHhcCChHHHHHHHHH
Q 038303          127 GKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPK--RN-----VVSWTTMIGGYAERGFCKEAVSVFQE  199 (461)
Q Consensus       127 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~-----~~~~~~li~~~~~~~~~~~a~~~~~~  199 (461)
                      |++.-++..+.+.. |.-...++...+-..|+..++.++..+-..  ++     ...|=...-.+...+.++.|+++|+.
T Consensus       194 AEk~A~ralqiN~~-D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD~  272 (491)
T KOG2610|consen  194 AEKQADRALQINRF-DCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDR  272 (491)
T ss_pred             HHHHHHhhccCCCc-chHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHH
Confidence            99888888776544 555666778888888999999988877664  11     11122233345667889999999886


Q ss_pred             HH
Q 038303          200 ME  201 (461)
Q Consensus       200 m~  201 (461)
                      -.
T Consensus       273 ei  274 (491)
T KOG2610|consen  273 EI  274 (491)
T ss_pred             HH
Confidence            43

>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=93.64  E-value=2.2  Score=31.71  Aligned_cols=63  Identities=13%  Similarity=0.064  Sum_probs=39.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCC
Q 038303          280 WSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEI  344 (461)
Q Consensus       280 ~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  344 (461)
                      ....+..+...|+-|+-.+++.++.+. -.|++...-.+..+|.+.|+..++.+++.+..+ .|+
T Consensus        89 vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACe-kG~  151 (161)
T PF09205_consen   89 VDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACE-KGL  151 (161)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHH-TT-
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHH-hch
Confidence            344566677777777777777777652 356667777777778888888888887777776 454

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=93.40  E-value=0.33  Score=28.26  Aligned_cols=40  Identities=10%  Similarity=-0.019  Sum_probs=27.6

Q ss_pred             chHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHH
Q 038303           11 YTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSL   51 (461)
Q Consensus        11 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   51 (461)
                      .++..+..++.+.|++++|.++|+...+..+. ++..+..+
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~-~~~a~~~L   41 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDPD-DPEAWRAL   41 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC-CHHHHHHh
Confidence            35667777888888888888888888876543 44444443

>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=93.29  E-value=5.2  Score=34.98  Aligned_cols=160  Identities=8%  Similarity=-0.028  Sum_probs=81.9

Q ss_pred             hhHHHHHHHHHhcCChH---HHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHH
Q 038303          278 ISWSTVISGLAMNGCGR---QALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACV  354 (461)
Q Consensus       278 ~~~~~l~~~~~~~~~~~---~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  354 (461)
                      .+...++.++...+..+   +|..+++.+...... .+..+..-++.+.+.++.+.+.+.+.+|...  +.-....+...
T Consensus        85 ~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~-~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~--~~~~e~~~~~~  161 (278)
T PF08631_consen   85 SILRLLANAYLEWDTYESVEKALNALRLLESEYGN-KPEVFLLKLEILLKSFDEEEYEEILMRMIRS--VDHSESNFDSI  161 (278)
T ss_pred             HHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCC-CcHHHHHHHHHHhccCChhHHHHHHHHHHHh--cccccchHHHH
Confidence            34566677777666544   455566666443221 2345555666666788888888888888873  32222333333


Q ss_pred             HHHH---hhcCCHHHHHHHHHhC-----CCCchhhHHHHHHHH---HHhc------CChHHHHHHHHHHhh--cCCCChh
Q 038303          355 VDMY---GRAGLLEEAEAFIREM-----PIEAEWSVWGALLNA---CRIH------RNDEMFDRIRQDLVN--KKGVSVG  415 (461)
Q Consensus       355 ~~~~---~~~g~~~~A~~~~~~~-----~~~p~~~~~~~l~~~---~~~~------~~~~~a~~~~~~~~~--~~~~~~~  415 (461)
                      +..+   .... ...|...+..+     ...++...=..++..   ....      +..+....+++.+.+  ..|.+..
T Consensus       162 l~~i~~l~~~~-~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~~  240 (278)
T PF08631_consen  162 LHHIKQLAEKS-PELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLSAE  240 (278)
T ss_pred             HHHHHHHHhhC-cHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCCHH
Confidence            3333   3333 33444444444     222331111111111   1121      124455555554443  2343433


Q ss_pred             HH---H----HHHHHHhccCChhhHHHHHHHHH
Q 038303          416 TF---A----LMSNTFAGADRWEDTNKIRDEIR  441 (461)
Q Consensus       416 ~~---~----~l~~~~~~~g~~~~A~~~~~~m~  441 (461)
                      +-   .    .-+..+.+.++|++|.+.++-..
T Consensus       241 ~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  241 AASAIHTLLWNKGKKHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH
Confidence            32   2    22445668899999999997543

It is also involved in sporulation [].

>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=93.28  E-value=0.069  Score=41.24  Aligned_cols=130  Identities=10%  Similarity=0.118  Sum_probs=86.1

Q ss_pred             HHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCceeHHHHHHHHHcCCChH
Q 038303           14 TQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWTTIISGLSKCGFHK   93 (461)
Q Consensus        14 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~   93 (461)
                      ..+++.+.+.+.+.....+++.+...+...+....+.++..|++.++.+...++++....   .-...++..+.+.|.++
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            346777888899999999999999877667788999999999999888888888884422   34456777777888888


Q ss_pred             HHHHHHhcCCCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCC
Q 038303           94 EAIDMFCGIDVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGS  158 (461)
Q Consensus        94 ~a~~~~~~m~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  158 (461)
                      +|.-++..+|.......      .+...++++.|.++...      .++...|..+++.+...+.
T Consensus        88 ~a~~Ly~~~~~~~~al~------i~~~~~~~~~a~e~~~~------~~~~~l~~~l~~~~l~~~~  140 (143)
T PF00637_consen   88 EAVYLYSKLGNHDEALE------ILHKLKDYEEAIEYAKK------VDDPELWEQLLKYCLDSKP  140 (143)
T ss_dssp             HHHHHHHCCTTHTTCSS------TSSSTHCSCCCTTTGGG------CSSSHHHHHHHHHHCTSTC
T ss_pred             HHHHHHHHcccHHHHHH------HHHHHccHHHHHHHHHh------cCcHHHHHHHHHHHHhcCc
Confidence            88888877732222111      12333444444422111      1356667777766655443

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.

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=93.26  E-value=4.3  Score=33.85  Aligned_cols=163  Identities=12%  Similarity=0.026  Sum_probs=67.9

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhc-CCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHH
Q 038303          175 VSWTTMIGGYAERGFCKEAVSVFQEMEKT-KEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVI  253 (461)
Q Consensus       175 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li  253 (461)
                      ..+......+...+++..+...+...... . .......+..........+....+...+..... ....+ ........
T Consensus        60 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~-~~~~~~~~  136 (291)
T COG0457          60 GLLLLLALALLKLGRLEEALELLEKALELEL-LPNLAEALLNLGLLLEALGKYEEALELLEKALA-LDPDP-DLAEALLA  136 (291)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHhhhh-ccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHc-CCCCc-chHHHHHH
Confidence            34444444555555555555555554431 1 333333444444444444445555555554433 11111 11111111


Q ss_pred             H-HHHhcCCHHHHHHHHHHccCCC------hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCC
Q 038303          254 N-MYVKCGDVGIAIQVFNMLAYKD------KISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGG  326 (461)
Q Consensus       254 ~-~~~~~g~~~~a~~~~~~~~~~~------~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~  326 (461)
                      . .+...|+++.|...+......+      ...+......+...++.+.+...+.+............+..+...+...+
T Consensus       137 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  216 (291)
T COG0457         137 LGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLG  216 (291)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHcc
Confidence            1 4445555555555554443211      11122222223344555555555555544311102344444444445555


Q ss_pred             ChHHHHHHHHHhHh
Q 038303          327 LVDQGLILFKAMST  340 (461)
Q Consensus       327 ~~~~a~~~~~~~~~  340 (461)
                      +++.|...+.....
T Consensus       217 ~~~~a~~~~~~~~~  230 (291)
T COG0457         217 KYEEALEYYEKALE  230 (291)
T ss_pred             cHHHHHHHHHHHHh
Confidence            55555555554443

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=93.22  E-value=0.6  Score=37.34  Aligned_cols=123  Identities=6%  Similarity=0.007  Sum_probs=80.4

Q ss_pred             HHHHcCCChHHHHHHHHHhHhhcCCCCC-----cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCchhh-HHHHHHHHHHh
Q 038303          320 SACSHGGLVDQGLILFKAMSTVYEIVPQ-----MQHYACVVDMYGRAGLLEEAEAFIREM-PIEAEWS-VWGALLNACRI  392 (461)
Q Consensus       320 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~-~~~~l~~~~~~  392 (461)
                      .-+...|++++|..-|.....  -+++.     ...|..-..++.+.+.++.|+.-..+. .+.|... ....-..+|.+
T Consensus       103 N~~F~ngdyeeA~skY~~Ale--~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek  180 (271)
T KOG4234|consen  103 NELFKNGDYEEANSKYQEALE--SCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEK  180 (271)
T ss_pred             HHhhhcccHHHHHHHHHHHHH--hCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHh
Confidence            347788999999999998887  34443     234444556788899999998888776 4444322 22222334888


Q ss_pred             cCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhH--HHHHHHHHHcC
Q 038303          393 HRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDT--NKIRDEIRRMG  444 (461)
Q Consensus       393 ~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A--~~~~~~m~~~g  444 (461)
                      ...++.|++-++++.+..|....+-...++.--....-.+.  .+++.++++.|
T Consensus       181 ~ek~eealeDyKki~E~dPs~~ear~~i~rl~~~i~ernEkmKee~m~kLKdlG  234 (271)
T KOG4234|consen  181 MEKYEEALEDYKKILESDPSRREAREAIARLPPKINERNEKMKEEMMEKLKDLG  234 (271)
T ss_pred             hhhHHHHHHHHHHHHHhCcchHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHhh
Confidence            89999999999999998888776666555543333322222  23445555544

>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=93.20  E-value=18  Score=40.80  Aligned_cols=155  Identities=13%  Similarity=0.057  Sum_probs=84.8

Q ss_pred             HHHHHhhCCHHHHHHHHHHH----HHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhh-CCCCCceeHHHHHHHHHcCCC
Q 038303           17 LKACSLAHPHQKALEIHAHV----IEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNS-VVFPDVVSWTTIISGLSKCGF   91 (461)
Q Consensus        17 l~~~~~~~~~~~a~~~~~~~----~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~-~~~~~~~~~~~li~~~~~~~~   91 (461)
                      ..+-.+.+.+..|...++.-    .+..  .....|-.+...|+..+++|...-+... ...|+   ...-|-.....|+
T Consensus      1390 a~aSfrc~~y~RalmylEs~~~~ek~~~--~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a~~s---l~~qil~~e~~g~ 1464 (2382)
T KOG0890|consen 1390 ARASFRCKAYARALMYLESHRSTEKEKE--TEEALYFLLQNLYGSIHDPDGVEGVSARRFADPS---LYQQILEHEASGN 1464 (2382)
T ss_pred             HHHHHhhHHHHHHHHHHHHhccccchhH--HHHHHHHHHHHHHHhcCCcchhhhHHHHhhcCcc---HHHHHHHHHhhcc
Confidence            33445667777777777772    2211  1222334444478888888777776663 33333   2233444566788


Q ss_pred             hHHHHHHHhcC-CCCCC-chhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHH-HHHHHHHHHcCChhhHHHHHhc
Q 038303           92 HKEAIDMFCGI-DVKPN-ANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILD-NAILDFYIRCGSLASCGYLFVK  168 (461)
Q Consensus        92 ~~~a~~~~~~m-~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~~a~~~~~~  168 (461)
                      +..|..+|+.+ +..|+ ..+++-++......|.++...-..+-......+ ....+ +.=+.+--+.+++|....... 
T Consensus      1465 ~~da~~Cye~~~q~~p~~~~~~~g~l~sml~~~~l~t~i~~~dg~~~~~se-~~~~~~s~~~eaaW~l~qwD~~e~~l~- 1542 (2382)
T KOG0890|consen 1465 WADAAACYERLIQKDPDKEKHHSGVLKSMLAIQHLSTEILHLDGLIINRSE-EVDELNSLGVEAAWRLSQWDLLESYLS- 1542 (2382)
T ss_pred             HHHHHHHHHHhhcCCCccccchhhHHHhhhcccchhHHHhhhcchhhccCH-HHHHHHHHHHHHHhhhcchhhhhhhhh-
Confidence            88888888888 66666 566776766666666666555544433332211 22222 222233355566666655555 


Q ss_pred             CCCCchhHHHHH
Q 038303          169 MPKRNVVSWTTM  180 (461)
Q Consensus       169 ~~~~~~~~~~~l  180 (461)
                        ..+..+|...
T Consensus      1543 --~~n~e~w~~~ 1552 (2382)
T KOG0890|consen 1543 --DRNIEYWSVE 1552 (2382)
T ss_pred             --cccccchhHH
Confidence              3444444443

>PRK11906 transcriptional regulator; Provisional

Probab=93.19  E-value=7.1  Score=36.18  Aligned_cols=139  Identities=13%  Similarity=0.057  Sum_probs=80.9

Q ss_pred             HHHHHHHHHHcc---CCC---hhhHHHHHHHHHh---------cCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCC
Q 038303          262 VGIAIQVFNMLA---YKD---KISWSTVISGLAM---------NGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGG  326 (461)
Q Consensus       262 ~~~a~~~~~~~~---~~~---~~~~~~l~~~~~~---------~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~  326 (461)
                      .+.|..+|.+..   +-|   ...|..+..++..         ..+..+|.++-++..+.+. -|......+..+....+
T Consensus       274 ~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld~-~Da~a~~~~g~~~~~~~  352 (458)
T PRK11906        274 IYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDITT-VDGKILAIMGLITGLSG  352 (458)
T ss_pred             HHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHhhc
Confidence            566777887776   333   3444444433322         1234456666777766543 25666666666667777


Q ss_pred             ChHHHHHHHHHhHhhcCCCCC-cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCchhh---HHHHHHHHHHhcCChHHHHH
Q 038303          327 LVDQGLILFKAMSTVYEIVPQ-MQHYACVVDMYGRAGLLEEAEAFIREM-PIEAEWS---VWGALLNACRIHRNDEMFDR  401 (461)
Q Consensus       327 ~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~---~~~~l~~~~~~~~~~~~a~~  401 (461)
                      +++.|...|+....   +.|| ...|....-.+.-+|+.++|.+.+++. ...|...   .....+..|+..+ .+.|+.
T Consensus       353 ~~~~a~~~f~rA~~---L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~~~~-~~~~~~  428 (458)
T PRK11906        353 QAKVSHILFEQAKI---HSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKECVDMYVPNP-LKNNIK  428 (458)
T ss_pred             chhhHHHHHHHHhh---cCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHHHHHHHcCCc-hhhhHH
Confidence            78888888888866   4455 334444444556678888888888884 5555433   2223333444443 444555


Q ss_pred             HHHH
Q 038303          402 IRQD  405 (461)
Q Consensus       402 ~~~~  405 (461)
                      ++-+
T Consensus       429 ~~~~  432 (458)
T PRK11906        429 LYYK  432 (458)
T ss_pred             HHhh
Confidence            4443

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=93.08  E-value=1.6  Score=40.08  Aligned_cols=127  Identities=14%  Similarity=0.031  Sum_probs=65.2

Q ss_pred             hcCChHHHHH-HHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHH
Q 038303          289 MNGCGRQALQ-LFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEA  367 (461)
Q Consensus       289 ~~~~~~~a~~-~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  367 (461)
                      ..|+.-.|-+ ++.-+....-.|+.......|  +...|+++.+.+.+.....  -+.....+...+++...+.|++++|
T Consensus       301 ~~gd~~aas~~~~~~lr~~~~~p~~i~l~~~i--~~~lg~ye~~~~~~s~~~~--~~~s~~~~~~~~~r~~~~l~r~~~a  376 (831)
T PRK15180        301 ADGDIIAASQQLFAALRNQQQDPVLIQLRSVI--FSHLGYYEQAYQDISDVEK--IIGTTDSTLRCRLRSLHGLARWREA  376 (831)
T ss_pred             hccCHHHHHHHHHHHHHhCCCCchhhHHHHHH--HHHhhhHHHHHHHhhchhh--hhcCCchHHHHHHHhhhchhhHHHH
Confidence            3455554443 333333333334443333222  4456677777666665544  3334455566666666677777777


Q ss_pred             HHHHHhC-CCC-chhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHH
Q 038303          368 EAFIREM-PIE-AEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFAL  419 (461)
Q Consensus       368 ~~~~~~~-~~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  419 (461)
                      ..+-..| +.+ -++.............|-++++...|+++....|+...-+..
T Consensus       377 ~s~a~~~l~~eie~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~~~~~~g~v~  430 (831)
T PRK15180        377 LSTAEMMLSNEIEDEEVLTVAAGSADALQLFDKSYHYWKRVLLLNPETQSGWVN  430 (831)
T ss_pred             HHHHHHHhccccCChhheeeecccHHHHhHHHHHHHHHHHHhccCChhccccee
Confidence            7666666 211 122222222233455566667777777766666554444433

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=92.81  E-value=8  Score=35.77  Aligned_cols=113  Identities=14%  Similarity=0.033  Sum_probs=71.2

Q ss_pred             hcCCHHHHHHHH-hhC--CCCCceeHHHHHHHHHcCCChHHHHHHHhcC--CCCCCchhHHHHHHHhcccchhHHHHHHH
Q 038303           57 TVKDIFSAHQIF-NSV--VFPDVVSWTTIISGLSKCGFHKEAIDMFCGI--DVKPNANTLVSVLSACSSLVSHKLGKAIH  131 (461)
Q Consensus        57 ~~~~~~~a~~~~-~~~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m--~~~p~~~~~~~ll~~~~~~~~~~~a~~~~  131 (461)
                      ..|++..|-+-+ .-+  .+.+++.....-..+...|+++.+...+...  .+.....+...+++...+.|+++.|...-
T Consensus       301 ~~gd~~aas~~~~~~lr~~~~~p~~i~l~~~i~~~lg~ye~~~~~~s~~~~~~~s~~~~~~~~~r~~~~l~r~~~a~s~a  380 (831)
T PRK15180        301 ADGDIIAASQQLFAALRNQQQDPVLIQLRSVIFSHLGYYEQAYQDISDVEKIIGTTDSTLRCRLRSLHGLARWREALSTA  380 (831)
T ss_pred             hccCHHHHHHHHHHHHHhCCCCchhhHHHHHHHHHhhhHHHHHHHhhchhhhhcCCchHHHHHHHhhhchhhHHHHHHHH
Confidence            457776664433 333  2233333333334456678888888888777  34456677888888888888888888888


Q ss_pred             HHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCC
Q 038303          132 AHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMP  170 (461)
Q Consensus       132 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  170 (461)
                      +.|+...++ +..+.....-..-..|-+|++.-.|++..
T Consensus       381 ~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~~  418 (831)
T PRK15180        381 EMMLSNEIE-DEEVLTVAAGSADALQLFDKSYHYWKRVL  418 (831)
T ss_pred             HHHhccccC-ChhheeeecccHHHHhHHHHHHHHHHHHh
Confidence            888877665 33333322223334566777777777664

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=92.71  E-value=7.6  Score=35.28  Aligned_cols=66  Identities=11%  Similarity=0.039  Sum_probs=51.7

Q ss_pred             chhhHHHHHHHHHHhcCChHHHHHHHHHHhhcC----CCChhHHHHHHHHHhccCChhhHHHHHHHHHHc
Q 038303          378 AEWSVWGALLNACRIHRNDEMFDRIRQDLVNKK----GVSVGTFALMSNTFAGADRWEDTNKIRDEIRRM  443 (461)
Q Consensus       378 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  443 (461)
                      ....+|..+...+.+.|.++.|...+..+....    ...+.+...-++.+...|+..+|...++.....
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~  213 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKC  213 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            445577778888999999999999888888743    224667777788888899999999998888773

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=92.50  E-value=5.1  Score=35.24  Aligned_cols=126  Identities=9%  Similarity=-0.008  Sum_probs=72.5

Q ss_pred             hHHHHHHHHHHHhhcCCCChhHHHHHHHHHHH--cC----ChhhHHHHHhcCCC-------CchhHHHHHHHHHHhcCC-
Q 038303          124 HKLGKAIHAHSLRNLNENNIILDNAILDFYIR--CG----SLASCGYLFVKMPK-------RNVVSWTTMIGGYAERGF-  189 (461)
Q Consensus       124 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~g----~~~~a~~~~~~~~~-------~~~~~~~~li~~~~~~~~-  189 (461)
                      ++....+++.+.+.|+..+..+|-+..-....  ..    ....|..+|+.|++       ++-.++..|+..  ...+ 
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~  155 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDV  155 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccH
Confidence            45566778888888888777666543332222  11    24567777888775       344555555443  2333 


Q ss_pred             ---hHHHHHHHHHHHhcCCCCC-ChhhHHHHHHHhhccc-h--hhhHHHHHHHHHhhcCCCCcchHHHHHH
Q 038303          190 ---CKEAVSVFQEMEKTKEAEP-NEATLVNVLSACSSIS-A--LSFGKYVHSYISTRYDLSVSNLVGNAVI  253 (461)
Q Consensus       190 ---~~~a~~~~~~m~~~~~~~~-~~~~~~~~l~~~~~~~-~--~~~a~~~~~~~~~~~~~~~~~~~~~~li  253 (461)
                         .+.+..+|+.+.+.| +.. |...+.+-+-++.... .  ...+..+++.+.+ .|+++....|..+.
T Consensus       156 e~l~~~~E~~Y~~L~~~~-f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~-~~~kik~~~yp~lG  224 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAG-FKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKK-NGVKIKYMHYPTLG  224 (297)
T ss_pred             HHHHHHHHHHHHHHHHhC-CCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHH-cCCccccccccHHH
Confidence               356677777777766 444 3333333333333222 1  3466677777777 67777777665543

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=92.26  E-value=0.37  Score=26.57  Aligned_cols=26  Identities=12%  Similarity=0.235  Sum_probs=19.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHH
Q 038303          176 SWTTMIGGYAERGFCKEAVSVFQEME  201 (461)
Q Consensus       176 ~~~~li~~~~~~~~~~~a~~~~~~m~  201 (461)
                      +|+.|...|.+.|++++|+++|++..
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            46677788888888888888888754

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.10  E-value=0.36  Score=25.98  Aligned_cols=29  Identities=3%  Similarity=0.190  Sum_probs=24.3

Q ss_pred             hHHHHHHHHHhccCChhhHHHHHHHHHHc
Q 038303          415 GTFALMSNTFAGADRWEDTNKIRDEIRRM  443 (461)
Q Consensus       415 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  443 (461)
                      ..+..++.++.+.|++++|.+.+++..+.
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l   30 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            56888999999999999999999988764

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 ....

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=92.04  E-value=1.9  Score=37.20  Aligned_cols=76  Identities=13%  Similarity=0.178  Sum_probs=36.0

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHh----hcCCCCCcchHHHHH
Q 038303          280 WSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMST----VYEIVPQMQHYACVV  355 (461)
Q Consensus       280 ~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~~~~~l~  355 (461)
                      +..++..+...|+++.+.+.++++..... -+...|..++.+|.+.|+...|+..|+.+.+    +.|+.|...+.....
T Consensus       156 l~~lae~~~~~~~~~~~~~~l~~Li~~dp-~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y~  234 (280)
T COG3629         156 LTKLAEALIACGRADAVIEHLERLIELDP-YDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALYE  234 (280)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHHH
Confidence            34444444455555555555555544322 1344455555555555555555555544433    234555544444333


Q ss_pred             H
Q 038303          356 D  356 (461)
Q Consensus       356 ~  356 (461)
                      +
T Consensus       235 ~  235 (280)
T COG3629         235 E  235 (280)
T ss_pred             H
Confidence            3

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=91.87  E-value=0.4  Score=25.88  Aligned_cols=29  Identities=7%  Similarity=0.185  Sum_probs=24.4

Q ss_pred             hHHHHHHHHHhccCChhhHHHHHHHHHHc
Q 038303          415 GTFALMSNTFAGADRWEDTNKIRDEIRRM  443 (461)
Q Consensus       415 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  443 (461)
                      .+|..++.+|...|++++|+..+++..+.
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~   30 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHH
Confidence            57888999999999999999999988764

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=91.85  E-value=3.1  Score=33.42  Aligned_cols=95  Identities=13%  Similarity=0.084  Sum_probs=66.3

Q ss_pred             hHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCC--cchHHHHHHHHhhcCCHHHHHHHHHhCC---CC---chhhHHH
Q 038303          313 VTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQ--MQHYACVVDMYGRAGLLEEAEAFIREMP---IE---AEWSVWG  384 (461)
Q Consensus       313 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~---p~~~~~~  384 (461)
                      ..+..+...|++.|+.+.|.+.|.++.. ....+.  ...+-.+|+.....+++..+...+.+..   ..   ++...--
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~-~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrl  115 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARD-YCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRL  115 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhh-hcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHH
Confidence            5677888889999999999999999877 333333  4566778888888999999988888771   11   1111111


Q ss_pred             HHHHH--HHhcCChHHHHHHHHHHhh
Q 038303          385 ALLNA--CRIHRNDEMFDRIRQDLVN  408 (461)
Q Consensus       385 ~l~~~--~~~~~~~~~a~~~~~~~~~  408 (461)
                      ....+  +...+++..|-+.|-....
T Consensus       116 k~~~gL~~l~~r~f~~AA~~fl~~~~  141 (177)
T PF10602_consen  116 KVYEGLANLAQRDFKEAAELFLDSLS  141 (177)
T ss_pred             HHHHHHHHHHhchHHHHHHHHHccCc
Confidence            22222  4567888888888877654

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.

>PRK09687 putative lyase; Provisional

Probab=91.78  E-value=8.4  Score=33.69  Aligned_cols=78  Identities=15%  Similarity=-0.035  Sum_probs=31.3

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHccCCChhhHHHHHHHHHhcC-ChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcC
Q 038303          247 LVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNG-CGRQALQLFSLMIINAVFPDDVTFIALISACSHG  325 (461)
Q Consensus       247 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  325 (461)
                      .+-...+.++++.++.+....+...+..+|...-...+.++.+.+ +.+.+...+..+..   .++...-...+.++.+.
T Consensus       143 ~VR~~a~~aLg~~~~~~ai~~L~~~L~d~~~~VR~~A~~aLg~~~~~~~~~~~~L~~~L~---D~~~~VR~~A~~aLg~~  219 (280)
T PRK09687        143 NVRFAVAFALSVINDEAAIPLLINLLKDPNGDVRNWAAFALNSNKYDNPDIREAFVAMLQ---DKNEEIRIEAIIGLALR  219 (280)
T ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhcCCCHHHHHHHHHHHhcCCCCCHHHHHHHHHHhc---CCChHHHHHHHHHHHcc
Confidence            333444445555444332222233333344433333444444332 12234444433332   23444444445555555


Q ss_pred             CC
Q 038303          326 GL  327 (461)
Q Consensus       326 ~~  327 (461)
                      ++
T Consensus       220 ~~  221 (280)
T PRK09687        220 KD  221 (280)
T ss_pred             CC
Confidence            44

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=91.77  E-value=5.4  Score=31.45  Aligned_cols=56  Identities=13%  Similarity=0.127  Sum_probs=31.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHccCCChhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 038303          250 NAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMII  305 (461)
Q Consensus       250 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  305 (461)
                      ..++..+...|++-+|.++.......+......++.+-.+.++...-..+++-..+
T Consensus        93 ~~iievLL~~g~vl~ALr~ar~~~~~~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~  148 (167)
T PF07035_consen   93 EEIIEVLLSKGQVLEALRYARQYHKVDSVPARKFLEAAANSNDDQLFYAVFRFFEE  148 (167)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHcCCcccCCHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            44555666677777777776665444444445555555555555444444444433

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=91.73  E-value=1.6  Score=30.70  Aligned_cols=60  Identities=8%  Similarity=0.157  Sum_probs=44.2

Q ss_pred             HHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHH
Q 038303          295 QALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVD  356 (461)
Q Consensus       295 ~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  356 (461)
                      +..+-++.+....+.|++......+++|.+.+++..|.++|+.++.+.+  +....|..+++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~--~~~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCG--NKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTT--T-TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHcc--ChHHHHHHHHH
Confidence            5666777777788899999999999999999999999999999887544  33447776664

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 ....

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=91.71  E-value=6.5  Score=32.25  Aligned_cols=29  Identities=3%  Similarity=0.103  Sum_probs=19.4

Q ss_pred             hhHHHHHHHHHhccCChhhHHHHHHHHHH
Q 038303          414 VGTFALMSNTFAGADRWEDTNKIRDEIRR  442 (461)
Q Consensus       414 ~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  442 (461)
                      ..+|..+++-+...|+.++|..+|+-...
T Consensus       237 TEtyFYL~K~~l~~G~~~~A~~LfKLaia  265 (297)
T COG4785         237 TETYFYLGKYYLSLGDLDEATALFKLAVA  265 (297)
T ss_pred             HHHHHHHHHHHhccccHHHHHHHHHHHHH
Confidence            34677777777777777777777665544

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=91.47  E-value=1.5  Score=30.41  Aligned_cols=63  Identities=11%  Similarity=0.171  Sum_probs=48.5

Q ss_pred             ChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHH
Q 038303          292 CGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVD  356 (461)
Q Consensus       292 ~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  356 (461)
                      +.-++.+-++.+......|++......+++|.+.+++..|.++|+.++.+.+.  +...|..+++
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~--~~~~y~~~lq   84 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGA--HKEIYPYILQ   84 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccC--chhhHHHHHH
Confidence            44466777777777888999999999999999999999999999988763432  4446665554

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.

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=91.42  E-value=0.27  Score=26.72  Aligned_cols=30  Identities=13%  Similarity=0.183  Sum_probs=18.1

Q ss_pred             HHHhhcCCCChhHHHHHHHHHHHcCChhhHH
Q 038303          133 HSLRNLNENNIILDNAILDFYIRCGSLASCG  163 (461)
Q Consensus       133 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  163 (461)
                      +.++..+. +...|+.+...|...|++++|+
T Consensus         4 kAie~~P~-n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    4 KAIELNPN-NAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             HHHHHCCC-CHHHHHHHHHHHHHCcCHHhhc
Confidence            34444333 5666677777777777776664

>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=91.37  E-value=0.21  Score=38.58  Aligned_cols=87  Identities=16%  Similarity=0.180  Sum_probs=66.9

Q ss_pred             HHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCCCCchhHHHHHHHHHHhcCChHH
Q 038303          113 SVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYAERGFCKE  192 (461)
Q Consensus       113 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  192 (461)
                      .++..+.+.+.+.....+++.+...+...+....+.++..|++.++.++..++++....   .-...++..|.+.|.+++
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~---yd~~~~~~~c~~~~l~~~   88 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN---YDLDKALRLCEKHGLYEE   88 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS---S-CTHHHHHHHTTTSHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccccc---cCHHHHHHHHHhcchHHH
Confidence            35677788888999999999999887777889999999999999988999998885443   334556677777888888


Q ss_pred             HHHHHHHHHh
Q 038303          193 AVSVFQEMEK  202 (461)
Q Consensus       193 a~~~~~~m~~  202 (461)
                      |.-++.++..
T Consensus        89 a~~Ly~~~~~   98 (143)
T PF00637_consen   89 AVYLYSKLGN   98 (143)
T ss_dssp             HHHHHHCCTT
T ss_pred             HHHHHHHccc
Confidence            8887777644

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.

>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=91.35  E-value=5.7  Score=30.92  Aligned_cols=83  Identities=18%  Similarity=0.205  Sum_probs=42.2

Q ss_pred             HcCCChHHHHHHHHHhHhhcCCCCCcchHHH-HHHHHhhcCCHHHHHHHHHhC-CCCchhhHHHHHHHHHHhcCChHHHH
Q 038303          323 SHGGLVDQGLILFKAMSTVYEIVPQMQHYAC-VVDMYGRAGLLEEAEAFIREM-PIEAEWSVWGALLNACRIHRNDEMFD  400 (461)
Q Consensus       323 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~  400 (461)
                      ...++.+.+..+++.+.-   +.|....... -...+.+.|+|.+|.++|+++ ...|.......|+..|.....-..=.
T Consensus        21 l~~~~~~D~e~lL~ALrv---LRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL~~~~D~~Wr   97 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRV---LRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYAKALLALCLYALGDPSWR   97 (160)
T ss_pred             HccCChHHHHHHHHHHHH---hCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHHcCChHHH
Confidence            445677777777766644   3444322221 123355677777777777777 33344444444444444443333334


Q ss_pred             HHHHHHhh
Q 038303          401 RIRQDLVN  408 (461)
Q Consensus       401 ~~~~~~~~  408 (461)
                      ...+++.+
T Consensus        98 ~~A~evle  105 (160)
T PF09613_consen   98 RYADEVLE  105 (160)
T ss_pred             HHHHHHHh
Confidence            44444444

>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=91.33  E-value=2  Score=33.33  Aligned_cols=80  Identities=13%  Similarity=0.072  Sum_probs=53.7

Q ss_pred             hHHHHHHH---HhhcCCHHHHHHHHHhC-CCCchhhHHHHHHHH-HHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHH
Q 038303          350 HYACVVDM---YGRAGLLEEAEAFIREM-PIEAEWSVWGALLNA-CRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTF  424 (461)
Q Consensus       350 ~~~~l~~~---~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  424 (461)
                      +.+.|+..   -.+.++.+++..++..+ -.+|.......+-.- +...|++.+|.++|+.+.+..|..+..--.+..++
T Consensus         9 iv~gLie~~~~al~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL   88 (160)
T PF09613_consen    9 IVGGLIEVLSVALRLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYAKALLALCL   88 (160)
T ss_pred             HHHHHHHHHHHHHccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHH
Confidence            34444443   35678999999999988 455665554443333 78899999999999998887776665444444444


Q ss_pred             hccCC
Q 038303          425 AGADR  429 (461)
Q Consensus       425 ~~~g~  429 (461)
                      ...|+
T Consensus        89 ~~~~D   93 (160)
T PF09613_consen   89 YALGD   93 (160)
T ss_pred             HHcCC
Confidence            44443

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=91.32  E-value=0.65  Score=24.89  Aligned_cols=32  Identities=16%  Similarity=-0.040  Sum_probs=21.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhhcCCCC
Q 038303          382 VWGALLNACRIHRNDEMFDRIRQDLVNKKGVS  413 (461)
Q Consensus       382 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  413 (461)
                      .+..+...+...|++++|++.+++..+..|.+
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~~   34 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALELDPNN   34 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHCcCC
Confidence            34556666777888888888888877766653

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 ....

>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=91.27  E-value=30  Score=39.13  Aligned_cols=314  Identities=9%  Similarity=-0.030  Sum_probs=172.4

Q ss_pred             HHHHHhcccchhHHHHHHHHHHHhhcC--CCChhHHHHHHHHHHHcCChhhHHHHHhc-CCCCchhHHHHHHHHHHhcCC
Q 038303          113 SVLSACSSLVSHKLGKAIHAHSLRNLN--ENNIILDNAILDFYIRCGSLASCGYLFVK-MPKRNVVSWTTMIGGYAERGF  189 (461)
Q Consensus       113 ~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~-~~~~~~~~~~~li~~~~~~~~  189 (461)
                      .+..+-.+.+.+..|...++.-.....  ......+..+...|..-+++|....+... ...|+   ...-|......|+
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~~~ek~~~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a~~s---l~~qil~~e~~g~ 1464 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHRSTEKEKETEEALYFLLQNLYGSIHDPDGVEGVSARRFADPS---LYQQILEHEASGN 1464 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHHhcCCcchhhhHHHHhhcCcc---HHHHHHHHHhhcc
Confidence            344455677888888888887411111  11233445555588888998888777763 33333   2233445677899


Q ss_pred             hHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHH-HHHHHHHHhcCCHHHHHHH
Q 038303          190 CKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVG-NAVINMYVKCGDVGIAIQV  268 (461)
Q Consensus       190 ~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~~li~~~~~~g~~~~a~~~  268 (461)
                      +..|...|+.+.+.  -++...+++.++..-...+.++...-..+-...  ...+....+ +.=+.+--+.++++..+..
T Consensus      1465 ~~da~~Cye~~~q~--~p~~~~~~~g~l~sml~~~~l~t~i~~~dg~~~--~~se~~~~~~s~~~eaaW~l~qwD~~e~~ 1540 (2382)
T KOG0890|consen 1465 WADAAACYERLIQK--DPDKEKHHSGVLKSMLAIQHLSTEILHLDGLII--NRSEEVDELNSLGVEAAWRLSQWDLLESY 1540 (2382)
T ss_pred             HHHHHHHHHHhhcC--CCccccchhhHHHhhhcccchhHHHhhhcchhh--ccCHHHHHHHHHHHHHHhhhcchhhhhhh
Confidence            99999999999985  344477888888887778887777665554433  222222222 2224444677888877777


Q ss_pred             HHHccCCChhhHHHH--HHHHHhcCChH--HHHHHHHHHHhcCCCCC---------HhHHHHHHHHHHcCCChHHHHHHH
Q 038303          269 FNMLAYKDKISWSTV--ISGLAMNGCGR--QALQLFSLMIINAVFPD---------DVTFIALISACSHGGLVDQGLILF  335 (461)
Q Consensus       269 ~~~~~~~~~~~~~~l--~~~~~~~~~~~--~a~~~~~~m~~~g~~p~---------~~~~~~ll~~~~~~~~~~~a~~~~  335 (461)
                      ..   ..+..+|...  ...+.+..+-|  .-.+.++.+++.-+.|-         ...|..++....-       .++-
T Consensus      1541 l~---~~n~e~w~~~~~g~~ll~~~~kD~~~~~~~i~~~r~~~i~~lsa~s~~~Sy~~~Y~~~~kLH~l-------~el~ 1610 (2382)
T KOG0890|consen 1541 LS---DRNIEYWSVESIGKLLLRNKKKDEIATLDLIENSRELVIENLSACSIEGSYVRSYEILMKLHLL-------LELE 1610 (2382)
T ss_pred             hh---cccccchhHHHHHHHHHhhcccchhhHHHHHHHHHHHhhhhHHHhhccchHHHHHHHHHHHHHH-------HHHH
Confidence            66   4555555554  23333322222  12233333333211110         1223333322211       0111


Q ss_pred             HHhHhhcCCCCCc------chHHHHHHHHhhcCCHHHHHHHHHhC----CCC-----chhhHHHHHHHHHHhcCChHHHH
Q 038303          336 KAMSTVYEIVPQM------QHYACVVDMYGRAGLLEEAEAFIREM----PIE-----AEWSVWGALLNACRIHRNDEMFD  400 (461)
Q Consensus       336 ~~~~~~~~~~~~~------~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~-----p~~~~~~~l~~~~~~~~~~~~a~  400 (461)
                      +......++.++.      ..|..-++.-....+..+-.--+++.    ..+     .-..+|-...+.+...|.++.|.
T Consensus      1611 ~~~~~l~~~s~~~~s~~~sd~W~~Rl~~tq~s~~~~epILa~RRs~l~~~~~~~~~~~~ge~wLqsAriaR~aG~~q~A~ 1690 (2382)
T KOG0890|consen 1611 NSIEELKKVSYDEDSANNSDNWKNRLERTQPSFRIKEPILAFRRSMLDLRMRSNLKSRLGECWLQSARIARLAGHLQRAQ 1690 (2382)
T ss_pred             HHHHHhhccCccccccccchhHHHHHHHhchhHHHHhHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHhcccHHHHH
Confidence            1111112233322      12221221111111111111111211    112     22336767777788899999999


Q ss_pred             HHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcCC
Q 038303          401 RIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGL  445 (461)
Q Consensus       401 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~  445 (461)
                      ..+-.+.+..+  +..+...++.+...|+...|+.++++-.+...
T Consensus      1691 nall~A~e~r~--~~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~~~ 1733 (2382)
T KOG0890|consen 1691 NALLNAKESRL--PEIVLERAKLLWQTGDELNALSVLQEILSKNF 1733 (2382)
T ss_pred             HHHHhhhhccc--chHHHHHHHHHHhhccHHHHHHHHHHHHHhhc
Confidence            98887777654  45788899999999999999999999876544

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.23  E-value=3.2  Score=35.97  Aligned_cols=99  Identities=17%  Similarity=0.166  Sum_probs=57.7

Q ss_pred             CCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCC-C-----hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhH
Q 038303          241 DLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYK-D-----KISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVT  314 (461)
Q Consensus       241 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-~-----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~  314 (461)
                      |.+.+..+...++..-....+++++...+-++... +     ..+-.+.++.+ -.-++++++.++..=++.|+-||..+
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irll-lky~pq~~i~~l~npIqYGiF~dqf~  137 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLL-LKYDPQKAIYTLVNPIQYGIFPDQFT  137 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHHH-HccChHHHHHHHhCcchhccccchhh
Confidence            33334444444444444455666666666555421 1     11111222222 23356677777777777888888888


Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHhHh
Q 038303          315 FIALISACSHGGLVDQGLILFKAMST  340 (461)
Q Consensus       315 ~~~ll~~~~~~~~~~~a~~~~~~~~~  340 (461)
                      ++.+|..+.+.+++.+|..+.-.|..
T Consensus       138 ~c~l~D~flk~~n~~~aa~vvt~~~~  163 (418)
T KOG4570|consen  138 FCLLMDSFLKKENYKDAASVVTEVMM  163 (418)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            88888888888888777776665544

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=91.14  E-value=0.47  Score=27.00  Aligned_cols=29  Identities=14%  Similarity=0.360  Sum_probs=23.5

Q ss_pred             hhHHHHHHHHHhccCChhhHHHHHHHHHH
Q 038303          414 VGTFALMSNTFAGADRWEDTNKIRDEIRR  442 (461)
Q Consensus       414 ~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  442 (461)
                      ..+++.++..|...|++++|..++++...
T Consensus         2 a~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    2 ASALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            35788899999999999999999988754

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=90.87  E-value=0.56  Score=25.28  Aligned_cols=31  Identities=16%  Similarity=-0.130  Sum_probs=21.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhhcCCC
Q 038303          382 VWGALLNACRIHRNDEMFDRIRQDLVNKKGV  412 (461)
Q Consensus       382 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  412 (461)
                      +|..+...+...|++++|+..++++++..|.
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~   33 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALELDPD   33 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHCcC
Confidence            4566666677777777777777777776654

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 ....

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=90.75  E-value=9.5  Score=32.40  Aligned_cols=152  Identities=15%  Similarity=0.225  Sum_probs=83.9

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHccCC---------------ChhhHHHHHHHHHhcCChHHHHHHHHHHHhc-CCCCCHh
Q 038303          250 NAVINMYVKCGDVGIAIQVFNMLAYK---------------DKISWSTVISGLAMNGCGRQALQLFSLMIIN-AVFPDDV  313 (461)
Q Consensus       250 ~~li~~~~~~g~~~~a~~~~~~~~~~---------------~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-g~~p~~~  313 (461)
                      ..|...|...+.+.+..+++.++.+.               -...|..=|+.|...++-.+-..+|++...- ...|.+.
T Consensus       149 tKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPHPl  228 (440)
T KOG1464|consen  149 TKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQALHIKSAIPHPL  228 (440)
T ss_pred             chHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCchH
Confidence            45666677777777777777666521               1245666777888888877777888776542 2334444


Q ss_pred             HHHHHHHHH-----HcCCChHHHHH-HHHHhHhhcCC--CCCc---chHHHHHHHHhhcCCHHHHHHHHH--hC---CCC
Q 038303          314 TFIALISAC-----SHGGLVDQGLI-LFKAMSTVYEI--VPQM---QHYACVVDMYGRAGLLEEAEAFIR--EM---PIE  377 (461)
Q Consensus       314 ~~~~ll~~~-----~~~~~~~~a~~-~~~~~~~~~~~--~~~~---~~~~~l~~~~~~~g~~~~A~~~~~--~~---~~~  377 (461)
                      ... +|+-|     .+.|++++|-. +|+..+. ..-  .|..   .-|..|...+.+.|--     -|+  ++   +..
T Consensus       229 ImG-vIRECGGKMHlreg~fe~AhTDFFEAFKN-YDEsGspRRttCLKYLVLANMLmkS~iN-----PFDsQEAKPyKNd  301 (440)
T KOG1464|consen  229 IMG-VIRECGGKMHLREGEFEKAHTDFFEAFKN-YDESGSPRRTTCLKYLVLANMLMKSGIN-----PFDSQEAKPYKND  301 (440)
T ss_pred             HHh-HHHHcCCccccccchHHHHHhHHHHHHhc-ccccCCcchhHHHHHHHHHHHHHHcCCC-----CCcccccCCCCCC
Confidence            433 34433     45678887754 3443332 211  1222   2244555566555410     111  11   344


Q ss_pred             chhhHHHHHHHHHHhcCChHHHHHHHHHHhhc
Q 038303          378 AEWSVWGALLNACRIHRNDEMFDRIRQDLVNK  409 (461)
Q Consensus       378 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  409 (461)
                      |.....+.++.+|.. .+..+.+++++.-.+.
T Consensus       302 PEIlAMTnlv~aYQ~-NdI~eFE~Il~~~~~~  332 (440)
T KOG1464|consen  302 PEILAMTNLVAAYQN-NDIIEFERILKSNRSN  332 (440)
T ss_pred             HHHHHHHHHHHHHhc-ccHHHHHHHHHhhhcc
Confidence            666677778887744 4566666666554443

>PRK11619 lytic murein transglycosylase; Provisional

Probab=90.50  E-value=20  Score=35.71  Aligned_cols=420  Identities=6%  Similarity=-0.084  Sum_probs=189.1

Q ss_pred             HHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCC-CCc-eeHHHHHHHHHcCC
Q 038303           13 FTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVF-PDV-VSWTTIISGLSKCG   90 (461)
Q Consensus        13 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-~~~-~~~~~li~~~~~~~   90 (461)
                      |.....+ .+.|++..+.++...+..... .....|..+...+ .....++....+++-.. |-. ..-...+..+.+.+
T Consensus        37 f~~A~~a-~~~g~~~~~~~~~~~l~d~pL-~~yl~y~~L~~~l-~~~~~~ev~~Fl~~~~~~P~~~~Lr~~~l~~La~~~  113 (644)
T PRK11619         37 YQQIKQA-WDNRQMDVVEQLMPTLKDYPL-YPYLEYRQLTQDL-MNQPAVQVTNFIRANPTLPPARSLQSRFVNELARRE  113 (644)
T ss_pred             HHHHHHH-HHCCCHHHHHHHHHhccCCCc-HhHHHHHHHHhcc-ccCCHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcc
Confidence            4344433 467888888888777643322 2223333333222 13356666666666521 211 11223344555677


Q ss_pred             ChHHHHHHHhcCCCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhh---------
Q 038303           91 FHKEAIDMFCGIDVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLAS---------  161 (461)
Q Consensus        91 ~~~~a~~~~~~m~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~---------  161 (461)
                      ++...++++..  .+.+...-.....+....|+.++|......+=..|.. .+..++.+++.+.+.|.+..         
T Consensus       114 ~w~~~~~~~~~--~p~~~~~~c~~~~A~~~~G~~~~A~~~a~~lW~~g~~-~p~~cd~l~~~~~~~g~lt~~d~w~R~~~  190 (644)
T PRK11619        114 DWRGLLAFSPE--KPKPVEARCNYYYAKWATGQQQEAWQGAKELWLTGKS-LPNACDKLFSVWQQSGKQDPLAYLERIRL  190 (644)
T ss_pred             CHHHHHHhcCC--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCC-CChHHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            77777764322  1223333355566666677766665554444333332 34455556665555554433         


Q ss_pred             ---------HHHHHhcCCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhh---HHHHHHHhhccchhhhH
Q 038303          162 ---------CGYLFVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEAT---LVNVLSACSSISALSFG  229 (461)
Q Consensus       162 ---------a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~---~~~~l~~~~~~~~~~~a  229 (461)
                               |..+...+..........++..+   .+...+..++..      ++|+...   ....+.-+ ...+.+.|
T Consensus       191 al~~~~~~lA~~l~~~l~~~~~~~a~a~~al~---~~p~~~~~~~~~------~~~~~~~~~~~~~~l~Rl-ar~d~~~A  260 (644)
T PRK11619        191 AMKAGNTGLVTYLAKQLPADYQTIASALIKLQ---NDPNTVETFART------TGPTDFTRQMAAVAFASV-ARQDAENA  260 (644)
T ss_pred             HHHCCCHHHHHHHHHhcChhHHHHHHHHHHHH---HCHHHHHHHhhc------cCCChhhHHHHHHHHHHH-HHhCHHHH
Confidence                     22222222110001111111111   111111111111      1122211   11112222 22344666


Q ss_pred             HHHHHHHHhhcCCCCcch--HHHHHHHHHHhcCCHHHHHHHHHHccCC--ChhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 038303          230 KYVHSYISTRYDLSVSNL--VGNAVINMYVKCGDVGIAIQVFNMLAYK--DKISWSTVISGLAMNGCGRQALQLFSLMII  305 (461)
Q Consensus       230 ~~~~~~~~~~~~~~~~~~--~~~~li~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  305 (461)
                      ..++..+....++.+...  +...+.......+...++...++.....  +.....--+..-.+.++++.+...+..|..
T Consensus       261 ~~~~~~~~~~~~~~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~~~~~~~~~e~r~r~Al~~~dw~~~~~~i~~L~~  340 (644)
T PRK11619        261 RLMIPSLVRAQKLNEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIMRSQSTSLLERRVRMALGTGDRRGLNTWLARLPM  340 (644)
T ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHhcccccCCcHHHHHHHHHHHHccCHHHHHHHHHhcCH
Confidence            666666544333333322  2233333333332255566666554422  333334444444466677776666666643


Q ss_pred             cCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhc-----------CCCCC------cch--------HHHHHHHHhh
Q 038303          306 NAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVY-----------EIVPQ------MQH--------YACVVDMYGR  360 (461)
Q Consensus       306 ~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----------~~~~~------~~~--------~~~l~~~~~~  360 (461)
                      .. .-...-.--+.+++...|+.++|...|+.+....           |.+++      ...        --.-+..+..
T Consensus       341 ~~-~~~~rw~YW~aRa~~~~g~~~~A~~~~~~~a~~~~fYG~LAa~~Lg~~~~~~~~~~~~~~~~~~~~~~~~ra~~L~~  419 (644)
T PRK11619        341 EA-KEKDEWRYWQADLLLEQGRKAEAEEILRQLMQQRGFYPMVAAQRLGEEYPLKIDKAPKPDSALTQGPEMARVRELMY  419 (644)
T ss_pred             hh-ccCHhhHHHHHHHHHHcCCHHHHHHHHHHHhcCCCcHHHHHHHHcCCCCCCCCCCCCchhhhhccChHHHHHHHHHH
Confidence            21 1233334455566556677777777776653310           11100      000        0112344556


Q ss_pred             cCCHHHHHHHHHhCCCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcC---CCChhHHHHHHHHHhccCChhhHHHHH
Q 038303          361 AGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKK---GVSVGTFALMSNTFAGADRWEDTNKIR  437 (461)
Q Consensus       361 ~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~  437 (461)
                      .|+...|...+..+....+......+.......|..+.++..........   -.-+..|...+..+.+.-.++.++-.-
T Consensus       420 ~g~~~~a~~ew~~~~~~~~~~~~~~la~~A~~~g~~~~ai~~~~~~~~~~~~~~rfp~~~~~~~~~~a~~~~v~~~lv~a  499 (644)
T PRK11619        420 WNMDNTARSEWANLVASRSKTEQAQLARYAFNQQWWDLSVQATIAGKLWDHLEERFPLAWNDEFRRYTSGKGIPQSYAMA  499 (644)
T ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCHHHHHHHHhhchhHHHHHHhCCcchHHHHHHHHHHcCCCHHHHHH
Confidence            67777777777666222333444444444566677777766665433210   011223555555555555555554333


Q ss_pred             HHHHHcCCcccc
Q 038303          438 DEIRRMGLKKKT  449 (461)
Q Consensus       438 ~~m~~~g~~~~~  449 (461)
                      -.-.+.+..|+.
T Consensus       500 i~rqES~f~p~a  511 (644)
T PRK11619        500 IARQESAWNPKA  511 (644)
T ss_pred             HHHHhcCCCCCC
Confidence            333455555543

>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=90.44  E-value=0.34  Score=24.35  Aligned_cols=24  Identities=0%  Similarity=0.066  Sum_probs=18.2

Q ss_pred             hHHHHHHHHHhccCChhhHHHHHH
Q 038303          415 GTFALMSNTFAGADRWEDTNKIRD  438 (461)
Q Consensus       415 ~~~~~l~~~~~~~g~~~~A~~~~~  438 (461)
                      .+...++.++...|++++|..+++
T Consensus         2 ~a~~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    2 RARLALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHh
Confidence            345677788888888888888775

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

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=90.37  E-value=1.6  Score=33.22  Aligned_cols=100  Identities=13%  Similarity=0.081  Sum_probs=61.2

Q ss_pred             cchHHHHHHHH---hhcCCHHHHHHHHHhC-CCCchhhHHHHHHHH-HHhcCChHHHHHHHHHHhhcCCCChhHHHHHHH
Q 038303          348 MQHYACVVDMY---GRAGLLEEAEAFIREM-PIEAEWSVWGALLNA-CRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSN  422 (461)
Q Consensus       348 ~~~~~~l~~~~---~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  422 (461)
                      ..+.+.||+..   ...++.+++..++..| -.+|+..-...+-.- +...|++.+|.++|+.+.+..+..+..--.++.
T Consensus         7 ~~iv~gLi~~~~~aL~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~~~~p~~kAL~A~   86 (153)
T TIGR02561         7 NRLLGGLIEVLMYALRSADPYDAQAMLDALRVLRPNLKELDMFDGWLLIARGNYDEAARILRELLSSAGAPPYGKALLAL   86 (153)
T ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCccccchhHHHHHHHcCCHHHHHHHHHhhhccCCCchHHHHHHHH
Confidence            34445555443   3578899999999888 445555444333333 678899999999999998877666655555555


Q ss_pred             HHhccCChhhHHHHHHHHHHcCCccc
Q 038303          423 TFAGADRWEDTNKIRDEIRRMGLKKK  448 (461)
Q Consensus       423 ~~~~~g~~~~A~~~~~~m~~~g~~~~  448 (461)
                      ++.-.|+.+ =...-+++.+.|-.|+
T Consensus        87 CL~al~Dp~-Wr~~A~~~le~~~~~~  111 (153)
T TIGR02561        87 CLNAKGDAE-WHVHADEVLARDADAD  111 (153)
T ss_pred             HHHhcCChH-HHHHHHHHHHhCCCHh
Confidence            555556531 1122233345554443

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=90.31  E-value=0.82  Score=39.86  Aligned_cols=97  Identities=7%  Similarity=-0.029  Sum_probs=70.8

Q ss_pred             HHHHHcCCChHHHHHHHHHhHhhcCCCC-CcchHHHHHHHHhhcCCHHHHHHHHHhC-C-CCchhhHHHHHHHHHHhcCC
Q 038303          319 ISACSHGGLVDQGLILFKAMSTVYEIVP-QMQHYACVVDMYGRAGLLEEAEAFIREM-P-IEAEWSVWGALLNACRIHRN  395 (461)
Q Consensus       319 l~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~~~  395 (461)
                      ..-|.++|.+++|+..|.....   ..| ++.++..-..+|.+..++..|+.-.... . .+.-...|..-+.+-...|+
T Consensus       104 GN~yFKQgKy~EAIDCYs~~ia---~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~Y~KAYSRR~~AR~~Lg~  180 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAIA---VYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKLYVKAYSRRMQARESLGN  180 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhhc---cCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHhh
Confidence            5568899999999999987755   344 7888888888999999998888776665 1 11223345555555556788


Q ss_pred             hHHHHHHHHHHhhcCCCChhHHH
Q 038303          396 DEMFDRIRQDLVNKKGVSVGTFA  418 (461)
Q Consensus       396 ~~~a~~~~~~~~~~~~~~~~~~~  418 (461)
                      .++|.+-++.+++..|.+...-.
T Consensus       181 ~~EAKkD~E~vL~LEP~~~ELkK  203 (536)
T KOG4648|consen  181 NMEAKKDCETVLALEPKNIELKK  203 (536)
T ss_pred             HHHHHHhHHHHHhhCcccHHHHH
Confidence            88899989988888888654433

>KOG0403 consensus Neoplastic transformation suppressor Pdcd4/MA-3, contains MA3 domain [Signal transduction mechanisms]

Probab=90.09  E-value=15  Score=33.72  Aligned_cols=91  Identities=14%  Similarity=0.085  Sum_probs=58.8

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhCC--CCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccC
Q 038303          351 YACVVDMYGRAGLLEEAEAFIREMP--IEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGAD  428 (461)
Q Consensus       351 ~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  428 (461)
                      ...|+.-|.-.|+..+|.+.+++++  .-.....+.+++.+..+.++-+....+++....   ....|-+.|-++|.+-.
T Consensus       512 I~~LLeEY~~~GdisEA~~CikeLgmPfFhHEvVkkAlVm~mEkk~d~t~~ldLLk~cf~---sglIT~nQMtkGf~RV~  588 (645)
T KOG0403|consen  512 IDMLLEEYELSGDISEACHCIKELGMPFFHHEVVKKALVMVMEKKGDSTMILDLLKECFK---SGLITTNQMTKGFERVY  588 (645)
T ss_pred             HHHHHHHHHhccchHHHHHHHHHhCCCcchHHHHHHHHHHHHHhcCcHHHHHHHHHHHHh---cCceeHHHhhhhhhhhh
Confidence            3457788888899999999998874  335666788888888888887766666555433   23345556666665543


Q ss_pred             C--------hhhHHHHHHHHHHcC
Q 038303          429 R--------WEDTNKIRDEIRRMG  444 (461)
Q Consensus       429 ~--------~~~A~~~~~~m~~~g  444 (461)
                      +        ...|.+.|+...+.+
T Consensus       589 dsl~DlsLDvPna~ekf~~~Ve~~  612 (645)
T KOG0403|consen  589 DSLPDLSLDVPNAYEKFERYVEEC  612 (645)
T ss_pred             ccCcccccCCCcHHHHHHHHHHHH
Confidence            2        344555555544433

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=89.87  E-value=2.5  Score=29.75  Aligned_cols=48  Identities=21%  Similarity=0.244  Sum_probs=32.9

Q ss_pred             CCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHH
Q 038303          375 PIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSN  422 (461)
Q Consensus       375 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  422 (461)
                      ..-|++....+.+++|.+.+++..|.++++.++....+....|..+++
T Consensus        40 DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~~~~~Y~~~lq   87 (108)
T PF02284_consen   40 DLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGNKKEIYPYILQ   87 (108)
T ss_dssp             SB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT-TTHHHHHHH
T ss_pred             ccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccChHHHHHHHHH
Confidence            566888888888888888888888888888888755444446666654

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 ....

>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=89.81  E-value=8.5  Score=30.38  Aligned_cols=134  Identities=13%  Similarity=0.074  Sum_probs=69.2

Q ss_pred             HHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCceeHHHHHHHHHcCCChHHHHHHHhcCCCCCCchh
Q 038303           31 EIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWTTIISGLSKCGFHKEAIDMFCGIDVKPNANT  110 (461)
Q Consensus        31 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~p~~~~  110 (461)
                      +.+..+.+.++.|+...|..++..+.+.|++....+++..-+-+|.......+-.+..                      
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~qllq~~Vi~DSk~lA~~LLs~~~----------------------   72 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQLLQYHVIPDSKPLACQLLSLGN----------------------   72 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHhhcccCCcHHHHHHHHHhHc----------------------
Confidence            3444455566777777777777777777776666666655433333222222211111                      


Q ss_pred             HHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCCCCchhHHHHHHHHHHhcCCh
Q 038303          111 LVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYAERGFC  190 (461)
Q Consensus       111 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~  190 (461)
                                  ....+.++--.|.++    =...+..+++.+...|++-+|.++.+....-+......++.+..+.+|.
T Consensus        73 ------------~~~~~~Ql~lDMLkR----L~~~~~~iievLL~~g~vl~ALr~ar~~~~~~~~~~~~fLeAA~~~~D~  136 (167)
T PF07035_consen   73 ------------QYPPAYQLGLDMLKR----LGTAYEEIIEVLLSKGQVLEALRYARQYHKVDSVPARKFLEAAANSNDD  136 (167)
T ss_pred             ------------cChHHHHHHHHHHHH----hhhhHHHHHHHHHhCCCHHHHHHHHHHcCCcccCCHHHHHHHHHHcCCH
Confidence                        111122222222222    0012345666677777877777777776544444455566666666665


Q ss_pred             HHHHHHHHHHHh
Q 038303          191 KEAVSVFQEMEK  202 (461)
Q Consensus       191 ~~a~~~~~~m~~  202 (461)
                      .-=..+|+-..+
T Consensus       137 ~lf~~V~~ff~~  148 (167)
T PF07035_consen  137 QLFYAVFRFFEE  148 (167)
T ss_pred             HHHHHHHHHHHH
Confidence            554444444443

>PRK09687 putative lyase; Provisional

Probab=89.80  E-value=13  Score=32.52  Aligned_cols=73  Identities=12%  Similarity=0.073  Sum_probs=34.5

Q ss_pred             cchHHHHHHHHHHhcCCHHHHHHHHHHccCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHH
Q 038303          245 SNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISAC  322 (461)
Q Consensus       245 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~  322 (461)
                      +..+-...+.++.+.|+..-...+.+.+..++  .....+.++...|.. +|...+..+.+.  .||...-...+.+|
T Consensus       205 ~~~VR~~A~~aLg~~~~~~av~~Li~~L~~~~--~~~~a~~ALg~ig~~-~a~p~L~~l~~~--~~d~~v~~~a~~a~  277 (280)
T PRK09687        205 NEEIRIEAIIGLALRKDKRVLSVLIKELKKGT--VGDLIIEAAGELGDK-TLLPVLDTLLYK--FDDNEIITKAIDKL  277 (280)
T ss_pred             ChHHHHHHHHHHHccCChhHHHHHHHHHcCCc--hHHHHHHHHHhcCCH-hHHHHHHHHHhh--CCChhHHHHHHHHH
Confidence            44444555555566555332222333333333  223455566666664 466666665542  23554444444443

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=89.74  E-value=0.47  Score=25.21  Aligned_cols=29  Identities=0%  Similarity=0.067  Sum_probs=24.1

Q ss_pred             HHHHHHHHHhccCChhhHHHHHHHHHHcC
Q 038303          416 TFALMSNTFAGADRWEDTNKIRDEIRRMG  444 (461)
Q Consensus       416 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  444 (461)
                      ++..++.++.+.|++++|.+.|+++.+.-
T Consensus         2 a~~~~a~~~~~~g~~~~A~~~~~~~~~~~   30 (33)
T PF13174_consen    2 ALYRLARCYYKLGDYDEAIEYFQRLIKRY   30 (33)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            46678888899999999999999987653

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=89.54  E-value=18  Score=33.86  Aligned_cols=145  Identities=10%  Similarity=-0.048  Sum_probs=75.9

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhc
Q 038303          180 MIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKC  259 (461)
Q Consensus       180 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~  259 (461)
                      ++.-..+..+++.-++.-++..+   +.||..+.-.+ -+--......++++++++..+ .+-       +.+    .+.
T Consensus       174 IMq~AWRERnp~aRIkaA~eALe---i~pdCAdAYIL-LAEEeA~Ti~Eae~l~rqAvk-AgE-------~~l----g~s  237 (539)
T PF04184_consen  174 IMQKAWRERNPQARIKAAKEALE---INPDCADAYIL-LAEEEASTIVEAEELLRQAVK-AGE-------ASL----GKS  237 (539)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHH---hhhhhhHHHhh-cccccccCHHHHHHHHHHHHH-HHH-------Hhh----chh
Confidence            34444556666666666666666   55554332222 222233446667777776655 110       000    000


Q ss_pred             CCHHHHHHHHHHccCCC----hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHhHHHHHHHHHHcCCChHHHHHH
Q 038303          260 GDVGIAIQVFNMLAYKD----KISWSTVISGLAMNGCGRQALQLFSLMIINAVFP-DDVTFIALISACSHGGLVDQGLIL  334 (461)
Q Consensus       260 g~~~~a~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~  334 (461)
                      ...+..-..++....++    ...-..+..++-+.|+.++|.+.+++|.+....- .......|+.++...+.+.++..+
T Consensus       238 ~~~~~~g~~~e~~~~Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~l  317 (539)
T PF04184_consen  238 QFLQHHGHFWEAWHRRDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQAL  317 (539)
T ss_pred             hhhhcccchhhhhhccccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHH
Confidence            00001011112222222    2223345666667888888888888887643221 224566788888888888888888


Q ss_pred             HHHhHh
Q 038303          335 FKAMST  340 (461)
Q Consensus       335 ~~~~~~  340 (461)
                      +.+-.+
T Consensus       318 L~kYdD  323 (539)
T PF04184_consen  318 LAKYDD  323 (539)
T ss_pred             HHHhcc
Confidence            877643

The molecular function of this protein is uncertain.

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=89.27  E-value=2.9  Score=29.06  Aligned_cols=48  Identities=23%  Similarity=0.257  Sum_probs=33.5

Q ss_pred             CCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHH
Q 038303          375 PIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSN  422 (461)
Q Consensus       375 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  422 (461)
                      ..-|++....+.+++|.+.+|+..|.++++-++.....+...|..+++
T Consensus        37 DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~~~~~y~~~lq   84 (103)
T cd00923          37 DLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGAHKEIYPYILQ   84 (103)
T ss_pred             ccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccCchhhHHHHHH
Confidence            556777778888888888888888888888777544434445655553

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.

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=89.16  E-value=0.7  Score=26.89  Aligned_cols=28  Identities=11%  Similarity=0.191  Sum_probs=23.4

Q ss_pred             HHHHHHHhccCChhhHHHHHHHHHHcCC
Q 038303          418 ALMSNTFAGADRWEDTNKIRDEIRRMGL  445 (461)
Q Consensus       418 ~~l~~~~~~~g~~~~A~~~~~~m~~~g~  445 (461)
                      ..++++|...|+.+.|.++++++...|-
T Consensus         3 LdLA~ayie~Gd~e~Ar~lL~evl~~~~   30 (44)
T TIGR03504         3 LDLARAYIEMGDLEGARELLEEVIEEGD   30 (44)
T ss_pred             hHHHHHHHHcCChHHHHHHHHHHHHcCC
Confidence            3578899999999999999999986554

This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=89.14  E-value=10  Score=30.77  Aligned_cols=92  Identities=11%  Similarity=0.039  Sum_probs=61.9

Q ss_pred             HHHHhcCChHHHHHHHHHHHhcCCCCCH-----hHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCC-cchHHHHHHHH
Q 038303          285 SGLAMNGCGRQALQLFSLMIINAVFPDD-----VTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQ-MQHYACVVDMY  358 (461)
Q Consensus       285 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~-----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~  358 (461)
                      .-+...|++++|..-|.+.++.- +|..     ..|..-..++.+.+.++.|+.-..+..+   +.|+ ......-..+|
T Consensus       103 N~~F~ngdyeeA~skY~~Ale~c-p~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaie---l~pty~kAl~RRAeay  178 (271)
T KOG4234|consen  103 NELFKNGDYEEANSKYQEALESC-PSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIE---LNPTYEKALERRAEAY  178 (271)
T ss_pred             HHhhhcccHHHHHHHHHHHHHhC-ccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHh---cCchhHHHHHHHHHHH
Confidence            45778999999999999988863 3322     2244444567788888888887776665   2232 23333345678


Q ss_pred             hhcCCHHHHHHHHHhC-CCCchh
Q 038303          359 GRAGLLEEAEAFIREM-PIEAEW  380 (461)
Q Consensus       359 ~~~g~~~~A~~~~~~~-~~~p~~  380 (461)
                      .+..++++|+.-+..+ ...|..
T Consensus       179 ek~ek~eealeDyKki~E~dPs~  201 (271)
T KOG4234|consen  179 EKMEKYEEALEDYKKILESDPSR  201 (271)
T ss_pred             HhhhhHHHHHHHHHHHHHhCcch
Confidence            8888999999888887 444443

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=88.79  E-value=3.1  Score=31.79  Aligned_cols=72  Identities=18%  Similarity=0.189  Sum_probs=47.2

Q ss_pred             hHHHHHHHH---HHcCCChHHHHHHHHHhHhhcCCCCC---cchHHHHHHHHhhcCCHHHHHHHHHhCCCCchhhHHHHH
Q 038303          313 VTFIALISA---CSHGGLVDQGLILFKAMSTVYEIVPQ---MQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGAL  386 (461)
Q Consensus       313 ~~~~~ll~~---~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l  386 (461)
                      ...+.|+..   -...++.+++..+++.|.-   +.|+   ..++.  .-.+...|+|.+|.++|++....+....|..-
T Consensus         8 ~iv~gLi~~~~~aL~~~d~~D~e~lLdALrv---LrP~~~e~d~~d--g~l~i~rg~w~eA~rvlr~l~~~~~~~p~~kA   82 (153)
T TIGR02561         8 RLLGGLIEVLMYALRSADPYDAQAMLDALRV---LRPNLKELDMFD--GWLLIARGNYDEAARILRELLSSAGAPPYGKA   82 (153)
T ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH---hCCCccccchhH--HHHHHHcCCHHHHHHHHHhhhccCCCchHHHH
Confidence            344444443   3458999999999999965   4555   34444  33467899999999999999444333334333


Q ss_pred             HHH
Q 038303          387 LNA  389 (461)
Q Consensus       387 ~~~  389 (461)
                      +.+
T Consensus        83 L~A   85 (153)
T TIGR02561        83 LLA   85 (153)
T ss_pred             HHH
Confidence            344

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>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=88.59  E-value=1.1  Score=23.99  Aligned_cols=29  Identities=3%  Similarity=0.177  Sum_probs=23.8

Q ss_pred             hHHHHHHHHHhccCChhhHHHHHHHHHHc
Q 038303          415 GTFALMSNTFAGADRWEDTNKIRDEIRRM  443 (461)
Q Consensus       415 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  443 (461)
                      .+|..++..|...|++++|...|++..+.
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            46788888899999999999998887653

...

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.21  E-value=6.3  Score=37.54  Aligned_cols=151  Identities=14%  Similarity=0.045  Sum_probs=89.3

Q ss_pred             HcCCChHHHHHHHhcCCCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHH
Q 038303           87 SKCGFHKEAIDMFCGIDVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLF  166 (461)
Q Consensus        87 ~~~~~~~~a~~~~~~m~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  166 (461)
                      .-.|+++.|..++...   | ...-+.+.+.+.+.|-.++|.++         .+|...   -.....+.|+++.|.++.
T Consensus       597 vmrrd~~~a~~vLp~I---~-k~~rt~va~Fle~~g~~e~AL~~---------s~D~d~---rFelal~lgrl~iA~~la  660 (794)
T KOG0276|consen  597 VLRRDLEVADGVLPTI---P-KEIRTKVAHFLESQGMKEQALEL---------STDPDQ---RFELALKLGRLDIAFDLA  660 (794)
T ss_pred             hhhccccccccccccC---c-hhhhhhHHhHhhhccchHhhhhc---------CCChhh---hhhhhhhcCcHHHHHHHH
Confidence            3446666666655433   1 22344455555666666555543         223222   223455778888888877


Q ss_pred             hcCCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcc
Q 038303          167 VKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSN  246 (461)
Q Consensus       167 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  246 (461)
                      .+..  +..-|..|..+..+.+++..|.+.|....+.+          .++-.+...|+.+....+-....+ .|..   
T Consensus       661 ~e~~--s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d~~----------~LlLl~t~~g~~~~l~~la~~~~~-~g~~---  724 (794)
T KOG0276|consen  661 VEAN--SEVKWRQLGDAALSAGELPLASECFLRARDLG----------SLLLLYTSSGNAEGLAVLASLAKK-QGKN---  724 (794)
T ss_pred             Hhhc--chHHHHHHHHHHhhcccchhHHHHHHhhcchh----------hhhhhhhhcCChhHHHHHHHHHHh-hccc---
Confidence            6654  56678899999999999999999888876643          455555556665554444444433 2221   


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHc
Q 038303          247 LVGNAVINMYVKCGDVGIAIQVFNML  272 (461)
Q Consensus       247 ~~~~~li~~~~~~g~~~~a~~~~~~~  272 (461)
                         |....+|...|+++++.+++.+-
T Consensus       725 ---N~AF~~~~l~g~~~~C~~lLi~t  747 (794)
T KOG0276|consen  725 ---NLAFLAYFLSGDYEECLELLIST  747 (794)
T ss_pred             ---chHHHHHHHcCCHHHHHHHHHhc
Confidence               33344555666776666665443

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.14  E-value=14  Score=30.79  Aligned_cols=49  Identities=16%  Similarity=0.007  Sum_probs=31.0

Q ss_pred             CCHHHHHHHHHhC-----CCCchhhHHHHHHHH---HHhcCChHHHHHHHHHHhhcC
Q 038303          362 GLLEEAEAFIREM-----PIEAEWSVWGALLNA---CRIHRNDEMFDRIRQDLVNKK  410 (461)
Q Consensus       362 g~~~~A~~~~~~~-----~~~p~~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~  410 (461)
                      .+++.|+..++..     +.+.+...-..++.+   -...+++..|+.+|+++....
T Consensus       128 ~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~leqY~~Ai~iyeqva~~s  184 (288)
T KOG1586|consen  128 QDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQLEQYSKAIDIYEQVARSS  184 (288)
T ss_pred             HHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4566666666655     223333333444444   467799999999999988744

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=88.13  E-value=28  Score=34.12  Aligned_cols=154  Identities=12%  Similarity=0.026  Sum_probs=76.2

Q ss_pred             HhcCChHHHHHHHHHHHh-------cCCCCCHhHHHHHHHHHHcCC-----ChHHHHHHHHHhHhhcCCCCCcchHHHHH
Q 038303          288 AMNGCGRQALQLFSLMII-------NAVFPDDVTFIALISACSHGG-----LVDQGLILFKAMSTVYEIVPQMQHYACVV  355 (461)
Q Consensus       288 ~~~~~~~~a~~~~~~m~~-------~g~~p~~~~~~~ll~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  355 (461)
                      ....+.+.|+..++...+       .|   .......+..+|.+..     +.+.|..++..... .|. |+....-..+
T Consensus       260 g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~~~~~d~~~A~~~~~~aA~-~g~-~~a~~~lg~~  334 (552)
T KOG1550|consen  260 GVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLGVEKIDYEKALKLYTKAAE-LGN-PDAQYLLGVL  334 (552)
T ss_pred             cccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCCCccccHHHHHHHHHHHHh-cCC-chHHHHHHHH
Confidence            344566666666666655       44   2223444555555432     45667777766665 343 3332222222


Q ss_pred             HHHhh-cCCHHHHHHHHHhCCCCchhhHHHHHHHHH----HhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCCh
Q 038303          356 DMYGR-AGLLEEAEAFIREMPIEAEWSVWGALLNAC----RIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRW  430 (461)
Q Consensus       356 ~~~~~-~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  430 (461)
                      ..... ..+...|.++|......-....+..+...|    ....+.+.|..+++++-+..++....-......+.. +++
T Consensus       335 ~~~g~~~~d~~~A~~yy~~Aa~~G~~~A~~~la~~y~~G~gv~r~~~~A~~~~k~aA~~g~~~A~~~~~~~~~~g~-~~~  413 (552)
T KOG1550|consen  335 YETGTKERDYRRAFEYYSLAAKAGHILAIYRLALCYELGLGVERNLELAFAYYKKAAEKGNPSAAYLLGAFYEYGV-GRY  413 (552)
T ss_pred             HHcCCccccHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCcCCCHHHHHHHHHHHHHccChhhHHHHHHHHHHcc-ccc
Confidence            11111 234567777777762222222222222221    234567777777777776554332222233333333 677


Q ss_pred             hhHHHHHHHHHHcCCcc
Q 038303          431 EDTNKIRDEIRRMGLKK  447 (461)
Q Consensus       431 ~~A~~~~~~m~~~g~~~  447 (461)
                      +.+.-.+..+.+.|...
T Consensus       414 ~~~~~~~~~~a~~g~~~  430 (552)
T KOG1550|consen  414 DTALALYLYLAELGYEV  430 (552)
T ss_pred             cHHHHHHHHHHHhhhhH
Confidence            77766666666666543

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=87.67  E-value=31  Score=34.24  Aligned_cols=49  Identities=14%  Similarity=0.027  Sum_probs=27.3

Q ss_pred             CcchHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhc
Q 038303            9 NHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTV   58 (461)
Q Consensus         9 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~   58 (461)
                      |......+|-.|.|.|++++|.++.....+ ........+...+..|...
T Consensus       110 ~~~p~Wa~Iyy~LR~G~~~~A~~~~~~~~~-~~~~~~~~f~~~l~~~~~s  158 (613)
T PF04097_consen  110 NGDPIWALIYYCLRCGDYDEALEVANENRN-QFQKIERSFPTYLKAYASS  158 (613)
T ss_dssp             TTEEHHHHHHHHHTTT-HHHHHHHHHHTGG-GS-TTTTHHHHHHHHCTTT
T ss_pred             CCCccHHHHHHHHhcCCHHHHHHHHHHhhh-hhcchhHHHHHHHHHHHhC
Confidence            444455666677777777777777744433 2333444555566666543

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.

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=87.59  E-value=3.6  Score=36.08  Aligned_cols=94  Identities=17%  Similarity=0.063  Sum_probs=62.7

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCCCC-CHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcC
Q 038303          284 ISGLAMNGCGRQALQLFSLMIINAVFP-DDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAG  362 (461)
Q Consensus       284 ~~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  362 (461)
                      ..-|.++|.+++|+..|..-..  +.| +.+++..-..+|.+...+..|+.=.......  -..-+..|+.-+.+-...|
T Consensus       104 GN~yFKQgKy~EAIDCYs~~ia--~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaL--d~~Y~KAYSRR~~AR~~Lg  179 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAIA--VYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIAL--DKLYVKAYSRRMQARESLG  179 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhhc--cCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHh--hHHHHHHHHHHHHHHHHHh
Confidence            3568999999999999998877  456 8899999999999999998887766665541  0111233333333333445


Q ss_pred             CHHHHHHHHHhC-CCCchhh
Q 038303          363 LLEEAEAFIREM-PIEAEWS  381 (461)
Q Consensus       363 ~~~~A~~~~~~~-~~~p~~~  381 (461)
                      ...+|.+-++.. ..+|+..
T Consensus       180 ~~~EAKkD~E~vL~LEP~~~  199 (536)
T KOG4648|consen  180 NNMEAKKDCETVLALEPKNI  199 (536)
T ss_pred             hHHHHHHhHHHHHhhCcccH
Confidence            555665555554 5566633

>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=87.20  E-value=1.4  Score=23.64  Aligned_cols=30  Identities=7%  Similarity=-0.146  Sum_probs=20.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhhcCC
Q 038303          382 VWGALLNACRIHRNDEMFDRIRQDLVNKKG  411 (461)
Q Consensus       382 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  411 (461)
                      +|..+...|...|+++.|...|++..+..|
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~~~~   32 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALELNP   32 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            345555667777777777777777776555

...

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=86.34  E-value=18  Score=31.23  Aligned_cols=57  Identities=12%  Similarity=0.057  Sum_probs=33.5

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHH
Q 038303          178 TTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYI  236 (461)
Q Consensus       178 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~  236 (461)
                      +.....|..+|.+.+|.++.++....  .+.+...+-.++..+...|+--.+..-++.+
T Consensus       283 gkva~~yle~g~~neAi~l~qr~ltl--dpL~e~~nk~lm~~la~~gD~is~~khyery  339 (361)
T COG3947         283 GKVARAYLEAGKPNEAIQLHQRALTL--DPLSEQDNKGLMASLATLGDEISAIKHYERY  339 (361)
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHhhc--ChhhhHHHHHHHHHHHHhccchhhhhHHHHH
Confidence            33445566677777777776666664  3445556666666666666654444444433

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=85.70  E-value=4.1  Score=34.95  Aligned_cols=60  Identities=10%  Similarity=-0.044  Sum_probs=51.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHH
Q 038303          382 VWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIR  441 (461)
Q Consensus       382 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  441 (461)
                      +++.....|...|.+.+|.++.++.....|-+...+..++..+...|+--.|.+-++++.
T Consensus       281 llgkva~~yle~g~~neAi~l~qr~ltldpL~e~~nk~lm~~la~~gD~is~~khyerya  340 (361)
T COG3947         281 LLGKVARAYLEAGKPNEAIQLHQRALTLDPLSEQDNKGLMASLATLGDEISAIKHYERYA  340 (361)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHhhcChhhhHHHHHHHHHHHHhccchhhhhHHHHHH
Confidence            344455668899999999999999999999999999999999999999888888887773

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=85.42  E-value=2.2  Score=24.07  Aligned_cols=28  Identities=18%  Similarity=0.369  Sum_probs=20.8

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 038303          175 VSWTTMIGGYAERGFCKEAVSVFQEMEK  202 (461)
Q Consensus       175 ~~~~~li~~~~~~~~~~~a~~~~~~m~~  202 (461)
                      .+++.|...|...|++++|..++++...
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            4677778888888888888888887754

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=85.24  E-value=1.9  Score=22.71  Aligned_cols=27  Identities=11%  Similarity=-0.081  Sum_probs=19.1

Q ss_pred             HHHHHHhcCChHHHHHHHHHHhhcCCC
Q 038303          386 LLNACRIHRNDEMFDRIRQDLVNKKGV  412 (461)
Q Consensus       386 l~~~~~~~~~~~~a~~~~~~~~~~~~~  412 (461)
                      +..++.+.|+.++|.+.|+++++..|.
T Consensus         6 ~a~~~~~~g~~~~A~~~~~~~~~~~P~   32 (33)
T PF13174_consen    6 LARCYYKLGDYDEAIEYFQRLIKRYPD   32 (33)
T ss_dssp             HHHHHHHHCHHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHHCcC
Confidence            444566677888888888887776664

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=84.24  E-value=22  Score=29.32  Aligned_cols=28  Identities=25%  Similarity=0.190  Sum_probs=16.4

Q ss_pred             hHHHHHHHHHHcCCChHHHHHHHHHhHh
Q 038303          313 VTFIALISACSHGGLVDQGLILFKAMST  340 (461)
Q Consensus       313 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~  340 (461)
                      .||--+.+-+...|+.++|..+|+-...
T Consensus       238 EtyFYL~K~~l~~G~~~~A~~LfKLaia  265 (297)
T COG4785         238 ETYFYLGKYYLSLGDLDEATALFKLAVA  265 (297)
T ss_pred             HHHHHHHHHHhccccHHHHHHHHHHHHH
Confidence            3555556666666666666666655544

>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=83.70  E-value=8.9  Score=31.16  Aligned_cols=77  Identities=12%  Similarity=0.085  Sum_probs=53.8

Q ss_pred             HHhhcCCHHHHHHHHHhCCCCc--hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcC----CCChhHHHHHHHHHhccCCh
Q 038303          357 MYGRAGLLEEAEAFIREMPIEA--EWSVWGALLNACRIHRNDEMFDRIRQDLVNKK----GVSVGTFALMSNTFAGADRW  430 (461)
Q Consensus       357 ~~~~~g~~~~A~~~~~~~~~~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~l~~~~~~~g~~  430 (461)
                      .+.+.|+ +.|.+.|-.+...|  +....-..+..|-...|.+.++.++-++.+..    ..|+..+..|+..|.+.|++
T Consensus       116 ~Wsr~~d-~~A~~~fL~~E~~~~l~t~elq~aLAtyY~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~  194 (203)
T PF11207_consen  116 HWSRFGD-QEALRRFLQLEGTPELETAELQYALATYYTKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNY  194 (203)
T ss_pred             HhhccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHHHccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcch
Confidence            3455555 56677666662233  22333334445666888999999999988732    56799999999999999999


Q ss_pred             hhHH
Q 038303          431 EDTN  434 (461)
Q Consensus       431 ~~A~  434 (461)
                      +.|.
T Consensus       195 e~AY  198 (203)
T PF11207_consen  195 EQAY  198 (203)
T ss_pred             hhhh
Confidence            8875

>PHA02875 ankyrin repeat protein; Provisional

Probab=82.84  E-value=27  Score=32.61  Aligned_cols=144  Identities=13%  Similarity=0.056  Sum_probs=75.4

Q ss_pred             HHHHhhCCHHHHHHHHHHHHHhCCCccHHH--HHHHHHHHHhcCCHHHHHHHHhhCCCCCce--eHHHHHHHHHcCCChH
Q 038303           18 KACSLAHPHQKALEIHAHVIEYGHLHDIFI--QNSLLHFYVTVKDIFSAHQIFNSVVFPDVV--SWTTIISGLSKCGFHK   93 (461)
Q Consensus        18 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~li~~~~~~~~~~   93 (461)
                      ...++.|+.+-+.    .+.+.|..|+...  ..+.+...++.|+.+-+.-+++.-..++..  ...+.+...++.|+.+
T Consensus         7 ~~A~~~g~~~iv~----~Ll~~g~~~n~~~~~g~tpL~~A~~~~~~~~v~~Ll~~ga~~~~~~~~~~t~L~~A~~~g~~~   82 (413)
T PHA02875          7 CDAILFGELDIAR----RLLDIGINPNFEIYDGISPIKLAMKFRDSEAIKLLMKHGAIPDVKYPDIESELHDAVEEGDVK   82 (413)
T ss_pred             HHHHHhCCHHHHH----HHHHCCCCCCccCCCCCCHHHHHHHcCCHHHHHHHHhCCCCccccCCCcccHHHHHHHCCCHH
Confidence            3445667765544    4445676665432  234556666788888777777655333321  1123344556778887


Q ss_pred             HHHHHHhcCCCC---CCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhH--HHHHHHHHHHcCChhhHHHHHhc
Q 038303           94 EAIDMFCGIDVK---PNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIIL--DNAILDFYIRCGSLASCGYLFVK  168 (461)
Q Consensus        94 ~a~~~~~~m~~~---p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~g~~~~a~~~~~~  168 (461)
                      .+..+++.-...   .+..- .+.+...+..|+.    ++++.+.+.|..|+...  -.+.+...+..|+.+-+..+++.
T Consensus        83 ~v~~Ll~~~~~~~~~~~~~g-~tpL~~A~~~~~~----~iv~~Ll~~gad~~~~~~~g~tpLh~A~~~~~~~~v~~Ll~~  157 (413)
T PHA02875         83 AVEELLDLGKFADDVFYKDG-MTPLHLATILKKL----DIMKLLIARGADPDIPNTDKFSPLHLAVMMGDIKGIELLIDH  157 (413)
T ss_pred             HHHHHHHcCCcccccccCCC-CCHHHHHHHhCCH----HHHHHHHhCCCCCCCCCCCCCCHHHHHHHcCCHHHHHHHHhc
Confidence            777766543111   11111 1223333445554    34445556666554322  12345556677777776666665


Q ss_pred             CC
Q 038303          169 MP  170 (461)
Q Consensus       169 ~~  170 (461)
                      -.
T Consensus       158 g~  159 (413)
T PHA02875        158 KA  159 (413)
T ss_pred             CC
Confidence            43

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=82.64  E-value=13  Score=32.49  Aligned_cols=96  Identities=8%  Similarity=0.071  Sum_probs=66.5

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcC---CCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHH
Q 038303          276 DKISWSTVISGLAMNGCGRQALQLFSLMIINA---VFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYA  352 (461)
Q Consensus       276 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g---~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  352 (461)
                      ...+...++..-...++++.++..+-+++...   ..|+.. ....++.| -.-+.++++.++..=.. .|+-||..+++
T Consensus        63 s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~-~~~~irll-lky~pq~~i~~l~npIq-YGiF~dqf~~c  139 (418)
T KOG4570|consen   63 SSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWT-IHTWIRLL-LKYDPQKAIYTLVNPIQ-YGIFPDQFTFC  139 (418)
T ss_pred             ceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhcccc-HHHHHHHH-HccChHHHHHHHhCcch-hccccchhhHH
Confidence            44555666666666778888888888876531   222222 22333333 33466688888777777 78889999999


Q ss_pred             HHHHHHhhcCCHHHHHHHHHhC
Q 038303          353 CVVDMYGRAGLLEEAEAFIREM  374 (461)
Q Consensus       353 ~l~~~~~~~g~~~~A~~~~~~~  374 (461)
                      .+++.+.+.+++.+|.++...|
T Consensus       140 ~l~D~flk~~n~~~aa~vvt~~  161 (418)
T KOG4570|consen  140 LLMDSFLKKENYKDAASVVTEV  161 (418)
T ss_pred             HHHHHHHhcccHHHHHHHHHHH
Confidence            9999999999999888887766

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=81.79  E-value=59  Score=32.41  Aligned_cols=184  Identities=11%  Similarity=0.077  Sum_probs=88.2

Q ss_pred             HhcCCHHHHHHHHHHccCC-----C-----hhhHHHHHH--HHHhcCChHHHHHHHH--------HHHhcCCCCCHhHHH
Q 038303          257 VKCGDVGIAIQVFNMLAYK-----D-----KISWSTVIS--GLAMNGCGRQALQLFS--------LMIINAVFPDDVTFI  316 (461)
Q Consensus       257 ~~~g~~~~a~~~~~~~~~~-----~-----~~~~~~l~~--~~~~~~~~~~a~~~~~--------~m~~~g~~p~~~~~~  316 (461)
                      +-.+++..|...++.+...     +     ...+...+.  .+...|+.+.|+..|.        .....+..++...+.
T Consensus       372 ~~~~~~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~yL~gl~~q~~g~l~~A~~~y~~~~~~~~~~~~~~~~~~El~ila  451 (608)
T PF10345_consen  372 FIRGDWSKATQELEFMRQLCQRSPSKLYESLYPLLHYLLGLYYQSTGDLEAALYQYQKPRFLLCEAANRKSKFRELYILA  451 (608)
T ss_pred             HHCcCHHHHHHHHHHHHHHHhcCccchhhhhhHHHHHHHHHHHHHcCCHHHHHHHHhhhHHhhhhhhccCCcchHHHHHH
Confidence            3457787788777766621     1     122222222  3445688999999997        444444444444443


Q ss_pred             HH----HHHHHcCCChHH--HHHHHHHhHhhcCCCCC--cchHHHH-HHHHhhc---------CCHHHHHHHH-HhCCCC
Q 038303          317 AL----ISACSHGGLVDQ--GLILFKAMSTVYEIVPQ--MQHYACV-VDMYGRA---------GLLEEAEAFI-REMPIE  377 (461)
Q Consensus       317 ~l----l~~~~~~~~~~~--a~~~~~~~~~~~~~~~~--~~~~~~l-~~~~~~~---------g~~~~A~~~~-~~~~~~  377 (461)
                      .+    |.-+......++  +.++++.+.....-.|+  ..++..+ +.++...         ..+.++++.. +..+..
T Consensus       452 ~LNl~~I~~~~~~~~~~~~~~~~l~~~i~p~~~~~~~~~~~~a~~~~~~~~~~~~~~~~ne~k~~l~~~L~~~~~~~~n~  531 (608)
T PF10345_consen  452 ALNLAIILQYESSRDDSESELNELLEQIEPLCSNSPNSYNRTAYCLVLATYNTFEPFSSNEAKRHLQEALKMANNKLGNS  531 (608)
T ss_pred             HHHHHHHhHhhcccchhhhHHHHHHHhcCccccCCccHHHHHHHHHHHHHHhhCCccccHHHHHHHHHHHHHHHHhhccc
Confidence            32    111222223333  67777766552222332  2222333 3333211         1122333333 222221


Q ss_pred             chhhHHHHHHHH-HHhcCChHHHHHHHHHHhhcC---CC-ChhHHH-----HHHHHHhccCChhhHHHHHHHHH
Q 038303          378 AEWSVWGALLNA-CRIHRNDEMFDRIRQDLVNKK---GV-SVGTFA-----LMSNTFAGADRWEDTNKIRDEIR  441 (461)
Q Consensus       378 p~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~---~~-~~~~~~-----~l~~~~~~~g~~~~A~~~~~~m~  441 (461)
                      --....-.++.. +. .|+..+...........-   +. ....|.     .+...+...|+.++|.....+..
T Consensus       532 ~l~~~~L~lm~~~lf-~~~~~e~~~~s~~a~~~A~k~~d~~~~LW~~v~~~~l~~~~~~~G~~~ka~~~~~~~~  604 (608)
T PF10345_consen  532 QLLAILLNLMGHRLF-EGDVGEQAKKSARAFQLAKKSSDYSDQLWHLVASGMLADSYEVQGDRDKAEEARQQLD  604 (608)
T ss_pred             hHHHHHHHHHHHHHH-cCCHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHH
Confidence            112222333444 33 677777655555544311   11 233442     34445777899999998887764

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=81.59  E-value=48  Score=31.34  Aligned_cols=159  Identities=8%  Similarity=0.032  Sum_probs=106.6

Q ss_pred             CceeHHHHHHHHHcCCChHHHHHHHhcC-CCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHH
Q 038303           75 DVVSWTTIISGLSKCGFHKEAIDMFCGI-DVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFY  153 (461)
Q Consensus        75 ~~~~~~~li~~~~~~~~~~~a~~~~~~m-~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  153 (461)
                      |....-+++..+..+.+..-...+..+| ...-+...|..++..|... ..+.-..+++++++..+. |.+.-..|...|
T Consensus        65 ~d~~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          65 DDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYGESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFN-DVVIGRELADKY  142 (711)
T ss_pred             cchHHHHHHHHhccchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcch-hHHHHHHHHHHH
Confidence            4455667788888777777777777777 5556667788888888877 556677788888777665 555556666666


Q ss_pred             HHcCChhhHHHHHhcCCCC---------chhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccc
Q 038303          154 IRCGSLASCGYLFVKMPKR---------NVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSIS  224 (461)
Q Consensus       154 ~~~g~~~~a~~~~~~~~~~---------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~  224 (461)
                      -+ ++.+.+..+|.++..+         -...|.-++..  -..+.+..+.+..+.....+..--...+..+-.-|....
T Consensus       143 Ek-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~--i~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys~~e  219 (711)
T COG1747         143 EK-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPEL--IGDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYSENE  219 (711)
T ss_pred             HH-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHh--ccccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhcccc
Confidence            66 7777777777766421         11245555432  134566666666666555435555666666667788888


Q ss_pred             hhhhHHHHHHHHHh
Q 038303          225 ALSFGKYVHSYIST  238 (461)
Q Consensus       225 ~~~~a~~~~~~~~~  238 (461)
                      ++.++.+++..+.+
T Consensus       220 N~~eai~Ilk~il~  233 (711)
T COG1747         220 NWTEAIRILKHILE  233 (711)
T ss_pred             CHHHHHHHHHHHhh
Confidence            88888888886665

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=81.35  E-value=11  Score=27.91  Aligned_cols=71  Identities=17%  Similarity=0.229  Sum_probs=52.2

Q ss_pred             HHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC
Q 038303          295 QALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM  374 (461)
Q Consensus       295 ~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  374 (461)
                      +..+-+..+....+.|++......+++|.+.+++..|.++|+.++.+.|  +....|..+++         +..-+++++
T Consensus        67 EvrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K~g--~~k~~Y~y~v~---------elkpvl~EL  135 (149)
T KOG4077|consen   67 EVRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKDKCG--AQKQVYPYYVK---------ELKPVLNEL  135 (149)
T ss_pred             HHHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHhcc--cHHHHHHHHHH---------HHHHHHHHh
Confidence            4556667777778999999999999999999999999999998887433  44445655543         344455666


Q ss_pred             CC
Q 038303          375 PI  376 (461)
Q Consensus       375 ~~  376 (461)
                      ++
T Consensus       136 GI  137 (149)
T KOG4077|consen  136 GI  137 (149)
T ss_pred             CC
Confidence            44

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=81.16  E-value=61  Score=32.25  Aligned_cols=47  Identities=17%  Similarity=0.128  Sum_probs=32.4

Q ss_pred             CceeHHHHHHHHHcCCChHHHHHHHhcC--CCCCCchhHHHHHHHhccc
Q 038303           75 DVVSWTTIISGLSKCGFHKEAIDMFCGI--DVKPNANTLVSVLSACSSL  121 (461)
Q Consensus        75 ~~~~~~~li~~~~~~~~~~~a~~~~~~m--~~~p~~~~~~~ll~~~~~~  121 (461)
                      |...--.+|--+.+.|++++|.++..+.  ........|...+..+...
T Consensus       110 ~~~p~Wa~Iyy~LR~G~~~~A~~~~~~~~~~~~~~~~~f~~~l~~~~~s  158 (613)
T PF04097_consen  110 NGDPIWALIYYCLRCGDYDEALEVANENRNQFQKIERSFPTYLKAYASS  158 (613)
T ss_dssp             TTEEHHHHHHHHHTTT-HHHHHHHHHHTGGGS-TTTTHHHHHHHHCTTT
T ss_pred             CCCccHHHHHHHHhcCCHHHHHHHHHHhhhhhcchhHHHHHHHHHHHhC
Confidence            3344456777788999999999999555  4555666777888887665

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.

>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane

Probab=80.38  E-value=4.6  Score=26.93  Aligned_cols=46  Identities=22%  Similarity=0.101  Sum_probs=22.2

Q ss_pred             hcCChHHHHHHHHHHHhcCCCCCH--hHHHHHHHHHHcCCChHHHHHH
Q 038303          289 MNGCGRQALQLFSLMIINAVFPDD--VTFIALISACSHGGLVDQGLIL  334 (461)
Q Consensus       289 ~~~~~~~a~~~~~~m~~~g~~p~~--~~~~~ll~~~~~~~~~~~a~~~  334 (461)
                      ..++.++|+..|....+.-..|..  .++..++.+|+..|++.+++++
T Consensus        18 ~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~f   65 (80)
T PF10579_consen   18 HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAF   65 (80)
T ss_pred             ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455555555555543222221  3445555555555555555443

Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane

>cd08819 CARD_MDA5_2 Caspase activation and recruitment domain found in MDA5, second repeat

Probab=80.11  E-value=15  Score=25.17  Aligned_cols=67  Identities=15%  Similarity=0.142  Sum_probs=49.7

Q ss_pred             HHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCceeHHHHHHHHHcCCChHHHH
Q 038303           28 KALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWTTIISGLSKCGFHKEAI   96 (461)
Q Consensus        28 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~   96 (461)
                      .+.++++.+.+.|+- +......+-.+-...|+.+.|.++++.++ ..+..|..++.++-..|.-.-|.
T Consensus        20 ~~~~v~d~ll~~~il-T~~d~e~I~aa~~~~g~~~~ar~LL~~L~-rg~~aF~~Fl~aLreT~~~~LA~   86 (88)
T cd08819          20 KTRDVCDKCLEQGLL-TEEDRNRIEAATENHGNESGARELLKRIV-QKEGWFSKFLQALRETEHHELAR   86 (88)
T ss_pred             hHHHHHHHHHhcCCC-CHHHHHHHHHhccccCcHHHHHHHHHHhc-cCCcHHHHHHHHHHHcCchhhhh
Confidence            466788888888863 44444444433346789999999999998 78888999999998888765554

Caspase activation and recruitment domain (CARD) found in MDA5 (melanoma-differentiation-associated gene 5), second repeat. MDA5, also known as IFIH1, contains two N-terminal CARD domains and a C-terminal RNA helicase domain. MDA5 is a cytoplasmic DEAD box RNA helicase that plays an important role in host antiviral response by sensing incoming viral RNA. Upon activation, the signal is transferred to downstream pathways via the adaptor molecule IPS-1 (MAVS, VISA, CARDIF), leading to the induction of type I interferons. Although very similar in sequence, MDA5 recognizes different sets of viruses compared to RIG-I, a related RNA helicase. MDA5 associates with IPS-1 through a CARD-CARD interaction. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protei

---

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	461
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-15
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-05
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-08
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-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 = 78.0 bits (191), Expect = 2e-15
 Identities = 61/453 (13%), Positives = 124/453 (27%), Gaps = 133/453 (29%)

Query: 47  IQNSLL----HFYVTV-------KDIFSAHQIFNSVV---FPDVVSWTTIISGLSKCGFH 92
           ++ +LL       V +       K   +     +  V       + W      L  C   
Sbjct: 140 LRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLN----LKNCNSP 195

Query: 93  KEAIDM---FCGIDVKPNANTLVSVLSA----CSSL---VSHKLGKAIHAHSLRNLNENN 142
           +  ++M        + PN  +     S       S+   +   L    + + L       
Sbjct: 196 ETVLEMLQKLL-YQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCL------- 247

Query: 143 IILDN----AILD-FYIRCGSLASCGYL----FVKMPKRNVVSWTTMIGGYAERGFCKEA 193
           ++L N       + F + C  L +  +     F+       +S               E 
Sbjct: 248 LVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPD----EV 303

Query: 194 VSVFQEMEKTKEAE-PNEATLVNVLSACSSISAL---------SFGKYVHSYISTRYDLS 243
            S+  +    +  + P E    N     S I+           ++       ++T  + S
Sbjct: 304 KSLLLKYLDCRPQDLPREVLTTNPR-RLSIIAESIRDGLATWDNWKHVNCDKLTTIIESS 362

Query: 244 VSNLVGNAVINMYVKCG----DVGIAIQVFNMLAYKDKISWSTVIS---GLAMNGCGRQA 296
           ++ L       M+ +         I   + +++       W  VI     + +N   + +
Sbjct: 363 LNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLI-------WFDVIKSDVMVVVNKLHKYS 415

Query: 297 L----------QLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVP 346
           L           + S+ +   V  ++    AL     H  +VD            Y I  
Sbjct: 416 LVEKQPKESTISIPSIYLELKVKLENEY--AL-----HRSIVDH-----------YNIPK 457

Query: 347 QMQHYACV---VDMY---------GRAGLLEEAEAFIR--------EMPIEAEWSVWGA- 385
                  +   +D Y               E    F          E  I  + + W A 
Sbjct: 458 TFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNAS 517

Query: 386 -----LLNACR-----IHRNDEMFDRIRQDLVN 408
                 L   +     I  ND  ++R+   +++
Sbjct: 518 GSILNTLQQLKFYKPYICDNDPKYERLVNAILD 550

>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 = 44.5 bits (104), Expect = 8e-05
 Identities = 69/574 (12%), Positives = 153/574 (26%), Gaps = 195/574 (33%)

Query: 24  HPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIF-SAHQIFNSVVFPDVVSWTTI 82
           H H    E   H  +Y  +  +F    + +F    KD+      I +      ++     
Sbjct: 3   HHHHMDFETGEHQYQYKDILSVFEDAFVDNF--DCKDVQDMPKSILSKEEIDHIIMSKDA 60

Query: 83  ISGLSK-----CGFHKEAIDMFCGIDVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRN 137
           +SG  +         +E +  F    ++ N   L+S +       S      I     R 
Sbjct: 61  VSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRD-RL 119

Query: 138 LNENNII-------------LDNAILDF----YIR------CG--SLASCGYLFVKMPKR 172
            N+N +              L  A+L+      +        G   +A    L  K+  +
Sbjct: 120 YNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCK 179

Query: 173 --NVVSWTTMIGGYAERGFCKEAVSVFQEMEK---------TKEAEPNEATLVNVLSACS 221
               + W  +         C    +V + ++K         T  ++ +    + + S  +
Sbjct: 180 MDFKIFWLNL-------KNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQA 232

Query: 222 SISALSFGK-YVHSY----------------------ISTRYDLSVSNLVGNA------- 251
            +  L   K Y +                        ++TR    V++ +  A       
Sbjct: 233 ELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTR-FKQVTDFLSAATTTHISL 291

Query: 252 ------------------VINMYVKCGD-----VGIAIQVFNMLA--YKDKIS-W----- 280
                              ++   +  D     +    +  +++A   +D ++ W     
Sbjct: 292 DHHSMTLTPDEVKSLLLKYLDC--RPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKH 349

Query: 281 ------STVISGLAMNGCGRQAL------QLFSLMIINAVFPDDVTFIALISACSHGGLV 328
                 +T+I   ++N      L      ++F  +   +VFP        I         
Sbjct: 350 VNCDKLTTIIE-SSLN-----VLEPAEYRKMFDRL---SVFPPSA----HIPT------- 389

Query: 329 DQGL-ILFKAMST--VYEIVPQMQHYACVV-----------DMYGRAGLLEEAEAFIREM 374
              L +++  +    V  +V ++  Y+ V             +Y    +  E E  +   
Sbjct: 390 -ILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRS 448

Query: 375 PIEA-----EWSVWGAL---------------LNACRIHRNDEMFDRIRQDL------VN 408
            ++       +     +               L          +F  +  D       + 
Sbjct: 449 IVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIR 508

Query: 409 KKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRR 442
               +      + NT             +  I  
Sbjct: 509 HDSTAWNASGSILNTLQ------QLKFYKPYICD 536

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 56.4 bits (134), Expect = 1e-08
 Identities = 22/198 (11%), Positives = 58/198 (29%), Gaps = 10/198 (5%)

Query: 185 AERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHS-YISTRYDLS 243
             R   K+     ++  +     P E  L  +L       +L   +     +   +    
Sbjct: 67  EPRLLSKQMAGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQ 126

Query: 244 VSNLVGNAVINMYVKCGDVGIAIQVFNMLAYK-------DKISWSTVISGLAMNGCGRQA 296
              L   A     +    + +A  +  +   +           ++ V+ G A  G  ++ 
Sbjct: 127 QQRL--LAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKEL 184

Query: 297 LQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVD 356
           + +  ++    + PD +++ A +            +       +   +  Q    A ++ 
Sbjct: 185 VYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLS 244

Query: 357 MYGRAGLLEEAEAFIREM 374
              RA +L+         
Sbjct: 245 EEDRATVLKAVHKVKPTF 262

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 43.3 bits (100), Expect = 2e-04
 Identities = 18/124 (14%), Positives = 36/124 (29%), Gaps = 8/124 (6%)

Query: 104 VKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCG 163
             P    L  +L      +S  + +A      +           A     +    L    
Sbjct: 88  ESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAH 147

Query: 164 YLFVKMPKR-------NVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNV 216
           +L V    +        +  +  ++ G+A +G  KE V V   ++      P+  +    
Sbjct: 148 HLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKD-AGLTPDLLSYAAA 206

Query: 217 LSAC 220
           L   
Sbjct: 207 LQCM 210

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	461
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.98
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.97
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.97
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.97
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.95
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.94
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.93
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.93
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.92
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.9
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.88
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.88
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.86
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.84
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.84
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.83
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.83
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.83
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.83
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.82
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.82
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.81
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.81
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.81
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.8
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.8
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.79
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.78
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.77
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.76
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.75
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.75
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.75
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.73
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.69
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.68
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.67
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.66
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.66
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.65
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.61
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.6
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.6
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.6
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.59
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.59
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.59
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.59
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.59
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.58
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.58
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.57
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.57
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.57
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.57
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.56
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.55
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.55
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.54
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.54
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.53
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.53
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.51
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.51
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.49
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.48
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.46
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.44
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.43
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.42
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.42
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.41
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.4
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.4
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.39
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.37
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.36
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.34
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.34
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.32
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.28
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.28
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.22
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.18
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.17
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.16
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.15
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.14
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.13
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.11
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.1
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.07
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.05
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.04
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.04
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.03
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.0
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.99
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.97
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.96
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.93
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.9
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.9
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.89
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.88
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.87
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.87
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.86
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.86
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.86
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.86
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.85
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.84
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.83
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.83
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.83
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.83
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.81
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.79
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.79
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.79
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.73
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.72
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.71
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.71
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.71
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.7
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.7
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.7
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.67
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.67
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.65
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.65
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.62
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.58
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.58
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.57
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.56
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.55
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.53
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.53
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.52
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.51
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.51
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.51
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.5
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.5
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.5
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.49
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.49
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.48
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.47
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.45
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.44
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.44
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.43
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.42
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.41
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.4
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.4
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.4
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.39
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.35
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.34
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.33
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.32
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.31
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.31
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.31
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.31
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.3
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.3
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.3
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.3
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.27
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.27
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.23
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.22
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.2
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.2
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.17
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.16
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.14
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.13
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.13
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.11
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.09
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.03
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.0
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.0
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.88
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.86
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.86
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.82
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.78
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.78
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.73
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.72
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.68
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	97.66
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.62
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.61
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.61
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.54
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.49
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	97.42
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.42
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.39
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.35
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.3
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	97.27
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.26
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.23
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.16
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.08
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.02
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.97
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.93
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.92
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.91
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	96.72
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.55
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.44
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.37
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.3
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.17
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.14
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	96.07
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	95.9
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.73
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	95.68
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.52
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	95.43
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	95.18
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.11
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	95.06
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	94.71
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	94.27
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	94.13
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	93.17
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	93.08
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	93.04
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	92.91
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	92.45
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	92.45
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	92.21
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	90.47
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	90.26
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	90.12
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	89.99
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	89.96
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	88.66
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	88.52
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	88.41
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	88.18
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	88.09
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	88.05
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	87.93
3eiq_C	358	Programmed cell death protein 4; PDCD4, anti-oncog	87.38
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	87.1
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	86.93
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	85.07
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	85.02
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	83.75
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	82.94
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	82.56
3ltm_A	211	Alpha-REP4; protein engineering, heat-like repeat,	82.41
4a1g_A	152	Mitotic checkpoint serine/threonine-protein kinas;	81.25
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	81.08
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	81.01
3ltm_A	211	Alpha-REP4; protein engineering, heat-like repeat,	80.98
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	80.75

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=2e-41  Score=330.35  Aligned_cols=428  Identities=9%  Similarity=-0.063  Sum_probs=383.3

Q ss_pred             CCcchHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhC--CCCCceeHHHHHHH
Q 038303            8 YNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSV--VFPDVVSWTTIISG   85 (461)
Q Consensus         8 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~--~~~~~~~~~~li~~   85 (461)
                      ++...|+.++..+.+.|++++|..+|+.|.+..  |+..++..++.+|.+.|++++|..+|+++  .++++.+++.++.+
T Consensus        82 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~  159 (597)
T 2xpi_A           82 SREDYLRLWRHDALMQQQYKCAAFVGEKVLDIT--GNPNDAFWLAQVYCCTGDYARAKCLLTKEDLYNRSSACRYLAAFC  159 (597)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGGGTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccCchHHHHHHHHHHhhC--CCchHHHHHHHHHHHcCcHHHHHHHHHHHhccccchhHHHHHHHH
Confidence            577789999999999999999999999998644  67789999999999999999999999998  67889999999999


Q ss_pred             HHcCCChHHHHHHHhcC-CC-----------------CCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHH
Q 038303           86 LSKCGFHKEAIDMFCGI-DV-----------------KPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDN  147 (461)
Q Consensus        86 ~~~~~~~~~a~~~~~~m-~~-----------------~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  147 (461)
                      |.+.|++++|+++|+++ ..                 .++..+|+.++.++.+.|++++|.++|+++.+.++. +...+.
T Consensus       160 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~  238 (597)
T 2xpi_A          160 LVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAK-CYEAFD  238 (597)
T ss_dssp             HHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHH
T ss_pred             HHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCch-hhHHHH
Confidence            99999999999999965 11                 235789999999999999999999999999987644 333332


Q ss_pred             --------------------------------------HHHHHHHHcCChhhHHHHHhcCCC--CchhHHHHHHHHHHhc
Q 038303          148 --------------------------------------AILDFYIRCGSLASCGYLFVKMPK--RNVVSWTTMIGGYAER  187 (461)
Q Consensus       148 --------------------------------------~l~~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~li~~~~~~  187 (461)
                                                            .++..|.+.|++++|.++|+++.+  ++..+|+.++..|.+.
T Consensus       239 ~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~  318 (597)
T 2xpi_A          239 QLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLFVR  318 (597)
T ss_dssp             HHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHHHT
T ss_pred             HHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHHHh
Confidence                                                  235566788999999999999988  8999999999999999


Q ss_pred             CChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHH
Q 038303          188 GFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQ  267 (461)
Q Consensus       188 ~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  267 (461)
                      |++++|.++|+++.+.  .+.+..++..++.++.+.|+.++|..+++.+.+  ..+.+..+++.++..|.+.|++++|.+
T Consensus       319 g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~A~~  394 (597)
T 2xpi_A          319 SRFIDVLAITTKILEI--DPYNLDVYPLHLASLHESGEKNKLYLISNDLVD--RHPEKAVTWLAVGIYYLCVNKISEARR  394 (597)
T ss_dssp             TCHHHHHHHHHHHHHH--CTTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHH--HCTTSHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cCHHHHHHHHHHHHHc--CcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHh--hCcccHHHHHHHHHHHHHhccHHHHHH
Confidence            9999999999999986  455788999999999999999999999999987  345677889999999999999999999


Q ss_pred             HHHHcc---CCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCC
Q 038303          268 VFNMLA---YKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEI  344 (461)
Q Consensus       268 ~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  344 (461)
                      +|+++.   ..+..+|+.++.++.+.|++++|+++|+++.+.+ +.+..++..++.+|.+.|++++|.++|+++.+  ..
T Consensus       395 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~  471 (597)
T 2xpi_A          395 YFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYA--LF  471 (597)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HC
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hC
Confidence            999876   3467899999999999999999999999999864 34778999999999999999999999999987  24


Q ss_pred             CCCcchHHHHHHHHhhcCCHHHHHHHHHhC-------CCCch--hhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChh
Q 038303          345 VPQMQHYACVVDMYGRAGLLEEAEAFIREM-------PIEAE--WSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVG  415 (461)
Q Consensus       345 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  415 (461)
                      +.+..+|..++..|.+.|++++|.++|+++       +..|+  ..+|..+..+|.+.|++++|++.++++.+..|.++.
T Consensus       472 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  551 (597)
T 2xpi_A          472 QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLSTNDAN  551 (597)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSCCHH
T ss_pred             CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChH
Confidence            457889999999999999999999999998       34677  679999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhccCChhhHHHHHHHHHHcCC
Q 038303          416 TFALMSNTFAGADRWEDTNKIRDEIRRMGL  445 (461)
Q Consensus       416 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~  445 (461)
                      +|..++.+|.+.|++++|.+.++++.+...
T Consensus       552 ~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p  581 (597)
T 2xpi_A          552 VHTAIALVYLHKKIPGLAITHLHESLAISP  581 (597)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHhcCC
Confidence            999999999999999999999999988643

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=2.3e-38  Score=308.76  Aligned_cols=412  Identities=9%  Similarity=-0.048  Sum_probs=363.2

Q ss_pred             CCCCcchHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCCC-----------
Q 038303            6 SSYNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFP-----------   74 (461)
Q Consensus         6 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----------   74 (461)
                      ..||..++..++.+|.+.|++++|..+|+.+...  +++..+++.++.+|.+.|++++|.++|+++.+.           
T Consensus       113 ~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  190 (597)
T 2xpi_A          113 ITGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLY--NRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLL  190 (597)
T ss_dssp             HHCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGG--GTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------
T ss_pred             hCCCchHHHHHHHHHHHcCcHHHHHHHHHHHhcc--ccchhHHHHHHHHHHHHhhHHHHHHHHhccCCcccccccccccc
Confidence            4578889999999999999999999999988653  578899999999999999999999999976433           


Q ss_pred             --------CceeHHHHHHHHHcCCChHHHHHHHhcC-CCCCCch-hHHH-------------------------------
Q 038303           75 --------DVVSWTTIISGLSKCGFHKEAIDMFCGI-DVKPNAN-TLVS-------------------------------  113 (461)
Q Consensus        75 --------~~~~~~~li~~~~~~~~~~~a~~~~~~m-~~~p~~~-~~~~-------------------------------  113 (461)
                              +..+|+.++.+|.+.|++++|+++|++| ...|+.. .+..                               
T Consensus       191 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  270 (597)
T 2xpi_A          191 MQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAF  270 (597)
T ss_dssp             CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHH
T ss_pred             ccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCchhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHH
Confidence                    3788999999999999999999999999 5555433 2222                               


Q ss_pred             -------HHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCCC---CchhHHHHHHHH
Q 038303          114 -------VLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPK---RNVVSWTTMIGG  183 (461)
Q Consensus       114 -------ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~  183 (461)
                             ++..|.+.|++++|.++|+.+.+.  +++..+++.++..|.+.|++++|..+|+++.+   .+..+|+.++.+
T Consensus       271 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  348 (597)
T 2xpi_A          271 LRSLYMLKLNKTSHEDELRRAEDYLSSINGL--EKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPYNLDVYPLHLAS  348 (597)
T ss_dssp             HHHHHHTTSCTTTTHHHHHHHHHHHHTSTTG--GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCCTTHHHHHHH
T ss_pred             HHHHHHHHHHHHcCcchHHHHHHHHHHhhcC--CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcccHHHHHHHHHH
Confidence                   245577889999999999999876  47899999999999999999999999999864   578899999999


Q ss_pred             HHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHH
Q 038303          184 YAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVG  263 (461)
Q Consensus       184 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  263 (461)
                      +.+.|++++|..+++++.+.  .+.+..++..+...+.+.|++++|..+|+.+.+  -.+.+..+++.++..|.+.|+++
T Consensus       349 ~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~  424 (597)
T 2xpi_A          349 LHESGEKNKLYLISNDLVDR--HPEKAVTWLAVGIYYLCVNKISEARRYFSKSST--MDPQFGPAWIGFAHSFAIEGEHD  424 (597)
T ss_dssp             HHHHTCHHHHHHHHHHHHHH--CTTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHhCCHHHHHHHHHHHHhh--CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHH
Confidence            99999999999999999864  566788999999999999999999999999987  23345678999999999999999


Q ss_pred             HHHHHHHHccC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHh
Q 038303          264 IAIQVFNMLAY---KDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMST  340 (461)
Q Consensus       264 ~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  340 (461)
                      +|.++|+++.+   .+..+|+.++.+|.+.|++++|.++|+++.+... .+..+|..++..|.+.|++++|.++|+++.+
T Consensus       425 ~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  503 (597)
T 2xpi_A          425 QAISAYTTAARLFQGTHLPYLFLGMQHMQLGNILLANEYLQSSYALFQ-YDPLLLNELGVVAFNKSDMQTAINHFQNALL  503 (597)
T ss_dssp             HHHHHHHHHHHTTTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            99999998763   3778999999999999999999999999998643 3788999999999999999999999999987


Q ss_pred             hc---CCCCC--cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCC
Q 038303          341 VY---EIVPQ--MQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVS  413 (461)
Q Consensus       341 ~~---~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  413 (461)
                      ..   +..|+  ..+|..++.+|.+.|++++|.++++++ ...| +..+|..+..+|.+.|++++|.+.++++.+..|.+
T Consensus       504 ~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p~~  583 (597)
T 2xpi_A          504 LVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLSTNDANVHTAIALVYLHKKIPGLAITHLHESLAISPNE  583 (597)
T ss_dssp             HHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             hhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCC
Confidence            22   55777  789999999999999999999999998 3334 77899999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHhc
Q 038303          414 VGTFALMSNTFAG  426 (461)
Q Consensus       414 ~~~~~~l~~~~~~  426 (461)
                      +.++..+..+|..
T Consensus       584 ~~~~~~l~~~~~~  596 (597)
T 2xpi_A          584 IMASDLLKRALEE  596 (597)
T ss_dssp             HHHHHHHHHTTC-
T ss_pred             hHHHHHHHHHHhc
Confidence            9999999888753

>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=99.98  E-value=9.3e-29  Score=227.56  Aligned_cols=370  Identities=10%  Similarity=0.025  Sum_probs=259.1

Q ss_pred             HHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhC---CCCCceeHHHHHHHHHcCCChH
Q 038303           17 LKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSV---VFPDVVSWTTIISGLSKCGFHK   93 (461)
Q Consensus        17 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~~~~~~~~li~~~~~~~~~~   93 (461)
                      ...+.+.|++++|.+.+..+.+..+. +...+..+...+...|++++|...++..   .+.+..+|..+...+.+.|+++
T Consensus         6 a~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~p~~~~~~~~lg~~~~~~g~~~   84 (388)
T 1w3b_A            6 AHREYQAGDFEAAERHCMQLWRQEPD-NTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQ   84 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHH
Confidence            45567788888888888888776532 4455666666777788888888877765   3345566777777777777777


Q ss_pred             HHHHHHhcC-CCCCCc-hhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCCC
Q 038303           94 EAIDMFCGI-DVKPNA-NTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPK  171 (461)
Q Consensus        94 ~a~~~~~~m-~~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  171 (461)
                      +|++.|+++ ...|+. .+|..+..++...|++++|.+.++.+.+..+. +...+..+...+...|++++|...|+++.+
T Consensus        85 ~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  163 (388)
T 1w3b_A           85 EAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPD-LYCVRSDLGNLLKALGRLEEAKACYLKAIE  163 (388)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTT-CTHHHHHHHHHHHTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            777777776 444543 34566666666666666666666666655332 334444455555555555555555555432


Q ss_pred             ---CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchH
Q 038303          172 ---RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLV  248 (461)
Q Consensus       172 ---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  248 (461)
                         .+..+|..+...+...|++++|...|+++.+.   .|                                   .+...
T Consensus       164 ~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~---~p-----------------------------------~~~~~  205 (388)
T 1w3b_A          164 TQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTL---DP-----------------------------------NFLDA  205 (388)
T ss_dssp             HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH---CT-----------------------------------TCHHH
T ss_pred             hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CC-----------------------------------CcHHH
Confidence               22344555555555555555555555555442   11                                   22344


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHcc--CC-ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcC
Q 038303          249 GNAVINMYVKCGDVGIAIQVFNMLA--YK-DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHG  325 (461)
Q Consensus       249 ~~~li~~~~~~g~~~~a~~~~~~~~--~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  325 (461)
                      +..+...+...|++++|...|++..  .| +..++..+...+.+.|++++|.+.++++.+... .+..++..+...+.+.
T Consensus       206 ~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~  284 (388)
T 1w3b_A          206 YINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQP-HFPDAYCNLANALKEK  284 (388)
T ss_dssp             HHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCS-SCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHc
Confidence            5666777777777777777777654  23 567788888888888999999999988887532 2457788888889999


Q ss_pred             CChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHH
Q 038303          326 GLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIR  403 (461)
Q Consensus       326 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~  403 (461)
                      |++++|...|+++.+  ..+.+..++..+...+.+.|++++|...++++ ...| +..++..+...+.+.|++++|...+
T Consensus       285 g~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~  362 (388)
T 1w3b_A          285 GSVAEAEDCYNTALR--LCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHY  362 (388)
T ss_dssp             SCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHh--hCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            999999999998887  34567788888999999999999999999888 4444 4567888888899999999999999


Q ss_pred             HHHhhcCCCChhHHHHHHHHHhccCC
Q 038303          404 QDLVNKKGVSVGTFALMSNTFAGADR  429 (461)
Q Consensus       404 ~~~~~~~~~~~~~~~~l~~~~~~~g~  429 (461)
                      +++.+..|.++.+|..++..+.+.|+
T Consensus       363 ~~a~~~~p~~~~a~~~lg~~~~~~~~  388 (388)
T 1w3b_A          363 KEAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHhhCCCCHHHHHhHHHHHHHccC
Confidence            99999889999999999988877653

>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=99.97  E-value=2e-30  Score=242.60  Aligned_cols=183  Identities=13%  Similarity=0.156  Sum_probs=141.4

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccc---------hhhhHHHHHHHHHhhcCCCCc
Q 038303          175 VSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSIS---------ALSFGKYVHSYISTRYDLSVS  245 (461)
Q Consensus       175 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~---------~~~~a~~~~~~~~~~~~~~~~  245 (461)
                      ..++.+|.+|++.|++++|+++|++|.+.| ++||..||+.+|.+|++.+         .++.|.++|++|.. .|+.||
T Consensus        27 ~~l~~~id~c~k~G~~~~A~~lf~~M~~~G-v~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~-~G~~Pd  104 (501)
T 4g26_A           27 ALLKQKLDMCSKKGDVLEALRLYDEARRNG-VQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIV-DKVVPN  104 (501)
T ss_dssp             HHHHHHHHHTTTSCCHHHHHHHHHHHHHHT-CCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHH-TTCCCC
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHcC-CCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHH-hCCCCC
Confidence            346667777777777777777777777777 7777777777777776543         35667777777777 777788


Q ss_pred             chHHHHHHHHHHhcCCHHHHHHHHHHcc----CCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHH
Q 038303          246 NLVGNAVINMYVKCGDVGIAIQVFNMLA----YKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISA  321 (461)
Q Consensus       246 ~~~~~~li~~~~~~g~~~~a~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~  321 (461)
                      ..+|++||.+|++.|++++|.++|++|.    .||..+|+++|.+|++.|++++|.++|++|.+.|+.||..||+.||.+
T Consensus       105 ~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~  184 (501)
T 4g26_A          105 EATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKV  184 (501)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHH
Confidence            7788888888888888888888877776    457778888888888888888888888888888888888888888888


Q ss_pred             HHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhh
Q 038303          322 CSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGR  360 (461)
Q Consensus       322 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  360 (461)
                      |++.|++++|.++|++|.+ .+..|+..||+.++..|+.
T Consensus       185 ~~~~g~~d~A~~ll~~Mr~-~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          185 SMDTKNADKVYKTLQRLRD-LVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             HHHTTCHHHHHHHHHHHHH-HTSSBCHHHHHHHHHHHHS
T ss_pred             HhhCCCHHHHHHHHHHHHH-hCCCcCHHHHHHHHHHHhc
Confidence            8888888888888888877 6778888888877777765

>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=99.97  E-value=1e-27  Score=220.67  Aligned_cols=352  Identities=11%  Similarity=0.020  Sum_probs=275.8

Q ss_pred             HHHHcCCChHHHHHHHhcC-CCCCCch-hHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhh
Q 038303           84 SGLSKCGFHKEAIDMFCGI-DVKPNAN-TLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLAS  161 (461)
Q Consensus        84 ~~~~~~~~~~~a~~~~~~m-~~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  161 (461)
                      ..+.+.|++++|++.++++ ...|+.. .+..+...+...|++++|...++...+..+ .+..+|..+...+.+.|++++
T Consensus         7 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~p-~~~~~~~~lg~~~~~~g~~~~   85 (388)
T 1w3b_A            7 HREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNP-LLAEAYSNLGNVYKERGQLQE   85 (388)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CchHHHHHHHHHHHHCCCHHH
Confidence            3445566666666666665 4445433 334444455666777777777766666543 366677777777777777777


Q ss_pred             HHHHHhcCCC--C-chhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHh
Q 038303          162 CGYLFVKMPK--R-NVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYIST  238 (461)
Q Consensus       162 a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~  238 (461)
                      |...|+++.+  | +..+|..+..++.+.|++++|.+.|+++.+.  .+.+...+..+...+...|++++|...++.+.+
T Consensus        86 A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  163 (388)
T 1w3b_A           86 AIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQY--NPDLYCVRSDLGNLLKALGRLEEAKACYLKAIE  163 (388)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHH--CTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            7777777653  3 3456777888888888888888888887773  233344555666667777888888888888776


Q ss_pred             hcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccC--C-ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHH
Q 038303          239 RYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAY--K-DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTF  315 (461)
Q Consensus       239 ~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~  315 (461)
                      .  .+.+..++..+...+.+.|++++|...|+++.+  | +...|..+...+...|++++|...+++..+... .+..++
T Consensus       164 ~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~  240 (388)
T 1w3b_A          164 T--QPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSP-NHAVVH  240 (388)
T ss_dssp             H--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCT-TCHHHH
T ss_pred             h--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-CCHHHH
Confidence            2  233456788899999999999999999998873  3 567888999999999999999999999988532 246888


Q ss_pred             HHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC--CCCchhhHHHHHHHHHHhc
Q 038303          316 IALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM--PIEAEWSVWGALLNACRIH  393 (461)
Q Consensus       316 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~  393 (461)
                      ..+...+...|++++|...|+++.+  ..+.+..+|..+...+.+.|++++|.+.++++  ..+++..++..+...+...
T Consensus       241 ~~l~~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~  318 (388)
T 1w3b_A          241 GNLACVYYEQGLIDLAIDTYRRAIE--LQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQ  318 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH--TCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHh--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHc
Confidence            9999999999999999999999987  23445778999999999999999999999998  3345677889999999999


Q ss_pred             CChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHc
Q 038303          394 RNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRM  443 (461)
Q Consensus       394 ~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  443 (461)
                      |++++|...++++.+..|.+..++..++.+|.+.|++++|.+.++++.+.
T Consensus       319 g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  368 (388)
T 1w3b_A          319 GNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI  368 (388)
T ss_dssp             TCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            99999999999999999999999999999999999999999999999874

>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=99.97  E-value=1.9e-29  Score=236.05  Aligned_cols=200  Identities=11%  Similarity=0.100  Sum_probs=173.0

Q ss_pred             HHHHHHHHHHHhcCCCCCC-hhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCC--------
Q 038303          191 KEAVSVFQEMEKTKEAEPN-EATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGD--------  261 (461)
Q Consensus       191 ~~a~~~~~~m~~~~~~~~~-~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~--------  261 (461)
                      ..+..+.+++.+.+ ..+. ...++.+|++|++.|++++|.++|++|.+ .|+.||..+|+.||.+|++.+.        
T Consensus         7 s~~e~L~~~~~~k~-~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~-~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~   84 (501)
T 4g26_A            7 SPSENLSRKAKKKA-IQQSPEALLKQKLDMCSKKGDVLEALRLYDEARR-NGVQLSQYHYNVLLYVCSLAEAATESSPNP   84 (501)
T ss_dssp             ------------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-HTCCCCHHHHHHHHHHHTTCCCCSSSSCCH
T ss_pred             chHHHHHHHHHHhc-ccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHH-cCCCCCHhHHHHHHHHHHhCCchhhhhhcc
Confidence            34555667777766 5544 44688899999999999999999999999 8999999999999999987765        


Q ss_pred             -HHHHHHHHHHcc----CCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHH
Q 038303          262 -VGIAIQVFNMLA----YKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFK  336 (461)
Q Consensus       262 -~~~a~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  336 (461)
                       +++|.++|++|.    .||..+|+++|.+|++.|++++|.++|++|.+.|+.||..||+.+|.+|++.|++++|.++|+
T Consensus        85 ~l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~  164 (501)
T 4g26_A           85 GLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDA  164 (501)
T ss_dssp             HHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHH
Confidence             688999999997    579999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC---CCCchhhHHHHHHHHHHhc
Q 038303          337 AMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM---PIEAEWSVWGALLNACRIH  393 (461)
Q Consensus       337 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~---~~~p~~~~~~~l~~~~~~~  393 (461)
                      +|.+ .|+.||..+|++||.+|++.|++++|.+++++|   +..|+..||+.++..|+..
T Consensus       165 ~M~~-~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          165 HMVE-SEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHHH-TTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             HHHh-cCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            9999 899999999999999999999999999999999   8899999999999998654

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.95  E-value=4.4e-25  Score=210.83  Aligned_cols=427  Identities=8%  Similarity=-0.104  Sum_probs=299.2

Q ss_pred             chHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhC---CCCCceeHHHHHHHHH
Q 038303           11 YTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSV---VFPDVVSWTTIISGLS   87 (461)
Q Consensus        11 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~~~~~~~~li~~~~   87 (461)
                      ..+......+.+.|++++|...|+.+.+..  |+..+|..+..++.+.|++++|...|+++   .+.+..+|..+..++.
T Consensus         7 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~   84 (514)
T 2gw1_A            7 LALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELKPDYSKVLLRRASANE   84 (514)
T ss_dssp             HHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccChHHHHHHHHHHHHHH
Confidence            456677788999999999999999999977  68999999999999999999999999987   3345678899999999


Q ss_pred             cCCChHHHHHHHhcC-CCC-CCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHH---cCChhhH
Q 038303           88 KCGFHKEAIDMFCGI-DVK-PNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIR---CGSLASC  162 (461)
Q Consensus        88 ~~~~~~~a~~~~~~m-~~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~g~~~~a  162 (461)
                      +.|++++|+..|+++ ... ++......++..+........+.+.+..+...+..|+......-......   ......+
T Consensus        85 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (514)
T 2gw1_A           85 GLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSM  164 (514)
T ss_dssp             HTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHH
T ss_pred             HHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHH
Confidence            999999999999998 333 35555555555555444444444444333222211111111100000000   0111111


Q ss_pred             HHHHhcCC---------C-CchhHHHHHHHHHHh---cCChHHHHHHHHHHHh-----cCCC-------CCChhhHHHHH
Q 038303          163 GYLFVKMP---------K-RNVVSWTTMIGGYAE---RGFCKEAVSVFQEMEK-----TKEA-------EPNEATLVNVL  217 (461)
Q Consensus       163 ~~~~~~~~---------~-~~~~~~~~li~~~~~---~~~~~~a~~~~~~m~~-----~~~~-------~~~~~~~~~~l  217 (461)
                      ...+....         . .+...+......+..   .|++++|..+|+++.+     ....       +.+..++..+.
T Consensus       165 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (514)
T 2gw1_A          165 ASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTG  244 (514)
T ss_dssp             HHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHH
Confidence            11111111         1 124444444444554   7888888888888877     3101       22345666777


Q ss_pred             HHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCC---ChhhHHHHHHHHHhcCChH
Q 038303          218 SACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYK---DKISWSTVISGLAMNGCGR  294 (461)
Q Consensus       218 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~  294 (461)
                      ..+...|+++.|...++.+.+ ..  |+...+..+...+...|++++|...++.+.+.   +...|..+...+...|+++
T Consensus       245 ~~~~~~~~~~~A~~~~~~~l~-~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  321 (514)
T 2gw1_A          245 IFKFLKNDPLGAHEDIKKAIE-LF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQMNFILQNYD  321 (514)
T ss_dssp             HHHHHSSCHHHHHHHHHHHHH-HC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCTHHHHHHHHHHHHTTCTT
T ss_pred             HHHHHCCCHHHHHHHHHHHHh-hC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcCCHHHHHHHHHHHHHhCCHH
Confidence            778888888888888888877 22  22667788888888888888888888877642   5667888888888888999


Q ss_pred             HHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC
Q 038303          295 QALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM  374 (461)
Q Consensus       295 ~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  374 (461)
                      +|...+++..+.... +...+..+...+...|++++|...++.+.+  ..+.+...+..+...+.+.|++++|...++++
T Consensus       322 ~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a  398 (514)
T 2gw1_A          322 QAGKDFDKAKELDPE-NIFPYIQLACLAYRENKFDDCETLFSEAKR--KFPEAPEVPNFFAEILTDKNDFDKALKQYDLA  398 (514)
T ss_dssp             HHHHHHHHHHHTCSS-CSHHHHHHHHHTTTTTCHHHHHHHHHHHHH--HSTTCSHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhChh-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--HcccCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            999988888875332 456777888888888999999988888877  23445677888888888889999998888877


Q ss_pred             -CCCch-------hhHHHHHHHHHHh---cCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHc
Q 038303          375 -PIEAE-------WSVWGALLNACRI---HRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRM  443 (461)
Q Consensus       375 -~~~p~-------~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  443 (461)
                       ...|+       ...+..+...+..   .|++++|...++++.+..|.++.++..++.+|.+.|++++|...+++..+.
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             22222       2367777778888   888999999999888888888888888899999999999999988888775


Q ss_pred             CC
Q 038303          444 GL  445 (461)
Q Consensus       444 g~  445 (461)
                      ..
T Consensus       479 ~~  480 (514)
T 2gw1_A          479 AR  480 (514)
T ss_dssp             CS
T ss_pred             cc
Confidence            43

>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=99.94  E-value=7.5e-24  Score=203.49  Aligned_cols=424  Identities=6%  Similarity=-0.051  Sum_probs=318.7

Q ss_pred             chHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhC---CCCCceeHHHHHHHHH
Q 038303           11 YTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSV---VFPDVVSWTTIISGLS   87 (461)
Q Consensus        11 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~~~~~~~~li~~~~   87 (461)
                      ..|..+...+.+.|++++|...|+.+.+..+ .++.+|..+..+|.+.|++++|.+.|++.   .+.+...+..+...+.
T Consensus        26 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~  104 (537)
T 3fp2_A           26 VQLKNRGNHFFTAKNFNEAIKYYQYAIELDP-NEPVFYSNISACYISTGDLEKVIEFTTKALEIKPDHSKALLRRASANE  104 (537)
T ss_dssp             HHHHHHHHHHHHTTCCC-CHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhhCC-CCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHH
Confidence            4577788889999999999999999999764 37889999999999999999999999988   3456778888999999


Q ss_pred             cCCChHHHHHHHhcCCCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcC--CCChhHHHHHHHHHHHcCChhhHHHH
Q 038303           88 KCGFHKEAIDMFCGIDVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLN--ENNIILDNAILDFYIRCGSLASCGYL  165 (461)
Q Consensus        88 ~~~~~~~a~~~~~~m~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~  165 (461)
                      ..|++++|++.|+.+...|+...  ..+..+...+....+...++.+....+  .+........+..+....+.+.+...
T Consensus       105 ~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  182 (537)
T 3fp2_A          105 SLGNFTDAMFDLSVLSLNGDFDG--ASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSS  182 (537)
T ss_dssp             HHTCHHHHHHHHHHHC-------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHT
T ss_pred             HcCCHHHHHHHHHHHhcCCCCCh--HHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHH
Confidence            99999999999975555554332  234456666777889999998876521  11112223445556677788888887


Q ss_pred             HhcCCCCchh---HHHHHHHHHHh--------cCChHHHHHHHHHHHhcCCCCCC--------hhhHHHHHHHhhccchh
Q 038303          166 FVKMPKRNVV---SWTTMIGGYAE--------RGFCKEAVSVFQEMEKTKEAEPN--------EATLVNVLSACSSISAL  226 (461)
Q Consensus       166 ~~~~~~~~~~---~~~~li~~~~~--------~~~~~~a~~~~~~m~~~~~~~~~--------~~~~~~~l~~~~~~~~~  226 (461)
                      +......+..   ....+...+..        .|++++|..+|+++.+.   .|+        ..++..+...+...|++
T Consensus       183 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~---~p~~~~~~~~~~~~~~~~g~~~~~~~~~  259 (537)
T 3fp2_A          183 VNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSA---NTVDDPLRENAALALCYTGIFHFLKNNL  259 (537)
T ss_dssp             SCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC-----CCCHHHHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHH---CCCcchhhHHHHHHHHHHHHHHHhcccH
Confidence            7777664333   33333333222        24788999999999874   344        22455666677888999


Q ss_pred             hhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccC---CChhhHHHHHHHHHhcCChHHHHHHHHHH
Q 038303          227 SFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAY---KDKISWSTVISGLAMNGCGRQALQLFSLM  303 (461)
Q Consensus       227 ~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m  303 (461)
                      +.|...++.+.+ .  .|+...+..+...+...|++++|...++++.+   .+..+|..+...+...|++++|...+++.
T Consensus       260 ~~A~~~~~~~~~-~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a  336 (537)
T 3fp2_A          260 LDAQVLLQESIN-L--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLNPEYPPTYYHRGQMYFILQDYKNAKEDFQKA  336 (537)
T ss_dssp             HHHHHHHHHHHH-H--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh-c--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            999999999877 2  34467788888899999999999999988763   35778889999999999999999999999


Q ss_pred             HhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCch---
Q 038303          304 IINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAE---  379 (461)
Q Consensus       304 ~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~---  379 (461)
                      .+.... +...+..+...+...|++++|...++++.+  ..+.+...+..+...+...|++++|...++++ ...|+   
T Consensus       337 ~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~  413 (537)
T 3fp2_A          337 QSLNPE-NVYPYIQLACLLYKQGKFTESEAFFNETKL--KFPTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEK  413 (537)
T ss_dssp             HHHCTT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSS
T ss_pred             HHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchh
Confidence            886422 457788888899999999999999999987  23455778888999999999999999999887 21121   


Q ss_pred             ----hhHHHHHHHHHHhc----------CChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcCC
Q 038303          380 ----WSVWGALLNACRIH----------RNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGL  445 (461)
Q Consensus       380 ----~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~  445 (461)
                          ...+......+...          |++++|...++++.+..|.+..++..++.+|.+.|++++|.+.+++..+...
T Consensus       414 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~  493 (537)
T 3fp2_A          414 IHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAILAR  493 (537)
T ss_dssp             CSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             hHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC
Confidence                11233344556666          9999999999999999999999999999999999999999999999887654


Q ss_pred             c
Q 038303          446 K  446 (461)
Q Consensus       446 ~  446 (461)
                      .
T Consensus       494 ~  494 (537)
T 3fp2_A          494 T  494 (537)
T ss_dssp             -
T ss_pred             C
Confidence            3

>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=99.93  E-value=4.9e-23  Score=193.24  Aligned_cols=376  Identities=8%  Similarity=-0.058  Sum_probs=219.0

Q ss_pred             HHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhC---CCCCceeHHHHHHHHHcCCChHHHHHHHhcC-CC
Q 038303           29 ALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSV---VFPDVVSWTTIISGLSKCGFHKEAIDMFCGI-DV  104 (461)
Q Consensus        29 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m-~~  104 (461)
                      +...+..+....+ .+...+..+...+.+.|++++|...|+++   .+.+...|..+..++...|++++|+..|+++ ..
T Consensus        11 ~~~~~~~~~~~~p-~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~   89 (450)
T 2y4t_A           11 VDLGTENLYFQSM-ADVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQL   89 (450)
T ss_dssp             ------------C-HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ccccccccccccH-HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            3344444444332 34556666666777777777777777665   2334556666666666666666666666666 33


Q ss_pred             CC-CchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCCh---hHHHHHHHHHHHcCChhhHHHHHhcCCCCchhHHHHH
Q 038303          105 KP-NANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNI---ILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTM  180 (461)
Q Consensus       105 ~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l  180 (461)
                      .| +...+..+...+...|++++|.+.|+.+.+..+. +.   ..+..+...+...                   .+..+
T Consensus        90 ~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~-------------------~~~~~  149 (450)
T 2y4t_A           90 KMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPS-ENEEKEAQSQLIKSDEMQ-------------------RLRSQ  149 (450)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCCC-HHHHHHHHHHHHHHHHHH-------------------HHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-ChhhHHHHHHHHHHHHHH-------------------HHHHH
Confidence            33 3445555555566666666666666665554322 22   3333333321111                   12223


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcC
Q 038303          181 IGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCG  260 (461)
Q Consensus       181 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  260 (461)
                      ...+...|++++|...|+++.+.  .+.+...+..+..++...|+++.|...++.+.+.  .+.+..++..+...|...|
T Consensus       150 a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g  225 (450)
T 2y4t_A          150 ALNAFGSGDYTAAIAFLDKILEV--CVWDAELRELRAECFIKEGEPRKAISDLKAASKL--KNDNTEAFYKISTLYYQLG  225 (450)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHH--HCSCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcC
Confidence            44466777777777777777764  3445666666777777777777777777776652  2334556677777777777


Q ss_pred             CHHHHHHHHHHccC--C-ChhhHHHH------------HHHHHhcCChHHHHHHHHHHHhcCCCCC-----HhHHHHHHH
Q 038303          261 DVGIAIQVFNMLAY--K-DKISWSTV------------ISGLAMNGCGRQALQLFSLMIINAVFPD-----DVTFIALIS  320 (461)
Q Consensus       261 ~~~~a~~~~~~~~~--~-~~~~~~~l------------~~~~~~~~~~~~a~~~~~~m~~~g~~p~-----~~~~~~ll~  320 (461)
                      ++++|...|+++..  | +...+..+            ...+.+.|++++|...|+++.+.  .|+     ...+..+..
T Consensus       226 ~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~l~~  303 (450)
T 2y4t_A          226 DHELSLSEVRECLKLDQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKERICH  303 (450)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHH
Confidence            77777777776652  2 23333333            66777778888888888887764  344     335667777


Q ss_pred             HHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCchhh-HHHHHHHH---------
Q 038303          321 ACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAEWS-VWGALLNA---------  389 (461)
Q Consensus       321 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~-~~~~l~~~---------  389 (461)
                      .+.+.|++++|+..++.+.+  -.+.+...|..+..+|...|++++|...++++ ...|+.. .+..+..+         
T Consensus       304 ~~~~~g~~~~A~~~~~~a~~--~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~  381 (450)
T 2y4t_A          304 CFSKDEKPVEAIRVCSEVLQ--MEPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRLLKQSQK  381 (450)
T ss_dssp             HHHTTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHCCCHHHHHHHHHHHHH--hCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHhhcccc
Confidence            77788888888888877766  12345677777788888888888888888777 4445433 33333321         


Q ss_pred             ---HHhcC-----ChHHHHHHHHH-HhhcCCCC----------hhHHHHHHHHHhccCChhhH
Q 038303          390 ---CRIHR-----NDEMFDRIRQD-LVNKKGVS----------VGTFALMSNTFAGADRWEDT  433 (461)
Q Consensus       390 ---~~~~~-----~~~~a~~~~~~-~~~~~~~~----------~~~~~~l~~~~~~~g~~~~A  433 (461)
                         |...|     +.+++.+.+++ ..+..|.+          ...+..+..+|...|+.+.+
T Consensus       382 ~~~y~~lg~~~~~~~~~~~~~y~~~~l~~~pd~~~~~~~~~~a~~~~~~i~~ay~~L~d~~~r  444 (450)
T 2y4t_A          382 RDYYKILGVKRNAKKQEIIKAYRKLALQWHPDNFQNEEEKKKAEKKFIDIAAAKEVLSDPEMR  444 (450)
T ss_dssp             CCSGGGSCSSTTCCTTHHHHHHHHHHHHSCGGGCCSHHHHHHHHHHHHHHHHHHHHSSGGGGC
T ss_pred             hhHHHHhCCCccCCHHHHHHHHHHHHHHhCCCCCCCchHHHHHHHHHHHHHHHHHHhCCHHHH
Confidence               22223     55666777765 33333321          12555666666666665543

>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=99.93  E-value=7e-23  Score=192.21  Aligned_cols=323  Identities=9%  Similarity=-0.006  Sum_probs=256.7

Q ss_pred             CchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCCC---CchhHHHHHHHH
Q 038303          107 NANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPK---RNVVSWTTMIGG  183 (461)
Q Consensus       107 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~  183 (461)
                      +...+..+...+.+.|++++|..+|+.+.+..+. +..++..+..++...|++++|...|+++.+   .+..+|..+..+
T Consensus        25 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~  103 (450)
T 2y4t_A           25 DVEKHLELGKKLLAAGQLADALSQFHAAVDGDPD-NYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMDFTAARLQRGHL  103 (450)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHH
Confidence            4455666667777777777777777777766433 667777777788888888888888877654   346677888888


Q ss_pred             HHhcCChHHHHHHHHHHHhcCCCCCCh----hhHHHH------------HHHhhccchhhhHHHHHHHHHhhcCCCCcch
Q 038303          184 YAERGFCKEAVSVFQEMEKTKEAEPNE----ATLVNV------------LSACSSISALSFGKYVHSYISTRYDLSVSNL  247 (461)
Q Consensus       184 ~~~~~~~~~a~~~~~~m~~~~~~~~~~----~~~~~~------------l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  247 (461)
                      |.+.|++++|...|+++.+.   .|+.    ..+..+            ...+...|+++.|...++.+.+  ..+.+..
T Consensus       104 ~~~~g~~~~A~~~~~~~~~~---~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~--~~~~~~~  178 (450)
T 2y4t_A          104 LLKQGKLDEAEDDFKKVLKS---NPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILE--VCVWDAE  178 (450)
T ss_dssp             HHHTTCHHHHHHHHHHHHTS---CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCTTCHH
T ss_pred             HHHcCCHHHHHHHHHHHHhc---CCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCChH
Confidence            88888888888888888773   3433    444444            3447889999999999999987  2345677


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHccC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH-hHHHHH-----
Q 038303          248 VGNAVINMYVKCGDVGIAIQVFNMLAY---KDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDD-VTFIAL-----  318 (461)
Q Consensus       248 ~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~l-----  318 (461)
                      ++..+..+|.+.|++++|...|+++.+   .+..+|..+...+...|++++|...++++.+.  .|+. ..+..+     
T Consensus       179 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~~~~~~~  256 (450)
T 2y4t_A          179 LRELRAECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHELSLSEVRECLKL--DQDHKRCFAHYKQVKK  256 (450)
T ss_dssp             HHHHHHHHHHHTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCChHHHHHHHHHHHH
Confidence            889999999999999999999998863   47889999999999999999999999999875  4444 344443     


Q ss_pred             -------HHHHHcCCChHHHHHHHHHhHhhcCCCCC-----cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHH
Q 038303          319 -------ISACSHGGLVDQGLILFKAMSTVYEIVPQ-----MQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWG  384 (461)
Q Consensus       319 -------l~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~  384 (461)
                             ...|...|++++|...|+.+.+.   .|+     ...+..+..++.+.|++++|...++++ ...| +...|.
T Consensus       257 ~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~---~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~  333 (450)
T 2y4t_A          257 LNKLIESAEELIRDGRYTDATSKYESVMKT---EPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQMEPDNVNALK  333 (450)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHH
Confidence                   77899999999999999999872   243     457888999999999999999999998 4344 577889


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHH------------HHhccC-----ChhhHHHHHHHH
Q 038303          385 ALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSN------------TFAGAD-----RWEDTNKIRDEI  440 (461)
Q Consensus       385 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~------------~~~~~g-----~~~~A~~~~~~m  440 (461)
                      .+..+|...|++++|...++++.+..|.++.++..+..            .|...|     +.+++.+.++++
T Consensus       334 ~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~~~y~~lg~~~~~~~~~~~~~y~~~  406 (450)
T 2y4t_A          334 DRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRLLKQSQKRDYYKILGVKRNAKKQEIIKAYRKL  406 (450)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHHHSCCSGGGSCSSTTCCTTHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHhhcccchhHHHHhCCCccCCHHHHHHHHHHH
Confidence            99999999999999999999999999999999999884            355555     556777777764

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.92  E-value=2.2e-22  Score=192.13  Aligned_cols=407  Identities=7%  Similarity=-0.115  Sum_probs=283.9

Q ss_pred             CCCcchHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhC---CCCCceeHHHHH
Q 038303            7 SYNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSV---VFPDVVSWTTII   83 (461)
Q Consensus         7 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~~~~~~~~li   83 (461)
                      .||...|..+..++...|++++|...++.+.+.++ .+..+|..+..++.+.|++++|...|+++   .+++......++
T Consensus        36 ~p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  114 (514)
T 2gw1_A           36 KEDPVFYSNLSACYVSVGDLKKVVEMSTKALELKP-DYSKVLLRRASANEGLGKFADAMFDLSVLSLNGDFNDASIEPML  114 (514)
T ss_dssp             CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSCCGGGTHHHH
T ss_pred             CccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccCh-HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCccchHHHHH
Confidence            37888999999999999999999999999999774 36778999999999999999999999988   223444444444


Q ss_pred             HHHHcCCChHHHHHHHhcC---CCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcC---------CCChhHHHHHHH
Q 038303           84 SGLSKCGFHKEAIDMFCGI---DVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLN---------ENNIILDNAILD  151 (461)
Q Consensus        84 ~~~~~~~~~~~a~~~~~~m---~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~---------~~~~~~~~~l~~  151 (461)
                      ..+........+.+.+..+   +..|+...+..-...............+...+.....         +.+...+.....
T Consensus       115 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  194 (514)
T 2gw1_A          115 ERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKPELTFANYDESNEADKELMNGL  194 (514)
T ss_dssp             HHHHHHHHHHHHTTC---------------------------CCCCHHHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHH
Confidence            4444333333332222111   1111111111100000000111111111111111110         112333333333


Q ss_pred             HHHH---cCChhhHHHHHhcCCC-----------------CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChh
Q 038303          152 FYIR---CGSLASCGYLFVKMPK-----------------RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEA  211 (461)
Q Consensus       152 ~~~~---~g~~~~a~~~~~~~~~-----------------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~  211 (461)
                      .+..   .|++++|...|+++.+                 .+..+|..+...+...|++++|...|+++.+.   .|+..
T Consensus       195 ~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~---~~~~~  271 (514)
T 2gw1_A          195 SNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIEL---FPRVN  271 (514)
T ss_dssp             HHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHH---CCCHH
T ss_pred             HHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh---CccHH
Confidence            3333   6777777777666533                 13456777888888999999999999998884   34477


Q ss_pred             hHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccC---CChhhHHHHHHHHH
Q 038303          212 TLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAY---KDKISWSTVISGLA  288 (461)
Q Consensus       212 ~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~  288 (461)
                      .+..+...+...|+++.|...++.+.+  ..+.+..++..+...+...|++++|...++++.+   .+...+..+...+.
T Consensus       272 ~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  349 (514)
T 2gw1_A          272 SYIYMALIMADRNDSTEYYNYFDKALK--LDSNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELDPENIFPYIQLACLAY  349 (514)
T ss_dssp             HHHHHHHHHHTSSCCTTGGGHHHHHHT--TCTTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTCSSCSHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHhh--cCcCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhChhhHHHHHHHHHHHH
Confidence            788888888899999999999988877  3344566788899999999999999999988752   35678888999999


Q ss_pred             hcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCC----cchHHHHHHHHhh---c
Q 038303          289 MNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQ----MQHYACVVDMYGR---A  361 (461)
Q Consensus       289 ~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~---~  361 (461)
                      ..|++++|...++++.+.. +.+...+..+...+...|++++|...++.+.....-.++    ...+..+...+..   .
T Consensus       350 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  428 (514)
T 2gw1_A          350 RENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTV  428 (514)
T ss_dssp             TTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCT
T ss_pred             HcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhc
Confidence            9999999999999998753 225578888899999999999999999988773222222    3388889999999   9


Q ss_pred             CCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHH
Q 038303          362 GLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALM  420 (461)
Q Consensus       362 g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l  420 (461)
                      |++++|...++++ ...| +...+..+...+...|++++|...++++.+..|.++..+..+
T Consensus       429 ~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~  489 (514)
T 2gw1_A          429 ENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLFEESADLARTMEEKLQAI  489 (514)
T ss_dssp             THHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhccccHHHHHHH
Confidence            9999999999988 3333 456777888889999999999999999999998888777655

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.90  E-value=2.8e-21  Score=185.58  Aligned_cols=397  Identities=9%  Similarity=-0.028  Sum_probs=287.0

Q ss_pred             CCcchHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCceeHHHHHHHHH
Q 038303            8 YNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWTTIISGLS   87 (461)
Q Consensus         8 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~   87 (461)
                      .+...+..+..++...|++++|++.++.+.+.++ .+..++..+..++...|++++|...|+.+ ..++...+..+..+.
T Consensus        57 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~~  134 (537)
T 3fp2_A           57 NEPVFYSNISACYISTGDLEKVIEFTTKALEIKP-DHSKALLRRASANESLGNFTDAMFDLSVL-SLNGDFDGASIEPML  134 (537)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHH-C-----------CHH
T ss_pred             CCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-chHHHHHHHHHHHHHcCCHHHHHHHHHHH-hcCCCCChHHHHHHH
Confidence            3667788999999999999999999999999874 36788899999999999999999999744 323333333455555


Q ss_pred             cCCChHHHHHHHhcC-CC--------CCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCC-hhHHHHHHHHHH---
Q 038303           88 KCGFHKEAIDMFCGI-DV--------KPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENN-IILDNAILDFYI---  154 (461)
Q Consensus        88 ~~~~~~~a~~~~~~m-~~--------~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~---  154 (461)
                      ..+...+|+..++++ +.        .|+......    +....+.+.+...+.....  ..+. ......+...+.   
T Consensus       135 ~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~  208 (537)
T 3fp2_A          135 ERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLAS----FFGIFDSHLEVSSVNTSSN--YDTAYALLSDALQRLYSATD  208 (537)
T ss_dssp             HHHHHHHHHHHHHHHCC-------CCCCCHHHHHH----HHHTSCHHHHHHTSCCCCS--SCSSHHHHHHHHHHHHTCSH
T ss_pred             HHHHHHHHHHHHHHHHHhCccccccccchHhHHHH----HHHhcChHHHHHHHhhccc--cccHHHHHHHHHHHHHHhhh
Confidence            666678888888877 22        233333332    2223333332222111111  1111 112222222221   


Q ss_pred             -----HcCChhhHHHHHhcCCC--Cc--------hhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHH
Q 038303          155 -----RCGSLASCGYLFVKMPK--RN--------VVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSA  219 (461)
Q Consensus       155 -----~~g~~~~a~~~~~~~~~--~~--------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~  219 (461)
                           ..|++++|..+|+++.+  |+        ..+|..+...+...|++++|...|++..+   ..|+...+..+...
T Consensus       209 ~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~~~l~~~  285 (537)
T 3fp2_A          209 EGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESIN---LHPTPNSYIFLALT  285 (537)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCCCHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHh---cCCCchHHHHHHHH
Confidence                 22578888888888765  33        23567777888999999999999999998   55668888889999


Q ss_pred             hhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccC---CChhhHHHHHHHHHhcCChHHH
Q 038303          220 CSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAY---KDKISWSTVISGLAMNGCGRQA  296 (461)
Q Consensus       220 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a  296 (461)
                      +...|+++.|...++.+.+.  .+.+..++..+...+...|++++|...|+++.+   .+...|..+...+...|++++|
T Consensus       286 ~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A  363 (537)
T 3fp2_A          286 LADKENSQEFFKFFQKAVDL--NPEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNPENVYPYIQLACLLYKQGKFTES  363 (537)
T ss_dssp             TCCSSCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCSHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhcCHHHHHHHHHHHhcc--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            99999999999999999872  334567789999999999999999999998763   3567899999999999999999


Q ss_pred             HHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCC----cchHHHHHHHHhhc----------C
Q 038303          297 LQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQ----MQHYACVVDMYGRA----------G  362 (461)
Q Consensus       297 ~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~----------g  362 (461)
                      ...++++.+.. +.+...+..+...+...|++++|...|+.+.+...-.++    ...+..+...+.+.          |
T Consensus       364 ~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  442 (537)
T 3fp2_A          364 EAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEE  442 (537)
T ss_dssp             HHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHH
T ss_pred             HHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHh
Confidence            99999998864 234578888999999999999999999998763211121    12234455677777          9


Q ss_pred             CHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHH
Q 038303          363 LLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFA  418 (461)
Q Consensus       363 ~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  418 (461)
                      ++++|...++++ ...| +...+..+...+...|++++|...++++.+..|.+.....
T Consensus       443 ~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  500 (537)
T 3fp2_A          443 KFNAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAILARTMDEKLQ  500 (537)
T ss_dssp             HHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHH
Confidence            999999999998 3333 4567888888899999999999999999998887766544

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.88  E-value=7.2e-20  Score=166.04  Aligned_cols=305  Identities=9%  Similarity=-0.029  Sum_probs=149.7

Q ss_pred             hhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCCC---CchhHHHHHHHHHH
Q 038303          109 NTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPK---RNVVSWTTMIGGYA  185 (461)
Q Consensus       109 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~  185 (461)
                      ..+..+...+...|++++|...++.+.+..+. +..++..+...+...|++++|...|+++.+   .+...|..+...+.
T Consensus         4 ~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~   82 (359)
T 3ieg_A            4 EKHLELGKKLLAAGQLADALSQFHAAVDGDPD-NYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHLLL   82 (359)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHHHH
Confidence            34555556666667777777777766665443 556666677777777777777777766653   24566777777777


Q ss_pred             hcCChHHHHHHHHHHHhcCCCCC----ChhhHHHH------------HHHhhccchhhhHHHHHHHHHhhcCCCCcchHH
Q 038303          186 ERGFCKEAVSVFQEMEKTKEAEP----NEATLVNV------------LSACSSISALSFGKYVHSYISTRYDLSVSNLVG  249 (461)
Q Consensus       186 ~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~~~------------l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  249 (461)
                      ..|++++|...|++..+   ..|    +...+..+            ...+...|+++.|...++.+.+  ..+.+...+
T Consensus        83 ~~~~~~~A~~~~~~~~~---~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~  157 (359)
T 3ieg_A           83 KQGKLDEAEDDFKKVLK---SNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILE--VCVWDAELR  157 (359)
T ss_dssp             HHTCHHHHHHHHHHHHT---SCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHH
T ss_pred             HcCChHHHHHHHHHHHh---cCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHH--hCCCchHHH
Confidence            77777777777777776   334    22222222            2333444444444444444433  112223334


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHccC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH-hHHH---------
Q 038303          250 NAVINMYVKCGDVGIAIQVFNMLAY---KDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDD-VTFI---------  316 (461)
Q Consensus       250 ~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~---------  316 (461)
                      ..+...+...|++++|...++.+.+   .+...+..+...+...|++++|...+++..+..  |+. ..+.         
T Consensus       158 ~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~  235 (359)
T 3ieg_A          158 ELRAECFIKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD--QDHKRCFAHYKQVKKLN  235 (359)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--ccchHHHHHHHHHHHHH
Confidence            4444444455555555555444432   133444444444555555555555555544421  111 1111         


Q ss_pred             ---HHHHHHHcCCChHHHHHHHHHhHhhcCCCCCc----chHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHH
Q 038303          317 ---ALISACSHGGLVDQGLILFKAMSTVYEIVPQM----QHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALL  387 (461)
Q Consensus       317 ---~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~  387 (461)
                         .+...+...|++++|...++.+.+..  +.+.    ..+..+..++.+.|++++|...+++. ...| +...+..+.
T Consensus       236 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~  313 (359)
T 3ieg_A          236 KLIESAEELIRDGRYTDATSKYESVMKTE--PSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQMEPDNVNALKDRA  313 (359)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccHHHHHHHH
Confidence               11233444455555555544444411  1111    11223344444444444444444444 1112 233444444


Q ss_pred             HHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHH
Q 038303          388 NACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNT  423 (461)
Q Consensus       388 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  423 (461)
                      ..+...|++++|...++++.+..|.+..++..+..+
T Consensus       314 ~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~  349 (359)
T 3ieg_A          314 EAYLIEEMYDEAIQDYEAAQEHNENDQQIREGLEKA  349 (359)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCChHHHHHHHHH
Confidence            444444555555555555444444444444444443

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.88  E-value=1.7e-19  Score=163.66  Aligned_cols=295  Identities=9%  Similarity=0.003  Sum_probs=246.5

Q ss_pred             ChhHHHHHHHHHHHcCChhhHHHHHhcCCC---CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHH
Q 038303          142 NIILDNAILDFYIRCGSLASCGYLFVKMPK---RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLS  218 (461)
Q Consensus       142 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~  218 (461)
                      +...+..+...+...|++++|...|+++.+   .+..+|..+..++...|++++|...++++.+.  .+.+...+..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIAL--KMDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCcchHHHHHHH
Confidence            455677888999999999999999998864   45778999999999999999999999999985  3446788889999


Q ss_pred             HhhccchhhhHHHHHHHHHhhcCCCC----cchHHHHH------------HHHHHhcCCHHHHHHHHHHccC---CChhh
Q 038303          219 ACSSISALSFGKYVHSYISTRYDLSV----SNLVGNAV------------INMYVKCGDVGIAIQVFNMLAY---KDKIS  279 (461)
Q Consensus       219 ~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~~l------------i~~~~~~g~~~~a~~~~~~~~~---~~~~~  279 (461)
                      .+...|+++.|...++.+.+   ..|    +...+..+            ...+...|++++|.+.++++.+   .+...
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~---~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~  156 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLK---SNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVCVWDAEL  156 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHT---SCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             HHHHcCChHHHHHHHHHHHh---cCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCchHH
Confidence            99999999999999999976   233    34444444            5788999999999999998763   36778


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHH-------
Q 038303          280 WSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYA-------  352 (461)
Q Consensus       280 ~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-------  352 (461)
                      +..+...+...|++++|...+++..+.. +.+..++..+...+...|++++|...++...+.  .+.+...+.       
T Consensus       157 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~  233 (359)
T 3ieg_A          157 RELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKL--DQDHKRCFAHYKQVKK  233 (359)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CccchHHHHHHHHHHH
Confidence            8999999999999999999999999863 336688899999999999999999999999872  223333332       


Q ss_pred             -----HHHHHHhhcCCHHHHHHHHHhC-CCCchhh-----HHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHH
Q 038303          353 -----CVVDMYGRAGLLEEAEAFIREM-PIEAEWS-----VWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMS  421 (461)
Q Consensus       353 -----~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~-----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~  421 (461)
                           .+...+.+.|++++|...++++ ...|+..     .+..+...+...|++++|...++++.+..|.++.++..++
T Consensus       234 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~  313 (359)
T 3ieg_A          234 LNKLIESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQMEPDNVNALKDRA  313 (359)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccHHHHHHHH
Confidence                 2366789999999999999988 3333322     3445667799999999999999999999999999999999


Q ss_pred             HHHhccCChhhHHHHHHHHHHcC
Q 038303          422 NTFAGADRWEDTNKIRDEIRRMG  444 (461)
Q Consensus       422 ~~~~~~g~~~~A~~~~~~m~~~g  444 (461)
                      .++.+.|++++|.+.+++..+..
T Consensus       314 ~~~~~~g~~~~A~~~~~~a~~~~  336 (359)
T 3ieg_A          314 EAYLIEEMYDEAIQDYEAAQEHN  336 (359)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcC
Confidence            99999999999999999998754

>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=99.86  E-value=4.3e-19  Score=159.03  Aligned_cols=285  Identities=10%  Similarity=-0.029  Sum_probs=188.8

Q ss_pred             ChhHHHHHHHHHHHcCChhhHHHHHhcCCC---CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHH
Q 038303          142 NIILDNAILDFYIRCGSLASCGYLFVKMPK---RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLS  218 (461)
Q Consensus       142 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~  218 (461)
                      +...+..+...+...|++++|..+|+++.+   .+...+..++.++...|++++|..+++++.+.  .+.+...+..+..
T Consensus        21 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~   98 (330)
T 3hym_B           21 NLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPFHASCLPVHIGTLVELNKANELFYLSHKLVDL--YPSNPVSWFAVGC   98 (330)
T ss_dssp             CCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTSTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHh--CcCCHHHHHHHHH
Confidence            333444444445555555555555554432   23334444455555555556666555555553  2334445555555


Q ss_pred             Hhhccc-hhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccC---CChhhHHHHHHHHHhcCChH
Q 038303          219 ACSSIS-ALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAY---KDKISWSTVISGLAMNGCGR  294 (461)
Q Consensus       219 ~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~  294 (461)
                      .+...| +++.|...++...+  -.+.+...+..+...+...|++++|...++++.+   .+...+..+...+...|+++
T Consensus        99 ~~~~~~~~~~~A~~~~~~a~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~  176 (330)
T 3hym_B           99 YYLMVGHKNEHARRYLSKATT--LEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTNNSK  176 (330)
T ss_dssp             HHHHSCSCHHHHHHHHHHHHT--TCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhhhhHHHHHHHHHHHHH--hCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhhHH
Confidence            555555 55555555555544  1222345566777777777777777777776652   24566777778888888888


Q ss_pred             HHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcC-------CCCCcchHHHHHHHHhhcCCHHHH
Q 038303          295 QALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYE-------IVPQMQHYACVVDMYGRAGLLEEA  367 (461)
Q Consensus       295 ~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-------~~~~~~~~~~l~~~~~~~g~~~~A  367 (461)
                      +|.+.+++..+.. +.+...+..+...+...|++++|...++...+...       .+.....+..+...+.+.|++++|
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            8888888887753 23457777888888888888888888888766221       134456888888889999999999


Q ss_pred             HHHHHhC-CCC-chhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHH-hccCChh
Q 038303          368 EAFIREM-PIE-AEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTF-AGADRWE  431 (461)
Q Consensus       368 ~~~~~~~-~~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~~~  431 (461)
                      ...+++. ... .+...+..+...+...|++++|...++++.+..|.++.++..++.++ ...|+.+
T Consensus       256 ~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          256 LDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTFSVTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             HHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSCCHHHHHHHHHHHHTTTTC--
T ss_pred             HHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCCchHHHHHHHHHHHHHhCchh
Confidence            9988887 222 34567777888888999999999999999998898999999999888 4556543

>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=99.84  E-value=2.6e-19  Score=163.14  Aligned_cols=281  Identities=9%  Similarity=-0.083  Sum_probs=218.0

Q ss_pred             HHcCChhhHHH-HHhcCCC-----C--chhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccch
Q 038303          154 IRCGSLASCGY-LFVKMPK-----R--NVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISA  225 (461)
Q Consensus       154 ~~~g~~~~a~~-~~~~~~~-----~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~  225 (461)
                      .-.|++++|.. .|++..+     |  +...+..+...+.+.|++++|...|+++.+.  .+.+...+..+..++...|+
T Consensus        36 ~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~  113 (368)
T 1fch_A           36 PWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQ--DPKHMEAWQYLGTTQAENEQ  113 (368)
T ss_dssp             ----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCcC
Confidence            34477888887 7776553     1  3456778888888899999999999998875  45566778888888888899


Q ss_pred             hhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCC---ChhhHHH---------------HHHHH
Q 038303          226 LSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYK---DKISWST---------------VISGL  287 (461)
Q Consensus       226 ~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~---------------l~~~~  287 (461)
                      ++.|...++.+.+.  .+.+..++..+...|...|++++|...++++...   +...+..               .+..+
T Consensus       114 ~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  191 (368)
T 1fch_A          114 ELLAISALRRCLEL--KPDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSL  191 (368)
T ss_dssp             HHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHH
T ss_pred             HHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHH
Confidence            99999998888772  2345667888888999999999999999887632   2222211               23334


Q ss_pred             HhcCChHHHHHHHHHHHhcCCCC-CHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHH
Q 038303          288 AMNGCGRQALQLFSLMIINAVFP-DDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEE  366 (461)
Q Consensus       288 ~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  366 (461)
                      ...|++++|...++++.+..... +..++..+...+...|++++|...++++...  .+.+...+..+...+.+.|++++
T Consensus       192 ~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~~~~  269 (368)
T 1fch_A          192 LSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQSEE  269 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             hhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHcCCHHH
Confidence            48899999999999998864322 4788899999999999999999999999872  34557889999999999999999


Q ss_pred             HHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCC-----------hhHHHHHHHHHhccCChhhH
Q 038303          367 AEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVS-----------VGTFALMSNTFAGADRWEDT  433 (461)
Q Consensus       367 A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----------~~~~~~l~~~~~~~g~~~~A  433 (461)
                      |...++++ ...| +...+..+...+...|++++|...++++.+..|.+           ..+|..++.+|...|++++|
T Consensus       270 A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  349 (368)
T 1fch_A          270 AVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAY  349 (368)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGH
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhH
Confidence            99999998 3334 46678888889999999999999999999877666           78999999999999999999


Q ss_pred             HHHHHHH
Q 038303          434 NKIRDEI  440 (461)
Q Consensus       434 ~~~~~~m  440 (461)
                      ..++++.
T Consensus       350 ~~~~~~~  356 (368)
T 1fch_A          350 GAADARD  356 (368)
T ss_dssp             HHHHTTC
T ss_pred             HHhHHHH
Confidence            9988643

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.84  E-value=2.8e-17  Score=157.19  Aligned_cols=410  Identities=9%  Similarity=-0.025  Sum_probs=252.6

Q ss_pred             CcchHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCC--CCceeHHHHHHHH
Q 038303            9 NHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVF--PDVVSWTTIISGL   86 (461)
Q Consensus         9 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~li~~~   86 (461)
                      |...|..++. +.+.|++++|..+|+.+.+.. +.+...|...+..+.+.|++++|.++|++.+.  |++..|...+...
T Consensus        12 ~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~~-P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~p~~~lw~~~~~~~   89 (530)
T 2ooe_A           12 DLDAWSILIR-EAQNQPIDKARKTYERLVAQF-PSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKVLHIDLWKCYLSYV   89 (530)
T ss_dssp             CHHHHHHHHH-HHHSSCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTCCCHHHHHHHHHHH
T ss_pred             CHHHHHHHHH-HHHhCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCChHHHHHHHHHH
Confidence            4445666666 356677777777777776643 23555677777777777777777777777633  4555555444322


Q ss_pred             -HcCCChHHHHH----HHhcC----CCCCC-chhHHHHHHHhcc---------cchhHHHHHHHHHHHhhcCCCChhHHH
Q 038303           87 -SKCGFHKEAID----MFCGI----DVKPN-ANTLVSVLSACSS---------LVSHKLGKAIHAHSLRNLNENNIILDN  147 (461)
Q Consensus        87 -~~~~~~~~a~~----~~~~m----~~~p~-~~~~~~ll~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~  147 (461)
                       ...|+.++|.+    +|+..    |..|+ ...|...+.....         .|+++.|..+|++.++.........|.
T Consensus        90 ~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~~~~~  169 (530)
T 2ooe_A           90 RETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIEQLWR  169 (530)
T ss_dssp             HHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHHHHHH
T ss_pred             HHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHHHHHH
Confidence             23455555443    44443    44443 3344444443322         566666666666666621010112222


Q ss_pred             HHHHHHHHcCChhhHHHHHhcCCCCchhHHHHHHHHHHhcCChHHHHHHHHHH------HhcC--CCCCCh--------h
Q 038303          148 AILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEM------EKTK--EAEPNE--------A  211 (461)
Q Consensus       148 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m------~~~~--~~~~~~--------~  211 (461)
                      .........|. ..+..++.                 ...++++.|..++.+.      .+..  .++|+.        .
T Consensus       170 ~~~~~e~~~~~-~~~~~~l~-----------------~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~  231 (530)
T 2ooe_A          170 DYNKYEEGINI-HLAKKMIE-----------------DRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVD  231 (530)
T ss_dssp             HHHHHHHHHCH-HHHHHHHH-----------------TTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHH
T ss_pred             HHHHHHHhhch-hHHHHHHH-----------------HhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHH
Confidence            22211111110 00111110                 1234556666666552      1111  023331        2


Q ss_pred             hHHHHHHHhhc----cchh----hhHHHHHHHHHhhcCCCCcchHHHHHHHHHHh-------cCCHH-------HHHHHH
Q 038303          212 TLVNVLSACSS----ISAL----SFGKYVHSYISTRYDLSVSNLVGNAVINMYVK-------CGDVG-------IAIQVF  269 (461)
Q Consensus       212 ~~~~~l~~~~~----~~~~----~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~-------~g~~~-------~a~~~~  269 (461)
                      .|...+.....    .++.    ..+..+|+.....  .+.+..+|..++..+.+       .|+++       +|..+|
T Consensus       232 ~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~--~p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~  309 (530)
T 2ooe_A          232 MWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLV--LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIY  309 (530)
T ss_dssp             HHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHH
Confidence            33333322211    1222    3566778877773  33456677777777765       68887       899999


Q ss_pred             HHccC---C-ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH--hHHHHHHHHHHcCCChHHHHHHHHHhHhhcC
Q 038303          270 NMLAY---K-DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDD--VTFIALISACSHGGLVDQGLILFKAMSTVYE  343 (461)
Q Consensus       270 ~~~~~---~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  343 (461)
                      ++..+   | +...|..++..+.+.|++++|..+|+++.+.  .|+.  ..|..++..+.+.|++++|..+|++..+.  
T Consensus       310 ~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~--  385 (530)
T 2ooe_A          310 ERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED--  385 (530)
T ss_dssp             HHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC--
T ss_pred             HHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--
Confidence            88874   3 4678888999999999999999999999984  4543  47888888888899999999999999872  


Q ss_pred             CCCCcchHHHHHHH-HhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChh----H
Q 038303          344 IVPQMQHYACVVDM-YGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVG----T  416 (461)
Q Consensus       344 ~~~~~~~~~~l~~~-~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~  416 (461)
                      .+.+...|...+.. +...|+.++|..+|++. ...| +...|..++..+.+.|+.+.|..+|+++....|.++.    .
T Consensus       386 ~~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~l  465 (530)
T 2ooe_A          386 ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEI  465 (530)
T ss_dssp             TTCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHH
T ss_pred             cCCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHH
Confidence            22223333322222 33689999999999987 3334 4667888888888999999999999999987655444    7


Q ss_pred             HHHHHHHHhccCChhhHHHHHHHHHHcC
Q 038303          417 FALMSNTFAGADRWEDTNKIRDEIRRMG  444 (461)
Q Consensus       417 ~~~l~~~~~~~g~~~~A~~~~~~m~~~g  444 (461)
                      |...+....+.|+.+.+..+.+++.+.-
T Consensus       466 w~~~~~~e~~~G~~~~~~~~~~r~~~~~  493 (530)
T 2ooe_A          466 WARFLAFESNIGDLASILKVEKRRFTAF  493 (530)
T ss_dssp             HHHHHHHHHHSSCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            8888888888999999999999887654

>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=99.83  E-value=6.9e-18  Score=151.11  Aligned_cols=285  Identities=13%  Similarity=0.007  Sum_probs=182.1

Q ss_pred             CCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCCC---CchhHHHHHHH
Q 038303          106 PNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPK---RNVVSWTTMIG  182 (461)
Q Consensus       106 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~  182 (461)
                      .+...+..+...+...|++++|.++++.+.+..+. +...+..++..+...|++++|..+++++.+   .+...|..+..
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~   98 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPF-HASCLPVHIGTLVELNKANELFYLSHKLVDLYPSNPVSWFAVGC   98 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-ChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHH
Confidence            34444444444555555555555555555544332 333444444555555555555555555432   23445555555


Q ss_pred             HHHhcC-ChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCC
Q 038303          183 GYAERG-FCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGD  261 (461)
Q Consensus       183 ~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  261 (461)
                      .+...| ++++|...|++..+.  .+.+...+..+...+...|+++.|...++.+.+.  .+.+...+..+...|...|+
T Consensus        99 ~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~  174 (330)
T 3hym_B           99 YYLMVGHKNEHARRYLSKATTL--EKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQL--MKGCHLPMLYIGLEYGLTNN  174 (330)
T ss_dssp             HHHHSCSCHHHHHHHHHHHHTT--CTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--TTTCSHHHHHHHHHHHHTTC
T ss_pred             HHHHhhhhHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--ccccHHHHHHHHHHHHHHhh
Confidence            556666 566666666665553  2333445555555566666666666666665551  12234455667777888888


Q ss_pred             HHHHHHHHHHccCC---ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcC--------CCCCHhHHHHHHHHHHcCCChHH
Q 038303          262 VGIAIQVFNMLAYK---DKISWSTVISGLAMNGCGRQALQLFSLMIINA--------VFPDDVTFIALISACSHGGLVDQ  330 (461)
Q Consensus       262 ~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g--------~~p~~~~~~~ll~~~~~~~~~~~  330 (461)
                      +++|...+++..+.   +...+..+...+...|++++|...+++..+..        ......++..+...+...|++++
T Consensus       175 ~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  254 (330)
T 3hym_B          175 SKLAERFFSQALSIAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAE  254 (330)
T ss_dssp             HHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHH
Confidence            88888888777642   55678888888888999999999888887642        12335688888889999999999


Q ss_pred             HHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHH-HhcCChH
Q 038303          331 GLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNAC-RIHRNDE  397 (461)
Q Consensus       331 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~-~~~~~~~  397 (461)
                      |...+++..+.  .+.+...+..+...+.+.|++++|.+.+++. ...| +...+..+..++ ...|+.+
T Consensus       255 A~~~~~~a~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          255 ALDYHRQALVL--IPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTFSVTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             HHHHHHHHHHH--STTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSCCHHHHHHHHHHHHTTTTC--
T ss_pred             HHHHHHHHHhh--CccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCCchHHHHHHHHHHHHHhCchh
Confidence            99999988872  3456778888999999999999999999988 5555 444566666665 4555543

>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=99.83  E-value=1.1e-18  Score=159.02  Aligned_cols=280  Identities=8%  Similarity=-0.021  Sum_probs=153.8

Q ss_pred             cCCChHHHHH-HHhcC-CCCC-----CchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChh
Q 038303           88 KCGFHKEAID-MFCGI-DVKP-----NANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLA  160 (461)
Q Consensus        88 ~~~~~~~a~~-~~~~m-~~~p-----~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  160 (461)
                      ..|++++|++ .|++. ...|     +...+..+...+...|++++|...++.+++..+. +..++..+...+.+.|+++
T Consensus        37 ~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~  115 (368)
T 1fch_A           37 WLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDPK-HMEAWQYLGTTQAENEQEL  115 (368)
T ss_dssp             ---------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCcCHH
Confidence            3467777777 77765 3333     3455677777788888888888888888776544 6677788888888888888


Q ss_pred             hHHHHHhcCCC---CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChh-hHHH---------------HHHHhh
Q 038303          161 SCGYLFVKMPK---RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEA-TLVN---------------VLSACS  221 (461)
Q Consensus       161 ~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~-~~~~---------------~l~~~~  221 (461)
                      +|...|+++.+   .+..++..+...+...|++++|...++++.+.   .|+.. .+..               .+..+.
T Consensus       116 ~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  192 (368)
T 1fch_A          116 LAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRY---TPAYAHLVTPAEEGAGGAGLGPSKRILGSLL  192 (368)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---STTTGGGCC---------------CTTHHHH
T ss_pred             HHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CcCcHHHHHHHHHHhhhhcccHHHHHHHHHh
Confidence            88888887653   46678888888899999999999999998874   23322 2211               111122


Q ss_pred             ccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCCChhhHHHHHHHHHhcCChHHHHHHHH
Q 038303          222 SISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFS  301 (461)
Q Consensus       222 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  301 (461)
                      ..|+++.|...++.+.+.....++.                               .++..+...+...|++++|...++
T Consensus       193 ~~~~~~~A~~~~~~a~~~~p~~~~~-------------------------------~~~~~l~~~~~~~g~~~~A~~~~~  241 (368)
T 1fch_A          193 SDSLFLEVKELFLAAVRLDPTSIDP-------------------------------DVQCGLGVLFNLSGEYDKAVDCFT  241 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHHSTTSCCH-------------------------------HHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             hcccHHHHHHHHHHHHHhCcCcccH-------------------------------HHHHHHHHHHHHcCCHHHHHHHHH
Confidence            4444444444444444321111123                               344444555555555555555555


Q ss_pred             HHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCch-
Q 038303          302 LMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAE-  379 (461)
Q Consensus       302 ~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-  379 (461)
                      ++.+.. +.+..++..+...+...|++++|...|+++.+.  .+.+...+..+..+|.+.|++++|...++++ ...|+ 
T Consensus       242 ~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~  318 (368)
T 1fch_A          242 AALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALEL--QPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKS  318 (368)
T ss_dssp             HHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            544431 112344555555555555555555555555441  1233444555555555555555555555544 11111 


Q ss_pred             -----------hhHHHHHHHHHHhcCChHHHHHHHHH
Q 038303          380 -----------WSVWGALLNACRIHRNDEMFDRIRQD  405 (461)
Q Consensus       380 -----------~~~~~~l~~~~~~~~~~~~a~~~~~~  405 (461)
                                 ..+|..+..++...|+.++|..++++
T Consensus       319 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  355 (368)
T 1fch_A          319 RGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADAR  355 (368)
T ss_dssp             ------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTT
T ss_pred             CCccccccchhhHHHHHHHHHHHHhCChHhHHHhHHH
Confidence                       23455555555555555555555543

>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=99.83  E-value=7.6e-19  Score=156.97  Aligned_cols=219  Identities=12%  Similarity=0.053  Sum_probs=55.4

Q ss_pred             hhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCceeHHHHHHHHHcCCChHHHHHHHhc
Q 038303           22 LAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWTTIISGLSKCGFHKEAIDMFCG  101 (461)
Q Consensus        22 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  101 (461)
                      +.|++++|.++++.+      +++.+|..|..++.+.|++++|.+.|.+.  +|..+|..++.++...|++++|++.++.
T Consensus        15 ~~~~ld~A~~fae~~------~~~~vWs~La~A~l~~g~~~eAIdsfika--~D~~~y~~V~~~ae~~g~~EeAi~yl~~   86 (449)
T 1b89_A           15 HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAIDSYIKA--DDPSSYMEVVQAANTSGNWEELVKYLQM   86 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhC------CChHHHHHHHHHHHHcCCHHHHHHHHHcC--CCHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            344455555555555      12235556666666666666666665442  4444555555555556666666664443


Q ss_pred             C-CCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCCCCchhHHHHH
Q 038303          102 I-DVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTM  180 (461)
Q Consensus       102 m-~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l  180 (461)
                      . ...+++.+.+.++.++.+.|+++++.++++       .|+..+|+.+...|...|++++|..+|..+     ..|..+
T Consensus        87 ark~~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a-----~n~~~L  154 (449)
T 1b89_A           87 ARKKARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV-----SNFGRL  154 (449)
T ss_dssp             ----------------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT-----TCHHHH
T ss_pred             HHHhCccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh-----hhHHHH
Confidence            3 333344555555556666666555555543       244445555666666666666666666555     255556


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcC
Q 038303          181 IGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCG  260 (461)
Q Consensus       181 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  260 (461)
                      +.++.+.|++++|.+.+.++       .+..+|..++.+|...|+++.|......+      ...+.....++..|.+.|
T Consensus       155 A~~L~~Lg~yq~AVea~~KA-------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L------~~~ad~l~~lv~~Yek~G  221 (449)
T 1b89_A          155 ASTLVHLGEYQAAVDGARKA-------NSTRTWKEVCFACVDGKEFRLAQMCGLHI------VVHADELEELINYYQDRG  221 (449)
T ss_dssp             HHHHHTTTCHHHHHHHHHHH-------TCHHHHHHHHHHHHHTTCHHHHHHTTTTT------TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHhccHHHHHHHHHHc-------CCchhHHHHHHHHHHcCcHHHHHHHHHHH------HhCHhhHHHHHHHHHHCC
Confidence            66666666666666655555       13455555555555555555553322211      111122233445555555


Q ss_pred             CHHHHHHHHHHcc
Q 038303          261 DVGIAIQVFNMLA  273 (461)
Q Consensus       261 ~~~~a~~~~~~~~  273 (461)
                      ++++|..+++...
T Consensus       222 ~~eEai~lLe~aL  234 (449)
T 1b89_A          222 YFEELITMLEAAL  234 (449)
T ss_dssp             CHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHh
Confidence            5555555554443

>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=99.83  E-value=1.5e-16  Score=158.48  Aligned_cols=383  Identities=13%  Similarity=0.085  Sum_probs=291.0

Q ss_pred             CcchHHHHHHHHHhhCCHHHHHHHHHHHHHhCC--CccHHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCceeHHHHHHHH
Q 038303            9 NHYTFTQALKACSLAHPHQKALEIHAHVIEYGH--LHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWTTIISGL   86 (461)
Q Consensus         9 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~   86 (461)
                      |+.--...+++|...|.+.+|+++++...-.+-  .-+....+.++....+. +..+..+..++...-+   ...+...+
T Consensus       984 ~PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~d---~~eIA~Ia 1059 (1630)
T 1xi4_A          984 DPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNYD---APDIANIA 1059 (1630)
T ss_pred             CHHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhcc---HHHHHHHH
Confidence            334456778889999999999999999984321  13345666677666665 4555566555554222   45577888


Q ss_pred             HcCCChHHHHHHHhcCCCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHH
Q 038303           87 SKCGFHKEAIDMFCGIDVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLF  166 (461)
Q Consensus        87 ~~~~~~~~a~~~~~~m~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  166 (461)
                      ...|.+++|..+|++.+.  .....+.++.   ..+++++|.++.++.      -+..+|..+..++.+.|++++|...|
T Consensus      1060 i~lglyEEAf~IYkKa~~--~~~A~~VLie---~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~~kEAIdsY 1128 (1630)
T 1xi4_A         1060 ISNELFEEAFAIFRKFDV--NTSAVQVLIE---HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAIDSY 1128 (1630)
T ss_pred             HhCCCHHHHHHHHHHcCC--HHHHHHHHHH---HHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            899999999999998731  1112233332   668899999988855      25788999999999999999999999


Q ss_pred             hcCCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcc
Q 038303          167 VKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSN  246 (461)
Q Consensus       167 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  246 (461)
                      .+.  .|...|..++.++.+.|++++|.++|....+.   .+++...+.+..+|++.++++....+.    +    .++.
T Consensus      1129 iKA--dD~say~eVa~~~~~lGkyEEAIeyL~mArk~---~~e~~Idt~LafaYAKl~rleele~fI----~----~~n~ 1195 (1630)
T 1xi4_A         1129 IKA--DDPSSYMEVVQAANTSGNWEELVKYLQMARKK---ARESYVETELIFALAKTNRLAELEEFI----N----GPNN 1195 (1630)
T ss_pred             Hhc--CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhh---cccccccHHHHHHHHhhcCHHHHHHHH----h----CCCH
Confidence            776  57788889999999999999999999988774   344444446888899998888544432    2    2344


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHccCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCC
Q 038303          247 LVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGG  326 (461)
Q Consensus       247 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~  326 (461)
                      ..+..+...|...|++++|..+|...     ..|..+...+++.|++++|.+.+++.      .+..+|..+-.+|...|
T Consensus      1196 ad~~~iGd~le~eg~YeeA~~~Y~kA-----~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve~~ 1264 (1630)
T 1xi4_A         1196 AHIQQVGDRCYDEKMYDAAKLLYNNV-----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGK 1264 (1630)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHhh-----hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhhhh
Confidence            56667999999999999999999986     58999999999999999999999987      36688999999999999


Q ss_pred             ChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHH--hcCChHHHHHH
Q 038303          327 LVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACR--IHRNDEMFDRI  402 (461)
Q Consensus       327 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~--~~~~~~~a~~~  402 (461)
                      ++..|......      +..++..+..++..|.+.|.+++|+.+++.. +..| ....|+-+...++  +-++..++.++
T Consensus      1265 Ef~LA~~cgl~------Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiLyaKy~peklmEhlk~ 1338 (1630)
T 1xi4_A         1265 EFRLAQMCGLH------IVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLEL 1338 (1630)
T ss_pred             HHHHHHHHHHh------hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            99999887643      3356667789999999999999999999877 4443 3335555555544  44566666666


Q ss_pred             HHHHhhcCC-----CChhHHHHHHHHHhccCChhhHHHH
Q 038303          403 RQDLVNKKG-----VSVGTFALMSNTFAGADRWEDTNKI  436 (461)
Q Consensus       403 ~~~~~~~~~-----~~~~~~~~l~~~~~~~g~~~~A~~~  436 (461)
                      |..-....|     .+...|..++..|.+.|+++.|...
T Consensus      1339 f~~rini~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~t 1377 (1630)
T 1xi4_A         1339 FWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIIT 1377 (1630)
T ss_pred             HHHhcccchHhHHHHHHHHHHHHHHHHHhcccHHHHHHH
Confidence            665544333     4678899999999999999999843

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.82  E-value=5.3e-17  Score=153.69  Aligned_cols=389  Identities=9%  Similarity=-0.042  Sum_probs=297.7

Q ss_pred             HHHHHHHHHHhCCCccHHHHHHHHHHHHh----cCCHHHHHHHHhhCC-CCCceeHHHHHHHHHc----CCChHHHHHHH
Q 038303           29 ALEIHAHVIEYGHLHDIFIQNSLLHFYVT----VKDIFSAHQIFNSVV-FPDVVSWTTIISGLSK----CGFHKEAIDMF   99 (461)
Q Consensus        29 a~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~-~~~~~~~~~li~~~~~----~~~~~~a~~~~   99 (461)
                      +...+....+.|   ++..+..+-..|..    .+++++|...|++.. ..++..+..|...|..    .+++++|++.|
T Consensus        26 ~~~~~~~~a~~g---~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~  102 (490)
T 2xm6_A           26 NLEQLKQKAESG---EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQGYTPAEYVLGLRYMNGEGVPQDYAQAVIWY  102 (490)
T ss_dssp             CHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHH
T ss_pred             HHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHH
Confidence            445555555543   66677777777777    799999999998873 3567788888888888    89999999999


Q ss_pred             hcCCCCCCchhHHHHHHHhcc----cchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHH----cCChhhHHHHHhcCCC
Q 038303          100 CGIDVKPNANTLVSVLSACSS----LVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIR----CGSLASCGYLFVKMPK  171 (461)
Q Consensus       100 ~~m~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~  171 (461)
                      ++.--..+...+..+...+..    .+++++|...|+...+.|   +...+..+...|..    .++.++|..+|++..+
T Consensus       103 ~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~  179 (490)
T 2xm6_A          103 KKAALKGLPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAE  179 (490)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHH
Confidence            988112355666777777776    789999999999998876   56677778888887    7899999999988754


Q ss_pred             -CchhHHHHHHHHHHh----cCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhc----cchhhhHHHHHHHHHhhcCC
Q 038303          172 -RNVVSWTTMIGGYAE----RGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSS----ISALSFGKYVHSYISTRYDL  242 (461)
Q Consensus       172 -~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~----~~~~~~a~~~~~~~~~~~~~  242 (461)
                       .+...+..+...|..    .+++++|..+|++..+.|    +...+..+...+..    .++.++|...++...+ .+ 
T Consensus       180 ~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~----~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~-~~-  253 (490)
T 2xm6_A          180 QGNVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG----DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAE-QG-  253 (490)
T ss_dssp             TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT----CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHT-TT-
T ss_pred             CCCHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC----CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHH-CC-
Confidence             567788888888888    899999999999998764    34556666666664    7889999999998877 33 


Q ss_pred             CCcchHHHHHHHHHHh----cCCHHHHHHHHHHccCC-ChhhHHHHHHHHHhc-----CChHHHHHHHHHHHhcCCCCCH
Q 038303          243 SVSNLVGNAVINMYVK----CGDVGIAIQVFNMLAYK-DKISWSTVISGLAMN-----GCGRQALQLFSLMIINAVFPDD  312 (461)
Q Consensus       243 ~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~-~~~~~~~l~~~~~~~-----~~~~~a~~~~~~m~~~g~~p~~  312 (461)
                        +...+..+...|..    .++.++|..+|++..+. +...+..+...+...     +++++|...+++..+.|   +.
T Consensus       254 --~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~  328 (490)
T 2xm6_A          254 --NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQGNSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DA  328 (490)
T ss_dssp             --CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CH
T ss_pred             --CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CH
Confidence              34566677777877    89999999999887754 667777888888877     89999999999998865   45


Q ss_pred             hHHHHHHHHHHcCC---ChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhh----cCCHHHHHHHHHhCCCCchhhHHHH
Q 038303          313 VTFIALISACSHGG---LVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGR----AGLLEEAEAFIREMPIEAEWSVWGA  385 (461)
Q Consensus       313 ~~~~~ll~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~~  385 (461)
                      ..+..+...|...|   ++++|.+.|++..+ .   .+...+..|...|..    .+++++|.++|++.-...+...+..
T Consensus       329 ~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~-~---~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~~~~a~~~  404 (490)
T 2xm6_A          329 TAQANLGAIYFRLGSEEEHKKAVEWFRKAAA-K---GEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQGLSAAQVQ  404 (490)
T ss_dssp             HHHHHHHHHHHHSCCHHHHHHHHHHHHHHHH-T---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhCCCcccHHHHHHHHHHHHH-C---CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCCCHHHHHH
Confidence            66677777777656   78999999999887 3   456778888888888    8999999999998822335566777


Q ss_pred             HHHHHHh----cCChHHHHHHHHHHhhcCC---CChhHHHHHHHHHhccCChhhHHHHHHHH
Q 038303          386 LLNACRI----HRNDEMFDRIRQDLVNKKG---VSVGTFALMSNTFAGADRWEDTNKIRDEI  440 (461)
Q Consensus       386 l~~~~~~----~~~~~~a~~~~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  440 (461)
                      +...|..    .++.++|...|+++.+..|   .++.....+...+..  +.+.|.+...+.
T Consensus       405 Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~~a~~~l~~~~~~--~~~~a~~~a~~~  464 (490)
T 2xm6_A          405 LGEIYYYGLGVERDYVQAWAWFDTASTNDMNLFGTENRNITEKKLTAK--QLQQAELLSQQY  464 (490)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHHHCCHHHHHHHHHHHTTSCHH--HHHHHHHHHHHH
T ss_pred             HHHHHHcCCCCCCCHHHHHHHHHHHHHCCCCCcCCHHHHHHHHhcCHh--HHHHHHHHHHHH
Confidence            7777777    7999999999999998763   366666666655443  334444444443

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.82  E-value=1.5e-16  Score=152.22  Aligned_cols=372  Identities=8%  Similarity=-0.008  Sum_probs=248.5

Q ss_pred             CcchHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHH-HhcCCHHHHHH----HHhhCC------CCCce
Q 038303            9 NHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFY-VTVKDIFSAHQ----IFNSVV------FPDVV   77 (461)
Q Consensus         9 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~-~~~~~~~~a~~----~~~~~~------~~~~~   77 (461)
                      +...|...+..+.+.|++++|..+|+.+.+..  |+...|...+... ...|+.++|.+    +|+...      .++..
T Consensus        45 ~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~--p~~~lw~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~  122 (530)
T 2ooe_A           45 SGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV--LHIDLWKCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQ  122 (530)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC--CCHHHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHH
T ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CChHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHH
Confidence            45568889999999999999999999999865  5777777777533 35677777665    666541      24556


Q ss_pred             eHHHHHHHHHc---------CCChHHHHHHHhcC-CCCCCc---hhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChh
Q 038303           78 SWTTIISGLSK---------CGFHKEAIDMFCGI-DVKPNA---NTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNII  144 (461)
Q Consensus        78 ~~~~li~~~~~---------~~~~~~a~~~~~~m-~~~p~~---~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  144 (461)
                      .|...+....+         .|+++.|..+|++. . .|+.   ..|..........|. ..+..++.            
T Consensus       123 ~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~-~P~~~~~~~~~~~~~~e~~~~~-~~~~~~l~------------  188 (530)
T 2ooe_A          123 IWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCV-NPMINIEQLWRDYNKYEEGINI-HLAKKMIE------------  188 (530)
T ss_dssp             HHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTT-SCCTTHHHHHHHHHHHHHHHCH-HHHHHHHH------------
T ss_pred             HHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHh-chhhhHHHHHHHHHHHHHhhch-hHHHHHHH------------
Confidence            77777776554         68899999999988 5 3543   222222111000010 00111110            


Q ss_pred             HHHHHHHHHHHcCChhhHHHHHhc-------CC------CCc--------hhHHHHHHHHHHhc----CCh----HHHHH
Q 038303          145 LDNAILDFYIRCGSLASCGYLFVK-------MP------KRN--------VVSWTTMIGGYAER----GFC----KEAVS  195 (461)
Q Consensus       145 ~~~~l~~~~~~~g~~~~a~~~~~~-------~~------~~~--------~~~~~~li~~~~~~----~~~----~~a~~  195 (461)
                               .+.++++.|..++..       +.      .|+        ...|...+......    ++.    +++..
T Consensus       189 ---------~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~  259 (530)
T 2ooe_A          189 ---------DRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMF  259 (530)
T ss_dssp             ---------TTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHH
T ss_pred             ---------HhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHH
Confidence                     011223333332222       11      111        23455544332222    222    37778


Q ss_pred             HHHHHHhcCCCCCChhhHHHHHHHhhc-------cchhh-------hHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCC
Q 038303          196 VFQEMEKTKEAEPNEATLVNVLSACSS-------ISALS-------FGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGD  261 (461)
Q Consensus       196 ~~~~m~~~~~~~~~~~~~~~~l~~~~~-------~~~~~-------~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  261 (461)
                      +|++....  .+.+...|......+.+       .|+++       .|..+++...+ .-.+.+...+..++..+.+.|+
T Consensus       260 ~y~~al~~--~p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~-~~~p~~~~l~~~~~~~~~~~g~  336 (530)
T 2ooe_A          260 AYEQCLLV--LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAIS-TLLKKNMLLYFAYADYEESRMK  336 (530)
T ss_dssp             HHHHHHHH--HTTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTT-TTCSSCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHh--CCCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHH-HhCcccHHHHHHHHHHHHhcCC
Confidence            88888875  45566677777666664       67776       88888888865 1233456788888999999999


Q ss_pred             HHHHHHHHHHccC--C-Ch-hhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHH-HHHcCCChHHHHHHHH
Q 038303          262 VGIAIQVFNMLAY--K-DK-ISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALIS-ACSHGGLVDQGLILFK  336 (461)
Q Consensus       262 ~~~a~~~~~~~~~--~-~~-~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~-~~~~~~~~~~a~~~~~  336 (461)
                      +++|..+|+++.+  | +. ..|...+..+.+.|++++|.++|++..+... .+...|..... .+...|+.++|..+|+
T Consensus       337 ~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~-~~~~~~~~~a~~~~~~~~~~~~A~~~~e  415 (530)
T 2ooe_A          337 YEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFE  415 (530)
T ss_dssp             HHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTT-CCTHHHHHHHHHHHHHTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCccccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccC-CchHHHHHHHHHHHHHcCChhHHHHHHH
Confidence            9999999988763  3 32 4788888888899999999999999987532 22333332222 2346899999999999


Q ss_pred             HhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC----CCCch--hhHHHHHHHHHHhcCChHHHHHHHHHHhhcC
Q 038303          337 AMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM----PIEAE--WSVWGALLNACRIHRNDEMFDRIRQDLVNKK  410 (461)
Q Consensus       337 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  410 (461)
                      ...+.  .+.+...|..++..+.+.|+.++|..+|++.    +..|+  ...|...+......|+.+.+..+.+++.+..
T Consensus       416 ~al~~--~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~~  493 (530)
T 2ooe_A          416 LGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAF  493 (530)
T ss_dssp             HHHHH--HTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHT
T ss_pred             HHHHH--CCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            88873  3446788899999999999999999999988    22332  3377777888888999999999999998866


Q ss_pred             C
Q 038303          411 G  411 (461)
Q Consensus       411 ~  411 (461)
                      |
T Consensus       494 p  494 (530)
T 2ooe_A          494 R  494 (530)
T ss_dssp             H
T ss_pred             c
Confidence            6

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.81  E-value=1.2e-18  Score=158.54  Aligned_cols=261  Identities=8%  Similarity=-0.150  Sum_probs=208.2

Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHH
Q 038303          173 NVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAV  252 (461)
Q Consensus       173 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  252 (461)
                      +...|..+...+.+.|++++|..+|+++.+.  .+.+..++..+...+...|+++.|...++.+.+.  .+.+..++..+
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l  139 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQ--DPGDAEAWQFLGITQAENENEQAAIVALQRCLEL--QPNNLKALMAL  139 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCCHHHHHHH
Confidence            4556888888888999999999999988875  4556778888888888899999999999888772  23456778889


Q ss_pred             HHHHHhcCCHHHHHHHHHHccCCC-------------hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCC-CCHhHHHHH
Q 038303          253 INMYVKCGDVGIAIQVFNMLAYKD-------------KISWSTVISGLAMNGCGRQALQLFSLMIINAVF-PDDVTFIAL  318 (461)
Q Consensus       253 i~~~~~~g~~~~a~~~~~~~~~~~-------------~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~-p~~~~~~~l  318 (461)
                      ...|...|++++|...|+++.+.+             ...+..+...+...|++++|...++++.+.... ++..++..+
T Consensus       140 ~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l  219 (365)
T 4eqf_A          140 AVSYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGL  219 (365)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHH
T ss_pred             HHHHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHH
Confidence            999999999999999998876421             223344578899999999999999999986432 157889999


Q ss_pred             HHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCCh
Q 038303          319 ISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRND  396 (461)
Q Consensus       319 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~  396 (461)
                      ...+...|++++|...|+++.+  ..+.+..++..+..+|.+.|++++|...|+++ ...| +...+..+...|...|++
T Consensus       220 ~~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~  297 (365)
T 4eqf_A          220 GVLFHLSGEFNRAIDAFNAALT--VRPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAY  297 (365)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCH
Confidence            9999999999999999999987  34456789999999999999999999999998 4344 466788888899999999


Q ss_pred             HHHHHHHHHHhhcCCC------------ChhHHHHHHHHHhccCChhhHHHHHHH
Q 038303          397 EMFDRIRQDLVNKKGV------------SVGTFALMSNTFAGADRWEDTNKIRDE  439 (461)
Q Consensus       397 ~~a~~~~~~~~~~~~~------------~~~~~~~l~~~~~~~g~~~~A~~~~~~  439 (461)
                      ++|...++++.+..|.            +..+|..+..++...|+.+.|.++.++
T Consensus       298 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          298 REAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            9999999999985544            367899999999999999998887754

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.81  E-value=3e-18  Score=155.96  Aligned_cols=262  Identities=10%  Similarity=-0.037  Sum_probs=168.2

Q ss_pred             CchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCCC---CchhHHHHHHHH
Q 038303          107 NANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPK---RNVVSWTTMIGG  183 (461)
Q Consensus       107 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~  183 (461)
                      +...+..+...+.+.|++++|...|+.+++..+. +..++..+...+.+.|++++|+..|+++.+   .+..+|..+...
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~  142 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQDPG-DAEAWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAVS  142 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            4556778888888888889999998888887654 678888889999999999999999888764   457788899999


Q ss_pred             HHhcCChHHHHHHHHHHHhcCCCCCCh-hhH----------HHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHH
Q 038303          184 YAERGFCKEAVSVFQEMEKTKEAEPNE-ATL----------VNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAV  252 (461)
Q Consensus       184 ~~~~~~~~~a~~~~~~m~~~~~~~~~~-~~~----------~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  252 (461)
                      |...|++++|...|+++.+.   .|+. ..+          ..+...+...|++++|...++.+.+.....++..++..+
T Consensus       143 ~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l  219 (365)
T 4eqf_A          143 YTNTSHQQDACEALKNWIKQ---NPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGL  219 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---CHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHH
T ss_pred             HHccccHHHHHHHHHHHHHh---CccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHH
Confidence            99999999999999998874   3332 222          223556666777777777777776632222245566666


Q ss_pred             HHHHHhcCCHHHHHHHHHHccC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChH
Q 038303          253 INMYVKCGDVGIAIQVFNMLAY---KDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVD  329 (461)
Q Consensus       253 i~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~  329 (461)
                      ...|...|++++|.+.|+++.+   .+..+|..+..++...|++++|...+++..+... .+..++..+..+|...|+++
T Consensus       220 ~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~  298 (365)
T 4eqf_A          220 GVLFHLSGEFNRAIDAFNAALTVRPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQP-GFIRSRYNLGISCINLGAYR  298 (365)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CchHHHHHHHHHHHHCCCHH
Confidence            6666666666666666666542   2455666666666666666666666666665421 13455666666666666666


Q ss_pred             HHHHHHHHhHhhcCC----------CCCcchHHHHHHHHhhcCCHHHHHHHHHh
Q 038303          330 QGLILFKAMSTVYEI----------VPQMQHYACVVDMYGRAGLLEEAEAFIRE  373 (461)
Q Consensus       330 ~a~~~~~~~~~~~~~----------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  373 (461)
                      +|...|+++.+...-          ..+...|..+..++...|+.+.+.+..++
T Consensus       299 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          299 EAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            666666665541100          00244555555555555555555555443

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.81  E-value=1.6e-17  Score=145.32  Aligned_cols=268  Identities=11%  Similarity=0.002  Sum_probs=191.0

Q ss_pred             HHHcCChhhHHHHHhcCCC--Cc--hhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhh
Q 038303          153 YIRCGSLASCGYLFVKMPK--RN--VVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSF  228 (461)
Q Consensus       153 ~~~~g~~~~a~~~~~~~~~--~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~  228 (461)
                      ....|++++|+..+++...  |+  ......+..+|...|+++.|+..++.    . .+|+..++..+...+...++.+.
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            4445666666666655543  22  12334455666666666666654432    1 44555566666666666666666


Q ss_pred             HHHHHHHHHhhcCCCC-cchHHHHHHHHHHhcCCHHHHHHHHHHccCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 038303          229 GKYVHSYISTRYDLSV-SNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINA  307 (461)
Q Consensus       229 a~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g  307 (461)
                      |...++.+.. .+..| +...+..+...+...|++++|.+.+++  ..+...+..++..+.+.|++++|.+.++++.+..
T Consensus        84 A~~~l~~ll~-~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~--~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~  160 (291)
T 3mkr_A           84 IVAELDREMS-RSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ--GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD  160 (291)
T ss_dssp             HHHHHHHHHH-SCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT--CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHh-cccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC
Confidence            6666666655 34333 444566777889999999999999998  4577889999999999999999999999998864


Q ss_pred             CCCCHhHH---HHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhH
Q 038303          308 VFPDDVTF---IALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSV  382 (461)
Q Consensus       308 ~~p~~~~~---~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~  382 (461)
                        |+....   ...+..+...|++++|..+|+++.+  ..+.+...++.+..++.+.|++++|...+++. ...| +..+
T Consensus       161 --p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~--~~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~~~~  236 (291)
T 3mkr_A          161 --EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMAD--KCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPET  236 (291)
T ss_dssp             --TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHH--HSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             --cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHH
Confidence              554322   2233445567999999999999998  35678889999999999999999999999997 3334 5567


Q ss_pred             HHHHHHHHHhcCChHH-HHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHH
Q 038303          383 WGALLNACRIHRNDEM-FDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKI  436 (461)
Q Consensus       383 ~~~l~~~~~~~~~~~~-a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  436 (461)
                      +..++..+...|+.++ +.++++++.+..|.++.+..    ...+.+.++++..-
T Consensus       237 l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P~~~~~~d----~~~~~~~fd~~~~~  287 (291)
T 3mkr_A          237 LINLVVLSQHLGKPPEVTNRYLSQLKDAHRSHPFIKE----YRAKENDFDRLVLQ  287 (291)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHH----HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHhCCCChHHHH----HHHHHHHHHHHHHH
Confidence            8888888888888865 67899999999999886654    34455555555443

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.80  E-value=2.7e-17  Score=155.12  Aligned_cols=383  Identities=8%  Similarity=-0.077  Sum_probs=200.6

Q ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHhhCC-----------C-CCceeHHHHHHHHHcCCChHHHHHHHhcC---------
Q 038303           44 DIFIQNSLLHFYVTVKDIFSAHQIFNSVV-----------F-PDVVSWTTIISGLSKCGFHKEAIDMFCGI---------  102 (461)
Q Consensus        44 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~-----------~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m---------  102 (461)
                      ....|+.|..++...|++++|++.|++..           . ....+|+.+..+|...|++++|...+++.         
T Consensus        50 ~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~  129 (472)
T 4g1t_A           50 KATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSS  129 (472)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhccc
Confidence            34567777777777788888777776541           1 12345667777777777777777766654         


Q ss_pred             CCCCC-chhHHHHHHHhc--ccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHH---HHcCChhhHHHHHhcCCC---Cc
Q 038303          103 DVKPN-ANTLVSVLSACS--SLVSHKLGKAIHAHSLRNLNENNIILDNAILDFY---IRCGSLASCGYLFVKMPK---RN  173 (461)
Q Consensus       103 ~~~p~-~~~~~~ll~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~---~~~g~~~~a~~~~~~~~~---~~  173 (461)
                      ...++ ..++.....++.  ..+++++|...|++.++..+. +...+..+..++   ...++.++|+..+++..+   .+
T Consensus       130 ~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~-~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~~  208 (472)
T 4g1t_A          130 PYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPK-NPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPDN  208 (472)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSSC
T ss_pred             ccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCcc
Confidence            11121 233443333333  234567777777776665443 344444443332   334555556655554432   23


Q ss_pred             hhHHHHHHHHHHh----cCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHH
Q 038303          174 VVSWTTMIGGYAE----RGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVG  249 (461)
Q Consensus       174 ~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  249 (461)
                      ..++..+...+..    .+++++|.+++++....  .+.+...+..+...+...|+++.|...++...+.  .+.+..++
T Consensus       209 ~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~--~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~  284 (472)
T 4g1t_A          209 QYLKVLLALKLHKMREEGEEEGEGEKLVEEALEK--APGVTDVLRSAAKFYRRKDEPDKAIELLKKALEY--IPNNAYLH  284 (472)
T ss_dssp             HHHHHHHHHHHHHCC------CHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHH
T ss_pred             hHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHh--CccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHh--CCChHHHH
Confidence            3344444333332    34555666666666553  3344445555555666666666666666665541  12223334


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHccCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChH
Q 038303          250 NAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVD  329 (461)
Q Consensus       250 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~  329 (461)
                      ..+...|...+....+      .....      ........+.+++|...+++..+... .+..++..+...+...|+++
T Consensus       285 ~~lg~~y~~~~~~~~~------~~~~~------~~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~lg~~~~~~~~~~  351 (472)
T 4g1t_A          285 CQIGCCYRAKVFQVMN------LRENG------MYGKRKLLELIGHAVAHLKKADEAND-NLFRVCSILASLHALADQYE  351 (472)
T ss_dssp             HHHHHHHHHHHHHHHH------C------------CHHHHHHHHHHHHHHHHHHHHHCT-TTCCCHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHhhh------HHHHH------HHHHHHHHhhHHHHHHHHHHHhhcCC-chhhhhhhHHHHHHHhccHH
Confidence            4444333221110000      00000      00001112335678888888776532 24466778888889999999


Q ss_pred             HHHHHHHHhHhhcCCCCCc--chHHHHHH-HHhhcCCHHHHHHHHHhC-CCCchhhHHHHHHHHHHhcCChHHHHHHHHH
Q 038303          330 QGLILFKAMSTVYEIVPQM--QHYACVVD-MYGRAGLLEEAEAFIREM-PIEAEWSVWGALLNACRIHRNDEMFDRIRQD  405 (461)
Q Consensus       330 ~a~~~~~~~~~~~~~~~~~--~~~~~l~~-~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  405 (461)
                      +|+..|++..+ ....+..  ..+..+.. .+...|+.++|+..+++. .+.|+....         .+....+..++++
T Consensus       352 ~A~~~~~kaL~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~~~---------~~~~~~l~~~~~~  421 (472)
T 4g1t_A          352 EAEYYFQKEFS-KELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSREK---------EKMKDKLQKIAKM  421 (472)
T ss_dssp             HHHHHHHHHHH-SCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCHHH---------HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHh-cCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHH---------HHHHHHHHHHHHH
Confidence            99999988876 2222221  12222322 234678899999998887 555654332         2233456677788


Q ss_pred             HhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcCCccccCcccc
Q 038303          406 LVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGLKKKTGCSWI  454 (461)
Q Consensus       406 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~  454 (461)
                      ..+..|.++.+|..++.+|...|++++|++.+++..+.|-......+|+
T Consensus       422 ~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~~  470 (472)
T 4g1t_A          422 RLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSWN  470 (472)
T ss_dssp             HHHHCC-CTTHHHHHHHHHHHHHHCC-----------------------
T ss_pred             HHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhcC
Confidence            8888999999999999999999999999999999998876655555553

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.80  E-value=6e-16  Score=146.44  Aligned_cols=355  Identities=10%  Similarity=-0.047  Sum_probs=291.4

Q ss_pred             CCCCceeHHHHHHHHHc----CCChHHHHHHHhcCCCCCCchhHHHHHHHhcc----cchhHHHHHHHHHHHhhcCCCCh
Q 038303           72 VFPDVVSWTTIISGLSK----CGFHKEAIDMFCGIDVKPNANTLVSVLSACSS----LVSHKLGKAIHAHSLRNLNENNI  143 (461)
Q Consensus        72 ~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~  143 (461)
                      ...++..+..+...|..    .+++++|++.|++.--..+...+..+...+..    .++.++|.+.|++..+.|   +.
T Consensus        35 ~~g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~  111 (490)
T 2xm6_A           35 ESGEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQGYTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LP  111 (490)
T ss_dssp             HTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CH
T ss_pred             HCCCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CH
Confidence            34567777788888887    89999999999988112456677778888877    899999999999998876   66


Q ss_pred             hHHHHHHHHHHH----cCChhhHHHHHhcCCC-CchhHHHHHHHHHHh----cCChHHHHHHHHHHHhcCCCCCChhhHH
Q 038303          144 ILDNAILDFYIR----CGSLASCGYLFVKMPK-RNVVSWTTMIGGYAE----RGFCKEAVSVFQEMEKTKEAEPNEATLV  214 (461)
Q Consensus       144 ~~~~~l~~~~~~----~g~~~~a~~~~~~~~~-~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~  214 (461)
                      ..+..|...|..    .+++++|..+|++..+ .+...+..|...|..    .+++++|.+.|++..+.|    +...+.
T Consensus       112 ~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~----~~~a~~  187 (490)
T 2xm6_A          112 QAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG----NVWSCN  187 (490)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT----CHHHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC----CHHHHH
Confidence            777788888888    8899999999998765 466778888888887    789999999999998864    566777


Q ss_pred             HHHHHhhc----cchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHh----cCCHHHHHHHHHHccCC-ChhhHHHHHH
Q 038303          215 NVLSACSS----ISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVK----CGDVGIAIQVFNMLAYK-DKISWSTVIS  285 (461)
Q Consensus       215 ~~l~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~-~~~~~~~l~~  285 (461)
                      .+...+..    .++.++|...++...+ .+   +...+..+...|..    .++.++|..+|++..+. +...+..+..
T Consensus       188 ~Lg~~y~~g~g~~~~~~~A~~~~~~a~~-~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg~  263 (490)
T 2xm6_A          188 QLGYMYSRGLGVERNDAISAQWYRKSAT-SG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQGNSIAQFRLGY  263 (490)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHH-TT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             HHHHHHhcCCCCCcCHHHHHHHHHHHHH-CC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            77777776    8999999999999887 43   45567778888886    88999999999987754 6677777877


Q ss_pred             HHHh----cCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcC-----CChHHHHHHHHHhHhhcCCCCCcchHHHHHH
Q 038303          286 GLAM----NGCGRQALQLFSLMIINAVFPDDVTFIALISACSHG-----GLVDQGLILFKAMSTVYEIVPQMQHYACVVD  356 (461)
Q Consensus       286 ~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  356 (461)
                      .+..    .+++++|++.|++..+.|   +...+..+...|...     +++++|...|++..+ .+   +...+..+..
T Consensus       264 ~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~-~~---~~~a~~~lg~  336 (490)
T 2xm6_A          264 ILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAE-QG---DATAQANLGA  336 (490)
T ss_dssp             HHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHH-TT---CHHHHHHHHH
T ss_pred             HHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHh-cC---CHHHHHHHHH
Confidence            8877    899999999999998764   456677777778776     899999999999988 33   4456777888


Q ss_pred             HHhhcC---CHHHHHHHHHhCCCCchhhHHHHHHHHHHh----cCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhc---
Q 038303          357 MYGRAG---LLEEAEAFIREMPIEAEWSVWGALLNACRI----HRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAG---  426 (461)
Q Consensus       357 ~~~~~g---~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~---  426 (461)
                      .|.+.|   ++++|.++|++.-...+...+..+...|..    .+++++|...+++..+..  ++..+..++..|.+   
T Consensus       337 ~y~~~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~--~~~a~~~Lg~~y~~g~g  414 (490)
T 2xm6_A          337 IYFRLGSEEEHKKAVEWFRKAAAKGEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG--LSAAQVQLGEIYYYGLG  414 (490)
T ss_dssp             HHHHSCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSS
T ss_pred             HHHhCCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC--CHHHHHHHHHHHHcCCC
Confidence            887766   789999999998323566677788888887    899999999999998754  57789999999998   


Q ss_pred             -cCChhhHHHHHHHHHHcCCc
Q 038303          427 -ADRWEDTNKIRDEIRRMGLK  446 (461)
Q Consensus       427 -~g~~~~A~~~~~~m~~~g~~  446 (461)
                       .+++++|...+++..+.|..
T Consensus       415 ~~~d~~~A~~~~~~A~~~~~~  435 (490)
T 2xm6_A          415 VERDYVQAWAWFDTASTNDMN  435 (490)
T ss_dssp             SCCCHHHHHHHHHHHHHHHCC
T ss_pred             CCCCHHHHHHHHHHHHHCCCC
Confidence             89999999999999988743

>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=99.79  E-value=2.3e-17  Score=147.51  Aligned_cols=258  Identities=8%  Similarity=-0.101  Sum_probs=180.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHH
Q 038303          176 SWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINM  255 (461)
Q Consensus       176 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~  255 (461)
                      .+..+...+...|++++|..+|+++.+.  .+.+...+..+...+...|+++.|...++.+.+.  .+.+..++..+...
T Consensus        23 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~   98 (327)
T 3cv0_A           23 NPMEEGLSMLKLANLAEAALAFEAVCQA--APEREEAWRSLGLTQAENEKDGLAIIALNHARML--DPKDIAVHAALAVS   98 (327)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CcCCHHHHHHHHHH
Confidence            3444444555555555555555555443  2334444444555555555555555555555441  22234455556666


Q ss_pred             HHhcCCHHHHHHHHHHccCC---ChhhHHHH--------------HH-HHHhcCChHHHHHHHHHHHhcCCCCCHhHHHH
Q 038303          256 YVKCGDVGIAIQVFNMLAYK---DKISWSTV--------------IS-GLAMNGCGRQALQLFSLMIINAVFPDDVTFIA  317 (461)
Q Consensus       256 ~~~~g~~~~a~~~~~~~~~~---~~~~~~~l--------------~~-~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~  317 (461)
                      |...|++++|.+.++++.+.   +...+..+              .. .+...|++++|...++++.+... .+...+..
T Consensus        99 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~  177 (327)
T 3cv0_A           99 HTNEHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNP-NDAQLHAS  177 (327)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHST-TCHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCC-CCHHHHHH
Confidence            66666666666666655421   22222222              22 36778899999999999988643 36788888


Q ss_pred             HHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCC
Q 038303          318 LISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRN  395 (461)
Q Consensus       318 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~  395 (461)
                      +...+...|++++|...++++.+  ..+.+...+..+...+...|++++|...++++ ...| +...+..+...+...|+
T Consensus       178 la~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~  255 (327)
T 3cv0_A          178 LGVLYNLSNNYDSAAANLRRAVE--LRPDDAQLWNKLGATLANGNRPQEALDAYNRALDINPGYVRVMYNMAVSYSNMSQ  255 (327)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhccHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcc
Confidence            99999999999999999999987  23455778899999999999999999999987 3333 46678888888999999


Q ss_pred             hHHHHHHHHHHhhcCCC------------ChhHHHHHHHHHhccCChhhHHHHHHHH
Q 038303          396 DEMFDRIRQDLVNKKGV------------SVGTFALMSNTFAGADRWEDTNKIRDEI  440 (461)
Q Consensus       396 ~~~a~~~~~~~~~~~~~------------~~~~~~~l~~~~~~~g~~~~A~~~~~~m  440 (461)
                      +++|...++++.+..|.            +..++..++.++.+.|++++|..++++.
T Consensus       256 ~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  312 (327)
T 3cv0_A          256 YDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQN  312 (327)
T ss_dssp             HHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            99999999999998777            7889999999999999999999998754

>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=99.78  E-value=1.3e-16  Score=142.67  Aligned_cols=329  Identities=9%  Similarity=-0.042  Sum_probs=169.4

Q ss_pred             CCcchHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCC--CCceeHHHHHHH
Q 038303            8 YNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVF--PDVVSWTTIISG   85 (461)
Q Consensus         8 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~li~~   85 (461)
                      +++.+|+.+..++...|++++|.+.|...      +|+.+|..++..+...|++++|...++...+  +++.+.+.++.+
T Consensus        30 ~~~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~~~~~~i~~~Li~~  103 (449)
T 1b89_A           30 NEPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFA  103 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CChHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCccchhHHHHHHH
Confidence            44569999999999999999999999652      5777999999999999999999997776633  556789999999


Q ss_pred             HHcCCChHHHHHHHhcCCCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHH
Q 038303           86 LSKCGFHKEAIDMFCGIDVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYL  165 (461)
Q Consensus        86 ~~~~~~~~~a~~~~~~m~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  165 (461)
                      |.+.|+++++.++++    .|+..+|..+...|...|.+++|..+|..+         ..|..++.++.+.|++++|.+.
T Consensus       104 Y~Klg~l~e~e~f~~----~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq~AVea  170 (449)
T 1b89_A          104 LAKTNRLAELEEFIN----GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDG  170 (449)
T ss_dssp             -----CHHHHTTTTT----CC----------------CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHHHHHHH
T ss_pred             HHHhCCHHHHHHHHc----CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhccHHHHHHH
Confidence            999999999998885    478789999999999999999999999966         4789999999999999999999


Q ss_pred             HhcCCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCc
Q 038303          166 FVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVS  245 (461)
Q Consensus       166 ~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~  245 (461)
                      +.++.  ++.+|..++.+|...|+++.|......+      ...+.-...++..|.+.|.++++..+++.... .. +..
T Consensus       171 ~~KA~--~~~~Wk~v~~aCv~~~ef~lA~~~~l~L------~~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~-le-~ah  240 (449)
T 1b89_A          171 ARKAN--STRTWKEVCFACVDGKEFRLAQMCGLHI------VVHADELEELINYYQDRGYFEELITMLEAALG-LE-RAH  240 (449)
T ss_dssp             HHHHT--CHHHHHHHHHHHHHTTCHHHHHHTTTTT------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT-ST-TCC
T ss_pred             HHHcC--CchhHHHHHHHHHHcCcHHHHHHHHHHH------HhCHhhHHHHHHHHHHCCCHHHHHHHHHHHhC-Cc-HHH
Confidence            99994  8899999999999999999996655542      23333455788999999999999999998865 22 444


Q ss_pred             chHHHHHHHHHHhc--CCHHHHHHHHHHccC--------CChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHH
Q 038303          246 NLVGNAVINMYVKC--GDVGIAIQVFNMLAY--------KDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTF  315 (461)
Q Consensus       246 ~~~~~~li~~~~~~--g~~~~a~~~~~~~~~--------~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~  315 (461)
                      ...|+-|.-+|++-  +++.+.++.|..-..        .+...|..+.-.|...++++.|...   |.++  .|+...-
T Consensus       241 ~~~ftel~il~~ky~p~k~~ehl~~~~~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~t---m~~h--~~~a~~~  315 (449)
T 1b89_A          241 MGMFTELAILYSKFKPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIIT---MMNH--PTDAWKE  315 (449)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHH---HHHS--TTTTCCH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHHH---HHhC--Chhhhhh
Confidence            55667776666653  456666666643331        2677899999999999999988774   4442  2343334


Q ss_pred             HHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhCC
Q 038303          316 IALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMP  375 (461)
Q Consensus       316 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  375 (461)
                      ..+.....+..+.+--.+...-...     -.+...+-|+.++...=+...+.++|++.+
T Consensus       316 ~~f~~~~~kv~n~elyYkai~fyl~-----~~p~~l~~ll~~l~~~ld~~r~v~~~~~~~  370 (449)
T 1b89_A          316 GQFKDIITKVANVELYYRAIQFYLE-----FKPLLLNDLLMVLSPRLDHTRAVNYFSKVK  370 (449)
T ss_dssp             HHHHHHHHHCSSTHHHHHHHHHHHH-----HCGGGHHHHHHHHGGGCCHHHHHHHHHHTT
T ss_pred             HHHHHHHhchhHHHHHHHHHHHHHh-----cCHHHHHHHHHHHHhccCcHHHHHHHHHcC
Confidence            4444445555555543333332222     223345666666666667777777777664

>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=99.77  E-value=8.9e-17  Score=143.66  Aligned_cols=258  Identities=8%  Similarity=-0.069  Sum_probs=193.4

Q ss_pred             CcchHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhC---CCCCceeHHHHHHH
Q 038303            9 NHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSV---VFPDVVSWTTIISG   85 (461)
Q Consensus         9 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~~~~~~~~li~~   85 (461)
                      +...+......+...|++++|..+|+.+.+.... +..++..+...+...|++++|...|++.   .+.+...+..+...
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~   98 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAAPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVS   98 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcCCHHHHHHHHHH
Confidence            5566788888999999999999999999987643 6778888999999999999999999987   34567788889999


Q ss_pred             HHcCCChHHHHHHHhcC-CCCCCchh-HHHH--------------HH-HhcccchhHHHHHHHHHHHhhcCCCChhHHHH
Q 038303           86 LSKCGFHKEAIDMFCGI-DVKPNANT-LVSV--------------LS-ACSSLVSHKLGKAIHAHSLRNLNENNIILDNA  148 (461)
Q Consensus        86 ~~~~~~~~~a~~~~~~m-~~~p~~~~-~~~l--------------l~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  148 (461)
                      +...|++++|++.+++. ...|+... +..+              .. .+...|++++|...++.+.+..+. +..++..
T Consensus        99 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~  177 (327)
T 3cv0_A           99 HTNEHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNPN-DAQLHAS  177 (327)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHSTT-CHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCCC-CHHHHHH
Confidence            99999999999999988 44554333 3332              22 377889999999999999887654 6778888


Q ss_pred             HHHHHHHcCChhhHHHHHhcCCC---CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccch
Q 038303          149 ILDFYIRCGSLASCGYLFVKMPK---RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISA  225 (461)
Q Consensus       149 l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~  225 (461)
                      +...+.+.|++++|...++++.+   .+..+|..+...+...|++++|...++++.+.  .+.+...+..+...+...|+
T Consensus       178 la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~g~  255 (327)
T 3cv0_A          178 LGVLYNLSNNYDSAAANLRRAVELRPDDAQLWNKLGATLANGNRPQEALDAYNRALDI--NPGYVRVMYNMAVSYSNMSQ  255 (327)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhcc
Confidence            88888899999999888887754   45677888888888888999998888888774  34455666666666777777


Q ss_pred             hhhHHHHHHHHHhhcCCCC-----------cchHHHHHHHHHHhcCCHHHHHHHHHH
Q 038303          226 LSFGKYVHSYISTRYDLSV-----------SNLVGNAVINMYVKCGDVGIAIQVFNM  271 (461)
Q Consensus       226 ~~~a~~~~~~~~~~~~~~~-----------~~~~~~~li~~~~~~g~~~~a~~~~~~  271 (461)
                      ++.|...++.+.+... ..           +..++..+..++.+.|+.++|..+++.
T Consensus       256 ~~~A~~~~~~a~~~~~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  311 (327)
T 3cv0_A          256 YDLAAKQLVRAIYMQV-GGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQ  311 (327)
T ss_dssp             HHHHHHHHHHHHHHHT-TSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhCC-ccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence            7777777766655211 11           234555555555666666665555543

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.76  E-value=4e-16  Score=147.08  Aligned_cols=381  Identities=9%  Similarity=-0.063  Sum_probs=236.2

Q ss_pred             CcchHHHHHHHHHhhCCHHHHHHHHHHHHHh-----C--CCc-cHHHHHHHHHHHHhcCCHHHHHHHHhhCC-------C
Q 038303            9 NHYTFTQALKACSLAHPHQKALEIHAHVIEY-----G--HLH-DIFIQNSLLHFYVTVKDIFSAHQIFNSVV-------F   73 (461)
Q Consensus         9 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~--~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~-------~   73 (461)
                      ....|+.+...+...|+.++|++.|++..+.     +  ..| ...+|+.+..+|...|++++|...+++..       .
T Consensus        50 ~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~  129 (472)
T 4g1t_A           50 KATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSS  129 (472)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhccc
Confidence            4566999999999999999999999987653     1  122 35688999999999999999999988661       1


Q ss_pred             ----CCceeHHHHHHHHHc--CCChHHHHHHHhcC-CCCCCch-hHHHHHHH---hcccchhHHHHHHHHHHHhhcCCCC
Q 038303           74 ----PDVVSWTTIISGLSK--CGFHKEAIDMFCGI-DVKPNAN-TLVSVLSA---CSSLVSHKLGKAIHAHSLRNLNENN  142 (461)
Q Consensus        74 ----~~~~~~~~li~~~~~--~~~~~~a~~~~~~m-~~~p~~~-~~~~ll~~---~~~~~~~~~a~~~~~~~~~~~~~~~  142 (461)
                          ....++..+..++.+  .+++++|++.|++. .+.|+.. .+..+..+   +...++.++|.+.+++.++..+. +
T Consensus       130 ~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~-~  208 (472)
T 4g1t_A          130 PYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPD-N  208 (472)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSS-C
T ss_pred             ccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCc-c
Confidence                123445555555544  45799999999998 7777644 34444444   33456677888999988887654 5


Q ss_pred             hhHHHHHHHHHHH----cCChhhHHHHHhcCCC---CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHH
Q 038303          143 IILDNAILDFYIR----CGSLASCGYLFVKMPK---RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVN  215 (461)
Q Consensus       143 ~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~  215 (461)
                      ..++..+...+..    .|++++|...+++...   .+..++..+...|...|++++|...+++..+.  .|.+..++..
T Consensus       209 ~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~  286 (472)
T 4g1t_A          209 QYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPGVTDVLRSAAKFYRRKDEPDKAIELLKKALEY--IPNNAYLHCQ  286 (472)
T ss_dssp             HHHHHHHHHHHHHCC------CHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHh--CCChHHHHHH
Confidence            5666666555544    4678899999987653   56778899999999999999999999999884  3334455555


Q ss_pred             HHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHcc---CCChhhHHHHHHHHHhcCC
Q 038303          216 VLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLA---YKDKISWSTVISGLAMNGC  292 (461)
Q Consensus       216 ~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~~~  292 (461)
                      +...+...+....+...                 ..........+..+.|...++...   ..+...+..+...+...|+
T Consensus       287 lg~~y~~~~~~~~~~~~-----------------~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~lg~~~~~~~~  349 (472)
T 4g1t_A          287 IGCCYRAKVFQVMNLRE-----------------NGMYGKRKLLELIGHAVAHLKKADEANDNLFRVCSILASLHALADQ  349 (472)
T ss_dssp             HHHHHHHHHHHHHHC-----------------------CHHHHHHHHHHHHHHHHHHHHHCTTTCCCHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhhhHHH-----------------HHHHHHHHHHhhHHHHHHHHHHHhhcCCchhhhhhhHHHHHHHhcc
Confidence            54444322111110000                 001111112234567777777655   3356788899999999999


Q ss_pred             hHHHHHHHHHHHhcCCCCCHh--HHHHHHH-HHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHH
Q 038303          293 GRQALQLFSLMIINAVFPDDV--TFIALIS-ACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEA  369 (461)
Q Consensus       293 ~~~a~~~~~~m~~~g~~p~~~--~~~~ll~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  369 (461)
                      +++|++.|++..+....|...  .+..+.. .....|++++|+..|++..+   +.|+.......         ...+.+
T Consensus       350 ~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~---i~~~~~~~~~~---------~~~l~~  417 (472)
T 4g1t_A          350 YEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVK---INQKSREKEKM---------KDKLQK  417 (472)
T ss_dssp             HHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHH---SCCCCHHHHHH---------HHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCcccHHHHHH---------HHHHHH
Confidence            999999999998854433321  2222222 24568999999999998876   44554332222         223334


Q ss_pred             HHHhC-C-CCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHH
Q 038303          370 FIREM-P-IEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMS  421 (461)
Q Consensus       370 ~~~~~-~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~  421 (461)
                      ++++. . .+.+..+|..+...|...|++++|++.|+++++..|.++.+...++
T Consensus       418 ~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~~G  471 (472)
T 4g1t_A          418 IAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSWNG  471 (472)
T ss_dssp             HHHHHHHHCC-CTTHHHHHHHHHHHHHHCC------------------------
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhcCC
Confidence            44443 2 2345668888888999999999999999999998777766665543

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=99.75  E-value=1.6e-14  Score=144.12  Aligned_cols=347  Identities=10%  Similarity=0.018  Sum_probs=272.1

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHhhCC-CCC-----ceeHHHHHHHHHcCCChHHHHHHHhcCCCCCCchhHHHHHHHhc
Q 038303           46 FIQNSLLHFYVTVKDIFSAHQIFNSVV-FPD-----VVSWTTIISGLSKCGFHKEAIDMFCGIDVKPNANTLVSVLSACS  119 (461)
Q Consensus        46 ~~~~~ll~~~~~~~~~~~a~~~~~~~~-~~~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~p~~~~~~~ll~~~~  119 (461)
                      .--...++.|...|.+.+|.+++++++ .|+     ...-+.++.+..+. +..+..+..+..+    .....-+...|.
T Consensus       986 eeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd----~~d~~eIA~Iai 1060 (1630)
T 1xi4_A          986 EEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLD----NYDAPDIANIAI 1060 (1630)
T ss_pred             HHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhh----hccHHHHHHHHH
Confidence            334566788889999999999999984 332     24456677666666 5566666666552    222444777788


Q ss_pred             ccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCCCCchhHHHHHHHHHHhcCChHHHHHHHHH
Q 038303          120 SLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQE  199 (461)
Q Consensus       120 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  199 (461)
                      ..|.+++|..+|++...     .....+.+   +-..|++++|.++.++..  +..+|..+..++.+.|++++|++.|.+
T Consensus      1061 ~lglyEEAf~IYkKa~~-----~~~A~~VL---ie~i~nldrAiE~Aervn--~p~vWsqLAKAql~~G~~kEAIdsYiK 1130 (1630)
T 1xi4_A         1061 SNELFEEAFAIFRKFDV-----NTSAVQVL---IEHIGNLDRAYEFAERCN--EPAVWSQLAKAQLQKGMVKEAIDSYIK 1130 (1630)
T ss_pred             hCCCHHHHHHHHHHcCC-----HHHHHHHH---HHHHhhHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCHHHHHHHHHh
Confidence            99999999999998631     12222223   237789999999999885  467899999999999999999999966


Q ss_pred             HHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCCChhh
Q 038303          200 MEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKIS  279 (461)
Q Consensus       200 m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  279 (461)
                      .       .|...|..++.++.+.|+++++.+.+....+ ..  +++.+.+.++.+|++.+++++...+.   ..++...
T Consensus      1131 A-------dD~say~eVa~~~~~lGkyEEAIeyL~mArk-~~--~e~~Idt~LafaYAKl~rleele~fI---~~~n~ad 1197 (1630)
T 1xi4_A         1131 A-------DDPSSYMEVVQAANTSGNWEELVKYLQMARK-KA--RESYVETELIFALAKTNRLAELEEFI---NGPNNAH 1197 (1630)
T ss_pred             c-------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHh-hc--ccccccHHHHHHHHhhcCHHHHHHHH---hCCCHHH
Confidence            3       4677888899999999999999999998877 33  34344456999999999998655543   4567777


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHh
Q 038303          280 WSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYG  359 (461)
Q Consensus       280 ~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  359 (461)
                      |..+...|...|++++|..+|...         ..|..+..++++.|+++.|.+.+++.       .+..+|..+..+|.
T Consensus      1198 ~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA-------~n~~aWkev~~acv 1261 (1630)
T 1xi4_A         1198 IQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA-------NSTRTWKEVCFACV 1261 (1630)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh-------CCHHHHHHHHHHHh
Confidence            888999999999999999999985         47999999999999999999999877       34588999999999


Q ss_pred             hcCCHHHHHHHHHhCCCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhcc--CChhhHHHHH
Q 038303          360 RAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGA--DRWEDTNKIR  437 (461)
Q Consensus       360 ~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~--g~~~~A~~~~  437 (461)
                      ..|++..|......+..  +...+..++..|.+.|.+++|+.+++......+.....|..++.+|++.  ++..++.+.|
T Consensus      1262 e~~Ef~LA~~cgl~Iiv--~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiLyaKy~peklmEhlk~f 1339 (1630)
T 1xi4_A         1262 DGKEFRLAQMCGLHIVV--HADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLELF 1339 (1630)
T ss_pred             hhhHHHHHHHHHHhhhc--CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            99999999998775433  4445668889999999999999999999998888888998888888765  4555555555


Q ss_pred             H
Q 038303          438 D  438 (461)
Q Consensus       438 ~  438 (461)
                      .
T Consensus      1340 ~ 1340 (1630)
T 1xi4_A         1340 W 1340 (1630)
T ss_pred             H
Confidence            4

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.75  E-value=1.9e-16  Score=138.42  Aligned_cols=248  Identities=9%  Similarity=-0.042  Sum_probs=202.2

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCCCCCCh--hhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHh
Q 038303          181 IGGYAERGFCKEAVSVFQEMEKTKEAEPNE--ATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVK  258 (461)
Q Consensus       181 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~--~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~  258 (461)
                      |+.....|++..|+..+++...   ..|+.  .....+..++...|+++.|...++.     ..+|+...+..+...+..
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~---~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~-----~~~~~~~a~~~la~~~~~   77 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKP---SSPERDVERDVFLYRAYLAQRKYGVVLDEIKP-----SSAPELQAVRMFAEYLAS   77 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCC---CSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT-----TSCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHhccc---CCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc-----cCChhHHHHHHHHHHHcC
Confidence            3456678999999999988755   44543  3556678899999999999875543     345677788889999999


Q ss_pred             cCCHHHHHHHHHHcc----CC-ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHH
Q 038303          259 CGDVGIAIQVFNMLA----YK-DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLI  333 (461)
Q Consensus       259 ~g~~~~a~~~~~~~~----~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~  333 (461)
                      .++.++|.+.++++.    .| +...+..+...+...|++++|++.+++      ..+...+..+...+.+.|++++|.+
T Consensus        78 ~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~  151 (291)
T 3mkr_A           78 HSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARK  151 (291)
T ss_dssp             STTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            999999999999874    24 456677778899999999999999987      4577889999999999999999999


Q ss_pred             HHHHhHhhcCCCCCcchH---HHHHHHHhhcCCHHHHHHHHHhC--CCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhh
Q 038303          334 LFKAMSTVYEIVPQMQHY---ACVVDMYGRAGLLEEAEAFIREM--PIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVN  408 (461)
Q Consensus       334 ~~~~~~~~~~~~~~~~~~---~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  408 (461)
                      .|+.+.+.   .|+....   ..++..+...|++++|..+|+++  ..+++...++.+..++.+.|++++|+..++++.+
T Consensus       152 ~l~~~~~~---~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~  228 (291)
T 3mkr_A          152 ELKKMQDQ---DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALD  228 (291)
T ss_dssp             HHHHHHHH---CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhh---CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            99999882   3553211   22334445569999999999999  3345677888899999999999999999999999


Q ss_pred             cCCCChhHHHHHHHHHhccCChhh-HHHHHHHHHHcCC
Q 038303          409 KKGVSVGTFALMSNTFAGADRWED-TNKIRDEIRRMGL  445 (461)
Q Consensus       409 ~~~~~~~~~~~l~~~~~~~g~~~~-A~~~~~~m~~~g~  445 (461)
                      ..|.++.++..++..+...|+.++ +.++++++.+...
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 5789998877543

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.75  E-value=1e-18  Score=168.55  Aligned_cols=165  Identities=12%  Similarity=0.060  Sum_probs=128.0

Q ss_pred             CCCcchHHHHHHHHHHhcCCHHHHHHHHHHcc-------CCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhH
Q 038303          242 LSVSNLVGNAVINMYVKCGDVGIAIQVFNMLA-------YKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVT  314 (461)
Q Consensus       242 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~-------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~  314 (461)
                      ...-..+|++||++|++.|++++|.++|++|.       .||+.|||+||.+||+.|++++|.++|++|.+.|+.||..|
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            33445689999999999999999999997754       57999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHcCCCh-HHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhCCCC----chhhHHHHHHHH
Q 038303          315 FIALISACSHGGLV-DQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIE----AEWSVWGALLNA  389 (461)
Q Consensus       315 ~~~ll~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----p~~~~~~~l~~~  389 (461)
                      |+++|.++|+.|+. ++|.++|++|.+ .|+.||..+|++++....+.+-++.+.++...+.-.    |...+...|...
T Consensus       203 YntLI~glcK~G~~~e~A~~Ll~EM~~-kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~f~p~~~~~~~~~t~~LL~dl  281 (1134)
T 3spa_A          203 YAAALQCMGRQDQDAGTIERCLEQMSQ-EGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDV  281 (1134)
T ss_dssp             HHHHHHHHHHHTCCHHHHHHHHHHHHH-HTCCSHHHHHHSCCCHHHHHHHHHHHGGGCCCCCCCCCCCCCCCCCTTTHHH
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHH-cCCCCChhhcccccChhhHHHHHHHHHHhCcccCCCCCCcccccchHHHHHH
Confidence            99999999999985 789999999999 799999999999987776654443333332223111    223444555566


Q ss_pred             HHhcCC---------hHHHHHHHHHHh
Q 038303          390 CRIHRN---------DEMFDRIRQDLV  407 (461)
Q Consensus       390 ~~~~~~---------~~~a~~~~~~~~  407 (461)
                      |.+.+.         .++....|++-.
T Consensus       282 ~s~d~~~s~pk~~~~~~~L~~~~~~Ql  308 (1134)
T 3spa_A          282 YAKDGRVSYPKLHLPLKTLQCLFEKQL  308 (1134)
T ss_dssp             HCCCSCCCCCCCSSCHHHHHHHHHHHH
T ss_pred             HccCCCCcCccccCCHHHHHHHHHHHH
Confidence            666552         355556665544

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.73  E-value=4e-18  Score=164.48  Aligned_cols=147  Identities=12%  Similarity=0.099  Sum_probs=122.4

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHH---hcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHH
Q 038303          277 KISWSTVISGLAMNGCGRQALQLFSLMI---INAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYAC  353 (461)
Q Consensus       277 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~---~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  353 (461)
                      ..||+++|.+||+.|++++|.++|++|.   ..|+.||..|||+||.+||+.|++++|.++|++|.+ .|+.||..||++
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~-~G~~PDvvTYnt  205 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKD-AGLTPDLLSYAA  205 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH-TTCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHH-cCCCCcHHHHHH
Confidence            4689999999999999999999998876   458999999999999999999999999999999999 899999999999


Q ss_pred             HHHHHhhcCCH-HHHHHHHHhC---CCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCC------ChhHHHHHHHH
Q 038303          354 VVDMYGRAGLL-EEAEAFIREM---PIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGV------SVGTFALMSNT  423 (461)
Q Consensus       354 l~~~~~~~g~~-~~A~~~~~~~---~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~------~~~~~~~l~~~  423 (461)
                      ||.++++.|+. ++|.++|++|   ++.||..+|+.++.++.+.+    .++..+++.....+      ...+...|.+.
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~----vL~~Vrkv~P~f~p~~~~~~~~~t~~LL~dl  281 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRAT----VLKAVHKVKPTFSLPPQLPPPVNTSKLLRDV  281 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHH----HHHHHGGGCCCCCCCCCCCCCCCCCTTTHHH
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHH----HHHHHHHhCcccCCCCCCcccccchHHHHHH
Confidence            99999999985 7899999999   99999999999987665553    33333444332211      23345566667


Q ss_pred             HhccC
Q 038303          424 FAGAD  428 (461)
Q Consensus       424 ~~~~g  428 (461)
                      |.+.+
T Consensus       282 ~s~d~  286 (1134)
T 3spa_A          282 YAKDG  286 (1134)
T ss_dssp             HCCCS
T ss_pred             HccCC
Confidence            77655

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.69  E-value=9.1e-15  Score=136.29  Aligned_cols=378  Identities=10%  Similarity=-0.019  Sum_probs=205.6

Q ss_pred             HHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCH---HHHHHHHhhCCCCCceeHHHHHHHHHcCC--
Q 038303           16 ALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDI---FSAHQIFNSVVFPDVVSWTTIISGLSKCG--   90 (461)
Q Consensus        16 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~li~~~~~~~--   90 (461)
                      +...+.+.|++++|.+.|+...+.|.   +..+..|-..|...|+.   ++|...|++....++..+..+...+...+  
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g~---~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~~~~A~~~Lg~~~~~~~~~   85 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELGY---SEAQVGLADIQVGTRDPAQIKQAEATYRAAADTSPRAQARLGRLLAAKPGA   85 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTC---CTGGGTCC----------------------------CHHHHHHHHHTC--C
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHhCCCC
Confidence            55667788899999999999888763   23334455555666777   88888888886557777777777555554  


Q ss_pred             ---ChHHHHHHHhcCCCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChh----hHH
Q 038303           91 ---FHKEAIDMFCGIDVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLA----SCG  163 (461)
Q Consensus        91 ---~~~~a~~~~~~m~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~----~a~  163 (461)
                         ++++|++.|++.--.-+...+..+...+...+..+.+.+.++.+.+.....+......+...|...+.++    .+.
T Consensus        86 ~~~~~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~Lg~~y~~~~~~~~~~~~a~  165 (452)
T 3e4b_A           86 TEAEHHEAESLLKKAFANGEGNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGYPEAGLAQVLLYRTQGTYDQHLDDVE  165 (452)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCSSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTCTTHHHHHHHHHHHHTCGGGGHHHHH
T ss_pred             CCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcccCHHHHH
Confidence               6778888887760011222555566666555544433333333332221223445555666666666433    344


Q ss_pred             HHHhcCCCCchhHHHHHHHHHHhcC---ChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhc
Q 038303          164 YLFVKMPKRNVVSWTTMIGGYAERG---FCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRY  240 (461)
Q Consensus       164 ~~~~~~~~~~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~  240 (461)
                      .+++...+.+...+..|...|.+.|   +.++|++.|++..+.|  +++...+                           
T Consensus       166 ~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g--~~~a~~~---------------------------  216 (452)
T 3e4b_A          166 RICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRG--TVTAQRV---------------------------  216 (452)
T ss_dssp             HHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT--CSCHHHH---------------------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC--CHHHHHH---------------------------
Confidence            4455555555556667777777777   6777777777766653  2222222                           


Q ss_pred             CCCCcchHHHHHHHHHHhc----CCHHHHHHHHHHccCCChhhHHHHHHH-H--HhcCChHHHHHHHHHHHhcCCCCCHh
Q 038303          241 DLSVSNLVGNAVINMYVKC----GDVGIAIQVFNMLAYKDKISWSTVISG-L--AMNGCGRQALQLFSLMIINAVFPDDV  313 (461)
Q Consensus       241 ~~~~~~~~~~~li~~~~~~----g~~~~a~~~~~~~~~~~~~~~~~l~~~-~--~~~~~~~~a~~~~~~m~~~g~~p~~~  313 (461)
                               ..|...|...    ++.++|..+|+.....+...+..+... +  ...+++++|.+.|++..+.|   +..
T Consensus       217 ---------~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~  284 (452)
T 3e4b_A          217 ---------DSVARVLGDATLGTPDEKTAQALLEKIAPGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPR  284 (452)
T ss_dssp             ---------HHHHHHHTCGGGSSCCHHHHHHHHHHHGGGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHH
T ss_pred             ---------HHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHH
Confidence                     2333333322    466666666666552244555555554 3  34677777777777777655   455


Q ss_pred             HHHHHHHHHHcCC-----ChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhh----cCCHHHHHHHHHhCCCCchhhHHH
Q 038303          314 TFIALISACSHGG-----LVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGR----AGLLEEAEAFIREMPIEAEWSVWG  384 (461)
Q Consensus       314 ~~~~ll~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~  384 (461)
                      .+..+...|. .|     ++++|...|++..     +.++..+..|...|..    ..++++|..+|++.-...+.....
T Consensus       285 A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-----~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~~A~~  358 (452)
T 3e4b_A          285 AELLLGKLYY-EGKWVPADAKAAEAHFEKAV-----GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQNSADF  358 (452)
T ss_dssp             HHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-----TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTCTTHHH
T ss_pred             HHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-----CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhChHHHHH
Confidence            5555555555 33     7777777776654     3445556666666655    337777888877772223344445


Q ss_pred             HHHHHHHh----cCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHc
Q 038303          385 ALLNACRI----HRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRM  443 (461)
Q Consensus       385 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  443 (461)
                      .+...|..    ..+.+.|...+++..+..++........+......++..+|.++.++..+.
T Consensus       359 ~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~~~a~~~l~~l~~~~~~~~~~~a~~~~~~~~~~  421 (452)
T 3e4b_A          359 AIAQLFSQGKGTKPDPLNAYVFSQLAKAQDTPEANDLATQLEAPLTPAQRAEGQRLVQQELAA  421 (452)
T ss_dssp             HHHHHHHSCTTBCCCHHHHHHHHHHHHTTCCHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHh
Confidence            55555543    457788888888887765544444444444444556677777777776443

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.68  E-value=4.6e-15  Score=123.90  Aligned_cols=196  Identities=11%  Similarity=-0.016  Sum_probs=154.4

Q ss_pred             CCcchHHHHHHHHHHhcCCHHHHHHHHHHccCC---ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHH
Q 038303          243 SVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYK---DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALI  319 (461)
Q Consensus       243 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll  319 (461)
                      +++...+..+...+.+.|++++|...|++..+.   +...|..+...+.+.|++++|+..+++..+... .+...+..+.
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg   80 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVARTP-RYLGGYMVLS   80 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHH
Confidence            456667788888899999999999999887643   567888889999999999999999999988542 2457788888


Q ss_pred             HHHHcC-----------CChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCchhhHHHHHH
Q 038303          320 SACSHG-----------GLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAEWSVWGALL  387 (461)
Q Consensus       320 ~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~  387 (461)
                      ..+...           |++++|+..|++..+  .-+-+...+..+...+...|++++|...|++. ....+...+..+.
T Consensus        81 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~--~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~la  158 (217)
T 2pl2_A           81 EAYVALYRQAEDRERGKGYLEQALSVLKDAER--VNPRYAPLHLQRGLVYALLGERDKAEASLKQALALEDTPEIRSALA  158 (217)
T ss_dssp             HHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHH
T ss_pred             HHHHHhhhhhhhhcccccCHHHHHHHHHHHHH--hCcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcccchHHHHHHH
Confidence            888888           999999999999987  23345778888999999999999999999988 2226777888889


Q ss_pred             HHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHH
Q 038303          388 NACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIR  441 (461)
Q Consensus       388 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  441 (461)
                      ..+...|++++|+..++++.+..|.++.++..++.++.+.|++++|...+++..
T Consensus       159 ~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          159 ELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999999999999999998764

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.67  E-value=5.3e-15  Score=127.23  Aligned_cols=220  Identities=9%  Similarity=-0.044  Sum_probs=145.2

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHH
Q 038303          175 VSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVIN  254 (461)
Q Consensus       175 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  254 (461)
                      ..|..+...+...|++++|..+|++..+..   .+..                                    ++..+..
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~---~~~~------------------------------------~~~~~~~   46 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYNKAWELH---KDIT------------------------------------YLNNRAA   46 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS---CCTH------------------------------------HHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhh---ccHH------------------------------------HHHHHHH
Confidence            455666666666677777777766666541   3344                                    4445555


Q ss_pred             HHHhcCCHHHHHHHHHHccCC---C-------hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHc
Q 038303          255 MYVKCGDVGIAIQVFNMLAYK---D-------KISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSH  324 (461)
Q Consensus       255 ~~~~~g~~~~a~~~~~~~~~~---~-------~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~  324 (461)
                      +|...|++++|.+.+++..+.   +       ...|..+...+...|++++|...+++..+.  .|+.       ..+..
T Consensus        47 ~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~-------~~~~~  117 (258)
T 3uq3_A           47 AEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTE--HRTA-------DILTK  117 (258)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCH-------HHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhc--Cchh-------HHHHH
Confidence            555555555555555544421   1       355666667777777777777777777663  3342       23445


Q ss_pred             CCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CC-CchhhHHHHHHHHHHhcCChHHHHHH
Q 038303          325 GGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PI-EAEWSVWGALLNACRIHRNDEMFDRI  402 (461)
Q Consensus       325 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~~~~~~a~~~  402 (461)
                      .|++++|...++.+..  ..+.+...+..+...+...|++++|...++++ .. +.+...+..+...+...|++++|+..
T Consensus       118 ~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  195 (258)
T 3uq3_A          118 LRNAEKELKKAEAEAY--VNPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIAD  195 (258)
T ss_dssp             HHHHHHHHHHHHHHHH--CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HhHHHHHHHHHHHHHH--cCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHH
Confidence            5667777777777765  22334566677777777788888888877776 22 23455667777777888888888888


Q ss_pred             HHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcC
Q 038303          403 RQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMG  444 (461)
Q Consensus       403 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  444 (461)
                      ++++.+..|.++.++..++.++.+.|++++|...+++..+..
T Consensus       196 ~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  237 (258)
T 3uq3_A          196 CNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLDAARTKD  237 (258)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC
Confidence            888888778788888888888888888888888888776543

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.66  E-value=8e-15  Score=126.08  Aligned_cols=243  Identities=10%  Similarity=-0.035  Sum_probs=160.7

Q ss_pred             ChhHHHHHHHHHHHcCChhhHHHHHhcCCC--CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHH
Q 038303          142 NIILDNAILDFYIRCGSLASCGYLFVKMPK--RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSA  219 (461)
Q Consensus       142 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~  219 (461)
                      ....+..+...+...|++++|...|++..+  .+..+|..+..++...|++++|...+++..+..   |+..        
T Consensus         4 ~a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~~--------   72 (258)
T 3uq3_A            4 MADKEKAEGNKFYKARQFDEAIEHYNKAWELHKDITYLNNRAAAEYEKGEYETAISTLNDAVEQG---REMR--------   72 (258)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH---HHTT--------
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC---cccc--------
Confidence            345778899999999999999999987754  677889999999999999999999999988742   2210        


Q ss_pred             hhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCCChhhHHHHHHHHHhcCChHHHHHH
Q 038303          220 CSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQL  299 (461)
Q Consensus       220 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  299 (461)
                                          ........++..+...|...|++++|...|++..+.+..     ...+...|++++|...
T Consensus        73 --------------------~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-----~~~~~~~~~~~~a~~~  127 (258)
T 3uq3_A           73 --------------------ADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTEHRT-----ADILTKLRNAEKELKK  127 (258)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-----HHHHHHHHHHHHHHHH
T ss_pred             --------------------cchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCch-----hHHHHHHhHHHHHHHH
Confidence                                000000233344555555555555555555554421111     1234455667777777


Q ss_pred             HHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc
Q 038303          300 FSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA  378 (461)
Q Consensus       300 ~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p  378 (461)
                      ++++..... .+...+..+...+...|++++|...++++.+  ..+.+...+..+...+.+.|++++|...+++. ...|
T Consensus       128 ~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~  204 (258)
T 3uq3_A          128 AEAEAYVNP-EKAEEARLEGKEYFTKSDWPNAVKAYTEMIK--RAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDP  204 (258)
T ss_dssp             HHHHHHCCH-HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHcCc-chHHHHHHHHHHHHHhcCHHHHHHHHHHHHh--cCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCH
Confidence            777666421 1335566666677777777777777777766  22345666777777777777777777777776 2223


Q ss_pred             -hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcC------CCChhHHHHHHHH
Q 038303          379 -EWSVWGALLNACRIHRNDEMFDRIRQDLVNKK------GVSVGTFALMSNT  423 (461)
Q Consensus       379 -~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~l~~~  423 (461)
                       +...+..+...+...|++++|...++++.+..      |.+...+..+..+
T Consensus       205 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~p~~~~~~~~l~~~  256 (258)
T 3uq3_A          205 NFVRAYIRKATAQIAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYKA  256 (258)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhChhhcCCCchHHHHHHHHHh
Confidence             35566667777778888888888888877765      6666666555443

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.66  E-value=1.1e-14  Score=126.58  Aligned_cols=241  Identities=8%  Similarity=-0.091  Sum_probs=177.2

Q ss_pred             cCChHHHHHHHHHHHhcCCC--CCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHH
Q 038303          187 RGFCKEAVSVFQEMEKTKEA--EPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGI  264 (461)
Q Consensus       187 ~~~~~~a~~~~~~m~~~~~~--~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  264 (461)
                      .|++++|+..|+++.+....  +.+..++..+...+...|+++.|...++.+.+.  .+.+..++..+...|...|++++
T Consensus        18 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~la~~~~~~~~~~~   95 (275)
T 1xnf_A           18 TLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAI--RPDMPEVFNYLGIYLTQAGNFDA   95 (275)
T ss_dssp             CHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHH
T ss_pred             cchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHccCHHH
Confidence            45677777777777664211  113455666666677777777777777777662  23345677888888888999999


Q ss_pred             HHHHHHHccC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhh
Q 038303          265 AIQVFNMLAY---KDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTV  341 (461)
Q Consensus       265 a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  341 (461)
                      |...|+++.+   .+...+..+...+...|++++|...++++.+.  .|+.......+..+...|++++|...++.... 
T Consensus        96 A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~-  172 (275)
T 1xnf_A           96 AYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFE-  172 (275)
T ss_dssp             HHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHh-
Confidence            9998888763   35778888999999999999999999999884  45555555555566777999999999988877 


Q ss_pred             cCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCch-----hhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChh
Q 038303          342 YEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAE-----WSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVG  415 (461)
Q Consensus       342 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  415 (461)
                       ..+++...+ .++..+...++.++|...+++. ...|.     ...+..+...+...|++++|...++++.+..|.+..
T Consensus       173 -~~~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~  250 (275)
T 1xnf_A          173 -KSDKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFV  250 (275)
T ss_dssp             -HSCCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCH
T ss_pred             -cCCcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchhHH
Confidence             234444444 4777788888899999999887 43342     467788888899999999999999999998887754


Q ss_pred             HHHHHHHHHhccCChhhHHHHH
Q 038303          416 TFALMSNTFAGADRWEDTNKIR  437 (461)
Q Consensus       416 ~~~~l~~~~~~~g~~~~A~~~~  437 (461)
                      .+   ..++...|++++|++.+
T Consensus       251 ~~---~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          251 EH---RYALLELSLLGQDQDDL  269 (275)
T ss_dssp             HH---HHHHHHHHHHHHC----
T ss_pred             HH---HHHHHHHHHHHhhHHHH
Confidence            44   56777889999988776

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.65  E-value=5.6e-14  Score=121.91  Aligned_cols=244  Identities=10%  Similarity=-0.031  Sum_probs=144.7

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcc--hHHHHHHHH
Q 038303          178 TTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSN--LVGNAVINM  255 (461)
Q Consensus       178 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~~li~~  255 (461)
                      ......+...|++++|...|++..+.  .+.+...+..+...+...|+++.|...++...+ .+..++.  ..+..+...
T Consensus         7 ~~~a~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~-~~~~~~~~~~~~~~lg~~   83 (272)
T 3u4t_A            7 FRYADFLFKNNNYAEAIEVFNKLEAK--KYNSPYIYNRRAVCYYELAKYDLAQKDIETYFS-KVNATKAKSADFEYYGKI   83 (272)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHHHT--TCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHT-TSCTTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHh-ccCchhHHHHHHHHHHHH
Confidence            34445555566666666666665553  222333555555555555555555555555554 2222221  235666666


Q ss_pred             HHhcCCHHHHHHHHHHccC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHH
Q 038303          256 YVKCGDVGIAIQVFNMLAY---KDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGL  332 (461)
Q Consensus       256 ~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~  332 (461)
                      +...|++++|.+.|++..+   .+...|..+...+...|++++|...+++..+.. +.+...+..+...+...+++++|.
T Consensus        84 ~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~  162 (272)
T 3u4t_A           84 LMKKGQDSLAIQQYQAAVDRDTTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVKAD  162 (272)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHcccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHHHH
Confidence            7777777777777766552   245667777777777777777777777776642 123345555552333345777777


Q ss_pred             HHHHHhHhhcCCCCCcchHHHHHHHHhhcCC---HHHHHHHHHhC----CCCchh------hHHHHHHHHHHhcCChHHH
Q 038303          333 ILFKAMSTVYEIVPQMQHYACVVDMYGRAGL---LEEAEAFIREM----PIEAEW------SVWGALLNACRIHRNDEMF  399 (461)
Q Consensus       333 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~----~~~p~~------~~~~~l~~~~~~~~~~~~a  399 (461)
                      ..|+++.+  ..+.+...+..+...+...|+   +++|...++++    ...|+.      ..|..+...|...|++++|
T Consensus       163 ~~~~~a~~--~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  240 (272)
T 3u4t_A          163 SSFVKVLE--LKPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKA  240 (272)
T ss_dssp             HHHHHHHH--HSTTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHH--hCccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHH
Confidence            77777766  223335566666666666666   66677666665    222331      3566666778888888888


Q ss_pred             HHHHHHHhhcCCCChhHHHHHHHHHhcc
Q 038303          400 DRIRQDLVNKKGVSVGTFALMSNTFAGA  427 (461)
Q Consensus       400 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~  427 (461)
                      ...++++.+..|.++.+...+.......
T Consensus       241 ~~~~~~al~~~p~~~~a~~~l~~~~~~~  268 (272)
T 3u4t_A          241 DAAWKNILALDPTNKKAIDGLKMKLEHH  268 (272)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHC------
T ss_pred             HHHHHHHHhcCccHHHHHHHhhhhhccc
Confidence            8888888888888887777776655444

>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=99.61  E-value=1.6e-13  Score=117.55  Aligned_cols=198  Identities=7%  Similarity=-0.064  Sum_probs=154.0

Q ss_pred             chHHHHHHHHHHhcCCHHHHHHHHHHccC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHH
Q 038303          246 NLVGNAVINMYVKCGDVGIAIQVFNMLAY---KDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISAC  322 (461)
Q Consensus       246 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~  322 (461)
                      ...+..+...+...|++++|...|+++.+   .+...+..+...+...|++++|.+.++++.+... .+...+..+...+
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~  115 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEIDPSSADAHAALAVVFQTEMEPKLADEEYRKALASDS-RNARVLNNYGGFL  115 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc-CcHHHHHHHHHHH
Confidence            34566777777888888888888877652   3566777888888888888888888888877532 2567777788888


Q ss_pred             HcCCChHHHHHHHHHhHhhcCCCC-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHH
Q 038303          323 SHGGLVDQGLILFKAMSTVYEIVP-QMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMF  399 (461)
Q Consensus       323 ~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a  399 (461)
                      ...|++++|..+++++.. .+..| +...+..+...+.+.|++++|...++++ ...| +...+..+...+...|++++|
T Consensus       116 ~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  194 (252)
T 2ho1_A          116 YEQKRYEEAYQRLLEASQ-DTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRNQPSVALEMADLLYKEREYVPA  194 (252)
T ss_dssp             HHTTCHHHHHHHHHHHTT-CTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhHHHHHHHHHHHHHh-CccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCCHHHH
Confidence            888888888888888866 33334 4667777888888888888888888887 2223 456677777788888999999


Q ss_pred             HHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcCC
Q 038303          400 DRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGL  445 (461)
Q Consensus       400 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~  445 (461)
                      ...++++.+..|.+...+..++..+.+.|++++|.+.++++.+...
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p  240 (252)
T 2ho1_A          195 RQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLYP  240 (252)
T ss_dssp             HHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCC
Confidence            9999988888888888888888888889999999999988877643

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.60  E-value=2.9e-13  Score=113.64  Aligned_cols=197  Identities=8%  Similarity=-0.026  Sum_probs=145.7

Q ss_pred             chHHHHHHHHHHhcCCHHHHHHHHHHccC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHH
Q 038303          246 NLVGNAVINMYVKCGDVGIAIQVFNMLAY---KDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISAC  322 (461)
Q Consensus       246 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~  322 (461)
                      ...+..+...+...|++++|.+.|+.+.+   .+...|..+...+...|++++|.+.+++..+.. +.+..++..+...+
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~   86 (225)
T 2vq2_A            8 SNIKTQLAMEYMRGQDYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWFL   86 (225)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHHH
Confidence            44556677777777888888777776652   345677777778888888888888888877753 22556777777788


Q ss_pred             HcC-CChHHHHHHHHHhHhhcCCCC-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHH
Q 038303          323 SHG-GLVDQGLILFKAMSTVYEIVP-QMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEM  398 (461)
Q Consensus       323 ~~~-~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~  398 (461)
                      ... |++++|...++.+.+ .+..| +...+..+...+...|++++|...++++ ...| +...+..+...+...|++++
T Consensus        87 ~~~~~~~~~A~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~  165 (225)
T 2vq2_A           87 CGRLNRPAESMAYFDKALA-DPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQFPPAFKELARTKMLAGQLGD  165 (225)
T ss_dssp             HTTTCCHHHHHHHHHHHHT-STTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHhcCcHHHHHHHHHHHHc-CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHH
Confidence            888 888888888888776 32323 3566777788888888888888888877 2233 35567777777888888888


Q ss_pred             HHHHHHHHhhcCC-CChhHHHHHHHHHhccCChhhHHHHHHHHHHcC
Q 038303          399 FDRIRQDLVNKKG-VSVGTFALMSNTFAGADRWEDTNKIRDEIRRMG  444 (461)
Q Consensus       399 a~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  444 (461)
                      |...++++.+..| .+...+..+...+...|+.++|..+++.+.+..
T Consensus       166 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  212 (225)
T 2vq2_A          166 ADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANF  212 (225)
T ss_dssp             HHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC
Confidence            8888888888777 778888888888888888888888888876543

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.60  E-value=4.9e-13  Score=115.94  Aligned_cols=218  Identities=8%  Similarity=-0.041  Sum_probs=127.7

Q ss_pred             HHHHHhcCCHHHHHHHHhhC---CCCCceeHHHHHHHHHcCCChHHHHHHHhcC-CCCCCch----hHHHHHHHhcccch
Q 038303           52 LHFYVTVKDIFSAHQIFNSV---VFPDVVSWTTIISGLSKCGFHKEAIDMFCGI-DVKPNAN----TLVSVLSACSSLVS  123 (461)
Q Consensus        52 l~~~~~~~~~~~a~~~~~~~---~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m-~~~p~~~----~~~~ll~~~~~~~~  123 (461)
                      ...+...|++++|...|++.   .+.+...+..+...+...|++++|++.+++. ...++..    .|..+...+...|+
T Consensus        10 a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~~   89 (272)
T 3u4t_A           10 ADFLFKNNNYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKGQ   89 (272)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHTTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHccc
Confidence            33444444455554444443   1122334455555555555555555555554 2112222    25556666666677


Q ss_pred             hHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCCC---CchhHHHHHHHHHHhcCChHHHHHHHHHH
Q 038303          124 HKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPK---RNVVSWTTMIGGYAERGFCKEAVSVFQEM  200 (461)
Q Consensus       124 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m  200 (461)
                      +++|...++...+..+. +..++..+...|...|++++|...|++..+   .+...|..+...+...+++++|.+.|++.
T Consensus        90 ~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a  168 (272)
T 3u4t_A           90 DSLAIQQYQAAVDRDTT-RLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTTTDPKVFYELGQAYYYNKEYVKADSSFVKV  168 (272)
T ss_dssp             HHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            77777777777766544 567788888889999999999999988875   34556766763444456999999999998


Q ss_pred             HhcCCCCCChhhHHHHHHHhhccch---hhhHHHHHHHHHhhcCCCCcc------hHHHHHHHHHHhcCCHHHHHHHHHH
Q 038303          201 EKTKEAEPNEATLVNVLSACSSISA---LSFGKYVHSYISTRYDLSVSN------LVGNAVINMYVKCGDVGIAIQVFNM  271 (461)
Q Consensus       201 ~~~~~~~~~~~~~~~~l~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~------~~~~~li~~~~~~g~~~~a~~~~~~  271 (461)
                      .+.  .+.+...+..+...+...++   .+.|...++...+...-.|+.      .++..+...|.+.|++++|.+.|++
T Consensus       169 ~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  246 (272)
T 3u4t_A          169 LEL--KPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKN  246 (272)
T ss_dssp             HHH--STTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHh--CccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            884  33345566666666666666   666777777666533222332      2333344444444444444444443


Q ss_pred             c
Q 038303          272 L  272 (461)
Q Consensus       272 ~  272 (461)
                      .
T Consensus       247 a  247 (272)
T 3u4t_A          247 I  247 (272)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.60  E-value=3.8e-13  Score=125.34  Aligned_cols=344  Identities=9%  Similarity=-0.042  Sum_probs=186.8

Q ss_pred             HHHHHHcCCChHHHHHHHhcCCCCCCchhHHHHHHHhcccchh---HHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcC-
Q 038303           82 IISGLSKCGFHKEAIDMFCGIDVKPNANTLVSVLSACSSLVSH---KLGKAIHAHSLRNLNENNIILDNAILDFYIRCG-  157 (461)
Q Consensus        82 li~~~~~~~~~~~a~~~~~~m~~~p~~~~~~~ll~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-  157 (461)
                      +...+.+.|++++|++.|++.--..+...+..+...+...|+.   ++|...|+...+.    +...+..+...+...| 
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~~~~~   84 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELGYSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLAAKPG   84 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTCCTGGGTCC--------------------------------CHHHHHHHHHTC--
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHHhCCC
Confidence            3445556667777777776660001233344444444555555   6666666666644    3334444554344433 


Q ss_pred             ----ChhhHHHHHhcCCC-CchhHHHHHHHHHHhcCChHH---HHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhH
Q 038303          158 ----SLASCGYLFVKMPK-RNVVSWTTMIGGYAERGFCKE---AVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFG  229 (461)
Q Consensus       158 ----~~~~a~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~---a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a  229 (461)
                          +.++|..+|++..+ .+...+..|...|...+..++   +.+.+......|    +......+...+...+.++.+
T Consensus        85 ~~~~~~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g----~~~a~~~Lg~~y~~~~~~~~~  160 (452)
T 3e4b_A           85 ATEAEHHEAESLLKKAFANGEGNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG----YPEAGLAQVLLYRTQGTYDQH  160 (452)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCSSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT----CTTHHHHHHHHHHHHTCGGGG
T ss_pred             CCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC----CHHHHHHHHHHHHcCCCcccC
Confidence                55666666666544 234456666666665554333   333333333332    233444445555555544444


Q ss_pred             HHHHHHHHhhcCCCCcchHHHHHHHHHHhcC---CHHHHHHHHHHccCC---ChhhHHHHHHHHHhc----CChHHHHHH
Q 038303          230 KYVHSYISTRYDLSVSNLVGNAVINMYVKCG---DVGIAIQVFNMLAYK---DKISWSTVISGLAMN----GCGRQALQL  299 (461)
Q Consensus       230 ~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g---~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~----~~~~~a~~~  299 (461)
                      ......+.+ .-...++..+..|...|.+.|   +.++|.+.|+...+.   +...+..+...|...    +++++|...
T Consensus       161 ~~~a~~~~~-~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~  239 (452)
T 3e4b_A          161 LDDVERICK-AALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDEKTAQAL  239 (452)
T ss_dssp             HHHHHHHHH-HHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCHHHHHHH
T ss_pred             HHHHHHHHH-HHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCHHHHHHH
Confidence            333333322 122233346677777777788   777888888776532   233335566666544    678888888


Q ss_pred             HHHHHhcCCCCCHhHHHHHHHH-H--HcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcC-----CHHHHHHHH
Q 038303          300 FSLMIINAVFPDDVTFIALISA-C--SHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAG-----LLEEAEAFI  371 (461)
Q Consensus       300 ~~~m~~~g~~p~~~~~~~ll~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-----~~~~A~~~~  371 (461)
                      |++.. .|   +...+..+... +  ...+++++|...|++..+ .|   +...+..|...|. .|     ++++|.++|
T Consensus       240 ~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~-~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~  310 (452)
T 3e4b_A          240 LEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRA-AD---QPRAELLLGKLYY-EGKWVPADAKAAEAHF  310 (452)
T ss_dssp             HHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHH-TT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHH
T ss_pred             HHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH-CC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHH
Confidence            88876 32   34455555554 3  457888888888888776 34   4556666666665 44     888888888


Q ss_pred             HhCCCCchhhHHHHHHHHHHh----cCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhc----cCChhhHHHHHHHHHHc
Q 038303          372 REMPIEAEWSVWGALLNACRI----HRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAG----ADRWEDTNKIRDEIRRM  443 (461)
Q Consensus       372 ~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~~  443 (461)
                      ++.- ..+...+..+...|..    ..+.++|...|++..+..  ++.....|+..|..    ..+.++|...+++..+.
T Consensus       311 ~~Aa-~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g--~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~  387 (452)
T 3e4b_A          311 EKAV-GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNG--QNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQ  387 (452)
T ss_dssp             HTTT-TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTT--CTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTT
T ss_pred             HHHh-CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhC--hHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHC
Confidence            8876 5555566666655554    347888888888877643  34567777777764    45788888888888777


Q ss_pred             CCc
Q 038303          444 GLK  446 (461)
Q Consensus       444 g~~  446 (461)
                      |..
T Consensus       388 g~~  390 (452)
T 3e4b_A          388 DTP  390 (452)
T ss_dssp             CCH
T ss_pred             CCH
Confidence            653

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.59  E-value=5.2e-14  Score=119.82  Aligned_cols=199  Identities=9%  Similarity=0.017  Sum_probs=135.5

Q ss_pred             CcchHHHHHHHHHHhcCCHHHHHHHHHHccCC---ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHH
Q 038303          244 VSNLVGNAVINMYVKCGDVGIAIQVFNMLAYK---DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALIS  320 (461)
Q Consensus       244 ~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~  320 (461)
                      .....+..+...+...|++++|...|+++.+.   +...+..+...+...|++++|...+++..+... .+...+..+..
T Consensus        21 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~   99 (243)
T 2q7f_A           21 MASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALELDS-SAATAYYGAGN   99 (243)
T ss_dssp             ---------------------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-cchHHHHHHHH
Confidence            33455566677777778888888887776532   456677777788888888888888888777532 25567777777


Q ss_pred             HHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCC-chhhHHHHHHHHHHhcCChHH
Q 038303          321 ACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIE-AEWSVWGALLNACRIHRNDEM  398 (461)
Q Consensus       321 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~~~~~~  398 (461)
                      .+...|++++|...++++.+  ..+.+...+..+...+.+.|++++|...++++ ... .+...+..+...+...|++++
T Consensus       100 ~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  177 (243)
T 2q7f_A          100 VYVVKEMYKEAKDMFEKALR--AGMENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNENDTEARFQFGMCLANEGMLDE  177 (243)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH--HTCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHHhccHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHcCCHHH
Confidence            88888888888888888776  23445667777888888888888888888877 222 345566777777888888888


Q ss_pred             HHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcCC
Q 038303          399 FDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGL  445 (461)
Q Consensus       399 a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~  445 (461)
                      |+..++++.+..|.+..++..++.+|.+.|++++|.+.++++.+...
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            88888888888888888888888888888888888888888877543

>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=99.59  E-value=2.1e-11  Score=117.57  Aligned_cols=400  Identities=7%  Similarity=-0.032  Sum_probs=249.9

Q ss_pred             CCcchHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCC---HHHHHHHHhhCCC-----CCceeH
Q 038303            8 YNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKD---IFSAHQIFNSVVF-----PDVVSW   79 (461)
Q Consensus         8 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~---~~~a~~~~~~~~~-----~~~~~~   79 (461)
                      -|..+|..++..+...+.++.+..+|+.+... ++.+...|..-+..-.+.++   ++.+.++|++...     |++..|
T Consensus        64 ~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~LW  142 (679)
T 4e6h_A           64 TDIFLYVKLLKHHVSLKQWKQVYETFDKLHDR-FPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLSLW  142 (679)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHHHH
T ss_pred             CCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHHHH
Confidence            46677888888888888889999999988876 34466777777777777787   8899999987732     677777


Q ss_pred             HHHHHHHHcCCCh--------HHHHHHHhcC----CC-CCCc-hhHHHHHHHhc---------ccchhHHHHHHHHHHHh
Q 038303           80 TTIISGLSKCGFH--------KEAIDMFCGI----DV-KPNA-NTLVSVLSACS---------SLVSHKLGKAIHAHSLR  136 (461)
Q Consensus        80 ~~li~~~~~~~~~--------~~a~~~~~~m----~~-~p~~-~~~~~ll~~~~---------~~~~~~~a~~~~~~~~~  136 (461)
                      ...+.-..+.++.        +...++|+..    |. .|+. ..|...+....         ..++++.+..+|+.++.
T Consensus       143 ~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~raL~  222 (679)
T 4e6h_A          143 LSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTLLC  222 (679)
T ss_dssp             HHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHHHh
Confidence            7766654444432        2334666654    66 6654 45555554332         23456778888888875


Q ss_pred             hcCCCChhHHHHHHHHHHH-------------cCChhhHHHHHhc-------CCC--------------C--c------h
Q 038303          137 NLNENNIILDNAILDFYIR-------------CGSLASCGYLFVK-------MPK--------------R--N------V  174 (461)
Q Consensus       137 ~~~~~~~~~~~~l~~~~~~-------------~g~~~~a~~~~~~-------~~~--------------~--~------~  174 (461)
                      .....-..+|......-..             ..+++.|...+.+       +.+              |  +      .
T Consensus       223 iP~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~~ql  302 (679)
T 4e6h_A          223 QPMDCLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQATESNLPKPNEYDVQQL  302 (679)
T ss_dssp             SCCSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCCHHHH
T ss_pred             CccHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccccccchhccCCCCchhHHHHH
Confidence            3111112333222111111             1122333333332       111              0  0      1


Q ss_pred             hHHHHHHHHHHhcC-------ChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHH-HHHHHHHhhcCCCCcc
Q 038303          175 VSWTTMIGGYAERG-------FCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGK-YVHSYISTRYDLSVSN  246 (461)
Q Consensus       175 ~~~~~li~~~~~~~-------~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~  246 (461)
                      ..|...+.---..+       ..+.+..+|++....  ++-+...|......+...|+.+.|. .+++....  .++.+.
T Consensus       303 ~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~--~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~--~~P~s~  378 (679)
T 4e6h_A          303 LIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH--VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQ--CIPNSA  378 (679)
T ss_dssp             HHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH--TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHH--HCTTCH
T ss_pred             HHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH--cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH--hCCCCH
Confidence            23444444322222       123456677777775  5556677777777777778888885 88888766  344455


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHccC-------------CC------------hhhHHHHHHHHHhcCChHHHHHHHH
Q 038303          247 LVGNAVINMYVKCGDVGIAIQVFNMLAY-------------KD------------KISWSTVISGLAMNGCGRQALQLFS  301 (461)
Q Consensus       247 ~~~~~li~~~~~~g~~~~a~~~~~~~~~-------------~~------------~~~~~~l~~~~~~~~~~~~a~~~~~  301 (461)
                      ..+-..+....+.|++++|.++|+.+..             |+            ...|...+....+.|+.+.|..+|.
T Consensus       379 ~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~  458 (679)
T 4e6h_A          379 VLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFG  458 (679)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            5667777777888888888888877653             21            2357777777777888888888888


Q ss_pred             HHHhcCCCCCHhHHHHHHHHHHc-CCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-
Q 038303          302 LMIINAVFPDDVTFIALISACSH-GGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-  378 (461)
Q Consensus       302 ~m~~~g~~p~~~~~~~ll~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-  378 (461)
                      +..+.-..+....|......-.+ .++.+.|..+|+...+.  ++.+...+...++.....|+.+.|..+|++. ...| 
T Consensus       459 ~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~--~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~  536 (679)
T 4e6h_A          459 KCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKY--FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISD  536 (679)
T ss_dssp             HHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSS
T ss_pred             HHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCC
Confidence            88775111122333332222223 34588888888888773  4445566677777777888888888888887 2223 


Q ss_pred             ---hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCh
Q 038303          379 ---EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSV  414 (461)
Q Consensus       379 ---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  414 (461)
                         ....|...+..-.+.|+.+.+..+.+++.+..|.+.
T Consensus       537 ~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~~~  575 (679)
T 4e6h_A          537 SHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPEVN  575 (679)
T ss_dssp             TTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTTCC
T ss_pred             HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCc
Confidence               344677777777788888888888888888777653

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.59  E-value=1.3e-13  Score=115.09  Aligned_cols=191  Identities=12%  Similarity=-0.048  Sum_probs=91.1

Q ss_pred             ChhHHHHHHHHHHHcCChhhHHHHHhcCCC---CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHH
Q 038303          142 NIILDNAILDFYIRCGSLASCGYLFVKMPK---RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLS  218 (461)
Q Consensus       142 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~  218 (461)
                      +...+..+...+.+.|++++|...|++..+   .+...|..+...+.+.|++++|...|++..+.  .|.+..       
T Consensus         4 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~-------   74 (217)
T 2pl2_A            4 AEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVAR--TPRYLG-------   74 (217)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHH-------
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHH-------
Confidence            444445555555555555555555554432   23444555555555555555555555555442  112222       


Q ss_pred             HhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhc-----------CCHHHHHHHHHHccC--C-ChhhHHHHH
Q 038303          219 ACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKC-----------GDVGIAIQVFNMLAY--K-DKISWSTVI  284 (461)
Q Consensus       219 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~-----------g~~~~a~~~~~~~~~--~-~~~~~~~l~  284 (461)
                                                   .+..+...+.+.           |++++|...|++..+  | +...|..+.
T Consensus        75 -----------------------------a~~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~lg  125 (217)
T 2pl2_A           75 -----------------------------GYMVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPRYAPLHLQRG  125 (217)
T ss_dssp             -----------------------------HHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             -----------------------------HHHHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcccHHHHHHHH
Confidence                                         333333334333           555555555555442  2 344555555


Q ss_pred             HHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCH
Q 038303          285 SGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLL  364 (461)
Q Consensus       285 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  364 (461)
                      ..+...|++++|+..|++..+..  .+...+..+..++...|++++|+..|++..+  ..+.+...+..+...+.+.|++
T Consensus       126 ~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--~~P~~~~~~~~la~~~~~~g~~  201 (217)
T 2pl2_A          126 LVYALLGERDKAEASLKQALALE--DTPEIRSALAELYLSMGRLDEALAQYAKALE--QAPKDLDLRVRYASALLLKGKA  201 (217)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHTC----
T ss_pred             HHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCChHHHHHHHHHHHHccCH
Confidence            56666666666666666665554  4555555566666666666666666666555  1223345555555566666666


Q ss_pred             HHHHHHHHhC
Q 038303          365 EEAEAFIREM  374 (461)
Q Consensus       365 ~~A~~~~~~~  374 (461)
                      ++|...+++.
T Consensus       202 ~~A~~~~~~~  211 (217)
T 2pl2_A          202 EEAARAAALE  211 (217)
T ss_dssp             ----------
T ss_pred             HHHHHHHHHH
Confidence            6666555543

>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=99.59  E-value=7.4e-13  Score=113.38  Aligned_cols=205  Identities=10%  Similarity=-0.022  Sum_probs=135.2

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHH
Q 038303          174 VVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVI  253 (461)
Q Consensus       174 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li  253 (461)
                      ...|..+...+...|++++|...|+++.+.  .+.+...+                                    ..+.
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~------------------------------------~~la   78 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEI--DPSSADAH------------------------------------AALA   78 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHH--CTTCHHHH------------------------------------HHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCChHHHH------------------------------------HHHH
Confidence            566777777888888888888888887764  22333444                                    4444


Q ss_pred             HHHHhcCCHHHHHHHHHHccC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHhHHHHHHHHHHcCCChH
Q 038303          254 NMYVKCGDVGIAIQVFNMLAY---KDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFP-DDVTFIALISACSHGGLVD  329 (461)
Q Consensus       254 ~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~  329 (461)
                      ..|...|++++|.+.++++.+   .+...+..+...+...|++++|.+.++++.+.+..| +...+..+...+...|+++
T Consensus        79 ~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  158 (252)
T 2ho1_A           79 VVFQTEMEPKLADEEYRKALASDSRNARVLNNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPA  158 (252)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHH
Confidence            455555555555555554431   244556666666777777777777777776633334 3355666667777777888


Q ss_pred             HHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCC-chhhHHHHHHHHHHhcCChHHHHHHHHHHh
Q 038303          330 QGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIE-AEWSVWGALLNACRIHRNDEMFDRIRQDLV  407 (461)
Q Consensus       330 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  407 (461)
                      +|...++++.+.  .+.+...+..+...+...|++++|...++++ ... .+...+..+...+...|+.++|.+.++++.
T Consensus       159 ~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~  236 (252)
T 2ho1_A          159 QAKEYFEKSLRL--NRNQPSVALEMADLLYKEREYVPARQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLK  236 (252)
T ss_dssp             HHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            888777777662  2334666777777788888888888888776 333 344456666666778888888888888888


Q ss_pred             hcCCCChhHHH
Q 038303          408 NKKGVSVGTFA  418 (461)
Q Consensus       408 ~~~~~~~~~~~  418 (461)
                      +..|.++....
T Consensus       237 ~~~p~~~~~~~  247 (252)
T 2ho1_A          237 RLYPGSLEYQE  247 (252)
T ss_dssp             HHCTTSHHHHH
T ss_pred             HHCCCCHHHHH
Confidence            87777765543

>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=99.59  E-value=1.3e-12  Score=113.31  Aligned_cols=224  Identities=8%  Similarity=-0.088  Sum_probs=146.4

Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHH
Q 038303          173 NVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAV  252 (461)
Q Consensus       173 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  252 (461)
                      +..++..+...+...|++++|...|++..+.+    +..                                    .+..+
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~----~~~------------------------------------a~~~l   44 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK----ENS------------------------------------GCFNL   44 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT----CHH------------------------------------HHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCC----CHH------------------------------------HHHHH
Confidence            44556666666777777777777777766532    122                                    33444


Q ss_pred             HHHHHh----cCCHHHHHHHHHHccC-CChhhHHHHHHHHHh----cCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHH
Q 038303          253 INMYVK----CGDVGIAIQVFNMLAY-KDKISWSTVISGLAM----NGCGRQALQLFSLMIINAVFPDDVTFIALISACS  323 (461)
Q Consensus       253 i~~~~~----~g~~~~a~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~  323 (461)
                      ...|..    .+++++|...|++..+ .+...+..+...+..    .+++++|+..|++..+.+   +...+..+...|.
T Consensus        45 g~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~  121 (273)
T 1ouv_A           45 GVLYYQGQGVEKNLKKAASFYAKACDLNYSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYH  121 (273)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH
T ss_pred             HHHHHcCCCcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHH
Confidence            455555    5666666666655442 245556666666666    677777777777776653   5566666666676


Q ss_pred             c----CCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhh----cCCHHHHHHHHHhCCCCchhhHHHHHHHHHHh---
Q 038303          324 H----GGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGR----AGLLEEAEAFIREMPIEAEWSVWGALLNACRI---  392 (461)
Q Consensus       324 ~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~---  392 (461)
                      .    .+++++|+..|++..+ .+   +...+..+...|..    .+++++|...+++.-...+...+..+...|..   
T Consensus       122 ~~~~~~~~~~~A~~~~~~a~~-~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~  197 (273)
T 1ouv_A          122 DGKVVTRDFKKAVEYFTKACD-LN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEG  197 (273)
T ss_dssp             HCSSSCCCHHHHHHHHHHHHH-TT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCS
T ss_pred             cCCCcccCHHHHHHHHHHHHh-cC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCC
Confidence            6    7777777777777766 23   44555666666666    77777777777776212234556666666777   


Q ss_pred             -cCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhc----cCChhhHHHHHHHHHHcCC
Q 038303          393 -HRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAG----ADRWEDTNKIRDEIRRMGL  445 (461)
Q Consensus       393 -~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~~g~  445 (461)
                       .+++++|...+++..+..+  +..+..++.+|.+    .+++++|.+.+++..+.|.
T Consensus       198 ~~~~~~~A~~~~~~a~~~~~--~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~~  253 (273)
T 1ouv_A          198 ATKNFKEALARYSKACELEN--GGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGA  253 (273)
T ss_dssp             SCCCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             CCccHHHHHHHHHHHHhCCC--HHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcCC
Confidence             7888888888888777644  5677788888887    7888888888888877663

>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=99.58  E-value=5.3e-13  Score=120.59  Aligned_cols=246  Identities=8%  Similarity=-0.030  Sum_probs=175.5

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccch-hhhHHHHHHHHHhhcCCCCcchHHHHH
Q 038303          174 VVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISA-LSFGKYVHSYISTRYDLSVSNLVGNAV  252 (461)
Q Consensus       174 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~~l  252 (461)
                      ...|+.+...+.+.|++++|+..+++..+.  .+-+...|..+..++...|+ +++|...++.+.+  -.+-+..+|..+
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l--~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~--l~P~~~~a~~~~  172 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIEL--NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIE--EQPKNYQVWHHR  172 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH--HCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHh--CccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHH--HCCCCHHHHHHH
Confidence            345666666777777777777777777763  33345556666666666665 7777777776665  223345667778


Q ss_pred             HHHHHhcCCHHHHHHHHHHccC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHc-CCCh
Q 038303          253 INMYVKCGDVGIAIQVFNMLAY---KDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSH-GGLV  328 (461)
Q Consensus       253 i~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~-~~~~  328 (461)
                      ..++...|++++|+..|+++.+   .+...|..+..++.+.|++++|+..++++++.... +...|+.+..++.. .|..
T Consensus       173 g~~~~~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~-~~~a~~~lg~~l~~l~~~~  251 (382)
T 2h6f_A          173 RVLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYN  251 (382)
T ss_dssp             HHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSC
T ss_pred             HHHHHHccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCcc
Confidence            8888888888888888887763   36677888888888889999999999998886433 56778888888888 5665


Q ss_pred             HHH-----HHHHHHhHhhcCCCCCcchHHHHHHHHhhcC--CHHHHHHHHHhCCCCc-hhhHHHHHHHHHHhcC------
Q 038303          329 DQG-----LILFKAMSTVYEIVPQMQHYACVVDMYGRAG--LLEEAEAFIREMPIEA-EWSVWGALLNACRIHR------  394 (461)
Q Consensus       329 ~~a-----~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~p-~~~~~~~l~~~~~~~~------  394 (461)
                      ++|     +..+++...  --+-+...|..+...+.+.|  ++++|.+.+.++...| +...+..+...|.+.|      
T Consensus       252 ~eA~~~~el~~~~~Al~--l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~~~~p~~~~al~~La~~~~~~~~~~~~~  329 (382)
T 2h6f_A          252 DRAVLEREVQYTLEMIK--LVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDN  329 (382)
T ss_dssp             SHHHHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSS
T ss_pred             hHHHHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHccCccchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHhcccccc
Confidence            777     477777766  22344667777888888877  5888888888774344 3445666777776653      


Q ss_pred             ---ChHHHHHHHHHH-hhcCCCChhHHHHHHHHHhc
Q 038303          395 ---NDEMFDRIRQDL-VNKKGVSVGTFALMSNTFAG  426 (461)
Q Consensus       395 ---~~~~a~~~~~~~-~~~~~~~~~~~~~l~~~~~~  426 (461)
                         ..++|+.+++++ .+.+|.....|..++..+..
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               258899999998 78888888888888776654

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.58  E-value=1.2e-13  Score=117.57  Aligned_cols=212  Identities=8%  Similarity=-0.001  Sum_probs=137.2

Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHH
Q 038303          173 NVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAV  252 (461)
Q Consensus       173 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  252 (461)
                      ....|..+...+...|++++|..+|+++.+.  .+.+                                    ...+..+
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~--~~~~------------------------------------~~~~~~l   63 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEE--NKED------------------------------------AIPYINF   63 (243)
T ss_dssp             --------------------CCTTHHHHHTT--CTTC------------------------------------HHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHh--Cccc------------------------------------HHHHHHH
Confidence            3344555566666666666666666666553  2222                                    3344555


Q ss_pred             HHHHHhcCCHHHHHHHHHHcc---CCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChH
Q 038303          253 INMYVKCGDVGIAIQVFNMLA---YKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVD  329 (461)
Q Consensus       253 i~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~  329 (461)
                      ...+...|++++|...++++.   ..+...+..+...+...|++++|.+.++++.+.. +.+...+..+...+...|+++
T Consensus        64 a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~  142 (243)
T 2q7f_A           64 ANLLSSVNELERALAFYDKALELDSSAATAYYGAGNVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPK  142 (243)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHH
Confidence            566666666666666666554   2255667777778888888888888888887753 235667777888888888888


Q ss_pred             HHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CC-CchhhHHHHHHHHHHhcCChHHHHHHHHHHh
Q 038303          330 QGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PI-EAEWSVWGALLNACRIHRNDEMFDRIRQDLV  407 (461)
Q Consensus       330 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  407 (461)
                      +|...++++.+  ..+.+...+..+...+.+.|++++|...++++ .. +.+...+..+...+...|++++|...++++.
T Consensus       143 ~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~  220 (243)
T 2q7f_A          143 LALPYLQRAVE--LNENDTEARFQFGMCLANEGMLDEALSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAI  220 (243)
T ss_dssp             HHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHH--hCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            88888888876  23445677788888888889999999888887 22 2345577778888899999999999999999


Q ss_pred             hcCCCChhHHHHHHHHHh
Q 038303          408 NKKGVSVGTFALMSNTFA  425 (461)
Q Consensus       408 ~~~~~~~~~~~~l~~~~~  425 (461)
                      +..|.+..++..+.....
T Consensus       221 ~~~p~~~~~~~~~~~l~~  238 (243)
T 2q7f_A          221 DIQPDHMLALHAKKLLGH  238 (243)
T ss_dssp             HHCTTCHHHHHHHTC---
T ss_pred             ccCcchHHHHHHHHHHHh
Confidence            988888888776665443

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.57  E-value=3.9e-14  Score=130.57  Aligned_cols=297  Identities=11%  Similarity=-0.016  Sum_probs=186.7

Q ss_pred             CchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCC---hhHHHHHHHHHHHcCChhhHHHHHhcCCC---------Cch
Q 038303          107 NANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENN---IILDNAILDFYIRCGSLASCGYLFVKMPK---------RNV  174 (461)
Q Consensus       107 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---------~~~  174 (461)
                      ....+......+...|++++|...++.+.+..+...   ..++..+...+...|++++|...+++..+         ...
T Consensus         8 ~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~   87 (406)
T 3sf4_A            8 SCLELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEA   87 (406)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHH
Confidence            344455666678888888888888888888744311   24667777888888888888887776532         124


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCC----hhhHHHHHHHhhccch-------------hhhHHHHHHHHH
Q 038303          175 VSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPN----EATLVNVLSACSSISA-------------LSFGKYVHSYIS  237 (461)
Q Consensus       175 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~~~l~~~~~~~~-------------~~~a~~~~~~~~  237 (461)
                      .++..+...+...|++++|...+++..+.....++    ..++..+...+...|+             .+.+...     
T Consensus        88 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~-----  162 (406)
T 3sf4_A           88 KASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDA-----  162 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHH-----
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHH-----
Confidence            46677777788888888888888877653100111    1233334444444444             0000000     


Q ss_pred             hhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccC-----C----ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCC
Q 038303          238 TRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAY-----K----DKISWSTVISGLAMNGCGRQALQLFSLMIINAV  308 (461)
Q Consensus       238 ~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-----~----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~  308 (461)
                                              +++|...+++...     .    ...++..+...+...|++++|...+++..+...
T Consensus       163 ------------------------~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~  218 (406)
T 3sf4_A          163 ------------------------LQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAK  218 (406)
T ss_dssp             ------------------------HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHH
T ss_pred             ------------------------HHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHH
Confidence                                    4444444433321     1    123566677777777888888777777654211


Q ss_pred             -CCC----HhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCC----cchHHHHHHHHhhcCCHHHHHHHHHhC-CC--
Q 038303          309 -FPD----DVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQ----MQHYACVVDMYGRAGLLEEAEAFIREM-PI--  376 (461)
Q Consensus       309 -~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~--  376 (461)
                       .++    ..++..+...+...|++++|...+++......-.++    ..++..+...|...|++++|...+++. ..  
T Consensus       219 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~  298 (406)
T 3sf4_A          219 EFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQ  298 (406)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             hcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHH
Confidence             111    136677777788888888888888777552111111    456677788888888888888888776 11  


Q ss_pred             ----Cc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcC------CCChhHHHHHHHHHhccCChhh
Q 038303          377 ----EA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKK------GVSVGTFALMSNTFAGADRWED  432 (461)
Q Consensus       377 ----~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~l~~~~~~~g~~~~  432 (461)
                          .+ ...++..+...+...|++++|...+++..+..      +....++..++..+...|+...
T Consensus       299 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  365 (406)
T 3sf4_A          299 ELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLSYS  365 (406)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTSC
T ss_pred             hcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHhHH
Confidence                11 13356667777888999999999999887632      2335678888888888887633

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.57  E-value=7.9e-13  Score=110.91  Aligned_cols=208  Identities=10%  Similarity=-0.018  Sum_probs=144.6

Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHH
Q 038303          173 NVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAV  252 (461)
Q Consensus       173 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  252 (461)
                      +...|..+...+...|++++|...++++.+.  .+.+..                                    .+..+
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~------------------------------------~~~~l   48 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKS--DPKNEL------------------------------------AWLVR   48 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHH------------------------------------HHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh--CccchH------------------------------------HHHHH
Confidence            3455666677777777777777777776663  222233                                    44555


Q ss_pred             HHHHHhcCCHHHHHHHHHHccC---CChhhHHHHHHHHHhc-CChHHHHHHHHHHHhcCCCCC-HhHHHHHHHHHHcCCC
Q 038303          253 INMYVKCGDVGIAIQVFNMLAY---KDKISWSTVISGLAMN-GCGRQALQLFSLMIINAVFPD-DVTFIALISACSHGGL  327 (461)
Q Consensus       253 i~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~-~~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~  327 (461)
                      ...|...|++++|.+.++++.+   .+...+..+...+... |++++|...++++.+.+..|+ ...+..+..++...|+
T Consensus        49 ~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  128 (225)
T 2vq2_A           49 AEIYQYLKVNDKAQESFRQALSIKPDSAEINNNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQ  128 (225)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCC
Confidence            5566666666666666665542   2456677777778888 888888888888877333343 4667777788888888


Q ss_pred             hHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCC--chhhHHHHHHHHHHhcCChHHHHHHHH
Q 038303          328 VDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIE--AEWSVWGALLNACRIHRNDEMFDRIRQ  404 (461)
Q Consensus       328 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~--p~~~~~~~l~~~~~~~~~~~~a~~~~~  404 (461)
                      +++|...++++.+  ..+.+...+..+...+.+.|++++|...++++ ...  .+...+..+...+...|+.+.+..+++
T Consensus       129 ~~~A~~~~~~~~~--~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  206 (225)
T 2vq2_A          129 FGLAEAYLKRSLA--AQPQFPPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEA  206 (225)
T ss_dssp             HHHHHHHHHHHHH--HSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH--hCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            8888888888876  23345677788888888889999998888887 222  344456666666788899999999998


Q ss_pred             HHhhcCCCChhHHHHH
Q 038303          405 DLVNKKGVSVGTFALM  420 (461)
Q Consensus       405 ~~~~~~~~~~~~~~~l  420 (461)
                      .+.+..|.++.....+
T Consensus       207 ~~~~~~p~~~~~~~~l  222 (225)
T 2vq2_A          207 QLQANFPYSEELQTVL  222 (225)
T ss_dssp             HHHHHCTTCHHHHHHH
T ss_pred             HHHHhCCCCHHHHHHh
Confidence            8888888777665443

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.57  E-value=5.7e-14  Score=129.80  Aligned_cols=262  Identities=10%  Similarity=-0.041  Sum_probs=161.5

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCCCCh----hhHHHHHHHhhccchhhhHHHHHHHHHhhc---C-CCCcchHHHH
Q 038303          180 MIGGYAERGFCKEAVSVFQEMEKTKEAEPNE----ATLVNVLSACSSISALSFGKYVHSYISTRY---D-LSVSNLVGNA  251 (461)
Q Consensus       180 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~----~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~---~-~~~~~~~~~~  251 (461)
                      +...+...|++++|...|++..+..  +.+.    ..+..+...+...|+++.|...++...+..   + ......++..
T Consensus        54 ~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  131 (411)
T 4a1s_A           54 EGERLCNAGDCRAGVAFFQAAIQAG--TEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGN  131 (411)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHhCcHHHHHHHHHHHHHhc--ccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHH
Confidence            3334444455555555555544421  1111    233344444444455555554444443310   1 1112334566


Q ss_pred             HHHHHHhcCCHHHHHHHHHHccCC---------ChhhHHHHHHHHHhcCC-----------------hHHHHHHHHHHHh
Q 038303          252 VINMYVKCGDVGIAIQVFNMLAYK---------DKISWSTVISGLAMNGC-----------------GRQALQLFSLMII  305 (461)
Q Consensus       252 li~~~~~~g~~~~a~~~~~~~~~~---------~~~~~~~l~~~~~~~~~-----------------~~~a~~~~~~m~~  305 (461)
                      +...|...|++++|...+++..+.         ...++..+...+...|+                 +++|.+.+++..+
T Consensus       132 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~  211 (411)
T 4a1s_A          132 LGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLK  211 (411)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHH
Confidence            666677777777777776655421         23456667777777777                 7777777776544


Q ss_pred             c----CCCC-CHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCC----cchHHHHHHHHhhcCCHHHHHHHHHhC-C
Q 038303          306 N----AVFP-DDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQ----MQHYACVVDMYGRAGLLEEAEAFIREM-P  375 (461)
Q Consensus       306 ~----g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~  375 (461)
                      .    +-.| ...++..+...+...|++++|...+++..+...-.++    ...+..+...|...|++++|...+++. .
T Consensus       212 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  291 (411)
T 4a1s_A          212 LMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLA  291 (411)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            2    1111 1246677777888888888888888877652111111    236777888888889999988888876 1


Q ss_pred             CCc-------hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCC------CChhHHHHHHHHHhccCChhhHHHHHHHHHH
Q 038303          376 IEA-------EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKG------VSVGTFALMSNTFAGADRWEDTNKIRDEIRR  442 (461)
Q Consensus       376 ~~p-------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~------~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  442 (461)
                      ..+       ...++..+...+...|++++|...++++.+..+      ....++..++.+|.+.|++++|.+.+++..+
T Consensus       292 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  371 (411)
T 4a1s_A          292 LAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQ  371 (411)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            111       134666777778889999999999998886322      2245788899999999999999999988765


Q ss_pred             c
Q 038303          443 M  443 (461)
Q Consensus       443 ~  443 (461)
                      .
T Consensus       372 ~  372 (411)
T 4a1s_A          372 L  372 (411)
T ss_dssp             H
T ss_pred             H
Confidence            4

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.57  E-value=1.5e-13  Score=119.37  Aligned_cols=118  Identities=10%  Similarity=-0.117  Sum_probs=66.8

Q ss_pred             hcccchhHHHHHHHHHHHhhcCC---CChhHHHHHHHHHHHcCChhhHHHHHhcCCC---CchhHHHHHHHHHHhcCChH
Q 038303          118 CSSLVSHKLGKAIHAHSLRNLNE---NNIILDNAILDFYIRCGSLASCGYLFVKMPK---RNVVSWTTMIGGYAERGFCK  191 (461)
Q Consensus       118 ~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~  191 (461)
                      ....|++++|...++.+.+....   .+..++..+...+...|++++|...|++..+   .+..+|..+...+...|+++
T Consensus        15 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~   94 (275)
T 1xnf_A           15 LQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFD   94 (275)
T ss_dssp             CCCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHH
T ss_pred             cCccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHccCHH
Confidence            34557777777777777765321   1345566666666666666666666666543   34556666666666666666


Q ss_pred             HHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHH
Q 038303          192 EAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYIS  237 (461)
Q Consensus       192 ~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~  237 (461)
                      +|...|++..+.  .+.+...+..+...+...|++++|...++.+.
T Consensus        95 ~A~~~~~~al~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~  138 (275)
T 1xnf_A           95 AAYEAFDSVLEL--DPTYNYAHLNRGIALYYGGRDKLAQDDLLAFY  138 (275)
T ss_dssp             HHHHHHHHHHHH--CTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhc--CccccHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            666666666653  22233344444444444444444444444443

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.56  E-value=1.5e-13  Score=126.69  Aligned_cols=265  Identities=11%  Similarity=0.028  Sum_probs=180.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCC----hhhHHHHHHHhhccchhhhHHHHHHHHHhh---cCCCC-cchH
Q 038303          177 WTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPN----EATLVNVLSACSSISALSFGKYVHSYISTR---YDLSV-SNLV  248 (461)
Q Consensus       177 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~---~~~~~-~~~~  248 (461)
                      +......+...|++++|...|++..+..  +.+    ...+..+...+...|+++.|...++.....   .+..| ...+
T Consensus        12 l~~~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~   89 (406)
T 3sf4_A           12 LALEGERLCKSGDCRAGVSFFEAAVQVG--TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKA   89 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHH
Confidence            3444445555555555555555555431  111    123444445555555555555555544331   11111 1345


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHccC-----CC----hhhHHHHHHHHHhcCC--------------------hHHHHHH
Q 038303          249 GNAVINMYVKCGDVGIAIQVFNMLAY-----KD----KISWSTVISGLAMNGC--------------------GRQALQL  299 (461)
Q Consensus       249 ~~~li~~~~~~g~~~~a~~~~~~~~~-----~~----~~~~~~l~~~~~~~~~--------------------~~~a~~~  299 (461)
                      +..+...|...|++++|...+++..+     ++    ..++..+...+...|+                    +++|...
T Consensus        90 ~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~  169 (406)
T 3sf4_A           90 SGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDF  169 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHH
Confidence            66777788888888888888876652     12    3467788888889999                    9999999


Q ss_pred             HHHHHhc----CCCCC-HhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCC----cchHHHHHHHHhhcCCHHHHHHH
Q 038303          300 FSLMIIN----AVFPD-DVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQ----MQHYACVVDMYGRAGLLEEAEAF  370 (461)
Q Consensus       300 ~~~m~~~----g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~  370 (461)
                      +++..+.    +..|. ..++..+...+...|++++|...+++..+...-.++    ...+..+...|...|++++|...
T Consensus       170 ~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  249 (406)
T 3sf4_A          170 YEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEY  249 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHH
Confidence            8876542    11121 246778888899999999999999988762221122    34788889999999999999999


Q ss_pred             HHhC-CCCc---h----hhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCC------ChhHHHHHHHHHhccCChhhHHHH
Q 038303          371 IREM-PIEA---E----WSVWGALLNACRIHRNDEMFDRIRQDLVNKKGV------SVGTFALMSNTFAGADRWEDTNKI  436 (461)
Q Consensus       371 ~~~~-~~~p---~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~------~~~~~~~l~~~~~~~g~~~~A~~~  436 (461)
                      +++. ...|   +    ..++..+...+...|++++|...++++.+..+.      ...++..++.+|.+.|++++|.+.
T Consensus       250 ~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  329 (406)
T 3sf4_A          250 YKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHF  329 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            9887 1111   1    446777778899999999999999999874322      266889999999999999999999


Q ss_pred             HHHHHHc
Q 038303          437 RDEIRRM  443 (461)
Q Consensus       437 ~~~m~~~  443 (461)
                      +++..+.
T Consensus       330 ~~~al~~  336 (406)
T 3sf4_A          330 AEKHLEI  336 (406)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9987553

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.55  E-value=1.7e-13  Score=122.65  Aligned_cols=261  Identities=12%  Similarity=0.036  Sum_probs=170.7

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCCCCCC----hhhHHHHHHHhhccchhhhHHHHHHHHHhh---cCCCC-cchHHHHH
Q 038303          181 IGGYAERGFCKEAVSVFQEMEKTKEAEPN----EATLVNVLSACSSISALSFGKYVHSYISTR---YDLSV-SNLVGNAV  252 (461)
Q Consensus       181 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~---~~~~~-~~~~~~~l  252 (461)
                      ...+...|++++|...|+++.+..  +.+    ...+..+...+...|+++.|...++...+.   .+..+ ...++..+
T Consensus        12 g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l   89 (338)
T 3ro2_A           12 GERLCKSGDCRAGVSFFEAAVQVG--TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNL   89 (338)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHhhC--cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHH
Confidence            344555555555555555555431  111    133444444555555555555555544331   11111 13455667


Q ss_pred             HHHHHhcCCHHHHHHHHHHccC-----CC----hhhHHHHHHHHHhcCC--------------------hHHHHHHHHHH
Q 038303          253 INMYVKCGDVGIAIQVFNMLAY-----KD----KISWSTVISGLAMNGC--------------------GRQALQLFSLM  303 (461)
Q Consensus       253 i~~~~~~g~~~~a~~~~~~~~~-----~~----~~~~~~l~~~~~~~~~--------------------~~~a~~~~~~m  303 (461)
                      ...|...|++++|...+++..+     ++    ..++..+...+...|+                    +++|.+.+++.
T Consensus        90 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a  169 (338)
T 3ro2_A           90 GNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEEN  169 (338)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHH
Confidence            7777778888888777766542     12    2367777777888888                    88888888776


Q ss_pred             Hhc----CCCC-CHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCC----cchHHHHHHHHhhcCCHHHHHHHHHhC
Q 038303          304 IIN----AVFP-DDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQ----MQHYACVVDMYGRAGLLEEAEAFIREM  374 (461)
Q Consensus       304 ~~~----g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~  374 (461)
                      .+.    +..| ....+..+...+...|++++|...+++..+...-.++    ...+..+...+...|++++|...+++.
T Consensus       170 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  249 (338)
T 3ro2_A          170 LSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKT  249 (338)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            532    1111 1246777778888899999999999887652111111    337778888999999999999999877


Q ss_pred             -CCCc-------hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCC------CChhHHHHHHHHHhccCChhhHHHHHHHH
Q 038303          375 -PIEA-------EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKG------VSVGTFALMSNTFAGADRWEDTNKIRDEI  440 (461)
Q Consensus       375 -~~~p-------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~------~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  440 (461)
                       ...+       ...++..+...+...|++++|...++++.+..+      ....++..++.+|.+.|++++|...+++.
T Consensus       250 l~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  329 (338)
T 3ro2_A          250 LLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKH  329 (338)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence             1111       134666777779999999999999999887432      12557889999999999999999999998


Q ss_pred             HHc
Q 038303          441 RRM  443 (461)
Q Consensus       441 ~~~  443 (461)
                      .+.
T Consensus       330 ~~~  332 (338)
T 3ro2_A          330 LEI  332 (338)
T ss_dssp             HHC
T ss_pred             HHH
Confidence            764

>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=99.55  E-value=3.4e-12  Score=110.68  Aligned_cols=228  Identities=11%  Similarity=-0.080  Sum_probs=147.2

Q ss_pred             ChhHHHHHHHHHHHcCChhhHHHHHhcCCC-CchhHHHHHHHHHHh----cCChHHHHHHHHHHHhcCCCCCChhhHHHH
Q 038303          142 NIILDNAILDFYIRCGSLASCGYLFVKMPK-RNVVSWTTMIGGYAE----RGFCKEAVSVFQEMEKTKEAEPNEATLVNV  216 (461)
Q Consensus       142 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~  216 (461)
                      +...+..+...+...|++++|...|++..+ .+..++..+...+..    .+++++|...|++..+.+    +...+..+
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~----~~~a~~~l   80 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN----YSNGCHLL   80 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT----CHHHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC----CHHHHHHH
Confidence            567788899999999999999999998876 456778888899999    999999999999998753    34444444


Q ss_pred             HHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccC-CChhhHHHHHHHHHh----cC
Q 038303          217 LSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAY-KDKISWSTVISGLAM----NG  291 (461)
Q Consensus       217 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~l~~~~~~----~~  291 (461)
                      ...+...                                ....+++++|...|++..+ .+...+..+...+..    .+
T Consensus        81 g~~~~~g--------------------------------~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~~~~~~~  128 (273)
T 1ouv_A           81 GNLYYSG--------------------------------QGVSQNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVVTR  128 (273)
T ss_dssp             HHHHHHT--------------------------------SSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCC
T ss_pred             HHHHhCC--------------------------------CCcccCHHHHHHHHHHHHHcCCccHHHHHHHHHHcCCCccc
Confidence            4444440                                0004555555555544432 234455555555555    66


Q ss_pred             ChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHc----CCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhh----cCC
Q 038303          292 CGRQALQLFSLMIINAVFPDDVTFIALISACSH----GGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGR----AGL  363 (461)
Q Consensus       292 ~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~  363 (461)
                      ++++|++.+++..+.+   +...+..+...|..    .+++++|...|++..+ .   .+...+..+...|..    .++
T Consensus       129 ~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~-~---~~~~a~~~lg~~~~~g~~~~~~  201 (273)
T 1ouv_A          129 DFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACD-L---KDSPGCFNAGNMYHHGEGATKN  201 (273)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH-T---TCHHHHHHHHHHHHHTCSSCCC
T ss_pred             CHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHH-C---CCHHHHHHHHHHHHcCCCCCcc
Confidence            6666666666666644   34455555555555    6677777777766665 2   234555566666666    677


Q ss_pred             HHHHHHHHHhC-CCCchhhHHHHHHHHHHh----cCChHHHHHHHHHHhhcCCCC
Q 038303          364 LEEAEAFIREM-PIEAEWSVWGALLNACRI----HRNDEMFDRIRQDLVNKKGVS  413 (461)
Q Consensus       364 ~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~  413 (461)
                      +++|...+++. ...| ...+..+...|..    .+++++|...+++..+..|++
T Consensus       202 ~~~A~~~~~~a~~~~~-~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~  255 (273)
T 1ouv_A          202 FKEALARYSKACELEN-GGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAKG  255 (273)
T ss_dssp             HHHHHHHHHHHHHTTC-HHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHHHhCCC-HHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcCCHH
Confidence            77777777666 2222 4445555566666    677777777777777665544

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.54  E-value=8.7e-13  Score=107.00  Aligned_cols=166  Identities=8%  Similarity=-0.008  Sum_probs=135.3

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHH
Q 038303          276 DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVV  355 (461)
Q Consensus       276 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  355 (461)
                      +...|..+...+.+.|++++|++.|++..+.... +..++..+..+|...|++++|...++....  ..+.+...+..+.
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~   80 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPN-NVETLLKLGKTYMDIGLPNDAIESLKKFVV--LDTTSAEAYYILG   80 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCchhHHHHHHHH
Confidence            4567788888888888888888888888875322 557788888888889999999988888876  2334566677777


Q ss_pred             HHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhH
Q 038303          356 DMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDT  433 (461)
Q Consensus       356 ~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  433 (461)
                      ..+...++++.|...+.+. ...| +...+..+...+...|++++|++.++++.+..|.++.+|..++.+|.+.|++++|
T Consensus        81 ~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~A  160 (184)
T 3vtx_A           81 SANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDEA  160 (184)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHHH
Confidence            8888889999999988887 3333 4556777777899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHcC
Q 038303          434 NKIRDEIRRMG  444 (461)
Q Consensus       434 ~~~~~~m~~~g  444 (461)
                      .+.+++..+..
T Consensus       161 ~~~~~~al~~~  171 (184)
T 3vtx_A          161 VKYFKKALEKE  171 (184)
T ss_dssp             HHHHHHHHHTT
T ss_pred             HHHHHHHHhCC
Confidence            99999987753

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.54  E-value=1e-12  Score=120.06  Aligned_cols=195  Identities=9%  Similarity=-0.032  Sum_probs=128.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHccC-----C-----ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCC-CCH----
Q 038303          248 VGNAVINMYVKCGDVGIAIQVFNMLAY-----K-----DKISWSTVISGLAMNGCGRQALQLFSLMIINAVF-PDD----  312 (461)
Q Consensus       248 ~~~~li~~~~~~g~~~~a~~~~~~~~~-----~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~-p~~----  312 (461)
                      ++..+...|...|++++|...+++..+     +     ...+++.+...+...|++++|...+++..+.... ++.    
T Consensus       145 ~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  224 (383)
T 3ulq_A          145 FFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMG  224 (383)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHH
Confidence            445566666666666666666655441     1     1245667777777888888888887776643111 111    


Q ss_pred             hHHHHHHHHHHcCCChHHHHHHHHHhHhh---cCC-CCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CC-----Cc-hhh
Q 038303          313 VTFIALISACSHGGLVDQGLILFKAMSTV---YEI-VPQMQHYACVVDMYGRAGLLEEAEAFIREM-PI-----EA-EWS  381 (461)
Q Consensus       313 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-----~p-~~~  381 (461)
                      .++..+...|...|++++|...+++..+.   .+. +....++..+...|.+.|++++|...+++. ..     .| ...
T Consensus       225 ~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  304 (383)
T 3ulq_A          225 RTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLS  304 (383)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            36777777788888888888888777651   122 233566777888888888888888888776 11     12 222


Q ss_pred             HHHHHHHHHHhcCC---hHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHc
Q 038303          382 VWGALLNACRIHRN---DEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRM  443 (461)
Q Consensus       382 ~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  443 (461)
                      .+..+...+...|+   .++|..++++. ...+....++..++..|.+.|++++|...+++..+.
T Consensus       305 ~~~~l~~~~~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~~  368 (383)
T 3ulq_A          305 EFEFLKSLYLSGPDEEAIQGFFDFLESK-MLYADLEDFAIDVAKYYHERKNFQKASAYFLKVEQV  368 (383)
T ss_dssp             HHHHHHHHHTSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHHC-cCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            34555555777777   66777777665 223444567888999999999999999999888654

>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=99.53  E-value=8.5e-11  Score=113.38  Aligned_cols=418  Identities=9%  Similarity=-0.029  Sum_probs=281.4

Q ss_pred             HHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhC---CCCCceeHHHHHHHHHcCCC---hHHHHHHH
Q 038303           26 HQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSV---VFPDVVSWTTIISGLSKCGF---HKEAIDMF   99 (461)
Q Consensus        26 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~~~~~~~~li~~~~~~~~---~~~a~~~~   99 (461)
                      ..+....++..+..++ -|..+|..++..+.+.+.++.+..+|+.+   .+.+...|...+..-.+.++   ++.+.++|
T Consensus        48 ~~d~i~~lE~~l~~np-~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lf  126 (679)
T 4e6h_A           48 ESDVIGKLNDMIEEQP-TDIFLYVKLLKHHVSLKQWKQVYETFDKLHDRFPLMANIWCMRLSLEFDKMEELDAAVIEPVL  126 (679)
T ss_dssp             CSCHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTC--CCCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHCc-CCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhhCCcchHHHHHHHH
Confidence            4455556777777665 48999999999999999999999999998   34456678888888888888   99999999


Q ss_pred             hcC-CCC---CCchhHHHHHHHhcccch--------hHHHHHHHHHHHhh-cC-CCC-hhHHHHHHHHHH---------H
Q 038303          100 CGI-DVK---PNANTLVSVLSACSSLVS--------HKLGKAIHAHSLRN-LN-ENN-IILDNAILDFYI---------R  155 (461)
Q Consensus       100 ~~m-~~~---p~~~~~~~ll~~~~~~~~--------~~~a~~~~~~~~~~-~~-~~~-~~~~~~l~~~~~---------~  155 (461)
                      +.. ...   |+...|...+.-..+.++        .+.+.++|+..+.. |. .++ ...|...+....         .
T Consensus       127 eRal~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~ee  206 (679)
T 4e6h_A          127 ARCLSKELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEE  206 (679)
T ss_dssp             HHHTCSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHH
T ss_pred             HHHHHhcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHH
Confidence            998 333   888887777665444333        24456788877654 65 454 467887776543         2


Q ss_pred             cCChhhHHHHHhcCCC-Cch---hHHH---HHHHHH----------HhcCChHHHHHHHHHHHhcC-CC-----------
Q 038303          156 CGSLASCGYLFVKMPK-RNV---VSWT---TMIGGY----------AERGFCKEAVSVFQEMEKTK-EA-----------  206 (461)
Q Consensus       156 ~g~~~~a~~~~~~~~~-~~~---~~~~---~li~~~----------~~~~~~~~a~~~~~~m~~~~-~~-----------  206 (461)
                      .++++.+..+|++... |..   .+|.   .+....          -...+++.|...+.++...- ++           
T Consensus       207 q~~~~~~R~iy~raL~iP~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~  286 (679)
T 4e6h_A          207 QQRVQYIRKLYKTLLCQPMDCLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQA  286 (679)
T ss_dssp             HHHHHHHHHHHHHHTTSCCSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTC
T ss_pred             HhHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccccccc
Confidence            3457889999998876 321   2232   222111          01123344555555432210 01           


Q ss_pred             -----CCCh-------hhHHHHHHHhhccc-------hhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHH-
Q 038303          207 -----EPNE-------ATLVNVLSACSSIS-------ALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAI-  266 (461)
Q Consensus       207 -----~~~~-------~~~~~~l~~~~~~~-------~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~-  266 (461)
                           ++..       ..|...+.---..+       ..+.+..+|+....  .++-...+|-..+..+...|+.++|. 
T Consensus       287 ~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~--~~p~~~~lW~~ya~~~~~~~~~~~a~r  364 (679)
T 4e6h_A          287 TESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQ--HVCFAPEIWFNMANYQGEKNTDSTVIT  364 (679)
T ss_dssp             CTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHH--HTTTCHHHHHHHHHHHHHHSCCTTHHH
T ss_pred             hhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHH--HcCCCHHHHHHHHHHHHhcCcHHHHHH
Confidence                 1100       12222222221111       12345567888777  34446667777888888889999996 


Q ss_pred             HHHHHccC--C-ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCC---------CCC------------HhHHHHHHHHH
Q 038303          267 QVFNMLAY--K-DKISWSTVISGLAMNGCGRQALQLFSLMIINAV---------FPD------------DVTFIALISAC  322 (461)
Q Consensus       267 ~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~---------~p~------------~~~~~~ll~~~  322 (461)
                      ++|++...  | +...|...+...-+.|++++|.++|+++.+...         .|+            ...|...+...
T Consensus       365 ~il~rAi~~~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~e  444 (679)
T 4e6h_A          365 KYLKLGQQCIPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTM  444 (679)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHH
Confidence            99988763  3 455677788888899999999999999886420         142            23577777777


Q ss_pred             HcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhc-CCHHHHHHHHHhC--CCCchhhHHHHHHHHHHhcCChHHH
Q 038303          323 SHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRA-GLLEEAEAFIREM--PIEAEWSVWGALLNACRIHRNDEMF  399 (461)
Q Consensus       323 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~~~~~~a  399 (461)
                      .+.|+.+.|..+|....+. ...+....|...+..-.+. ++.+.|.++|+..  ..+.+...|...+......|+.+.|
T Consensus       445 rR~~~l~~AR~vf~~A~~~-~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~p~~~~~w~~y~~fe~~~~~~~~A  523 (679)
T 4e6h_A          445 KRIQGLAASRKIFGKCRRL-KKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKYFATDGEYINKYLDFLIYVNEESQV  523 (679)
T ss_dssp             HHHHCHHHHHHHHHHHHHT-GGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHh-cCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhCCCHHHH
Confidence            7889999999999999873 1112233444333333344 4589999999988  2223444566777777888999999


Q ss_pred             HHHHHHHhhcCCC---ChhHHHHHHHHHhccCChhhHHHHHHHHHHcCCcc
Q 038303          400 DRIRQDLVNKKGV---SVGTFALMSNTFAGADRWEDTNKIRDEIRRMGLKK  447 (461)
Q Consensus       400 ~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~~  447 (461)
                      ..+|++++...++   ....|...+..-.+.|+.+.+.++.+++.+.-...
T Consensus       524 R~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~~  574 (679)
T 4e6h_A          524 KSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPEV  574 (679)
T ss_dssp             HHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTTC
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence            9999999997763   45688888988899999999999999998876543

>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=99.53  E-value=1.3e-12  Score=118.13  Aligned_cols=236  Identities=9%  Similarity=-0.019  Sum_probs=192.5

Q ss_pred             hhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCC-HHHHHHHHHHccC---CChhhHHHHHH
Q 038303          210 EATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGD-VGIAIQVFNMLAY---KDKISWSTVIS  285 (461)
Q Consensus       210 ~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~-~~~a~~~~~~~~~---~~~~~~~~l~~  285 (461)
                      ...|..+...+...|++++|...++.+.+  -.+-+..+|+.+..++...|+ +++|+..|+++..   .+...|..+..
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~--l~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~  174 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIE--LNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRV  174 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHH--hCccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHH
Confidence            34566777778889999999999999987  334456788899999999997 9999999999873   36788999999


Q ss_pred             HHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhh-cCCH
Q 038303          286 GLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGR-AGLL  364 (461)
Q Consensus       286 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~  364 (461)
                      ++...|++++|+..|+++.+.... +...|..+..++...|++++|+..++++.+  --+-+...|+.+..++.+ .|..
T Consensus       175 ~~~~~g~~~eAl~~~~kal~ldP~-~~~a~~~lg~~~~~~g~~~eAl~~~~~al~--l~P~~~~a~~~lg~~l~~l~~~~  251 (382)
T 2h6f_A          175 LVEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLK--EDVRNNSVWNQRYFVISNTTGYN  251 (382)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCSC
T ss_pred             HHHHccCHHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHhcCcc
Confidence            999999999999999999986433 668899999999999999999999999988  234567888999999998 6665


Q ss_pred             HHH-----HHHHHhC-CCCc-hhhHHHHHHHHHHhcC--ChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccC-------
Q 038303          365 EEA-----EAFIREM-PIEA-EWSVWGALLNACRIHR--NDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGAD-------  428 (461)
Q Consensus       365 ~~A-----~~~~~~~-~~~p-~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-------  428 (461)
                      ++|     +..+++. ...| +...|..+...+...|  ++++|++.+.++ +..|.++.++..++.+|.+.|       
T Consensus       252 ~eA~~~~el~~~~~Al~l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~p~~~~al~~La~~~~~~~~~~~~~~  330 (382)
T 2h6f_A          252 DRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPSHSSPYLIAFLVDIYEDMLENQCDNK  330 (382)
T ss_dssp             SHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTTCCCHHHHHHHHHHHHHHHHTTCSSH
T ss_pred             hHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccCCCCHHHHHHHHHHHHHHhcccccch
Confidence            777     4777776 4444 4557787888888877  689999999998 788999999999999999875       


Q ss_pred             --ChhhHHHHHHHH-HHcCCccccCccc
Q 038303          429 --RWEDTNKIRDEI-RRMGLKKKTGCSW  453 (461)
Q Consensus       429 --~~~~A~~~~~~m-~~~g~~~~~~~~~  453 (461)
                        .+++|+++++++ .+  +.|...-.|
T Consensus       331 ~~~~~~A~~~~~~l~~~--~DP~r~~~w  356 (382)
T 2h6f_A          331 EDILNKALELCEILAKE--KDTIRKEYW  356 (382)
T ss_dssp             HHHHHHHHHHHHHHHHT--TCGGGHHHH
T ss_pred             HHHHHHHHHHHHHHHHH--hCchhHHHH
Confidence              358999999998 44  344443333

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.51  E-value=5.7e-13  Score=119.16  Aligned_cols=268  Identities=12%  Similarity=-0.005  Sum_probs=148.0

Q ss_pred             HHHHhcccchhHHHHHHHHHHHhhcCCCC---hhHHHHHHHHHHHcCChhhHHHHHhcCCC---------CchhHHHHHH
Q 038303          114 VLSACSSLVSHKLGKAIHAHSLRNLNENN---IILDNAILDFYIRCGSLASCGYLFVKMPK---------RNVVSWTTMI  181 (461)
Q Consensus       114 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---------~~~~~~~~li  181 (461)
                      ....+...|++++|...++++.+..+...   ...+..+...+...|++++|...+++..+         ....++..+.
T Consensus        11 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~   90 (338)
T 3ro2_A           11 EGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLG   90 (338)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHH
Confidence            34445666777777777777666543311   24556666777777777777777666532         1244566777


Q ss_pred             HHHHhcCChHHHHHHHHHHHhcCCCCCC----hhhHHHHHHHhhccch--------------------hhhHHHHHHHHH
Q 038303          182 GGYAERGFCKEAVSVFQEMEKTKEAEPN----EATLVNVLSACSSISA--------------------LSFGKYVHSYIS  237 (461)
Q Consensus       182 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~~~l~~~~~~~~--------------------~~~a~~~~~~~~  237 (461)
                      ..+...|++++|...+++..+.....++    ..++..+...+...|+                    ++.|...++...
T Consensus        91 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~  170 (338)
T 3ro2_A           91 NTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENL  170 (338)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHH
Confidence            7777888888888887776553101111    2244444444555555                    444444443332


Q ss_pred             hhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCC--ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCC-CC---
Q 038303          238 TRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYK--DKISWSTVISGLAMNGCGRQALQLFSLMIINAVF-PD---  311 (461)
Q Consensus       238 ~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~-p~---  311 (461)
                      .                             +......+  ....+..+...+...|++++|...+++..+.... ++   
T Consensus       171 ~-----------------------------~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~  221 (338)
T 3ro2_A          171 S-----------------------------LVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAA  221 (338)
T ss_dssp             H-----------------------------HHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHH
T ss_pred             H-----------------------------HHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHH
Confidence            2                             00000000  1224455555566666666666666655432100 11   


Q ss_pred             -HhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCC----cchHHHHHHHHhhcCCHHHHHHHHHhC-CC------Cc-
Q 038303          312 -DVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQ----MQHYACVVDMYGRAGLLEEAEAFIREM-PI------EA-  378 (461)
Q Consensus       312 -~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~------~p-  378 (461)
                       ..++..+...+...|++++|...+++......-.++    ..++..+...+...|++++|...+++. ..      .+ 
T Consensus       222 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~  301 (338)
T 3ro2_A          222 ERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIG  301 (338)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHH
Confidence             125556666666677777777776665441111111    445666677777777777777777665 11      11 


Q ss_pred             hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcC
Q 038303          379 EWSVWGALLNACRIHRNDEMFDRIRQDLVNKK  410 (461)
Q Consensus       379 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  410 (461)
                      ...++..+...+...|++++|...++++.+..
T Consensus       302 ~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  333 (338)
T 3ro2_A          302 EGRACWSLGNAYTALGNHDQAMHFAEKHLEIS  333 (338)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHHHcCChHHHHHHHHHHHHHH
Confidence            12255566666777888888888888777643

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.51  E-value=2.4e-13  Score=127.49  Aligned_cols=192  Identities=8%  Similarity=-0.106  Sum_probs=163.1

Q ss_pred             CcchHHHHHHHHHHhcCCH-HHHHHHHHHccC--C-ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHH
Q 038303          244 VSNLVGNAVINMYVKCGDV-GIAIQVFNMLAY--K-DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALI  319 (461)
Q Consensus       244 ~~~~~~~~li~~~~~~g~~-~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll  319 (461)
                      .+...+..+...|...|++ ++|++.|++..+  | +...|..+...|...|++++|.+.|++..+.  .|+...+..+.
T Consensus       100 ~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~lg  177 (474)
T 4abn_A          100 VEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSGALTH--CKNKVSLQNLS  177 (474)
T ss_dssp             CCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--CCCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCHHHHHHHH
Confidence            3556677777888888888 888888877652  3 5678888999999999999999999999885  47778888888


Q ss_pred             HHHHcC---------CChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhc--------CCHHHHHHHHHhC-CCCc---
Q 038303          320 SACSHG---------GLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRA--------GLLEEAEAFIREM-PIEA---  378 (461)
Q Consensus       320 ~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------g~~~~A~~~~~~~-~~~p---  378 (461)
                      ..+...         |++++|+..|++..+  -.+.+...|..+..+|...        |++++|...|++. ...|   
T Consensus       178 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~  255 (474)
T 4abn_A          178 MVLRQLQTDSGDEHSRHVMDSVRQAKLAVQ--MDVLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKAS  255 (474)
T ss_dssp             HHHTTCCCSCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGG
T ss_pred             HHHHHhccCChhhhhhhHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCcc
Confidence            889998         999999999999987  2344578888899999888        9999999999998 4445   


Q ss_pred             -hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHH
Q 038303          379 -EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDE  439 (461)
Q Consensus       379 -~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  439 (461)
                       +...|..+...|...|++++|...|+++.+..|.+..++..+..++...|++++|.+.+.+
T Consensus       256 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          256 SNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             GCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence             6667888888899999999999999999999999999999999999999999999976544

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.49  E-value=4.1e-13  Score=124.00  Aligned_cols=266  Identities=12%  Similarity=-0.017  Sum_probs=145.7

Q ss_pred             HHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccH----HHHHHHHHHHHhcCCHHHHHHHHhhCCC---------CCceeH
Q 038303           13 FTQALKACSLAHPHQKALEIHAHVIEYGHLHDI----FIQNSLLHFYVTVKDIFSAHQIFNSVVF---------PDVVSW   79 (461)
Q Consensus        13 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~---------~~~~~~   79 (461)
                      +..+...+...|++++|...|+.+.+.+.. +.    .++..+...|...|++++|...+++...         .....+
T Consensus        51 l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  129 (411)
T 4a1s_A           51 LALEGERLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSS  129 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHH
Confidence            344555666777777787777777776433 22    3566666777777777777777766521         122445


Q ss_pred             HHHHHHHHcCCChHHHHHHHhcC-------CCCC-CchhHHHHHHHhcccch-----------------hHHHHHHHHHH
Q 038303           80 TTIISGLSKCGFHKEAIDMFCGI-------DVKP-NANTLVSVLSACSSLVS-----------------HKLGKAIHAHS  134 (461)
Q Consensus        80 ~~li~~~~~~~~~~~a~~~~~~m-------~~~p-~~~~~~~ll~~~~~~~~-----------------~~~a~~~~~~~  134 (461)
                      ..+...|...|++++|++.+++.       +-.| ...++..+...+...|+                 +++|.+.+++.
T Consensus       130 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~a  209 (411)
T 4a1s_A          130 GNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQEN  209 (411)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHH
Confidence            56666667777777777766655       1111 22344455555555566                 55555555554


Q ss_pred             HhhcCC-CChhHHHHHHHHHHHcCChhhHHHHHhcCCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCC----
Q 038303          135 LRNLNE-NNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPN----  209 (461)
Q Consensus       135 ~~~~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~----  209 (461)
                      .+.... .+..                           ....++..+...+...|++++|...+++..+.....++    
T Consensus       210 l~~~~~~~~~~---------------------------~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  262 (411)
T 4a1s_A          210 LKLMRDLGDRG---------------------------AQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAE  262 (411)
T ss_dssp             HHHHHHHTCHH---------------------------HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHcCCHH---------------------------HHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHH
Confidence            332100 0000                           01123444444444444444444444444332100001    


Q ss_pred             hhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCC----CcchHHHHHHHHHHhcCCHHHHHHHHHHccCC---------C
Q 038303          210 EATLVNVLSACSSISALSFGKYVHSYISTRYDLS----VSNLVGNAVINMYVKCGDVGIAIQVFNMLAYK---------D  276 (461)
Q Consensus       210 ~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---------~  276 (461)
                      ...+..+...+...|++++|...++...+...-.    ....++..+...|...|++++|...+++....         .
T Consensus       263 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  342 (411)
T 4a1s_A          263 RRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGE  342 (411)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHH
Confidence            1134444444445555555554444443311111    11345567777777888888888877766521         1


Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 038303          277 KISWSTVISGLAMNGCGRQALQLFSLMIIN  306 (461)
Q Consensus       277 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  306 (461)
                      ..++..+...+...|++++|.+.+++..+.
T Consensus       343 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~  372 (411)
T 4a1s_A          343 ARACWSLGNAHSAIGGHERALKYAEQHLQL  372 (411)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            346777888888889999999988888764

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.48  E-value=7.9e-12  Score=114.20  Aligned_cols=228  Identities=8%  Similarity=-0.035  Sum_probs=156.4

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCCCCC----ChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCc-----chHHHH
Q 038303          181 IGGYAERGFCKEAVSVFQEMEKTKEAEP----NEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVS-----NLVGNA  251 (461)
Q Consensus       181 i~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~~  251 (461)
                      ...+...|++++|...|++..+.-...+    ...++..+...+...|+++.|...+....+...-.++     ..+++.
T Consensus       110 g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  189 (383)
T 3ulq_A          110 GMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSL  189 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHH
Confidence            3445555666666666666544210111    1234455555555666666666665555442221111     345677


Q ss_pred             HHHHHHhcCCHHHHHHHHHHccC-----CC----hhhHHHHHHHHHhcCChHHHHHHHHHHHhc----CC-CCCHhHHHH
Q 038303          252 VINMYVKCGDVGIAIQVFNMLAY-----KD----KISWSTVISGLAMNGCGRQALQLFSLMIIN----AV-FPDDVTFIA  317 (461)
Q Consensus       252 li~~~~~~g~~~~a~~~~~~~~~-----~~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~----g~-~p~~~~~~~  317 (461)
                      +...|...|++++|...|++..+     ++    ..++..+...+...|++++|...+++..+.    +. +....++..
T Consensus       190 lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  269 (383)
T 3ulq_A          190 FATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFL  269 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHH
Confidence            88888889999999888877652     11    246888889999999999999999988762    22 223467888


Q ss_pred             HHHHHHcCCChHHHHHHHHHhHhhcC---CCCCcchHHHHHHHHhhcCC---HHHHHHHHHhCCCCchhh-HHHHHHHHH
Q 038303          318 LISACSHGGLVDQGLILFKAMSTVYE---IVPQMQHYACVVDMYGRAGL---LEEAEAFIREMPIEAEWS-VWGALLNAC  390 (461)
Q Consensus       318 ll~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~p~~~-~~~~l~~~~  390 (461)
                      +...+...|++++|...+++..+...   .+.....+..+...+...|+   +++|..++++.+..|+.. .+..+...|
T Consensus       270 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~~y  349 (383)
T 3ulq_A          270 ITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKMLYADLEDFAIDVAKYY  349 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHH
Confidence            88999999999999999998766221   11223335678888889999   899999999996555444 566677779


Q ss_pred             HhcCChHHHHHHHHHHhh
Q 038303          391 RIHRNDEMFDRIRQDLVN  408 (461)
Q Consensus       391 ~~~~~~~~a~~~~~~~~~  408 (461)
                      ...|++++|...++++.+
T Consensus       350 ~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          350 HERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHH
Confidence            999999999999999886

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.46  E-value=3.2e-13  Score=119.54  Aligned_cols=241  Identities=10%  Similarity=0.053  Sum_probs=134.0

Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHHHHHHhcC------CCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhc-----C
Q 038303          173 NVVSWTTMIGGYAERGFCKEAVSVFQEMEKTK------EAEPNEATLVNVLSACSSISALSFGKYVHSYISTRY-----D  241 (461)
Q Consensus       173 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~------~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~-----~  241 (461)
                      +..++..+...+...|++++|..+++++.+..      ..+.....+..+...+...|+++.|...++...+..     +
T Consensus        26 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  105 (311)
T 3nf1_A           26 RLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGK  105 (311)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCC
Confidence            34567888888889999999999998887631      012223334444444444444444444444443310     0


Q ss_pred             CCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhc------CCCC-CHhH
Q 038303          242 LSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIIN------AVFP-DDVT  314 (461)
Q Consensus       242 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~------g~~p-~~~~  314 (461)
                      ..|.                              ....+..+...+...|++++|...+++..+.      +-.| ....
T Consensus       106 ~~~~------------------------------~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~  155 (311)
T 3nf1_A          106 DHPA------------------------------VAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQ  155 (311)
T ss_dssp             TCHH------------------------------HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             CChH------------------------------HHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHH
Confidence            0000                              1234555566666666666666666665543      1112 2245


Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHhHhhc-----C-CCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CC---------Cc
Q 038303          315 FIALISACSHGGLVDQGLILFKAMSTVY-----E-IVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PI---------EA  378 (461)
Q Consensus       315 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~---------~p  378 (461)
                      +..+...+...|++++|..+++++....     + .+....++..+...|...|++++|...++++ ..         .+
T Consensus       156 ~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  235 (311)
T 3nf1_A          156 LNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDD  235 (311)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCc
Confidence            5666666777777777777777665520     1 1122345666677777777777777777665 11         11


Q ss_pred             h-------hhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHc
Q 038303          379 E-------WSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRM  443 (461)
Q Consensus       379 ~-------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  443 (461)
                      .       ...+..+...+...+.+.++...++......|....++..++.+|.+.|++++|.+.+++..+.
T Consensus       236 ~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  307 (311)
T 3nf1_A          236 ENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRS  307 (311)
T ss_dssp             --CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            1       1112222233455666677777777777777778888999999999999999999999887653

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.44  E-value=8e-11  Score=103.92  Aligned_cols=216  Identities=6%  Similarity=-0.032  Sum_probs=119.2

Q ss_pred             HHHHHHHHHHHhcCCCCCChhhHHHHHHHhh-------ccchh-------hhHHHHHHHHHhhcCCCC-cchHHHHHHHH
Q 038303          191 KEAVSVFQEMEKTKEAEPNEATLVNVLSACS-------SISAL-------SFGKYVHSYISTRYDLSV-SNLVGNAVINM  255 (461)
Q Consensus       191 ~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~-------~~~~~-------~~a~~~~~~~~~~~~~~~-~~~~~~~li~~  255 (461)
                      ++|..+|++....  .+.+...|......+.       ..|++       ++|..+|+...+  .+.| +...|..++..
T Consensus        33 ~~a~~~~~~al~~--~p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~--~~~p~~~~~~~~~~~~  108 (308)
T 2ond_A           33 KRVMFAYEQCLLV--LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAIS--TLLKKNMLLYFAYADY  108 (308)
T ss_dssp             HHHHHHHHHHHHH--HTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHT--TTTTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH--cCCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHH--HhCcccHHHHHHHHHH
Confidence            4556666666553  3334444444444433       23443       555555555544  1223 23355666666


Q ss_pred             HHhcCCHHHHHHHHHHccC--C-Chh-hHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHH-HcCCChHH
Q 038303          256 YVKCGDVGIAIQVFNMLAY--K-DKI-SWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISAC-SHGGLVDQ  330 (461)
Q Consensus       256 ~~~~g~~~~a~~~~~~~~~--~-~~~-~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~-~~~~~~~~  330 (461)
                      +.+.|++++|.++|++..+  | +.. .|..++..+.+.|++++|..+|++..+... ++...|....... ...|++++
T Consensus       109 ~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~a~~~~~~~~~~~~  187 (308)
T 2ond_A          109 EESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSV  187 (308)
T ss_dssp             HHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT-CCTHHHHHHHHHHHHTSCCHHH
T ss_pred             HHhcCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHcCCHHH
Confidence            6666666666666666553  2 222 566666666666667777777766665432 2233333222221 12566777


Q ss_pred             HHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-C---CCch--hhHHHHHHHHHHhcCChHHHHHHHH
Q 038303          331 GLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-P---IEAE--WSVWGALLNACRIHRNDEMFDRIRQ  404 (461)
Q Consensus       331 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~---~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~  404 (461)
                      |..+|+...+.  .+.+...|..++..+.+.|++++|..+|++. .   ..|+  ...|..++....+.|+.+.|..+++
T Consensus       188 A~~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~  265 (308)
T 2ond_A          188 AFKIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEK  265 (308)
T ss_dssp             HHHHHHHHHHH--HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHH
T ss_pred             HHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            77777666652  2334556666666666667777777776666 1   2332  3355666666666677777777776


Q ss_pred             HHhhcCCCC
Q 038303          405 DLVNKKGVS  413 (461)
Q Consensus       405 ~~~~~~~~~  413 (461)
                      ++.+..|.+
T Consensus       266 ~a~~~~p~~  274 (308)
T 2ond_A          266 RRFTAFREE  274 (308)
T ss_dssp             HHHHHTTTT
T ss_pred             HHHHHcccc
Confidence            666655543

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.43  E-value=1e-10  Score=106.53  Aligned_cols=163  Identities=10%  Similarity=-0.025  Sum_probs=78.8

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhc----CCCC-CHhHHHHHHHHHHcCCChHHHHHHHHHhHhh---cCCCCCcch
Q 038303          279 SWSTVISGLAMNGCGRQALQLFSLMIIN----AVFP-DDVTFIALISACSHGGLVDQGLILFKAMSTV---YEIVPQMQH  350 (461)
Q Consensus       279 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~----g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~  350 (461)
                      +++.+...+...|++++|.+.+++..+.    +-.+ ...++..+..+|...|++++|...+++....   .+.+....+
T Consensus       184 ~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  263 (378)
T 3q15_A          184 SLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKV  263 (378)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHH
Confidence            3444445555555555555555544331    1000 1134445555555556666665555554431   022222445


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC----C---CCchhhHHHHHHHHHHhcCC---hHHHHHHHHHHhhcCCCChhHHHHH
Q 038303          351 YACVVDMYGRAGLLEEAEAFIREM----P---IEAEWSVWGALLNACRIHRN---DEMFDRIRQDLVNKKGVSVGTFALM  420 (461)
Q Consensus       351 ~~~l~~~~~~~g~~~~A~~~~~~~----~---~~p~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~l  420 (461)
                      +..+...+.+.|++++|...+++.    .   .+.....+..+...+...++   ..+|+..+++. ...+.....+..+
T Consensus       264 ~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~l  342 (378)
T 3q15_A          264 LFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK-NLHAYIEACARSA  342 (378)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC-CChhHHHHHHHHH
Confidence            555555666666666666665554    1   11112223333333445555   55555555442 1122334455666


Q ss_pred             HHHHhccCChhhHHHHHHHHHH
Q 038303          421 SNTFAGADRWEDTNKIRDEIRR  442 (461)
Q Consensus       421 ~~~~~~~g~~~~A~~~~~~m~~  442 (461)
                      +..|.+.|++++|...+++..+
T Consensus       343 a~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          343 AAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH
Confidence            7777777777777777666543

>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=99.42  E-value=6.4e-12  Score=101.75  Aligned_cols=162  Identities=12%  Similarity=-0.025  Sum_probs=113.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHh
Q 038303          280 WSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYG  359 (461)
Q Consensus       280 ~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  359 (461)
                      |..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++.+.+.  .+.+...+..+...+.
T Consensus        11 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~   87 (186)
T 3as5_A           11 YRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLAD--APDNVKVATVLGLTYV   87 (186)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHH
Confidence            4445555556666666666666555432 124455666666666677777777777666651  2334556666777777


Q ss_pred             hcCCHHHHHHHHHhC-C-CCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHH
Q 038303          360 RAGLLEEAEAFIREM-P-IEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIR  437 (461)
Q Consensus       360 ~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  437 (461)
                      ..|++++|.+.++++ . .+.+...+..+...+...|++++|...++++.+..|.++.++..++.++...|++++|.+.+
T Consensus        88 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~  167 (186)
T 3as5_A           88 QVQKYDLAVPLLIKVAEANPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEALPHF  167 (186)
T ss_dssp             HHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhcCcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHHHHH
Confidence            777777777777766 2 22345566677777888889999999999988888888889999999999999999999999


Q ss_pred             HHHHHcC
Q 038303          438 DEIRRMG  444 (461)
Q Consensus       438 ~~m~~~g  444 (461)
                      ++..+..
T Consensus       168 ~~~~~~~  174 (186)
T 3as5_A          168 KKANELD  174 (186)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHcC
Confidence            9887654

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.42  E-value=3.1e-11  Score=110.01  Aligned_cols=305  Identities=10%  Similarity=0.037  Sum_probs=215.6

Q ss_pred             CCCCCchhHHHHHHHh--cccchhHHHHHHHHHHHhhc--CCCC--hhHHHHHHHH--HHHcCChhhHH---------HH
Q 038303          103 DVKPNANTLVSVLSAC--SSLVSHKLGKAIHAHSLRNL--NENN--IILDNAILDF--YIRCGSLASCG---------YL  165 (461)
Q Consensus       103 ~~~p~~~~~~~ll~~~--~~~~~~~~a~~~~~~~~~~~--~~~~--~~~~~~l~~~--~~~~g~~~~a~---------~~  165 (461)
                      .+.|+...-..+-..+  ...+++++|.++++++.+..  .+.|  ...|-.++..  ....+.++.+.         ..
T Consensus         5 ~~~~~~~v~~~l~~wy~~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~yy~l~~~r~~~~~~~~~~~~~~~~~~~~~~~   84 (378)
T 3q15_A            5 QAIPSSRVGVKINEWYKMIRQFSVPDAEILKAEVEQDIQQMEEDQDLLIYYSLMCFRHQLMLDYLEPGKTYGNRPTVTEL   84 (378)
T ss_dssp             -CBCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHGGGBCCCHHHHHHHHHHHHHHHHHHHTCCC--------CHHHH
T ss_pred             ccccHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHhhcCcccccccccchHHH
Confidence            3455555555565565  78899999999999986642  2223  3334444432  12223333333         55


Q ss_pred             HhcCCC---C-c-hh---HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCC----hhhHHHHHHHhhccchhhhHHHHH
Q 038303          166 FVKMPK---R-N-VV---SWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPN----EATLVNVLSACSSISALSFGKYVH  233 (461)
Q Consensus       166 ~~~~~~---~-~-~~---~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~~~l~~~~~~~~~~~a~~~~  233 (461)
                      ++.+..   + + ..   .|......+...|++++|...|++..+.....++    ..++..+...+...|+++.|...+
T Consensus        85 l~~i~~~~~~~~~~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~  164 (378)
T 3q15_A           85 LETIETPQKKLTGLLKYYSLFFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHI  164 (378)
T ss_dssp             HHHHHGGGHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHhccCCCCccHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHH
Confidence            555432   1 1 11   2333455678899999999999999875312233    346777888899999999999999


Q ss_pred             HHHHhhcCCCCc-----chHHHHHHHHHHhcCCHHHHHHHHHHccC-----CC----hhhHHHHHHHHHhcCChHHHHHH
Q 038303          234 SYISTRYDLSVS-----NLVGNAVINMYVKCGDVGIAIQVFNMLAY-----KD----KISWSTVISGLAMNGCGRQALQL  299 (461)
Q Consensus       234 ~~~~~~~~~~~~-----~~~~~~li~~~~~~g~~~~a~~~~~~~~~-----~~----~~~~~~l~~~~~~~~~~~~a~~~  299 (461)
                      ....+...-.++     ..+++.+...|...|++++|.+.|++..+     ++    ..++..+...+...|++++|...
T Consensus       165 ~~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~  244 (378)
T 3q15_A          165 LQALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEH  244 (378)
T ss_dssp             HHHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHH
Confidence            988763332222     44677889999999999999999987663     22    34688889999999999999999


Q ss_pred             HHHHHh-----cCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCC---cchHHHHHHHHhhcCC---HHHHH
Q 038303          300 FSLMII-----NAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQ---MQHYACVVDMYGRAGL---LEEAE  368 (461)
Q Consensus       300 ~~~m~~-----~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~---~~~A~  368 (461)
                      +++..+     .... ...++..+...+.+.|++++|...+++..+...-.++   ...+..+...+...++   +++|.
T Consensus       245 ~~~al~~~~~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al  323 (378)
T 3q15_A          245 FQKAAKVSREKVPDL-LPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLL  323 (378)
T ss_dssp             HHHHHHHHHHHCGGG-HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHH
T ss_pred             HHHHHHHHHhhCChh-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHH
Confidence            999876     3322 3677888899999999999999999998773322122   3445666677778888   89999


Q ss_pred             HHHHhCCCCchhh-HHHHHHHHHHhcCChHHHHHHHHHHhh
Q 038303          369 AFIREMPIEAEWS-VWGALLNACRIHRNDEMFDRIRQDLVN  408 (461)
Q Consensus       369 ~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~  408 (461)
                      ..+++.+..|+.. .+..+...|...|+++.|...++++.+
T Consensus       324 ~~~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          324 SYFEKKNLHAYIEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhCCChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            9999986555444 455667779999999999999999875

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.41  E-value=1.4e-11  Score=99.76  Aligned_cols=167  Identities=10%  Similarity=-0.016  Sum_probs=135.1

Q ss_pred             cchHHHHHHHHHHhcCCHHHHHHHHHHccC--C-ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHH
Q 038303          245 SNLVGNAVINMYVKCGDVGIAIQVFNMLAY--K-DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISA  321 (461)
Q Consensus       245 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~  321 (461)
                      +..+|..+...|.+.|++++|.+.|++..+  | +...|..+...+.+.|++++|...+.+....... +...+..+...
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~   82 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTT-SAEAYYILGSA   82 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCch-hHHHHHHHHHH
Confidence            456778888889999999999999988763  3 6678888888999999999999999988875332 45667777778


Q ss_pred             HHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHH
Q 038303          322 CSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMF  399 (461)
Q Consensus       322 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a  399 (461)
                      +...++++.|...+.....  ..+.+...+..+...|.+.|++++|++.|++. ...| +...|..+...+.+.|++++|
T Consensus        83 ~~~~~~~~~a~~~~~~a~~--~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~A  160 (184)
T 3vtx_A           83 NFMIDEKQAAIDALQRAIA--LNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDEA  160 (184)
T ss_dssp             HHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHH--hCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHHH
Confidence            8889999999999988877  33455777888889999999999999999887 3334 455778888889999999999


Q ss_pred             HHHHHHHhhcCCCCh
Q 038303          400 DRIRQDLVNKKGVSV  414 (461)
Q Consensus       400 ~~~~~~~~~~~~~~~  414 (461)
                      +..|+++++..|.++
T Consensus       161 ~~~~~~al~~~p~~a  175 (184)
T 3vtx_A          161 VKYFKKALEKEEKKA  175 (184)
T ss_dssp             HHHHHHHHHTTHHHH
T ss_pred             HHHHHHHHhCCccCH
Confidence            999999998777553

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.40  E-value=2.2e-12  Score=114.09  Aligned_cols=240  Identities=10%  Similarity=-0.012  Sum_probs=143.7

Q ss_pred             ChhHHHHHHHHHHHcCChhhHHHHHhcCCC-----------CchhHHHHHHHHHHhcCChHHHHHHHHHHHhc------C
Q 038303          142 NIILDNAILDFYIRCGSLASCGYLFVKMPK-----------RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKT------K  204 (461)
Q Consensus       142 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~  204 (461)
                      +..++..+...+...|++++|..+|+++.+           ....++..+...+...|++++|...+++..+.      +
T Consensus        26 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  105 (311)
T 3nf1_A           26 RLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGK  105 (311)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCC
Confidence            456788899999999999999999988764           13456888999999999999999999998764      2


Q ss_pred             CCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhc-----CCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCCChhh
Q 038303          205 EAEPNEATLVNVLSACSSISALSFGKYVHSYISTRY-----DLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKIS  279 (461)
Q Consensus       205 ~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  279 (461)
                      ..+.....+..+...+...|+++.|...++...+..     +..|.                              ....
T Consensus       106 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~------------------------------~~~~  155 (311)
T 3nf1_A          106 DHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPD------------------------------VAKQ  155 (311)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHH------------------------------HHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChH------------------------------HHHH
Confidence            112234566666667777777777777777665521     11111                              1223


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhc------CCCCC-HhHHHHHHHHHHcCCChHHHHHHHHHhHhhc------CCCC
Q 038303          280 WSTVISGLAMNGCGRQALQLFSLMIIN------AVFPD-DVTFIALISACSHGGLVDQGLILFKAMSTVY------EIVP  346 (461)
Q Consensus       280 ~~~l~~~~~~~~~~~~a~~~~~~m~~~------g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~------~~~~  346 (461)
                      +..+...+...|++++|.+.+++..+.      +..|. ..++..+...+...|++++|...++++.+..      ...+
T Consensus       156 ~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  235 (311)
T 3nf1_A          156 LNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDD  235 (311)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCc
Confidence            444555555566666666666555442      11222 2445566666666777777777766665410      1111


Q ss_pred             Ccc-------hHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCC
Q 038303          347 QMQ-------HYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKG  411 (461)
Q Consensus       347 ~~~-------~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  411 (461)
                      ...       .+..+...+...+.+.+|...++.. ...| ...++..+...|...|++++|...++++.+..|
T Consensus       236 ~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~~  309 (311)
T 3nf1_A          236 ENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSRK  309 (311)
T ss_dssp             --CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC
T ss_pred             chHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhh
Confidence            111       1222233344455566666666666 2333 445677788889999999999999998877544

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.40  E-value=4.3e-10  Score=102.24  Aligned_cols=156  Identities=9%  Similarity=-0.075  Sum_probs=69.9

Q ss_pred             HHHHHHHcCChhhHHHHHhcCCC----Cch----hHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCh----hhHHHH
Q 038303          149 ILDFYIRCGSLASCGYLFVKMPK----RNV----VSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNE----ATLVNV  216 (461)
Q Consensus       149 l~~~~~~~g~~~~a~~~~~~~~~----~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~----~~~~~~  216 (461)
                      ....+...|++++|...+++...    .+.    .+++.+...+...|++++|...+++........++.    .++..+
T Consensus        20 ~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l   99 (373)
T 1hz4_A           20 RAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQ   99 (373)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            34445566677666666555321    111    134455556666677777776666665421011111    112333


Q ss_pred             HHHhhccchhhhHHHHHHHHHhhc---CCC--C-cchHHHHHHHHHHhcCCHHHHHHHHHHccC--C------ChhhHHH
Q 038303          217 LSACSSISALSFGKYVHSYISTRY---DLS--V-SNLVGNAVINMYVKCGDVGIAIQVFNMLAY--K------DKISWST  282 (461)
Q Consensus       217 l~~~~~~~~~~~a~~~~~~~~~~~---~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~--~------~~~~~~~  282 (461)
                      ...+...|+++.|...++...+..   +..  | ....+..+...+...|++++|...+++...  +      ...++..
T Consensus       100 a~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  179 (373)
T 1hz4_A          100 SEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAM  179 (373)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHH
Confidence            344445555555555555444311   111  1 112333344444455555555555444321  0      0123334


Q ss_pred             HHHHHHhcCChHHHHHHHHHHH
Q 038303          283 VISGLAMNGCGRQALQLFSLMI  304 (461)
Q Consensus       283 l~~~~~~~~~~~~a~~~~~~m~  304 (461)
                      +...+...|++++|...+++..
T Consensus       180 la~~~~~~g~~~~A~~~l~~a~  201 (373)
T 1hz4_A          180 LIQCSLARGDLDNARSQLNRLE  201 (373)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHH
Confidence            4444444455555555554443

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.39  E-value=1.1e-10  Score=103.09  Aligned_cols=214  Identities=8%  Similarity=-0.052  Sum_probs=168.2

Q ss_pred             hhHHHHHHHHHhhcCCCCcchHHHHHHHHHH-------hcCCH-------HHHHHHHHHccC---C-ChhhHHHHHHHHH
Q 038303          227 SFGKYVHSYISTRYDLSVSNLVGNAVINMYV-------KCGDV-------GIAIQVFNMLAY---K-DKISWSTVISGLA  288 (461)
Q Consensus       227 ~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~-------~~g~~-------~~a~~~~~~~~~---~-~~~~~~~l~~~~~  288 (461)
                      +.|..+|+.....  .+.+...|..++..+.       +.|++       ++|..+|++..+   | +...|..++..+.
T Consensus        33 ~~a~~~~~~al~~--~p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~  110 (308)
T 2ond_A           33 KRVMFAYEQCLLV--LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHH--HTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH--cCCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            5677788888773  3445556677776665       45886       899999998765   3 4568999999999


Q ss_pred             hcCChHHHHHHHHHHHhcCCCCCH-h-HHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHh-hcCCHH
Q 038303          289 MNGCGRQALQLFSLMIINAVFPDD-V-TFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYG-RAGLLE  365 (461)
Q Consensus       289 ~~~~~~~a~~~~~~m~~~g~~p~~-~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~g~~~  365 (461)
                      +.|++++|.++|++..+.  .|+. . .|..+...+.+.|++++|..+|++..+  ..+++...|........ ..|+++
T Consensus       111 ~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~--~~p~~~~~~~~~a~~~~~~~~~~~  186 (308)
T 2ond_A          111 SRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARE--DARTRHHVYVTAALMEYYCSKDKS  186 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHT--STTCCTHHHHHHHHHHHHTSCCHH
T ss_pred             hcCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHh--cCCCCHHHHHHHHHHHHHHcCCHH
Confidence            999999999999999984  5543 3 788899999999999999999999987  22344555544433322 369999


Q ss_pred             HHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcC--CC--ChhHHHHHHHHHhccCChhhHHHHHHH
Q 038303          366 EAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKK--GV--SVGTFALMSNTFAGADRWEDTNKIRDE  439 (461)
Q Consensus       366 ~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~  439 (461)
                      +|..+|++. ...| +...|..++..+.+.|+.++|..+|+++.+..  +|  ....|..++..+.+.|+.++|..++++
T Consensus       187 ~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~  266 (308)
T 2ond_A          187 VAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKR  266 (308)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            999999988 2223 55678888888999999999999999999952  43  577899999999999999999999999


Q ss_pred             HHHcCCc
Q 038303          440 IRRMGLK  446 (461)
Q Consensus       440 m~~~g~~  446 (461)
                      +.+....
T Consensus       267 a~~~~p~  273 (308)
T 2ond_A          267 RFTAFRE  273 (308)
T ss_dssp             HHHHTTT
T ss_pred             HHHHccc
Confidence            9876543

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.37  E-value=9.1e-12  Score=116.78  Aligned_cols=197  Identities=11%  Similarity=-0.059  Sum_probs=93.3

Q ss_pred             cHHHHHHHHHHHHhcCCH-HHHHHHHhhC---CCCCceeHHHHHHHHHcCCChHHHHHHHhcC-CCCCCchhHHHHHHHh
Q 038303           44 DIFIQNSLLHFYVTVKDI-FSAHQIFNSV---VFPDVVSWTTIISGLSKCGFHKEAIDMFCGI-DVKPNANTLVSVLSAC  118 (461)
Q Consensus        44 ~~~~~~~ll~~~~~~~~~-~~a~~~~~~~---~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m-~~~p~~~~~~~ll~~~  118 (461)
                      +...+..+...+...|++ ++|.+.|++.   .+.+...|..+...|...|++++|++.|++. ...|+...+..+...+
T Consensus       101 ~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~lg~~~  180 (474)
T 4abn_A          101 EAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSGALTHCKNKVSLQNLSMVL  180 (474)
T ss_dssp             CHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCCCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCHHHHHHHHHHH
Confidence            344444444455555555 5555555544   1223344555555555555555555555554 4444444444444445


Q ss_pred             ccc---------chhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHc----CChhhHHHHHhcCCCCchhHHHHHHHHHH
Q 038303          119 SSL---------VSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRC----GSLASCGYLFVKMPKRNVVSWTTMIGGYA  185 (461)
Q Consensus       119 ~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----g~~~~a~~~~~~~~~~~~~~~~~li~~~~  185 (461)
                      ...         |++++|.+.+++.++..+. +...|..+..+|...    |+                           
T Consensus       181 ~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~~---------------------------  232 (474)
T 4abn_A          181 RQLQTDSGDEHSRHVMDSVRQAKLAVQMDVL-DGRSWYILGNAYLSLYFNTGQ---------------------------  232 (474)
T ss_dssp             TTCCCSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHTTC---------------------------
T ss_pred             HHhccCChhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHhhcc---------------------------
Confidence            554         5555555555555544332 344444444444444    00                           


Q ss_pred             hcCChHHHHHHHHHHHhcCCCC---CChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCH
Q 038303          186 ERGFCKEAVSVFQEMEKTKEAE---PNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDV  262 (461)
Q Consensus       186 ~~~~~~~a~~~~~~m~~~~~~~---~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  262 (461)
                      ..|++++|...|++..+.  .+   .+...+..+..++...|++++|...++...+.  .+.+...+..+..++...|++
T Consensus       233 ~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~a~~~l~~~~~~lg~~  308 (474)
T 4abn_A          233 NPKISQQALSAYAQAEKV--DRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAAL--DPAWPEPQQREQQLLEFLSRL  308 (474)
T ss_dssp             CHHHHHHHHHHHHHHHHH--CGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHH
Confidence            004455555555555442  11   23444444445555555555555555554441  122233445555556666666


Q ss_pred             HHHHHHHHHc
Q 038303          263 GIAIQVFNML  272 (461)
Q Consensus       263 ~~a~~~~~~~  272 (461)
                      ++|.+.+..+
T Consensus       309 ~eAi~~~~~~  318 (474)
T 4abn_A          309 TSLLESKGKT  318 (474)
T ss_dssp             HHHHHHTTTC
T ss_pred             HHHHHHhccc
Confidence            6666555554

>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=99.36  E-value=2.2e-11  Score=118.89  Aligned_cols=162  Identities=12%  Similarity=0.084  Sum_probs=129.6

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC-HhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHH
Q 038303          277 KISWSTVISGLAMNGCGRQALQLFSLMIINAVFPD-DVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVV  355 (461)
Q Consensus       277 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  355 (461)
                      ...|+.+...+.+.|++++|++.|++..+.  .|+ ..++..+..+|.+.|++++|+..|++..+.  -+-+...|..+.
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~l--~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l--~P~~~~a~~nLg   84 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNMG   84 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            456777777788888888888888887774  343 467777888888888888888888887761  223467788888


Q ss_pred             HHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhH
Q 038303          356 DMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDT  433 (461)
Q Consensus       356 ~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  433 (461)
                      .+|.+.|++++|++.|++. ...| +...|+.+...+...|++++|+..|+++++..|.+..++..++.+|...|++++|
T Consensus        85 ~~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~~A  164 (723)
T 4gyw_A           85 NTLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWTDY  164 (723)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCTTH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHHHH
Confidence            8888888888888888877 4444 4557788888899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHH
Q 038303          434 NKIRDEIRR  442 (461)
Q Consensus       434 ~~~~~~m~~  442 (461)
                      .+.+++..+
T Consensus       165 ~~~~~kal~  173 (723)
T 4gyw_A          165 DERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            998888755

>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=99.34  E-value=7.3e-11  Score=99.23  Aligned_cols=191  Identities=9%  Similarity=-0.027  Sum_probs=129.3

Q ss_pred             cchHHHHHHHHHHhcCCHHHHHHHHHHccC----CChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHH
Q 038303          245 SNLVGNAVINMYVKCGDVGIAIQVFNMLAY----KDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALIS  320 (461)
Q Consensus       245 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~  320 (461)
                      ++..+......+...|++++|...|+...+    ++...+..+..++...|++++|+..+++..+.... +...+..+..
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~   84 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYN-LANAYIGKSA   84 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCS-HHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcc-hHHHHHHHHH
Confidence            446667777788888888888888877652    45666666777888888888888888888774322 3466777777


Q ss_pred             HHHcCCChHHHHHHHHHhHhhcCCCCCc-------chHHHHHHHHhhcCCHHHHHHHHHhC-CCCch---hhHHHHHHHH
Q 038303          321 ACSHGGLVDQGLILFKAMSTVYEIVPQM-------QHYACVVDMYGRAGLLEEAEAFIREM-PIEAE---WSVWGALLNA  389 (461)
Q Consensus       321 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~---~~~~~~l~~~  389 (461)
                      .+...|++++|+..+++..+.  .+.+.       ..|..+...+...|++++|...|++. ...|+   ...+..+...
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~  162 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKA--VPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTSKKWKTDALYSLGVL  162 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSCHHHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCCCcccHHHHHHHHHH
Confidence            788888888888888887762  22233       44666777777888888888888877 55555   3345555555


Q ss_pred             HHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcCC
Q 038303          390 CRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGL  445 (461)
Q Consensus       390 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~  445 (461)
                      +...     +...++++....+.+...|....  ....+.+++|...+++..+...
T Consensus       163 ~~~~-----~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p  211 (228)
T 4i17_A          163 FYNN-----GADVLRKATPLASSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSP  211 (228)
T ss_dssp             HHHH-----HHHHHHHHGGGTTTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHH-----HHHHHHHHHhcccCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCC
Confidence            5433     34445556555555555544333  3345667999999999987643

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.34  E-value=1.9e-10  Score=104.52  Aligned_cols=258  Identities=12%  Similarity=0.047  Sum_probs=162.3

Q ss_pred             HhcccchhHHHHHHHHHHHhhcCCCCh----hHHHHHHHHHHHcCChhhHHHHHhcCCC-----Cc----hhHHHHHHHH
Q 038303          117 ACSSLVSHKLGKAIHAHSLRNLNENNI----ILDNAILDFYIRCGSLASCGYLFVKMPK-----RN----VVSWTTMIGG  183 (461)
Q Consensus       117 ~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~----~~~~~~li~~  183 (461)
                      .+...|++++|...+++.++.....+.    ..++.+...+...|++++|...+++...     .+    ..++..+...
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            344567777777777776655432222    1445566677777888888877776653     11    2335667788


Q ss_pred             HHhcCChHHHHHHHHHHHhcCC---CC--C-ChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCC-C--cchHHHHHHH
Q 038303          184 YAERGFCKEAVSVFQEMEKTKE---AE--P-NEATLVNVLSACSSISALSFGKYVHSYISTRYDLS-V--SNLVGNAVIN  254 (461)
Q Consensus       184 ~~~~~~~~~a~~~~~~m~~~~~---~~--~-~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~-~--~~~~~~~li~  254 (461)
                      +...|++++|...+++..+...   .+  | ....+..+...+...|+++.|...++.......-. +  ....+..+..
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            8999999999999998765310   11  2 23455667778899999999999999987632211 1  2345777888


Q ss_pred             HHHhcCCHHHHHHHHHHcc----CCCh-hhHHH-----HHHHHHhcCChHHHHHHHHHHHhcCCCCC---HhHHHHHHHH
Q 038303          255 MYVKCGDVGIAIQVFNMLA----YKDK-ISWST-----VISGLAMNGCGRQALQLFSLMIINAVFPD---DVTFIALISA  321 (461)
Q Consensus       255 ~~~~~g~~~~a~~~~~~~~----~~~~-~~~~~-----l~~~~~~~~~~~~a~~~~~~m~~~g~~p~---~~~~~~ll~~  321 (461)
                      .+...|++++|...+++..    .++. ..+..     .+..+...|++++|...+++.......+.   ...+..+...
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            9999999999999998764    2221 12222     22346678888888888877765332111   1234555666


Q ss_pred             HHcCCChHHHHHHHHHhHhhc---CCCCCc-chHHHHHHHHhhcCCHHHHHHHHHhC
Q 038303          322 CSHGGLVDQGLILFKAMSTVY---EIVPQM-QHYACVVDMYGRAGLLEEAEAFIREM  374 (461)
Q Consensus       322 ~~~~~~~~~a~~~~~~~~~~~---~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~  374 (461)
                      +...|++++|...++......   +..++. ..+..+..++...|+.++|...+++.
T Consensus       263 ~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a  319 (373)
T 1hz4_A          263 QILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDA  319 (373)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            777777777777777664411   111111 24444555566666666666666655

>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=99.32  E-value=2.2e-10  Score=96.24  Aligned_cols=206  Identities=6%  Similarity=-0.043  Sum_probs=158.0

Q ss_pred             CCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccC--C-ChhhHHHH
Q 038303          207 EPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAY--K-DKISWSTV  283 (461)
Q Consensus       207 ~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~l  283 (461)
                      +.|+..+......+...|++++|...|+...+ ....++...+..+..++...|++++|...|++..+  | +...|..+
T Consensus         4 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~-~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l   82 (228)
T 4i17_A            4 TTDPNQLKNEGNDALNAKNYAVAFEKYSEYLK-LTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGK   82 (228)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-HTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHccCHHHHHHHHHHHHh-ccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHH
Confidence            45667888888899999999999999999988 34336667777799999999999999999998874  3 45678899


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCCCCCH-------hHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCC---cchHHH
Q 038303          284 ISGLAMNGCGRQALQLFSLMIINAVFPDD-------VTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQ---MQHYAC  353 (461)
Q Consensus       284 ~~~~~~~~~~~~a~~~~~~m~~~g~~p~~-------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~  353 (461)
                      ...+...|++++|+..+++..+.... +.       ..|..+...+...|++++|+..|++..+   ..|+   ...+..
T Consensus        83 ~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~~~  158 (228)
T 4i17_A           83 SAAYRDMKNNQEYIATLTEGIKAVPG-NATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATD---VTSKKWKTDALYS  158 (228)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTT---SSCHHHHHHHHHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHh---cCCCcccHHHHHH
Confidence            99999999999999999999885322 33       4577777888999999999999999977   3454   567777


Q ss_pred             HHHHHhhcCCHHHHHHHHHhC-CC-CchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHH
Q 038303          354 VVDMYGRAGLLEEAEAFIREM-PI-EAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTF  424 (461)
Q Consensus       354 l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  424 (461)
                      +..+|...|+.     .++++ .. ..+...+....  ....+.+++|+..++++.+..|.++.+...+....
T Consensus       159 l~~~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~~~~~~~~l~~i~  224 (228)
T 4i17_A          159 LGVLFYNNGAD-----VLRKATPLASSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPNRTEIKQMQDQVK  224 (228)
T ss_dssp             HHHHHHHHHHH-----HHHHHGGGTTTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHH-----HHHHHHhcccCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHHH
Confidence            88887665543     33333 11 11223333222  34567789999999999999999988887776654

>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=99.28  E-value=4.9e-11  Score=103.65  Aligned_cols=197  Identities=12%  Similarity=0.115  Sum_probs=120.8

Q ss_pred             chHHHHHHHHHHhcCCHHHHHHHHHHccC-------C----ChhhHHHHHHHHHhcCChHHHHHHHHHHHhc------CC
Q 038303          246 NLVGNAVINMYVKCGDVGIAIQVFNMLAY-------K----DKISWSTVISGLAMNGCGRQALQLFSLMIIN------AV  308 (461)
Q Consensus       246 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~-------~----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~------g~  308 (461)
                      ..++..+...|...|++++|...+++..+       +    ...++..+...+...|++++|.+.+++..+.      .-
T Consensus        43 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  122 (283)
T 3edt_B           43 ATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKF  122 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCC
Confidence            44556666777777777777777665541       1    2345677777777788888888877776653      11


Q ss_pred             CC-CHhHHHHHHHHHHcCCChHHHHHHHHHhHhhc-----C-CCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-C-----
Q 038303          309 FP-DDVTFIALISACSHGGLVDQGLILFKAMSTVY-----E-IVPQMQHYACVVDMYGRAGLLEEAEAFIREM-P-----  375 (461)
Q Consensus       309 ~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-----  375 (461)
                      .| ...++..+...+...|++++|...+++..+..     + .+....++..+...|.+.|++++|...+++. .     
T Consensus       123 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~  202 (283)
T 3edt_B          123 HPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEK  202 (283)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHh
Confidence            12 23567777777888888888888888776620     1 1223456777788888888888888888766 1     


Q ss_pred             ----CCchhh-HHHHHHHHHHhcC------ChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHH
Q 038303          376 ----IEAEWS-VWGALLNACRIHR------NDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRR  442 (461)
Q Consensus       376 ----~~p~~~-~~~~l~~~~~~~~------~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  442 (461)
                          ..+... .+..+...+...+      .+..+...++......|....++..++.+|.+.|++++|..++++..+
T Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          203 EFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             cCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                112222 2222222232222      233333334333334455677888999999999999999999988765

>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=99.28  E-value=2e-10  Score=92.81  Aligned_cols=165  Identities=10%  Similarity=-0.073  Sum_probs=135.8

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHccCC---ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHH
Q 038303          247 LVGNAVINMYVKCGDVGIAIQVFNMLAYK---DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACS  323 (461)
Q Consensus       247 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~  323 (461)
                      ..+..+...+...|++++|...++++.+.   +...+..+...+...|++++|...++++.+.. +.+...+..+...+.
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~   87 (186)
T 3as5_A            9 VYYRDKGISHAKAGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYV   87 (186)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHH
Confidence            34566778888999999999999988743   56778888899999999999999999988763 235677888888899


Q ss_pred             cCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CC-CchhhHHHHHHHHHHhcCChHHHHH
Q 038303          324 HGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PI-EAEWSVWGALLNACRIHRNDEMFDR  401 (461)
Q Consensus       324 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~~~~~~a~~  401 (461)
                      ..|++++|...++++..  ..+.+...+..+...+...|++++|...++++ .. +.+...+..+...+...|++++|..
T Consensus        88 ~~~~~~~A~~~~~~~~~--~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~  165 (186)
T 3as5_A           88 QVQKYDLAVPLLIKVAE--ANPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEALP  165 (186)
T ss_dssp             HHTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHh--cCcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHHH
Confidence            99999999999999887  24456778888899999999999999999987 22 2345677888888999999999999


Q ss_pred             HHHHHhhcCCCCh
Q 038303          402 IRQDLVNKKGVSV  414 (461)
Q Consensus       402 ~~~~~~~~~~~~~  414 (461)
                      .++++.+..|.+.
T Consensus       166 ~~~~~~~~~~~~~  178 (186)
T 3as5_A          166 HFKKANELDEGAS  178 (186)
T ss_dssp             HHHHHHHHHHCCC
T ss_pred             HHHHHHHcCCCch
Confidence            9999988665544

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.22  E-value=5.9e-10  Score=97.45  Aligned_cols=186  Identities=9%  Similarity=-0.006  Sum_probs=109.6

Q ss_pred             HHHhcCCHHHHHHHHHHccCC-----C----hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCC-CC----HhHHHHHHH
Q 038303          255 MYVKCGDVGIAIQVFNMLAYK-----D----KISWSTVISGLAMNGCGRQALQLFSLMIINAVF-PD----DVTFIALIS  320 (461)
Q Consensus       255 ~~~~~g~~~~a~~~~~~~~~~-----~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~-p~----~~~~~~ll~  320 (461)
                      .|...|++++|.+.|++...-     +    ..+|+.+...|...|++++|+..+++..+.... .+    ..++..+..
T Consensus        46 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~  125 (292)
T 1qqe_A           46 IYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGE  125 (292)
T ss_dssp             HHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            455666666666666554321     1    345667777777777777777777766542110 01    245666777


Q ss_pred             HHHcC-CChHHHHHHHHHhHhhcCCCCC----cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCch---h-----hHHHHH
Q 038303          321 ACSHG-GLVDQGLILFKAMSTVYEIVPQ----MQHYACVVDMYGRAGLLEEAEAFIREM-PIEAE---W-----SVWGAL  386 (461)
Q Consensus       321 ~~~~~-~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~---~-----~~~~~l  386 (461)
                      .|... |++++|+..|++..+...-..+    ..++..+...+.+.|++++|...|++. ...|+   .     ..+..+
T Consensus       126 ~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~l  205 (292)
T 1qqe_A          126 ILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKK  205 (292)
T ss_dssp             HHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHH
T ss_pred             HHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHH
Confidence            77775 8888888777776652110011    345667777777888888888887776 22221   1     134555


Q ss_pred             HHHHHhcCChHHHHHHHHHHhhcCCCChh-----HHHHHHHHHh--ccCChhhHHHHHHHH
Q 038303          387 LNACRIHRNDEMFDRIRQDLVNKKGVSVG-----TFALMSNTFA--GADRWEDTNKIRDEI  440 (461)
Q Consensus       387 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~l~~~~~--~~g~~~~A~~~~~~m  440 (461)
                      ..++...|++++|+..+++..+..|....     .+..++.++.  ..+++++|+..++++
T Consensus       206 g~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~  266 (292)
T 1qqe_A          206 GLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNF  266 (292)
T ss_dssp             HHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTS
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccC
Confidence            56677778888888888887776554333     2344555554  445677777776544

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.18  E-value=9e-09  Score=88.30  Aligned_cols=244  Identities=9%  Similarity=-0.012  Sum_probs=164.5

Q ss_pred             HHHHHHcCChhhHHHHHhcCCCCch-hHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhh
Q 038303          150 LDFYIRCGSLASCGYLFVKMPKRNV-VSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSF  228 (461)
Q Consensus       150 ~~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~  228 (461)
                      ++-..-.|++..++.-..++...+. ..-..+.+++...|++...         .. ..|....+..+...+. .+    
T Consensus        20 ikn~fy~G~yq~~i~e~~~~~~~~~~~~~~~~~Rs~iAlg~~~~~---------~~-~~~~~~a~~~la~~~~-~~----   84 (310)
T 3mv2_B           20 IKQNYYTGNFVQCLQEIEKFSKVTDNTLLFYKAKTLLALGQYQSQ---------DP-TSKLGKVLDLYVQFLD-TK----   84 (310)
T ss_dssp             HHHHHTTTCHHHHTHHHHTSSCCCCHHHHHHHHHHHHHTTCCCCC---------CS-SSTTHHHHHHHHHHHT-TT----
T ss_pred             HHHHHHhhHHHHHHHHHHhcCccchHHHHHHHHHHHHHcCCCccC---------CC-CCHHHHHHHHHHHHhc-cc----
Confidence            3445667999999887776654222 2333455788888887742         11 4444444444444442 22    


Q ss_pred             HHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCC-----ChhhHHHHHHHHHhcCChHHHHHHHHHH
Q 038303          229 GKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYK-----DKISWSTVISGLAMNGCGRQALQLFSLM  303 (461)
Q Consensus       229 a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~m  303 (461)
                      +...++.... .+ .++......+..++...|++++|++++.+....     +...+..++..+.+.|+.+.|.+.+++|
T Consensus        85 a~~~l~~l~~-~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~  162 (310)
T 3mv2_B           85 NIEELENLLK-DK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNY  162 (310)
T ss_dssp             CCHHHHHTTT-TS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHh-cC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            6777777766 33 445555567888889999999999999887543     4456777888999999999999999999


Q ss_pred             HhcCCCC-----CHhHHHHHHHHHHc----CCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC
Q 038303          304 IINAVFP-----DDVTFIALISACSH----GGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM  374 (461)
Q Consensus       304 ~~~g~~p-----~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  374 (461)
                      .+.  .|     +..+...+..++..    .+++..|..+|+++...   .|+..+-..++.++.+.|++++|.+.++.+
T Consensus       163 ~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~---~p~~~~~~lLln~~~~~g~~~eAe~~L~~l  237 (310)
T 3mv2_B          163 TNA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT---FPTWKTQLGLLNLHLQQRNIAEAQGIVELL  237 (310)
T ss_dssp             HHH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT---SCSHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             Hhc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh---CCCcccHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            874  56     35666667666332    34899999999998662   244333344455888899999999998865


Q ss_pred             -CC-----------CchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHH
Q 038303          375 -PI-----------EAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTF  417 (461)
Q Consensus       375 -~~-----------~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  417 (461)
                       ..           +.+..+...++......|+  .|.+++.++.+..|.++.+.
T Consensus       238 ~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~hp~i~  290 (310)
T 3mv2_B          238 LSDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHEHAFIK  290 (310)
T ss_dssp             HSHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCCHHHH
T ss_pred             HHhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCChHHH
Confidence             22           3355556455555445565  78899999998888887554

>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=99.17  E-value=9.7e-10  Score=83.44  Aligned_cols=128  Identities=12%  Similarity=0.133  Sum_probs=85.7

Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CC-CchhhHHHHHHHHHHh
Q 038303          315 FIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PI-EAEWSVWGALLNACRI  392 (461)
Q Consensus       315 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~  392 (461)
                      +..+...+...|++++|..+++.+.+.  .+.+...+..+...+...|++++|...++++ .. +.+...+..+...+..
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~   81 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYK   81 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHc--CCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHH
Confidence            344455555556666666666655541  2233445555666666666666666666665 11 2234456666667778


Q ss_pred             cCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcC
Q 038303          393 HRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMG  444 (461)
Q Consensus       393 ~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  444 (461)
                      .|++++|...++++.+..|.+..++..++.++.+.|++++|...++++.+..
T Consensus        82 ~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  133 (136)
T 2fo7_A           82 QGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD  133 (136)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHS
T ss_pred             hcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccC
Confidence            8888888888888888777778888888888888888888888888887643

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.16  E-value=1.4e-08  Score=87.07  Aligned_cols=175  Identities=13%  Similarity=0.065  Sum_probs=103.8

Q ss_pred             HHHHHHHccC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHhHHHHHHHHHHcCCChHHHHHHHHHhHh
Q 038303          265 AIQVFNMLAY---KDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFP-DDVTFIALISACSHGGLVDQGLILFKAMST  340 (461)
Q Consensus       265 a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  340 (461)
                      |...|++...   ++..++..+..++...|++++|++++.+.+..|..+ +...+..++..+.+.|+.+.|.+.++.|.+
T Consensus        85 a~~~l~~l~~~~~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~  164 (310)
T 3mv2_B           85 NIEELENLLKDKQNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTN  164 (310)
T ss_dssp             CCHHHHHTTTTSCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            5556655542   334444566666777777777777777765544312 345666666777777777777777777755


Q ss_pred             hcCCCC-----CcchHHHHHHHH--hhcC--CHHHHHHHHHhC-CCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhc-
Q 038303          341 VYEIVP-----QMQHYACVVDMY--GRAG--LLEEAEAFIREM-PIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNK-  409 (461)
Q Consensus       341 ~~~~~~-----~~~~~~~l~~~~--~~~g--~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-  409 (461)
                         ..|     +..+...|+.++  ...|  ++++|..+|+++ ...|+..+...++.++...|++++|+..++.+.+. 
T Consensus       165 ---~~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~  241 (310)
T 3mv2_B          165 ---AIEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTFPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDY  241 (310)
T ss_dssp             ---HSCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTSCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHH
T ss_pred             ---cCccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence               234     234444444442  2223  677777777777 33344333334444666777777777777765543 


Q ss_pred             ---------CCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcC
Q 038303          410 ---------KGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMG  444 (461)
Q Consensus       410 ---------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  444 (461)
                               .|.++.++..++......|+  +|.++++++.+..
T Consensus       242 p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~  283 (310)
T 3mv2_B          242 YSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLD  283 (310)
T ss_dssp             HHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTT
T ss_pred             ccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhC
Confidence                     36667777666555555665  6677777766543

>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=99.15  E-value=1.4e-09  Score=94.30  Aligned_cols=163  Identities=12%  Similarity=-0.013  Sum_probs=98.7

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHccC-------C----ChhhHHHHHHHHHhcCChHHHHHHHHHHHhc------CCC
Q 038303          247 LVGNAVINMYVKCGDVGIAIQVFNMLAY-------K----DKISWSTVISGLAMNGCGRQALQLFSLMIIN------AVF  309 (461)
Q Consensus       247 ~~~~~li~~~~~~g~~~~a~~~~~~~~~-------~----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~------g~~  309 (461)
                      .++..+...|...|++++|.+.+++...       +    ....+..+...+...|++++|...+++..+.      +-.
T Consensus        86 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  165 (283)
T 3edt_B           86 ATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDD  165 (283)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTC
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCC
Confidence            3455666666666666666666655441       1    2345677777888888888888888887664      112


Q ss_pred             CC-HhHHHHHHHHHHcCCChHHHHHHHHHhHhhc------CCCCC-cchHHHHHHHHhhc------CCHHHHHHHHHhCC
Q 038303          310 PD-DVTFIALISACSHGGLVDQGLILFKAMSTVY------EIVPQ-MQHYACVVDMYGRA------GLLEEAEAFIREMP  375 (461)
Q Consensus       310 p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~------~~~~~-~~~~~~l~~~~~~~------g~~~~A~~~~~~~~  375 (461)
                      |+ ..++..+...|...|++++|...+++..+..      ...+. ...+..+...+...      ..+..+...++...
T Consensus       166 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  245 (283)
T 3edt_B          166 PNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACK  245 (283)
T ss_dssp             HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCC
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcC
Confidence            32 3567778888888999999998888876521      12233 23333333333322      22444445555552


Q ss_pred             -CCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhc
Q 038303          376 -IEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNK  409 (461)
Q Consensus       376 -~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  409 (461)
                       ..| ...++..+...|...|++++|...++++.+.
T Consensus       246 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          246 VDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             CCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             CCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence             223 3446777788899999999999999988764

>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=99.14  E-value=2.3e-09  Score=104.67  Aligned_cols=159  Identities=14%  Similarity=-0.039  Sum_probs=95.0

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHH
Q 038303          176 SWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINM  255 (461)
Q Consensus       176 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~  255 (461)
                      +|+.|...+.+.|++++|++.|++..+.  .+-+...+..+..++.+.|++++|...|++..+.  .+-+...+..+..+
T Consensus        11 al~nLG~~~~~~G~~~eAi~~~~kAl~l--~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l--~P~~~~a~~nLg~~   86 (723)
T 4gyw_A           11 SLNNLANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNMGNT   86 (723)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            4444444444445555555555444442  1222344444444444444555554444444431  11234456667777


Q ss_pred             HHhcCCHHHHHHHHHHccC--C-ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CHhHHHHHHHHHHcCCChHHH
Q 038303          256 YVKCGDVGIAIQVFNMLAY--K-DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFP-DDVTFIALISACSHGGLVDQG  331 (461)
Q Consensus       256 ~~~~g~~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a  331 (461)
                      |.+.|++++|++.|++..+  | +...|+.+...+...|++++|++.|++..+.  .| +...+..+..++...|++++|
T Consensus        87 l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l--~P~~~~a~~~L~~~l~~~g~~~~A  164 (723)
T 4gyw_A           87 LKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKL--KPDFPDAYCNLAHCLQIVCDWTDY  164 (723)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCCTTH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHhhhhhHHHhcccHHHH
Confidence            7777777777777776552  2 4567777777788888888888888887774  34 346777777778888888887


Q ss_pred             HHHHHHhHh
Q 038303          332 LILFKAMST  340 (461)
Q Consensus       332 ~~~~~~~~~  340 (461)
                      .+.++++.+
T Consensus       165 ~~~~~kal~  173 (723)
T 4gyw_A          165 DERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            777776644

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.13  E-value=6.1e-09  Score=87.13  Aligned_cols=185  Identities=9%  Similarity=-0.077  Sum_probs=115.1

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHccC--CC----hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH--hHHHHH
Q 038303          247 LVGNAVINMYVKCGDVGIAIQVFNMLAY--KD----KISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDD--VTFIAL  318 (461)
Q Consensus       247 ~~~~~li~~~~~~g~~~~a~~~~~~~~~--~~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~--~~~~~l  318 (461)
                      ..+..+...+.+.|++++|...|+.+.+  |+    ...+..+..++.+.|++++|+..|++..+.......  ..+..+
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            3445566677778888888888877763  32    235666777778888888888888887764322111  133333


Q ss_pred             HHHHHc------------------CCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCchh
Q 038303          319 ISACSH------------------GGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEW  380 (461)
Q Consensus       319 l~~~~~------------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~  380 (461)
                      ..++..                  .|++++|...|+.+.+  ..+-+...+.......    ...      ...     .
T Consensus        85 g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~--~~P~~~~a~~a~~~l~----~~~------~~~-----~  147 (225)
T 2yhc_A           85 GLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVR--GYPNSQYTTDATKRLV----FLK------DRL-----A  147 (225)
T ss_dssp             HHHHHHHHC--------------CCHHHHHHHHHHHHHHT--TCTTCTTHHHHHHHHH----HHH------HHH-----H
T ss_pred             HHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHH--HCcCChhHHHHHHHHH----HHH------HHH-----H
Confidence            444432                  3455556665555554  1111222211111000    000      000     0


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCh---hHHHHHHHHHhccCChhhHHHHHHHHHHcCCccc
Q 038303          381 SVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSV---GTFALMSNTFAGADRWEDTNKIRDEIRRMGLKKK  448 (461)
Q Consensus       381 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~~~  448 (461)
                      .....+...+.+.|++++|+..++++++..|.++   .++..++.+|.+.|++++|.+.++.+...+....
T Consensus       148 ~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~~~  218 (225)
T 2yhc_A          148 KYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSNTL  218 (225)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSCCC
T ss_pred             HHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCch
Confidence            0112344558899999999999999999888875   5799999999999999999999999988765443

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.11  E-value=4.7e-09  Score=90.11  Aligned_cols=185  Identities=10%  Similarity=-0.066  Sum_probs=118.0

Q ss_pred             chHHHHHHHHHHhcCCHHHHHHHHHHccC--C-C---hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCC-CCC-HhHHHH
Q 038303          246 NLVGNAVINMYVKCGDVGIAIQVFNMLAY--K-D---KISWSTVISGLAMNGCGRQALQLFSLMIINAV-FPD-DVTFIA  317 (461)
Q Consensus       246 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~--~-~---~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~-~p~-~~~~~~  317 (461)
                      ...+..+...+.+.|++++|...|+.+.+  | +   ...+..+..++.+.|++++|...|++..+... .|. ...+..
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            34445566667777777777777777663  2 2   34566677777777777777777777776432 112 244555


Q ss_pred             HHHHHHc--------CCChHHHHHHHHHhHhhcCCCCCcchH-----------------HHHHHHHhhcCCHHHHHHHHH
Q 038303          318 LISACSH--------GGLVDQGLILFKAMSTVYEIVPQMQHY-----------------ACVVDMYGRAGLLEEAEAFIR  372 (461)
Q Consensus       318 ll~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~~-----------------~~l~~~~~~~g~~~~A~~~~~  372 (461)
                      +..++..        .|++++|...|+++.+.  .+.+....                 ..+...|.+.|++++|...|+
T Consensus        95 lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  172 (261)
T 3qky_A           95 RAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR--YPNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTYE  172 (261)
T ss_dssp             HHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH--CTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHhcccccccchhHHHHHHHHHHHHHH--CcCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHH
Confidence            6666666        77778888877777662  22222223                 445777888888888888888


Q ss_pred             hC-CCCch----hhHHHHHHHHHHhc----------CChHHHHHHHHHHhhcCCCCh---hHHHHHHHHHhccCChhh
Q 038303          373 EM-PIEAE----WSVWGALLNACRIH----------RNDEMFDRIRQDLVNKKGVSV---GTFALMSNTFAGADRWED  432 (461)
Q Consensus       373 ~~-~~~p~----~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~  432 (461)
                      ++ ...|+    ...+..+..+|...          |++++|+..++++.+..|.++   .+...+...+.+.|++++
T Consensus       173 ~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~l~~~~~~~~~~~~  250 (261)
T 3qky_A          173 AVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDSPLLRTAEELYTRARQRLTELEG  250 (261)
T ss_dssp             HHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHHHHhhh
Confidence            77 22232    33555566666654          788888888888888777774   344455555555555444

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.10  E-value=5.7e-09  Score=91.16  Aligned_cols=171  Identities=8%  Similarity=-0.092  Sum_probs=106.4

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHccCC-----C----hhhHHHHHHHHHhc-CChHHHHHHHHHHHhcCCCC-C----
Q 038303          247 LVGNAVINMYVKCGDVGIAIQVFNMLAYK-----D----KISWSTVISGLAMN-GCGRQALQLFSLMIINAVFP-D----  311 (461)
Q Consensus       247 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----~----~~~~~~l~~~~~~~-~~~~~a~~~~~~m~~~g~~p-~----  311 (461)
                      .+++.+..+|.+.|++++|...+++..+-     +    ..+++.+...|... |++++|+..|++..+..... +    
T Consensus        78 ~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~  157 (292)
T 1qqe_A           78 NTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALS  157 (292)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHH
Confidence            34555666666666666666666554421     1    24577777788885 88888888888876532110 1    


Q ss_pred             HhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCc-----chHHHHHHHHhhcCCHHHHHHHHHhC-CCCchhh----
Q 038303          312 DVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQM-----QHYACVVDMYGRAGLLEEAEAFIREM-PIEAEWS----  381 (461)
Q Consensus       312 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~----  381 (461)
                      ..++..+...+...|++++|+..|++..+...-.+..     ..|..+..++...|++++|...+++. .+.|+..    
T Consensus       158 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~  237 (292)
T 1qqe_A          158 NKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRE  237 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHH
Confidence            2457777888888888888888888887722111221     14566777888888999999888887 4444432    


Q ss_pred             --HHHHHHHHHH--hcCChHHHHHHHHHHhhcCCCChhHH
Q 038303          382 --VWGALLNACR--IHRNDEMFDRIRQDLVNKKGVSVGTF  417 (461)
Q Consensus       382 --~~~~l~~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~  417 (461)
                        .+..++.++.  ..+++++|+..|+.+....|.....+
T Consensus       238 ~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~l~~~~~~~~  277 (292)
T 1qqe_A          238 SNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDKWKITIL  277 (292)
T ss_dssp             HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHhccCCccHHHHHHHH
Confidence              2333444553  44667777777777666555443333

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.07  E-value=7.1e-09  Score=88.98  Aligned_cols=170  Identities=8%  Similarity=-0.049  Sum_probs=135.1

Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC---HhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCC-cch
Q 038303          275 KDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPD---DVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQ-MQH  350 (461)
Q Consensus       275 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~  350 (461)
                      .+...+..+...+.+.|++++|...|+++.+.... +   ...+..+..+|...|++++|...|+...+...-.|. ...
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a   91 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRT-HEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQA   91 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSC-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCC-CcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHH
Confidence            35666777888899999999999999999986422 2   567888888999999999999999999883221222 456


Q ss_pred             HHHHHHHHhh--------cCCHHHHHHHHHhC-CCCchh-hHH-----------------HHHHHHHHhcCChHHHHHHH
Q 038303          351 YACVVDMYGR--------AGLLEEAEAFIREM-PIEAEW-SVW-----------------GALLNACRIHRNDEMFDRIR  403 (461)
Q Consensus       351 ~~~l~~~~~~--------~g~~~~A~~~~~~~-~~~p~~-~~~-----------------~~l~~~~~~~~~~~~a~~~~  403 (461)
                      +..+..++..        .|++++|...|++. ...|+. ...                 ..+...|...|++++|+..+
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  171 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTY  171 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHH
Confidence            7778888888        99999999999988 333332 222                 34456689999999999999


Q ss_pred             HHHhhcCCC---ChhHHHHHHHHHhcc----------CChhhHHHHHHHHHHcCC
Q 038303          404 QDLVNKKGV---SVGTFALMSNTFAGA----------DRWEDTNKIRDEIRRMGL  445 (461)
Q Consensus       404 ~~~~~~~~~---~~~~~~~l~~~~~~~----------g~~~~A~~~~~~m~~~g~  445 (461)
                      +++++..|.   .+..+..++.+|.+.          |++++|...++++.+...
T Consensus       172 ~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p  226 (261)
T 3qky_A          172 EAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFP  226 (261)
T ss_dssp             HHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCC
Confidence            999998776   456899999999876          899999999999987643

>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=99.05  E-value=1.4e-09  Score=106.55  Aligned_cols=169  Identities=9%  Similarity=-0.085  Sum_probs=123.2

Q ss_pred             HhcCCHHHHHHHHHHcc-----------CCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcC
Q 038303          257 VKCGDVGIAIQVFNMLA-----------YKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHG  325 (461)
Q Consensus       257 ~~~g~~~~a~~~~~~~~-----------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  325 (461)
                      ...|++++|.+.+++..           ..+...+..+...+...|++++|++.+++..+.... +...+..+..++...
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERVGW-RWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcc-hHHHHHHHHHHHHHc
Confidence            56788888888887765           224566777777888888888888888888775322 456777777778888


Q ss_pred             CChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHH
Q 038303          326 GLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIR  403 (461)
Q Consensus       326 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~  403 (461)
                      |++++|+..|++..+  --+.+...+..+..+|.+.|++++ .+.|++. ...| +...|..+..++...|++++|+..+
T Consensus       481 g~~~~A~~~~~~al~--l~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~  557 (681)
T 2pzi_A          481 GDYDSATKHFTEVLD--TFPGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDGVISAAFGLARARSAEGDRVGAVRTL  557 (681)
T ss_dssp             TCHHHHHHHHHHHHH--HSTTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHH--hCCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            888888888888776  223356677778888888888888 8888776 3333 4456777777788888888888888


Q ss_pred             HHHhhcCCCChhHHHHHHHHHhccCC
Q 038303          404 QDLVNKKGVSVGTFALMSNTFAGADR  429 (461)
Q Consensus       404 ~~~~~~~~~~~~~~~~l~~~~~~~g~  429 (461)
                      +++.+..|.+..++..++.++...|+
T Consensus       558 ~~al~l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          558 DEVPPTSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HTSCTTSTTHHHHHHHHHHHTC----
T ss_pred             HhhcccCcccHHHHHHHHHHHHccCC
Confidence            88888888888888888888766554

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.04  E-value=4.6e-07  Score=84.85  Aligned_cols=203  Identities=11%  Similarity=-0.055  Sum_probs=133.2

Q ss_pred             HHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHH-HHHH
Q 038303          191 KEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIA-IQVF  269 (461)
Q Consensus       191 ~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a-~~~~  269 (461)
                      +.+..+|+++...  .+.+...|...+..+.+.|+.+.|..+++.... .  +.+...+.    .|....+.++. ..+.
T Consensus       196 ~Rv~~~ye~al~~--~p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~-~--P~~~~l~~----~y~~~~e~~~~~~~l~  266 (493)
T 2uy1_A          196 SRMHFIHNYILDS--FYYAEEVYFFYSEYLIGIGQKEKAKKVVERGIE-M--SDGMFLSL----YYGLVMDEEAVYGDLK  266 (493)
T ss_dssp             HHHHHHHHHHHHH--TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-H--CCSSHHHH----HHHHHTTCTHHHHHHH
T ss_pred             HHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh-C--CCcHHHHH----HHHhhcchhHHHHHHH
Confidence            4567788888875  556677777777778888999999999999988 3  33333322    22222111121 1122


Q ss_pred             HHcc--C-------C---ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHH-HcCCChHHHHHHHH
Q 038303          270 NMLA--Y-------K---DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISAC-SHGGLVDQGLILFK  336 (461)
Q Consensus       270 ~~~~--~-------~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~-~~~~~~~~a~~~~~  336 (461)
                      +...  .       +   ....|...+....+.++.+.|..+|++. +. ..++...|......- ...++.+.|..+|+
T Consensus       267 ~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife  344 (493)
T 2uy1_A          267 RKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFS  344 (493)
T ss_dssp             HHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHH
T ss_pred             HHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHH
Confidence            2111  0       1   1245666677777788899999999998 32 122334443222211 12346999999999


Q ss_pred             HhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhh
Q 038303          337 AMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVN  408 (461)
Q Consensus       337 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  408 (461)
                      ...+..  +-++..+...++...+.|+.+.|..+|+++.  .....|...+..-...|+.+.+..++++...
T Consensus       345 ~al~~~--~~~~~~~~~yid~e~~~~~~~~aR~l~er~~--k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          345 SGLLKH--PDSTLLKEEFFLFLLRIGDEENARALFKRLE--KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC--CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH--HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            988843  3334556677888888999999999999983  2466777777777788999999998888875

>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=99.04  E-value=7.4e-09  Score=78.44  Aligned_cols=130  Identities=12%  Similarity=0.132  Sum_probs=77.7

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHH
Q 038303          279 SWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMY  358 (461)
Q Consensus       279 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  358 (461)
                      .|..+...+...|++++|..+++++.+... .+...+..+...+...|++++|...++++...  .+.+...+..+...+
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~   79 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELDP-RSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcCC-cchhHHHHHHHHHHHhcCHHHHHHHHHHHHHH--CCCchHHHHHHHHHH
Confidence            345555566666666666666666655432 23455555666666666666666666666551  233445556666666


Q ss_pred             hhcCCHHHHHHHHHhC-CCC-chhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCC
Q 038303          359 GRAGLLEEAEAFIREM-PIE-AEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKG  411 (461)
Q Consensus       359 ~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  411 (461)
                      ...|++++|.+.++++ ... .+...+..+...+...|++++|...++++.+..|
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~  134 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP  134 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHST
T ss_pred             HHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccCC
Confidence            6667777777666665 222 2344555566666777777777777777665544

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.03  E-value=8.6e-09  Score=89.70  Aligned_cols=176  Identities=5%  Similarity=-0.136  Sum_probs=134.9

Q ss_pred             HHHHHHHHHccCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhc
Q 038303          263 GIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVY  342 (461)
Q Consensus       263 ~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  342 (461)
                      +.....+......+...+..+...+.+.|++++|...|++..+.... +...+..+...+...|++++|...++.+..  
T Consensus       103 ~~l~~~l~~~lp~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~la~~~~~~g~~~~A~~~l~~~~~--  179 (287)
T 3qou_A          103 EAIRALLDXVLPREEELXAQQAMQLMQESNYTDALPLLXDAWQLSNQ-NGEIGLLLAETLIALNRSEDAEAVLXTIPL--  179 (287)
T ss_dssp             HHHHHHHHHHSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTS-CHHHHHHHHHHHHHTTCHHHHHHHHTTSCG--
T ss_pred             HHHHHHHHHHcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCCc-chhHHHHHHHHHHHCCCHHHHHHHHHhCch--
Confidence            34445555555445566777888888999999999999998885322 457788888889999999999999988866  


Q ss_pred             CCCCCcchHHH-HHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCC--hhHH
Q 038303          343 EIVPQMQHYAC-VVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVS--VGTF  417 (461)
Q Consensus       343 ~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~  417 (461)
                       ..|+...... ....+.+.++.++|...+++. ...| +...+..+...+...|++++|+..++++.+..|.+  ...+
T Consensus       180 -~~p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~  258 (287)
T 3qou_A          180 -QDQDTRYQGLVAQIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTR  258 (287)
T ss_dssp             -GGCSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHH
T ss_pred             -hhcchHHHHHHHHHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHH
Confidence             2344333222 233366778888888888887 3334 45677788888999999999999999999988877  8899


Q ss_pred             HHHHHHHhccCChhhHHHHHHHHHH
Q 038303          418 ALMSNTFAGADRWEDTNKIRDEIRR  442 (461)
Q Consensus       418 ~~l~~~~~~~g~~~~A~~~~~~m~~  442 (461)
                      ..++.+|...|+.++|...+++...
T Consensus       259 ~~l~~~~~~~g~~~~a~~~~r~al~  283 (287)
T 3qou_A          259 XTFQEILAALGTGDALASXYRRQLY  283 (287)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCcHHHHHHHHHH
Confidence            9999999999999999998887643

>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=99.00  E-value=9.5e-10  Score=85.45  Aligned_cols=141  Identities=5%  Similarity=-0.133  Sum_probs=97.8

Q ss_pred             HHHHhcCChHHHHHHHHHHHhcCCCCC-HhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCC
Q 038303          285 SGLAMNGCGRQALQLFSLMIINAVFPD-DVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGL  363 (461)
Q Consensus       285 ~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  363 (461)
                      ..+...|++++|++.++.....  .|+ ...+..+...|.+.|++++|++.|++..+  --+-+...|..+..+|.+.|+
T Consensus         5 ~~~~~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~--~~p~~~~a~~~lg~~~~~~~~   80 (150)
T 4ga2_A            5 SMRRSKADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYIN--VQERDPKAHRFLGLLYELEEN   80 (150)
T ss_dssp             --CCCHHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHcChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCc
Confidence            3444556777777777776542  222 24455667777788888888888887776  223456777778888888888


Q ss_pred             HHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHH-HHHHHhhcCCCChhHHHHHHHHHhccCC
Q 038303          364 LEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDR-IRQDLVNKKGVSVGTFALMSNTFAGADR  429 (461)
Q Consensus       364 ~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~-~~~~~~~~~~~~~~~~~~l~~~~~~~g~  429 (461)
                      +++|...|++. ...| +...+..+...+.+.|+.++|.+ +++++.+..|.++.+|......+.+.|+
T Consensus        81 ~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           81 TDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCHHHHHHHHHHHHTCCC
T ss_pred             hHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCc
Confidence            88888888777 4444 34567777777888888765544 4588888888888888888888777764

>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=98.99  E-value=4.5e-08  Score=80.89  Aligned_cols=173  Identities=8%  Similarity=-0.108  Sum_probs=123.6

Q ss_pred             HHHHHHHcc-CCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCC----ChHHHHHHHHHhH
Q 038303          265 AIQVFNMLA-YKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGG----LVDQGLILFKAMS  339 (461)
Q Consensus       265 a~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~----~~~~a~~~~~~~~  339 (461)
                      |.+.|++.. ..+...+..+...+...+++++|++.|++..+.|   +...+..+...|.. +    ++++|...|++..
T Consensus         5 A~~~~~~aa~~g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~   80 (212)
T 3rjv_A            5 PGSQYQQQAEAGDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAV   80 (212)
T ss_dssp             TTHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHH
Confidence            344444333 2356666677777777788888888888877754   45666666666666 5    7888888888876


Q ss_pred             hhcCCCCCcchHHHHHHHHhh----cCCHHHHHHHHHhC-CCCch---hhHHHHHHHHHHh----cCChHHHHHHHHHHh
Q 038303          340 TVYEIVPQMQHYACVVDMYGR----AGLLEEAEAFIREM-PIEAE---WSVWGALLNACRI----HRNDEMFDRIRQDLV  407 (461)
Q Consensus       340 ~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~-~~~p~---~~~~~~l~~~~~~----~~~~~~a~~~~~~~~  407 (461)
                      + .   .+...+..|...|..    .+++++|.++|++. ...|.   ...+..|...|..    .++.++|...|++..
T Consensus        81 ~-~---g~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~  156 (212)
T 3rjv_A           81 E-A---GSKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSS  156 (212)
T ss_dssp             H-T---TCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHH
T ss_pred             H-C---CCHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH
Confidence            6 2   245566677777766    77888888888887 33332   5667777777776    778899999999988


Q ss_pred             hcCCCChhHHHHHHHHHhcc-C-----ChhhHHHHHHHHHHcCCc
Q 038303          408 NKKGVSVGTFALMSNTFAGA-D-----RWEDTNKIRDEIRRMGLK  446 (461)
Q Consensus       408 ~~~~~~~~~~~~l~~~~~~~-g-----~~~~A~~~~~~m~~~g~~  446 (461)
                      +. +.++..+..|+..|... |     ++++|...+++..+.|..
T Consensus       157 ~~-~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~~  200 (212)
T 3rjv_A          157 SL-SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGFD  200 (212)
T ss_dssp             HT-SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTCH
T ss_pred             Hc-CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCCH
Confidence            76 55666888888888654 3     889999999988887753

>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=98.97  E-value=2.8e-08  Score=87.48  Aligned_cols=219  Identities=10%  Similarity=-0.021  Sum_probs=135.8

Q ss_pred             cCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHH
Q 038303          187 RGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAI  266 (461)
Q Consensus       187 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  266 (461)
                      .|++++|.+++++..+..  +..         .+...++++.|...|...                ...|...|++++|.
T Consensus         4 ~~~~~eA~~~~~~a~k~~--~~~---------~~~~~~~~~~A~~~~~~a----------------~~~~~~~g~~~~A~   56 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYL--KTS---------FMKWKPDYDSAASEYAKA----------------AVAFKNAKQLEQAK   56 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHH--CCC---------SSSCSCCHHHHHHHHHHH----------------HHHHHHTTCHHHHH
T ss_pred             cchHHHHHHHHHHHHHHc--ccc---------ccCCCCCHHHHHHHHHHH----------------HHHHHHcCCHHHHH
Confidence            466777777777776531  111         011135555555555543                34566677777777


Q ss_pred             HHHHHccCC-----C----hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCC---CCC--HhHHHHHHHHHHcCCChHHHH
Q 038303          267 QVFNMLAYK-----D----KISWSTVISGLAMNGCGRQALQLFSLMIINAV---FPD--DVTFIALISACSHGGLVDQGL  332 (461)
Q Consensus       267 ~~~~~~~~~-----~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~---~p~--~~~~~~ll~~~~~~~~~~~a~  332 (461)
                      ..|.+...-     +    ..+|+.+...|...|++++|+..+++..+.-.   .|.  ..++..+...|.. |++++|+
T Consensus        57 ~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~  135 (307)
T 2ifu_A           57 DAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAV  135 (307)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHH
Confidence            777655421     1    34677777888888888888888887654311   111  2566677777777 8888888


Q ss_pred             HHHHHhHhhcCCCC----CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc------h-hhHHHHHHHHHHhcCChHHHH
Q 038303          333 ILFKAMSTVYEIVP----QMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA------E-WSVWGALLNACRIHRNDEMFD  400 (461)
Q Consensus       333 ~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p------~-~~~~~~l~~~~~~~~~~~~a~  400 (461)
                      ..|++......-..    ...++..+...|.+.|++++|...|++. ...|      . ...+..+...+...|++++|.
T Consensus       136 ~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~  215 (307)
T 2ifu_A          136 HLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQ  215 (307)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHH
Confidence            88887765211111    1456777888888888888888888877 2111      1 114445555567778899999


Q ss_pred             HHHHHHhhcCCCChh-----HHHHHHHHHhccCChhhHHH
Q 038303          401 RIRQDLVNKKGVSVG-----TFALMSNTFAGADRWEDTNK  435 (461)
Q Consensus       401 ~~~~~~~~~~~~~~~-----~~~~l~~~~~~~g~~~~A~~  435 (461)
                      ..+++.. ..|....     ....++.++ ..|+.+.+.+
T Consensus       216 ~~~~~al-~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          216 KCVRESY-SIPGFSGSEDCAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHHHHT-TSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HHHHHHh-CCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHH
Confidence            9988888 6654322     344555555 4566655555

>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=98.96  E-value=7.9e-09  Score=99.51  Aligned_cols=160  Identities=14%  Similarity=0.021  Sum_probs=119.0

Q ss_pred             cCCHHHHHHHHHHccCC---ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHH
Q 038303          259 CGDVGIAIQVFNMLAYK---DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILF  335 (461)
Q Consensus       259 ~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~  335 (461)
                      .|++++|.+.|++..+.   +...|..+...+...|++++|.+.+++..+... .+...+..+...|...|++++|.+.+
T Consensus         2 ~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHP-GHPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTST-TCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            47888999999887743   567888899999999999999999999988532 24678888888999999999999999


Q ss_pred             HHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhc---CChHHHHHHHHHHhhcC
Q 038303          336 KAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIH---RNDEMFDRIRQDLVNKK  410 (461)
Q Consensus       336 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~  410 (461)
                      ++..+.  .+.+...+..+..+|.+.|++++|.+.+++. ...| +...+..+...+...   |+.++|.+.++++.+..
T Consensus        81 ~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A           81 QQASDA--APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHhc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            998872  3445778888999999999999999999987 3334 455677788888888   99999999999999988


Q ss_pred             CCChhHHHHHH
Q 038303          411 GVSVGTFALMS  421 (461)
Q Consensus       411 ~~~~~~~~~l~  421 (461)
                      |.+...|..+.
T Consensus       159 p~~~~~~~~l~  169 (568)
T 2vsy_A          159 VGAVEPFAFLS  169 (568)
T ss_dssp             CCCSCHHHHTT
T ss_pred             CcccChHHHhC
Confidence            88887777666

>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=98.93  E-value=1.1e-08  Score=81.79  Aligned_cols=158  Identities=7%  Similarity=-0.048  Sum_probs=90.1

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHH-Hh
Q 038303          281 STVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDM-YG  359 (461)
Q Consensus       281 ~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~  359 (461)
                      ..+...+.+.|++++|...+++..+... -+...+..+...+...|++++|+..++.....   .|+...+..+... +.
T Consensus        10 ~~~a~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~---~p~~~~~~~~~~~~~~   85 (176)
T 2r5s_A           10 LKQVSELLQQGEHAQALNVIQTLSDELQ-SRGDVKLAKADCLLETKQFELAQELLATIPLE---YQDNSYKSLIAKLELH   85 (176)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHTSCHHHH-TSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG---GCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc---cCChHHHHHHHHHHHH
Confidence            3344455555666666666655544311 13345555555566666666666666555441   1222222111111 11


Q ss_pred             hcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCC--hhHHHHHHHHHhccCChhhHHH
Q 038303          360 RAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVS--VGTFALMSNTFAGADRWEDTNK  435 (461)
Q Consensus       360 ~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~  435 (461)
                      ..+...+|...+++. ...| +...+..+...+...|++++|+..++++.+..|..  ...+..++.++...|+.++|..
T Consensus        86 ~~~~~~~a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~  165 (176)
T 2r5s_A           86 QQAAESPELKRLEQELAANPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIAS  165 (176)
T ss_dssp             HHHTSCHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHH
T ss_pred             hhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHH
Confidence            112223455666655 3334 35566666777778888888888888888776543  5578888888888888888888


Q ss_pred             HHHHHHH
Q 038303          436 IRDEIRR  442 (461)
Q Consensus       436 ~~~~m~~  442 (461)
                      .+++...
T Consensus       166 ~y~~al~  172 (176)
T 2r5s_A          166 KYRRQLY  172 (176)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            8877643

>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=98.90  E-value=1.5e-07  Score=92.37  Aligned_cols=169  Identities=13%  Similarity=-0.027  Sum_probs=112.0

Q ss_pred             hccchhhhHHHHHHHHH--------hhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccC---CChhhHHHHHHHHHh
Q 038303          221 SSISALSFGKYVHSYIS--------TRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAY---KDKISWSTVISGLAM  289 (461)
Q Consensus       221 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~  289 (461)
                      ...|++++|...++...        +  ..+.+...+..+...|...|++++|.+.|++..+   .+...|..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~--~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGV--DFSESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC---------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccc--ccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHH
Confidence            56677777777777665        2  2233455667777777778888888887777663   355677777777778


Q ss_pred             cCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHH
Q 038303          290 NGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEA  369 (461)
Q Consensus       290 ~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  369 (461)
                      .|++++|.+.|++..+.... +...+..+..++...|++++ +..|++..+  --+.+...|..+..++.+.|++++|.+
T Consensus       480 ~g~~~~A~~~~~~al~l~P~-~~~~~~~lg~~~~~~g~~~~-~~~~~~al~--~~P~~~~a~~~lg~~~~~~g~~~~A~~  555 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTFPG-ELAPKLALAATAELAGNTDE-HKFYQTVWS--TNDGVISAAFGLARARSAEGDRVGAVR  555 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHHTCCCT-TCHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCChHH-HHHHHHHHH--hCCchHHHHHHHHHHHHHcCCHHHHHH
Confidence            88888888888887774321 34667777777777888888 777777766  223345667777777888888888888


Q ss_pred             HHHhC-CCCch-hhHHHHHHHHHHhcCC
Q 038303          370 FIREM-PIEAE-WSVWGALLNACRIHRN  395 (461)
Q Consensus       370 ~~~~~-~~~p~-~~~~~~l~~~~~~~~~  395 (461)
                      .|++. ...|+ ...+..+..++...++
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            88877 45554 3345555555544333

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.90  E-value=7e-08  Score=79.50  Aligned_cols=157  Identities=9%  Similarity=-0.030  Sum_probs=104.9

Q ss_pred             HHHHhcCCHHHHHHHHHHccCC---ChhhHHH----------------HHHHHHhcCChHHHHHHHHHHHhcCCCCCHhH
Q 038303          254 NMYVKCGDVGIAIQVFNMLAYK---DKISWST----------------VISGLAMNGCGRQALQLFSLMIINAVFPDDVT  314 (461)
Q Consensus       254 ~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~----------------l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~  314 (461)
                      ..+...|++++|...|++..+.   +...|..                +..++.+.|++++|+..|++..+.... +...
T Consensus        12 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~   90 (208)
T 3urz_A           12 SAAIEAGQNGQAVSYFRQTIALNIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKAPN-NVDC   90 (208)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCC-CHHH
Confidence            3344555666666555555422   2223333                778888899999999999998885322 5577


Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCC--HHHHHHHHHhC-CCCchhhHHHHHHHHHH
Q 038303          315 FIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGL--LEEAEAFIREM-PIEAEWSVWGALLNACR  391 (461)
Q Consensus       315 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~--~~~A~~~~~~~-~~~p~~~~~~~l~~~~~  391 (461)
                      +..+...+...|++++|+..|++..+  --+.+...+..+...|...|+  .+.+...++.. ...|....+.....++.
T Consensus        91 ~~~lg~~~~~~g~~~~A~~~~~~al~--~~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~g~~~~  168 (208)
T 3urz_A           91 LEACAEMQVCRGQEKDALRMYEKILQ--LEADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSSPTKMQYARYRDGLSKL  168 (208)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH--cCCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhCCCchhHHHHHHHHHHH
Confidence            88888888899999999999998887  233456777778777765543  34556666665 22233333444445566


Q ss_pred             hcCChHHHHHHHHHHhhcCCCC
Q 038303          392 IHRNDEMFDRIRQDLVNKKGVS  413 (461)
Q Consensus       392 ~~~~~~~a~~~~~~~~~~~~~~  413 (461)
                      ..|++++|+..|+++++..|.+
T Consensus       169 ~~~~~~~A~~~~~~al~l~P~~  190 (208)
T 3urz_A          169 FTTRYEKARNSLQKVILRFPST  190 (208)
T ss_dssp             HHHTHHHHHHHHHHHTTTSCCH
T ss_pred             HccCHHHHHHHHHHHHHhCCCH
Confidence            7888999999999999887753

>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=98.89  E-value=1.6e-08  Score=88.94  Aligned_cols=196  Identities=8%  Similarity=-0.091  Sum_probs=146.7

Q ss_pred             ccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHh-cCCHHHHHHHHHHccCCChhhHHHHHHHHHhcCChHHHHHHH
Q 038303          222 SISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVK-CGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLF  300 (461)
Q Consensus       222 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~-~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  300 (461)
                      ..|++++|..++++..+...  .+          +.+ .++++.|...|+..           ...|...|++++|...+
T Consensus         3 ~~~~~~eA~~~~~~a~k~~~--~~----------~~~~~~~~~~A~~~~~~a-----------~~~~~~~g~~~~A~~~~   59 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYLK--TS----------FMKWKPDYDSAASEYAKA-----------AVAFKNAKQLEQAKDAY   59 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHHC--CC----------SSSCSCCHHHHHHHHHHH-----------HHHHHHTTCHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHcc--cc----------ccCCCCCHHHHHHHHHHH-----------HHHHHHcCCHHHHHHHH
Confidence            35788889999888876222  11          112 57888888887654           56788899999999999


Q ss_pred             HHHHhcCC----CC-CHhHHHHHHHHHHcCCChHHHHHHHHHhHhhc---CCCC-CcchHHHHHHHHhhcCCHHHHHHHH
Q 038303          301 SLMIINAV----FP-DDVTFIALISACSHGGLVDQGLILFKAMSTVY---EIVP-QMQHYACVVDMYGRAGLLEEAEAFI  371 (461)
Q Consensus       301 ~~m~~~g~----~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~  371 (461)
                      .+..+...    .+ -..+|..+...|...|++++|+..|++.....   |-.. ...++..+...|.. |++++|+..+
T Consensus        60 ~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~  138 (307)
T 2ifu_A           60 LQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLY  138 (307)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHH
Confidence            98765321    11 13578888889999999999999999876521   1111 14577788889988 9999999999


Q ss_pred             HhC-CCCc-------hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCC------hhHHHHHHHHHhccCChhhHHHHH
Q 038303          372 REM-PIEA-------EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVS------VGTFALMSNTFAGADRWEDTNKIR  437 (461)
Q Consensus       372 ~~~-~~~p-------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~------~~~~~~l~~~~~~~g~~~~A~~~~  437 (461)
                      ++. ...|       ...++..+...+...|++++|+..++++.+..+.+      ...+..++.++...|++++|...+
T Consensus       139 ~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~  218 (307)
T 2ifu_A          139 QQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCV  218 (307)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            987 2111       13467778888999999999999999999854322      236777888888999999999999


Q ss_pred             HHHH
Q 038303          438 DEIR  441 (461)
Q Consensus       438 ~~m~  441 (461)
                      ++..
T Consensus       219 ~~al  222 (307)
T 2ifu_A          219 RESY  222 (307)
T ss_dssp             HHHT
T ss_pred             HHHh
Confidence            9987

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.88  E-value=2.2e-08  Score=82.50  Aligned_cols=180  Identities=11%  Similarity=-0.022  Sum_probs=116.9

Q ss_pred             HHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCceeHHHHHHHHHcCCChH
Q 038303           14 TQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWTTIISGLSKCGFHK   93 (461)
Q Consensus        14 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~   93 (461)
                      -.....+...|++++|...|+...+..+. +...|..     ........          ......+.+..++.+.|+++
T Consensus         8 ~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~-----~~~~~~~~----------~~~~~~~~lg~~~~~~g~~~   71 (208)
T 3urz_A            8 LQKVSAAIEAGQNGQAVSYFRQTIALNID-RTEMYYW-----TNVDKNSE----------ISSKLATELALAYKKNRNYD   71 (208)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCHH-HHHHHHH-----HHSCTTSH----------HHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCCC-ChHHHHH-----hhhcchhh----------hhHHHHHHHHHHHHHCCCHH
Confidence            33445567788888888888888875421 2222221     00010000          01112344677778888888


Q ss_pred             HHHHHHhcC-CCCC-CchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCC--hhhHHHHHhcC
Q 038303           94 EAIDMFCGI-DVKP-NANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGS--LASCGYLFVKM  169 (461)
Q Consensus        94 ~a~~~~~~m-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~--~~~a~~~~~~~  169 (461)
                      +|+..|++. ...| +...+..+...+...|++++|...|++.++..+. +...+..+...|...|+  .+.+...++..
T Consensus        72 ~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~  150 (208)
T 3urz_A           72 KAYLFYKELLQKAPNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEAD-NLAANIFLGNYYYLTAEQEKKKLETDYKKL  150 (208)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            888888877 5556 4566777777888888888888888888887655 67777778877765543  45667777777


Q ss_pred             CCCchh--HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhH
Q 038303          170 PKRNVV--SWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATL  213 (461)
Q Consensus       170 ~~~~~~--~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~  213 (461)
                      ..++..  .+..+..++...|++++|...|++..+   ..|+....
T Consensus       151 ~~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~---l~P~~~~~  193 (208)
T 3urz_A          151 SSPTKMQYARYRDGLSKLFTTRYEKARNSLQKVIL---RFPSTEAQ  193 (208)
T ss_dssp             -CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTT---TSCCHHHH
T ss_pred             hCCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHH---hCCCHHHH
Confidence            765543  344456667778899999999999987   66775443

>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=98.87  E-value=4.1e-08  Score=94.50  Aligned_cols=147  Identities=9%  Similarity=-0.094  Sum_probs=88.6

Q ss_pred             cchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCC---ChhhHHHHHHHHHhcCChHHHHHH
Q 038303          223 ISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYK---DKISWSTVISGLAMNGCGRQALQL  299 (461)
Q Consensus       223 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~  299 (461)
                      .|++++|...+++..+  ..+.+...+..+...|.+.|++++|.+.|++..+.   +...|..+...+...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~--~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVR--HRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             ---------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            3566777777777655  22233556677777777777777777777776532   455677777777777777777777


Q ss_pred             HHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhc---CCHHHHHHHHHhC
Q 038303          300 FSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRA---GLLEEAEAFIREM  374 (461)
Q Consensus       300 ~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~~~A~~~~~~~  374 (461)
                      +++..+... .+...+..+..++...|++++|.+.+++..+.  .+.+...+..+...+...   |+.++|.+.+++.
T Consensus        80 ~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~a  154 (568)
T 2vsy_A           80 LQQASDAAP-EHPGIALWLGHALEDAGQAEAAAAAYTRAHQL--LPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAA  154 (568)
T ss_dssp             HHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHH
T ss_pred             HHHHHhcCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHH
Confidence            777776432 24566777777777777777777777777662  233456666777777777   7777777777766

>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=98.87  E-value=6.5e-08  Score=77.32  Aligned_cols=153  Identities=8%  Similarity=-0.062  Sum_probs=82.9

Q ss_pred             HHHHHHHHcCChhhHHHHHhcCCC---CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHH-hhcc
Q 038303          148 AILDFYIRCGSLASCGYLFVKMPK---RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSA-CSSI  223 (461)
Q Consensus       148 ~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~-~~~~  223 (461)
                      .+...+.+.|++++|...|++..+   .+...+..+...+...|++++|...+++....   .|+.......... +...
T Consensus        11 ~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~---~p~~~~~~~~~~~~~~~~   87 (176)
T 2r5s_A           11 KQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLE---YQDNSYKSLIAKLELHQQ   87 (176)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG---GCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc---cCChHHHHHHHHHHHHhh
Confidence            344455555666666666655553   23445555555566666666666666655442   2222221111111 1111


Q ss_pred             chhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCCC-----hhhHHHHHHHHHhcCChHHHHH
Q 038303          224 SALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKD-----KISWSTVISGLAMNGCGRQALQ  298 (461)
Q Consensus       224 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~  298 (461)
                      +....+...++...+  -.+.+...+..+...+...|++++|...|+++.+.+     ...+..+...+...|+.++|..
T Consensus        88 ~~~~~a~~~~~~al~--~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~  165 (176)
T 2r5s_A           88 AAESPELKRLEQELA--ANPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIAS  165 (176)
T ss_dssp             HTSCHHHHHHHHHHH--HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHH
T ss_pred             cccchHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHH
Confidence            122234555555544  122234556667777777777777777777765322     3366777777777777777777


Q ss_pred             HHHHHHh
Q 038303          299 LFSLMII  305 (461)
Q Consensus       299 ~~~~m~~  305 (461)
                      .|++...
T Consensus       166 ~y~~al~  172 (176)
T 2r5s_A          166 KYRRQLY  172 (176)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7776543

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.86  E-value=2e-07  Score=81.37  Aligned_cols=163  Identities=6%  Similarity=-0.047  Sum_probs=112.6

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH-----hHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCC----cc
Q 038303          279 SWSTVISGLAMNGCGRQALQLFSLMIINAVFPDD-----VTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQ----MQ  349 (461)
Q Consensus       279 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~-----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~  349 (461)
                      .+...+..+...|++++|.+.+.+..+.......     ..+..+...+...|++++|+..+++......-..+    ..
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            3445566777888888888888877664322111     12334455567788888888888877652111111    34


Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHhC-------CCCch--hhHHHHHHHHHHhcCChHHHHHHHHHHhhcCC------CCh
Q 038303          350 HYACVVDMYGRAGLLEEAEAFIREM-------PIEAE--WSVWGALLNACRIHRNDEMFDRIRQDLVNKKG------VSV  414 (461)
Q Consensus       350 ~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~------~~~  414 (461)
                      +++.+...|...|++++|...++++       +..+.  ..++..+...|...|++++|+..++++.+..+      .-.
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            7778888888889998888888776       11221  24677777888999999999999998876321      126


Q ss_pred             hHHHHHHHHHhccCChhhH-HHHHHHHH
Q 038303          415 GTFALMSNTFAGADRWEDT-NKIRDEIR  441 (461)
Q Consensus       415 ~~~~~l~~~~~~~g~~~~A-~~~~~~m~  441 (461)
                      .+|..++.+|.+.|++++| ...+++..
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            6888999999999999999 77677654

>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=98.86  E-value=7.9e-07  Score=77.55  Aligned_cols=161  Identities=6%  Similarity=-0.072  Sum_probs=117.8

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhcCC-CCCHh----HHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCC----cchHH
Q 038303          282 TVISGLAMNGCGRQALQLFSLMIINAV-FPDDV----TFIALISACSHGGLVDQGLILFKAMSTVYEIVPQ----MQHYA  352 (461)
Q Consensus       282 ~l~~~~~~~~~~~~a~~~~~~m~~~g~-~p~~~----~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~  352 (461)
                      ..+..+...|++++|..++++..+... .|+..    .+..+...+...+++++|+..++.......-.++    ..+++
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            346677888999999999988876422 22211    2334555667778999999999988772111222    23688


Q ss_pred             HHHHHHhhcCCHHHHHHHHHhCC-------C-Cch-hhHHHHHHHHHHhcCChHHHHHHHHHHhhcC------CCChhHH
Q 038303          353 CVVDMYGRAGLLEEAEAFIREMP-------I-EAE-WSVWGALLNACRIHRNDEMFDRIRQDLVNKK------GVSVGTF  417 (461)
Q Consensus       353 ~l~~~~~~~g~~~~A~~~~~~~~-------~-~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~  417 (461)
                      .+...|...|++++|...++++-       . .+. ..++..+...|.+.|++++|+..++++.+..      +.-..+|
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~  239 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLY  239 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHH
Confidence            88889999999999999888771       1 122 2267778888999999999999999988732      1226789


Q ss_pred             HHHHHHHhccCC-hhhHHHHHHHHHH
Q 038303          418 ALMSNTFAGADR-WEDTNKIRDEIRR  442 (461)
Q Consensus       418 ~~l~~~~~~~g~-~~~A~~~~~~m~~  442 (461)
                      ..++.+|.+.|+ +++|.+.+++...
T Consensus       240 ~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          240 YQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            999999999995 6999999988754

>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=98.86  E-value=5.1e-09  Score=81.27  Aligned_cols=124  Identities=9%  Similarity=-0.009  Sum_probs=101.9

Q ss_pred             HHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCCh
Q 038303          319 ISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRND  396 (461)
Q Consensus       319 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~  396 (461)
                      ...+...|++++|+..++....  ..+-+...+..+...|.+.|++++|.+.|++. ...| +...|..+...+...|++
T Consensus         4 G~~~~~~~~~e~ai~~~~~a~~--~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~   81 (150)
T 4ga2_A            4 GSMRRSKADVERYIASVQGSTP--SPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQERDPKAHRFLGLLYELEENT   81 (150)
T ss_dssp             ---CCCHHHHHHHHHHHHHHSC--SHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcChHHHHHHHHHHhcc--cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCch
Confidence            3445567889999999988765  22234566778899999999999999999998 4444 566788888889999999


Q ss_pred             HHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHH-HHHHHHcC
Q 038303          397 EMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKI-RDEIRRMG  444 (461)
Q Consensus       397 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~-~~~m~~~g  444 (461)
                      ++|+..|+++++..|.++.++..++.+|.+.|++++|.+. +++..+..
T Consensus        82 ~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~  130 (150)
T 4ga2_A           82 DKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF  130 (150)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC
Confidence            9999999999999999999999999999999999887765 57777643

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.86  E-value=2.8e-07  Score=76.87  Aligned_cols=184  Identities=13%  Similarity=0.061  Sum_probs=126.2

Q ss_pred             hhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCc-chHHHHHHHHHHhcCCHHHHHHHHHHccC--CCh-h---hHHH
Q 038303          210 EATLVNVLSACSSISALSFGKYVHSYISTRYDLSVS-NLVGNAVINMYVKCGDVGIAIQVFNMLAY--KDK-I---SWST  282 (461)
Q Consensus       210 ~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~--~~~-~---~~~~  282 (461)
                      ...+......+...|++++|...|+.+.+.....+. ...+..+..+|.+.|++++|...|+++.+  |+. .   .+..
T Consensus         4 ~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~   83 (225)
T 2yhc_A            4 PNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYM   83 (225)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHH
Confidence            345556677788999999999999999884333332 35678889999999999999999999873  322 1   3444


Q ss_pred             HHHHHHh------------------cCChHHHHHHHHHHHhcCCCCCHh-HHHHHHHHHHcCCChHHHHHHHHHhHhhcC
Q 038303          283 VISGLAM------------------NGCGRQALQLFSLMIINAVFPDDV-TFIALISACSHGGLVDQGLILFKAMSTVYE  343 (461)
Q Consensus       283 l~~~~~~------------------~~~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  343 (461)
                      +..++..                  .|++++|...|+++.+.  .|+.. .......          ...+...+..   
T Consensus        84 ~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~----------l~~~~~~~~~---  148 (225)
T 2yhc_A           84 RGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKR----------LVFLKDRLAK---  148 (225)
T ss_dssp             HHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHH----------HHHHHHHHHH---
T ss_pred             HHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHH----------HHHHHHHHHH---
Confidence            5555543                  57899999999999885  34442 2221111          0111111111   


Q ss_pred             CCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCch----hhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCh
Q 038303          344 IVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAE----WSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSV  414 (461)
Q Consensus       344 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  414 (461)
                            ....+...|.+.|++++|...|+++ ...|+    ...+..+..++.+.|+.++|+..++.+....|.+.
T Consensus       149 ------~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~~~  218 (225)
T 2yhc_A          149 ------YEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSNTL  218 (225)
T ss_dssp             ------HHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSCCC
T ss_pred             ------HHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCch
Confidence                  1234567788899999999999887 33333    24567777889999999999999998887766553

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.85  E-value=1.2e-07  Score=82.31  Aligned_cols=154  Identities=8%  Similarity=-0.070  Sum_probs=72.2

Q ss_pred             HHHHHHHHHHcCChhhHHHHHhcCCC---CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHH-HHHhh
Q 038303          146 DNAILDFYIRCGSLASCGYLFVKMPK---RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNV-LSACS  221 (461)
Q Consensus       146 ~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~-l~~~~  221 (461)
                      +..+...+.+.|++++|...|++..+   .+...+..+...+...|++++|...+++...   ..|+....... ...+.
T Consensus       120 ~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~---~~p~~~~~~~~~~~~l~  196 (287)
T 3qou_A          120 XAQQAMQLMQESNYTDALPLLXDAWQLSNQNGEIGLLLAETLIALNRSEDAEAVLXTIPL---QDQDTRYQGLVAQIELL  196 (287)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCG---GGCSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHhCCcchhHHHHHHHHHHHCCCHHHHHHHHHhCch---hhcchHHHHHHHHHHHH
Confidence            33444444444444444444444432   2333444444444444444444444444433   22222211111 11133


Q ss_pred             ccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccC--CC---hhhHHHHHHHHHhcCChHHH
Q 038303          222 SISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAY--KD---KISWSTVISGLAMNGCGRQA  296 (461)
Q Consensus       222 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~--~~---~~~~~~l~~~~~~~~~~~~a  296 (461)
                      ..++.+.+...++....  ..+.+...+..+...|...|++++|...|.++.+  |+   ...+..++..+...|+.++|
T Consensus       197 ~~~~~~~a~~~l~~al~--~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~a  274 (287)
T 3qou_A          197 XQAADTPEIQQLQQQVA--ENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGDAL  274 (287)
T ss_dssp             HHHTSCHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTCHH
T ss_pred             hhcccCccHHHHHHHHh--cCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCCcH
Confidence            33444444444444433  1222344455566666666666666666665552  21   34566666666666666666


Q ss_pred             HHHHHHHH
Q 038303          297 LQLFSLMI  304 (461)
Q Consensus       297 ~~~~~~m~  304 (461)
                      ...+++..
T Consensus       275 ~~~~r~al  282 (287)
T 3qou_A          275 ASXYRRQL  282 (287)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            66665543

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.84  E-value=4.4e-06  Score=72.36  Aligned_cols=159  Identities=9%  Similarity=0.012  Sum_probs=82.0

Q ss_pred             CCHHHHHHHHHHccC---CChhhHHHHHHHHHhcCChH--HHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCC------h
Q 038303          260 GDVGIAIQVFNMLAY---KDKISWSTVISGLAMNGCGR--QALQLFSLMIINAVFPDDVTFIALISACSHGGL------V  328 (461)
Q Consensus       260 g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~--~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~------~  328 (461)
                      +++++++.+++.+.+   .|...|+.-.-.+.+.|.++  ++++.++++.+..+. |...|+.-...+.+.+.      +
T Consensus       124 ~~~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~~~~  202 (306)
T 3dra_A          124 FDPYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATDNTI  202 (306)
T ss_dssp             CCTHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccchhhhH
Confidence            556666666666553   24445555555555566665  666666666665433 45555555545555444      5


Q ss_pred             HHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHH-HHHHHHhC-CC----CchhhHHHHHHHHHHhcCChHHHHHH
Q 038303          329 DQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEE-AEAFIREM-PI----EAEWSVWGALLNACRIHRNDEMFDRI  402 (461)
Q Consensus       329 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-A~~~~~~~-~~----~p~~~~~~~l~~~~~~~~~~~~a~~~  402 (461)
                      +++++.++.+..  -.+-|...|+.+...+.+.|+..+ +..+..+. ..    ..+...+..+...+.+.|+.++|.++
T Consensus       203 ~eEl~~~~~aI~--~~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~  280 (306)
T 3dra_A          203 DEELNYVKDKIV--KCPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTV  280 (306)
T ss_dssp             HHHHHHHHHHHH--HCSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHH--hCCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHH
Confidence            556666655554  233445555555555555555333 33344443 11    12333444455555555555555555


Q ss_pred             HHHHhh-cCCCChhHHHHHH
Q 038303          403 RQDLVN-KKGVSVGTFALMS  421 (461)
Q Consensus       403 ~~~~~~-~~~~~~~~~~~l~  421 (461)
                      ++.+.+ .+|.....|...+
T Consensus       281 ~~~l~~~~Dpir~~yW~~~~  300 (306)
T 3dra_A          281 YDLLKSKYNPIRSNFWDYQI  300 (306)
T ss_dssp             HHHHHHTTCGGGHHHHHHHH
T ss_pred             HHHHHhccChHHHHHHHHHH
Confidence            555554 3455444444433

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.83  E-value=4.5e-07  Score=84.90  Aligned_cols=369  Identities=9%  Similarity=-0.072  Sum_probs=212.2

Q ss_pred             hhC-CHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCC--CCceeHHHHHHHHHcCCC-hHHHHH
Q 038303           22 LAH-PHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVF--PDVVSWTTIISGLSKCGF-HKEAID   97 (461)
Q Consensus        22 ~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~li~~~~~~~~-~~~a~~   97 (461)
                      +.| ++..|..+|+.+.+.=  |.              |+++.+..+|++...  |++..|...+.-..+.+. .+....
T Consensus         6 ~~~~~i~~aR~vyer~l~~~--P~--------------~~~e~~~~iferal~~~ps~~LW~~Y~~f~~~~~~~~~~i~~   69 (493)
T 2uy1_A            6 KMGVELSSPSAIMEHARRLY--MS--------------KDYRSLESLFGRCLKKSYNLDLWMLYIEYVRKVSQKKFKLYE   69 (493)
T ss_dssp             ------CCHHHHHHHHHHHH--HT--------------TCHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHC----CTHH
T ss_pred             HcCcchHHHHHHHHHHHHHC--CC--------------CCHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCchHHHHHH
Confidence            345 3777777777776632  22              899999999998843  788888888876666553 345556


Q ss_pred             HHhcC----CCCC-CchhHHHHHHHhc----ccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhc
Q 038303           98 MFCGI----DVKP-NANTLVSVLSACS----SLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVK  168 (461)
Q Consensus        98 ~~~~m----~~~p-~~~~~~~ll~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  168 (461)
                      +|+..    |..| +...|...+..+.    ..++.+.+.++|++.+......-...|...... .+......+..++.+
T Consensus        70 ~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~P~~~~~~lw~~Y~~f-E~~~~~~~~~~~~~~  148 (493)
T 2uy1_A           70 VYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQTPMGSLSELWKDFENF-ELELNKITGKKIVGD  148 (493)
T ss_dssp             HHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHTSCCTTHHHHHHHHHHH-HHHHCHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHhChhhhHHHHHHHHHHH-HHHhccccHHHHHHH
Confidence            66655    5444 5566666666554    357888999999999874211111222222211 111112222222211


Q ss_pred             CCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC-CChhhHHHHHHHhhcc-------chhhhHHHHHHHHHhhc
Q 038303          169 MPKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAE-PNEATLVNVLSACSSI-------SALSFGKYVHSYISTRY  240 (461)
Q Consensus       169 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~-~~~~~~~~~l~~~~~~-------~~~~~a~~~~~~~~~~~  240 (461)
                                     .  .+.+..|..+++++...  .+ .+...|...+.--...       +..+.+..+|+.+..  
T Consensus       149 ---------------~--~~~y~~ar~~y~~~~~~--~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~--  207 (493)
T 2uy1_A          149 ---------------T--LPIFQSSFQRYQQIQPL--IRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILD--  207 (493)
T ss_dssp             ---------------H--HHHHHHHHHHHHHHHHH--HHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHH--
T ss_pred             ---------------H--hHHHHHHHHHHHHHHHH--HhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHH--
Confidence                           1  12234444444444331  11 1222333333322111       113456678888777  


Q ss_pred             CCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccC-CCh-hhHHHHHHHHHhcCChHHHHHHHHHHHhcC---------CC
Q 038303          241 DLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAY-KDK-ISWSTVISGLAMNGCGRQALQLFSLMIINA---------VF  309 (461)
Q Consensus       241 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-~~~-~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g---------~~  309 (461)
                      ..+.+..+|...+..+.+.|+.++|..++++... |+. ..|.    .|+...+.++.   ++.+.+.-         ..
T Consensus       208 ~~p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~P~~~~l~~----~y~~~~e~~~~---~~~l~~~~~~~~~~~~~~~  280 (493)
T 2uy1_A          208 SFYYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEMSDGMFLSL----YYGLVMDEEAV---YGDLKRKYSMGEAESAEKV  280 (493)
T ss_dssp             HTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHH----HHHHHTTCTHH---HHHHHHHTC----------
T ss_pred             cCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCcHHHHH----HHHhhcchhHH---HHHHHHHHHhhccchhhhh
Confidence            3445567788888888899999999999987653 322 1222    22222222222   22222210         01


Q ss_pred             C---CHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhc-CCHHHHHHHHHhC-CCCch-hhHH
Q 038303          310 P---DDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRA-GLLEEAEAFIREM-PIEAE-WSVW  383 (461)
Q Consensus       310 p---~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~-~~~p~-~~~~  383 (461)
                      +   ....|...+....+.++.+.|..+|+.. ...+  .+...|...+..-... ++.+.|..+|+.. ..-|+ +..+
T Consensus       281 ~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~~--~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~~~~~~~~  357 (493)
T 2uy1_A          281 FSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNEG--VGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKHPDSTLLK  357 (493)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTSC--CCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHCTTCHHHH
T ss_pred             cccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCCC--CChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCCCCHHHH
Confidence            1   1244666666666778899999999998 4122  2334443322222223 3699999999987 11122 3345


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHH
Q 038303          384 GALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRR  442 (461)
Q Consensus       384 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  442 (461)
                      ...+.-..+.|+.+.|..+|+++.    .....|...+..-...|+.+.+..++++...
T Consensus       358 ~~yid~e~~~~~~~~aR~l~er~~----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          358 EEFFLFLLRIGDEENARALFKRLE----KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHSC----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHH----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            556666778899999999999973    3577888888888888999999999988864

>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=98.83  E-value=6e-08  Score=80.18  Aligned_cols=129  Identities=11%  Similarity=-0.130  Sum_probs=103.9

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHH
Q 038303          279 SWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMY  358 (461)
Q Consensus       279 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  358 (461)
                      .+..+...+...|++++|...+++.    +.|+...+..+..++...|++++|+..|++....  .+.+...+..+..+|
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~lg~~~   81 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINR--DKHLAVAYFQRGMLY   81 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHH----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHH
Confidence            4556677888899999999999877    3567888888999999999999999999988872  345677888889999


Q ss_pred             hhcCCHHHHHHHHHhC-CCCc-----------------hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCC
Q 038303          359 GRAGLLEEAEAFIREM-PIEA-----------------EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVS  413 (461)
Q Consensus       359 ~~~g~~~~A~~~~~~~-~~~p-----------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  413 (461)
                      ...|++++|...|++. ...|                 ....+..+..++...|++++|...++++.+..|.+
T Consensus        82 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~  154 (213)
T 1hh8_A           82 YQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  154 (213)
T ss_dssp             HHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             HHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCccc
Confidence            9999999999999887 2222                 22567777777889999999999999998877765

>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=98.83  E-value=2.8e-07  Score=76.08  Aligned_cols=129  Identities=11%  Similarity=-0.058  Sum_probs=109.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHccCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCCh
Q 038303          249 GNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLV  328 (461)
Q Consensus       249 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~  328 (461)
                      +..+...+...|++++|...|++...++...|..+...+...|++++|+..+++..+.. +.+...+..+..++...|++
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            35667778899999999999999988888999999999999999999999999998864 23567888899999999999


Q ss_pred             HHHHHHHHHhHhhcCCCCCc----------------chHHHHHHHHhhcCCHHHHHHHHHhC-CCCchh
Q 038303          329 DQGLILFKAMSTVYEIVPQM----------------QHYACVVDMYGRAGLLEEAEAFIREM-PIEAEW  380 (461)
Q Consensus       329 ~~a~~~~~~~~~~~~~~~~~----------------~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~  380 (461)
                      ++|...|+...+.  .+.+.                ..+..+..+|.+.|++++|...|++. ...|+.
T Consensus        88 ~~A~~~~~~al~~--~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~  154 (213)
T 1hh8_A           88 DLAIKDLKEALIQ--LRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  154 (213)
T ss_dssp             HHHHHHHHHHHHT--TTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             HHHHHHHHHHHHh--CCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCccc
Confidence            9999999998872  22222                67888999999999999999999998 555654

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.83  E-value=1.9e-06  Score=74.69  Aligned_cols=191  Identities=8%  Similarity=0.084  Sum_probs=142.9

Q ss_pred             HHHHHHHHHhcC--CHHHHHHHHHHccCC---ChhhHHHHHHHH----Hhc---CChHHHHHHHHHHHhcCCCCCHhHHH
Q 038303          249 GNAVINMYVKCG--DVGIAIQVFNMLAYK---DKISWSTVISGL----AMN---GCGRQALQLFSLMIINAVFPDDVTFI  316 (461)
Q Consensus       249 ~~~li~~~~~~g--~~~~a~~~~~~~~~~---~~~~~~~l~~~~----~~~---~~~~~a~~~~~~m~~~g~~p~~~~~~  316 (461)
                      ++.--..+...|  ++++++++++.+...   +...|+.-...+    ...   +++++++++++++.+...+ +..+++
T Consensus        70 Wn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk~y~aW~~R~~iL~~~~~~l~~~~~~~~EL~~~~~~l~~~pk-ny~aW~  148 (306)
T 3dra_A           70 WIYRFNILKNLPNRNLYDELDWCEEIALDNEKNYQIWNYRQLIIGQIMELNNNDFDPYREFDILEAMLSSDPK-NHHVWS  148 (306)
T ss_dssp             HHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHTTTCCCTHHHHHHHHHHHHHCTT-CHHHHH
T ss_pred             HHHHHHHHHHcccccHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHhCCC-CHHHHH
Confidence            344444445555  788888888777632   445555544444    444   7899999999999986544 668888


Q ss_pred             HHHHHHHcCCChH--HHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCC------HHHHHHHHHhC--CCCchhhHHHHH
Q 038303          317 ALISACSHGGLVD--QGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGL------LEEAEAFIREM--PIEAEWSVWGAL  386 (461)
Q Consensus       317 ~ll~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~------~~~A~~~~~~~--~~~p~~~~~~~l  386 (461)
                      .-...+.+.|.++  +++++++++.+  .-+-|-..|+.-...+.+.|+      ++++++.++++  ...-|...|+..
T Consensus       149 ~R~~vl~~l~~~~~~~EL~~~~~~i~--~d~~N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~p~n~SaW~y~  226 (306)
T 3dra_A          149 YRKWLVDTFDLHNDAKELSFVDKVID--TDLKNNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKCPQNPSTWNYL  226 (306)
T ss_dssp             HHHHHHHHTTCTTCHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHCSSCHHHHHHH
T ss_pred             HHHHHHHHhcccChHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHhCCCCccHHHHH
Confidence            7777788888888  99999999988  334566667666666666666      88999998887  333467778888


Q ss_pred             HHHHHhcCCh-HHHHHHHHHHhhcC---CCChhHHHHHHHHHhccCChhhHHHHHHHHHH
Q 038303          387 LNACRIHRND-EMFDRIRQDLVNKK---GVSVGTFALMSNTFAGADRWEDTNKIRDEIRR  442 (461)
Q Consensus       387 ~~~~~~~~~~-~~a~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  442 (461)
                      ...+.+.|+. +.+..+.+++.+..   +.++.++..++.+|.+.|+.++|.++++.+.+
T Consensus       227 ~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~~  286 (306)
T 3dra_A          227 LGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLKS  286 (306)
T ss_dssp             HHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Confidence            7778777774 44667888777654   78899999999999999999999999999865

>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=2.8e-08  Score=76.70  Aligned_cols=97  Identities=10%  Similarity=-0.028  Sum_probs=77.1

Q ss_pred             cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHh
Q 038303          348 MQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFA  425 (461)
Q Consensus       348 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  425 (461)
                      ...+..+...+.+.|++++|...|++. ...| +...|..+..++...|++++|+..|+++.+..|.++.+|..++.+|.
T Consensus        36 ~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~lg~~~~  115 (151)
T 3gyz_A           36 MDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFHTGQCQL  115 (151)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHH
Confidence            456666777788888888888888877 3334 45567777777888888888888888888888888888888888888


Q ss_pred             ccCChhhHHHHHHHHHHcC
Q 038303          426 GADRWEDTNKIRDEIRRMG  444 (461)
Q Consensus       426 ~~g~~~~A~~~~~~m~~~g  444 (461)
                      +.|++++|...|++..+..
T Consensus       116 ~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          116 RLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             HTTCHHHHHHHHHHHHHHC
T ss_pred             HcCCHHHHHHHHHHHHHhC
Confidence            8888888888888887754

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.79  E-value=7.8e-08  Score=71.91  Aligned_cols=108  Identities=6%  Similarity=-0.120  Sum_probs=60.9

Q ss_pred             HHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHH
Q 038303          314 TFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACR  391 (461)
Q Consensus       314 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~  391 (461)
                      .+......|.+.|++++|+..|++..+  -.+.+...|..+..+|.+.|++++|+..+++. ...| +...|..+..++.
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~   92 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVK--RDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAACLV   92 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHHHH
Confidence            444455556666666666666666554  12334555555666666666666666666555 2222 3344555555566


Q ss_pred             hcCChHHHHHHHHHHhhcCCCChhHHHHHHHH
Q 038303          392 IHRNDEMFDRIRQDLVNKKGVSVGTFALMSNT  423 (461)
Q Consensus       392 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  423 (461)
                      ..|++++|++.|+++++..|.+..++..+..+
T Consensus        93 ~~~~~~~A~~~~~~al~l~P~~~~a~~~l~~~  124 (126)
T 4gco_A           93 AMREWSKAQRAYEDALQVDPSNEEAREGVRNC  124 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHCcCCHHHHHHHHHh
Confidence            66666666666666666666666655555443

>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=98.79  E-value=1.3e-07  Score=74.53  Aligned_cols=128  Identities=7%  Similarity=-0.097  Sum_probs=92.0

Q ss_pred             hHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHH
Q 038303          313 VTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNAC  390 (461)
Q Consensus       313 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~  390 (461)
                      ..+..+...+...|++++|...|+....  ..+.+...+..+...+...|++++|...+++. ...| +...+..+...+
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~--~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~   91 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIE--LNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASN   91 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHH--hCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            3455556666777777777777777766  22345666777777777778888888777776 2223 445667777778


Q ss_pred             HhcCChHHHHHHHHHHhhcCCCChhHHHHHHHH--HhccCChhhHHHHHHHHHH
Q 038303          391 RIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNT--FAGADRWEDTNKIRDEIRR  442 (461)
Q Consensus       391 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~A~~~~~~m~~  442 (461)
                      ...|++++|...++++.+..|.+...+..+..+  +.+.|++++|...+++...
T Consensus        92 ~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           92 MALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            888899999999999888888887777554444  7788999999998887644

>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=98.79  E-value=3.4e-07  Score=75.54  Aligned_cols=156  Identities=10%  Similarity=-0.078  Sum_probs=78.9

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccc----hhhhHHHHHHHHHhhcCCCCcchHH
Q 038303          174 VVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSIS----ALSFGKYVHSYISTRYDLSVSNLVG  249 (461)
Q Consensus       174 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~  249 (461)
                      ..++..+...|...+++++|..+|++..+.|    +...+..+-..+.. +    +.++|...++...+ .+   +...+
T Consensus        18 ~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g----~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~-~g---~~~a~   88 (212)
T 3rjv_A           18 RRAQYYLADTWVSSGDYQKAEYWAQKAAAQG----DGDALALLAQLKIR-NPQQADYPQARQLAEKAVE-AG---SKSGE   88 (212)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT----CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHH-TT---CHHHH
T ss_pred             HHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC----CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHH-CC---CHHHH
Confidence            3344444444444455555555555544432    22233333333333 2    34444444444433 11   23334


Q ss_pred             HHHHHHHHh----cCCHHHHHHHHHHccCCC-----hhhHHHHHHHHHh----cCChHHHHHHHHHHHhcCCCCCHhHHH
Q 038303          250 NAVINMYVK----CGDVGIAIQVFNMLAYKD-----KISWSTVISGLAM----NGCGRQALQLFSLMIINAVFPDDVTFI  316 (461)
Q Consensus       250 ~~li~~~~~----~g~~~~a~~~~~~~~~~~-----~~~~~~l~~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~~~  316 (461)
                      ..|...|..    .+++++|..+|++..+.+     ...+..|...|..    .+++++|+..|++..+.  ..+...+.
T Consensus        89 ~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~--~~~~~a~~  166 (212)
T 3rjv_A           89 IVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL--SRTGYAEY  166 (212)
T ss_dssp             HHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT--SCTTHHHH
T ss_pred             HHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc--CCCHHHHH
Confidence            445555544    566666666666665432     3556666666666    56677777777776664  12334455


Q ss_pred             HHHHHHHcC-C-----ChHHHHHHHHHhHh
Q 038303          317 ALISACSHG-G-----LVDQGLILFKAMST  340 (461)
Q Consensus       317 ~ll~~~~~~-~-----~~~~a~~~~~~~~~  340 (461)
                      .|...|... |     ++++|...|+...+
T Consensus       167 ~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~  196 (212)
T 3rjv_A          167 WAGMMFQQGEKGFIEPNKQKALHWLNVSCL  196 (212)
T ss_dssp             HHHHHHHHCBTTTBCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCCCCCCCCHHHHHHHHHHHHH
Confidence            555555432 2     66777777766665

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.73  E-value=1.1e-06  Score=76.66  Aligned_cols=160  Identities=9%  Similarity=-0.083  Sum_probs=117.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHccC--C-Ch------hhHHHHHHHHHhcCChHHHHHHHHHHHhcCC---CCC--HhH
Q 038303          249 GNAVINMYVKCGDVGIAIQVFNMLAY--K-DK------ISWSTVISGLAMNGCGRQALQLFSLMIINAV---FPD--DVT  314 (461)
Q Consensus       249 ~~~li~~~~~~g~~~~a~~~~~~~~~--~-~~------~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~---~p~--~~~  314 (461)
                      +...+..+...|++++|.+.++...+  + ..      ..+..+...+...|++++|+..+++..+...   .+.  ..+
T Consensus        78 l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  157 (293)
T 2qfc_A           78 FKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYI  157 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHH
Confidence            34567778889999999998876542  1 11      2244456667788999999999999875321   122  347


Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCC-----cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCch-------hh
Q 038303          315 FIALISACSHGGLVDQGLILFKAMSTVYEIVPQ-----MQHYACVVDMYGRAGLLEEAEAFIREM-PIEAE-------WS  381 (461)
Q Consensus       315 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-------~~  381 (461)
                      ++.+...|...|++++|...|++..+.....|+     ..++..+...|.+.|++++|...+++. ...++       ..
T Consensus       158 ~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~  237 (293)
T 2qfc_A          158 ENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQ  237 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHH
Confidence            888888999999999999999988732111222     257888999999999999999999887 22122       45


Q ss_pred             HHHHHHHHHHhcCChHHH-HHHHHHHhh
Q 038303          382 VWGALLNACRIHRNDEMF-DRIRQDLVN  408 (461)
Q Consensus       382 ~~~~l~~~~~~~~~~~~a-~~~~~~~~~  408 (461)
                      ++..+...|...|++++| ...++++..
T Consensus       238 ~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          238 LYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            677788889999999999 787888765

>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=98.72  E-value=8.8e-08  Score=82.95  Aligned_cols=191  Identities=10%  Similarity=-0.100  Sum_probs=124.6

Q ss_pred             chHHHHHHHHHHhcCCHHHHHHHHHHcc--CC-ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHH
Q 038303          246 NLVGNAVINMYVKCGDVGIAIQVFNMLA--YK-DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISAC  322 (461)
Q Consensus       246 ~~~~~~li~~~~~~g~~~~a~~~~~~~~--~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~  322 (461)
                      ...+..+...+.+.|++++|...|++..  .| +...|..+..++.+.|++++|...+++..+... .+...+..+..++
T Consensus         4 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~   82 (281)
T 2c2l_A            4 AQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDG-QSVKAHFFLGQCQ   82 (281)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHH
Confidence            3455667777888888888888887765  23 567788888888888999999999888887532 2456777888888


Q ss_pred             HcCCChHHHHHHHHHhHhhcCCCCC-cchHHHHHHHHhhcCCHHHHHHHHHhCCCCchhhHHHHHHHHHHhcCChHHHHH
Q 038303          323 SHGGLVDQGLILFKAMSTVYEIVPQ-MQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDR  401 (461)
Q Consensus       323 ~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  401 (461)
                      ...|++++|...|+...+..   |+ ...+...+....+..+...... .......++......+ ..+ ..|+.++|.+
T Consensus        83 ~~~g~~~~A~~~~~~al~l~---p~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~i~~~l-~~l-~~~~~~~A~~  156 (281)
T 2c2l_A           83 LEMESYDEAIANLQRAYSLA---KEQRLNFGDDIPSALRIAKKKRWNS-IEERRIHQESELHSYL-TRL-IAAERERELE  156 (281)
T ss_dssp             HHTTCHHHHHHHHHHHHHHH---HHTTCCCCSHHHHHHHHHHHHHHHH-HHHTCCCCCCHHHHHH-HHH-HHHHHHHHHT
T ss_pred             HHcCCHHHHHHHHHHHHHhC---ccchhhHHHHHHHHHHHHHHHHHHH-HHHHHHhhhHHHHHHH-HHH-HHHHHHHHHH
Confidence            88999999999888876621   21 1111111221111111111111 1112222333322222 222 2688899999


Q ss_pred             HHHHHhhcCCCChhHHHHHHHHHhcc-CChhhHHHHHHHHHHc
Q 038303          402 IRQDLVNKKGVSVGTFALMSNTFAGA-DRWEDTNKIRDEIRRM  443 (461)
Q Consensus       402 ~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~m~~~  443 (461)
                      .++++.+..|.+......+...+.+. +.+++|.++|+++.+.
T Consensus       157 ~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          157 ECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             TTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            99999888888877777777777766 6788999999887553

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.71  E-value=1.5e-07  Score=70.35  Aligned_cols=97  Identities=6%  Similarity=0.001  Sum_probs=86.9

Q ss_pred             cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHh
Q 038303          348 MQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFA  425 (461)
Q Consensus       348 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  425 (461)
                      ...+......|.+.|++++|++.|++. ...| +...|..+..++...|++++|+..++++++..|.++.+|..++.+|.
T Consensus        13 a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~   92 (126)
T 4gco_A           13 AQEEKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAACLV   92 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHHHH
Confidence            356677888999999999999999998 3344 56678888888999999999999999999999999999999999999


Q ss_pred             ccCChhhHHHHHHHHHHcC
Q 038303          426 GADRWEDTNKIRDEIRRMG  444 (461)
Q Consensus       426 ~~g~~~~A~~~~~~m~~~g  444 (461)
                      ..|++++|.+.|++..+..
T Consensus        93 ~~~~~~~A~~~~~~al~l~  111 (126)
T 4gco_A           93 AMREWSKAQRAYEDALQVD  111 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHHC
T ss_pred             HCCCHHHHHHHHHHHHHHC
Confidence            9999999999999998754

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.71  E-value=2.5e-07  Score=68.71  Aligned_cols=113  Identities=12%  Similarity=0.090  Sum_probs=73.7

Q ss_pred             hHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CC-CchhhHHHHHHHHH
Q 038303          313 VTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PI-EAEWSVWGALLNAC  390 (461)
Q Consensus       313 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~  390 (461)
                      ..+..+...+...|++++|...++++...  .+.+...+..+...+.+.|++++|..+++++ .. +.+...+..+...+
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~   87 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHH
Confidence            45555666666677777777777666651  2334556666666777777777777777666 22 22444566666667


Q ss_pred             HhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhcc
Q 038303          391 RIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGA  427 (461)
Q Consensus       391 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  427 (461)
                      ...|++++|...++++.+..|.++..+..+..++.+.
T Consensus        88 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~  124 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQKQ  124 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhc
Confidence            7777788888888777777777777777776666543

>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=98.71  E-value=3.9e-08  Score=76.00  Aligned_cols=92  Identities=4%  Similarity=-0.119  Sum_probs=43.2

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccC
Q 038303          351 YACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGAD  428 (461)
Q Consensus       351 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  428 (461)
                      +..+...+.+.|++++|...|++. ...| +...|..+..++...|++++|+..++++.+..|.++.++..++.+|...|
T Consensus        24 ~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g  103 (148)
T 2vgx_A           24 LYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHAAECLLQXG  103 (148)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHcC
Confidence            333444444445555555444444 1122 23334444444445555555555555555544555555555555555555


Q ss_pred             ChhhHHHHHHHHHH
Q 038303          429 RWEDTNKIRDEIRR  442 (461)
Q Consensus       429 ~~~~A~~~~~~m~~  442 (461)
                      ++++|...+++..+
T Consensus       104 ~~~~A~~~~~~al~  117 (148)
T 2vgx_A          104 ELAEAESGLFLAQE  117 (148)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            55555555554443

>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=98.70  E-value=4e-06  Score=73.03  Aligned_cols=125  Identities=12%  Similarity=0.048  Sum_probs=61.9

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhcCCCCCChh----hHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCc----chHHH
Q 038303          179 TMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEA----TLVNVLSACSSISALSFGKYVHSYISTRYDLSVS----NLVGN  250 (461)
Q Consensus       179 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~----~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~  250 (461)
                      ..+..+...|++++|..++++..+.....|+..    .+..+...+...++++.|...++.+.+...-.++    ..+++
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            346677888888888888888876431222211    1222333444455556666655555541111111    11345


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHccC------CC----hhhHHHHHHHHHhcCChHHHHHHHHHH
Q 038303          251 AVINMYVKCGDVGIAIQVFNMLAY------KD----KISWSTVISGLAMNGCGRQALQLFSLM  303 (461)
Q Consensus       251 ~li~~~~~~g~~~~a~~~~~~~~~------~~----~~~~~~l~~~~~~~~~~~~a~~~~~~m  303 (461)
                      .+...|...|++++|...|+++.+      .+    ..+|..+...|.+.|++++|...+++.
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~a  222 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKA  222 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            555555555555555555544431      01    123444444444555555555444443

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.70  E-value=2.3e-07  Score=69.90  Aligned_cols=114  Identities=9%  Similarity=-0.026  Sum_probs=70.8

Q ss_pred             hHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHH
Q 038303          313 VTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNAC  390 (461)
Q Consensus       313 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~  390 (461)
                      ..+..+...+...|++++|...|++..+  ..+.+...+..+...+...|++++|...+++. ...| +...+..+...+
T Consensus        17 ~~~~~~~~~~~~~~~~~~A~~~~~~al~--~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~   94 (133)
T 2lni_A           17 LMVKNKGNECFQKGDYPQAMKHYTEAIK--RNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAAL   94 (133)
T ss_dssp             HHHHHHHHHHHHTTCSHHHHHHHHHHHT--TCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHH--cCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHHH
Confidence            4555556666666666666666666655  22234555666666666666666666666665 2222 344555566667


Q ss_pred             HhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccC
Q 038303          391 RIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGAD  428 (461)
Q Consensus       391 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  428 (461)
                      ...|++++|...++++.+..|.+...+..+..++.+.|
T Consensus        95 ~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           95 EAMKDYTKAMDVYQKALDLDSSCKEAADGYQRCMMAQY  132 (133)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCGGGTHHHHHHHHHHHHHT
T ss_pred             HHHhhHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhc
Confidence            77777777777777777766666667777666665544

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.70  E-value=2.1e-07  Score=69.76  Aligned_cols=117  Identities=5%  Similarity=-0.120  Sum_probs=84.0

Q ss_pred             HhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHH
Q 038303          312 DVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNA  389 (461)
Q Consensus       312 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~  389 (461)
                      ...+..+...+...|++++|...++.....  .+.+...+..+...+...|++++|...+++. ...| +...+..+...
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~   89 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIEL--NPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHH
Confidence            345556666677777777777777777652  2345566677777777777777777777776 2223 34566667777


Q ss_pred             HHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCCh
Q 038303          390 CRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRW  430 (461)
Q Consensus       390 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  430 (461)
                      +...|++++|...++++.+..|.+...+..++.++.+.|++
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhcC
Confidence            88888888888888888888888888888888888877765

>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=98.67  E-value=1.3e-07  Score=75.69  Aligned_cols=124  Identities=13%  Similarity=0.109  Sum_probs=72.9

Q ss_pred             HhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHH-HhhcCCH--
Q 038303          288 AMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDM-YGRAGLL--  364 (461)
Q Consensus       288 ~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~--  364 (461)
                      ...|++++|...+++..+... .+...+..+...|...|++++|...|++..+.  .+.+...+..+..+ +...|++  
T Consensus        21 ~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRANP-QNSEQWALLGEYYLWQNDYSNSLLAYRQALQL--RGENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             C-----CCCCHHHHHHHHHCC-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhccCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhcCCcch
Confidence            455677777777777666432 24466666666777777777777777776652  12344555556666 5566666  


Q ss_pred             HHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCh
Q 038303          365 EEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSV  414 (461)
Q Consensus       365 ~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  414 (461)
                      ++|...++++ ...| +...+..+...+...|++++|...++++.+..|.+.
T Consensus        98 ~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~  149 (177)
T 2e2e_A           98 AQTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNSPRI  149 (177)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTS
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCCc
Confidence            7777766665 2223 234455555566666777777777777666665554

>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=98.67  E-value=2.9e-08  Score=81.12  Aligned_cols=97  Identities=7%  Similarity=-0.119  Sum_probs=70.3

Q ss_pred             chHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhc
Q 038303          349 QHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAG  426 (461)
Q Consensus       349 ~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  426 (461)
                      ..+..+..+|.+.|++++|...+++. ...| +...+..+..++...|++++|+..|+++.+..|.+..++..+..++..
T Consensus        89 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~  168 (198)
T 2fbn_A           89 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVNK  168 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHH
Confidence            56677788888888888888888877 3333 455677777889999999999999999999999999999999999999


Q ss_pred             cCChhhHH-HHHHHHHHcCC
Q 038303          427 ADRWEDTN-KIRDEIRRMGL  445 (461)
Q Consensus       427 ~g~~~~A~-~~~~~m~~~g~  445 (461)
                      .|+.+++. ..+..|...|.
T Consensus       169 ~~~~~~~~~~~~~~~f~~~~  188 (198)
T 2fbn_A          169 LKEARKKDKLTFGGMFDKGP  188 (198)
T ss_dssp             HHHHHC--------------
T ss_pred             HHHHHHHHHHHHHHHhcccc
Confidence            99888887 66666655543

>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=98.65  E-value=2.3e-07  Score=82.52  Aligned_cols=94  Identities=6%  Similarity=-0.120  Sum_probs=76.1

Q ss_pred             cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHh
Q 038303          348 MQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFA  425 (461)
Q Consensus       348 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  425 (461)
                      ...|..+..+|.+.|++++|...+++. ...| +...+..+..++...|++++|+..|+++.+..|.+..++..+..++.
T Consensus       196 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~  275 (336)
T 1p5q_A          196 LASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQ  275 (336)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
Confidence            356777888888888888888888877 3333 55677778888899999999999999999999999999999999999


Q ss_pred             ccCChhhH-HHHHHHHH
Q 038303          426 GADRWEDT-NKIRDEIR  441 (461)
Q Consensus       426 ~~g~~~~A-~~~~~~m~  441 (461)
                      +.|++++| ...+++|.
T Consensus       276 ~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          276 RIRRQLAREKKLYANMF  292 (336)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            99999888 44666654

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.65  E-value=2.9e-07  Score=66.92  Aligned_cols=100  Identities=10%  Similarity=-0.018  Sum_probs=79.3

Q ss_pred             CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCC-chhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCC--ChhHHHHHHH
Q 038303          347 QMQHYACVVDMYGRAGLLEEAEAFIREM-PIE-AEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGV--SVGTFALMSN  422 (461)
Q Consensus       347 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~l~~  422 (461)
                      +...+..+...+.+.|++++|...+++. ... .+...+..+...+...|++++|...++++.+..|.  +..++..++.
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~   84 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKAD   84 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHH
Confidence            3456666777778888888888888776 222 34556677777788889999999999999988888  8889999999


Q ss_pred             HHhcc-CChhhHHHHHHHHHHcCCc
Q 038303          423 TFAGA-DRWEDTNKIRDEIRRMGLK  446 (461)
Q Consensus       423 ~~~~~-g~~~~A~~~~~~m~~~g~~  446 (461)
                      ++.+. |++++|.+.+++.......
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~p~  109 (112)
T 2kck_A           85 ALRYIEGKEVEAEIAEARAKLEHHH  109 (112)
T ss_dssp             HHTTCSSCSHHHHHHHHHHGGGCCC
T ss_pred             HHHHHhCCHHHHHHHHHHHhhcccC
Confidence            99999 9999999999888776544

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.62  E-value=6.2e-07  Score=75.93  Aligned_cols=184  Identities=7%  Similarity=-0.069  Sum_probs=115.6

Q ss_pred             hcCCHHHHHHHHHHccC--C-ChhhHHHH-------HHHHHhcCChHHHHHHHHHHHhcCCCCCH---------------
Q 038303          258 KCGDVGIAIQVFNMLAY--K-DKISWSTV-------ISGLAMNGCGRQALQLFSLMIINAVFPDD---------------  312 (461)
Q Consensus       258 ~~g~~~~a~~~~~~~~~--~-~~~~~~~l-------~~~~~~~~~~~~a~~~~~~m~~~g~~p~~---------------  312 (461)
                      ..++...|.+.|.++..  | ....|..+       ...+.+.++..+++..+..-.+  +.|+.               
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            45777777777777663  2 33455555       3444444455555554444433  22211               


Q ss_pred             -------hHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCch----hh
Q 038303          313 -------VTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAE----WS  381 (461)
Q Consensus       313 -------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~----~~  381 (461)
                             .....+...+...|++++|.++|+.+..  + .|+......+...+.+.+++++|+..|+.....|+    ..
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 YPVTSPLAITMGFAACEAAQGNYADAMEALEAAPV--A-GSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWPDKFLAGA  172 (282)
T ss_dssp             EECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCC--T-TCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCSCHHHHHH
T ss_pred             cccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHh--c-CCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccCCcccHHH
Confidence                   1223345566777888888888877755  2 24332555556677788888888888877633332    22


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhhcC--CC-ChhHHHHHHHHHhccCChhhHHHHHHHHHHcCCc
Q 038303          382 VWGALLNACRIHRNDEMFDRIRQDLVNKK--GV-SVGTFALMSNTFAGADRWEDTNKIRDEIRRMGLK  446 (461)
Q Consensus       382 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~  446 (461)
                      .+..+..++...|++++|+..|++...+.  |. .+......+.++.+.|+.++|..+|+++......
T Consensus       173 a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~  240 (282)
T 4f3v_A          173 AGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE  240 (282)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc
Confidence            45566666888888888888888887543  33 4457777888888888888888888888775443

>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=98.58  E-value=4.1e-07  Score=67.96  Aligned_cols=93  Identities=10%  Similarity=-0.091  Sum_probs=53.0

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccC
Q 038303          351 YACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGAD  428 (461)
Q Consensus       351 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  428 (461)
                      +..+...+.+.|++++|...|++. ...| +...|..+..++...|++++|+..++++.+..|.++.+|..++.++...|
T Consensus         7 ~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~   86 (126)
T 3upv_A            7 ARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVK   86 (126)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHh
Confidence            444445555555555555555554 2222 33445555555666666666666666666666666666666666666666


Q ss_pred             ChhhHHHHHHHHHHc
Q 038303          429 RWEDTNKIRDEIRRM  443 (461)
Q Consensus       429 ~~~~A~~~~~~m~~~  443 (461)
                      ++++|...+++..+.
T Consensus        87 ~~~~A~~~~~~al~~  101 (126)
T 3upv_A           87 EYASALETLDAARTK  101 (126)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHh
Confidence            666666666665543

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.58  E-value=2.9e-07  Score=70.53  Aligned_cols=89  Identities=7%  Similarity=-0.164  Sum_probs=40.9

Q ss_pred             HHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChh
Q 038303          354 VVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWE  431 (461)
Q Consensus       354 l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  431 (461)
                      +...+.+.|++++|...|++. ...| +...|..+..++...|++++|+..++++.+..|.++..+..++.+|...|+++
T Consensus        24 ~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~  103 (142)
T 2xcb_A           24 LGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECHLQLGDLD  103 (142)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHH
Confidence            334444444444444444444 1112 22333344444444455555555555555444444445555555555555555


Q ss_pred             hHHHHHHHHHH
Q 038303          432 DTNKIRDEIRR  442 (461)
Q Consensus       432 ~A~~~~~~m~~  442 (461)
                      +|.+.+++..+
T Consensus       104 ~A~~~~~~al~  114 (142)
T 2xcb_A          104 GAESGFYSARA  114 (142)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            55555544433

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.57  E-value=1.1e-06  Score=71.71  Aligned_cols=151  Identities=10%  Similarity=-0.062  Sum_probs=70.1

Q ss_pred             hcCCHHHHHH---HHHHccCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhc----CCCC-CHhHHHHHHHHHHcCCChH
Q 038303          258 KCGDVGIAIQ---VFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIIN----AVFP-DDVTFIALISACSHGGLVD  329 (461)
Q Consensus       258 ~~g~~~~a~~---~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~----g~~p-~~~~~~~ll~~~~~~~~~~  329 (461)
                      ..|++++|.+   .+..-.......+..+...+...|++++|...+++..+.    +..| ...++..+...+...|+++
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            3455555555   332211123344555555566666666666666555431    1111 1234455555566666666


Q ss_pred             HHHHHHHHhHhhcCCCC-----CcchHHHHHHHHhhcCCHHHHHHHHHhC------CCCch--hhHHHHHHHHHHhcCCh
Q 038303          330 QGLILFKAMSTVYEIVP-----QMQHYACVVDMYGRAGLLEEAEAFIREM------PIEAE--WSVWGALLNACRIHRND  396 (461)
Q Consensus       330 ~a~~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~g~~~~A~~~~~~~------~~~p~--~~~~~~l~~~~~~~~~~  396 (461)
                      +|...+++......-.+     ....+..+...+...|++++|...+++.      ...+.  ..++..+...+...|++
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            66666655544211111     1233445555555566666666555544      00111  11233444445555566


Q ss_pred             HHHHHHHHHHhh
Q 038303          397 EMFDRIRQDLVN  408 (461)
Q Consensus       397 ~~a~~~~~~~~~  408 (461)
                      ++|...+++..+
T Consensus       164 ~~A~~~~~~al~  175 (203)
T 3gw4_A          164 LEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            655555555544

>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=98.56  E-value=2.1e-06  Score=67.44  Aligned_cols=127  Identities=9%  Similarity=-0.133  Sum_probs=81.4

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHH
Q 038303          279 SWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMY  358 (461)
Q Consensus       279 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  358 (461)
                      .+..+...+...|++++|...+++..+... .+...+..+..++...|++++|...+++..+  ..+.+...+..+..++
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~--~~~~~~~~~~~~a~~~   91 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIELNP-SNAIYYGNRSLAYLRTECYGYALGDATRAIE--LDKKYIKGYYRRAASN   91 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCcccHHHHHHHHHHH
Confidence            455566666777777777777777766432 2456666677777777777777777777766  2234556677777777


Q ss_pred             hhcCCHHHHHHHHHhC-CCCc-hhhHH--HHHHHHHHhcCChHHHHHHHHHHhh
Q 038303          359 GRAGLLEEAEAFIREM-PIEA-EWSVW--GALLNACRIHRNDEMFDRIRQDLVN  408 (461)
Q Consensus       359 ~~~g~~~~A~~~~~~~-~~~p-~~~~~--~~l~~~~~~~~~~~~a~~~~~~~~~  408 (461)
                      ...|++++|...+++. ...| +...+  ......+...|++++|...++....
T Consensus        92 ~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           92 MALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            7778888887777776 2222 22233  2233335667777888777776554

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.55  E-value=1.4e-06  Score=67.06  Aligned_cols=100  Identities=4%  Similarity=-0.014  Sum_probs=73.7

Q ss_pred             hHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHH
Q 038303          313 VTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNAC  390 (461)
Q Consensus       313 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~  390 (461)
                      ..+..+...+.+.|++++|+..|+....  --+.+...|..+..+|.+.|++++|...|++. ...| ++..|..+..++
T Consensus        37 ~~~~~lg~~~~~~g~~~eA~~~~~~al~--~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~lg~~~  114 (151)
T 3gyz_A           37 DDIYSYAYDFYNKGRIEEAEVFFRFLCI--YDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFHTGQCQ  114 (151)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHHHHHHH
Confidence            4566666777788888888888888876  23345677777888888888888888888877 3333 345677777778


Q ss_pred             HhcCChHHHHHHHHHHhhcCCCCh
Q 038303          391 RIHRNDEMFDRIRQDLVNKKGVSV  414 (461)
Q Consensus       391 ~~~~~~~~a~~~~~~~~~~~~~~~  414 (461)
                      ...|++++|+..|+++.+..|+++
T Consensus       115 ~~lg~~~eA~~~~~~al~l~~~~~  138 (151)
T 3gyz_A          115 LRLKAPLKAKECFELVIQHSNDEK  138 (151)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCCCHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCHH
Confidence            888888888888888888766543

>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=98.53  E-value=2e-06  Score=62.99  Aligned_cols=108  Identities=10%  Similarity=-0.033  Sum_probs=54.7

Q ss_pred             HHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHH
Q 038303          314 TFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACR  391 (461)
Q Consensus       314 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~  391 (461)
                      .+..+...+...|++++|...|+....  ..+.+...+..+...+...|++++|...+++. ...| +...+..+...+.
T Consensus         6 ~~~~~~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~   83 (118)
T 1elw_A            6 ELKEKGNKALSVGNIDDALQCYSEAIK--LDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALE   83 (118)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHH--HCCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            344444455555555555555555544  11223444455555555555555555555554 1122 2334444555555


Q ss_pred             hcCChHHHHHHHHHHhhcCCCChhHHHHHHHH
Q 038303          392 IHRNDEMFDRIRQDLVNKKGVSVGTFALMSNT  423 (461)
Q Consensus       392 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  423 (461)
                      ..|++++|...+++..+..|.++..+..+..+
T Consensus        84 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  115 (118)
T 1elw_A           84 FLNRFEEAKRTYEEGLKHEANNPQLKEGLQNM  115 (118)
T ss_dssp             HTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHh
Confidence            56666666666666655555555555444433

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.53  E-value=3.7e-07  Score=77.28  Aligned_cols=183  Identities=6%  Similarity=-0.114  Sum_probs=124.3

Q ss_pred             hhCCHHHHHHHHHHHHHhCCCccHHHHHHH-------HHHHHhcCCHHHHHHHHhhCCC--CCc----------------
Q 038303           22 LAHPHQKALEIHAHVIEYGHLHDIFIQNSL-------LHFYVTVKDIFSAHQIFNSVVF--PDV----------------   76 (461)
Q Consensus        22 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------l~~~~~~~~~~~a~~~~~~~~~--~~~----------------   76 (461)
                      ..++...|.+.|..+.+..+. ....|..+       ..++.+.++..++...+..-..  |+.                
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~-~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l~p~~l~a~~~~~g~y~~~~~   96 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDES-ACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQISMSTLNARIAIGGLYGDITY   96 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTCCGGGGCCEEECCTTTCCCEE
T ss_pred             cCCCHHHHHHHHHHHHHhChh-hhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCccccccc
Confidence            679999999999999997754 45677766       4555555555566555554422  110                


Q ss_pred             ------eeHHHHHHHHHcCCChHHHHHHHhcC-CCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCC--hhHHH
Q 038303           77 ------VSWTTIISGLSKCGFHKEAIDMFCGI-DVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENN--IILDN  147 (461)
Q Consensus        77 ------~~~~~li~~~~~~~~~~~a~~~~~~m-~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~  147 (461)
                            ..+-.+...+...|++++|.++|+.+ ...|+......+...+.+.+++++|+..|+...+.. .|.  ...+.
T Consensus        97 ~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a~~  175 (282)
T 4f3v_A           97 PVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAGSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAAGV  175 (282)
T ss_dssp             ECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTTCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHHHH
T ss_pred             ccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHHHH
Confidence                  11233556777889999999999988 555654455555556778888888888887443321 111  23566


Q ss_pred             HHHHHHHHcCChhhHHHHHhcCCC-C-----chhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCC
Q 038303          148 AILDFYIRCGSLASCGYLFVKMPK-R-----NVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPN  209 (461)
Q Consensus       148 ~l~~~~~~~g~~~~a~~~~~~~~~-~-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~  209 (461)
                      .+..++...|++++|+..|++... +     ..........++.+.|+.++|..+|+++..   ..|+
T Consensus       176 ~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a---~~P~  240 (282)
T 4f3v_A          176 AHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQT---THPE  240 (282)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH---HSCC
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHh---cCCc
Confidence            677888888888888888887743 2     223556667778888888888888888887   4455

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.52  E-value=8.6e-07  Score=72.41  Aligned_cols=47  Identities=17%  Similarity=0.072  Sum_probs=22.6

Q ss_pred             cCChhhHHH---HHhcCCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 038303          156 CGSLASCGY---LFVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEK  202 (461)
Q Consensus       156 ~g~~~~a~~---~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  202 (461)
                      .|++++|.+   .+..-+.....++..+...+...|++++|...+++..+
T Consensus         5 ~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~   54 (203)
T 3gw4_A            5 AHDYALAERQAQALLAHPATASGARFMLGYVYAFMDRFDEARASFQALQQ   54 (203)
T ss_dssp             --CHHHHHHHHHHHHTSTTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Confidence            344555554   33332222344555555555566666666665555544

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.51  E-value=5.6e-07  Score=66.64  Aligned_cols=96  Identities=8%  Similarity=-0.091  Sum_probs=81.6

Q ss_pred             chHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhc
Q 038303          349 QHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAG  426 (461)
Q Consensus       349 ~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  426 (461)
                      ..+..+...+.+.|++++|...|++. ...| +...|..+..++...|++++|+..++++.+..|.++.++..++.+|.+
T Consensus        18 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           18 ENPMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTN   97 (121)
T ss_dssp             SCHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            34556777888999999999999988 4344 556777777789999999999999999999999999999999999999


Q ss_pred             cCChhhHHHHHHHHHHcC
Q 038303          427 ADRWEDTNKIRDEIRRMG  444 (461)
Q Consensus       427 ~g~~~~A~~~~~~m~~~g  444 (461)
                      .|++++|...+++..+..
T Consensus        98 ~g~~~~A~~~~~~al~~~  115 (121)
T 1hxi_A           98 EHNANAALASLRAWLLSQ  115 (121)
T ss_dssp             HHHHHHHHHHHHHHHC--
T ss_pred             cCCHHHHHHHHHHHHHhC
Confidence            999999999999987643

>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=98.51  E-value=1.2e-06  Score=66.42  Aligned_cols=95  Identities=8%  Similarity=-0.085  Sum_probs=50.2

Q ss_pred             cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHh
Q 038303          348 MQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFA  425 (461)
Q Consensus       348 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  425 (461)
                      ...+..+...+...|++++|...|++. ...| +...+..+...+...|+++.|...++++.+..|.++.++..++.+|.
T Consensus         9 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~   88 (137)
T 3q49_B            9 AQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQL   88 (137)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHHHHH
Confidence            344444555555555555555555544 1122 23344444445555555555555555555555555555555555555


Q ss_pred             ccCChhhHHHHHHHHHH
Q 038303          426 GADRWEDTNKIRDEIRR  442 (461)
Q Consensus       426 ~~g~~~~A~~~~~~m~~  442 (461)
                      ..|++++|...+++..+
T Consensus        89 ~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           89 EMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHH
Confidence            56666666555555544

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.51  E-value=1.1e-06  Score=65.10  Aligned_cols=98  Identities=10%  Similarity=0.141  Sum_probs=86.6

Q ss_pred             cchHHHHHHHHhhcCCHHHHHHHHHhC-CCC-chhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHh
Q 038303          348 MQHYACVVDMYGRAGLLEEAEAFIREM-PIE-AEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFA  425 (461)
Q Consensus       348 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  425 (461)
                      ...+..+...+...|++++|.+.++++ ... .+...+..+...+...|++++|...++++.+..|.++.++..++.++.
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~   88 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYY   88 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHH
Confidence            467788889999999999999999988 223 355677888888999999999999999999999999999999999999


Q ss_pred             ccCChhhHHHHHHHHHHcCC
Q 038303          426 GADRWEDTNKIRDEIRRMGL  445 (461)
Q Consensus       426 ~~g~~~~A~~~~~~m~~~g~  445 (461)
                      ..|++++|...++++.+...
T Consensus        89 ~~~~~~~A~~~~~~~~~~~~  108 (125)
T 1na0_A           89 KQGDYDEAIEYYQKALELDP  108 (125)
T ss_dssp             HTTCHHHHHHHHHHHHHHCT
T ss_pred             HhcCHHHHHHHHHHHHHhCC
Confidence            99999999999999987643

>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=98.50  E-value=4.6e-07  Score=78.42  Aligned_cols=93  Identities=10%  Similarity=-0.067  Sum_probs=61.8

Q ss_pred             CcchHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCceeHHHHHHH
Q 038303            9 NHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVF---PDVVSWTTIISG   85 (461)
Q Consensus         9 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~   85 (461)
                      +...+..+...+...|++++|...|+...+.... +...|..+..+|.+.|++++|...+++...   .+...+..+..+
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~   81 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQC   81 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            3455666667777777777777777777776432 566666677777777777777777776633   234455666666


Q ss_pred             HHcCCChHHHHHHHhcC
Q 038303           86 LSKCGFHKEAIDMFCGI  102 (461)
Q Consensus        86 ~~~~~~~~~a~~~~~~m  102 (461)
                      +...|++++|+..|++.
T Consensus        82 ~~~~g~~~~A~~~~~~a   98 (281)
T 2c2l_A           82 QLEMESYDEAIANLQRA   98 (281)
T ss_dssp             HHHTTCHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHH
Confidence            66667777776666654

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.50  E-value=1.3e-06  Score=65.71  Aligned_cols=100  Identities=3%  Similarity=-0.050  Sum_probs=88.6

Q ss_pred             CCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHH
Q 038303          345 VPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSN  422 (461)
Q Consensus       345 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  422 (461)
                      +.+...+..+...+.+.|++++|...+++. ...| +...+..+...+...|++++|+..++++.+..|.+..++..++.
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~   92 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAA   92 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHH
Confidence            344677888899999999999999999998 4444 56677888888999999999999999999999999999999999


Q ss_pred             HHhccCChhhHHHHHHHHHHcC
Q 038303          423 TFAGADRWEDTNKIRDEIRRMG  444 (461)
Q Consensus       423 ~~~~~g~~~~A~~~~~~m~~~g  444 (461)
                      ++.+.|++++|.+.+++..+..
T Consensus        93 ~~~~~~~~~~A~~~~~~~~~~~  114 (133)
T 2lni_A           93 ALEAMKDYTKAMDVYQKALDLD  114 (133)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHhhHHHHHHHHHHHHHhC
Confidence            9999999999999999998764

>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=98.50  E-value=0.00012  Score=64.24  Aligned_cols=173  Identities=10%  Similarity=-0.026  Sum_probs=98.0

Q ss_pred             HHHhcCChHHHHHHHHHHHhcCCCCCCh-hhHHHHHHHhhccc-hhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhc-
Q 038303          183 GYAERGFCKEAVSVFQEMEKTKEAEPNE-ATLVNVLSACSSIS-ALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKC-  259 (461)
Q Consensus       183 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~-~~~~~~l~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~-  259 (461)
                      ...+.+..++|+++++++..   ..|+. ..++.--..+...+ .++++...++.+..  ..+-+..+|+.-...+.+. 
T Consensus        63 ~~~~~e~se~AL~lt~~~L~---~nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~--~nPKny~aW~hR~wlL~~l~  137 (349)
T 3q7a_A           63 IAAKEEKSERALELTEIIVR---MNPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAV--QNLKSYQVWHHRLLLLDRIS  137 (349)
T ss_dssp             HHHTTCCSHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH--TTCCCHHHHHHHHHHHHHHC
T ss_pred             HHHhCCCCHHHHHHHHHHHH---hCchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHhc
Confidence            33444455667777777776   33433 33444444444444 36666666666655  3333444555555555554 


Q ss_pred             C-CHHHHHHHHHHccCC---ChhhHHHHHHHHHhcCChH--------HHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCC
Q 038303          260 G-DVGIAIQVFNMLAYK---DKISWSTVISGLAMNGCGR--------QALQLFSLMIINAVFPDDVTFIALISACSHGGL  327 (461)
Q Consensus       260 g-~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~--------~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~  327 (461)
                      + +.++++++++.+.+.   |...|+.-.-.+.+.|.++        ++++.++++.+..+. |...|+.....+.+.+.
T Consensus       138 ~~~~~~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~-N~SAW~~R~~lL~~l~~  216 (349)
T 3q7a_A          138 PQDPVSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR-NNSAWGWRWYLRVSRPG  216 (349)
T ss_dssp             CSCCHHHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHTTSTT
T ss_pred             CCChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccc
Confidence            5 677777888777754   3444544444444444444        777777777776443 66677766666666665


Q ss_pred             -------hHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCC
Q 038303          328 -------VDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGL  363 (461)
Q Consensus       328 -------~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  363 (461)
                             ++++++.++++..  -.+-|...|+-+-..+.+.|+
T Consensus       217 ~~~~~~~~~eELe~~~~aI~--~~P~n~SaW~Ylr~Ll~~~~~  257 (349)
T 3q7a_A          217 AETSSRSLQDELIYILKSIH--LIPHNVSAWNYLRGFLKHFSL  257 (349)
T ss_dssp             CCCCHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTC
T ss_pred             cccchHHHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHhcCC
Confidence                   5667777666665  233445555555555555444

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.49  E-value=8.7e-07  Score=69.72  Aligned_cols=109  Identities=9%  Similarity=-0.038  Sum_probs=88.5

Q ss_pred             CHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHH
Q 038303          311 DDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLN  388 (461)
Q Consensus       311 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~  388 (461)
                      +...+..+...+...|++++|+..|++..+  -.+.+...|..+..+|.+.|++++|...+++. ...| +...|..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALS--IAPANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            446777888889999999999999999887  23446778888999999999999999999988 3334 4667778888


Q ss_pred             HHHhcCChHHHHHHHHHHhhcCCCChhHHHHHH
Q 038303          389 ACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMS  421 (461)
Q Consensus       389 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~  421 (461)
                      ++...|++++|+..|+++.+..|.+...+....
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~  120 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEAEGNGGSDAMKRG  120 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHSSSCCHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhCCCchHHHHHHH
Confidence            899999999999999999998888877554443

>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=98.49  E-value=8.2e-07  Score=70.86  Aligned_cols=117  Identities=6%  Similarity=0.051  Sum_probs=53.1

Q ss_pred             CCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHH-HHhcCCh--HHH
Q 038303          325 GGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNA-CRIHRND--EMF  399 (461)
Q Consensus       325 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~-~~~~~~~--~~a  399 (461)
                      .|++++|...++....  ..+.+...+..+...|...|++++|...|++. ...| +...+..+... +...|++  ++|
T Consensus        23 ~~~~~~A~~~~~~al~--~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~~~A  100 (177)
T 2e2e_A           23 QQNPEAQLQALQDKIR--ANPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMTAQT  100 (177)
T ss_dssp             ----CCCCHHHHHHHH--HCCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCCHHH
T ss_pred             ccCHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcchHHH
Confidence            4445555555544443  11223344444555555555555555555544 1111 22233333444 3444554  555


Q ss_pred             HHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHc
Q 038303          400 DRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRM  443 (461)
Q Consensus       400 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  443 (461)
                      ...++++.+..|.+..++..++.+|...|++++|...+++..+.
T Consensus       101 ~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A          101 RAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            55555555555555555555555555555555555555555443

>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=98.48  E-value=3.5e-07  Score=70.57  Aligned_cols=102  Identities=7%  Similarity=-0.162  Sum_probs=62.8

Q ss_pred             hHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHH
Q 038303          313 VTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNAC  390 (461)
Q Consensus       313 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~  390 (461)
                      ..+..+...+...|++++|+..|+....  .-+.+...|..+..+|...|++++|...|++. ...| +...+..+..++
T Consensus        22 ~~~~~~g~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~   99 (148)
T 2vgx_A           22 EQLYSLAFNQYQSGXYEDAHXVFQALCV--LDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHAAECL   99 (148)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHH--cCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHH
Confidence            3445555566666777777777766655  22334556666666677777777777777666 2223 334555566667


Q ss_pred             HhcCChHHHHHHHHHHhhcCCCChhH
Q 038303          391 RIHRNDEMFDRIRQDLVNKKGVSVGT  416 (461)
Q Consensus       391 ~~~~~~~~a~~~~~~~~~~~~~~~~~  416 (461)
                      ...|++++|+..|+++.+..|.++..
T Consensus       100 ~~~g~~~~A~~~~~~al~~~p~~~~~  125 (148)
T 2vgx_A          100 LQXGELAEAESGLFLAQELIANXPEF  125 (148)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHTTCGGG
T ss_pred             HHcCCHHHHHHHHHHHHHHCcCCCcc
Confidence            77777777777777777666555433

>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=98.47  E-value=1.5e-06  Score=63.71  Aligned_cols=98  Identities=9%  Similarity=0.012  Sum_probs=86.0

Q ss_pred             cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHh
Q 038303          348 MQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFA  425 (461)
Q Consensus       348 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  425 (461)
                      ...+..+...+...|++++|...+++. ...| +...+..+...+...|++++|...++++.+..|.++..+..++.++.
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~   83 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALE   83 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            456777888999999999999999998 3333 56677778888999999999999999999999999999999999999


Q ss_pred             ccCChhhHHHHHHHHHHcCC
Q 038303          426 GADRWEDTNKIRDEIRRMGL  445 (461)
Q Consensus       426 ~~g~~~~A~~~~~~m~~~g~  445 (461)
                      ..|++++|.+.+++..+.+.
T Consensus        84 ~~~~~~~A~~~~~~~~~~~~  103 (118)
T 1elw_A           84 FLNRFEEAKRTYEEGLKHEA  103 (118)
T ss_dssp             HTTCHHHHHHHHHHHHTTCT
T ss_pred             HHhhHHHHHHHHHHHHHcCC
Confidence            99999999999999887543

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.45  E-value=2.4e-06  Score=65.61  Aligned_cols=110  Identities=7%  Similarity=-0.185  Sum_probs=58.8

Q ss_pred             HhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCC----cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHH
Q 038303          312 DVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQ----MQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGA  385 (461)
Q Consensus       312 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~  385 (461)
                      ...+..+...+...|++++|...|++..+   ..|+    ...+..+..+|...|++++|...+++. ...| +...+..
T Consensus        28 ~~~~~~~a~~~~~~~~~~~A~~~~~~a~~---~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  104 (148)
T 2dba_A           28 VEQLRKEGNELFKCGDYGGALAAYTQALG---LDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYR  104 (148)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHT---SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHH---HcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHH
Confidence            34455555556666666666666666554   2233    445555555555666666666655554 2222 3334444


Q ss_pred             HHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHH
Q 038303          386 LLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTF  424 (461)
Q Consensus       386 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  424 (461)
                      +..++...|++++|...+++..+..|.+..++..+....
T Consensus       105 ~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~  143 (148)
T 2dba_A          105 RSQALEKLGRLDQAVLDLQRCVSLEPKNKVFQEALRNIS  143 (148)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHH
Confidence            555555556666666666666555555555555444443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.44  E-value=9.6e-06  Score=74.98  Aligned_cols=163  Identities=6%  Similarity=-0.125  Sum_probs=97.9

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcC-CCCCHh----HHHHHHHHHHcCCChHHHHHHHHHhHhhc---CCCC-Ccch
Q 038303          280 WSTVISGLAMNGCGRQALQLFSLMIINA-VFPDDV----TFIALISACSHGGLVDQGLILFKAMSTVY---EIVP-QMQH  350 (461)
Q Consensus       280 ~~~l~~~~~~~~~~~~a~~~~~~m~~~g-~~p~~~----~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~~-~~~~  350 (461)
                      +..+...|...|++++|.+.+..+...- ..++..    ..+.+-..+...|+++.|..+++......   +..+ -..+
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            5566777777777777777777665421 111111    11222223334677777777776654311   1111 2345


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC-------CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhc---CCCC----hh
Q 038303          351 YACVVDMYGRAGLLEEAEAFIREM-------PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNK---KGVS----VG  415 (461)
Q Consensus       351 ~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~----~~  415 (461)
                      +..+...|...|++++|..++++.       ..++ ....+..++..|...|+++.|..++++....   .+.+    ..
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            666777778888888888777765       1112 2335666667788888888888888777652   1221    34


Q ss_pred             HHHHHHHHHhccCChhhHHHHHHHHHH
Q 038303          416 TFALMSNTFAGADRWEDTNKIRDEIRR  442 (461)
Q Consensus       416 ~~~~l~~~~~~~g~~~~A~~~~~~m~~  442 (461)
                      .+..++..+...|++++|...+.+..+
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            566777777788888888777766643

>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=98.44  E-value=2.4e-06  Score=63.67  Aligned_cols=108  Identities=7%  Similarity=-0.132  Sum_probs=60.3

Q ss_pred             HHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHH
Q 038303          314 TFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACR  391 (461)
Q Consensus       314 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~  391 (461)
                      .+..+...+.+.|++++|+..|++..+  -.+.+...|..+..+|.+.|++++|...+++. ...| +...+..+..++.
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIK--RAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHH--hCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            344444555556666666666655554  12234455555666666666666666666655 2222 3345555555566


Q ss_pred             hcCChHHHHHHHHHHhhcC------CCChhHHHHHHHH
Q 038303          392 IHRNDEMFDRIRQDLVNKK------GVSVGTFALMSNT  423 (461)
Q Consensus       392 ~~~~~~~a~~~~~~~~~~~------~~~~~~~~~l~~~  423 (461)
                      ..|++++|+..++++.+..      |.+..+...+..+
T Consensus        84 ~~~~~~~A~~~~~~al~~~p~~~~~p~~~~~~~~l~~~  121 (126)
T 3upv_A           84 AVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYKA  121 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHHhCcccCCchhHHHHHHHHHHH
Confidence            6666666666666666655      5555555554443

>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=98.43  E-value=3.8e-05  Score=67.31  Aligned_cols=213  Identities=10%  Similarity=0.020  Sum_probs=148.4

Q ss_pred             hhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcC-CHHHHHHHHHHccCC---ChhhHHHHHHHHHhc-C-ChHHHHHH
Q 038303          226 LSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCG-DVGIAIQVFNMLAYK---DKISWSTVISGLAMN-G-CGRQALQL  299 (461)
Q Consensus       226 ~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~-~-~~~~a~~~  299 (461)
                      .++|..+++.+..  -.+-+..+++.--..+...| .+++++++++.+...   +..+|+.-...+.+. + ++++++++
T Consensus        70 se~AL~lt~~~L~--~nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPKny~aW~hR~wlL~~l~~~~~~~EL~~  147 (349)
T 3q7a_A           70 SERALELTEIIVR--MNPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLKSYQVWHHRLLLLDRISPQDPVSEIEY  147 (349)
T ss_dssp             SHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHCCSCCHHHHHH
T ss_pred             CHHHHHHHHHHHH--hCchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCCChHHHHHH
Confidence            4567777777766  22333445666666667778 599999999998854   556677766666665 6 88999999


Q ss_pred             HHHHHhcCCCCCHhHHHHHHHHHHcCCChH--------HHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCC-------H
Q 038303          300 FSLMIINAVFPDDVTFIALISACSHGGLVD--------QGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGL-------L  364 (461)
Q Consensus       300 ~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-------~  364 (461)
                      ++++.+...+ +..+++.-...+.+.|.++        ++++.++++.+  ..+-|...|+.....+.+.++       +
T Consensus       148 ~~k~L~~dpk-Ny~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~--~dp~N~SAW~~R~~lL~~l~~~~~~~~~~  224 (349)
T 3q7a_A          148 IHGSLLPDPK-NYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLR--VDGRNNSAWGWRWYLRVSRPGAETSSRSL  224 (349)
T ss_dssp             HHHHTSSCTT-CHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHTTSTTCCCCHHHH
T ss_pred             HHHHHHhCCC-CHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHhccccccchHHH
Confidence            9999986443 6677766655555555555        89999999987  334567778777777777776       6


Q ss_pred             HHHHHHHHhC-CCC-chhhHHHHHHHHHHhcCCh--------------------HHHHHHHHHHhhcC------CCChhH
Q 038303          365 EEAEAFIREM-PIE-AEWSVWGALLNACRIHRND--------------------EMFDRIRQDLVNKK------GVSVGT  416 (461)
Q Consensus       365 ~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~~~~--------------------~~a~~~~~~~~~~~------~~~~~~  416 (461)
                      +++++.++++ ... -|...|+-+-..+.+.|..                    .........+....      +.++.+
T Consensus       225 ~eELe~~~~aI~~~P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~a  304 (349)
T 3q7a_A          225 QDELIYILKSIHLIPHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVPLA  304 (349)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSCCHHH
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCCcHHH
Confidence            8888888877 333 4666777766666665553                    33444444444332      577889


Q ss_pred             HHHHHHHHhccCChhhHHHHHHHHHHc
Q 038303          417 FALMSNTFAGADRWEDTNKIRDEIRRM  443 (461)
Q Consensus       417 ~~~l~~~~~~~g~~~~A~~~~~~m~~~  443 (461)
                      ...++..|...|+.++|.++++.+.++
T Consensus       305 l~~l~d~~~~~~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          305 LEYLADSFIEQNRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence            999999999999999999999998543

>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=98.42  E-value=1e-06  Score=65.86  Aligned_cols=89  Identities=6%  Similarity=-0.019  Sum_probs=39.6

Q ss_pred             HHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCC-------hhHHHHHHHHH
Q 038303          354 VVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVS-------VGTFALMSNTF  424 (461)
Q Consensus       354 l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-------~~~~~~l~~~~  424 (461)
                      +...+.+.|++++|+..|++. .+.| +...|..+..+|...|++++|+..++++++..|.+       ..+|..++.++
T Consensus        14 lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~   93 (127)
T 4gcn_A           14 LGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSRAGNAF   93 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHHHHHHH
Confidence            344444444444444444443 2122 22233444444444444444444444444432222       12444455555


Q ss_pred             hccCChhhHHHHHHHHHH
Q 038303          425 AGADRWEDTNKIRDEIRR  442 (461)
Q Consensus       425 ~~~g~~~~A~~~~~~m~~  442 (461)
                      ...|++++|++.+++...
T Consensus        94 ~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           94 QKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHh
Confidence            555555555555555444

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.41  E-value=7.8e-06  Score=62.65  Aligned_cols=96  Identities=9%  Similarity=-0.014  Sum_probs=48.1

Q ss_pred             cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCch----hhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHH
Q 038303          348 MQHYACVVDMYGRAGLLEEAEAFIREM-PIEAE----WSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSN  422 (461)
Q Consensus       348 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  422 (461)
                      ...+..+...+...|++++|...|++. ...|+    ...+..+...+...|++++|+..+++..+..|.+...+..++.
T Consensus        28 ~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~  107 (148)
T 2dba_A           28 VEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRRSQ  107 (148)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHHHH
Confidence            334444445555555555555555544 33333    3344444444555555555555555555555555555555555


Q ss_pred             HHhccCChhhHHHHHHHHHHc
Q 038303          423 TFAGADRWEDTNKIRDEIRRM  443 (461)
Q Consensus       423 ~~~~~g~~~~A~~~~~~m~~~  443 (461)
                      ++...|++++|...+++..+.
T Consensus       108 ~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          108 ALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHc
Confidence            555555555555555555443

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.40  E-value=1.9e-06  Score=65.88  Aligned_cols=100  Identities=11%  Similarity=-0.103  Sum_probs=53.0

Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHh
Q 038303          315 FIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRI  392 (461)
Q Consensus       315 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~  392 (461)
                      +..+...+...|++++|...|+....  .-+.+...|..+..+|.+.|++++|...|++. ...| +...+..+..++..
T Consensus        21 ~~~~a~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~   98 (142)
T 2xcb_A           21 LYALGFNQYQAGKWDDAQKIFQALCM--LDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECHLQ   98 (142)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccHHHHHHHHHHHHH--hCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHH
Confidence            33344445555666666666655554  12234455555555566666666666666555 2222 23344445555666


Q ss_pred             cCChHHHHHHHHHHhhcCCCChhH
Q 038303          393 HRNDEMFDRIRQDLVNKKGVSVGT  416 (461)
Q Consensus       393 ~~~~~~a~~~~~~~~~~~~~~~~~  416 (461)
                      .|++++|+..++++.+..|.++..
T Consensus        99 ~g~~~~A~~~~~~al~~~p~~~~~  122 (142)
T 2xcb_A           99 LGDLDGAESGFYSARALAAAQPAH  122 (142)
T ss_dssp             TTCHHHHHHHHHHHHHHHHTCGGG
T ss_pred             cCCHHHHHHHHHHHHHhCCCCcch
Confidence            666666666666666655544433

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.40  E-value=7.7e-06  Score=64.17  Aligned_cols=96  Identities=8%  Similarity=-0.062  Sum_probs=75.7

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHH
Q 038303          276 DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVV  355 (461)
Q Consensus       276 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  355 (461)
                      +...|..+...+.+.|++++|+..|++..+... -+...+..+..+|...|++++|+..|++..+.  .+.+...|..+.
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg   86 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIAP-ANPIYLSNRAAAYSASGQHEKAAEDAELATVV--DPKYSKAWSRLG   86 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-cCHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            345677778888888899999988888887532 25677788888888889999998888888772  234577788888


Q ss_pred             HHHhhcCCHHHHHHHHHhC
Q 038303          356 DMYGRAGLLEEAEAFIREM  374 (461)
Q Consensus       356 ~~~~~~g~~~~A~~~~~~~  374 (461)
                      .+|.+.|++++|...|++.
T Consensus        87 ~~~~~~g~~~~A~~~~~~a  105 (164)
T 3sz7_A           87 LARFDMADYKGAKEAYEKG  105 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHH
Confidence            8888889999988888877

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.40  E-value=1.9e-06  Score=64.36  Aligned_cols=99  Identities=6%  Similarity=-0.044  Sum_probs=87.1

Q ss_pred             CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHH
Q 038303          347 QMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTF  424 (461)
Q Consensus       347 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  424 (461)
                      +...+..+...+...|++++|...+++. ...| +...+..+...+...|++++|...++++.+..|.++..+..++.++
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   90 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELNPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHHH
Confidence            4567778888999999999999999988 3333 5667778888899999999999999999999999999999999999


Q ss_pred             hccCChhhHHHHHHHHHHcCC
Q 038303          425 AGADRWEDTNKIRDEIRRMGL  445 (461)
Q Consensus       425 ~~~g~~~~A~~~~~~m~~~g~  445 (461)
                      .+.|++++|...+++..+...
T Consensus        91 ~~~~~~~~A~~~~~~~~~~~p  111 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALELDP  111 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHHHST
T ss_pred             HHhCCHHHHHHHHHHHHhcCc
Confidence            999999999999999987643

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.39  E-value=2.3e-06  Score=64.04  Aligned_cols=97  Identities=12%  Similarity=-0.010  Sum_probs=50.7

Q ss_pred             HHHHHHcCCChHHHHHHHHHhHhhcCCCCCc---chHHHHHHHHhhcCCHHHHHHHHHhC-CCCch----hhHHHHHHHH
Q 038303          318 LISACSHGGLVDQGLILFKAMSTVYEIVPQM---QHYACVVDMYGRAGLLEEAEAFIREM-PIEAE----WSVWGALLNA  389 (461)
Q Consensus       318 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~  389 (461)
                      +...+...|++++|...|+.+.+.  .+.+.   ..+..+..++.+.|++++|...+++. ...|+    ...+..+..+
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~   85 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLEL--YPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHH--CCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHH
Confidence            344555566666666666665551  11122   34455555566666666666666555 22222    2334444455


Q ss_pred             HHhcCChHHHHHHHHHHhhcCCCChhH
Q 038303          390 CRIHRNDEMFDRIRQDLVNKKGVSVGT  416 (461)
Q Consensus       390 ~~~~~~~~~a~~~~~~~~~~~~~~~~~  416 (461)
                      +...|++++|...++++.+..|.++..
T Consensus        86 ~~~~g~~~~A~~~~~~~~~~~p~~~~~  112 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVATQYPGSDAA  112 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTSHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHCCCChHH
Confidence            556666666666666666555555443

>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=98.35  E-value=2.9e-06  Score=63.38  Aligned_cols=108  Identities=7%  Similarity=-0.027  Sum_probs=56.1

Q ss_pred             HHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCch--------hhHHH
Q 038303          314 TFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAE--------WSVWG  384 (461)
Q Consensus       314 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~--------~~~~~  384 (461)
                      .+..+...+...|++++|...|+....  ..+.+...+..+...+...|++++|...+++. ...|+        ...+.
T Consensus         6 ~~~~l~~~~~~~~~~~~A~~~~~~a~~--~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            6 KEKELGNDAYKKKDFDTALKHYDKAKE--LDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHh--cCCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHH
Confidence            344444455555555555555555544  12233444555555555555555555555554 11111        33455


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHH
Q 038303          385 ALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTF  424 (461)
Q Consensus       385 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  424 (461)
                      .+...+...|++++|...++++.+..| ++.....+..+.
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~  122 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLAEHR-TPDVLKKCQQAE  122 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCC-CHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhCC-CHHHHHHHHHHH
Confidence            555556666666666666666666544 454444444443

>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=98.34  E-value=4.1e-06  Score=63.38  Aligned_cols=98  Identities=10%  Similarity=-0.147  Sum_probs=47.6

Q ss_pred             HhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHH
Q 038303          312 DVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNA  389 (461)
Q Consensus       312 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~  389 (461)
                      ...+..+...+...|++++|...|+....  -.+.+...+..+..++...|++++|...+++. ...| +...+..+..+
T Consensus         9 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~   86 (137)
T 3q49_B            9 AQELKEQGNRLFVGRKYPEAAACYGRAIT--RNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQC   86 (137)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHh--hCcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHHH
Confidence            34444444455555555555555555444  11223444455555555555555555555544 2122 23344445555


Q ss_pred             HHhcCChHHHHHHHHHHhhcCC
Q 038303          390 CRIHRNDEMFDRIRQDLVNKKG  411 (461)
Q Consensus       390 ~~~~~~~~~a~~~~~~~~~~~~  411 (461)
                      +...|++++|+..++++.+..|
T Consensus        87 ~~~~~~~~~A~~~~~~a~~~~p  108 (137)
T 3q49_B           87 QLEMESYDEAIANLQRAYSLAK  108 (137)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHHCh
Confidence            5555555555555555555433

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.33  E-value=1.3e-05  Score=74.17  Aligned_cols=96  Identities=7%  Similarity=-0.129  Sum_probs=45.1

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhcCC----CCC-HhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCC-----c
Q 038303          279 SWSTVISGLAMNGCGRQALQLFSLMIINAV----FPD-DVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQ-----M  348 (461)
Q Consensus       279 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~----~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~  348 (461)
                      ++..+...+...|++++|..++++....-.    .|. ...+..++..|...|++++|..+++.......-.++     .
T Consensus       137 ~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  216 (434)
T 4b4t_Q          137 LSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVA  216 (434)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHH
T ss_pred             HHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHH
Confidence            344455555555555555555555433211    111 134555555566666666666665554431111111     1


Q ss_pred             chHHHHHHHHhhcCCHHHHHHHHHhC
Q 038303          349 QHYACVVDMYGRAGLLEEAEAFIREM  374 (461)
Q Consensus       349 ~~~~~l~~~~~~~g~~~~A~~~~~~~  374 (461)
                      ..+..+...+...|++++|...|.+.
T Consensus       217 ~~~~~~g~~~~~~~~y~~A~~~~~~a  242 (434)
T 4b4t_Q          217 ELDLMSGILHCEDKDYKTAFSYFFES  242 (434)
T ss_dssp             HHHHHHHHHTTSSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            23344444555556666655554433

>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=98.32  E-value=3e-06  Score=64.70  Aligned_cols=62  Identities=10%  Similarity=-0.049  Sum_probs=53.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhhc-------CCCChhHH----HHHHHHHhccCChhhHHHHHHHHHHc
Q 038303          382 VWGALLNACRIHRNDEMFDRIRQDLVNK-------KGVSVGTF----ALMSNTFAGADRWEDTNKIRDEIRRM  443 (461)
Q Consensus       382 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~----~~l~~~~~~~g~~~~A~~~~~~m~~~  443 (461)
                      .|..+..++.+.|++++|+..+++.++.       .|.+...|    ...+.++...|++++|+..|++..+.
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel  131 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  131 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            6777777788888888888888888888       89898899    99999999999999999999988663

>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=98.31  E-value=2.5e-06  Score=63.74  Aligned_cols=98  Identities=4%  Similarity=-0.018  Sum_probs=83.8

Q ss_pred             cchHHHHHHHHhhcCCHHHHHHHHHhC-CC-CchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCC-------hhHHH
Q 038303          348 MQHYACVVDMYGRAGLLEEAEAFIREM-PI-EAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVS-------VGTFA  418 (461)
Q Consensus       348 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-------~~~~~  418 (461)
                      ...+..+...+...|++++|...+++. .. +.+...+..+...+...|++++|...++++.+..|.+       ..++.
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHH
Confidence            346677888999999999999999988 22 3355677778888999999999999999999876655       88999


Q ss_pred             HHHHHHhccCChhhHHHHHHHHHHcCC
Q 038303          419 LMSNTFAGADRWEDTNKIRDEIRRMGL  445 (461)
Q Consensus       419 ~l~~~~~~~g~~~~A~~~~~~m~~~g~  445 (461)
                      .++.++.+.|++++|.+.+++..+...
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~~~~  110 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLAEHR  110 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhCC
Confidence            999999999999999999999988653

>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=98.31  E-value=4.6e-06  Score=62.25  Aligned_cols=99  Identities=12%  Similarity=0.053  Sum_probs=61.0

Q ss_pred             HHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCCC--Cc--------hhHHHHH
Q 038303          111 LVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPK--RN--------VVSWTTM  180 (461)
Q Consensus       111 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~--------~~~~~~l  180 (461)
                      +..+...+.+.|++++|.+.|++.++..+. +...|+.+..+|.+.|++++|+..+++..+  |+        ..+|..+
T Consensus        11 ~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~-~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~l   89 (127)
T 4gcn_A           11 EKDLGNAAYKQKDFEKAHVHYDKAIELDPS-NITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSRA   89 (127)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHHH
Confidence            444555556666666666666666655433 455666666666666666666666665543  11        1256666


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCCCCCChhhH
Q 038303          181 IGGYAERGFCKEAVSVFQEMEKTKEAEPNEATL  213 (461)
Q Consensus       181 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~  213 (461)
                      ..++...|++++|++.|++...   ..||..+.
T Consensus        90 g~~~~~~~~~~~A~~~~~kal~---~~~~~~~~  119 (127)
T 4gcn_A           90 GNAFQKQNDLSLAVQWFHRSLS---EFRDPELV  119 (127)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH---HSCCHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHh---hCcCHHHH
Confidence            7777778888888888888776   44554443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.31  E-value=5.6e-06  Score=64.46  Aligned_cols=129  Identities=12%  Similarity=0.026  Sum_probs=74.0

Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCC----cchHHHHHHHHhhcCCHHHHHHHHHhC-------CCCc-hhhH
Q 038303          315 FIALISACSHGGLVDQGLILFKAMSTVYEIVPQ----MQHYACVVDMYGRAGLLEEAEAFIREM-------PIEA-EWSV  382 (461)
Q Consensus       315 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p-~~~~  382 (461)
                      +..+...+...|++++|...+++..+...-.++    ...+..+...+...|++++|.+.+++.       +..+ ....
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            344444444555555555555444331100011    124455555566666666666666554       1111 1234


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHhhcC------CCChhHHHHHHHHHhccCChhhHHHHHHHHHHc
Q 038303          383 WGALLNACRIHRNDEMFDRIRQDLVNKK------GVSVGTFALMSNTFAGADRWEDTNKIRDEIRRM  443 (461)
Q Consensus       383 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  443 (461)
                      +..+...+...|++++|...+++..+..      +....++..++..+...|++++|.+.+++..+.
T Consensus        92 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  158 (164)
T 3ro3_A           92 CYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  158 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            5555566777788888887777776521      122457788888888999999999988887653

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=98.31  E-value=0.00024  Score=61.97  Aligned_cols=92  Identities=5%  Similarity=-0.125  Sum_probs=45.8

Q ss_pred             hhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcC--CHHHHHHHHHHccC---CChhhHHHHHHHHHhcCC-hHHHHHHH
Q 038303          227 SFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCG--DVGIAIQVFNMLAY---KDKISWSTVISGLAMNGC-GRQALQLF  300 (461)
Q Consensus       227 ~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g--~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~-~~~a~~~~  300 (461)
                      +.+..+++.+..  ..+-+..+|+.-...+.+.+  .++++..+++.+.+   .|...|+.-.-.+...|. ++++++.+
T Consensus        91 ~~EL~~~~~~L~--~~PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~~~eel~~~  168 (331)
T 3dss_A           91 KAELGFLESCLR--VNPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFT  168 (331)
T ss_dssp             HHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHH--hCCCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcCHHHHHHHH
Confidence            344444444443  22233344444444444444  35666666666553   244455555555555555 46666666


Q ss_pred             HHHHhcCCCCCHhHHHHHHHH
Q 038303          301 SLMIINAVFPDDVTFIALISA  321 (461)
Q Consensus       301 ~~m~~~g~~p~~~~~~~ll~~  321 (461)
                      +++.+..+. |...|+.....
T Consensus       169 ~~~I~~~p~-N~SAW~~R~~l  188 (331)
T 3dss_A          169 DSLITRNFS-NYSSWHYRSCL  188 (331)
T ss_dssp             HHHHHHCSC-CHHHHHHHHHH
T ss_pred             HHHHHHCCC-CHHHHHHHHHH
Confidence            666665433 44555444433

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.30  E-value=1.4e-06  Score=64.02  Aligned_cols=61  Identities=10%  Similarity=0.002  Sum_probs=30.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHH
Q 038303          382 VWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRR  442 (461)
Q Consensus       382 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  442 (461)
                      .+..+...+...|++++|+..++++.+..|.++.++..++.++.+.|++++|...+++..+
T Consensus        29 ~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~   89 (117)
T 3k9i_A           29 CYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGVELLLKIIA   89 (117)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3344444445555555555555555555555555555555555555555555555554443

>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=98.30  E-value=1e-05  Score=71.94  Aligned_cols=128  Identities=8%  Similarity=-0.080  Sum_probs=73.5

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC--------------HhHHHHHHHHHHcCCChHHHHHHHHHhHhhcC
Q 038303          278 ISWSTVISGLAMNGCGRQALQLFSLMIINAVFPD--------------DVTFIALISACSHGGLVDQGLILFKAMSTVYE  343 (461)
Q Consensus       278 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~--------------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  343 (461)
                      ..|..+...+.+.|++++|+..|++..+......              ...|..+..+|.+.|++++|+..+++..+  -
T Consensus       148 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~--~  225 (336)
T 1p5q_A          148 TIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALE--L  225 (336)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--H
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--h
Confidence            3444555555555666666666665555322111              35666666666677777777777766665  1


Q ss_pred             CCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHH-HHHHHHHh
Q 038303          344 IVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMF-DRIRQDLV  407 (461)
Q Consensus       344 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a-~~~~~~~~  407 (461)
                      .+.+...+..+..+|...|++++|...|++. ...| +...+..+...+...|+.+++ ...++.+.
T Consensus       226 ~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          226 DSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            2334566666666777777777777777666 2233 334555555556666666666 33444443

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.30  E-value=6.2e-06  Score=59.59  Aligned_cols=97  Identities=11%  Similarity=-0.013  Sum_probs=48.5

Q ss_pred             HHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc---hhhHHHHHHHH
Q 038303          314 TFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA---EWSVWGALLNA  389 (461)
Q Consensus       314 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p---~~~~~~~l~~~  389 (461)
                      .+..+...+...|++++|...+++..+  ..+.+...+..+...+...|++++|...+++. ...|   +...+..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~A~~~~~~a~~--~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~~   85 (112)
T 2kck_A            8 EYYLEGVLQYDAGNYTESIDLFEKAIQ--LDPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKADA   85 (112)
T ss_dssp             GGGGHHHHHHSSCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHH--hCcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHHH
Confidence            334444445555555555555555544  11223444445555555555555555555554 2222   23444555555


Q ss_pred             HHhc-CChHHHHHHHHHHhhcCCC
Q 038303          390 CRIH-RNDEMFDRIRQDLVNKKGV  412 (461)
Q Consensus       390 ~~~~-~~~~~a~~~~~~~~~~~~~  412 (461)
                      +... |++++|.+.++++....|+
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~p~  109 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARAKLEHHH  109 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHHGGGCCC
T ss_pred             HHHHhCCHHHHHHHHHHHhhcccC
Confidence            5555 6666666666666555444

>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=98.30  E-value=6.1e-06  Score=76.72  Aligned_cols=94  Identities=7%  Similarity=-0.045  Sum_probs=66.6

Q ss_pred             cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHh
Q 038303          348 MQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFA  425 (461)
Q Consensus       348 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  425 (461)
                      ...|..+..+|.+.|++++|+..+++. ...| +...|..+..+|...|++++|+..|+++++..|.+..++..+..++.
T Consensus       317 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~  396 (457)
T 1kt0_A          317 LAAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQK  396 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            356677777888888888888888777 2223 45567777777888888888888888888888888888888888888


Q ss_pred             ccCChhhHHH-HHHHHH
Q 038303          426 GADRWEDTNK-IRDEIR  441 (461)
Q Consensus       426 ~~g~~~~A~~-~~~~m~  441 (461)
                      +.|++++|.+ .+++|.
T Consensus       397 ~~~~~~~a~~~~~~~~f  413 (457)
T 1kt0_A          397 KAKEHNERDRRIYANMF  413 (457)
T ss_dssp             HHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            8888877653 444443

>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=98.27  E-value=2.1e-06  Score=80.21  Aligned_cols=116  Identities=7%  Similarity=-0.093  Sum_probs=74.9

Q ss_pred             HHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHH
Q 038303          321 ACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEM  398 (461)
Q Consensus       321 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~  398 (461)
                      .+.+.|++++|++.|++..+.  .+.+...|..+..+|.+.|++++|.+.+++. ...| +...+..+..+|...|++++
T Consensus        15 ~~~~~g~~~~A~~~~~~Al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~~e   92 (477)
T 1wao_1           15 DYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFRA   92 (477)
T ss_dssp             STTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHH
Confidence            344566677777776666651  2334566666677777777777777777666 3333 34456666666777788888


Q ss_pred             HHHHHHHHhhcCCCChhHHHHHHHH--HhccCChhhHHHHHH
Q 038303          399 FDRIRQDLVNKKGVSVGTFALMSNT--FAGADRWEDTNKIRD  438 (461)
Q Consensus       399 a~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~A~~~~~  438 (461)
                      |+..++++.+..|.+..++..+..+  +.+.|++++|.+.++
T Consensus        93 A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           93 ALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            8888888777777777777777766  777788888887776

>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=98.27  E-value=2.5e-06  Score=69.42  Aligned_cols=168  Identities=8%  Similarity=-0.118  Sum_probs=89.8

Q ss_pred             HHHHHHHcCChhhHHHHHhcCCC---CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccch
Q 038303          149 ILDFYIRCGSLASCGYLFVKMPK---RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISA  225 (461)
Q Consensus       149 l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~  225 (461)
                      .+......|+++++.+.++...+   .....+..+...+...|++++|...|++..+.   .|+...+...        .
T Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~---~~~~~~~~~~--------~   78 (198)
T 2fbn_A           10 HSSGRENLYFQGAKKSIYDYTDEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDF---FIHTEEWDDQ--------I   78 (198)
T ss_dssp             ------------CCCSGGGCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TTTCTTCCCH--------H
T ss_pred             hhhhhhhhhhccccCchhhCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH---Hhcccccchh--------h
Confidence            34445556677777776665443   24456777888899999999999999998874   2221110000        0


Q ss_pred             hhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccC---CChhhHHHHHHHHHhcCChHHHHHHHHH
Q 038303          226 LSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAY---KDKISWSTVISGLAMNGCGRQALQLFSL  302 (461)
Q Consensus       226 ~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~  302 (461)
                      ...-   ..        .....++..+..+|.+.|++++|...++...+   .+...+..+..++...|++++|...|++
T Consensus        79 ~~~~---~~--------~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~  147 (198)
T 2fbn_A           79 LLDK---KK--------NIEISCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYK  147 (198)
T ss_dssp             HHHH---HH--------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHH---HH--------HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHH
Confidence            0000   00        00123455666777777777777777766552   3556677777777778888888888877


Q ss_pred             HHhcCCCCCHhHHHHHHHHHHcCCChHHHH-HHHHHhH
Q 038303          303 MIINAVFPDDVTFIALISACSHGGLVDQGL-ILFKAMS  339 (461)
Q Consensus       303 m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~-~~~~~~~  339 (461)
                      ..+... -+...+..+..++...++.+++. ..+..+.
T Consensus       148 al~~~p-~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f  184 (198)
T 2fbn_A          148 AASLNP-NNLDIRNSYELCVNKLKEARKKDKLTFGGMF  184 (198)
T ss_dssp             HHHHST-TCHHHHHHHHHHHHHHHHHHC----------
T ss_pred             HHHHCC-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            776422 13455666666666666666555 4444443

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.23  E-value=6.2e-06  Score=64.58  Aligned_cols=102  Identities=13%  Similarity=-0.025  Sum_probs=53.5

Q ss_pred             hHHHHHHHHHHcCCChHHHHHHHHHhHhhcC----------------CCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-C
Q 038303          313 VTFIALISACSHGGLVDQGLILFKAMSTVYE----------------IVPQMQHYACVVDMYGRAGLLEEAEAFIREM-P  375 (461)
Q Consensus       313 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~----------------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~  375 (461)
                      ..+......+.+.|++++|+..|........                .+.+...|..+..+|.+.|++++|...+++. .
T Consensus        12 ~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~   91 (162)
T 3rkv_A           12 EALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLK   91 (162)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHh
Confidence            4556666667777777777777777665100                0111234444555555555555555555544 2


Q ss_pred             CCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCh
Q 038303          376 IEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSV  414 (461)
Q Consensus       376 ~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  414 (461)
                      ..| +...|..+..++...|++++|...++++.+..|.+.
T Consensus        92 ~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~~  131 (162)
T 3rkv_A           92 REETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAAA  131 (162)
T ss_dssp             HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGH
T ss_pred             cCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCCH
Confidence            222 233444444445555555555555555555555444

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.22  E-value=2.2e-05  Score=58.52  Aligned_cols=88  Identities=13%  Similarity=-0.066  Sum_probs=38.7

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCCCCCH---hHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCC---cchHHHHHHH
Q 038303          284 ISGLAMNGCGRQALQLFSLMIINAVFPDD---VTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQ---MQHYACVVDM  357 (461)
Q Consensus       284 ~~~~~~~~~~~~a~~~~~~m~~~g~~p~~---~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~  357 (461)
                      ...+...|++++|...|++..+.... +.   ..+..+..++...|++++|...|+.+...  .+.+   ...+..+..+
T Consensus         9 a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~~~~la~~   85 (129)
T 2xev_A            9 AFDALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSR--YPTHDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTSTTHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHH--CCCCcccHHHHHHHHHH
Confidence            34444455555555555554443211 11   23444444444555555555555544441  1111   2334444444


Q ss_pred             HhhcCCHHHHHHHHHhC
Q 038303          358 YGRAGLLEEAEAFIREM  374 (461)
Q Consensus       358 ~~~~g~~~~A~~~~~~~  374 (461)
                      +.+.|++++|...|+++
T Consensus        86 ~~~~g~~~~A~~~~~~~  102 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQV  102 (129)
T ss_dssp             HHHTTCHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHH
Confidence            55555555555555444

>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=98.20  E-value=1e-05  Score=75.54  Aligned_cols=118  Identities=14%  Similarity=-0.003  Sum_probs=81.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHHccC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCCh
Q 038303          252 VINMYVKCGDVGIAIQVFNMLAY---KDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLV  328 (461)
Q Consensus       252 li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~  328 (461)
                      +...+.+.|++++|.+.|++..+   .+...|..+..++.+.|++++|++.+++..+... .+...+..+..+|...|++
T Consensus        12 lg~~~~~~g~~~~A~~~~~~Al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p-~~~~~~~~lg~~~~~~g~~   90 (477)
T 1wao_1           12 QANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDK-KYIKGYYRRAASNMALGKF   90 (477)
T ss_dssp             SSSSTTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCT-TCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCH
Confidence            34456677888888888887652   3567788888888888888888888888887532 2456777788888888888


Q ss_pred             HHHHHHHHHhHhhcCCCCCcchHHHHHHH--HhhcCCHHHHHHHHH
Q 038303          329 DQGLILFKAMSTVYEIVPQMQHYACVVDM--YGRAGLLEEAEAFIR  372 (461)
Q Consensus       329 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~A~~~~~  372 (461)
                      ++|.+.|++..+.  .+.+...+..+..+  +.+.|++++|.+.++
T Consensus        91 ~eA~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           91 RAALRDYETVVKV--KPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHH--STTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            8888888888762  22234455555555  777788888888887

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.20  E-value=1.3e-05  Score=62.32  Aligned_cols=129  Identities=14%  Similarity=0.031  Sum_probs=67.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCC-CC----HhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCC----cch
Q 038303          280 WSTVISGLAMNGCGRQALQLFSLMIINAVF-PD----DVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQ----MQH  350 (461)
Q Consensus       280 ~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~-p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~  350 (461)
                      +..+...+...|++++|...+++..+.... ++    ..++..+...+...|++++|...+++......-.++    ...
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            344444455555555555555554432100 01    124455555566666666666666655431111111    334


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC-------CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhh
Q 038303          351 YACVVDMYGRAGLLEEAEAFIREM-------PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVN  408 (461)
Q Consensus       351 ~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  408 (461)
                      +..+...+...|++++|...+++.       +..+ ....+..+...+...|++++|...+++..+
T Consensus        92 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           92 CYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            555666666677777776666655       1111 122455556667777888888888777765

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.17  E-value=4.9e-06  Score=74.01  Aligned_cols=149  Identities=8%  Similarity=-0.120  Sum_probs=76.7

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHH
Q 038303          277 KISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVD  356 (461)
Q Consensus       277 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  356 (461)
                      ...+..+...+.+.|++++|...|++..+.  .|+...       +...++.+++...+   .        ...|..+..
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l---~--------~~~~~nla~  238 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAV---K--------NPCHLNIAA  238 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHH---H--------THHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHH---H--------HHHHHHHHH
Confidence            345666777777888888888888887763  344331       22233333332221   1        126677888


Q ss_pred             HHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHH-hccCChhhH
Q 038303          357 MYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTF-AGADRWEDT  433 (461)
Q Consensus       357 ~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~~~~A  433 (461)
                      +|.+.|++++|...+++. ...| +...+..+..+|...|++++|+..|+++.+..|.+..++..+.... ...+..+++
T Consensus       239 ~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a  318 (338)
T 2if4_A          239 CLIKLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQ  318 (338)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            888888888888888877 3333 5567777888888889999999999998888888888888887774 345667778


Q ss_pred             HHHHHHHHHcCC
Q 038303          434 NKIRDEIRRMGL  445 (461)
Q Consensus       434 ~~~~~~m~~~g~  445 (461)
                      ...+.+|.....
T Consensus       319 ~~~~~~~l~~~p  330 (338)
T 2if4_A          319 KEMYKGIFKGKD  330 (338)
T ss_dssp             ------------
T ss_pred             HHHHHHhhCCCC
Confidence            888888866543

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=98.16  E-value=0.00066  Score=59.20  Aligned_cols=179  Identities=7%  Similarity=-0.057  Sum_probs=129.2

Q ss_pred             HHHHHHHHHHccC---CChhhHHHHHHHHHhcC--ChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCC-hHHHHHHH
Q 038303          262 VGIAIQVFNMLAY---KDKISWSTVISGLAMNG--CGRQALQLFSLMIINAVFPDDVTFIALISACSHGGL-VDQGLILF  335 (461)
Q Consensus       262 ~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~--~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~-~~~a~~~~  335 (461)
                      +++++.+++.+..   .+..+|+.-...+.+.+  .+++++++++++.+...+ |...|+.-...+...|. ++++++.+
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            5677778877763   36677777777777777  489999999999987544 67788777777777888 58999999


Q ss_pred             HHhHhhcCCCCCcchHHHHHHHHhhc--------------CCHHHHHHHHHhC-CC-CchhhHHHHHHHHHHhc------
Q 038303          336 KAMSTVYEIVPQMQHYACVVDMYGRA--------------GLLEEAEAFIREM-PI-EAEWSVWGALLNACRIH------  393 (461)
Q Consensus       336 ~~~~~~~~~~~~~~~~~~l~~~~~~~--------------g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~------  393 (461)
                      +.+.+  ..+-|...|+.....+.+.              +.++++++.+.+. .. +-|...|+-+-..+...      
T Consensus       169 ~~~I~--~~p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~ll~~~~~~~~~  246 (331)
T 3dss_A          169 DSLIT--RNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGAGSGRCEL  246 (331)
T ss_dssp             HHHHH--HCSCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHSSSCGGGC
T ss_pred             HHHHH--HCCCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccCcccc
Confidence            99988  3345666676665555544              4578888888887 33 34556666555554444      


Q ss_pred             -----CChHHHHHHHHHHhhcCCCChhHHHHHHH---HHhccCChhhHHHHHHHHHHc
Q 038303          394 -----RNDEMFDRIRQDLVNKKGVSVGTFALMSN---TFAGADRWEDTNKIRDEIRRM  443 (461)
Q Consensus       394 -----~~~~~a~~~~~~~~~~~~~~~~~~~~l~~---~~~~~g~~~~A~~~~~~m~~~  443 (461)
                           +.++++++.++++.+..|.+.-++..++.   .....|..+++...++++.+-
T Consensus       247 ~~~~~~~l~~el~~~~elle~~pd~~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~  304 (331)
T 3dss_A          247 SVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAV  304 (331)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHhhCcccchHHHHHHHHHHhhcccccHHHHHHHHHHHHHh
Confidence                 46889999999999999988655444433   223567888999999998764

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.14  E-value=8.4e-06  Score=75.71  Aligned_cols=126  Identities=11%  Similarity=0.009  Sum_probs=94.2

Q ss_pred             HHHcCCChHHHHHHHHHhHhhc--CCCC----CcchHHHHHHHHhhcCCHHHHHHHHHhC---------CCCchhh-HHH
Q 038303          321 ACSHGGLVDQGLILFKAMSTVY--EIVP----QMQHYACVVDMYGRAGLLEEAEAFIREM---------PIEAEWS-VWG  384 (461)
Q Consensus       321 ~~~~~~~~~~a~~~~~~~~~~~--~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~---------~~~p~~~-~~~  384 (461)
                      .+...|++++|+.++++..+..  -+.|    ...+++.|...|...|++++|..++++.         +..|+.. +++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~  397 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVM  397 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            3557889999988887775521  1222    2567888888999999999998888776         3445544 678


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhh-----cCCCC---hhHHHHHHHHHhccCChhhHHHHHHHHHHcCCc
Q 038303          385 ALLNACRIHRNDEMFDRIRQDLVN-----KKGVS---VGTFALMSNTFAGADRWEDTNKIRDEIRRMGLK  446 (461)
Q Consensus       385 ~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~  446 (461)
                      .|...|...|++++|+.+++++.+     ..|..   ..+...+..++...|++++|..++.++++.-.+
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~~~~  467 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREAALN  467 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            888889999999999999998885     23333   445667888888999999999999999775433

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.13  E-value=3.9e-06  Score=61.59  Aligned_cols=89  Identities=10%  Similarity=-0.030  Sum_probs=41.1

Q ss_pred             CChHHHHHHHHHhHhhcC--CCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHH
Q 038303          326 GLVDQGLILFKAMSTVYE--IVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDR  401 (461)
Q Consensus       326 ~~~~~a~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~  401 (461)
                      |++++|+..|++..+ .+  -+.+...+..+..+|.+.|++++|...|++. ...| +...+..+..++...|++++|+.
T Consensus         4 g~~~~A~~~~~~al~-~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~   82 (117)
T 3k9i_A            4 GLEAQAVPYYEKAIA-SGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGVE   82 (117)
T ss_dssp             ---CCCHHHHHHHHS-SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             CcHHHHHHHHHHHHH-cCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHHH
Confidence            444555555554444 11  1122344444555555555555555555554 2222 23344444444555555556655


Q ss_pred             HHHHHhhcCCCChh
Q 038303          402 IRQDLVNKKGVSVG  415 (461)
Q Consensus       402 ~~~~~~~~~~~~~~  415 (461)
                      .+++..+..|.++.
T Consensus        83 ~~~~al~~~p~~~~   96 (117)
T 3k9i_A           83 LLLKIIAETSDDET   96 (117)
T ss_dssp             HHHHHHHHHCCCHH
T ss_pred             HHHHHHHhCCCcHH
Confidence            55555555554443

>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=98.13  E-value=1.7e-05  Score=71.41  Aligned_cols=90  Identities=7%  Similarity=-0.153  Sum_probs=76.3

Q ss_pred             CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHH
Q 038303          347 QMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTF  424 (461)
Q Consensus       347 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  424 (461)
                      +...|..+..+|.+.|++++|...+++. ...| +...+..+..+|...|++++|+..++++.+..|.+...+..+..++
T Consensus       272 ~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~  351 (370)
T 1ihg_A          272 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVK  351 (370)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            3567788888999999999999999988 5445 4557777888899999999999999999999999999999999999


Q ss_pred             hccCChhhHHHH
Q 038303          425 AGADRWEDTNKI  436 (461)
Q Consensus       425 ~~~g~~~~A~~~  436 (461)
                      .+.++.+++.+.
T Consensus       352 ~~~~~~~~a~k~  363 (370)
T 1ihg_A          352 QKIKAQKDKEKA  363 (370)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHH
Confidence            988888877653

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.11  E-value=1.6e-05  Score=58.67  Aligned_cols=93  Identities=8%  Similarity=-0.067  Sum_probs=44.4

Q ss_pred             HHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCC
Q 038303          318 LISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRN  395 (461)
Q Consensus       318 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~  395 (461)
                      +...+.+.|++++|...|+...+  .-+.+...|..+..++...|++++|+..|++. ...| +...+..+..++...|+
T Consensus        23 ~g~~~~~~g~~~~A~~~~~~al~--~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~~g~  100 (121)
T 1hxi_A           23 EGLSMLKLANLAEAALAFEAVCQ--KEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHN  100 (121)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC
Confidence            33444455555555555555544  12223444555555555555555555555554 2222 23344444445555555


Q ss_pred             hHHHHHHHHHHhhcCCC
Q 038303          396 DEMFDRIRQDLVNKKGV  412 (461)
Q Consensus       396 ~~~a~~~~~~~~~~~~~  412 (461)
                      +++|+..++++++..|.
T Consensus       101 ~~~A~~~~~~al~~~P~  117 (121)
T 1hxi_A          101 ANAALASLRAWLLSQPQ  117 (121)
T ss_dssp             HHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHHHHhCcC
Confidence            55555555555554443

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.09  E-value=1.6e-05  Score=62.17  Aligned_cols=101  Identities=8%  Similarity=-0.088  Sum_probs=62.7

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhc--------CC--------CC-CHhHHHHHHHHHHcCCChHHHHHHHHHhHh
Q 038303          278 ISWSTVISGLAMNGCGRQALQLFSLMIIN--------AV--------FP-DDVTFIALISACSHGGLVDQGLILFKAMST  340 (461)
Q Consensus       278 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~--------g~--------~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  340 (461)
                      ..+......+.+.|++++|+..|.+..+.        ..        .| +...|..+..+|.+.|++++|+..++...+
T Consensus        12 ~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~   91 (162)
T 3rkv_A           12 EALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLK   91 (162)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHh
Confidence            34555666677777777777777776653        00        11 124566666667777777777777777666


Q ss_pred             hcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCchh
Q 038303          341 VYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAEW  380 (461)
Q Consensus       341 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~  380 (461)
                        --+.+...|..+..+|...|++++|...|++. ...|+.
T Consensus        92 --~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~  130 (162)
T 3rkv_A           92 --REETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAA  130 (162)
T ss_dssp             --HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGG
T ss_pred             --cCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCC
Confidence              12344566666777777777777777777766 444443

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.03  E-value=2e-05  Score=69.98  Aligned_cols=151  Identities=9%  Similarity=-0.039  Sum_probs=80.4

Q ss_pred             chHHHHHHHHHHhcCCHHHHHHHHHHccCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcC
Q 038303          246 NLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHG  325 (461)
Q Consensus       246 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  325 (461)
                      ...+..+...+.+.|++++|...|++....+....     .+...++.+++...+.          ...|..+..+|.+.
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            34567778888899999999999988763222111     1223334444433221          23677788888899


Q ss_pred             CChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCchhh-HHHHHHHH-HHhcCChHHHHHH
Q 038303          326 GLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAEWS-VWGALLNA-CRIHRNDEMFDRI  402 (461)
Q Consensus       326 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~-~~~~l~~~-~~~~~~~~~a~~~  402 (461)
                      |++++|+..++...+  ..+.+...|..+..+|...|++++|...|++. ...|+.. .+..+... ....+..+.+...
T Consensus       244 g~~~~A~~~~~~al~--~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a~~~  321 (338)
T 2if4_A          244 KRYDEAIGHCNIVLT--EEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQKEM  321 (338)
T ss_dssp             TCCHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-----------------------------
T ss_pred             CCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999988877  23346778888889999999999999999988 5555433 33334333 3455677788888


Q ss_pred             HHHHhhcCCCC
Q 038303          403 RQDLVNKKGVS  413 (461)
Q Consensus       403 ~~~~~~~~~~~  413 (461)
                      |+++....|.+
T Consensus       322 ~~~~l~~~p~~  332 (338)
T 2if4_A          322 YKGIFKGKDEG  332 (338)
T ss_dssp             -----------
T ss_pred             HHHhhCCCCCC
Confidence            88887766544

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.00  E-value=3.2e-06  Score=61.21  Aligned_cols=92  Identities=9%  Similarity=-0.104  Sum_probs=65.7

Q ss_pred             CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCC------hhHHH
Q 038303          347 QMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVS------VGTFA  418 (461)
Q Consensus       347 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~------~~~~~  418 (461)
                      +...+..+...+.+.|++++|...+++. ...| +...+..+..++...|++++|+..++++.+..|.+      ...+.
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~   82 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEHVAIRSKLQY   82 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTSHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccHHHHHHHHHH
Confidence            3445666677777777777777777776 2223 44566667777888888888888888888877777      67777


Q ss_pred             HHHHHHhccCChhhHHHHHH
Q 038303          419 LMSNTFAGADRWEDTNKIRD  438 (461)
Q Consensus       419 ~l~~~~~~~g~~~~A~~~~~  438 (461)
                      .++.++...|++++|...++
T Consensus        83 ~~~~~~~~~~~~~~a~~~~~  102 (111)
T 2l6j_A           83 RLELAQGAVGSVQIPVVEVD  102 (111)
T ss_dssp             HHHHHHHHHHCCCCCSSSSS
T ss_pred             HHHHHHHHHHhHhhhHhHHH
Confidence            78888887777777665543

>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=98.00  E-value=0.0005  Score=65.44  Aligned_cols=172  Identities=9%  Similarity=-0.061  Sum_probs=132.1

Q ss_pred             hcCC-HHHHHHHHHHccC--C-ChhhHHHHHHHHHhcCC----------hHHHHHHHHHHHhcCCCCCHhHHHHHHHHHH
Q 038303          258 KCGD-VGIAIQVFNMLAY--K-DKISWSTVISGLAMNGC----------GRQALQLFSLMIINAVFPDDVTFIALISACS  323 (461)
Q Consensus       258 ~~g~-~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~----------~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~  323 (461)
                      +.|. -++|.+.++.+..  | +...|+.--..+...|+          ++++++.++++.+...+ +..+|..-...+.
T Consensus        40 ~~~~~~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK-~y~aW~hR~w~l~  118 (567)
T 1dce_A           40 QAGELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLS  118 (567)
T ss_dssp             HTTCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence            3444 4567888888774  3 44567666666666666          89999999999986544 6678888777888


Q ss_pred             cCC--ChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcC-CHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhc-----
Q 038303          324 HGG--LVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAG-LLEEAEAFIREM-PIEA-EWSVWGALLNACRIH-----  393 (461)
Q Consensus       324 ~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~-----  393 (461)
                      +.+  +++++++.++++.+  --+-+...|+.-...+.+.| .++++++.++++ ...| +...|+.....+.+.     
T Consensus       119 ~l~~~~~~~el~~~~k~l~--~d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~  196 (567)
T 1dce_A          119 RLPEPNWARELELCARFLE--ADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPD  196 (567)
T ss_dssp             TCSSCCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCC
T ss_pred             HcccccHHHHHHHHHHHHh--hccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhccccc
Confidence            888  66999999999988  23456677777777777888 899999999988 4444 556677666665442     


Q ss_pred             ---------CChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhh
Q 038303          394 ---------RNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWED  432 (461)
Q Consensus       394 ---------~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  432 (461)
                               +.++++.+.+++++...|.+..+|..+...+.+.++.++
T Consensus       197 ~~~~~~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          197 SGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             SSSCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCCSC
T ss_pred             ccccccccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhcCCCccc
Confidence                     567999999999999999999999999999999888655

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.88  E-value=5.4e-05  Score=55.13  Aligned_cols=79  Identities=10%  Similarity=0.011  Sum_probs=43.1

Q ss_pred             HHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHh
Q 038303          330 QGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLV  407 (461)
Q Consensus       330 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  407 (461)
                      .|+..|++..+  ..+.+...+..+...|...|++++|...+++. ...| +...|..+..++...|++++|...++++.
T Consensus         3 ~a~~~~~~al~--~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLA--QGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHT--TTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHH--hCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            44555555544  22334555556666666666666666666655 2222 23345555555666666666666666665


Q ss_pred             hcC
Q 038303          408 NKK  410 (461)
Q Consensus       408 ~~~  410 (461)
                      +..
T Consensus        81 ~~~   83 (115)
T 2kat_A           81 AAA   83 (115)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            543

>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=97.86  E-value=0.00019  Score=66.68  Aligned_cols=121  Identities=7%  Similarity=-0.119  Sum_probs=72.7

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC--------------HhHHHHHHHHHHcCCChHHHHHHHHHhHhhcC
Q 038303          278 ISWSTVISGLAMNGCGRQALQLFSLMIINAVFPD--------------DVTFIALISACSHGGLVDQGLILFKAMSTVYE  343 (461)
Q Consensus       278 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~--------------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  343 (461)
                      ..|..+...+.+.|++++|...|++..+......              ...|..+..+|.+.|++++|+..+++..+  -
T Consensus       269 ~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~--~  346 (457)
T 1kt0_A          269 AIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALG--L  346 (457)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--H
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHh--c
Confidence            3455555666666666666666666655321111              35666666777777777777777777766  2


Q ss_pred             CCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCch-hhHHHHHHHHHHhcCChHHHH
Q 038303          344 IVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAE-WSVWGALLNACRIHRNDEMFD  400 (461)
Q Consensus       344 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~~~~~~a~  400 (461)
                      .+.+...|..+..+|...|++++|...|++. ...|+ ...+..+...+...++.+++.
T Consensus       347 ~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~  405 (457)
T 1kt0_A          347 DSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQKKAKEHNERD  405 (457)
T ss_dssp             STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHHHHHHHHHHH
T ss_pred             CCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            2345666667777777777777777777776 44443 335555555566666666554

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.86  E-value=7.1e-05  Score=52.88  Aligned_cols=64  Identities=19%  Similarity=0.107  Sum_probs=43.9

Q ss_pred             hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHH
Q 038303          379 EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRR  442 (461)
Q Consensus       379 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  442 (461)
                      +...+..+...+...|++++|+..|+++.+..|.++.+|..++.+|.+.|++++|.+.+++..+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3445555666667777777777777777777777777777777777777777777777766654

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.82  E-value=9.1e-05  Score=51.01  Aligned_cols=79  Identities=13%  Similarity=0.108  Sum_probs=48.8

Q ss_pred             chHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhc
Q 038303          349 QHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAG  426 (461)
Q Consensus       349 ~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  426 (461)
                      ..+..+...+...|++++|...+++. ...| +...+..+...+...|++++|...++++.+..|.+..++..++.++.+
T Consensus        10 ~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~   89 (91)
T 1na3_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQK   89 (91)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHh
Confidence            44555556666666666666666655 2222 334555566666677777777777777777667777777766666654


Q ss_pred             c
Q 038303          427 A  427 (461)
Q Consensus       427 ~  427 (461)
                      .
T Consensus        90 ~   90 (91)
T 1na3_A           90 Q   90 (91)
T ss_dssp             H
T ss_pred             c
Confidence            3

>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=97.78  E-value=0.00029  Score=53.18  Aligned_cols=111  Identities=4%  Similarity=-0.112  Sum_probs=60.8

Q ss_pred             ChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCchhhHHHHHHHHHHh----cCChHHHHHH
Q 038303          327 LVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRI----HRNDEMFDRI  402 (461)
Q Consensus       327 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~  402 (461)
                      ++++|.+.|++..+ .+ .|..  .  |...|...+..++|.++|++.-...+...+..+...|..    .++.++|.+.
T Consensus        10 d~~~A~~~~~~aa~-~g-~~~a--~--lg~~y~~g~~~~~A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~   83 (138)
T 1klx_A           10 DLKKAIQYYVKACE-LN-EMFG--C--LSLVSNSQINKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQY   83 (138)
T ss_dssp             HHHHHHHHHHHHHH-TT-CTTH--H--HHHHTCTTSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHH
T ss_pred             CHHHHHHHHHHHHc-CC-CHhh--h--HHHHHHcCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCCccHHHHHHH
Confidence            34455555555544 23 1111  1  444444445555555555555222334444444444544    5666666666


Q ss_pred             HHHHhhcCCCChhHHHHHHHHHhc----cCChhhHHHHHHHHHHcCC
Q 038303          403 RQDLVNKKGVSVGTFALMSNTFAG----ADRWEDTNKIRDEIRRMGL  445 (461)
Q Consensus       403 ~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~~g~  445 (461)
                      |++..+.  .++..+..|+..|..    .+++++|.+.+++..+.|.
T Consensus        84 ~~~Aa~~--g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           84 YSKACGL--NDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHT--TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHcC--CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            6666654  345566677777766    6777777777777766654

>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=97.78  E-value=0.00017  Score=64.82  Aligned_cols=91  Identities=10%  Similarity=-0.065  Sum_probs=41.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHccC----------------C---ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCC
Q 038303          249 GNAVINMYVKCGDVGIAIQVFNMLAY----------------K---DKISWSTVISGLAMNGCGRQALQLFSLMIINAVF  309 (461)
Q Consensus       249 ~~~li~~~~~~g~~~~a~~~~~~~~~----------------~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~  309 (461)
                      +..+...+.+.|++++|...|++..+                .   +...|..+..++.+.|++++|++.+++..+... 
T Consensus       226 ~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p-  304 (370)
T 1ihg_A          226 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDP-  304 (370)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT-
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCc-
Confidence            34455566666666666666655442                0   123344444444444444444444444444211 


Q ss_pred             CCHhHHHHHHHHHHcCCChHHHHHHHHHhHh
Q 038303          310 PDDVTFIALISACSHGGLVDQGLILFKAMST  340 (461)
Q Consensus       310 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  340 (461)
                      .+...+..+..+|...|++++|+..|++..+
T Consensus       305 ~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~  335 (370)
T 1ihg_A          305 SNTKALYRRAQGWQGLKEYDQALADLKKAQE  335 (370)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            1223344444444444444444444444433

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.73  E-value=0.00025  Score=65.94  Aligned_cols=123  Identities=9%  Similarity=-0.107  Sum_probs=84.5

Q ss_pred             HHHhcCChHHHHHHHHHHHhc---CCCCC----HhHHHHHHHHHHcCCChHHHHHHHHHhHhhc--CCCC----CcchHH
Q 038303          286 GLAMNGCGRQALQLFSLMIIN---AVFPD----DVTFIALISACSHGGLVDQGLILFKAMSTVY--EIVP----QMQHYA  352 (461)
Q Consensus       286 ~~~~~~~~~~a~~~~~~m~~~---g~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~----~~~~~~  352 (461)
                      .+...|++++|+.++++..+.   -+-|+    ..+++.|...|...|++++|+.++++.....  -+.|    ...+++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~  397 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVM  397 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            355678888888887776542   12222    2567788888888888888888877765411  1112    246678


Q ss_pred             HHHHHHhhcCCHHHHHHHHHhC---------CCCchhhH-HHHHHHHHHhcCChHHHHHHHHHHhh
Q 038303          353 CVVDMYGRAGLLEEAEAFIREM---------PIEAEWSV-WGALLNACRIHRNDEMFDRIRQDLVN  408 (461)
Q Consensus       353 ~l~~~~~~~g~~~~A~~~~~~~---------~~~p~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~  408 (461)
                      .|...|...|++++|+.++++.         +..|+... .+.+-.++...+.+++|+.++.++++
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8888888889998888888766         33455443 34445557788889999999988876

>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=97.72  E-value=8e-05  Score=56.84  Aligned_cols=67  Identities=10%  Similarity=-0.047  Sum_probs=44.9

Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHhC-CC-------Cch-hhHH----HHHHHHHHhcCChHHHHHHHHHHhhcCCCChhH
Q 038303          350 HYACVVDMYGRAGLLEEAEAFIREM-PI-------EAE-WSVW----GALLNACRIHRNDEMFDRIRQDLVNKKGVSVGT  416 (461)
Q Consensus       350 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~-------~p~-~~~~----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  416 (461)
                      .|..+..++.+.|++++|+..+++. .+       .|+ ...|    .....++...|++++|+..|++.++..|.+...
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~  138 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGE  138 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHH
Confidence            5566666666666666666666555 33       554 3456    677777888888888888888888776665433

>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=97.68  E-value=0.00095  Score=63.55  Aligned_cols=151  Identities=9%  Similarity=-0.022  Sum_probs=118.9

Q ss_pred             CChHHHHHHHHHHHhcCCCCCH-hHHHHHHHHHHcCCC----------hHHHHHHHHHhHhhcCCCCCcchHHHHHHHHh
Q 038303          291 GCGRQALQLFSLMIINAVFPDD-VTFIALISACSHGGL----------VDQGLILFKAMSTVYEIVPQMQHYACVVDMYG  359 (461)
Q Consensus       291 ~~~~~a~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  359 (461)
                      ...++|++.++++.+.  .|+. ..|+.--..+...|+          +++++++++.+.+  ..+-+...|..-...+.
T Consensus        43 ~~~eeal~~~~~~l~~--nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~--~~pK~y~aW~hR~w~l~  118 (567)
T 1dce_A           43 ELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLR--VNPKSYGTWHHRCWLLS  118 (567)
T ss_dssp             CCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHH
Confidence            3456789999999985  4444 556655555555555          8999999999988  34556777777777888


Q ss_pred             hcC--CHHHHHHHHHhC-C-CCchhhHHHHHHHHHHhcC-ChHHHHHHHHHHhhcCCCChhHHHHHHHHHhcc-------
Q 038303          360 RAG--LLEEAEAFIREM-P-IEAEWSVWGALLNACRIHR-NDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGA-------  427 (461)
Q Consensus       360 ~~g--~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~-------  427 (461)
                      +.|  +++++++.++++ . ...+...|+.-...+.+.| .++++.+.++++++..|.+..+|+....++.+.       
T Consensus       119 ~l~~~~~~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~  198 (567)
T 1dce_A          119 RLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSG  198 (567)
T ss_dssp             TCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSS
T ss_pred             HcccccHHHHHHHHHHHHhhccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhccccccc
Confidence            888  779999999999 3 2346677877777777788 899999999999999999999999999888763       


Q ss_pred             -------CChhhHHHHHHHHHHcCC
Q 038303          428 -------DRWEDTNKIRDEIRRMGL  445 (461)
Q Consensus       428 -------g~~~~A~~~~~~m~~~g~  445 (461)
                             ++++++++.+++......
T Consensus       199 ~~~~~~~~~~~eel~~~~~ai~~~P  223 (567)
T 1dce_A          199 PQGRLPENVLLKELELVQNAFFTDP  223 (567)
T ss_dssp             SCCSSCHHHHHHHHHHHHHHHHHCS
T ss_pred             ccccccHHHHHHHHHHHHHHHhhCC
Confidence                   667999999988877543

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=97.66  E-value=0.0074  Score=43.63  Aligned_cols=141  Identities=9%  Similarity=0.099  Sum_probs=105.1

Q ss_pred             HHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHH
Q 038303          287 LAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEE  366 (461)
Q Consensus       287 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  366 (461)
                      +.-.|..++..++..+....   .+..-|+.+|--....-+-+-..++++.+-+.+.+.              .+|+...
T Consensus        17 ~ildG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFDis--------------~C~NlKr   79 (172)
T 1wy6_A           17 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLD--------------KCQNLKS   79 (172)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGG--------------GCSCTHH
T ss_pred             HHHhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhhcCcH--------------hhhcHHH
Confidence            44568888888888888764   355677777776667777777777777776533332              2344444


Q ss_pred             HHHHHHhCCCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcCCc
Q 038303          367 AEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGLK  446 (461)
Q Consensus       367 A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~  446 (461)
                      ...-+-.++  .+.......+......|.-+....+...+....++++.....++.+|.+.|+..+|.+++.+.-++|++
T Consensus        80 Vi~C~~~~n--~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           80 VVECGVINN--TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             HHHHHHHTT--CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHhc--chHHHHHHHHHHHHHhccHhHHHHHHHHHhccCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            444444442  234456667788889999999999999987788999999999999999999999999999999999986

>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=97.62  E-value=6.5e-05  Score=57.21  Aligned_cols=84  Identities=4%  Similarity=-0.132  Sum_probs=56.5

Q ss_pred             cCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCC----------hHHHHHHHHHHhhcCCCChhHHHHHHHHHhccC
Q 038303          361 AGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRN----------DEMFDRIRQDLVNKKGVSVGTFALMSNTFAGAD  428 (461)
Q Consensus       361 ~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  428 (461)
                      .+.+++|.+.+++. ...| +...|..+..++...++          +++|+..|+++++..|.+..+|..++.+|...|
T Consensus        15 ~~~feeA~~~~~~Ai~l~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~lg   94 (158)
T 1zu2_A           15 ILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSFA   94 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhc
Confidence            34455555555554 2222 33344444444444433          568888999998888888889999999988774


Q ss_pred             -----------ChhhHHHHHHHHHHcC
Q 038303          429 -----------RWEDTNKIRDEIRRMG  444 (461)
Q Consensus       429 -----------~~~~A~~~~~~m~~~g  444 (461)
                                 ++++|++.|++..+..
T Consensus        95 ~l~P~~~~a~g~~~eA~~~~~kAl~l~  121 (158)
T 1zu2_A           95 FLTPDETEAKHNFDLATQFFQQAVDEQ  121 (158)
T ss_dssp             HHCCCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             ccCcchhhhhccHHHHHHHHHHHHHhC
Confidence                       7889999998887754

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.61  E-value=0.0003  Score=50.46  Aligned_cols=68  Identities=4%  Similarity=-0.080  Sum_probs=61.3

Q ss_pred             chhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcCC
Q 038303          378 AEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGL  445 (461)
Q Consensus       378 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~  445 (461)
                      ++...+..+...+...|++++|+..++++.+..|.++.++..++.++.+.|++++|++.+++..+...
T Consensus         2 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p   69 (111)
T 2l6j_A            2 SQFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTS   69 (111)
T ss_dssp             THHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCS
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC
Confidence            34566777888899999999999999999999999999999999999999999999999999987543

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.61  E-value=0.00023  Score=51.62  Aligned_cols=77  Identities=9%  Similarity=-0.029  Sum_probs=46.9

Q ss_pred             HHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC
Q 038303          295 QALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM  374 (461)
Q Consensus       295 ~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  374 (461)
                      +|++.+++..+... .+...+..+...+...|++++|+..|++..+.  .+.+...|..+..+|...|++++|...|++.
T Consensus         3 ~a~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~a   79 (115)
T 2kat_A            3 AITERLEAMLAQGT-DNMLLRFTLGKTYAEHEQFDAALPHLRAALDF--DPTYSVAWKWLGKTLQGQGDRAGARQAWESG   79 (115)
T ss_dssp             CHHHHHHHHHTTTC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCC-CcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            45566666655422 24455666666666677777777777666651  2234556666666667777777777766665

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.54  E-value=0.00056  Score=47.26  Aligned_cols=69  Identities=6%  Similarity=-0.026  Sum_probs=56.6

Q ss_pred             chhhHHHHHHHHHHhcCC---hHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcCCc
Q 038303          378 AEWSVWGALLNACRIHRN---DEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGLK  446 (461)
Q Consensus       378 p~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~  446 (461)
                      ++...+..+..++...++   .++|..+++++.+.+|.++.+...++..+.+.|++++|+..|+++.+....
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~   75 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP   75 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            455566666666543333   789999999999999999999999999999999999999999999887655

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.49  E-value=0.00063  Score=46.57  Aligned_cols=66  Identities=9%  Similarity=0.084  Sum_probs=59.8

Q ss_pred             hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcC
Q 038303          379 EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMG  444 (461)
Q Consensus       379 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  444 (461)
                      +...+..+...+...|++++|+..+++..+..|.++.++..++.++.+.|++++|...+++..+..
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            345677777789999999999999999999999999999999999999999999999999998764

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=97.42  E-value=5.6e-05  Score=67.62  Aligned_cols=236  Identities=8%  Similarity=-0.037  Sum_probs=145.9

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCceeHHHHHHHHHcCCChHHHHHHHhcC-CCCCCchhHHHHHHHhcccch
Q 038303           45 IFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWTTIISGLSKCGFHKEAIDMFCGI-DVKPNANTLVSVLSACSSLVS  123 (461)
Q Consensus        45 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m-~~~p~~~~~~~ll~~~~~~~~  123 (461)
                      +..|+.|..+....++..+|++-|=+  ..|+..|..+|.+..+.|.+++-++.+.-. ...-++..=+.|+-+|++.++
T Consensus        54 p~VWs~LgkAqL~~~~v~eAIdsyIk--A~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~ke~~IDteLi~ayAk~~r  131 (624)
T 3lvg_A           54 PAVWSQLAKAQLQKGMVKEAIDSYIK--ADDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFALAKTNR  131 (624)
T ss_dssp             CCCSSSHHHHTTTSSSCTTTTTSSCC--CSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCCSTTTTHHHHHHHHTSCS
T ss_pred             ccHHHHHHHHHHccCchHHHHHHHHh--CCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccHHHHHHHHHhhCc
Confidence            44666666666666666666554422  245556777777777777777777766555 333344444566677777776


Q ss_pred             hHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCCC------------------------CchhHHHH
Q 038303          124 HKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPK------------------------RNVVSWTT  179 (461)
Q Consensus       124 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~------------------------~~~~~~~~  179 (461)
                      +.+.++++       -.||..-...+.+-|...|.++.|.-+|..+..                        .++.||-.
T Consensus       132 L~elEefl-------~~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWKe  204 (624)
T 3lvg_A          132 LAELEEFI-------NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWKE  204 (624)
T ss_dssp             SSTTTSTT-------SCCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHHH
T ss_pred             HHHHHHHH-------cCCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHH
Confidence            65544432       124555556667777777777777777766542                        36678888


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhc
Q 038303          180 MIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKC  259 (461)
Q Consensus       180 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~  259 (461)
                      +-.+|...+++.-|.-.--.++-..    |  ....++..|-+.|.+++.+.+++.-..  --......++-|.-.|++-
T Consensus       205 V~~ACvd~~EfrLAqicGLniIvha----d--eL~elv~~YE~~G~f~ELIsLlEaglg--lErAHmGmFTELaILYsKY  276 (624)
T 3lvg_A          205 VCFACVDGKEFRLAQMCGLHIVVHA----D--ELEELINYYQDRGYFEELITMLEAALG--LERAHMGMFTELAILYSKF  276 (624)
T ss_dssp             HTHHHHHSCTTTTTTHHHHHHHCCS----S--CCSGGGSSSSTTCCCTTSTTTHHHHTT--STTCCHHHHHHHHHHHHSS
T ss_pred             HHHHHhCchHHHHHHHhcchhcccH----H--HHHHHHHHHHhCCCHHHHHHHHHHHhC--CCchhHHHHHHHHHHHHhc
Confidence            8888888888877765555544322    1  122345557778888888877776532  1224455677777777765


Q ss_pred             CCHHHHHHHHHHccC----C-------ChhhHHHHHHHHHhcCChHHHHH
Q 038303          260 GDVGIAIQVFNMLAY----K-------DKISWSTVISGLAMNGCGRQALQ  298 (461)
Q Consensus       260 g~~~~a~~~~~~~~~----~-------~~~~~~~l~~~~~~~~~~~~a~~  298 (461)
                       +.++..+.++..-.    |       ....|.-++-.|++-.++|.|..
T Consensus       277 -~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~l  325 (624)
T 3lvg_A          277 -KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII  325 (624)
T ss_dssp             -CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHH
T ss_pred             -CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHH
Confidence             45555555544332    2       44568888888888888886654

>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=97.42  E-value=0.00039  Score=63.44  Aligned_cols=82  Identities=7%  Similarity=-0.035  Sum_probs=50.3

Q ss_pred             cCCHHHHHHHHHhC---------CCCchh-hHHHHHHHHHHhcCChHHHHHHHHHHhh-----cC---CCChhHHHHHHH
Q 038303          361 AGLLEEAEAFIREM---------PIEAEW-SVWGALLNACRIHRNDEMFDRIRQDLVN-----KK---GVSVGTFALMSN  422 (461)
Q Consensus       361 ~g~~~~A~~~~~~~---------~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~---~~~~~~~~~l~~  422 (461)
                      .|++++|+.++++.         +..|+. .+++.+..+|...|++++|+.+++++++     ..   |....+++.|+.
T Consensus       311 ~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~  390 (433)
T 3qww_A          311 YKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGR  390 (433)
T ss_dssp             TSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHH
Confidence            35566666665544         223333 3566666667777777777777777664     11   223446777777


Q ss_pred             HHhccCChhhHHHHHHHHHH
Q 038303          423 TFAGADRWEDTNKIRDEIRR  442 (461)
Q Consensus       423 ~~~~~g~~~~A~~~~~~m~~  442 (461)
                      .|...|++++|..++++..+
T Consensus       391 ~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHHH
Confidence            77777777777777776543

>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=97.39  E-value=0.00027  Score=53.84  Aligned_cols=96  Identities=7%  Similarity=-0.010  Sum_probs=65.3

Q ss_pred             ccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCCh----------hhHHHHHhcCCC---CchhHHHHHHHHHHh
Q 038303          120 SLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSL----------ASCGYLFVKMPK---RNVVSWTTMIGGYAE  186 (461)
Q Consensus       120 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~----------~~a~~~~~~~~~---~~~~~~~~li~~~~~  186 (461)
                      +.+.+++|.+.++..++..+. +...|+.+..++...+++          ++|+..|++..+   .+..+|..+..+|..
T Consensus        14 r~~~feeA~~~~~~Ai~l~P~-~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~   92 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKSNPL-DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTS   92 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHH
Confidence            445667777777777776555 666666666666666654          367777766654   345567777777776


Q ss_pred             c-----------CChHHHHHHHHHHHhcCCCCCChhhHHHHHHH
Q 038303          187 R-----------GFCKEAVSVFQEMEKTKEAEPNEATLVNVLSA  219 (461)
Q Consensus       187 ~-----------~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~  219 (461)
                      .           |++++|++.|++..+   +.|+...|...+..
T Consensus        93 lg~l~P~~~~a~g~~~eA~~~~~kAl~---l~P~~~~y~~al~~  133 (158)
T 1zu2_A           93 FAFLTPDETEAKHNFDLATQFFQQAVD---EQPDNTHYLKSLEM  133 (158)
T ss_dssp             HHHHCCCHHHHHHHHHHHHHHHHHHHH---HCTTCHHHHHHHHH
T ss_pred             hcccCcchhhhhccHHHHHHHHHHHHH---hCCCCHHHHHHHHH
Confidence            5           478999999999888   77877766555443

>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=97.35  E-value=0.0023  Score=48.10  Aligned_cols=111  Identities=8%  Similarity=-0.113  Sum_probs=77.8

Q ss_pred             CChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhh----cCCHHH
Q 038303          291 GCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGR----AGLLEE  366 (461)
Q Consensus       291 ~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~  366 (461)
                      +++++|++.|++..+.| .|+..    +...|...+.+++|.+.|++..+ .   -+...+..|...|..    .+++++
T Consensus         9 ~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~-~---g~~~a~~~Lg~~y~~G~g~~~d~~~   79 (138)
T 1klx_A            9 KDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACE-L---NSGNGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHH-T---TCHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             cCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHc-C---CCHHHHHHHHHHHHcCCCCCccHHH
Confidence            45677888888887776 22322    55566666777778888887777 2   345666677777776    778888


Q ss_pred             HHHHHHhCCCCchhhHHHHHHHHHHh----cCChHHHHHHHHHHhhcC
Q 038303          367 AEAFIREMPIEAEWSVWGALLNACRI----HRNDEMFDRIRQDLVNKK  410 (461)
Q Consensus       367 A~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~  410 (461)
                      |.++|++.-...+...+..+...|..    .++.++|...+++..+..
T Consensus        80 A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           80 AAQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            88888887323455566667667776    788888888888887754

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.30  E-value=0.0011  Score=46.66  Aligned_cols=63  Identities=11%  Similarity=0.003  Sum_probs=32.2

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHh
Q 038303          277 KISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMST  340 (461)
Q Consensus       277 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  340 (461)
                      ...+..+...+...|++++|+..|++..+.... +...|..+..+|...|++++|...|++..+
T Consensus         7 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            7 PFTRYALAQEHLKHDNASRALALFEELVETDPD-YVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            334445555555555555555555555553211 234455555555555555555555555443

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=97.27  E-value=1.1e-05  Score=72.15  Aligned_cols=213  Identities=11%  Similarity=0.102  Sum_probs=156.4

Q ss_pred             CceeHHHHHHHHHcCCChHHHHHHHhcCCCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHH
Q 038303           75 DVVSWTTIISGLSKCGFHKEAIDMFCGIDVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYI  154 (461)
Q Consensus        75 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  154 (461)
                      .+..|..|..+..+.+++.+|++.|-+.   -|+..|..++.++.+.|.++.-..++...++..-  ++.+-+.|+-+|+
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsyIkA---~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~k--e~~IDteLi~ayA  127 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSYIKA---DDPSSYMEVVQAANTSGNWEELVKYLQMARKKAR--ESYVETELIFALA  127 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSSCCC---SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCC--STTTTHHHHHHHH
T ss_pred             CccHHHHHHHHHHccCchHHHHHHHHhC---CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhc--ccccHHHHHHHHH
Confidence            4456999999999999999999988433   4667799999999999999999999888776633  4455578999999


Q ss_pred             HcCChhhHHHHHhcCCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHhc-------------------CCCCCChhhHHH
Q 038303          155 RCGSLASCGYLFVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKT-------------------KEAEPNEATLVN  215 (461)
Q Consensus       155 ~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-------------------~~~~~~~~~~~~  215 (461)
                      +.+++.+-++++..   |+..-...+..-|...|.++.|.-+|..+-..                   -.-..+..||..
T Consensus       128 k~~rL~elEefl~~---~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWKe  204 (624)
T 3lvg_A          128 KTNRLAELEEFING---PNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWKE  204 (624)
T ss_dssp             TSCSSSTTTSTTSC---CSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHHH
T ss_pred             hhCcHHHHHHHHcC---CCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHH
Confidence            99998765544332   66666667777777788877777666654221                   112356789999


Q ss_pred             HHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHcc---CCChhhHHHHHHHHHhcCC
Q 038303          216 VLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLA---YKDKISWSTVISGLAMNGC  292 (461)
Q Consensus       216 ~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~~~  292 (461)
                      +-.+|...+.+..|...--.+.-    .++.  ...++..|-..|.+++-+.+++.-.   +.....|+-|.-.|++- +
T Consensus       205 V~~ACvd~~EfrLAqicGLniIv----hade--L~elv~~YE~~G~f~ELIsLlEaglglErAHmGmFTELaILYsKY-~  277 (624)
T 3lvg_A          205 VCFACVDGKEFRLAQMCGLHIVV----HADE--LEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKF-K  277 (624)
T ss_dssp             HTHHHHHSCTTTTTTHHHHHHHC----CSSC--CSGGGSSSSTTCCCTTSTTTHHHHTTSTTCCHHHHHHHHHHHHSS-C
T ss_pred             HHHHHhCchHHHHHHHhcchhcc----cHHH--HHHHHHHHHhCCCHHHHHHHHHHHhCCCchhHHHHHHHHHHHHhc-C
Confidence            99999999998888766554433    2222  1456777889999999999998765   45777888888888775 5


Q ss_pred             hHHHHHHHHH
Q 038303          293 GRQALQLFSL  302 (461)
Q Consensus       293 ~~~a~~~~~~  302 (461)
                      +++.++.++.
T Consensus       278 PeKlmEHlkl  287 (624)
T 3lvg_A          278 PQKMREHLEL  287 (624)
T ss_dssp             TTHHHHHHTT
T ss_pred             HHHHHHHHHH
Confidence            5655555544

>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=97.26  E-value=0.00099  Score=60.91  Aligned_cols=90  Identities=13%  Similarity=-0.021  Sum_probs=49.4

Q ss_pred             HHHHHcCCChHHHHHHHHHhHhhc--CCCCC----cchHHHHHHHHhhcCCHHHHHHHHHhC---------CCCchhh-H
Q 038303          319 ISACSHGGLVDQGLILFKAMSTVY--EIVPQ----MQHYACVVDMYGRAGLLEEAEAFIREM---------PIEAEWS-V  382 (461)
Q Consensus       319 l~~~~~~~~~~~a~~~~~~~~~~~--~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~---------~~~p~~~-~  382 (461)
                      +..+.+.|++++|+.++++.....  -+.|+    ..+++.|...|...|++++|+.++++.         +..|+.. +
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            444555666666666666655411  11121    345556666666666666666666554         2233332 4


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHhh
Q 038303          383 WGALLNACRIHRNDEMFDRIRQDLVN  408 (461)
Q Consensus       383 ~~~l~~~~~~~~~~~~a~~~~~~~~~  408 (461)
                      ++.|...|...|++++|+.+++++.+
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            55555556666666666666666665

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.23  E-value=0.00048  Score=48.26  Aligned_cols=79  Identities=15%  Similarity=-0.024  Sum_probs=51.7

Q ss_pred             HHHHHhhcCCHHHHHHHHHhC-CCCc-hhh-HHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCCh
Q 038303          354 VVDMYGRAGLLEEAEAFIREM-PIEA-EWS-VWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRW  430 (461)
Q Consensus       354 l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  430 (461)
                      ....+.+.|++++|...+++. ...| +.. .+..+..++...|++++|+..|+++.+..|.+..++..        +.+
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~--------~~~   77 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPALQAR--------KMV   77 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHH--------HHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHH--------HHH
Confidence            345566777788888777776 3333 334 56666666777888888888888888877777766532        445


Q ss_pred             hhHHHHHHHH
Q 038303          431 EDTNKIRDEI  440 (461)
Q Consensus       431 ~~A~~~~~~m  440 (461)
                      .++...+++.
T Consensus        78 ~~a~~~~~~~   87 (99)
T 2kc7_A           78 MDILNFYNKD   87 (99)
T ss_dssp             HHHHHHHCCT
T ss_pred             HHHHHHHHHH
Confidence            5555555443

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.16  E-value=0.037  Score=55.48  Aligned_cols=101  Identities=15%  Similarity=0.124  Sum_probs=58.7

Q ss_pred             HHhcCCHHHHHHHHHHccCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHH
Q 038303          256 YVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILF  335 (461)
Q Consensus       256 ~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~  335 (461)
                      ....|+++.|.++.+.+.  +...|..+...+.+.++++.|.+.|.++..         |..+...+...|+.+...++-
T Consensus       662 ~l~~~~~~~A~~~~~~~~--~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~  730 (814)
T 3mkq_A          662 ALKVGQLTLARDLLTDES--AEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLA  730 (814)
T ss_dssp             HHHHTCHHHHHHHHTTCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHH
T ss_pred             hhhcCCHHHHHHHHHhhC--cHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHH
Confidence            345677777777765553  456777777777777777777777777643         233444444456655554444


Q ss_pred             HHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC
Q 038303          336 KAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM  374 (461)
Q Consensus       336 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  374 (461)
                      +.... .|      -++.-..+|.+.|++++|.+++.++
T Consensus       731 ~~a~~-~~------~~~~A~~~~~~~g~~~~a~~~~~~~  762 (814)
T 3mkq_A          731 KDAET-TG------KFNLAFNAYWIAGDIQGAKDLLIKS  762 (814)
T ss_dssp             HHHHH-TT------CHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHH-cC------chHHHHHHHHHcCCHHHHHHHHHHc
Confidence            43333 11      1233334455566666666666555

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.08  E-value=0.0017  Score=45.35  Aligned_cols=60  Identities=10%  Similarity=0.160  Sum_probs=54.5

Q ss_pred             HHHHHhcCChHHHHHHHHHHhhcCCCChh-HHHHHHHHHhccCChhhHHHHHHHHHHcCCc
Q 038303          387 LNACRIHRNDEMFDRIRQDLVNKKGVSVG-TFALMSNTFAGADRWEDTNKIRDEIRRMGLK  446 (461)
Q Consensus       387 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~  446 (461)
                      ...+...|++++|+..++++.+..|.++. .+..++.+|...|++++|.+.+++..+....
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~   67 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPD   67 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Confidence            44578899999999999999999999999 9999999999999999999999999886543

>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=97.02  E-value=0.0028  Score=57.88  Aligned_cols=85  Identities=8%  Similarity=-0.039  Sum_probs=63.8

Q ss_pred             cCCChHHHHHHHHHhHhhc--CCCCC----cchHHHHHHHHhhcCCHHHHHHHHHhC---------CCCchhh-HHHHHH
Q 038303          324 HGGLVDQGLILFKAMSTVY--EIVPQ----MQHYACVVDMYGRAGLLEEAEAFIREM---------PIEAEWS-VWGALL  387 (461)
Q Consensus       324 ~~~~~~~a~~~~~~~~~~~--~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~---------~~~p~~~-~~~~l~  387 (461)
                      ..|++++|+.++++..+..  -+.|+    ..+++.|..+|...|++++|+.++++.         +..|+.. +++.|.
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            4578888888887765421  12222    467788888899999999998888776         3445544 678888


Q ss_pred             HHHHhcCChHHHHHHHHHHhh
Q 038303          388 NACRIHRNDEMFDRIRQDLVN  408 (461)
Q Consensus       388 ~~~~~~~~~~~a~~~~~~~~~  408 (461)
                      ..|...|++++|+.+++++.+
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            889999999999999998876

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.97  E-value=0.053  Score=54.30  Aligned_cols=101  Identities=15%  Similarity=0.180  Sum_probs=66.4

Q ss_pred             HHHcCCChHHHHH-HHhcCCCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHH
Q 038303           85 GLSKCGFHKEAID-MFCGIDVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCG  163 (461)
Q Consensus        85 ~~~~~~~~~~a~~-~~~~m~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  163 (461)
                      .....+++++|.+ ++..+   |+......++..+.+.|..+.|.++.+         +..   .-.......|++++|.
T Consensus       608 ~~~~~~~~~~a~~~~l~~i---~~~~~~~~~~~~l~~~~~~~~a~~~~~---------~~~---~~f~~~l~~~~~~~A~  672 (814)
T 3mkq_A          608 TLTLRGEIEEAIENVLPNV---EGKDSLTKIARFLEGQEYYEEALNISP---------DQD---QKFELALKVGQLTLAR  672 (814)
T ss_dssp             HHHHTTCHHHHHHHTGGGC---CCHHHHHHHHHHHHHTTCHHHHHHHCC---------CHH---HHHHHHHHHTCHHHHH
T ss_pred             HHHHhCCHHHHHHHHHhcC---CchHHHHHHHHHHHhCCChHHheecCC---------Ccc---hheehhhhcCCHHHHH
Confidence            3345677777776 54332   212233556666666677666665532         111   1234456778999998


Q ss_pred             HHHhcCCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 038303          164 YLFVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEK  202 (461)
Q Consensus       164 ~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  202 (461)
                      ++.+.+.  +...|..+...+.+.++++.|.+.|.++.+
T Consensus       673 ~~~~~~~--~~~~W~~la~~al~~~~~~~A~~~y~~~~d  709 (814)
T 3mkq_A          673 DLLTDES--AEMKWRALGDASLQRFNFKLAIEAFTNAHD  709 (814)
T ss_dssp             HHHTTCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTC
T ss_pred             HHHHhhC--cHhHHHHHHHHHHHcCCHHHHHHHHHHccC
Confidence            8887774  557888999999999999999999988754

>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=96.93  E-value=0.026  Score=49.49  Aligned_cols=137  Identities=12%  Similarity=-0.013  Sum_probs=64.5

Q ss_pred             CChhhHHHHHHHHHh--cC---ChHHHHHHHHHHHhcCCCCCH-hHHHHHHHHHHc----CCCh-HHH---HHHHHHhHh
Q 038303          275 KDKISWSTVISGLAM--NG---CGRQALQLFSLMIINAVFPDD-VTFIALISACSH----GGLV-DQG---LILFKAMST  340 (461)
Q Consensus       275 ~~~~~~~~l~~~~~~--~~---~~~~a~~~~~~m~~~g~~p~~-~~~~~ll~~~~~----~~~~-~~a---~~~~~~~~~  340 (461)
                      .+...|...+++...  .+   +..+|..+|++..+.  .|+. ..+..+..+|.-    .+.. ...   ...++....
T Consensus       192 ~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l--DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a  269 (372)
T 3ly7_A          192 HRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS--SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVT  269 (372)
T ss_dssp             SSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHh
Confidence            366777777765432  22   346788888888874  4553 444444444430    0000 000   011111111


Q ss_pred             hcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCC
Q 038303          341 VYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVS  413 (461)
Q Consensus       341 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  413 (461)
                      ....+.+..+|..+...+...|++++|...++++ ...|+...|..+...+...|+.++|.+.++++.+..|..
T Consensus       270 ~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P~~  343 (372)
T 3ly7_A          270 LPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMSWLNYVLLGKVYEMKGMNREAADAYLTAFNLRPGA  343 (372)
T ss_dssp             CGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCSH
T ss_pred             cccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCc
Confidence            0122334444444444444445555555555555 223444444444444555555555555555555554433

>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=96.92  E-value=0.016  Score=52.84  Aligned_cols=87  Identities=10%  Similarity=-0.072  Sum_probs=54.8

Q ss_pred             HHHHhhcCCHHHHHHHHHhC---------CCCch-hhHHHHHHHHHHhcCChHHHHHHHHHHhhc-----C---CCChhH
Q 038303          355 VDMYGRAGLLEEAEAFIREM---------PIEAE-WSVWGALLNACRIHRNDEMFDRIRQDLVNK-----K---GVSVGT  416 (461)
Q Consensus       355 ~~~~~~~g~~~~A~~~~~~~---------~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~---~~~~~~  416 (461)
                      +..+.+.|++++|+.++++.         +..|+ ..+++.+..+|...|++++|+.+++++++.     .   |....+
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            34455667777777777655         11222 235666777777777777777777776641     1   223446


Q ss_pred             HHHHHHHHhccCChhhHHHHHHHHH
Q 038303          417 FALMSNTFAGADRWEDTNKIRDEIR  441 (461)
Q Consensus       417 ~~~l~~~~~~~g~~~~A~~~~~~m~  441 (461)
                      ++.|+..|...|++++|..++++..
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            7777777777777777777777653

>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=96.91  E-value=0.12  Score=45.48  Aligned_cols=73  Identities=10%  Similarity=0.040  Sum_probs=51.5

Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHH
Q 038303          275 KDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYA  352 (461)
Q Consensus       275 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  352 (461)
                      .+...|..+...+...|++++|...+++....+  |+...|..+...+.-.|++++|.+.|++...   +.|...+|.
T Consensus       275 ~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~Alr---L~P~~~t~~  347 (372)
T 3ly7_A          275 NLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFN---LRPGANTLY  347 (372)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HSCSHHHHH
T ss_pred             cCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCCcChHH
Confidence            356667766666666688888888888887754  6766666666777778888888888877765   346555544

>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=96.72  E-value=0.44  Score=45.52  Aligned_cols=113  Identities=10%  Similarity=-0.030  Sum_probs=65.9

Q ss_pred             ChHHHHHHHHHHHhcCCCCCHhHHH----HHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHH
Q 038303          292 CGRQALQLFSLMIINAVFPDDVTFI----ALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEA  367 (461)
Q Consensus       292 ~~~~a~~~~~~m~~~g~~p~~~~~~----~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  367 (461)
                      +.+.|...+....+... .+.....    .+.......+...++...+.....   ..++.....-.+....+.|+++.|
T Consensus       229 d~~~A~~~~~~~~~~~~-~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~e~~~r~Alr~~d~~~a  304 (618)
T 1qsa_A          229 DAENARLMIPSLAQAQQ-LNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIM---RSQSTSLIERRVRMALGTGDRRGL  304 (618)
T ss_dssp             CHHHHHHHHHHHHHHTT-CCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHH---TCCCHHHHHHHHHHHHHHTCHHHH
T ss_pred             CHHHHHHHHHhhhhccC-CCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhccc---cCCChHHHHHHHHHHHHCCCHHHH
Confidence            77888888888765432 2332222    222223334435566666665433   123333344444555577889999


Q ss_pred             HHHHHhCCCCc-h-hhHHHHHHHHHHhcCChHHHHHHHHHHhh
Q 038303          368 EAFIREMPIEA-E-WSVWGALLNACRIHRNDEMFDRIRQDLVN  408 (461)
Q Consensus       368 ~~~~~~~~~~p-~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  408 (461)
                      ...|+.|+..+ + ..-..-+..++...|+.++|..+|+.+.+
T Consensus       305 ~~~~~~l~~~~~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          305 NTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHccccccccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            99888884432 2 22233345566778888888888888865

>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=96.55  E-value=0.012  Score=49.44  Aligned_cols=87  Identities=8%  Similarity=0.038  Sum_probs=62.6

Q ss_pred             HHHHHHHHHhC-CCCch---hhHHHHHHHHHHh-----cCChHHHHHHHHHHhhcCCCC-hhHHHHHHHHHhcc-CChhh
Q 038303          364 LEEAEAFIREM-PIEAE---WSVWGALLNACRI-----HRNDEMFDRIRQDLVNKKGVS-VGTFALMSNTFAGA-DRWED  432 (461)
Q Consensus       364 ~~~A~~~~~~~-~~~p~---~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~-~~~~~~l~~~~~~~-g~~~~  432 (461)
                      ...|...+++. .+.|+   ...|..+...|..     .|+.+.|.+.|++.++..|.. ..++..++..+++. |+.++
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            34555555555 44444   4466666666766     488888888888888888864 88888888888884 88888


Q ss_pred             HHHHHHHHHHcCCccccC
Q 038303          433 TNKIRDEIRRMGLKKKTG  450 (461)
Q Consensus       433 A~~~~~~m~~~g~~~~~~  450 (461)
                      |.+.+++..+.....+|+
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            888888888877664444

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.44  E-value=0.21  Score=38.52  Aligned_cols=128  Identities=13%  Similarity=0.104  Sum_probs=83.6

Q ss_pred             HHHhcCCHHHHHHHHHHccCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHH
Q 038303          255 MYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLIL  334 (461)
Q Consensus       255 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~  334 (461)
                      .....|+++.|.++.+.+  .+...|..|.......|+++-|.+.|.+..+         +..+.-.|...|+.+.-.++
T Consensus        14 LAL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~kl   82 (177)
T 3mkq_B           14 LALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLSKM   82 (177)
T ss_dssp             HHHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHHHH
Confidence            345678888888887766  4567888888888888888888888887654         34444456666777666555


Q ss_pred             HHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCchhhHHHHHHHHHHhcCChHHHHHHHHHH
Q 038303          335 FKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDL  406 (461)
Q Consensus       335 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  406 (461)
                      -+.... .|      -++.-...+.-.|+++++.++|.+.+.-|...      ......|..+.|.++.+.+
T Consensus        83 a~iA~~-~g------~~n~af~~~l~lGdv~~~i~lL~~~~r~~eA~------~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           83 QNIAQT-RE------DFGSMLLNTFYNNSTKERSSIFAEGGSLPLAY------AVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHH-TT------CHHHHHHHHHHHTCHHHHHHHHHHTTCHHHHH------HHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHH-Cc------cHHHHHHHHHHcCCHHHHHHHHHHCCChHHHH------HHHHHcCcHHHHHHHHHHh
Confidence            444433 22      23444556667788888888888875433222      1123456667777776655

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.37  E-value=0.031  Score=39.31  Aligned_cols=71  Identities=8%  Similarity=-0.079  Sum_probs=46.1

Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHhC-----C----CCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHH
Q 038303          350 HYACVVDMYGRAGLLEEAEAFIREM-----P----IEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALM  420 (461)
Q Consensus       350 ~~~~l~~~~~~~g~~~~A~~~~~~~-----~----~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l  420 (461)
                      -+..|...+.+.|+++.|...++..     +    ..+....+..+..++.+.|+++.|...++++.+..|.+..+...+
T Consensus         7 dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~n~   86 (104)
T 2v5f_A            7 DCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGNL   86 (104)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHhhH
Confidence            3445555666666666666666554     0    123445667777778888888888888888888777776665444

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.30  E-value=0.017  Score=43.48  Aligned_cols=91  Identities=8%  Similarity=-0.123  Sum_probs=66.9

Q ss_pred             CChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcC---CHHHHHHHHHhC-CCC-c--hhhHHHHHHHHHHhcCChHH
Q 038303          326 GLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAG---LLEEAEAFIREM-PIE-A--EWSVWGALLNACRIHRNDEM  398 (461)
Q Consensus       326 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~-~~~-p--~~~~~~~l~~~~~~~~~~~~  398 (461)
                      +....+.+-|.+... .+ +++..+...+.-++++.+   +.+++..+|++. ... |  +...+..+.-+|.+.|+++.
T Consensus        12 ~~l~~~~~~y~~e~~-~~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~   89 (152)
T 1pc2_A           12 EDLLKFEKKFQSEKA-AG-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEK   89 (152)
T ss_dssp             HHHHHHHHHHHHHHH-TT-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHH
T ss_pred             HHHHHHHHHHHHHHc-cC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHH
Confidence            345566677766655 23 377788888888999988   666899999887 333 5  23445556666899999999


Q ss_pred             HHHHHHHHhhcCCCChhHHH
Q 038303          399 FDRIRQDLVNKKGVSVGTFA  418 (461)
Q Consensus       399 a~~~~~~~~~~~~~~~~~~~  418 (461)
                      |.+.++.+.+..|.+..+..
T Consensus        90 A~~y~~~lL~ieP~n~QA~~  109 (152)
T 1pc2_A           90 ALKYVRGLLQTEPQNNQAKE  109 (152)
T ss_dssp             HHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHHHHHhcCCCCHHHHH
Confidence            99999999999998875544

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.17  E-value=0.039  Score=41.46  Aligned_cols=86  Identities=12%  Similarity=0.003  Sum_probs=59.4

Q ss_pred             ChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCC---ChHHHHHHHHHhHhhcCCCC--CcchHHHHHHHHhhcCCHHH
Q 038303          292 CGRQALQLFSLMIINAVFPDDVTFIALISACSHGG---LVDQGLILFKAMSTVYEIVP--QMQHYACVVDMYGRAGLLEE  366 (461)
Q Consensus       292 ~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~---~~~~a~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~  366 (461)
                      ....+.+-|.+..+.|. ++..+...+..++++++   ++++++.+|+...+ .. .|  +...+-.|.-++.+.|++++
T Consensus        13 ~l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~-~~-~p~~~rd~lY~LAv~~~kl~~Y~~   89 (152)
T 1pc2_A           13 DLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLP-KG-SKEEQRDYVFYLAVGNYRLKEYEK   89 (152)
T ss_dssp             HHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHH-HS-CHHHHHHHHHHHHHHHHHTSCHHH
T ss_pred             HHHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHh-cC-CccchHHHHHHHHHHHHHccCHHH
Confidence            34556666766666554 57777777777788877   56688888888877 22 23  34555567777888888888


Q ss_pred             HHHHHHhC-CCCchh
Q 038303          367 AEAFIREM-PIEAEW  380 (461)
Q Consensus       367 A~~~~~~~-~~~p~~  380 (461)
                      |.+.++.+ .+.|+.
T Consensus        90 A~~y~~~lL~ieP~n  104 (152)
T 1pc2_A           90 ALKYVRGLLQTEPQN  104 (152)
T ss_dssp             HHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHhcCCCC
Confidence            88888887 555643

>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=96.14  E-value=0.05  Score=40.35  Aligned_cols=110  Identities=7%  Similarity=0.042  Sum_probs=53.5

Q ss_pred             CHhHHHHHHHHHHcCCCh------HHHHHHHHHhHhhcCCCCCcc-hHHHHHHH------HhhcCCHHHHHHHHHhC-CC
Q 038303          311 DDVTFIALISACSHGGLV------DQGLILFKAMSTVYEIVPQMQ-HYACVVDM------YGRAGLLEEAEAFIREM-PI  376 (461)
Q Consensus       311 ~~~~~~~ll~~~~~~~~~------~~a~~~~~~~~~~~~~~~~~~-~~~~l~~~------~~~~g~~~~A~~~~~~~-~~  376 (461)
                      |..++-..+....+.|+.      ++..++|++...  .++|+.. .|...|..      +...++.++|.++|+.+ ..
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia--~~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~   89 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIE--ALPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARAN   89 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHH--HSCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHH--cCCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            445666666666666776      666677776665  4555421 11122211      12235555666665555 11


Q ss_pred             C-chhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHH
Q 038303          377 E-AEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSN  422 (461)
Q Consensus       377 ~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  422 (461)
                      . .-...|.....--.++|+...|.+++.+.+...|.+...+...++
T Consensus        90 hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~~le~a~~  136 (161)
T 4h7y_A           90 CKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPLEMLEIALR  136 (161)
T ss_dssp             CTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcHHHHHHHHH
Confidence            0 012233333333445566666666666665555544444444433

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.07  E-value=0.85  Score=41.74  Aligned_cols=252  Identities=11%  Similarity=0.011  Sum_probs=145.9

Q ss_pred             hCCHHHHHHHHHHHHHh-----CCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCCC---CceeHHHHHH----HHHcCC
Q 038303           23 AHPHQKALEIHAHVIEY-----GHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFP---DVVSWTTIIS----GLSKCG   90 (461)
Q Consensus        23 ~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~----~~~~~~   90 (461)
                      .|++++|++.+-.+.+.     +...+......++..|...|+++...+.+.-+.+.   -......+++    .+....
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~ai~~~V~~~~~~l~~~~  108 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKLSIQYMIQKVMEYLKSSK  108 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHHHHHHHHHHHHHHHHHHC
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhcCC
Confidence            46788888887776653     23345667788999999999999887766555221   1122223333    222223


Q ss_pred             C--hHHHHHHHhcC-CCCCC--------chhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCC-----hhHHHHHHHHHH
Q 038303           91 F--HKEAIDMFCGI-DVKPN--------ANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENN-----IILDNAILDFYI  154 (461)
Q Consensus        91 ~--~~~a~~~~~~m-~~~p~--------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~  154 (461)
                      .  .+.-+.+.+.. .+...        ...-..|...+...|++.+|..++..+...-...+     ...+...++.|.
T Consensus       109 ~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l  188 (445)
T 4b4t_P          109 SLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSI  188 (445)
T ss_dssp             TTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHH
Confidence            2  23334444444 22111        11224566778888999999999998864422222     346677788899


Q ss_pred             HcCChhhHHHHHhcCCC--------Cc--hhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHH----Hh
Q 038303          155 RCGSLASCGYLFVKMPK--------RN--VVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLS----AC  220 (461)
Q Consensus       155 ~~g~~~~a~~~~~~~~~--------~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~----~~  220 (461)
                      ..+++.+|..++.++..        |+  ...|...+..+...+++.+|...|.+..+......|...+...+.    +.
T Consensus       189 ~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~~~~~~~d~~~~~~~L~~~v~~~  268 (445)
T 4b4t_P          189 LKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQTDAIKSDEAKWKPVLSHIVYFL  268 (445)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHH
Confidence            99999999988887631        11  234666777888899999999888887653212233332222211    11


Q ss_pred             hccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhc--CCHHHHHHHHHHccCC
Q 038303          221 SSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKC--GDVGIAIQVFNMLAYK  275 (461)
Q Consensus       221 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~--g~~~~a~~~~~~~~~~  275 (461)
                      .-.+....-..+...... ....++...+..++.+|...  .++..+.+.|.....+
T Consensus       269 iLa~~~~~~~~ll~~~~~-~~~~~~l~~~~~L~k~f~~~~L~~~~~~~~~~~~~L~~  324 (445)
T 4b4t_P          269 VLSPYGNLQNDLIHKIQN-DNNLKKLESQESLVKLFTTNELMRWPIVQKTYEPVLNE  324 (445)
T ss_dssp             HHSSCSSTTHHHHHSHHH-HSSCHHHHHHHHHHHHHHHCCSSSHHHHHHHTCSSTTT
T ss_pred             HhCCCCchHHHHHHHHhh-cccccccHHHHHHHHHHHhchHhhhHHHHHHHHHHhcc
Confidence            111111222223333333 23334566777788877653  3466666666655543

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=95.90  E-value=0.039  Score=37.83  Aligned_cols=67  Identities=9%  Similarity=-0.056  Sum_probs=37.7

Q ss_pred             CCcchHHHHHHHHhhcCC---HHHHHHHHHhC-CCCch-hhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCC
Q 038303          346 PQMQHYACVVDMYGRAGL---LEEAEAFIREM-PIEAE-WSVWGALLNACRIHRNDEMFDRIRQDLVNKKGV  412 (461)
Q Consensus       346 ~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  412 (461)
                      .++..+..+..++...++   .++|..++++. ...|+ +.....+...+.+.|++++|+..|+++.+..|+
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~   75 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP   75 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            445555555555544333   56666666666 33333 333344444466677777777777777666655

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.73  E-value=0.5  Score=36.47  Aligned_cols=130  Identities=9%  Similarity=-0.011  Sum_probs=84.4

Q ss_pred             HHHHhcCCHHHHHHHHhhCCCCCceeHHHHHHHHHcCCChHHHHHHHhcCCCCCCchhHHHHHHHhcccchhHHHHHHHH
Q 038303           53 HFYVTVKDIFSAHQIFNSVVFPDVVSWTTIISGLSKCGFHKEAIDMFCGIDVKPNANTLVSVLSACSSLVSHKLGKAIHA  132 (461)
Q Consensus        53 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  132 (461)
                      ......|+++.|.++.+.+  .+...|..|.......|+++-|.++|...+      -|..+.-.|...|+.+...++-+
T Consensus        13 ~LAL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~------D~~~L~~Ly~~tg~~e~L~kla~   84 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQH------SFDKLSFLYLVTGDVNKLSKMQN   84 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhC------CHHHHHHHHHHhCCHHHHHHHHH
Confidence            4445678888888887776  456678888888888899888888887761      23444444555666666665555


Q ss_pred             HHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCCCCchhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 038303          133 HSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEME  201 (461)
Q Consensus       133 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  201 (461)
                      .....|-      ++.....+...|+++++.++|.+..+......     .....|-.+.|.++.+++.
T Consensus        85 iA~~~g~------~n~af~~~l~lGdv~~~i~lL~~~~r~~eA~~-----~A~t~g~~~~a~~~~~~~~  142 (177)
T 3mkq_B           85 IAQTRED------FGSMLLNTFYNNSTKERSSIFAEGGSLPLAYA-----VAKANGDEAAASAFLEQAE  142 (177)
T ss_dssp             HHHHTTC------HHHHHHHHHHHTCHHHHHHHHHHTTCHHHHHH-----HHHHTTCHHHHHHHHHHTT
T ss_pred             HHHHCcc------HHHHHHHHHHcCCHHHHHHHHHHCCChHHHHH-----HHHHcCcHHHHHHHHHHhC
Confidence            5544432      35555667778899999888877765221111     1222556677777776653

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=95.68  E-value=2  Score=42.93  Aligned_cols=254  Identities=11%  Similarity=-0.034  Sum_probs=123.4

Q ss_pred             HHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHH--HHhhccchhhhHHHHHHHHHhhcCC------CCcchHHHHHHH
Q 038303          183 GYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVL--SACSSISALSFGKYVHSYISTRYDL------SVSNLVGNAVIN  254 (461)
Q Consensus       183 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l--~~~~~~~~~~~a~~~~~~~~~~~~~------~~~~~~~~~li~  254 (461)
                      +....|+.++++.++..-...+ ...+..+-...+  -+....|....+..++.........      .+......++.-
T Consensus       383 GlIh~g~~~~gl~~L~~yL~~~-~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGL  461 (963)
T 4ady_A          383 GVIHKGNLLEGKKVMAPYLPGS-RASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGI  461 (963)
T ss_dssp             HHHTSSCTTTHHHHHTTTSTTS-CCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHH
T ss_pred             hhhccCchHHHHHHHHHhcccc-CCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHH
Confidence            3455667777666665543311 112222222222  2233444444566655555442210      111222233333


Q ss_pred             HHHhcCC-HHHHHHHHHHcc-CCChhh--HH--HHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHH--HHHcCC
Q 038303          255 MYVKCGD-VGIAIQVFNMLA-YKDKIS--WS--TVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALIS--ACSHGG  326 (461)
Q Consensus       255 ~~~~~g~-~~~a~~~~~~~~-~~~~~~--~~--~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~--~~~~~~  326 (461)
                      +++-.|. -+++.+.+..+. ..+...  ..  ++...++-.|+.+....++..+.+.   .+......+..  ++...|
T Consensus       462 Gla~~GS~~eev~e~L~~~L~dd~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~---~~e~vrR~aalgLGll~~g  538 (963)
T 4ady_A          462 GLAAMGSANIEVYEALKEVLYNDSATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQET---QHGNITRGLAVGLALINYG  538 (963)
T ss_dssp             HHHSTTCCCHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHC---SCHHHHHHHHHHHHHHTTT
T ss_pred             HHHhcCCCCHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhcc---CcHHHHHHHHHHHHhhhCC
Confidence            3333332 234444444433 333221  11  2222344567777777777766653   12233333333  344678


Q ss_pred             ChHHHHHHHHHhHhhcCCCCCcchHH--HHHHHHhhcCCHHHHHHHHHhCC--CCchhhHHHHHHHHHHhcCChHHHHHH
Q 038303          327 LVDQGLILFKAMSTVYEIVPQMQHYA--CVVDMYGRAGLLEEAEAFIREMP--IEAEWSVWGALLNACRIHRNDEMFDRI  402 (461)
Q Consensus       327 ~~~~a~~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~a~~~  402 (461)
                      +.+.+..+++.+..  ...|....-.  ++.-+|+..|+.....+++..+.  ...++.....+.-++...|+.+.+.++
T Consensus       539 ~~e~~~~li~~L~~--~~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~~d~VRraAViaLGlI~~g~~e~v~rl  616 (963)
T 4ady_A          539 RQELADDLITKMLA--SDESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDSNDDVRRAAVIALGFVLLRDYTTVPRI  616 (963)
T ss_dssp             CGGGGHHHHHHHHH--CSCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTSSSCSSHHHH
T ss_pred             ChHHHHHHHHHHHh--CCCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCCcHHHHHHHHHHHHhhccCCHHHHHHH
Confidence            88888888888776  2223333222  23445677788777777888772  223333222222335556777767777


Q ss_pred             HHHHhhcCCCChhHHHHHHHHHhccCCh-hhHHHHHHHHHH
Q 038303          403 RQDLVNKKGVSVGTFALMSNTFAGADRW-EDTNKIRDEIRR  442 (461)
Q Consensus       403 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~m~~  442 (461)
                      ++.+.+...+....-..++-+....|+. .+|..++..+..
T Consensus       617 v~~L~~~~d~~VR~gAalALGli~aGn~~~~aid~L~~L~~  657 (963)
T 4ady_A          617 VQLLSKSHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK  657 (963)
T ss_dssp             TTTGGGCSCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc
Confidence            7666554433333333444444445554 567888887753

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.52  E-value=0.078  Score=37.19  Aligned_cols=65  Identities=5%  Similarity=-0.079  Sum_probs=54.6

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHhhcC-------CCChhHHHHHHHHHhccCChhhHHHHHHHHHHcC
Q 038303          380 WSVWGALLNACRIHRNDEMFDRIRQDLVNKK-------GVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMG  444 (461)
Q Consensus       380 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  444 (461)
                      ...+..+...+...++++.|...++.+.+..       +....++..++.+|.+.|++++|...+++..+..
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            3445667777999999999999999988732       3457789999999999999999999999997743

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=95.43  E-value=0.5  Score=34.37  Aligned_cols=65  Identities=11%  Similarity=-0.015  Sum_probs=43.4

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCC
Q 038303          175 VSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDL  242 (461)
Q Consensus       175 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~  242 (461)
                      ...+.-+..+..+|+-++-.+++..+...  .+|++.....+..+|.+.|+..++.+++.+..+ .|+
T Consensus        92 e~vd~ALd~lv~~~KkDqLdki~~~~l~n--~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~-kG~  156 (172)
T 1wy6_A           92 EHVNKALDILVIQGKRDKLEEIGREILKN--NEVSASILVAIANALRRVGDERDATTLLIEACK-KGE  156 (172)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHC----CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-TTC
T ss_pred             HHHHHHHHHHHHhccHhHHHHHHHHHhcc--CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHH-hhh
Confidence            34445566677777777777777775332  667777777777777777777777777777666 444

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=95.18  E-value=0.12  Score=50.30  Aligned_cols=51  Identities=6%  Similarity=-0.035  Sum_probs=48.9

Q ss_pred             HHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHH
Q 038303          390 CRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEI  440 (461)
Q Consensus       390 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  440 (461)
                      |...|+++.|+.+.+++....|.+..+|..|+.+|...|+|+.|+-.++.+
T Consensus       347 Ll~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          347 LLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            678899999999999999999999999999999999999999999999887

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.11  E-value=0.34  Score=34.97  Aligned_cols=89  Identities=9%  Similarity=-0.104  Sum_probs=52.6

Q ss_pred             hHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHH---HHHHHHhC-CCC-c-hhh-HHHHHHHHHHhcCChHHHH
Q 038303          328 VDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEE---AEAFIREM-PIE-A-EWS-VWGALLNACRIHRNDEMFD  400 (461)
Q Consensus       328 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~---A~~~~~~~-~~~-p-~~~-~~~~l~~~~~~~~~~~~a~  400 (461)
                      +..+.+-|..... .|. |+..+--.+..++++......   ++.++++. ... | ... ....+.-++.+.|+++.|.
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 LLKFEKKFQSEKA-AGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKAL   94 (126)
T ss_dssp             HHHHHHHHHHHHH-HSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhc-cCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHH
Confidence            3444444544433 232 555555566667777666555   66666666 222 3 222 2333444577888888888


Q ss_pred             HHHHHHhhcCCCChhHHH
Q 038303          401 RIRQDLVNKKGVSVGTFA  418 (461)
Q Consensus       401 ~~~~~~~~~~~~~~~~~~  418 (461)
                      +.++.+.+..|.+..+..
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            888888888887765543

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.06  E-value=1.9  Score=39.44  Aligned_cols=94  Identities=10%  Similarity=0.100  Sum_probs=60.6

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhc--CCCCC---HhHHHHHHHHHHcCCChHHHHHHHHHhHhh-cCCCCC----cch
Q 038303          281 STVISGLAMNGCGRQALQLFSLMIIN--AVFPD---DVTFIALISACSHGGLVDQGLILFKAMSTV-YEIVPQ----MQH  350 (461)
Q Consensus       281 ~~l~~~~~~~~~~~~a~~~~~~m~~~--g~~p~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~----~~~  350 (461)
                      ..|...+-..|++.+|..++.++...  |..+.   ...+...++.|...+++.+|..++.++... ....++    ...
T Consensus       141 ~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~  220 (445)
T 4b4t_P          141 KDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLKLEY  220 (445)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHH
Confidence            45667777788888888888887542  22111   134556667788888888888888776431 111222    234


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC
Q 038303          351 YACVVDMYGRAGLLEEAEAFIREM  374 (461)
Q Consensus       351 ~~~l~~~~~~~g~~~~A~~~~~~~  374 (461)
                      +...+..+...+++.+|.+.|.+.
T Consensus       221 ~~~~~~~~~~e~~y~~a~~~y~e~  244 (445)
T 4b4t_P          221 YNLLVKISLHKREYLEVAQYLQEI  244 (445)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHH
Confidence            556667777778888888777766

>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=94.71  E-value=1.7  Score=36.68  Aligned_cols=111  Identities=11%  Similarity=0.069  Sum_probs=70.9

Q ss_pred             cCCHHHHHHHHHHccCCCh--hhHHHHHHH-HHhc--CC------hHHHHHHHHHHHhcCCCCC---HhHHHHHHHHHHc
Q 038303          259 CGDVGIAIQVFNMLAYKDK--ISWSTVISG-LAMN--GC------GRQALQLFSLMIINAVFPD---DVTFIALISACSH  324 (461)
Q Consensus       259 ~g~~~~a~~~~~~~~~~~~--~~~~~l~~~-~~~~--~~------~~~a~~~~~~m~~~g~~p~---~~~~~~ll~~~~~  324 (461)
                      .++..+..+.+......++  ..|..++.+ +...  |+      ...|...+++..+  +.|+   ...|..+...|..
T Consensus       134 ~~~~~~~~~~l~~~~~~dve~L~W~ai~~ss~a~~~~gg~~Al~~l~~A~a~lerAle--LDP~~~~GsA~~~LG~lY~~  211 (301)
T 3u64_A          134 SGDEQRLHKVLSRCTRVDVGTLYWVGTGYVAAFALTPLGSALPDTVHAAVMMLERACD--LWPSYQEGAVWNVLTKFYAA  211 (301)
T ss_dssp             SSCHHHHHHHHTTCCGGGHHHHHHHHHHHHHHHTTSCTTSCCHHHHHHHHHHHHHHHH--HCTTHHHHHHHHHHHHHHHH
T ss_pred             hcchhhHHHHHHHcCccccHHHHHHHHHHHHHHhcCCCChHHHHhHHHHHHHHHHHHH--hCCCcccCHHHHHHHHHHHh
Confidence            3444445555555554333  345555442 3332  32      4456666777766  4555   3577777777777


Q ss_pred             C-----CChHHHHHHHHHhHhhcCCCC--CcchHHHHHHHHhhc-CCHHHHHHHHHhC
Q 038303          325 G-----GLVDQGLILFKAMSTVYEIVP--QMQHYACVVDMYGRA-GLLEEAEAFIREM  374 (461)
Q Consensus       325 ~-----~~~~~a~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~-g~~~~A~~~~~~~  374 (461)
                      .     |+.++|.+.|++..+   +.|  +..++....+.+++. |+.+++.+.+++.
T Consensus       212 vPp~~gGd~ekA~~~ferAL~---LnP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kA  266 (301)
T 3u64_A          212 APESFGGGMEKAHTAFEHLTR---YCSAHDPDHHITYADALCIPLNNRAGFDEALDRA  266 (301)
T ss_dssp             SCTTTTCCHHHHHHHHHHHHH---HCCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHH
T ss_pred             CCCccCCCHHHHHHHHHHHHH---hCCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            3     888888888888877   334  366777777878774 8888888888877

>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=94.27  E-value=0.72  Score=34.31  Aligned_cols=47  Identities=6%  Similarity=-0.048  Sum_probs=21.3

Q ss_pred             CChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC
Q 038303          326 GLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM  374 (461)
Q Consensus       326 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  374 (461)
                      ++.++|.++|+.+... .-.- ...|-...+.-.+.|+...|.+++.+.
T Consensus        74 ~D~d~aR~vy~~a~~~-hKkF-AKiwi~~AqFEiRqgnl~kARkILg~A  120 (161)
T 4h7y_A           74 QEPDDARDYFQMARAN-CKKF-AFVHISFAQFELSQGNVKKSKQLLQKA  120 (161)
T ss_dssp             HCGGGCHHHHHHHHHH-CTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHH-hHHH-HHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence            4555555555555431 1111 334444444444555555555555544

>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=94.13  E-value=0.19  Score=45.21  Aligned_cols=68  Identities=10%  Similarity=0.020  Sum_probs=54.0

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHH-----cCCccccCc
Q 038303          384 GALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRR-----MGLKKKTGC  451 (461)
Q Consensus       384 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~-----~g~~~~~~~  451 (461)
                      ..++..+...|+++++...+..+....|-+...|..++.++.+.|+..+|++.|++..+     .|+.|++.+
T Consensus       175 ~~~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l  247 (388)
T 2ff4_A          175 TAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  247 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            34556667788888888888888888888888888888888888888888888888643     488887754

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=93.17  E-value=0.86  Score=34.58  Aligned_cols=28  Identities=14%  Similarity=0.122  Sum_probs=19.5

Q ss_pred             chHHHHHHHHhhcCCHHHHHHHHHhCCC
Q 038303          349 QHYACVVDMYGRAGLLEEAEAFIREMPI  376 (461)
Q Consensus       349 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~  376 (461)
                      +.--.+..+|.+.+++++|+.+++.++.
T Consensus       123 Elkykia~C~~~l~~~~~Ai~~Le~Ip~  150 (167)
T 3ffl_A          123 EVKYKLAECYTVLKQDKDAIAILDGIPS  150 (167)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHTSCG
T ss_pred             HHHHHHHHHHHHHCCHHHHHHHHhcCCc
Confidence            3444466777778888888888777743

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=93.08  E-value=1.7  Score=31.35  Aligned_cols=86  Identities=13%  Similarity=0.021  Sum_probs=57.4

Q ss_pred             CChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHH---HHHHHHHhHhhcCCCC--CcchHHHHHHHHhhcCCHH
Q 038303          291 GCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQ---GLILFKAMSTVYEIVP--QMQHYACVVDMYGRAGLLE  365 (461)
Q Consensus       291 ~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~---a~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~  365 (461)
                      .....+.+-|.+....|. |+..+-..+..++.++.+...   ++.+++.+.+ .+ .|  .....-.|.-++.+.|+++
T Consensus        15 ~~l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~-~~-~p~~~Rd~lY~LAvg~yklg~Y~   91 (126)
T 1nzn_A           15 EDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLP-KG-SKEEQRDYVFYLAVGNYRLKEYE   91 (126)
T ss_dssp             HHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTT-TS-CHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHh-cC-CcchHHHHHHHHHHHHHHhhhHH
Confidence            344455666666555554 677766677777888776665   8888888776 22 23  3444555677888899999


Q ss_pred             HHHHHHHhC-CCCch
Q 038303          366 EAEAFIREM-PIEAE  379 (461)
Q Consensus       366 ~A~~~~~~~-~~~p~  379 (461)
                      +|.+.++.+ ...|+
T Consensus        92 ~A~~~~~~lL~~eP~  106 (126)
T 1nzn_A           92 KALKYVRGLLQTEPQ  106 (126)
T ss_dssp             HHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHhCCC
Confidence            999988887 44453

>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=93.04  E-value=0.95  Score=30.85  Aligned_cols=63  Identities=11%  Similarity=0.179  Sum_probs=51.1

Q ss_pred             ChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHH
Q 038303          292 CGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVD  356 (461)
Q Consensus       292 ~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  356 (461)
                      +.-+..+-++.+....+.|++......+++|.+.+++..|.++|+.++.+.+  +...+|..+++
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~--~~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAG--PHKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT--TCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc--CchhhHHHHHH
Confidence            4556777788888888999999999999999999999999999999887444  33556777664

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=92.91  E-value=2.8  Score=43.71  Aligned_cols=158  Identities=7%  Similarity=-0.029  Sum_probs=88.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhCCCCCceeHHHHHHHHHcCCChHHHHHHHhcC--CCCCCchhHHHHHHHhcccchhHHH
Q 038303           50 SLLHFYVTVKDIFSAHQIFNSVVFPDVVSWTTIISGLSKCGFHKEAIDMFCGI--DVKPNANTLVSVLSACSSLVSHKLG  127 (461)
Q Consensus        50 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m--~~~p~~~~~~~ll~~~~~~~~~~~a  127 (461)
                      .++..+.+.+..+.+.++.... +.++..--.+..++...|++++|.++|++.  ++..+......          ... 
T Consensus       817 ~l~~~l~~~~~~~~~~~l~~~~-~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~----------~~~-  884 (1139)
T 4fhn_B          817 ELVEKLFLFKQYNACMQLIGWL-NSDPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAV----------LRE-  884 (1139)
T ss_dssp             HHHHHHHHHSCTTHHHHHHHHS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSS----------HHH-
T ss_pred             HHHHHHHHhhhHHHHHHHhhhc-cCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhh----------hcc-
Confidence            3455566667777666655444 334433334557788889999999999888  44333211100          000 


Q ss_pred             HHHHHHHHhhcC--CCChhHHHHHHHHHHHcCChhhHHHHHhcCC----CCc----hhHHHHHHHHHHhcCChHHHHHHH
Q 038303          128 KAIHAHSLRNLN--ENNIILDNAILDFYIRCGSLASCGYLFVKMP----KRN----VVSWTTMIGGYAERGFCKEAVSVF  197 (461)
Q Consensus       128 ~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~----~~~----~~~~~~li~~~~~~~~~~~a~~~~  197 (461)
                         +..+.....  ..-..-|..++..+.+.+.++.+.++-....    +.+    ...|..+.+.+...|++++|...+
T Consensus       885 ---~~~~~~~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL  961 (1139)
T 4fhn_B          885 ---FQEIAEKYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVAL  961 (1139)
T ss_dssp             ---HHHHHHTTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHH
T ss_pred             ---cccccccccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHH
Confidence               111111111  1122346667777777777776665543322    211    225788888888999999998888


Q ss_pred             HHHHhcCCCCCChhhHHHHHHHhhccch
Q 038303          198 QEMEKTKEAEPNEATLVNVLSACSSISA  225 (461)
Q Consensus       198 ~~m~~~~~~~~~~~~~~~~l~~~~~~~~  225 (461)
                      ..+.... .  -...+..++...+..+.
T Consensus       962 ~~~pd~~-~--r~~cLr~LV~~lce~~~  986 (1139)
T 4fhn_B          962 MVLSTTP-L--KKSCLLDFVNQLTKQGK  986 (1139)
T ss_dssp             HHHHHSS-S--CHHHHHHHHHHHHHHCC
T ss_pred             HhCCCHH-H--HHHHHHHHHHHHHhCCC
Confidence            8776533 2  23344455555554443

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=92.45  E-value=8.4  Score=40.18  Aligned_cols=22  Identities=18%  Similarity=0.273  Sum_probs=12.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHc
Q 038303          251 AVINMYVKCGDVGIAIQVFNML  272 (461)
Q Consensus       251 ~li~~~~~~g~~~~a~~~~~~~  272 (461)
                      .+..+|...|++++|.+.|.+.
T Consensus       847 l~g~~~L~~ge~~~A~~~F~ka  868 (1139)
T 4fhn_B          847 LKALIYLKSKEAVKAVRCFKTT  868 (1139)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTC
T ss_pred             HHHHHHHhcCCHHHHHHHHHHH
Confidence            3444555556666666666544

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=92.45  E-value=4.7  Score=34.54  Aligned_cols=152  Identities=12%  Similarity=0.077  Sum_probs=87.9

Q ss_pred             CHHHHHHHHHHHHHhCCC-ccHHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCceeHHHHHHHHHcCCChHHHHH------
Q 038303           25 PHQKALEIHAHVIEYGHL-HDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWTTIISGLSKCGFHKEAID------   97 (461)
Q Consensus        25 ~~~~a~~~~~~~~~~~~~-~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~------   97 (461)
                      .+++.+.-++.-.+.|-- --...|.++..-|.+.+++++|.+++...           ...+.+.|+...|-+      
T Consensus        12 ~~~r~l~rl~~~I~~G~yYEAhQ~~Rtl~~Ry~~~~~~~eAidlL~~g-----------a~~ll~~~Q~~sa~DLa~llv   80 (312)
T 2wpv_A           12 KLAKTLQRFENKIKAGDYYEAHQTLRTIANRYVRSKSYEHAIELISQG-----------ALSFLKAKQGGSGTDLIFYLL   80 (312)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH-----------HHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcCHHHHHHHHHHH-----------HHHHHHCCCcchHHHHHHHHH
Confidence            345555555555555521 13346777778888888999988887543           123344455544433      


Q ss_pred             -HHhcCCCCCCchhHHHHHHHhcccchhH-HHHHHHHHHHh----hc--CCCChhHHHHHHHHHHHcCChhhHHHHHhcC
Q 038303           98 -MFCGIDVKPNANTLVSVLSACSSLVSHK-LGKAIHAHSLR----NL--NENNIILDNAILDFYIRCGSLASCGYLFVKM  169 (461)
Q Consensus        98 -~~~~m~~~p~~~~~~~ll~~~~~~~~~~-~a~~~~~~~~~----~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  169 (461)
                       +|++.+.+++......++..+.....-+ .-.++++.+++    .|  ..-++..+..+...|.+.|++.+|+..|-.-
T Consensus        81 ev~~~~~~~~~~~~~~rl~~l~~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~  160 (312)
T 2wpv_A           81 EVYDLAEVKVDDISVARLVRLIAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLG  160 (312)
T ss_dssp             HHHHHTTCCCSHHHHHHHHHHHTTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHTS
T ss_pred             HHHHHcCCCCCHHHHHHHHHHHHHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHhC
Confidence             3333366777766666666654432111 12333333332    22  2236777888888999999999988877643


Q ss_pred             CCCchhHHHHHHHHHHhc
Q 038303          170 PKRNVVSWTTMIGGYAER  187 (461)
Q Consensus       170 ~~~~~~~~~~li~~~~~~  187 (461)
                      ...+...+..++.-+.+.
T Consensus       161 ~~~s~~~~a~~l~~w~~~  178 (312)
T 2wpv_A          161 THDSMIKYVDLLWDWLCQ  178 (312)
T ss_dssp             CHHHHHHHHHHHHHHHHH
T ss_pred             CCccHHHHHHHHHHHHHh
Confidence            333555666665555544

>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=92.21  E-value=8.3  Score=36.84  Aligned_cols=242  Identities=7%  Similarity=-0.123  Sum_probs=117.8

Q ss_pred             ChHHHHHHHHHHHhcCCCCCChh--hHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHH
Q 038303          189 FCKEAVSVFQEMEKTKEAEPNEA--TLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAI  266 (461)
Q Consensus       189 ~~~~a~~~~~~m~~~~~~~~~~~--~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  266 (461)
                      +.+.|...+....+.....+...  ....+.......+....+...+.....   ...+.....-.+....+.|+++.|.
T Consensus       229 d~~~A~~~~~~~~~~~~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~e~~~r~Alr~~d~~~a~  305 (618)
T 1qsa_A          229 DAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIM---RSQSTSLIERRVRMALGTGDRRGLN  305 (618)
T ss_dssp             CHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHH---TCCCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CHHHHHHHHHhhhhccCCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhccc---cCCChHHHHHHHHHHHHCCCHHHHH
Confidence            67888888887765431222221  112222233344423444444444332   1233333344445556778888888


Q ss_pred             HHHHHccCCC---hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcC
Q 038303          267 QVFNMLAYKD---KISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYE  343 (461)
Q Consensus       267 ~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  343 (461)
                      ..|+.|....   ..-.-=+..++...|+.++|..+|+.+.+.    . .-|..+.  ..+.|..-..       .. ..
T Consensus       306 ~~~~~l~~~~~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~~----~-~fYg~lA--a~~Lg~~~~~-------~~-~~  370 (618)
T 1qsa_A          306 TWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQQ----R-GFYPMVA--AQRIGEEYEL-------KI-DK  370 (618)
T ss_dssp             HHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS----C-SHHHHHH--HHHTTCCCCC-------CC-CC
T ss_pred             HHHHHccccccccHhHHHHHHHHHHHcCCHHHHHHHHHHHhcC----C-ChHHHHH--HHHcCCCCCC-------CC-CC
Confidence            8888887542   122223445667788888888888888642    1 2233332  1222211000       00 00


Q ss_pred             CCCC-cc-----hHHHHHHHHhhcCCHHHHHHHHHhCCCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCC---CCh
Q 038303          344 IVPQ-MQ-----HYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKG---VSV  414 (461)
Q Consensus       344 ~~~~-~~-----~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~  414 (461)
                      ..+. ..     .-..-+..+...|....|...+.......+......+.......|....++...........   .-+
T Consensus       371 ~~~~~~~~~~~~~~~~r~~~L~~~g~~~~a~~ew~~~~~~~~~~~~~~la~~a~~~~~~~~~v~~~~~~~~~~~~~~~~P  450 (618)
T 1qsa_A          371 APQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKSKSKTEQAQLARYAFNNQWWDLSVQATIAGKLWDHLEERFP  450 (618)
T ss_dssp             CCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHTTCTTCHHHHSC
T ss_pred             CChhHHhhhccChHHHHHHHHHHCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhcchhhhCC
Confidence            0110 00     11123456778899999988887762122323233343445667777777655544332110   012


Q ss_pred             hHHHHHHHHHhccCChhhHHHHHHHHHHcCCccc
Q 038303          415 GTFALMSNTFAGADRWEDTNKIRDEIRRMGLKKK  448 (461)
Q Consensus       415 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~~~  448 (461)
                      ..|..++..+.+.-.++.++-.---..+.+..|.
T Consensus       451 ~~y~~~i~~~a~~~gv~~~ll~Ai~~~ES~f~p~  484 (618)
T 1qsa_A          451 LAYNDLFKRYTSGKEIPQSYAMAIARQESAWNPK  484 (618)
T ss_dssp             CTTHHHHHHHHTTSSSCHHHHHHHHHHHHTTCTT
T ss_pred             cchHHHHHHHHHHcCCCHHHHHHHHHHhCCCCCC
Confidence            2355555555555555554433333345555554

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=90.47  E-value=2.6  Score=30.54  Aligned_cols=63  Identities=11%  Similarity=0.179  Sum_probs=51.3

Q ss_pred             ChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHH
Q 038303          292 CGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVD  356 (461)
Q Consensus       292 ~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  356 (461)
                      +.-+..+-++.+....+.|++......+++|.+.+++..|.++|+.++.+.|  +...+|..+++
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~~--~~~~iY~y~lq  130 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAG--PHKEIYPYVIQ  130 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT--TCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhcC--CchhhHHHHHH
Confidence            4445677777888888999999999999999999999999999999988443  44666777764

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=90.26  E-value=2.1  Score=32.46  Aligned_cols=122  Identities=12%  Similarity=0.056  Sum_probs=63.5

Q ss_pred             CCCCCH--hHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCc-------chHHHHHHHHhhcCCHHHHHHHHHhC---
Q 038303          307 AVFPDD--VTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQM-------QHYACVVDMYGRAGLLEEAEAFIREM---  374 (461)
Q Consensus       307 g~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~---  374 (461)
                      |..|..  .++-.-++.+...|.++.|+-+.+.+....+..|+.       .++..+.+++...|++..|...|++.   
T Consensus        13 ~~~~~~~~~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~   92 (167)
T 3ffl_A           13 GLVPRGSHMNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQ   92 (167)
T ss_dssp             --------CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCCCCccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHH
Confidence            444433  234444566777778888777777655533333442       24455667777777777777777764   


Q ss_pred             -CCCchh-hHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHH
Q 038303          375 -PIEAEW-SVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEI  440 (461)
Q Consensus       375 -~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  440 (461)
                       ..-+.. .+...+ ..  ......         ....+.+...-..+..+|.+.|++++|+.+++.+
T Consensus        93 ~k~l~k~~s~~~~~-~~--~ss~p~---------s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~I  148 (167)
T 3ffl_A           93 KKALSKTSKVRPST-GN--SASTPQ---------SQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGI  148 (167)
T ss_dssp             HHCC--------------------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTS
T ss_pred             HHHHhcCCCccccc-cc--cCCCcc---------cccccchHHHHHHHHHHHHHHCCHHHHHHHHhcC
Confidence             110111 000000 00  000000         0011234467778999999999999999998654

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=90.12  E-value=17  Score=36.54  Aligned_cols=251  Identities=8%  Similarity=-0.042  Sum_probs=136.7

Q ss_pred             HHHHcCChhhHHHHHhcCCC----Cc--hhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCC------CCChhhHHHHHHH
Q 038303          152 FYIRCGSLASCGYLFVKMPK----RN--VVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEA------EPNEATLVNVLSA  219 (461)
Q Consensus       152 ~~~~~g~~~~a~~~~~~~~~----~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~------~~~~~~~~~~l~~  219 (461)
                      +....|+.++++.+++....    .+  +..=..+.-+....|..+++..++.........      .+....-..+--+
T Consensus       383 GlIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLG  462 (963)
T 4ady_A          383 GVIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIG  462 (963)
T ss_dssp             HHHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHH
T ss_pred             hhhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHH
Confidence            45677888999999988764    12  122233444566677667788887776654210      0111111122112


Q ss_pred             --hhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccC-CChhhHH--HHHHHHHhcCChH
Q 038303          220 --CSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAY-KDKISWS--TVISGLAMNGCGR  294 (461)
Q Consensus       220 --~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-~~~~~~~--~l~~~~~~~~~~~  294 (461)
                        +.-.++. ++...+..+.............-+|...+.-.|+-+....++..+.+ .+.....  .+.-++...|+.+
T Consensus       463 la~~GS~~e-ev~e~L~~~L~dd~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~~e~vrR~aalgLGll~~g~~e  541 (963)
T 4ady_A          463 LAAMGSANI-EVYEALKEVLYNDSATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQHGNITRGLAVGLALINYGRQE  541 (963)
T ss_dssp             HHSTTCCCH-HHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCGG
T ss_pred             HHhcCCCCH-HHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhhhCCChH
Confidence              2222333 33444444333111100111222344445567887777777776543 2333333  3334455789999


Q ss_pred             HHHHHHHHHHhcCCCCCH-hHHH---HHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHH
Q 038303          295 QALQLFSLMIINAVFPDD-VTFI---ALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAF  370 (461)
Q Consensus       295 ~a~~~~~~m~~~g~~p~~-~~~~---~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  370 (461)
                      .+..+++.+...   .+. .-|.   .+.-+|+..|+.....++++.+..+  ...++.-...+.-++...|+.+.+.++
T Consensus       542 ~~~~li~~L~~~---~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d--~~d~VRraAViaLGlI~~g~~e~v~rl  616 (963)
T 4ady_A          542 LADDLITKMLAS---DESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSD--SNDDVRRAAVIALGFVLLRDYTTVPRI  616 (963)
T ss_dssp             GGHHHHHHHHHC---SCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHC--SCHHHHHHHHHHHHHHTSSSCSSHHHH
T ss_pred             HHHHHHHHHHhC---CCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccC--CcHHHHHHHHHHHHhhccCCHHHHHHH
Confidence            999999988763   233 2333   3344677899988888899888772  223343333444455557777777888


Q ss_pred             HHhC--CCCchhhHHHHHHHHHHhcCCh-HHHHHHHHHHhh
Q 038303          371 IREM--PIEAEWSVWGALLNACRIHRND-EMFDRIRQDLVN  408 (461)
Q Consensus       371 ~~~~--~~~p~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~  408 (461)
                      ++.+  ...|.+..-..+.-+....|.. ..+...+..+..
T Consensus       617 v~~L~~~~d~~VR~gAalALGli~aGn~~~~aid~L~~L~~  657 (963)
T 4ady_A          617 VQLLSKSHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK  657 (963)
T ss_dssp             TTTGGGCSCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc
Confidence            8766  3345554444444444444443 566777777654

>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=89.99  E-value=3.3  Score=28.26  Aligned_cols=48  Identities=21%  Similarity=0.207  Sum_probs=37.7

Q ss_pred             CCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHH
Q 038303          375 PIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSN  422 (461)
Q Consensus       375 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  422 (461)
                      ..-|++....+.+++|.+.+++..|.++++-++....+...+|..+++
T Consensus        40 DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~~~~~iY~~~lq   87 (109)
T 1v54_E           40 DLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVIQ   87 (109)
T ss_dssp             SBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHHH
T ss_pred             ccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCchhhHHHHHH
Confidence            566888888888999999999999999998888765544556776664

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=89.96  E-value=8.9  Score=33.13  Aligned_cols=152  Identities=13%  Similarity=0.086  Sum_probs=83.1

Q ss_pred             HHHHHHHHHHHHHhCCC----ccHHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCceeHHHHHHHHHcCCChHHHHHH---
Q 038303           26 HQKALEIHAHVIEYGHL----HDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWTTIISGLSKCGFHKEAIDM---   98 (461)
Q Consensus        26 ~~~a~~~~~~~~~~~~~----~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~---   98 (461)
                      +++.+.=++.-++.|--    --..+|.++..-|.+.+++++|.+++-+-           ...+.+.|+...|-++   
T Consensus        12 ~~~~i~rl~~~I~~G~y~~~YEAHQ~~RTi~~Ry~~~k~y~eAidLL~~G-----------A~~ll~~~Q~~sg~DL~~l   80 (336)
T 3lpz_A           12 IERIIARLQRRIAEGQPEEQYEAAQETRLVAARYSKQGNWAAAVDILASV-----------SQTLLRSGQGGSGGDLAVL   80 (336)
T ss_dssp             HHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH-----------HHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCccccHHHHHHHHHHHHHHhhcCHHHHHHHHHHH-----------HHHHHHCCCcchHHHHHHH
Confidence            44444444444554521    12236667777788889999998887543           1234445555444333   


Q ss_pred             ----HhcCCCCCCchhHHHHHHHhcccchhH-HHHHHHHHHH----hhc--CCCChhHHHHHHHHHHHcCChhhHHHHHh
Q 038303           99 ----FCGIDVKPNANTLVSVLSACSSLVSHK-LGKAIHAHSL----RNL--NENNIILDNAILDFYIRCGSLASCGYLFV  167 (461)
Q Consensus        99 ----~~~m~~~p~~~~~~~ll~~~~~~~~~~-~a~~~~~~~~----~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  167 (461)
                          |++.++++|.....-++..+.....-+ .-..+.+.++    +.|  ..-++.....+...|.+.+++.+|+..|-
T Consensus        81 lvevy~~~~~~~~~~~~~rL~~L~~~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~i  160 (336)
T 3lpz_A           81 LVDTFRQAGQRVDGASRGKLLGCLRLFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLV  160 (336)
T ss_dssp             HHHHHHHHTCCCCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHT
T ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH
Confidence                333367777766666666655443211 1122333333    223  33456677777888888888888887774


Q ss_pred             cCCCCchhHHHHHHHHHHhcC
Q 038303          168 KMPKRNVVSWTTMIGGYAERG  188 (461)
Q Consensus       168 ~~~~~~~~~~~~li~~~~~~~  188 (461)
                      .-.++....+..++.-+.+.+
T Consensus       161 lg~~~s~~~~a~mL~ew~~~~  181 (336)
T 3lpz_A          161 LGTKESPEVLARMEYEWYKQD  181 (336)
T ss_dssp             TSCTTHHHHHHHHHHHHHHTS
T ss_pred             hcCCchHHHHHHHHHHHHHhc
Confidence            323233355555554444433

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=88.66  E-value=11  Score=36.90  Aligned_cols=54  Identities=9%  Similarity=-0.031  Sum_probs=42.8

Q ss_pred             HHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCC
Q 038303          116 SACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMP  170 (461)
Q Consensus       116 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  170 (461)
                      +.|...|+++.|.++-++.+...+. +-.+|..|..+|.+.|+++.|+-.++.++
T Consensus       345 ~FLl~K~~~elAL~~Ak~AV~~aPs-eF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          345 NFLLNRGDYELALGVSNTSTELALD-SFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHHhccCcHHHHHHHHHHHHhcCch-hhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            3456678888888888887776444 67888888888999999988888888876

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=88.52  E-value=5.5  Score=33.05  Aligned_cols=54  Identities=17%  Similarity=0.044  Sum_probs=33.5

Q ss_pred             HHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHh
Q 038303          286 GLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMST  340 (461)
Q Consensus       286 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  340 (461)
                      .+.+.|++++|++....-++... -|...-..+++.+|-.|++++|.+-++...+
T Consensus         6 ~ll~~g~L~~al~~~~~~VR~~P-~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~   59 (273)
T 1zbp_A            6 NALSEGQLQQALELLIEAIKASP-KDASLRSSFIELLCIDGDFERADEQLMQSIK   59 (273)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCC-cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            34566677777766666666432 2445555666667777777777766666554

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=88.41  E-value=11  Score=32.22  Aligned_cols=169  Identities=7%  Similarity=-0.030  Sum_probs=90.7

Q ss_pred             HHHHHHHHHHHcCChhhHHHHHhcCCCCchhHHHHHHHHHHhcCChHHHHHH----HHHHHhcCCCCCChhhHHHHHHHh
Q 038303          145 LDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYAERGFCKEAVSV----FQEMEKTKEAEPNEATLVNVLSAC  220 (461)
Q Consensus       145 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~----~~~m~~~~~~~~~~~~~~~~l~~~  220 (461)
                      .|.++..-|.+.+++++|++++..-           ...+.+.|+...|.++    ++-..+.+ .+++......++..+
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            3455666677778888877764432           2345566766655554    33334445 777777766666665


Q ss_pred             hccc-----hhhhHHHHHHHHHhhcC-CCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCCChhhHHHHHHHHHhc---C
Q 038303          221 SSIS-----ALSFGKYVHSYISTRYD-LSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMN---G  291 (461)
Q Consensus       221 ~~~~-----~~~~a~~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~---~  291 (461)
                      ....     +..-..+....-.+..+ -.-++.....+...|.+.|++.+|+..|-.-...+...+..++.-+...   |
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            4422     12222333333333111 2235566778888888888888888766522222344444443333322   2


Q ss_pred             ChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHh
Q 038303          292 CGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMST  340 (461)
Q Consensus       292 ~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  340 (461)
                      ...++              +... ...+--|...++...|..+|+...+
T Consensus       183 ~~~e~--------------dlf~-~RaVL~yL~l~n~~~A~~~~~~f~~  216 (312)
T 2wpv_A          183 EDSTV--------------AEFF-SRLVFNYLFISNISFAHESKDIFLE  216 (312)
T ss_dssp             CHHHH--------------HHHH-HHHHHHHHHTTBHHHHHHHHHHHHH
T ss_pred             CcchH--------------HHHH-HHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            22221              1111 1112235567888888888887754

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=88.18  E-value=14  Score=32.97  Aligned_cols=165  Identities=10%  Similarity=0.002  Sum_probs=99.0

Q ss_pred             hhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcc---hHHHHHHHHHHhcC-CHHHHHHHHHHccC---CChhhH--
Q 038303          210 EATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSN---LVGNAVINMYVKCG-DVGIAIQVFNMLAY---KDKISW--  280 (461)
Q Consensus       210 ~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~li~~~~~~g-~~~~a~~~~~~~~~---~~~~~~--  280 (461)
                      ......+...|.+.|+.++...++.....-.+.-+-.   .....++..+.... ..+.-.++..+..+   ..-.+|  
T Consensus        19 e~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~~~r~flr   98 (394)
T 3txn_A           19 EQGILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAKQEKRTFLR   98 (394)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455667777888888888888887775533333322   23456666666543 33333444433331   122233  


Q ss_pred             ----HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH-----hHHHHHHHHHHcCCChHHHHHHHHHhHhhcC-CCCCcch
Q 038303          281 ----STVISGLAMNGCGRQALQLFSLMIINAVFPDD-----VTFIALISACSHGGLVDQGLILFKAMSTVYE-IVPQMQH  350 (461)
Q Consensus       281 ----~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~-----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~  350 (461)
                          ..++..|...|++.+|.+++.++.+.--..|.     ..|..-++.|...+++.++...+.......+ +.+++.+
T Consensus        99 ~~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i  178 (394)
T 3txn_A           99 QSLEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKV  178 (394)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHH
Confidence                24677888899999998888888764222232     3355556678888999999888887765322 2233333


Q ss_pred             HHHH----HHHHh-hcCCHHHHHHHHHhC
Q 038303          351 YACV----VDMYG-RAGLLEEAEAFIREM  374 (461)
Q Consensus       351 ~~~l----~~~~~-~~g~~~~A~~~~~~~  374 (461)
                      ...+    ...+. ..+++..|...|-+.
T Consensus       179 ~a~i~~~~Gi~~l~~~rdyk~A~~~F~ea  207 (394)
T 3txn_A          179 QGALDLQSGILHAADERDFKTAFSYFYEA  207 (394)
T ss_dssp             HHHHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHhccCHHHHHHHHHHH
Confidence            2221    22344 678888888877655

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=88.09  E-value=12  Score=32.29  Aligned_cols=168  Identities=9%  Similarity=0.024  Sum_probs=89.8

Q ss_pred             HHHHHHHHHHHcCChhhHHHHHhcCCCCchhHHHHHHHHHHhcCChHHHHHHH----HHHHhcCCCCCChhhHHHHHHHh
Q 038303          145 LDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYAERGFCKEAVSVF----QEMEKTKEAEPNEATLVNVLSAC  220 (461)
Q Consensus       145 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~----~~m~~~~~~~~~~~~~~~~l~~~  220 (461)
                      +|.++..-|.+.+++++|++++-.-           ...+.+.|+...|.++-    +-..+.+ +++|......++..+
T Consensus        37 ~~RTi~~Ry~~~k~y~eAidLL~~G-----------A~~ll~~~Q~~sg~DL~~llvevy~~~~-~~~~~~~~~rL~~L~  104 (336)
T 3lpz_A           37 ETRLVAARYSKQGNWAAAVDILASV-----------SQTLLRSGQGGSGGDLAVLLVDTFRQAG-QRVDGASRGKLLGCL  104 (336)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH-----------HHHHHHTTCHHHHHHHHHHHHHHHHHHT-CCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHHHH-----------HHHHHHCCCcchHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHH
Confidence            3455666677888888887764332           23455556655554443    3334444 677776666666665


Q ss_pred             hccchh-----hhHHHHHHHHHhhcC--CCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCCChhhHHHHHHHHHhcCCh
Q 038303          221 SSISAL-----SFGKYVHSYISTRYD--LSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCG  293 (461)
Q Consensus       221 ~~~~~~-----~~a~~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~  293 (461)
                      .....-     .-..+...+-.+ .|  -.-++.....+...|.+.+++.+|+..|-.-..+....|..++.-+...+..
T Consensus       105 ~~~~~~~p~r~~fi~~ai~WS~~-~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~ilg~~~s~~~~a~mL~ew~~~~~~  183 (336)
T 3lpz_A          105 RLFQPGEPVRKRFVKEMIDWSKK-FGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLVLGTKESPEVLARMEYEWYKQDES  183 (336)
T ss_dssp             TTSCTTCHHHHHHHHHHHHHHHH-HSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHTTSCTTHHHHHHHHHHHHHHTSCG
T ss_pred             HhCCCCCcHHHHHHHHHHHHHhh-cCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHhcCCchHHHHHHHHHHHHHhcCC
Confidence            544321     112222233333 23  2345566677888888999999888877422222224554444333333321


Q ss_pred             HHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHh
Q 038303          294 RQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMST  340 (461)
Q Consensus       294 ~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  340 (461)
                      .++              +...- ..+--|...++...|..+++...+
T Consensus       184 ~e~--------------dlfia-RaVL~yL~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          184 HTA--------------PLYCA-RAVLPYLLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             GGH--------------HHHHH-HHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccH--------------HHHHH-HHHHHHHHhCCHHHHHHHHHHHHH
Confidence            111              11111 222245667888888887776654

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=88.05  E-value=6.4  Score=28.99  Aligned_cols=73  Identities=8%  Similarity=-0.066  Sum_probs=48.7

Q ss_pred             CCCcchHHHHHHHHhhcCCHH---HHHHHHHhC-CCCc--hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHH
Q 038303          345 VPQMQHYACVVDMYGRAGLLE---EAEAFIREM-PIEA--EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTF  417 (461)
Q Consensus       345 ~~~~~~~~~l~~~~~~~g~~~---~A~~~~~~~-~~~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  417 (461)
                      .|+..+--.+..+++++...+   +++.++++. ...|  .......+.-++.+.|+++.|.++.+.+.+..|.+..+-
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP~n~QA~  114 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQVG  114 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCCCCHHHH
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHH
Confidence            566666666777777776654   566666666 2223  222334455558888888888888888888888876443

>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=87.93  E-value=7  Score=34.92  Aligned_cols=57  Identities=14%  Similarity=0.052  Sum_probs=31.2

Q ss_pred             HHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC
Q 038303          316 IALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM  374 (461)
Q Consensus       316 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  374 (461)
                      ..++..+...|++++|...+..+..  ..+-+...+..++.++.+.|+..+|++.|++.
T Consensus       175 ~~~~~~~l~~g~~~~a~~~l~~~~~--~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~  231 (388)
T 2ff4_A          175 TAKAEAEIACGRASAVIAELEALTF--EHPYREPLWTQLITAYYLSDRQSDALGAYRRV  231 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3444445556666666655555544  23334455566666666666666666555543

>3eiq_C Programmed cell death protein 4; PDCD4, anti-oncogene, apoptosis, cell cycle, nucleus, phosph RNA-binding, ATP-binding, helicase, hydrolase; 3.50A {Mus musculus}

Probab=87.38  E-value=14  Score=32.29  Aligned_cols=64  Identities=16%  Similarity=0.268  Sum_probs=44.7

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHccCCC---hhhHHHHHHHHHhcCC--hHHHHHHHHHHHhcCCCCCHh
Q 038303          250 NAVINMYVKCGDVGIAIQVFNMLAYKD---KISWSTVISGLAMNGC--GRQALQLFSLMIINAVFPDDV  313 (461)
Q Consensus       250 ~~li~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~l~~~~~~~~~--~~~a~~~~~~m~~~g~~p~~~  313 (461)
                      +.++.-|...|+.++|...++++..|.   ......+..++-+.++  .+....++..+...|+-+...
T Consensus       221 ~~lL~EY~~s~D~~EA~~ci~EL~~p~fhhe~V~~av~~aLE~~~~~~re~~~~LL~~L~~~glls~~q  289 (358)
T 3eiq_C          221 DMLLKEYLLSGDISEAEHCLKELEVPHFHHELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITIDQ  289 (358)
T ss_dssp             HHHHHHHHHHCCHHHHHHHHHHHCCTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHTTCSCHHH
T ss_pred             HHHHHHhccCCCHHHHHHHHHHccCCcchHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCCCCHHH
Confidence            668888999999999999999998773   2344555555555433  355777888887776654443

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=87.10  E-value=3.2  Score=34.41  Aligned_cols=112  Identities=14%  Similarity=0.149  Sum_probs=77.9

Q ss_pred             HHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCch----hhHHHHHHHHHHhcC
Q 038303          320 SACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAE----WSVWGALLNACRIHR  394 (461)
Q Consensus       320 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~~  394 (461)
                      ....+.|++++|+.....-.+  .-+-|...-..|++.+|-.|+++.|.+-++.. ...|+    ...|..+|.+     
T Consensus         5 ~~ll~~g~L~~al~~~~~~VR--~~P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l~p~~~~~a~~yr~lI~a-----   77 (273)
T 1zbp_A            5 KNALSEGQLQQALELLIEAIK--ASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKA-----   77 (273)
T ss_dssp             HHHTTTTCHHHHHHHHHHHHH--TCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHH-----
T ss_pred             HHHHhCCCHHHHHHHHHHHHH--hCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhhHHHHHHHHHHHH-----
Confidence            456788999999999888777  55677888889999999999999999988877 33443    3345555544     


Q ss_pred             ChHHHHHHHHHHhhcC------CCChhHHHHHHHHHh--ccCChhhHHHHHHHHHHc
Q 038303          395 NDEMFDRIRQDLVNKK------GVSVGTFALMSNTFA--GADRWEDTNKIRDEIRRM  443 (461)
Q Consensus       395 ~~~~a~~~~~~~~~~~------~~~~~~~~~l~~~~~--~~g~~~~A~~~~~~m~~~  443 (461)
                           +..-.++..+.      .........++.+..  ..|+.++|.++-++..+.
T Consensus        78 -----E~~R~~vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e~  129 (273)
T 1zbp_A           78 -----AQARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  129 (273)
T ss_dssp             -----HHHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             -----HHHHHHHHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHhc
Confidence                 22222333311      122335556666655  469999999999988665

>3esl_A Checkpoint serine/threonine-protein kinase BUB1; mitotic spindle checkpoint, TPR motif, all-alpha domain, MAD3-like domain; HET: NHE; 1.74A {Saccharomyces cerevisiae}

Probab=86.93  E-value=8.1  Score=30.41  Aligned_cols=52  Identities=6%  Similarity=-0.088  Sum_probs=22.4

Q ss_pred             hHHHHHHHHHHhh--cCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcCCcc
Q 038303          396 DEMFDRIRQDLVN--KKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGLKK  447 (461)
Q Consensus       396 ~~~a~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~~  447 (461)
                      ...+..+|..+..  .+..-+..|...+..+...|++++|.++++.=.+.+.+|
T Consensus        95 ~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A~P  148 (202)
T 3esl_A           95 FHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENNCRP  148 (202)
T ss_dssp             HHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBS
T ss_pred             cCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcc
Confidence            3344444444443  112233344444444444444444444444444444433

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=85.07  E-value=8  Score=28.07  Aligned_cols=51  Identities=20%  Similarity=0.188  Sum_probs=41.4

Q ss_pred             hCCCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHH
Q 038303          373 EMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNT  423 (461)
Q Consensus       373 ~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  423 (461)
                      .+..-|++....+.+++|.+.+|+..|.++++-++....+...+|..+++-
T Consensus        81 ~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~~~~~~iY~y~lqE  131 (152)
T 2y69_E           81 GYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVIQE  131 (152)
T ss_dssp             TSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHHHH
T ss_pred             ccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhcCCchhhHHHHHHH
Confidence            346679999999999999999999999999999988665556677776643

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=85.02  E-value=10  Score=31.64  Aligned_cols=53  Identities=11%  Similarity=-0.044  Sum_probs=28.1

Q ss_pred             HHHHHHHhhCCHHHHHHHHHHHHHhCCCccHH---HHHHHHHHHHhcCCHHHHHHHHhhC
Q 038303           15 QALKACSLAHPHQKALEIHAHVIEYGHLHDIF---IQNSLLHFYVTVKDIFSAHQIFNSV   71 (461)
Q Consensus        15 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~ll~~~~~~~~~~~a~~~~~~~   71 (461)
                      ..+...++.|+.+....    +.+.|..++..   .-.+.+...+..|+.+-+..+++.-
T Consensus         7 ~~L~~A~~~g~~~~v~~----Ll~~g~~~~~~~~~~g~t~L~~A~~~g~~~~v~~Ll~~g   62 (285)
T 1wdy_A            7 HLLIKAVQNEDVDLVQQ----LLEGGANVNFQEEEGGWTPLHNAVQMSREDIVELLLRHG   62 (285)
T ss_dssp             HHHHHHHHTTCHHHHHH----HHHTTCCTTCCCTTTCCCHHHHHHHTTCHHHHHHHHHTT
T ss_pred             hHHHHHHHcCCHHHHHH----HHHcCCCcccccCCCCCcHHHHHHHcCCHHHHHHHHHcC
Confidence            34455566777654443    34445443321   1123455556677777777666654

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=83.75  E-value=7.4  Score=35.32  Aligned_cols=60  Identities=10%  Similarity=-0.063  Sum_probs=25.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC--HhHHHHHHHHHHcCCChHHHHHHHHHhH
Q 038303          280 WSTVISGLAMNGCGRQALQLFSLMIINAVFPD--DVTFIALISACSHGGLVDQGLILFKAMS  339 (461)
Q Consensus       280 ~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~  339 (461)
                      +..+...|.+.|+++.|.+.+.++......+.  ...+-.+++.+...+++..+...++++.
T Consensus       134 ~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~  195 (429)
T 4b4t_R          134 WINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVN  195 (429)
T ss_dssp             CHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            33344444444444444444444443222211  1333444444444455555544444443

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=82.94  E-value=19  Score=29.85  Aligned_cols=115  Identities=13%  Similarity=0.038  Sum_probs=59.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhCCCCCce----eHHHHHHHHHcCCChHHHHHHHhcCCCCCCc---hhHHHHHHHhcccc
Q 038303           50 SLLHFYVTVKDIFSAHQIFNSVVFPDVV----SWTTIISGLSKCGFHKEAIDMFCGIDVKPNA---NTLVSVLSACSSLV  122 (461)
Q Consensus        50 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~li~~~~~~~~~~~a~~~~~~m~~~p~~---~~~~~ll~~~~~~~  122 (461)
                      +.+...++.|+.+.+..+++.-..++..    .+ +.+...+..|+.+-+..+++. |..|+.   .-.+ .+...+..|
T Consensus         7 ~~L~~A~~~g~~~~v~~Ll~~g~~~~~~~~~~g~-t~L~~A~~~g~~~~v~~Ll~~-g~~~~~~~~~g~t-~L~~A~~~~   83 (285)
T 1wdy_A            7 HLLIKAVQNEDVDLVQQLLEGGANVNFQEEEGGW-TPLHNAVQMSREDIVELLLRH-GADPVLRKKNGAT-PFLLAAIAG   83 (285)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTTCC-CHHHHHHHTTCHHHHHHHHHT-TCCTTCCCTTCCC-HHHHHHHHT
T ss_pred             hHHHHHHHcCCHHHHHHHHHcCCCcccccCCCCC-cHHHHHHHcCCHHHHHHHHHc-CCCCcccCCCCCC-HHHHHHHcC
Confidence            4455667889998888888876433322    22 334445566777665555544 333322   1122 223333445


Q ss_pred             hhHHHHHHHHHHHhhcCCCChhH--HHHHHHHHHHcCChhhHHHHHhcCCC
Q 038303          123 SHKLGKAIHAHSLRNLNENNIIL--DNAILDFYIRCGSLASCGYLFVKMPK  171 (461)
Q Consensus       123 ~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~g~~~~a~~~~~~~~~  171 (461)
                      +.+    +++.+.+.|..++...  -.+.+...+..|+.+-...+++.-..
T Consensus        84 ~~~----~v~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~~~~~Ll~~g~~  130 (285)
T 1wdy_A           84 SVK----LLKLFLSKGADVNECDFYGFTAFMEAAVYGKVKALKFLYKRGAN  130 (285)
T ss_dssp             CHH----HHHHHHHTTCCTTCBCTTCCBHHHHHHHTTCHHHHHHHHHTTCC
T ss_pred             CHH----HHHHHHHcCCCCCccCcccCCHHHHHHHhCCHHHHHHHHHhCCC
Confidence            544    4444455555443221  12234445667777776666665443

>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=82.56  E-value=12  Score=27.20  Aligned_cols=29  Identities=17%  Similarity=0.135  Sum_probs=15.1

Q ss_pred             HHHHHHhcCChHHHHHHHHHHhhcCCCCh
Q 038303          386 LLNACRIHRNDEMFDRIRQDLVNKKGVSV  414 (461)
Q Consensus       386 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  414 (461)
                      +.-++.+.|+++.|.++.+.+.+..|.+.
T Consensus        84 LAvg~yklgdY~~Ar~y~d~lL~~eP~N~  112 (134)
T 3o48_A           84 LTIGCYKLGEYSMAKRYVDTLFEHERNNK  112 (134)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHTTCTTCH
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHhhCCCCH
Confidence            33335555555555555555555555554

>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic}

Probab=82.41  E-value=17  Score=28.80  Aligned_cols=47  Identities=9%  Similarity=0.028  Sum_probs=19.0

Q ss_pred             ChhHHHHHHHHHHHcCChhhHHHHHhcCCCCchhHHHHHHHHHHhcC
Q 038303          142 NIILDNAILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYAERG  188 (461)
Q Consensus       142 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~  188 (461)
                      +..+-...+..+.+.|..+....+.+.+..++...-...+.++.+.+
T Consensus        32 ~~~vR~~A~~~L~~~~~~~~~~~L~~~l~~~~~~vr~~a~~aL~~~~   78 (211)
T 3ltm_A           32 SYYVRRAAAYALGKIGDERAVEPLIKALKDEDAWVRRAAADALGQIG   78 (211)
T ss_dssp             SHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSCHHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHhCCccHHHHHHHHHcCCCHHHHHHHHHHHHhhC
Confidence            44444444444444444333333333333344333333333443333

>4a1g_A Mitotic checkpoint serine/threonine-protein kinas; cell cycle, transferase, spindle assembly checkpoint, mitosi repeat, KNL1, KMN network; 2.60A {Homo sapiens} PDB: 2lah_A

Probab=81.25  E-value=15  Score=27.47  Aligned_cols=50  Identities=6%  Similarity=0.058  Sum_probs=37.1

Q ss_pred             HHHHHHHHhhc--CCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcCCccc
Q 038303          399 FDRIRQDLVNK--KGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGLKKK  448 (461)
Q Consensus       399 a~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~~~  448 (461)
                      +..+|..+.+.  ...-+..|...+..+...|++++|.++++.-.+.+.+|-
T Consensus        84 p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~Gi~~~A~P~  135 (152)
T 4a1g_A           84 LHQFFEFLYNHGIGTLSSPLYIAWAGHLEAQGELQHASAVLQRGIQNQAEPR  135 (152)
T ss_dssp             HHHHHHHHHTTTTTTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBSH
T ss_pred             HHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCccH
Confidence            67777777763  345566778888888888888888888888777777664

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=81.08  E-value=25  Score=31.79  Aligned_cols=96  Identities=9%  Similarity=-0.003  Sum_probs=56.9

Q ss_pred             hHHHHHHHHHHcCCChHHHHHHHHHhHhhc-CCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC----CCCchhhHHHH--
Q 038303          313 VTFIALISACSHGGLVDQGLILFKAMSTVY-EIVPQMQHYACVVDMYGRAGLLEEAEAFIREM----PIEAEWSVWGA--  385 (461)
Q Consensus       313 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~p~~~~~~~--  385 (461)
                      .+...+...|.+.|+++.|.+.+.++.... +...-...+-.+++.+...+++..+...+.++    ...++....+.  
T Consensus       132 ~~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk  211 (429)
T 4b4t_R          132 QAWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYK  211 (429)
T ss_dssp             SCCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHH
Confidence            356667777778888888888887776622 11222456666777777778888877777766    11222221111  


Q ss_pred             HHHH--HHhcCChHHHHHHHHHHhh
Q 038303          386 LLNA--CRIHRNDEMFDRIRQDLVN  408 (461)
Q Consensus       386 l~~~--~~~~~~~~~a~~~~~~~~~  408 (461)
                      .-.+  +...+++..|-..|-....
T Consensus       212 ~~~gl~~l~~r~f~~Aa~~f~e~~~  236 (429)
T 4b4t_R          212 TYYGIHCLAVRNFKEAAKLLVDSLA  236 (429)
T ss_dssp             HHHHHGGGGTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhChHHHHHHHHHHHhc
Confidence            1111  3456777777766666554

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=81.01  E-value=30  Score=30.82  Aligned_cols=91  Identities=7%  Similarity=0.003  Sum_probs=47.1

Q ss_pred             HHHHHHHHHHcCChhhHHHHHhcCCC--------CchhHHHHHHHHHHhc-CChHHHHHHHHHHHhcCCCCCChhhH---
Q 038303          146 DNAILDFYIRCGSLASCGYLFVKMPK--------RNVVSWTTMIGGYAER-GFCKEAVSVFQEMEKTKEAEPNEATL---  213 (461)
Q Consensus       146 ~~~l~~~~~~~g~~~~a~~~~~~~~~--------~~~~~~~~li~~~~~~-~~~~~a~~~~~~m~~~~~~~~~~~~~---  213 (461)
                      ...|...|.+.|+.++...++.....        ...-.-..++..+... +..+.-.++..+..+.  ...+..+|   
T Consensus        22 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~--a~~~~r~flr~   99 (394)
T 3txn_A           22 ILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEW--AKQEKRTFLRQ   99 (394)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHH--HHHTTCHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHH--HHHHHHHHHHH
Confidence            35588889999999998888887764        1222344555555443 2233333333333332  11111222   


Q ss_pred             ---HHHHHHhhccchhhhHHHHHHHHHh
Q 038303          214 ---VNVLSACSSISALSFGKYVHSYIST  238 (461)
Q Consensus       214 ---~~~l~~~~~~~~~~~a~~~~~~~~~  238 (461)
                         .-+...|...|++.+|..++..+.+
T Consensus       100 ~l~~kL~~l~~~~~~y~~a~~~i~~l~~  127 (394)
T 3txn_A          100 SLEARLIALYFDTALYTEALALGAQLLR  127 (394)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence               1334445555555555555555544

>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic}

Probab=80.98  E-value=19  Score=28.47  Aligned_cols=48  Identities=15%  Similarity=0.045  Sum_probs=21.1

Q ss_pred             cchHHHHHHHHHHhcCCHHHHHHHHHHccCCChhhHHHHHHHHHhcCC
Q 038303          245 SNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGC  292 (461)
Q Consensus       245 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~  292 (461)
                      +..+-...+.++.+.++.+....+.+.+..++...-...+.++.+.+.
T Consensus        94 ~~~vr~~a~~aL~~~~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~~~~  141 (211)
T 3ltm_A           94 DGWVRQSAAVALGQIGDERAVEPLIKALKDEDWFVRIAAAFALGEIGD  141 (211)
T ss_dssp             SHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHCC
T ss_pred             CHHHHHHHHHHHHHhCcHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCC
Confidence            333444444444444444333333333334444444444444444444

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=80.75  E-value=15  Score=27.10  Aligned_cols=70  Identities=6%  Similarity=-0.059  Sum_probs=36.5

Q ss_pred             CCCHhHHHHHHHHHHcCCC---hHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCch
Q 038303          309 FPDDVTFIALISACSHGGL---VDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAE  379 (461)
Q Consensus       309 ~p~~~~~~~ll~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~  379 (461)
                      .|+..+--.+..++.++.+   ..+++.+++.+.+ .+-.-.....-.|.-++.+.|++++|.++.+.+ ...|+
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~-~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP~  109 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYK-EAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERN  109 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHH-HCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCCC
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHh-cCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCC
Confidence            4555554445555555443   3355666666655 221122333444555666667777776666665 44443

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	461
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.93
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.92
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.61
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.6
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.28
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.17
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.16
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.16
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.14
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.12
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.1
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.06
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.05
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.02
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.69
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.68
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.65
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.62
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.6
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.59
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.56
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.55
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.53
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.45
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.44
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.39
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.37
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.33
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.26
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.24
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.2
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.16
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.15
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.15
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.14
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.09
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.06
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.05
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.04
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.98
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.93
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.89
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.86
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.79
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.7
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.6
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.59
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.54
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.52
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.48
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.41
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	97.36
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.24
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.14
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.03
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	96.85
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	95.48
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	95.24
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	93.86
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	93.73
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	93.65
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	92.68
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	91.71
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	88.97

>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=99.93  E-value=1.6e-22  Score=183.26  Aligned_cols=374  Identities=10%  Similarity=-0.013  Sum_probs=251.5

Q ss_pred             HHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCceeHHHHHHHHHcCCCh
Q 038303           16 ALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVV---FPDVVSWTTIISGLSKCGFH   92 (461)
Q Consensus        16 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~~~~   92 (461)
                      +...+.+.|++++|.+.++.+.+..+ -++.++..+..+|.+.|++++|...|++..   +.+..+|..+...+.+.|++
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~p-~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~g~~   83 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQEP-DNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhhhhccc
Confidence            34556677888888888888877653 256677777777778888888888887762   23445666666777777777


Q ss_pred             HHHHHHHhcC-CCCCC-chhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHhcCC
Q 038303           93 KEAIDMFCGI-DVKPN-ANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFVKMP  170 (461)
Q Consensus        93 ~~a~~~~~~m-~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  170 (461)
                      ++|++.+... ...|. ..............+....+............                               
T Consensus        84 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------------------------------  132 (388)
T d1w3ba_          84 QEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNP-------------------------------  132 (388)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCT-------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccc-------------------------------
Confidence            7777766665 22222 22222222222222222222222222222211                               


Q ss_pred             CCchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHH
Q 038303          171 KRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGN  250 (461)
Q Consensus       171 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  250 (461)
                       ................+....+...+.+....  .+.+...+..+...+...|+.+.|...++...+.  .+-+...+.
T Consensus       133 -~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~  207 (388)
T d1w3ba_         133 -DLYCVRSDLGNLLKALGRLEEAKACYLKAIET--QPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTL--DPNFLDAYI  207 (388)
T ss_dssp             -TCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH--CTTCHHHHH
T ss_pred             -ccccccccccccccccchhhhhHHHHHHhhcc--CcchhHHHHhhcccccccCcHHHHHHHHHHHHHh--CcccHHHHH
Confidence             22233333344444555555555555555543  2333444555555555666666666666655541  122344566


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHccC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCC
Q 038303          251 AVINMYVKCGDVGIAIQVFNMLAY---KDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGL  327 (461)
Q Consensus       251 ~li~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~  327 (461)
                      .+...+...|++++|...++....   .+...+..+...+.+.|++++|...|++..+... -+..++..+...+...|+
T Consensus       208 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~  286 (388)
T d1w3ba_         208 NLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQP-HFPDAYCNLANALKEKGS  286 (388)
T ss_dssp             HHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCS-SCHHHHHHHHHHHHHHSC
T ss_pred             HHhhhhhccccHHHHHHHHHHhHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCC
Confidence            777778888888888888876652   3556777788888899999999999999887532 245778888888999999


Q ss_pred             hHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCch-hhHHHHHHHHHHhcCChHHHHHHHHH
Q 038303          328 VDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAE-WSVWGALLNACRIHRNDEMFDRIRQD  405 (461)
Q Consensus       328 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~  405 (461)
                      +++|...++....  ..+.+...+..+...+.+.|++++|.+.+++. ...|+ ..++..+...+...|++++|+..+++
T Consensus       287 ~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~  364 (388)
T d1w3ba_         287 VAEAEDCYNTALR--LCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKE  364 (388)
T ss_dssp             HHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHhhhc--cCCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            9999999988877  45567778888899999999999999999987 55554 45677788889999999999999999


Q ss_pred             HhhcCCCChhHHHHHHHHHhccCC
Q 038303          406 LVNKKGVSVGTFALMSNTFAGADR  429 (461)
Q Consensus       406 ~~~~~~~~~~~~~~l~~~~~~~g~  429 (461)
                      +++..|.++.+|..++.+|.+.||
T Consensus       365 al~l~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         365 AIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHhCCCCHHHHHHHHHHHHHcCC
Confidence            999999999999999999988875

>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=99.92  E-value=1.5e-21  Score=176.80  Aligned_cols=352  Identities=11%  Similarity=0.023  Sum_probs=270.3

Q ss_pred             HHHHcCCChHHHHHHHhcC-CCCC-CchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhh
Q 038303           84 SGLSKCGFHKEAIDMFCGI-DVKP-NANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLAS  161 (461)
Q Consensus        84 ~~~~~~~~~~~a~~~~~~m-~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  161 (461)
                      ..+.+.|++++|++.|+++ ...| +...+..+...+...|++++|...++.+++..+. +..++..+...|.+.|++++
T Consensus         7 ~~~~~~G~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~l~~~~~~~g~~~~   85 (388)
T d1w3ba_           7 HREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPL-LAEAYSNLGNVYKERGQLQE   85 (388)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHhhhhccccc
Confidence            3445566666666666666 4444 3445556666666777777777777777766544 56677778888888888888


Q ss_pred             HHHHHhcCCC---CchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHh
Q 038303          162 CGYLFVKMPK---RNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYIST  238 (461)
Q Consensus       162 a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~  238 (461)
                      |...+....+   .+...+..........+....+..........  ..................+....+...+.....
T Consensus        86 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  163 (388)
T d1w3ba_          86 AIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQY--NPDLYCVRSDLGNLLKALGRLEEAKACYLKAIE  163 (388)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHH--CTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccc--ccccccccccccccccccchhhhhHHHHHHhhc
Confidence            8888877654   33444455555566666666666666666554  444455555556666667777777777776655


Q ss_pred             hcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccC--C-ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHH
Q 038303          239 RYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAY--K-DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTF  315 (461)
Q Consensus       239 ~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~  315 (461)
                        ..+.+...+..+...+...|++++|...++...+  | +...|..+...+...|++++|...+++....+. .+...+
T Consensus       164 --~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~  240 (388)
T d1w3ba_         164 --TQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSP-NHAVVH  240 (388)
T ss_dssp             --HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCT-TCHHHH
T ss_pred             --cCcchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhh-hHHHHH
Confidence              2334456778888999999999999999987763  3 567888999999999999999999999988643 356778


Q ss_pred             HHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC--CCCchhhHHHHHHHHHHhc
Q 038303          316 IALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM--PIEAEWSVWGALLNACRIH  393 (461)
Q Consensus       316 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~  393 (461)
                      ..+...+.+.|++++|...|++..+  -.+-+...+..+...+...|++++|.+.++..  ..+.+...+..+...+...
T Consensus       241 ~~l~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~  318 (388)
T d1w3ba_         241 GNLACVYYEQGLIDLAIDTYRRAIE--LQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQ  318 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH--TCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHHHHC
Confidence            8888899999999999999999887  33445778889999999999999999999988  3344566777888889999


Q ss_pred             CChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHc
Q 038303          394 RNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRM  443 (461)
Q Consensus       394 ~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  443 (461)
                      |++++|+..++++++..|.++.++..++.+|.+.|++++|...+++..+.
T Consensus       319 ~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  368 (388)
T d1w3ba_         319 GNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI  368 (388)
T ss_dssp             TCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999998764

>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=99.61  E-value=6.9e-14  Score=122.57  Aligned_cols=242  Identities=7%  Similarity=-0.087  Sum_probs=134.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHH
Q 038303          177 WTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMY  256 (461)
Q Consensus       177 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~  256 (461)
                      +-.....+.+.|++++|...|++..+.  .|-+..++..+..++...|+++.|...+....+.  .+-+...+..+...|
T Consensus        22 ~~~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~   97 (323)
T d1fcha_          22 PFEEGLRRLQEGDLPNAVLLFEAAVQQ--DPKHMEAWQYLGTTQAENEQELLAISALRRCLEL--KPDNQTALMALAVSF   97 (323)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhcc--ccccccccccccccc
Confidence            334566788899999999999998884  3344667777777777777777777777777662  222345566666777


Q ss_pred             HhcCCHHHHHHHHHHccCCChh---hHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHH
Q 038303          257 VKCGDVGIAIQVFNMLAYKDKI---SWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLI  333 (461)
Q Consensus       257 ~~~g~~~~a~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~  333 (461)
                      ...|++++|.+.++.....+..   .+........                    ..+.......+..+...+.+.+|..
T Consensus        98 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~--------------------~~~~~~~~~~~~~~~~~~~~~~a~~  157 (323)
T d1fcha_          98 TNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAG--------------------GAGLGPSKRILGSLLSDSLFLEVKE  157 (323)
T ss_dssp             HHTTCHHHHHHHHHHHHHTSTTTGGGCC-----------------------------------CTTHHHHHHHHHHHHHH
T ss_pred             cccccccccccchhhHHHhccchHHHHHhhhhhhh--------------------hcccccchhhHHHHHHhhHHHHHHH
Confidence            7777777777777665421110   0000000000                    0000000011111222334445555


Q ss_pred             HHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCC
Q 038303          334 LFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKG  411 (461)
Q Consensus       334 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  411 (461)
                      .+........-.++...+..+...+...|++++|...+++. ...| +...|..+...+...|++++|++.++++++..|
T Consensus       158 ~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p  237 (323)
T d1fcha_         158 LFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQP  237 (323)
T ss_dssp             HHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccccccccchhhhhhcccccccchhHHHHHHHHHHHhh
Confidence            55554442222233445555556666666666666666655 2222 234455555556666666666666666666666


Q ss_pred             CChhHHHHHHHHHhccCChhhHHHHHHHHHH
Q 038303          412 VSVGTFALMSNTFAGADRWEDTNKIRDEIRR  442 (461)
Q Consensus       412 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  442 (461)
                      .++.++..++.+|.+.|++++|++.|++..+
T Consensus       238 ~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         238 GYIRSRYNLGISCINLGAHREAVEHFLEALN  268 (323)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            6666666666666666666666666666544

>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=99.60  E-value=1.1e-13  Score=121.37  Aligned_cols=266  Identities=12%  Similarity=-0.028  Sum_probs=189.0

Q ss_pred             HHHHHHHHcCChhhHHHHHhcCCC--C-chhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccc
Q 038303          148 AILDFYIRCGSLASCGYLFVKMPK--R-NVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSIS  224 (461)
Q Consensus       148 ~l~~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~  224 (461)
                      .....+.+.|++++|+..|+++.+  | +..+|..+..++...|++++|...|.+..+.  .+-+...+..+...+...|
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLEL--KPDNQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhcc--ccccccccccccccccccc
Confidence            466778899999999999999865  3 5678999999999999999999999999885  3445677888888999999


Q ss_pred             hhhhHHHHHHHHHhhcCCCCcchHH-HHHHHHHHhcCCHHHHHHHHHHccCCChhhHHHHHHHHHhcCChHHHHHHHHHH
Q 038303          225 ALSFGKYVHSYISTRYDLSVSNLVG-NAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLM  303 (461)
Q Consensus       225 ~~~~a~~~~~~~~~~~~~~~~~~~~-~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m  303 (461)
                      +++.|...++.....   .|+.... ....... .               ..+.......+..+...+.+++|.+.+.+.
T Consensus       102 ~~~~A~~~~~~~~~~---~~~~~~~~~~~~~~~-~---------------~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a  162 (323)
T d1fcha_         102 LQRQACEILRDWLRY---TPAYAHLVTPAEEGA-G---------------GAGLGPSKRILGSLLSDSLFLEVKELFLAA  162 (323)
T ss_dssp             CHHHHHHHHHHHHHT---STTTGGGCC-------------------------------CTTHHHHHHHHHHHHHHHHHHH
T ss_pred             cccccccchhhHHHh---ccchHHHHHhhhhhh-h---------------hcccccchhhHHHHHHhhHHHHHHHHHHHH
Confidence            999999999998762   2221110 0000000 0               001111111222334455677788888877


Q ss_pred             HhcCC-CCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hh
Q 038303          304 IINAV-FPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EW  380 (461)
Q Consensus       304 ~~~g~-~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~  380 (461)
                      .+... .++...+..+...+...|++++|+..|+....  ..+-+...|..+...|.+.|++++|.+.|++. ...| +.
T Consensus       163 l~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~  240 (323)
T d1fcha_         163 VRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALS--VRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYI  240 (323)
T ss_dssp             HHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHhhcccccccchhhHHHHHHHHHHhhhhcccccccc--cccccccchhhhhhcccccccchhHHHHHHHHHHHhhccH
Confidence            66432 23456777778888889999999999998876  23345677888899999999999999999887 3344 45


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChh-----------HHHHHHHHHhccCChhhHHHH
Q 038303          381 SVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVG-----------TFALMSNTFAGADRWEDTNKI  436 (461)
Q Consensus       381 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----------~~~~l~~~~~~~g~~~~A~~~  436 (461)
                      ..+..+..+|.+.|++++|+..|+++++..|.+..           .|..+..++...|+.+.+...
T Consensus       241 ~a~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~~~  307 (323)
T d1fcha_         241 RSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAA  307 (323)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            56778888899999999999999999886554433           456667777777777665443

>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=99.28  E-value=1.6e-09  Score=95.42  Aligned_cols=261  Identities=11%  Similarity=-0.022  Sum_probs=128.9

Q ss_pred             HHHHHHcCChhhHHHHHhcCCC--Cc------hhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhh
Q 038303          150 LDFYIRCGSLASCGYLFVKMPK--RN------VVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACS  221 (461)
Q Consensus       150 ~~~~~~~g~~~~a~~~~~~~~~--~~------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~  221 (461)
                      ...+...|++++|+.++++..+  |+      ..++..+...+...|++++|...|++..+.....++...         
T Consensus        19 A~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~---------   89 (366)
T d1hz4a_          19 AQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHY---------   89 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHH---------
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHH---------
Confidence            4445556666666666655422  11      124445555666666666666666655442101111100         


Q ss_pred             ccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccC-------C----ChhhHHHHHHHHHhc
Q 038303          222 SISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAY-------K----DKISWSTVISGLAMN  290 (461)
Q Consensus       222 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-------~----~~~~~~~l~~~~~~~  290 (461)
                                             ....+..+...+...|++..+...+.....       +    ....+..+...+...
T Consensus        90 -----------------------~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~  146 (366)
T d1hz4a_          90 -----------------------ALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAW  146 (366)
T ss_dssp             -----------------------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHT
T ss_pred             -----------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHh
Confidence                                   011223344445555555555555544321       1    012334445555666


Q ss_pred             CChHHHHHHHHHHHhcCCC----CCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCC-----cchHHHHHHHHhhc
Q 038303          291 GCGRQALQLFSLMIINAVF----PDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQ-----MQHYACVVDMYGRA  361 (461)
Q Consensus       291 ~~~~~a~~~~~~m~~~g~~----p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~  361 (461)
                      |+++.+...+.........    ....++......+...++...+...+........-...     ...+..+...+...
T Consensus       147 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  226 (366)
T d1hz4a_         147 ARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMT  226 (366)
T ss_dssp             TCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHT
T ss_pred             cchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhc
Confidence            6666666666665543211    11233344444455566666666655544331111111     12334445555666


Q ss_pred             CCHHHHHHHHHhC-CCCc-----hhhHHHHHHHHHHhcCChHHHHHHHHHHhh------cCCCChhHHHHHHHHHhccCC
Q 038303          362 GLLEEAEAFIREM-PIEA-----EWSVWGALLNACRIHRNDEMFDRIRQDLVN------KKGVSVGTFALMSNTFAGADR  429 (461)
Q Consensus       362 g~~~~A~~~~~~~-~~~p-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~------~~~~~~~~~~~l~~~~~~~g~  429 (461)
                      |++++|...+++. ...|     ....+..+...+...|++++|...++++..      ..|....++..++.+|.+.|+
T Consensus       227 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  306 (366)
T d1hz4a_         227 GDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGR  306 (366)
T ss_dssp             TCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             ccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCC
Confidence            6677776666655 1111     122334445556666777777766666653      123334566666667777777


Q ss_pred             hhhHHHHHHHHHH
Q 038303          430 WEDTNKIRDEIRR  442 (461)
Q Consensus       430 ~~~A~~~~~~m~~  442 (461)
                      +++|.+.+++..+
T Consensus       307 ~~~A~~~l~~Al~  319 (366)
T d1hz4a_         307 KSDAQRVLLDALK  319 (366)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            7777776666543

>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=99.17  E-value=4.3e-09  Score=92.52  Aligned_cols=290  Identities=9%  Similarity=-0.024  Sum_probs=165.9

Q ss_pred             HhcccchhHHHHHHHHHHHhhcCCCC----hhHHHHHHHHHHHcCChhhHHHHHhcCCC-----C----chhHHHHHHHH
Q 038303          117 ACSSLVSHKLGKAIHAHSLRNLNENN----IILDNAILDFYIRCGSLASCGYLFVKMPK-----R----NVVSWTTMIGG  183 (461)
Q Consensus       117 ~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~----~~~~~~~li~~  183 (461)
                      .+...|++++|.+++++.++..+..+    ...+..+...+...|++++|...|++..+     +    ....+..+...
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            35566777777777777766533322    23456667777888888888888776643     1    12345566777


Q ss_pred             HHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHH
Q 038303          184 YAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVG  263 (461)
Q Consensus       184 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  263 (461)
                      +...|++..+...+.+........+..                              ........+..+...+...|+++
T Consensus       101 ~~~~~~~~~a~~~~~~al~~~~~~~~~------------------------------~~~~~~~~~~~la~~~~~~~~~~  150 (366)
T d1hz4a_         101 LFAQGFLQTAWETQEKAFQLINEQHLE------------------------------QLPMHEFLVRIRAQLLWAWARLD  150 (366)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCT------------------------------TSTHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHhcccc------------------------------hhhHHHHHHHHHHHHHHHhcchh
Confidence            888899999998888765421000000                              00000112233444555556666


Q ss_pred             HHHHHHHHccCC--------ChhhHHHHHHHHHhcCChHHHHHHHHHHHhc----CCCCC--HhHHHHHHHHHHcCCChH
Q 038303          264 IAIQVFNMLAYK--------DKISWSTVISGLAMNGCGRQALQLFSLMIIN----AVFPD--DVTFIALISACSHGGLVD  329 (461)
Q Consensus       264 ~a~~~~~~~~~~--------~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~----g~~p~--~~~~~~ll~~~~~~~~~~  329 (461)
                      .+...+......        ....+......+...++...+...+.+....    +..+.  ...+..+...+...|+++
T Consensus       151 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  230 (366)
T d1hz4a_         151 EAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKA  230 (366)
T ss_dssp             HHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             hhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHH
Confidence            665555444310        1223444445556666777766666554431    11111  123444555566778888


Q ss_pred             HHHHHHHHhHhhcCCCC--CcchHHHHHHHHhhcCCHHHHHHHHHhC-------CCCchh-hHHHHHHHHHHhcCChHHH
Q 038303          330 QGLILFKAMSTVYEIVP--QMQHYACVVDMYGRAGLLEEAEAFIREM-------PIEAEW-SVWGALLNACRIHRNDEMF  399 (461)
Q Consensus       330 ~a~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p~~-~~~~~l~~~~~~~~~~~~a  399 (461)
                      .|...++.......-.+  ....+..+...+...|++++|...+++.       +..|+. ..+..+...|...|++++|
T Consensus       231 ~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  310 (366)
T d1hz4a_         231 AAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDA  310 (366)
T ss_dssp             HHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHH
Confidence            88887776655211111  1233445677778888888888877765       333332 3455566668888888888


Q ss_pred             HHHHHHHhhcCC---------CChhHHHHHHHHHhccCChhhHHHH
Q 038303          400 DRIRQDLVNKKG---------VSVGTFALMSNTFAGADRWEDTNKI  436 (461)
Q Consensus       400 ~~~~~~~~~~~~---------~~~~~~~~l~~~~~~~g~~~~A~~~  436 (461)
                      .+.+++..+..+         .....+..++..+...++.+++.+-
T Consensus       311 ~~~l~~Al~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~e~e~~  356 (366)
T d1hz4a_         311 QRVLLDALKLANRTGFISHFVIEGEAMAQQLRQLIQLNTLPELEQH  356 (366)
T ss_dssp             HHHHHHHHHHHHHHCCCHHHHTTHHHHHHHHHHHHHTTCSCHHHHH
T ss_pred             HHHHHHHHHHhhhcCcHHHHHHHHHHHHHHHHHHHhcCCChHHHHH
Confidence            888888765321         1233455566677777777776543

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.16  E-value=7e-09  Score=89.24  Aligned_cols=185  Identities=7%  Similarity=-0.038  Sum_probs=124.6

Q ss_pred             hhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCC---C-hhhHHHHHHHHHhcCChHHHHHHH
Q 038303          225 ALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYK---D-KISWSTVISGLAMNGCGRQALQLF  300 (461)
Q Consensus       225 ~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~-~~~~~~l~~~~~~~~~~~~a~~~~  300 (461)
                      ..+.+..+++...+ ...+.+...+...+..+.+.|+++.|..+|+.+.+.   + ...|...+..+.+.|+++.|.++|
T Consensus        79 ~~~~a~~i~~ral~-~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~  157 (308)
T d2onda1          79 FSDEAANIYERAIS-TLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHHHT-TTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             chHHHHHHHHHHHH-HcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHH
Confidence            45667777777765 333444556677777777888888888888776532   2 235777777777888888888888


Q ss_pred             HHHHhcCCCCCHhHHHHHHH-HHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC----C
Q 038303          301 SLMIINAVFPDDVTFIALIS-ACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM----P  375 (461)
Q Consensus       301 ~~m~~~g~~p~~~~~~~ll~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~  375 (461)
                      +++.+.+.. +...|..... -+...|+.+.|..+|+.+..  ..+.+...|...++.+.+.|+.+.|..+|++.    +
T Consensus       158 ~~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~--~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~  234 (308)
T d2onda1         158 KKAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLK--KYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGS  234 (308)
T ss_dssp             HHHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHH--HHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSS
T ss_pred             HHHHHhCCC-cHHHHHHHHHHHHHhccCHHHHHHHHHHHHH--hhhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC
Confidence            887775432 2333333332 23446778888888888877  24455677777888888888888888888876    2


Q ss_pred             CCch--hhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCC
Q 038303          376 IEAE--WSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVS  413 (461)
Q Consensus       376 ~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  413 (461)
                      ..|+  ...|...+..-...|+.+.+..+.+++.+..|..
T Consensus       235 ~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~~~~  274 (308)
T d2onda1         235 LPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFREE  274 (308)
T ss_dssp             SCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTTT
T ss_pred             CChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCccc
Confidence            3333  2356767776677788888888888777655443

>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=99.16  E-value=4.4e-10  Score=94.38  Aligned_cols=192  Identities=9%  Similarity=-0.081  Sum_probs=93.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHcc--C-CChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHc
Q 038303          248 VGNAVINMYVKCGDVGIAIQVFNMLA--Y-KDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSH  324 (461)
Q Consensus       248 ~~~~li~~~~~~g~~~~a~~~~~~~~--~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~  324 (461)
                      ++..+..+|.+.|++++|...|++..  . .++.+|+.+..++.+.|++++|++.|++..+.... +..++..+..++..
T Consensus        39 ~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~  117 (259)
T d1xnfa_          39 LLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPT-YNYAHLNRGIALYY  117 (259)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhh-hhhhHHHHHHHHHH
Confidence            44455566666666666666666554  2 24556666666666666666666666666664221 23455556666666


Q ss_pred             CCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCchhhHHHHHHHHHH----hcCChHHH
Q 038303          325 GGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAEWSVWGALLNACR----IHRNDEMF  399 (461)
Q Consensus       325 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~----~~~~~~~a  399 (461)
                      .|++++|...|+...+.  .+.+......+..++.+.+..+.+..+.... ...+....++ ++..+.    ..+..+.+
T Consensus       118 ~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~  194 (259)
T d1xnfa_         118 GGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWGWN-IVEFYLGNISEQTLMERL  194 (259)
T ss_dssp             TTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCSTHHH-HHHHHTTSSCHHHHHHHH
T ss_pred             HhhHHHHHHHHHHHHhh--ccccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccchhhhhhh-HHHHHHHHHHHHHHHHHH
Confidence            66666666666666551  1222332223333334444433333333322 1111111111 111111    11222222


Q ss_pred             HHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHc
Q 038303          400 DRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRM  443 (461)
Q Consensus       400 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  443 (461)
                      ...+.......|....+|..++..|...|++++|.+.+++....
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  238 (259)
T d1xnfa_         195 KADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN  238 (259)
T ss_dssp             HHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            22222222233344455666666666667777777766666543

>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=99.14  E-value=1.1e-08  Score=88.16  Aligned_cols=191  Identities=8%  Similarity=-0.022  Sum_probs=102.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccc-hhhhHHHHHHHHHhhcCCCCcchHHHHHHH
Q 038303          176 SWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSIS-ALSFGKYVHSYISTRYDLSVSNLVGNAVIN  254 (461)
Q Consensus       176 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  254 (461)
                      .|+.+...+.+.+.+++|+++++++++.  -|-+...|.....++...+ ++++|...++...+  ..+-+..+|..+..
T Consensus        45 a~~~~~~~~~~~e~~~~Al~~~~~ai~l--nP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~--~~p~~~~a~~~~~~  120 (315)
T d2h6fa1          45 VYDYFRAVLQRDERSERAFKLTRDAIEL--NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIE--EQPKNYQVWHHRRV  120 (315)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH--HCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHHH--CCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHH--HHHhhhhHHHHHhH
Confidence            4555555666666677777777777663  2223334444444444443 35555555555544  22233445566666


Q ss_pred             HHHhcCCHHHHHHHHHHccC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCC----
Q 038303          255 MYVKCGDVGIAIQVFNMLAY---KDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGL----  327 (461)
Q Consensus       255 ~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~----  327 (461)
                      .+.+.|++++|++.++.+.+   .+...|..+...+...|++++|++.++++.+..+. +...|+.+...+.+.+.    
T Consensus       121 ~~~~l~~~~eAl~~~~kal~~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~-n~~a~~~r~~~l~~~~~~~~~  199 (315)
T d2h6fa1         121 LVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYNDR  199 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHHhhccHHHHHHHHhhhhhhhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCc-cHHHHHHHHHHHHHccccchh
Confidence            66666666666666666552   24556666666666667777777777776664322 34455555444444333    


Q ss_pred             --hHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC
Q 038303          328 --VDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM  374 (461)
Q Consensus       328 --~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  374 (461)
                        +++|+..+....+  ..+.+...|..+...+... ..+++.+.++..
T Consensus       200 ~~~~~ai~~~~~al~--~~P~~~~~~~~l~~ll~~~-~~~~~~~~~~~~  245 (315)
T d2h6fa1         200 AVLEREVQYTLEMIK--LVPHNESAWNYLKGILQDR-GLSKYPNLLNQL  245 (315)
T ss_dssp             HHHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHTTT-CGGGCHHHHHHH
T ss_pred             hhhHHhHHHHHHHHH--hCCCchHHHHHHHHHHHhc-ChHHHHHHHHHH
Confidence              3556666655554  1223444455444444332 344455544443

>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=99.12  E-value=3.4e-09  Score=91.32  Aligned_cols=224  Identities=10%  Similarity=0.013  Sum_probs=120.8

Q ss_pred             hHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcC-CHHHHHHHHHHccC---CChhhHHHHHHHH
Q 038303          212 TLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCG-DVGIAIQVFNMLAY---KDKISWSTVISGL  287 (461)
Q Consensus       212 ~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~~~~---~~~~~~~~l~~~~  287 (461)
                      .+..+-..+.+.+..++|...++.+.+  -.+-+...|+....++...| ++++|...++...+   .+..+|..+...+
T Consensus        45 a~~~~~~~~~~~e~~~~Al~~~~~ai~--lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~  122 (315)
T d2h6fa1          45 VYDYFRAVLQRDERSERAFKLTRDAIE--LNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLV  122 (315)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHH--HCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHHH
Confidence            344444455566666666666666655  22223345555555555554 36666666666542   2455666666666


Q ss_pred             HhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCC----
Q 038303          288 AMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGL----  363 (461)
Q Consensus       288 ~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----  363 (461)
                      .+.|++++|++.++++.+.... +...|..+...+...|++++|+..++.+.+  --+.+...|+.+...+.+.++    
T Consensus       123 ~~l~~~~eAl~~~~kal~~dp~-n~~a~~~~~~~~~~~~~~~~Al~~~~~al~--~~p~n~~a~~~r~~~l~~~~~~~~~  199 (315)
T d2h6fa1         123 EWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLK--EDVRNNSVWNQRYFVISNTTGYNDR  199 (315)
T ss_dssp             HHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCSCSH
T ss_pred             HhhccHHHHHHHHhhhhhhhhc-chHHHHHHHHHHHHHHhhHHHHHHHHHHHH--HCCccHHHHHHHHHHHHHccccchh
Confidence            6666666777666666664222 446666666666666666667666666665  122334455555444444443    


Q ss_pred             --HHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCC--CChhHHHHHHHHHhcc--CChhhHHH
Q 038303          364 --LEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKG--VSVGTFALMSNTFAGA--DRWEDTNK  435 (461)
Q Consensus       364 --~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~l~~~~~~~--g~~~~A~~  435 (461)
                        +++|.+.+.++ ...| +...|..+...+.. ...+++...++...+..|  .++..+..++..|...  +..+.+..
T Consensus       200 ~~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~  278 (315)
T d2h6fa1         200 AVLEREVQYTLEMIKLVPHNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKED  278 (315)
T ss_dssp             HHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHHH
T ss_pred             hhhHHhHHHHHHHHHhCCCchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHHHH
Confidence              34555555554 3333 33344444333333 334555566665555332  3344455555555443  45555665


Q ss_pred             HHHHHH
Q 038303          436 IRDEIR  441 (461)
Q Consensus       436 ~~~~m~  441 (461)
                      .+++..
T Consensus       279 ~~~ka~  284 (315)
T d2h6fa1         279 ILNKAL  284 (315)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            555543

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.10  E-value=8.5e-09  Score=88.68  Aligned_cols=183  Identities=8%  Similarity=-0.027  Sum_probs=143.1

Q ss_pred             CCHHHHHHHHHHccC----CChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHH
Q 038303          260 GDVGIAIQVFNMLAY----KDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILF  335 (461)
Q Consensus       260 g~~~~a~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~  335 (461)
                      +..++|..+|++..+    .+...|...+..+.+.|+++.|..+|+++.+.........|...+..+.+.|+++.|..+|
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            345778888887653    2456788888889999999999999999988544333457888899999999999999999


Q ss_pred             HHhHhhcCCCCCcchHHHHHHH-HhhcCCHHHHHHHHHhC--CCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCC
Q 038303          336 KAMSTVYEIVPQMQHYACVVDM-YGRAGLLEEAEAFIREM--PIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGV  412 (461)
Q Consensus       336 ~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  412 (461)
                      +.+.+  ..+.+...|...... +...|+.+.|..+|+.+  ..+.+...|...+..+...|+.+.|..+|++.+...|.
T Consensus       158 ~~al~--~~~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~  235 (308)
T d2onda1         158 KKARE--DARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  235 (308)
T ss_dssp             HHHHT--STTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS
T ss_pred             HHHHH--hCCCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC
Confidence            99987  333444445444433 33468999999999998  22335667888888899999999999999999986654


Q ss_pred             C----hhHHHHHHHHHhccCChhhHHHHHHHHHHcC
Q 038303          413 S----VGTFALMSNTFAGADRWEDTNKIRDEIRRMG  444 (461)
Q Consensus       413 ~----~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  444 (461)
                      +    ...|...+..-...|+.+.+..+.+++.+.-
T Consensus       236 ~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~  271 (308)
T d2onda1         236 PPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAF  271 (308)
T ss_dssp             CGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHT
T ss_pred             ChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            3    3478888888888999999999999986653

>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=99.06  E-value=1.1e-09  Score=95.57  Aligned_cols=231  Identities=8%  Similarity=-0.085  Sum_probs=158.8

Q ss_pred             HhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhcc--chhhhHHHHHHHHHhhcCCCCcchHH-HHHHHHHHhcCC
Q 038303          185 AERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSI--SALSFGKYVHSYISTRYDLSVSNLVG-NAVINMYVKCGD  261 (461)
Q Consensus       185 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~--~~~~~a~~~~~~~~~~~~~~~~~~~~-~~li~~~~~~g~  261 (461)
                      ...|++++|+.+++...+.  .+-+...+.....++...  ++++.+...+..+.+ . .+.+...+ ......+...+.
T Consensus        84 ~~~~~~~~al~~~~~~l~~--~pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~-~-~~~~~~~~~~~~~~~~~~~~~  159 (334)
T d1dcea1          84 ESAALVKAELGFLESCLRV--NPKSYGTWHHRCWLLSRLPEPNWARELELCARFLE-A-DERNFHCWDYRRFVAAQAAVA  159 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHH-H-CTTCHHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHHHHHHHHHh--CCCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHh-h-CchhhhhhhhHHHHHHHhccc
Confidence            3445567788888887764  333444455454444444  346777777777766 2 22233333 344566777899


Q ss_pred             HHHHHHHHHHccCC---ChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHh
Q 038303          262 VGIAIQVFNMLAYK---DKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAM  338 (461)
Q Consensus       262 ~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  338 (461)
                      .++|...++...+.   +...|+.+...+.+.|++++|...++...+.  .|+.   ..+...+...+..+++...+...
T Consensus       160 ~~~Al~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~---~~~~~~~~~l~~~~~a~~~~~~~  234 (334)
T d1dcea1         160 PAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLKE---LELVQNAFFTDPNDQSAWFYHRW  234 (334)
T ss_dssp             HHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHHH---HHHHHHHHHHCSSCSHHHHHHHH
T ss_pred             cHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHHH---HHHHHHHHHhcchhHHHHHHHHH
Confidence            99999999888754   5667888888888999888876666544432  1221   22333445567777788887777


Q ss_pred             HhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCch-hhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhH
Q 038303          339 STVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAE-WSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGT  416 (461)
Q Consensus       339 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  416 (461)
                      ..  .-+++...+..++..+...|+.++|...+.+. ...|+ ...+..+...+...|+.++|+..++++++.+|.+...
T Consensus       235 l~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~~~y  312 (334)
T d1dcea1         235 LL--GRAEPLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAY  312 (334)
T ss_dssp             HH--SCCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHH
T ss_pred             HH--hCcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcccHHH
Confidence            66  33455666667777888889999999999887 55554 4466777777899999999999999999999988888


Q ss_pred             HHHHHHHHhc
Q 038303          417 FALMSNTFAG  426 (461)
Q Consensus       417 ~~~l~~~~~~  426 (461)
                      |..+...+.-
T Consensus       313 ~~~L~~~~~~  322 (334)
T d1dcea1         313 LDDLRSKFLL  322 (334)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhH
Confidence            8888777653

>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=99.05  E-value=3.6e-09  Score=88.58  Aligned_cols=197  Identities=10%  Similarity=-0.081  Sum_probs=115.1

Q ss_pred             HHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccC--C-ChhhHHHHHHHHHhcC
Q 038303          215 NVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAY--K-DKISWSTVISGLAMNG  291 (461)
Q Consensus       215 ~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~  291 (461)
                      .+...+.+.|+++.|...|+...+.  .+-+..++..+..+|.+.|++++|...|+++.+  | +..+|..+..++...|
T Consensus        42 ~~G~~y~~~g~~~~A~~~~~~al~l--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g  119 (259)
T d1xnfa_          42 ERGVLYDSLGLRALARNDFSQALAI--RPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGG  119 (259)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHhhcc--CCCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhhhhhhHHHHHHHHHHHh
Confidence            3334444555555555555554441  122345667777888888888888888877763  3 4567778888888889


Q ss_pred             ChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCH----HHH
Q 038303          292 CGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLL----EEA  367 (461)
Q Consensus       292 ~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~----~~A  367 (461)
                      ++++|.+.+++..+... .+......+..++.+.+..+.+..+......   ..++...+. ++..+......    +.+
T Consensus       120 ~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~-~~~~~~~~~~~~~~~~~~  194 (259)
T d1xnfa_         120 RDKLAQDDLLAFYQDDP-NDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK---SDKEQWGWN-IVEFYLGNISEQTLMERL  194 (259)
T ss_dssp             CHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH---SCCCSTHHH-HHHHHTTSSCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcc-ccHHHHHHHHHHHHHhhhHHHHHHHHHHhhc---cchhhhhhh-HHHHHHHHHHHHHHHHHH
Confidence            99999999988877532 2333333334444555555555555554444   222222222 22332222222    222


Q ss_pred             HHHHHhC-CCCch-hhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHH
Q 038303          368 EAFIREM-PIEAE-WSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFA  418 (461)
Q Consensus       368 ~~~~~~~-~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  418 (461)
                      ...+... ...|+ ..+|..+...+...|++++|...|++++...|.+...|.
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~  247 (259)
T d1xnfa_         195 KADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFVEHR  247 (259)
T ss_dssp             HHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCHHHH
T ss_pred             HHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHH
Confidence            2222111 11232 235666777799999999999999999998888754444

>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=99.02  E-value=4.7e-10  Score=98.10  Aligned_cols=252  Identities=8%  Similarity=-0.072  Sum_probs=178.7

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCCCCCChhh-HHH---HHHH-------hhccchhhhHHHHHHHHHhhcCCCCcchH
Q 038303          180 MIGGYAERGFCKEAVSVFQEMEKTKEAEPNEAT-LVN---VLSA-------CSSISALSFGKYVHSYISTRYDLSVSNLV  248 (461)
Q Consensus       180 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~-~~~---~l~~-------~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  248 (461)
                      ++....+.+..++|++++++..+   ..|+..+ |+.   ++..       +...+.++.+...++.+.+  ..+-+...
T Consensus        35 ~~~~~~~~~~~~~al~~~~~~l~---~~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~--~~pk~~~~  109 (334)
T d1dcea1          35 VFQKRQAGELDESVLELTSQILG---ANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLR--VNPKSYGT  109 (334)
T ss_dssp             HHHHHHTTCCSHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHH--HCTTCHHH
T ss_pred             HHHHHhcccccHHHHHHHHHHHH---HCCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHH--hCCCcHHH
Confidence            33333344445889999998887   5566543 222   2222       2334567888888888877  33445556


Q ss_pred             HHHHHHHHHhcC--CHHHHHHHHHHccC---CChhhHHH-HHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHH
Q 038303          249 GNAVINMYVKCG--DVGIAIQVFNMLAY---KDKISWST-VISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISAC  322 (461)
Q Consensus       249 ~~~li~~~~~~g--~~~~a~~~~~~~~~---~~~~~~~~-l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~  322 (461)
                      +..+..++...+  +.++|...++.+..   ++...+.. ....+...+.+++|+..+++..+.... +...|..+...+
T Consensus       110 ~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~-~~~a~~~l~~~~  188 (334)
T d1dcea1         110 WHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLL  188 (334)
T ss_dssp             HHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHH
T ss_pred             HHHhhHHHHHhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCC-CHHHHHHHHHHH
Confidence            666666666655  47899999988763   24455543 446677789999999999999886543 567888888889


Q ss_pred             HcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC--CCCchhhHHHHHHHHHHhcCChHHHH
Q 038303          323 SHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM--PIEAEWSVWGALLNACRIHRNDEMFD  400 (461)
Q Consensus       323 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~~~~~~a~  400 (461)
                      ...|++++|...++.....   .|+   ...+...+...+..+++...+...  ...++...+..+...+...++.++|.
T Consensus       189 ~~~~~~~~A~~~~~~~~~~---~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~a~  262 (334)
T d1dcea1         189 PQLHPQPDSGPQGRLPENV---LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGRAEPLFRCELSVEKSTVLQSELESC  262 (334)
T ss_dssp             HHHSCCCCSSSCCSSCHHH---HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCSSSCCCCHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHhHHh---HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhCcchhhHHHHHHHHHHHHhhHHHHH
Confidence            9999988887666554441   111   112334455667777888777766  33344445566667778889999999


Q ss_pred             HHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHc
Q 038303          401 RIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRM  443 (461)
Q Consensus       401 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  443 (461)
                      ..+.+.....|.+..++..++.+|.+.|++++|.+.+++..+.
T Consensus       263 ~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l  305 (334)
T d1dcea1         263 KELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAV  305 (334)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999874

>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=98.69  E-value=5.5e-07  Score=76.26  Aligned_cols=188  Identities=10%  Similarity=0.004  Sum_probs=101.5

Q ss_pred             HHHHHhcCCHHHHHHHHHHccC-----CC----hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCC-----CCHhHHHHH
Q 038303          253 INMYVKCGDVGIAIQVFNMLAY-----KD----KISWSTVISGLAMNGCGRQALQLFSLMIINAVF-----PDDVTFIAL  318 (461)
Q Consensus       253 i~~~~~~g~~~~a~~~~~~~~~-----~~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~-----p~~~~~~~l  318 (461)
                      ...|...|++++|.+.|.+..+     .+    ..+|..+..+|.+.|++++|.+.+++..+.-..     ....++..+
T Consensus        44 a~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l  123 (290)
T d1qqea_          44 ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFEL  123 (290)
T ss_dssp             HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHH
Confidence            3445566666666666655432     11    235666667777777777777777665432111     112344455


Q ss_pred             HHHHH-cCCChHHHHHHHHHhHhhc---CCCC-CcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-------hh-hHHH
Q 038303          319 ISACS-HGGLVDQGLILFKAMSTVY---EIVP-QMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-------EW-SVWG  384 (461)
Q Consensus       319 l~~~~-~~~~~~~a~~~~~~~~~~~---~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-------~~-~~~~  384 (461)
                      ...|. ..|++++|+..++...+..   +.++ ...++..+...+.+.|++++|...++++ ...|       .. ..+.
T Consensus       124 ~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (290)
T d1qqea_         124 GEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFL  203 (290)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHH
T ss_pred             HHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHH
Confidence            55553 3577777777777664311   1111 1344566677777777777777777765 1111       11 1122


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhhcCCCC-----hhHHHHHHHHHhc--cCChhhHHHHHHHH
Q 038303          385 ALLNACRIHRNDEMFDRIRQDLVNKKGVS-----VGTFALMSNTFAG--ADRWEDTNKIRDEI  440 (461)
Q Consensus       385 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~l~~~~~~--~g~~~~A~~~~~~m  440 (461)
                      ..+..+...|+++.|...+++..+..|..     ......++.++..  .+++++|+..|+++
T Consensus       204 ~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~  266 (290)
T d1qqea_         204 KKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNF  266 (290)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTS
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            23334556777777777777777655432     2234455555544  24466666666543

>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=98.68  E-value=8.2e-07  Score=69.80  Aligned_cols=87  Identities=10%  Similarity=-0.080  Sum_probs=74.2

Q ss_pred             HHHHHhcCCHHHHHHHHHHccCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHH
Q 038303          253 INMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGL  332 (461)
Q Consensus       253 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~  332 (461)
                      ...+...|+++.|++.|.++..++..+|..+..++...|++++|++.|++.++.... +...|..+..+|.+.|++++|.
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~-~~~a~~~~g~~~~~~g~~~~A~   90 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKH-LAVAYFQRGMLYYQTEKYDLAI   90 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhh-hhhhHHHHHHHHHhhccHHHHH
Confidence            445678899999999999988888888889999999999999999999999886432 5578888888899999999999


Q ss_pred             HHHHHhHh
Q 038303          333 ILFKAMST  340 (461)
Q Consensus       333 ~~~~~~~~  340 (461)
                      ..|++...
T Consensus        91 ~~~~kAl~   98 (192)
T d1hh8a_          91 KDLKEALI   98 (192)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99988765

>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=98.65  E-value=1.1e-07  Score=75.80  Aligned_cols=101  Identities=11%  Similarity=-0.118  Sum_probs=58.1

Q ss_pred             CCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCch-hhHHHHHH
Q 038303          310 PDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAE-WSVWGALL  387 (461)
Q Consensus       310 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~  387 (461)
                      |+...+......+.+.|++++|+..|++...  --+.+...|..+..+|.+.|++++|+..|++. .+.|+ ...|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~--~~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAIT--RNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHH
Confidence            5555555556666666666666666666555  12334555566666666666666666666655 33342 33455555


Q ss_pred             HHHHhcCChHHHHHHHHHHhhcCCC
Q 038303          388 NACRIHRNDEMFDRIRQDLVNKKGV  412 (461)
Q Consensus       388 ~~~~~~~~~~~a~~~~~~~~~~~~~  412 (461)
                      .+|...|++++|+..|+++.+..|.
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l~p~  104 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSLAKE  104 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCcc
Confidence            5566666666666666666554443

>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=98.62  E-value=1.2e-06  Score=68.78  Aligned_cols=141  Identities=9%  Similarity=-0.157  Sum_probs=90.2

Q ss_pred             HHHHHHcCChhhHHHHHhcCCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhH
Q 038303          150 LDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFG  229 (461)
Q Consensus       150 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a  229 (461)
                      ...+...|++++|++.|+++..++..+|..+..+|...|++++|++.|++..+.  .+.+...|..+..++.+.|++++|
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~l--dp~~~~a~~~~g~~~~~~g~~~~A   89 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINR--DKHLAVAYFQRGMLYYQTEKYDLA   89 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHH--hhhhhhhHHHHHHHHHhhccHHHH
Confidence            445678899999999999988888888889999999999999999999999885  344555666666666666666666


Q ss_pred             HHHHHHHHhhcCCCCcch-HHHHHHHHHHhcCCHHHHHHHHHHccCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCC
Q 038303          230 KYVHSYISTRYDLSVSNL-VGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAV  308 (461)
Q Consensus       230 ~~~~~~~~~~~~~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~  308 (461)
                      ...|+.....  .+.+.. .+.       ..|..-         ......++..+..++.+.|++++|.+.+....+...
T Consensus        90 ~~~~~kAl~~--~~~n~~~~~~-------~~~~~~---------~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~  151 (192)
T d1hh8a_          90 IKDLKEALIQ--LRGNQLIDYK-------ILGLQF---------KLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKS  151 (192)
T ss_dssp             HHHHHHHHHT--TTTCSEEECG-------GGTBCC---------EEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHh--CccCchHHHH-------Hhhhhc---------ccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            6666655431  011100 000       000000         000112344556667777888888888777766444


Q ss_pred             CC
Q 038303          309 FP  310 (461)
Q Consensus       309 ~p  310 (461)
                      .|
T Consensus       152 ~~  153 (192)
T d1hh8a_         152 EP  153 (192)
T ss_dssp             SG
T ss_pred             Cc
Confidence            43

>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=98.60  E-value=4.7e-07  Score=64.73  Aligned_cols=98  Identities=10%  Similarity=-0.050  Sum_probs=42.4

Q ss_pred             HHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-C-CCchhhHHHHHHHHHHhcCChHHH
Q 038303          322 CSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-P-IEAEWSVWGALLNACRIHRNDEMF  399 (461)
Q Consensus       322 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~~~~~~a  399 (461)
                      +.+.|++++|+..|+...+  --+.+...|..+..+|.+.|++++|+..+.+. . .+.+...|..+..++...|++++|
T Consensus        13 ~~~~g~~~eAi~~~~~al~--~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~~~A   90 (117)
T d1elwa_          13 ALSVGNIDDALQCYSEAIK--LDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRFEEA   90 (117)
T ss_dssp             HHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHh--cCCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCHHHH
Confidence            3444444444444444443  12223334444444444444444444444444 1 112333344444444444444444


Q ss_pred             HHHHHHHhhcCCCChhHHHHHH
Q 038303          400 DRIRQDLVNKKGVSVGTFALMS  421 (461)
Q Consensus       400 ~~~~~~~~~~~~~~~~~~~~l~  421 (461)
                      +..+++.++..|.++..+..+.
T Consensus        91 ~~~~~~a~~~~p~~~~~~~~l~  112 (117)
T d1elwa_          91 KRTYEEGLKHEANNPQLKEGLQ  112 (117)
T ss_dssp             HHHHHHHHTTCTTCHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHH
Confidence            4444444444444444444433

>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=98.59  E-value=2.7e-07  Score=66.06  Aligned_cols=91  Identities=10%  Similarity=0.020  Sum_probs=81.7

Q ss_pred             HHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChh
Q 038303          354 VVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWE  431 (461)
Q Consensus       354 l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  431 (461)
                      -...+.+.|++++|+..|++. ...| +...|..+..++...|++++|+..++++++..|.++..|..++.++...|+++
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCHH
Confidence            456788999999999999998 3334 55678888888999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHcC
Q 038303          432 DTNKIRDEIRRMG  444 (461)
Q Consensus       432 ~A~~~~~~m~~~g  444 (461)
                      +|+..+++..+..
T Consensus        89 ~A~~~~~~a~~~~  101 (117)
T d1elwa_          89 EAKRTYEEGLKHE  101 (117)
T ss_dssp             HHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhC
Confidence            9999999998754

>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=98.56  E-value=2.1e-07  Score=66.03  Aligned_cols=90  Identities=9%  Similarity=-0.080  Sum_probs=79.6

Q ss_pred             HHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCC
Q 038303          352 ACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADR  429 (461)
Q Consensus       352 ~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  429 (461)
                      -.+...+.+.|++++|...|++. ...| +...|..+..++.+.|++++|+..++++++..|.+..++..++.+|...|+
T Consensus        20 ~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g~   99 (112)
T d1hxia_          20 MEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHCCC
Confidence            34667788999999999999998 4445 466788888889999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHH
Q 038303          430 WEDTNKIRDEIR  441 (461)
Q Consensus       430 ~~~A~~~~~~m~  441 (461)
                      +++|.+.+++..
T Consensus       100 ~~~A~~~l~~~l  111 (112)
T d1hxia_         100 ANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999998863

>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=98.55  E-value=1e-06  Score=74.50  Aligned_cols=120  Identities=11%  Similarity=-0.028  Sum_probs=62.3

Q ss_pred             HHHHHcCCChHHHHHHHhcC-------CCCC-CchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCC-----ChhHHHHH
Q 038303           83 ISGLSKCGFHKEAIDMFCGI-------DVKP-NANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNEN-----NIILDNAI  149 (461)
Q Consensus        83 i~~~~~~~~~~~a~~~~~~m-------~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l  149 (461)
                      ...|-..+++++|.+.|.+.       +-.+ -..+|..+..++.+.|++++|.+.++...+.-...     ...++..+
T Consensus        44 a~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l  123 (290)
T d1qqea_          44 ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFEL  123 (290)
T ss_dssp             HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHH
Confidence            45566667777777666655       1111 12345555666666666666666666554431111     12233344


Q ss_pred             HHHHHH-cCChhhHHHHHhcCCC-----C----chhHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 038303          150 LDFYIR-CGSLASCGYLFVKMPK-----R----NVVSWTTMIGGYAERGFCKEAVSVFQEMEK  202 (461)
Q Consensus       150 ~~~~~~-~g~~~~a~~~~~~~~~-----~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  202 (461)
                      ...|.. .|++++|+..+++..+     .    -..+|..+...+...|++++|...|++...
T Consensus       124 ~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~  186 (290)
T d1qqea_         124 GEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIK  186 (290)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHH
Confidence            444433 3666666665555432     0    122355555666666666666666666554

>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=98.53  E-value=9.1e-07  Score=67.26  Aligned_cols=117  Identities=7%  Similarity=-0.130  Sum_probs=86.0

Q ss_pred             HHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCC
Q 038303          318 LISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRN  395 (461)
Q Consensus       318 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~  395 (461)
                      ....|.+.|++++|+..|++..+  --+.+...|..+..+|...|++++|...|++. ...| +...|..+..++...|+
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~--~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~   93 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIE--LNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGK   93 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHhhhccc--cchhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCC
Confidence            34457788888888888888877  23445777778888888888888888888877 3334 44577777888888888


Q ss_pred             hHHHHHHHHHHhhcCCCChhHHHHHHHHHh--ccCChhhHHHH
Q 038303          396 DEMFDRIRQDLVNKKGVSVGTFALMSNTFA--GADRWEDTNKI  436 (461)
Q Consensus       396 ~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~--~~g~~~~A~~~  436 (461)
                      +++|...+++.....|.++..+..+..+..  ..+.+++|...
T Consensus        94 ~~eA~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          94 FRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             HHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            888888888888888888887777665543  34456666544

>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=98.45  E-value=3.4e-07  Score=72.88  Aligned_cols=96  Identities=9%  Similarity=-0.085  Sum_probs=80.9

Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCC-CcchHHH
Q 038303          275 KDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVP-QMQHYAC  353 (461)
Q Consensus       275 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~  353 (461)
                      |+...+......+.+.|++++|+..|++..+... -+...|..+..+|.+.|++++|+..|+...+   +.| +...|..
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p-~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~---l~p~~~~a~~~   77 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNP-LVAVYYTNRALCYLKMQQPEQALADCRRALE---LDGQSVKAHFF   77 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT---SCTTCHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHhHHHHHhhhhhhhhhhHHHHHHHH---hCCCcHHHHHH
Confidence            4455566778889999999999999999988643 3667888899999999999999999999876   344 4778888


Q ss_pred             HHHHHhhcCCHHHHHHHHHhC
Q 038303          354 VVDMYGRAGLLEEAEAFIREM  374 (461)
Q Consensus       354 l~~~~~~~g~~~~A~~~~~~~  374 (461)
                      +..+|.+.|++++|...|+++
T Consensus        78 lg~~~~~l~~~~~A~~~~~~a   98 (201)
T d2c2la1          78 LGQCQLEMESYDEAIANLQRA   98 (201)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHH
Confidence            999999999999999999987

>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=98.44  E-value=1e-06  Score=67.00  Aligned_cols=92  Identities=8%  Similarity=-0.019  Sum_probs=82.0

Q ss_pred             HHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCCh
Q 038303          353 CVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRW  430 (461)
Q Consensus       353 ~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  430 (461)
                      .....|.+.|++++|...|++. ...| +...|..+...|...|+++.|+..|+++++..|.+..+|..++.+|...|++
T Consensus        15 ~~gn~~~~~~~y~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~   94 (159)
T d1a17a_          15 TQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKF   94 (159)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHcCCHHHHHHHhhhccccchhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCCH
Confidence            3456788999999999999998 3344 5557788888899999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHcC
Q 038303          431 EDTNKIRDEIRRMG  444 (461)
Q Consensus       431 ~~A~~~~~~m~~~g  444 (461)
                      ++|...+++.....
T Consensus        95 ~eA~~~~~~a~~~~  108 (159)
T d1a17a_          95 RAALRDYETVVKVK  108 (159)
T ss_dssp             HHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHcC
Confidence            99999999998865

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=98.39  E-value=8.2e-05  Score=61.46  Aligned_cols=229  Identities=9%  Similarity=-0.100  Sum_probs=129.9

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHHHhhcCCCCcchHHHHHH
Q 038303          174 VVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYISTRYDLSVSNLVGNAVI  253 (461)
Q Consensus       174 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li  253 (461)
                      +..+..|...+.+.+++++|+++|++..+.|    +...+..+-..+...                .++           
T Consensus         2 p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g----~~~A~~~Lg~~y~~G----------------~~~-----------   50 (265)
T d1ouva_           2 PKELVGLGAKSYKEKDFTQAKKYFEKACDLK----ENSGCFNLGVLYYQG----------------QGV-----------   50 (265)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT----CHHHHHHHHHHHHHT----------------SSS-----------
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC----CHHHHHHHHHHHHcC----------------CCc-----------
Confidence            4456666667777788888888888877654    222222222222110                001           


Q ss_pred             HHHHhcCCHHHHHHHHHHccCC-ChhhHHHHHHHHH----hcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHH----c
Q 038303          254 NMYVKCGDVGIAIQVFNMLAYK-DKISWSTVISGLA----MNGCGRQALQLFSLMIINAVFPDDVTFIALISACS----H  324 (461)
Q Consensus       254 ~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~l~~~~~----~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~----~  324 (461)
                           ..+...|...+...... +......+...+.    ..++.+.|...++...+.|..   .....+...+.    .
T Consensus        51 -----~~d~~~a~~~~~~a~~~~~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~---~a~~~l~~~~~~~~~~  122 (265)
T d1ouva_          51 -----EKNLKKAASFYAKACDLNYSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLKYA---EGCASLGGIYHDGKVV  122 (265)
T ss_dssp             -----CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH---HHHHHHHHHHHHCSSS
T ss_pred             -----chhHHHHHHhhcccccccccchhhccccccccccccchhhHHHHHHHhhhhhhhhh---hHHHhhcccccCCCcc
Confidence                 23444444444444332 2233333333322    235666777777777665532   22222222222    2


Q ss_pred             CCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhh----cCCHHHHHHHHHhCCCCchhhHHHHHHHHHHh----cCCh
Q 038303          325 GGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGR----AGLLEEAEAFIREMPIEAEWSVWGALLNACRI----HRND  396 (461)
Q Consensus       325 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~  396 (461)
                      ......+...+.....    ..+...+..|...|..    ..+...+..+++......+......+...+..    ..++
T Consensus       123 ~~~~~~a~~~~~~~~~----~~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g~~~A~~~lg~~y~~g~~~~~d~  198 (265)
T d1ouva_         123 TRDFKKAVEYFTKACD----LNDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNF  198 (265)
T ss_dssp             CCCHHHHHHHHHHHHH----TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCH
T ss_pred             cchhHHHHHHhhhhhc----ccccchhhhhhhhhccCCCcccccccchhhhhccccccccccccchhhhcccCcccccch
Confidence            4455566666655544    2445556666666654    45566777777766222344444444444443    5689


Q ss_pred             HHHHHHHHHHhhcCCCChhHHHHHHHHHhc----cCChhhHHHHHHHHHHcCCcc
Q 038303          397 EMFDRIRQDLVNKKGVSVGTFALMSNTFAG----ADRWEDTNKIRDEIRRMGLKK  447 (461)
Q Consensus       397 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~~g~~~  447 (461)
                      +.|+..|++..+..  ++..+..|+..|.+    ..+.++|.+.|++..+.|-.+
T Consensus       199 ~~A~~~~~~aa~~g--~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~~~  251 (265)
T d1ouva_         199 KEALARYSKACELE--NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAKG  251 (265)
T ss_dssp             HHHHHHHHHHHHTT--CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCHH
T ss_pred             hhhhhhHhhhhccc--CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcCHH
Confidence            99999999988764  46678888888876    448999999999998888654

>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=98.37  E-value=1.4e-06  Score=62.40  Aligned_cols=104  Identities=9%  Similarity=-0.121  Sum_probs=72.4

Q ss_pred             HHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCH---HHHHHHHHhC-CCCchh---hHHHHHHH
Q 038303          316 IALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLL---EEAEAFIREM-PIEAEW---SVWGALLN  388 (461)
Q Consensus       316 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~---~~A~~~~~~~-~~~p~~---~~~~~l~~  388 (461)
                      ..++..+...+++++|++.|+....  --+.++.++..+..++.+.++.   ++|..+++++ ...|+.   .++..+..
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~--~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKA--AGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH--HSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHh--hCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHH
Confidence            3466677777888888888887776  2345567777777777765544   4578888776 333332   25666777


Q ss_pred             HHHhcCChHHHHHHHHHHhhcCCCChhHHHHHH
Q 038303          389 ACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMS  421 (461)
Q Consensus       389 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~  421 (461)
                      +|.+.|++++|++.|+++++..|.+..+.....
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~~~P~~~~A~~l~~  113 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQTEPQNNQAKELER  113 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHHhCcCCHHHHHHHH
Confidence            788888888888888888888888876655443

>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=98.33  E-value=0.00058  Score=57.62  Aligned_cols=135  Identities=8%  Similarity=0.025  Sum_probs=56.3

Q ss_pred             CCceeHHHHHHHHHcCCChHHHHHHHhcCCCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHH
Q 038303           74 PDVVSWTTIISGLSKCGFHKEAIDMFCGIDVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFY  153 (461)
Q Consensus        74 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  153 (461)
                      ||..--..+..-|.+.|.++.|..+|..+      .-|..++..+.+.+++..|.++....      -+..+|..+...+
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~------~d~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~~~~l   79 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNV------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFAC   79 (336)
T ss_dssp             C----------------CTTTHHHHHHHT------TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhC------CCHHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHHHHHH
Confidence            44433444555555666666666666543      23455555555555555555544322      1344555555555


Q ss_pred             HHcCChhhHHHHHhcCCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhcc
Q 038303          154 IRCGSLASCGYLFVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSI  223 (461)
Q Consensus       154 ~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~  223 (461)
                      .+......|.. .......+......++..|-..|.+++...+++.....  -.++...++.++..+++.
T Consensus        80 ~~~~e~~la~i-~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~--~~~~~~~~~~L~~lyak~  146 (336)
T d1b89a_          80 VDGKEFRLAQM-CGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL--ERAHMGMFTELAILYSKF  146 (336)
T ss_dssp             HHTTCHHHHHH-TTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--TTCCHHHHHHHHHHHHTT
T ss_pred             HhCcHHHHHHH-HHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC--CccchHHHHHHHHHHHHh
Confidence            55544433322 11111123333344555555566666666555554432  233444444444444443

>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=98.26  E-value=1.1e-05  Score=61.66  Aligned_cols=84  Identities=6%  Similarity=-0.164  Sum_probs=68.7

Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhcc
Q 038303          350 HYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGA  427 (461)
Q Consensus       350 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  427 (461)
                      +|+.+..+|.+.|++++|+..+++. ...| ++..+..+..++...|+++.|+..|+++.+..|.++.+...+..+..+.
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~  143 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRI  143 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence            5667888899999999999999887 4444 6667888888899999999999999999999999999888888887666


Q ss_pred             CChhhH
Q 038303          428 DRWEDT  433 (461)
Q Consensus       428 g~~~~A  433 (461)
                      +...+.
T Consensus       144 ~~~~~~  149 (170)
T d1p5qa1         144 RRQLAR  149 (170)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            555443

>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=98.24  E-value=0.0007  Score=57.10  Aligned_cols=281  Identities=8%  Similarity=-0.032  Sum_probs=152.0

Q ss_pred             CCcchHHHHHHHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCceeHHHHHHHHH
Q 038303            8 YNHYTFTQALKACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYVTVKDIFSAHQIFNSVVFPDVVSWTTIISGLS   87 (461)
Q Consensus         8 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~   87 (461)
                      ||..--..+.+-|.+.|.++.|..++..+.         -|..++..+.+.++++.|.+++.+..  +..+|..+...+.
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~---------d~~rl~~~~v~l~~~~~avd~~~k~~--~~~~~k~~~~~l~   80 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVS---------NFGRLASTLVHLGEYQAAVDGARKAN--STRTWKEVCFACV   80 (336)
T ss_dssp             C----------------CTTTHHHHHHHTT---------CHHHHHHHHHTTTCHHHHHHHHHHHT--CHHHHHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCC---------CHHHHHHHHHhhccHHHHHHHHHHcC--CHHHHHHHHHHHH
Confidence            555666677778889999999999987543         36677788888999999988887663  5557888888888


Q ss_pred             cCCChHHHHHHHhcCCCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHcCChhhHHHHHh
Q 038303           88 KCGFHKEAIDMFCGIDVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIRCGSLASCGYLFV  167 (461)
Q Consensus        88 ~~~~~~~a~~~~~~m~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  167 (461)
                      +.....-+.-+  ......+......++..+-..|.+++...+++..... -..+...++.++..|++.+. ++-.+.+.
T Consensus        81 ~~~e~~la~i~--~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~~-~kl~e~l~  156 (336)
T d1b89a_          81 DGKEFRLAQMC--GLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFKP-QKMREHLE  156 (336)
T ss_dssp             HTTCHHHHHHT--TTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTCH-HHHHHHHH
T ss_pred             hCcHHHHHHHH--HHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhCh-HHHHHHHH
Confidence            77766554222  2233445556677888888889999988888877644 24467778888888888653 44444444


Q ss_pred             cCCC-C----------chhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhccchhhhHHHHHHHH
Q 038303          168 KMPK-R----------NVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSSISALSFGKYVHSYI  236 (461)
Q Consensus       168 ~~~~-~----------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~~~~~~~a~~~~~~~  236 (461)
                      .... -          ....|..++..|.+.|+++.|..+.-   +   -+++.......+..+.+..+.+...++....
T Consensus       157 ~~s~~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~i---~---~~~~~~~~~~f~e~~~k~~N~e~~~~~i~~y  230 (336)
T d1b89a_         157 LFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMM---N---HPTDAWKEGQFKDIITKVANVELYYRAIQFY  230 (336)
T ss_dssp             HHSTTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHH---H---STTTTCCHHHHHHHHHHCSSTHHHHHHHHHH
T ss_pred             hccccCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHHH---H---cchhhhhHHHHHHHHHccCChHHHHHHHHHH
Confidence            3221 1          11124444445555555555443322   2   2334333444455555555555544444443


Q ss_pred             HhhcCCCCcchHHHHHHHHHHhcCCHHHHHHHHHHccCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHH
Q 038303          237 STRYDLSVSNLVGNAVINMYVKCGDVGIAIQVFNMLAYKDKISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFI  316 (461)
Q Consensus       237 ~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~  316 (461)
                      .+ .  .|  ...+.++......-+..+..                  ..+-+.++..-....++.....|   +....+
T Consensus       231 L~-~--~p--~~i~~lL~~v~~~~d~~r~V------------------~~~~k~~~l~li~p~Le~v~~~n---~~~vn~  284 (336)
T d1b89a_         231 LE-F--KP--LLLNDLLMVLSPRLDHTRAV------------------NYFSKVKQLPLVKPYLRSVQNHN---NKSVNE  284 (336)
T ss_dssp             HH-H--CG--GGHHHHHHHHGGGCCHHHHH------------------HHHHHTTCTTTTHHHHHHHHTTC---CHHHHH
T ss_pred             HH-c--CH--HHHHHHHHHhccCCCHHHHH------------------HHHHhcCCcHHHHHHHHHHHHcC---hHHHHH
Confidence            33 1  12  22234444433333333333                  33344455555555555544433   234566


Q ss_pred             HHHHHHHcCCChHHHHHHH
Q 038303          317 ALISACSHGGLVDQGLILF  335 (461)
Q Consensus       317 ~ll~~~~~~~~~~~a~~~~  335 (461)
                      .+...|...++++.-.+..
T Consensus       285 al~~lyie~~d~~~l~~~i  303 (336)
T d1b89a_         285 SLNNLFITEEDYQALRTSI  303 (336)
T ss_dssp             HHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHhCcchhHHHHHHH
Confidence            6666666666655544444

>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=98.20  E-value=8.5e-06  Score=62.38  Aligned_cols=64  Identities=3%  Similarity=-0.155  Sum_probs=59.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcCC
Q 038303          382 VWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGL  445 (461)
Q Consensus       382 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~  445 (461)
                      +|+.+..+|.+.|++++|+..++.+++..|.++.++..++.+|...|++++|...|++..+...
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P  127 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYP  127 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCC
Confidence            5666777899999999999999999999999999999999999999999999999999988643

>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=98.16  E-value=9.6e-06  Score=62.40  Aligned_cols=120  Identities=11%  Similarity=0.020  Sum_probs=85.0

Q ss_pred             HHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCchhhHHHHHHHHHHhcCChHHH
Q 038303          320 SACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMF  399 (461)
Q Consensus       320 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a  399 (461)
                      ......|++++|...|.......   +....        ......+.+...-..+. ......+..+...+...|++++|
T Consensus        19 ~~~~~~g~~e~A~~~~~~AL~l~---rG~~l--------~~~~~~~w~~~~r~~l~-~~~~~a~~~la~~~~~~g~~~~A   86 (179)
T d2ff4a2          19 VHAAAAGRFEQASRHLSAALREW---RGPVL--------DDLRDFQFVEPFATALV-EDKVLAHTAKAEAEIACGRASAV   86 (179)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTC---CSSTT--------GGGTTSTTHHHHHHHHH-HHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhC---ccccc--------ccCcchHHHHHHHHHHH-HHHHHHHHHHHHHHHHCCCchHH
Confidence            45677899999998888887622   11110        00000011111111110 11234567778889999999999


Q ss_pred             HHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHH-----HcCCccccCc
Q 038303          400 DRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIR-----RMGLKKKTGC  451 (461)
Q Consensus       400 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~-----~~g~~~~~~~  451 (461)
                      +..++++.+..|.+...|..++.+|.+.|++++|++.|+++.     +.|+.|++.+
T Consensus        87 l~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          87 IAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            999999999999999999999999999999999999999973     4699988754

>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=98.15  E-value=4.3e-06  Score=59.76  Aligned_cols=93  Identities=9%  Similarity=-0.106  Sum_probs=76.0

Q ss_pred             HHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhc---CChHHHHHHHHHHhhcCCCC--hhHHHHHHHHH
Q 038303          352 ACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIH---RNDEMFDRIRQDLVNKKGVS--VGTFALMSNTF  424 (461)
Q Consensus       352 ~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~~~~--~~~~~~l~~~~  424 (461)
                      ..++..+...+++++|.+.|++. ...| +..++..+..++.+.   ++.++|+.+++++.+..|.+  ..++..++.+|
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y   82 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            45778888999999999999998 3334 556777777777664   45567999999999876544  45899999999


Q ss_pred             hccCChhhHHHHHHHHHHcC
Q 038303          425 AGADRWEDTNKIRDEIRRMG  444 (461)
Q Consensus       425 ~~~g~~~~A~~~~~~m~~~g  444 (461)
                      .+.|++++|.+.|+++.+..
T Consensus        83 ~~~g~~~~A~~~~~~aL~~~  102 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQTE  102 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHhhhHHHHHHHHHHHHhC
Confidence            99999999999999998854

>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=98.15  E-value=3.8e-05  Score=58.49  Aligned_cols=93  Identities=6%  Similarity=-0.101  Sum_probs=72.9

Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHhC-CC-CchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhcc
Q 038303          350 HYACVVDMYGRAGLLEEAEAFIREM-PI-EAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGA  427 (461)
Q Consensus       350 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  427 (461)
                      +|..+..+|.+.|++++|+..+++. .. +.+...|..+..++...|++++|+..|+++.+..|.+..+...+..+..+.
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~  145 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFMCQKKA  145 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence            4566778888999999999999887 32 345667888888899999999999999999999999998888888887776


Q ss_pred             CChh-hHHHHHHHHHH
Q 038303          428 DRWE-DTNKIRDEIRR  442 (461)
Q Consensus       428 g~~~-~A~~~~~~m~~  442 (461)
                      +... ...+++.+|.+
T Consensus       146 ~~~~e~~kk~~~~~f~  161 (168)
T d1kt1a1         146 KEHNERDRRTYANMFK  161 (168)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHHHh
Confidence            6554 34555555544

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=98.14  E-value=0.00027  Score=58.17  Aligned_cols=219  Identities=11%  Similarity=-0.052  Sum_probs=99.5

Q ss_pred             hHHHHHHHhcccchhHHHHHHHHHHHhhcCCCChhHHHHHHHHHHH----cCChhhHHHHHhcCCC-CchhHHHHHHHHH
Q 038303          110 TLVSVLSACSSLVSHKLGKAIHAHSLRNLNENNIILDNAILDFYIR----CGSLASCGYLFVKMPK-RNVVSWTTMIGGY  184 (461)
Q Consensus       110 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~-~~~~~~~~li~~~  184 (461)
                      .+..|...+...+|.++|.+.|++..+.|   +...+..|...|..    ..+...|..++....+ .+......+...+
T Consensus         4 ~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~~~a~~~l~~~~   80 (265)
T d1ouva_           4 ELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNYSNGCHLLGNLY   80 (265)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccccccchhhcccccc
Confidence            44444445555666666666666666554   33444445555554    3455556665555443 2333333333333


Q ss_pred             Hh----cCChHHHHHHHHHHHhcCCCCCChhhHHHHHHH--hhccchhhhHHHHHHHHHhhcCCCCcchHHHHHHHHHHh
Q 038303          185 AE----RGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSA--CSSISALSFGKYVHSYISTRYDLSVSNLVGNAVINMYVK  258 (461)
Q Consensus       185 ~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~  258 (461)
                      ..    ..+.+.|...++...+.| ........ .....  .........+...+.....    ..+...+..|...|..
T Consensus        81 ~~~~~~~~~~~~a~~~~~~a~~~g-~~~a~~~l-~~~~~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~L~~~~~~  154 (265)
T d1ouva_          81 YSGQGVSQNTNKALQYYSKACDLK-YAEGCASL-GGIYHDGKVVTRDFKKAVEYFTKACD----LNDGDGCTILGSLYDA  154 (265)
T ss_dssp             HHTSSSCCCHHHHHHHHHHHHHTT-CHHHHHHH-HHHHHHCSSSCCCHHHHHHHHHHHHH----TTCHHHHHHHHHHHHH
T ss_pred             ccccccchhhHHHHHHHhhhhhhh-hhhHHHhh-cccccCCCcccchhHHHHHHhhhhhc----ccccchhhhhhhhhcc
Confidence            32    345666777777666654 21111111 11111  1112223333333333322    1223334444444443


Q ss_pred             ----cCCHHHHHHHHHHccC-CChhhHHHHHHHHHh----cCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHc----C
Q 038303          259 ----CGDVGIAIQVFNMLAY-KDKISWSTVISGLAM----NGCGRQALQLFSLMIINAVFPDDVTFIALISACSH----G  325 (461)
Q Consensus       259 ----~g~~~~a~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~  325 (461)
                          ..+...+..+++...+ .+......+...+..    ..++++|+..|++..+.|   ++..+..|...|.+    .
T Consensus       155 ~~~~~~~~~~~~~~~~~a~~~g~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~~y~~G~g~~  231 (265)
T d1ouva_         155 GRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNGEGVT  231 (265)
T ss_dssp             TSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSS
T ss_pred             CCCcccccccchhhhhccccccccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHHHHHcCCCCc
Confidence                2334444444444432 244444444444433    345666666666665544   23334444444433    2


Q ss_pred             CChHHHHHHHHHhHh
Q 038303          326 GLVDQGLILFKAMST  340 (461)
Q Consensus       326 ~~~~~a~~~~~~~~~  340 (461)
                      .+.++|.+.|++...
T Consensus       232 ~n~~~A~~~~~kAa~  246 (265)
T d1ouva_         232 RNEKQAIENFKKGCK  246 (265)
T ss_dssp             CCSTTHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHH
Confidence            355556666555544

>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=98.09  E-value=1.2e-05  Score=56.62  Aligned_cols=85  Identities=9%  Similarity=-0.081  Sum_probs=39.8

Q ss_pred             HHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCH
Q 038303          285 SGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLL  364 (461)
Q Consensus       285 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  364 (461)
                      ..+.+.|++++|+..+++..+.... +...|..+..++.+.|++++|+..|++..+  -.+.+...+..+...|...|++
T Consensus        24 ~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~--~~p~~~~a~~~la~~y~~~g~~  100 (112)
T d1hxia_          24 LSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARM--LDPKDIAVHAALAVSHTNEHNA  100 (112)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhHHHHHHHhhhcccccc-cchhhhhhhhhhhhhhhHHHhhcccccccc--cccccccchHHHHHHHHHCCCH
Confidence            3344445555555555555443211 334444444455555555555555555444  1222344444455555555555


Q ss_pred             HHHHHHHH
Q 038303          365 EEAEAFIR  372 (461)
Q Consensus       365 ~~A~~~~~  372 (461)
                      ++|.+.++
T Consensus       101 ~~A~~~l~  108 (112)
T d1hxia_         101 NAALASLR  108 (112)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            55555444

>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=98.06  E-value=8.5e-06  Score=58.98  Aligned_cols=92  Identities=9%  Similarity=-0.004  Sum_probs=47.7

Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCch--------hhHHHH
Q 038303          315 FIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAE--------WSVWGA  385 (461)
Q Consensus       315 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~--------~~~~~~  385 (461)
                      +..+...+...|++++|+..|.+..+.  .+.+...+..+..+|.+.|++++|...++++ ...|+        ..+|..
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~   84 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence            334455566666666666666666551  2234555555666666666666666666554 11111        113333


Q ss_pred             HHHHHHhcCChHHHHHHHHHHhh
Q 038303          386 LLNACRIHRNDEMFDRIRQDLVN  408 (461)
Q Consensus       386 l~~~~~~~~~~~~a~~~~~~~~~  408 (461)
                      +...+...+++++|+..+++...
T Consensus        85 lg~~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          85 IGNSYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHh
Confidence            44445555555555555555544

>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=98.05  E-value=3.9e-05  Score=57.32  Aligned_cols=74  Identities=8%  Similarity=-0.128  Sum_probs=40.2

Q ss_pred             hHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHH
Q 038303          350 HYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNT  423 (461)
Q Consensus       350 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  423 (461)
                      +|..+..+|.+.|++++|++.+++. ...| +...|..+..++...|+++.|+..|+++.+..|.+..+...+..+
T Consensus        69 ~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~~~l~~~  144 (153)
T d2fbna1          69 CNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELC  144 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHhhHHHHHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            4444555555666666666655554 2222 344555555555666666666666666666555555555444433

>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=98.04  E-value=2.8e-05  Score=58.15  Aligned_cols=65  Identities=6%  Similarity=-0.107  Sum_probs=60.0

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcCC
Q 038303          381 SVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGL  445 (461)
Q Consensus       381 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~  445 (461)
                      .++..+..+|.+.|++++|++.++++++..|.+..+|..++.++...|++++|...|++..+...
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P  132 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNP  132 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHST
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            46677888899999999999999999999999999999999999999999999999999987653

>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=97.98  E-value=3.2e-05  Score=59.01  Aligned_cols=83  Identities=5%  Similarity=-0.202  Sum_probs=54.6

Q ss_pred             cchHHHHHHHHhhcCCHHHHHHHHHhC-CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHh
Q 038303          348 MQHYACVVDMYGRAGLLEEAEAFIREM-PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFA  425 (461)
Q Consensus       348 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  425 (461)
                      ...|..+..++.+.|++++|+..+++. ...| +...|..+..++...|+++.|+..|+++++..|.+..+...+..+..
T Consensus        77 ~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l~~~~~  156 (169)
T d1ihga1          77 LSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQ  156 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            345555666777777777777777766 3333 44466666666777777777777777777777777777666666554


Q ss_pred             ccCCh
Q 038303          426 GADRW  430 (461)
Q Consensus       426 ~~g~~  430 (461)
                      +....
T Consensus       157 ~l~~~  161 (169)
T d1ihga1         157 KIKAQ  161 (169)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            44333

>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=97.93  E-value=3.4e-05  Score=58.89  Aligned_cols=66  Identities=3%  Similarity=-0.100  Sum_probs=60.0

Q ss_pred             hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcC
Q 038303          379 EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMG  444 (461)
Q Consensus       379 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  444 (461)
                      ....+..+..++.+.|++++|+..++++++..|.++.+|..++.+|.+.|++++|++.|++..+..
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~  141 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA  141 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            344566777789999999999999999999999999999999999999999999999999998854

>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=97.89  E-value=9.3e-05  Score=56.24  Aligned_cols=63  Identities=5%  Similarity=-0.080  Sum_probs=57.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcC
Q 038303          382 VWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMG  444 (461)
Q Consensus       382 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  444 (461)
                      .|+.+..+|.+.|++++|+..++++++..|.+..+|..++.+|...|++++|...|+++.+..
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~  128 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN  128 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            455667778999999999999999999999999999999999999999999999999998754

>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=97.86  E-value=2.6e-06  Score=77.93  Aligned_cols=111  Identities=8%  Similarity=-0.092  Sum_probs=57.1

Q ss_pred             hHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCch-hhHHHHHHHHH
Q 038303          313 VTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAE-WSVWGALLNAC  390 (461)
Q Consensus       313 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~  390 (461)
                      ..+..+...+.+.|+.+.|...++..... .  | ..++..+...+...|++++|...+++. ...|+ ...|+.+...+
T Consensus       121 ~~~~~lg~~~~~~~~~~~A~~~~~~al~~-~--~-~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~~~~~~~~Lg~~~  196 (497)
T d1ya0a1         121 VKSSQLGIISNKQTHTSAIVKPQSSSCSY-I--C-QHCLVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQPYNQLAILA  196 (497)
T ss_dssp             ----------------------CCHHHHH-H--H-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHH
T ss_pred             HHHHHhHHHHHhCCCHHHHHHHHHHHhCC-C--H-HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCchHHHHHHHHHH
Confidence            44555555666677777777666554431 1  1 234556666777777777777777776 33343 34666677777


Q ss_pred             HhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhcc
Q 038303          391 RIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGA  427 (461)
Q Consensus       391 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  427 (461)
                      ...|+..+|...|.+.+...||.+.++..|...+.+.
T Consensus       197 ~~~~~~~~A~~~y~ral~~~~~~~~a~~nL~~~~~~~  233 (497)
T d1ya0a1         197 SSKGDHLTTIFYYCRSIAVKFPFPAASTNLQKALSKA  233 (497)
T ss_dssp             HHTTCHHHHHHHHHHHHSSSBCCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHh
Confidence            7777777777777777777777777777777666543

>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=97.79  E-value=0.00012  Score=52.63  Aligned_cols=92  Identities=11%  Similarity=-0.029  Sum_probs=51.6

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCC-----cchHHHHHH
Q 038303          282 TVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQ-----MQHYACVVD  356 (461)
Q Consensus       282 ~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~  356 (461)
                      .+...+.+.|++++|+..|.+.++.+. .+...+..+..+|.+.|++++|+..++.+.+...-.+.     ..+|..+..
T Consensus         9 ~~G~~~~~~~~y~~Ai~~y~~al~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~   87 (128)
T d1elra_           9 ELGNDAYKKKDFDTALKHYDKAKELDP-TNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGN   87 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCc-ccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHH
Confidence            445556666666666666666666432 24455666666666666666666666665541110111     124445555


Q ss_pred             HHhhcCCHHHHHHHHHhC
Q 038303          357 MYGRAGLLEEAEAFIREM  374 (461)
Q Consensus       357 ~~~~~g~~~~A~~~~~~~  374 (461)
                      .+...+++++|.+.|++.
T Consensus        88 ~~~~~~~~~~A~~~~~ka  105 (128)
T d1elra_          88 SYFKEEKYKDAIHFYNKS  105 (128)
T ss_dssp             HHHHTTCHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHH
Confidence            566666666666666654

>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=97.70  E-value=1.3e-05  Score=73.05  Aligned_cols=113  Identities=8%  Similarity=-0.070  Sum_probs=66.1

Q ss_pred             chHHHHHHHHHHhcCCHHHHHHHHHHccCCC-hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCH-hHHHHHHHHHH
Q 038303          246 NLVGNAVINMYVKCGDVGIAIQVFNMLAYKD-KISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDD-VTFIALISACS  323 (461)
Q Consensus       246 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~ll~~~~  323 (461)
                      ...+..+...+.+.|+.+.|...+.....++ ..++..+...+...|++++|...|++..+.  .|+. .+|+.+...+.
T Consensus       120 ~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l--~P~~~~~~~~Lg~~~~  197 (497)
T d1ya0a1         120 RVKSSQLGIISNKQTHTSAIVKPQSSSCSYICQHCLVHLGDIARYRNQTSQAESYYRHAAQL--VPSNGQPYNQLAILAS  197 (497)
T ss_dssp             -----------------------CCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTBSHHHHHHHHHHH
T ss_pred             HHHHHHhHHHHHhCCCHHHHHHHHHHHhCCCHHHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCchHHHHHHHHHHH
Confidence            4455666777777888888777665554432 245667778888888899999888888874  4444 78888888888


Q ss_pred             cCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcC
Q 038303          324 HGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAG  362 (461)
Q Consensus       324 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  362 (461)
                      ..|+..+|...|.+...  --+|-...+..|...+.+..
T Consensus       198 ~~~~~~~A~~~y~ral~--~~~~~~~a~~nL~~~~~~~~  234 (497)
T d1ya0a1         198 SKGDHLTTIFYYCRSIA--VKFPFPAASTNLQKALSKAL  234 (497)
T ss_dssp             HTTCHHHHHHHHHHHHS--SSBCCHHHHHHHHHHHHHHT
T ss_pred             HcCCHHHHHHHHHHHHh--CCCCCHHHHHHHHHHHHHhh
Confidence            88998888888888876  33566777777777776543

>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=97.60  E-value=0.00014  Score=54.45  Aligned_cols=63  Identities=10%  Similarity=-0.070  Sum_probs=44.9

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHhhcC-------CC----ChhHHHHHHHHHhccCChhhHHHHHHHHHHc
Q 038303          381 SVWGALLNACRIHRNDEMFDRIRQDLVNKK-------GV----SVGTFALMSNTFAGADRWEDTNKIRDEIRRM  443 (461)
Q Consensus       381 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  443 (461)
                      ..|+.+..+|...|++++|...+++.++..       +.    ...++..++.+|...|++++|+..|++..+.
T Consensus        56 ~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l  129 (156)
T d2hr2a1          56 FCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  129 (156)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            345666666777777777777777766421       11    1336788899999999999999999987653

>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=97.59  E-value=0.00013  Score=59.77  Aligned_cols=124  Identities=12%  Similarity=0.001  Sum_probs=66.2

Q ss_pred             HhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCC-cchHHHHHHHHhhcCCHHH
Q 038303          288 AMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQ-MQHYACVVDMYGRAGLLEE  366 (461)
Q Consensus       288 ~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~  366 (461)
                      .+.|++++|+..+++.++.... |...+..+...++..|++++|...++...+   ..|+ ...+..+...+...+..++
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 LSEGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIK---LFPEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHH---HCGGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCcHHHHHHHHHHHHhccccHH
Confidence            4557777777777777765322 446677777777777777777777777665   2233 3333333333333333333


Q ss_pred             HHHHHHhC--CCCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChh
Q 038303          367 AEAFIREM--PIEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVG  415 (461)
Q Consensus       367 A~~~~~~~--~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  415 (461)
                      +..-....  ...| +...+......+...|+.++|.+.++++.+..|..+.
T Consensus        83 a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~~~  134 (264)
T d1zbpa1          83 FAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGF  134 (264)
T ss_dssp             HTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCE
T ss_pred             HHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCCc
Confidence            32222221  1122 2222233333456667777777777776665555443

>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=97.54  E-value=0.0012  Score=50.35  Aligned_cols=73  Identities=11%  Similarity=0.081  Sum_probs=53.2

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHh----hcCCCCCcch
Q 038303          277 KISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMST----VYEIVPQMQH  350 (461)
Q Consensus       277 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~~  350 (461)
                      ...+..+...+...|++++|+..++++.+... -+...|..++.+|...|+.++|++.|+...+    ..|+.|+..+
T Consensus        67 ~~a~~~la~~~~~~g~~~~Al~~~~~al~~~P-~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          67 VLAHTAKAEAEIACGRASAVIAELEALTFEHP-YREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHHHCCCchHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            34566677778888888888888888877533 2557788888888888888888888877633    2577777654

>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=97.52  E-value=0.00018  Score=52.92  Aligned_cols=44  Identities=16%  Similarity=0.203  Sum_probs=33.6

Q ss_pred             ChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcCC
Q 038303          395 NDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGL  445 (461)
Q Consensus       395 ~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~  445 (461)
                      .++.|.+.|+++++..|.+...+..+...       ..|.+++.+..++|+
T Consensus       101 ~~~~A~~~~~kal~l~P~~~~~~~~L~~~-------~ka~~~~~e~~k~~~  144 (145)
T d1zu2a1         101 NFDLATQFFQQAVDEQPDNTHYLKSLEMT-------AKAPQLHAEAYKQGL  144 (145)
T ss_dssp             HHHHHHHHHHHHHHHCTTCHHHHHHHHHH-------HTHHHHHHHHHHSSS
T ss_pred             hHHHhhhhhhcccccCCCHHHHHHHHHHH-------HHHHHHHHHHHHHhc
Confidence            46889999999999999888777666655       466777777777765

>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=97.48  E-value=0.00041  Score=46.55  Aligned_cols=72  Identities=8%  Similarity=-0.089  Sum_probs=51.4

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC----C----CCc-hhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHH
Q 038303          351 YACVVDMYGRAGLLEEAEAFIREM----P----IEA-EWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMS  421 (461)
Q Consensus       351 ~~~l~~~~~~~g~~~~A~~~~~~~----~----~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~  421 (461)
                      +-.+...+.+.|++++|...|++.    +    ..+ ...+++.+..++.+.|++++|+..++++++..|.++.++..+.
T Consensus         8 c~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~~Nl~   87 (95)
T d1tjca_           8 SFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGNLK   87 (95)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCHHHHHHHH
Confidence            334666677777777777777665    1    011 2346777888888888889998888888888888888877764


Q ss_pred             H
Q 038303          422 N  422 (461)
Q Consensus       422 ~  422 (461)
                      .
T Consensus        88 ~   88 (95)
T d1tjca_          88 Y   88 (95)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=97.41  E-value=0.00014  Score=59.60  Aligned_cols=121  Identities=11%  Similarity=0.075  Sum_probs=85.7

Q ss_pred             HHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhC-CCCchhh-HHHHHHHHHHhcCChHHH
Q 038303          322 CSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREM-PIEAEWS-VWGALLNACRIHRNDEMF  399 (461)
Q Consensus       322 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~-~~~~l~~~~~~~~~~~~a  399 (461)
                      ..+.|++++|+..+++..+  .-+.+...+..+...|+..|++++|...++.. ...|+.. .+..+...+...+..+++
T Consensus         6 aL~~G~l~eAl~~l~~al~--~~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~~~~~~~~l~~ll~a~~~~~~a   83 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIK--ASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHH--TCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhccccHHH
Confidence            4568999999999999988  45667899999999999999999999999998 5556544 333333334333333333


Q ss_pred             HHHHHHHhh-cCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcC
Q 038303          400 DRIRQDLVN-KKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMG  444 (461)
Q Consensus       400 ~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  444 (461)
                      ..-...... ..|+....+...+..+.+.|+.++|.+.++++.+..
T Consensus        84 ~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~  129 (264)
T d1zbpa1          84 AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELR  129 (264)
T ss_dssp             TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC
Confidence            222111111 234445556666778889999999999999987754

>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=97.36  E-value=0.0089  Score=40.79  Aligned_cols=141  Identities=10%  Similarity=0.108  Sum_probs=106.7

Q ss_pred             HHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHH
Q 038303          287 LAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEE  366 (461)
Q Consensus       287 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  366 (461)
                      +.-.|..++..+++.+....   .+..-|+.+|--....-+-+...++++.+-+.+.+.|-.. ...++.++...+.   
T Consensus        12 ~ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls~C~N-lk~vv~C~~~~n~---   84 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQN-LKSVVECGVINNT---   84 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCSC-THHHHHHHHHTTC---
T ss_pred             HHHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhhcCchhhhc-HHHHHHHHHHhcc---
Confidence            45578888999999888764   3567788888777777788888888888866444433322 2334455544432   


Q ss_pred             HHHHHHhCCCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHHHHcCCc
Q 038303          367 AEAFIREMPIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEIRRMGLK  446 (461)
Q Consensus       367 A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~  446 (461)
                                  +...++..+.....+|+-+....+++.+.+...+++.....++.+|.+.|...++.+++.+.-++|++
T Consensus        85 ------------~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          85 ------------LNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             ------------CCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             ------------hHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence                        33445666777889999999999999988888889999999999999999999999999999999986

>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=97.24  E-value=0.00021  Score=52.59  Aligned_cols=52  Identities=2%  Similarity=-0.125  Sum_probs=44.1

Q ss_pred             cCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCC-----------hhhHHHHHHHHHHcC
Q 038303          393 HRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADR-----------WEDTNKIRDEIRRMG  444 (461)
Q Consensus       393 ~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-----------~~~A~~~~~~m~~~g  444 (461)
                      .+.+++|+..++++++..|.+..+|..++.+|...|+           +++|.+.|++..+..
T Consensus        54 ~~~~~~Ai~~~~kAl~l~P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l~  116 (145)
T d1zu2a1          54 KQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQ  116 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHhcchhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccccC
Confidence            3556889999999999999999999999999987654           688888898887644

>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=97.14  E-value=0.002  Score=47.75  Aligned_cols=88  Identities=10%  Similarity=-0.056  Sum_probs=52.6

Q ss_pred             HHcCCChHHHHHHHHHhHhhcCCCCC----------cchHHHHHHHHhhcCCHHHHHHHHHhC--------CCCch----
Q 038303          322 CSHGGLVDQGLILFKAMSTVYEIVPQ----------MQHYACVVDMYGRAGLLEEAEAFIREM--------PIEAE----  379 (461)
Q Consensus       322 ~~~~~~~~~a~~~~~~~~~~~~~~~~----------~~~~~~l~~~~~~~g~~~~A~~~~~~~--------~~~p~----  379 (461)
                      +...|++++|+..|++..+...-.|+          ...|+.+..+|.+.|++++|...+++.        ...++    
T Consensus        19 ~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~   98 (156)
T d2hr2a1          19 QLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKL   98 (156)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccch
Confidence            34455566666655555442211121          235566677777777777777666654        11111    


Q ss_pred             -hhHHHHHHHHHHhcCChHHHHHHHHHHhhc
Q 038303          380 -WSVWGALLNACRIHRNDEMFDRIRQDLVNK  409 (461)
Q Consensus       380 -~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  409 (461)
                       ...++.+..+|...|++++|+..|+++.+.
T Consensus        99 ~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l  129 (156)
T d2hr2a1          99 WISAVYSRALALDGLGRGAEAMPEFKKVVEM  129 (156)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence             124556667788889999999998888764

>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=97.03  E-value=0.0012  Score=44.24  Aligned_cols=63  Identities=5%  Similarity=-0.043  Sum_probs=52.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHhhcCCC-------ChhHHHHHHHHHhccCChhhHHHHHHHHHHcCC
Q 038303          383 WGALLNACRIHRNDEMFDRIRQDLVNKKGV-------SVGTFALMSNTFAGADRWEDTNKIRDEIRRMGL  445 (461)
Q Consensus       383 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-------~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~  445 (461)
                      +-.+...+.+.|+++.|+..|+++.+..|.       ...++..++.+|.+.|++++|+..++++.+...
T Consensus         8 c~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P   77 (95)
T d1tjca_           8 SFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDP   77 (95)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCc
Confidence            445667789999999999999999874322       256899999999999999999999999988653

>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=96.85  E-value=0.13  Score=45.14  Aligned_cols=61  Identities=15%  Similarity=0.035  Sum_probs=35.8

Q ss_pred             HHHHHHHHcCChhhHHHHHhcCCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCC
Q 038303          148 AILDFYIRCGSLASCGYLFVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPN  209 (461)
Q Consensus       148 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~  209 (461)
                      ..+..+.+.++++.....+..-+ .+...-.....+....|+.++|...+...-..|...|+
T Consensus        77 ~~l~~L~~~~~w~~~~~~~~~~p-~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~~~p~  137 (450)
T d1qsaa1          77 RFVNELARREDWRGLLAFSPEKP-GTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKSQPN  137 (450)
T ss_dssp             HHHHHHHHTTCHHHHHHHCCSCC-SSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSCCCT
T ss_pred             HHHHHHHhccCHHHHHHhccCCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCch
Confidence            34455666777766665554322 23333345566677777777777777776665544444

>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=95.48  E-value=0.087  Score=37.16  Aligned_cols=52  Identities=6%  Similarity=0.019  Sum_probs=34.6

Q ss_pred             cCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhc----cCChhhHHHHHHHHHHcCCc
Q 038303          393 HRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAG----ADRWEDTNKIRDEIRRMGLK  446 (461)
Q Consensus       393 ~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~~g~~  446 (461)
                      ..+.+.|.++|++..+..  ++.....|+..|..    ..+.++|.+++++..+.|..
T Consensus        72 ~~d~~~A~~~~~~aa~~g--~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~~  127 (133)
T d1klxa_          72 KKDLRKAAQYYSKACGLN--DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGSE  127 (133)
T ss_dssp             CCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH
T ss_pred             chhhHHHHHHHhhhhccC--cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCCH
Confidence            345677777777776543  34456666666665    45777888888887777653

>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=95.24  E-value=0.84  Score=39.72  Aligned_cols=393  Identities=9%  Similarity=-0.026  Sum_probs=203.5

Q ss_pred             HHHHhhCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHH--hcCCHHHHHHHHhhCCCCCcee----HHHHHHHHHcCCC
Q 038303           18 KACSLAHPHQKALEIHAHVIEYGHLHDIFIQNSLLHFYV--TVKDIFSAHQIFNSVVFPDVVS----WTTIISGLSKCGF   91 (461)
Q Consensus        18 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~--~~~~~~~a~~~~~~~~~~~~~~----~~~li~~~~~~~~   91 (461)
                      ....+.|+...+.++...+...   | ...|-..-..-.  ......++..++++-  |+...    -...+..+.+.++
T Consensus        14 ~~a~~~~~~~~~~~~~~~L~dy---p-L~pYl~~~~l~~~~~~~~~~~i~~Fl~~~--p~~P~~~~lr~~~l~~L~~~~~   87 (450)
T d1qsaa1          14 KQAWDNRQMDVVEQMMPGLKDY---P-LYPYLEYRQITDDLMNQPAVTVTNFVRAN--PTLPPARTLQSRFVNELARRED   87 (450)
T ss_dssp             HHHHHTTCHHHHHHHSGGGTTS---T-THHHHHHHHHHHTGGGCCHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHCCCHHHHHHHHhhhcCC---C-CHHHHHHHHHHhccccCCHHHHHHHHHHC--CCChhHHHHHHHHHHHHHhccC
Confidence            3445677777777777766432   2 223332222222  234555566655554  22211    2233456667777


Q ss_pred             hHHHHHHHhcCCCCCCchhHHHHHHHhcccchhHHHHHHHHHHHhhcCC-----------------CChhHHHHHHHHHH
Q 038303           92 HKEAIDMFCGIDVKPNANTLVSVLSACSSLVSHKLGKAIHAHSLRNLNE-----------------NNIILDNAILDFYI  154 (461)
Q Consensus        92 ~~~a~~~~~~m~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-----------------~~~~~~~~l~~~~~  154 (461)
                      +...+..+..  ..++...-.....+....|+.+.|......+-..|..                 .+...+-.-+....
T Consensus        88 w~~~~~~~~~--~p~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~~~p~~c~~l~~~~~~~~~lt~~~~~~R~~~~l  165 (450)
T d1qsaa1          88 WRGLLAFSPE--KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKSQPNACDKLFSVWRASGKQDPLAYLERIRLAM  165 (450)
T ss_dssp             HHHHHHHCCS--CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSCCCTHHHHHHHHHHHTTCSCHHHHHHHHHHHH
T ss_pred             HHHHHHhccC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            7666655532  1223333344555556666666666555544333322                 12222223344445


Q ss_pred             HcCChhhHHHHHhcCCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCChhhHHHHHHHhhc--cchhhhHHHH
Q 038303          155 RCGSLASCGYLFVKMPKRNVVSWTTMIGGYAERGFCKEAVSVFQEMEKTKEAEPNEATLVNVLSACSS--ISALSFGKYV  232 (461)
Q Consensus       155 ~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~l~~~~~--~~~~~~a~~~  232 (461)
                      ..|+...|..+...+..........++....   +...+.....   .   ..++......+..+..+  ..+.+.+..+
T Consensus       166 ~~~~~~~a~~l~~~l~~~~~~~~~a~~~l~~---~p~~~~~~~~---~---~~~~~~~~~~~~~~l~rla~~d~~~a~~~  236 (450)
T d1qsaa1         166 KAGNTGLVTVLAGQMPADYQTIASAIISLAN---NPNTVLTFAR---T---TGATDFTRQMAAVAFASVARQDAENARLM  236 (450)
T ss_dssp             HTTCHHHHHHHHHTCCGGGHHHHHHHHHHHH---CGGGHHHHHH---H---SCCCHHHHHHHHHHHHHHHHHCHHHHHHH
T ss_pred             HcCChhhHHHHHhhCChhHHHHHHHHHHHHh---ChHhHHHHHh---c---CCCChhhhHHHHHHHHHHhccChhHHHHH
Confidence            5566666666666665444444444444432   2233222221   1   22333333333333333  2456677777


Q ss_pred             HHHHHhhcCCCCcchH--HHHHHHHHHhcCCHHHHHHHHHHccC--CChhhHHHHHHHHHhcCChHHHHHHHHHHHhcCC
Q 038303          233 HSYISTRYDLSVSNLV--GNAVINMYVKCGDVGIAIQVFNMLAY--KDKISWSTVISGLAMNGCGRQALQLFSLMIINAV  308 (461)
Q Consensus       233 ~~~~~~~~~~~~~~~~--~~~li~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~  308 (461)
                      +..........++...  ...+...+...+..+.+..++.....  .+.....-.+......+++..+...+..|... .
T Consensus       237 l~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~~~~al~~~~~~~~~~~~~~l~~~-~  315 (450)
T d1qsaa1         237 IPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQSTSLIERRVRMALGTGDRRGLNTWLARLPME-A  315 (450)
T ss_dssp             HHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCCCHHHHHHHHHHHHHHTCHHHHHHHHHHSCTT-G
T ss_pred             HHhhhhcccccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccccchHHHHHHHHHHHHcCChHHHHHHHHhcCcc-c
Confidence            7777663333333221  11222223344566677766655442  23333344455556678888888888877542 2


Q ss_pred             CCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhhcCCHHHHHHHHHhCCCCchhh----HHH
Q 038303          309 FPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWS----VWG  384 (461)
Q Consensus       309 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~----~~~  384 (461)
                      .-...-.--+.+++...|+.+.|...|..+..    .++  .|.-|...  +.|..-.. . ....+..+...    .-.
T Consensus       316 ~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~----~~~--fYG~LAa~--~Lg~~~~~-~-~~~~~~~~~~~~~~~~~~  385 (450)
T d1qsaa1         316 KEKDEWRYWQADLLLERGREAEAKEILHQLMQ----QRG--FYPMVAAQ--RIGEEYEL-K-IDKAPQNVDSALTQGPEM  385 (450)
T ss_dssp             GGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT----SCS--HHHHHHHH--HTTCCCCC-C-CCCCCSCCCCHHHHSHHH
T ss_pred             ccHHHHHHHHHHHHHHcCChhhHHHHHHHHhc----CCC--hHHHHHHH--HcCCCCCC-C-cCCCCccHHHhhhcChHH
Confidence            22334445677888888999999988888765    132  44444322  22321000 0 00001111110    011


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHHHHhccCChhhHHHHHHHH
Q 038303          385 ALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSNTFAGADRWEDTNKIRDEI  440 (461)
Q Consensus       385 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  440 (461)
                      .-+..+...|....|...+..+.+..  ++.-...++....+.|.++.|+....+.
T Consensus       386 ~ra~~L~~~g~~~~A~~e~~~l~~~~--~~~~~~~la~lA~~~g~~~~aI~a~~~~  439 (450)
T d1qsaa1         386 ARVRELMYWNLDNTARSEWANLVKSK--SKTEQAQLARYAFNNQWWDLSVQATIAG  439 (450)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTC--CHHHHHHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCchHHHHHHHHHHhCC--CHHHHHHHHHHHHHCCChhHHHHHHHHH
Confidence            22344778899999999999887643  4567778888999999999999877654

>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=93.86  E-value=0.14  Score=35.05  Aligned_cols=71  Identities=8%  Similarity=-0.068  Sum_probs=38.3

Q ss_pred             CCcchHHHHHHHHhhcC---CHHHHHHHHHhC-CCCch-h-hHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhH
Q 038303          346 PQMQHYACVVDMYGRAG---LLEEAEAFIREM-PIEAE-W-SVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGT  416 (461)
Q Consensus       346 ~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~-~~~p~-~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  416 (461)
                      |++.+--...-+++++.   +.++++.++++. ...|. . ..+..+.-+|.+.|+++.|.+.++++++..|.+..+
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            33444444455555443   334566666665 22232 1 233445555666777777777777777766666544

>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=93.73  E-value=0.34  Score=33.84  Aligned_cols=110  Identities=8%  Similarity=-0.047  Sum_probs=57.0

Q ss_pred             ChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHHHHhh----cCCHHHH
Q 038303          292 CGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVDMYGR----AGLLEEA  367 (461)
Q Consensus       292 ~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A  367 (461)
                      ++++|++.|++..+.|..   .....|.  .....+.++|.+.+++..+ .|   ++.....|...|..    ..+.++|
T Consensus         8 d~~~A~~~~~kaa~~g~~---~a~~~l~--~~~~~~~~~a~~~~~~aa~-~g---~~~a~~~Lg~~y~~g~~~~~d~~~A   78 (133)
T d1klxa_           8 DLKKAIQYYVKACELNEM---FGCLSLV--SNSQINKQKLFQYLSKACE-LN---SGNGCRFLGDFYENGKYVKKDLRKA   78 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCT---THHHHHH--TCTTSCHHHHHHHHHHHHH-TT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             CHHHHHHHHHHHHHCCCh---hhhhhhc--cccccCHHHHHHHHhhhhc-cc---chhhhhhHHHhhhhccccchhhHHH
Confidence            456666666666655421   2222221  2234566677777766665 33   23333444444433    3456777


Q ss_pred             HHHHHhCCCCchhhHHHHHHHHHHh----cCChHHHHHHHHHHhhcC
Q 038303          368 EAFIREMPIEAEWSVWGALLNACRI----HRNDEMFDRIRQDLVNKK  410 (461)
Q Consensus       368 ~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~  410 (461)
                      .++|++.-..-++.....|...|..    ..+.+.|.+++++..+..
T Consensus        79 ~~~~~~aa~~g~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_          79 AQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHhhhhccCcchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCC
Confidence            7777776212223333334444433    356777777777776644

>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=93.65  E-value=0.64  Score=31.58  Aligned_cols=65  Identities=11%  Similarity=0.012  Sum_probs=46.2

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCC
Q 038303          278 ISWSTVISGLAMNGCGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEI  344 (461)
Q Consensus       278 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  344 (461)
                      ...+..++.+..+|+-|+-.++++++.+. -+|++...-.+..+|.+.|...++-+++.+..+ .|+
T Consensus        87 e~vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe-~G~  151 (161)
T d1wy6a1          87 EHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACK-KGE  151 (161)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-TTC
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHH-HhH
Confidence            33455567777788888888888876663 456777777777888888888888888877777 454

>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=92.68  E-value=0.66  Score=29.76  Aligned_cols=63  Identities=11%  Similarity=0.179  Sum_probs=50.7

Q ss_pred             ChHHHHHHHHHHHhcCCCCCHhHHHHHHHHHHcCCChHHHHHHHHHhHhhcCCCCCcchHHHHHH
Q 038303          292 CGRQALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACVVD  356 (461)
Q Consensus       292 ~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  356 (461)
                      +.-++.+-+..+......|++......+++|.+.+++..|.++|+.++.+.|  ++...|..+++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~--~~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAG--PHKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT--TCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc--CcHHHHHHHHH
Confidence            4556777778888888999999999999999999999999999998887443  44567766654

>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=91.71  E-value=1.2  Score=30.23  Aligned_cols=47  Identities=6%  Similarity=0.057  Sum_probs=22.3

Q ss_pred             hHHHHHHHHHHhhcCCCCh-hHHHHHHHHHhccCChhhHHHHHHHHHH
Q 038303          396 DEMFDRIRQDLVNKKGVSV-GTFALMSNTFAGADRWEDTNKIRDEIRR  442 (461)
Q Consensus       396 ~~~a~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~m~~  442 (461)
                      .+.++.+++.+.+..|.+. ..+..|+.+|.+.|++++|.+.++++.+
T Consensus        54 ~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~  101 (124)
T d2pqrb1          54 ERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  101 (124)
T ss_dssp             HHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            3444555554444443332 3444555555555555555555555444

>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=88.97  E-value=1.8  Score=27.66  Aligned_cols=48  Identities=21%  Similarity=0.207  Sum_probs=37.1

Q ss_pred             CCCchhhHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCChhHHHHHHH
Q 038303          375 PIEAEWSVWGALLNACRIHRNDEMFDRIRQDLVNKKGVSVGTFALMSN  422 (461)
Q Consensus       375 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  422 (461)
                      ..-|++....+.+++|.+.+++..|.++++.++....++...|..+++
T Consensus        36 DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~~~k~~y~yilq   83 (105)
T d1v54e_          36 DLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVIQ   83 (105)
T ss_dssp             SBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHHH
T ss_pred             ccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            566888888888999999999999999998888755444556666554