Citrus Sinensis ID: 048090

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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-------
Protein Sequence
NVHAHQFETGLLLICLIIFQSRLMLPYTTCRHKKNLGTLTNCLKFLNPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDVGCSWIEVTG
Secondary Structure (PSIPRED)
cccHHHHHHcccccccEEccccHHHHHHcccccccHHHHHHHHccccccccccHHHHHHHHHHcccccHHHHHHHHHHHccccccccHHHHHHHHHccccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHccccccccEEEHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHccccHHHHHHHHHcccccccccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHcccccHHHHHHHHHHHcHHccccccccccHHHHHHHHHccccHHHHHHHHHHccccccccccHHHHHHHHHHHHHccccHHHHHHHHHHHHccccccccHHHHHHHHHHccccHHHHHHHHHHHHcccccccccEEEEEcc
Secondary Structure Prediction (SSPRO)
ccHHHHHHccccccccEHHHHHHHHHHHHccccccHHHHHHHHHHccccccEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccEEHHHHHHHHHcHcHHHHHHHHHHHHHHHccccccccEHHHHHHHHHHHcccHHHHHHHHHHcHHHccccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccEEEEEEcc
Coil and Loop (DISEMBL)
NVHAHQFETGLLLICLIIFQsrlmlpyttcrhkknlgtltnclkflnprnplpfnvvisdfcrngsplyalktfsfMHVHGIFLDTYALCSsltastsvkdarfgkQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAelmfdeipvknsvCANALLSGYCEAKLWAGGLELVRLMpalgldydhFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAghrlegeinKDVVLWTSMlgvygrngYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHdyklepgpehYSCLVDLLCRAGELDKAWKLINEMLdrghgsssVSMWGALLSACHDCGKFELGKLAAQKAleldphnvGIYVMLSNLYAKFCMWDEIGQLRELMKEkglkkdvgcswievtg
Flexible Loop (DISEMBL)
NVHAHQFETGLLLICLIIFQSRLMLPYTTCRHKKNLGTLTNCLKFLNPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHrlegeinkdVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMkekglkkdvgcswievtg
Low Complexity Region (SEG)
NVHAHQFETGLLLICLIIFQSRLMLPYTTCRHKKNLGTLTNCLKFLNPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDVGCSWIEVTG
Disordered region (IsUnstruct)
*****QFETGLLLICLIIFQSRLMLPYTTCRHKKNLGTLTNCLKFLNPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDVGCSWIE***
Disordered Region (DISOPRED)
NVHAHQFETGLLLICLIIFQSRLMLPYTTCRHKKNLGTLTNCLKFLNPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDVGCSWIEVTG
Disordered Region (DISEMBL)
NVHAHQFETGLLLICLIIFQSRLMLPYTTCRHKKNLGTLTNCLKFLNPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDVGCSWIEVTG
Disordered Region (DISPRO)
NVHAHQFETGLLLICLIIFQSRLMLPYTTCRHKKNLGTLTNCLKFLNPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDVGCSWIEVTG
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
NVHAHQFETGLLLICLIIFQSRLMLPYTTCRHKKNLGTLTNCLKFLNPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDVGCSWIEVTG
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	447	2.2.26 [Sep-21-2011]
Q9LTV8	694	Pentatricopeptide repeat-	yes	no	0.959	0.618	0.360	1e-73
Q9CAA8	743	Putative pentatricopeptid	no	no	0.861	0.518	0.362	4e-68
Q9SI53	630	Pentatricopeptide repeat-	no	no	0.850	0.603	0.356	5e-67
Q9SN39	871	Pentatricopeptide repeat-	no	no	0.921	0.473	0.338	7e-67
Q9LUL5	710	Pentatricopeptide repeat-	no	no	0.832	0.523	0.358	1e-65
Q9LIQ7	633	Pentatricopeptide repeat-	no	no	0.944	0.666	0.337	2e-64
Q9SX45	596	Pentatricopeptide repeat-	no	no	0.863	0.647	0.35	2e-64
Q9SIT7	697	Pentatricopeptide repeat-	no	no	0.966	0.619	0.311	7e-64
Q9LW63	715	Putative pentatricopeptid	no	no	0.901	0.563	0.320	3e-63
Q9STF3	657	Pentatricopeptide repeat-	no	no	0.782	0.532	0.356	1e-62

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

 Score =  277 bits (708), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 161/446 (36%), Positives = 253/446 (56%), Gaps = 17/446 (3%)

Query: 2   VHAHQFETGLLLICLIIFQSRLMLPYTTCRHKKNLGTLTNCLKFLNPRNPLPFNVVISDF 61
           VHA  F  G      +  Q+ L+  Y  CR   +  T+   L  L  R  + +  ++S +
Sbjct: 141 VHAQVFRLGF--DADVFVQNGLIALYAKCRRLGSARTVFEGLP-LPERTIVSWTAIVSAY 197

Query: 62  CRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSV 121
            +NG P+ AL+ FS M    +  D  AL S L A T ++D + G+ + A V K G     
Sbjct: 198 AQNGEPMEALEIFSQMRKMDVKPDWVALVSVLNAFTCLQDLKQGRSIHASVVKMGLEIEP 257

Query: 122 FVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPAL 181
            +  +L  +YAK   +  A+++FD++   N +  NA++SGY +       +++   M   
Sbjct: 258 DLLISLNTMYAKCGQVATAKILFDKMKSPNLILWNAMISGYAKNGYAREAIDMFHEMINK 317

Query: 182 GLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVT 241
            +  D  ++++ + ACA + + E  R ++ Y+ R   +  +DVF+ S+LI+M+ KCG V 
Sbjct: 318 DVRPDTISITSAISACAQVGSLEQARSMYEYVGRS--DYRDDVFISSALIDMFAKCGSVE 375

Query: 242 KALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFV 301
            A  VF+         +++DVV+W++M+  YG +G  +E I LY AM   G  P++V F+
Sbjct: 376 GARLVFDRT-------LDRDVVVWSAMIVGYGLHGRAREAISLYRAMERGGVHPNDVTFL 428

Query: 302 TVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLD 361
            ++ AC+H+G V+ G  +F  M  D+K+ P  +HY+C++DLL RAG LD+A+++I  M  
Sbjct: 429 GLLMACNHSGMVREGWWFFNRMA-DHKINPQQQHYACVIDLLGRAGHLDQAYEVIKCMPV 487

Query: 362 RGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDE 421
           +      V++WGALLSAC      ELG+ AAQ+   +DP N G YV LSNLYA   +WD 
Sbjct: 488 Q----PGVTVWGALLSACKKHRHVELGEYAAQQLFSIDPSNTGHYVQLSNLYAAARLWDR 543

Query: 422 IGQLRELMKEKGLKKDVGCSWIEVTG 447
           + ++R  MKEKGL KDVGCSW+EV G
Sbjct: 544 VAEVRVRMKEKGLNKDVGCSWVEVRG 569

Arabidopsis thaliana (taxid: 3702)

>sp|Q9CAA8|PP108_ARATH Putative pentatricopeptide repeat-containing protein At1g68930 OS=Arabidopsis thaliana GN=PCMP-H22 PE=3 SV=1

 Score =  259 bits (661), Expect = 4e-68,   Method: Compositional matrix adjust.
 Identities = 145/400 (36%), Positives = 221/400 (55%), Gaps = 15/400 (3%)

Query: 49  RNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQV 108
           ++ + +  +I    +NG    A++ F  M V G+ +D Y   S L A   +     GKQ+
Sbjct: 233 KDSVSWAAMIKGLAQNGLAKEAIECFREMKVQGLKMDQYPFGSVLPACGGLGAINEGKQI 292

Query: 109 QAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLW 168
            A + ++ +   ++VGSALID+Y K   +H A+ +FD +  KN V   A++ GY +    
Sbjct: 293 HACIIRTNFQDHIYVGSALIDMYCKCKCLHYAKTVFDRMKQKNVVSWTAMVVGYGQTGRA 352

Query: 169 AGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQS 228
              +++   M   G+D DH+TL   + ACA +S+ E G Q H   I     L + V + +
Sbjct: 353 EEAVKIFLDMQRSGIDPDHYTLGQAISACANVSSLEEGSQFHGKAI--TSGLIHYVTVSN 410

Query: 229 SLIEMYGKCGLVTKALQVFNLAGHRLEGEIN-KDVVLWTSMLGVYGRNGYFKEVIKLYEA 287
           SL+ +YGKCG +  + ++FN        E+N +D V WT+M+  Y + G   E I+L++ 
Sbjct: 411 SLVTLYGKCGDIDDSTRLFN--------EMNVRDAVSWTAMVSAYAQFGRAVETIQLFDK 462

Query: 288 MLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAG 347
           M+ +G KPD V    VISACS  G V+ G  YF+ M  +Y + P   HYSC++DL  R+G
Sbjct: 463 MVQHGLKPDGVTLTGVISACSRAGLVEKGQRYFKLMTSEYGIVPSIGHYSCMIDLFSRSG 522

Query: 348 ELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYV 407
            L++A + IN M            W  LLSAC + G  E+GK AA+  +ELDPH+   Y 
Sbjct: 523 RLEEAMRFINGM----PFPPDAIGWTTLLSACRNKGNLEIGKWAAESLIELDPHHPAGYT 578

Query: 408 MLSNLYAKFCMWDEIGQLRELMKEKGLKKDVGCSWIEVTG 447
           +LS++YA    WD + QLR  M+EK +KK+ G SWI+  G
Sbjct: 579 LLSSIYASKGKWDSVAQLRRGMREKNVKKEPGQSWIKWKG 618

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SI53|PP147_ARATH Pentatricopeptide repeat-containing protein At2g03880, mitochondrial OS=Arabidopsis thaliana GN=PCMP-H44 PE=2 SV=1

 Score =  255 bits (652), Expect = 5e-67,   Method: Compositional matrix adjust.
 Identities = 142/398 (35%), Positives = 219/398 (55%), Gaps = 18/398 (4%)

Query: 49  RNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQV 108
           RN + +  +IS + +      AL+    M    +  + Y   S L +   + D R    +
Sbjct: 125 RNVISWTTMISAYSKCKIHQKALELLVLMLRDNVRPNVYTYSSVLRSCNGMSDVRM---L 181

Query: 109 QAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLW 168
              + K G  S VFV SALID++AKL    DA  +FDE+   +++  N+++ G+ +    
Sbjct: 182 HCGIIKEGLESDVFVRSALIDVFAKLGEPEDALSVFDEMVTGDAIVWNSIIGGFAQNSRS 241

Query: 169 AGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQS 228
              LEL + M   G   +  TL+++LRAC GL+  E G Q H ++++       D+ + +
Sbjct: 242 DVALELFKRMKRAGFIAEQATLTSVLRACTGLALLELGMQAHVHIVK----YDQDLILNN 297

Query: 229 SLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAM 288
           +L++MY KCG +  AL+VFN    R       DV+ W++M+    +NGY +E +KL+E M
Sbjct: 298 ALVDMYCKCGSLEDALRVFNQMKER-------DVITWSTMISGLAQNGYSQEALKLFERM 350

Query: 289 LMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGE 348
             +GTKP+ +  V V+ ACSH G ++ G  YF  M   Y ++P  EHY C++DLL +AG+
Sbjct: 351 KSSGTKPNYITIVGVLFACSHAGLLEDGWYYFRSMKKLYGIDPVREHYGCMIDLLGKAGK 410

Query: 349 LDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVM 408
           LD A KL+NEM            W  LL AC       L + AA+K + LDP + G Y +
Sbjct: 411 LDDAVKLLNEM----ECEPDAVTWRTLLGACRVQRNMVLAEYAAKKVIALDPEDAGTYTL 466

Query: 409 LSNLYAKFCMWDEIGQLRELMKEKGLKKDVGCSWIEVT 446
           LSN+YA    WD + ++R  M+++G+KK+ GCSWIEV 
Sbjct: 467 LSNIYANSQKWDSVEEIRTRMRDRGIKKEPGCSWIEVN 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 =  254 bits (650), Expect = 7e-67,   Method: Compositional matrix adjust.
 Identities = 146/431 (33%), Positives = 241/431 (55%), Gaps = 19/431 (4%)

Query: 19  FQSRLMLPYTTCRHKKNLGTLTNCLKFLNPRNPLPFNVVISDFCRNGSPLYALKTFSFMH 78
           F + L+  Y+ C    +L +     + ++ R+ + +  +I+ + R G    A+K F  M 
Sbjct: 333 FCNTLLDMYSKC---GDLDSAKAVFREMSDRSVVSYTSMIAGYAREGLAGEAVKLFEEME 389

Query: 79  VHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIH 138
             GI  D Y + + L      +    GK+V   + ++     +FV +AL+D+YAK   + 
Sbjct: 390 EEGISPDVYTVTAVLNCCARYRLLDEGKRVHEWIKENDLGFDIFVSNALMDMYAKCGSMQ 449

Query: 139 DAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLM-PALGLDYDHFTLSALLRAC 197
           +AEL+F E+ VK+ +  N ++ GY +       L L  L+        D  T++ +L AC
Sbjct: 450 EAELVFSEMRVKDIISWNTIIGGYSKNCYANEALSLFNLLLEEKRFSPDERTVACVLPAC 509

Query: 198 AGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGE 257
           A LSA + GR++H Y++R      +D  + +SL++MY KCG +        L  H L  +
Sbjct: 510 ASLSAFDKGREIHGYIMRN--GYFSDRHVANSLVDMYAKCGAL--------LLAHMLFDD 559

Query: 258 I-NKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLG 316
           I +KD+V WT M+  YG +G+ KE I L+  M   G + DE++FV+++ ACSH+G V  G
Sbjct: 560 IASKDLVSWTVMIAGYGMHGFGKEAIALFNQMRQAGIEADEISFVSLLYACSHSGLVDEG 619

Query: 317 IEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALL 376
             +F  M H+ K+EP  EHY+C+VD+L R G+L KA++ I  M          ++WGALL
Sbjct: 620 WRFFNIMRHECKIEPTVEHYACIVDMLARTGDLIKAYRFIENM----PIPPDATIWGALL 675

Query: 377 SACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKK 436
             C      +L +  A+K  EL+P N G YV+++N+YA+   W+++ +LR+ + ++GL+K
Sbjct: 676 CGCRIHHDVKLAEKVAEKVFELEPENTGYYVLMANIYAEAEKWEQVKRLRKRIGQRGLRK 735

Query: 437 DVGCSWIEVTG 447
           + GCSWIE+ G
Sbjct: 736 NPGCSWIEIKG 746

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LUL5|PP229_ARATH Pentatricopeptide repeat-containing protein At3g14330 OS=Arabidopsis thaliana GN=PCMP-H57 PE=2 SV=2

 Score =  250 bits (639), Expect = 1e-65,   Method: Compositional matrix adjust.
 Identities = 138/385 (35%), Positives = 222/385 (57%), Gaps = 13/385 (3%)

Query: 61  FCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSS 120
           + RNGSP  AL  +  M    I    +++  +L A   +KD R G+ + A + K      
Sbjct: 211 YSRNGSPRDALIVYVDMLCSFIEPGNFSISVALKACVDLKDLRVGRGIHAQIVKRKEKVD 270

Query: 121 VFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPA 180
             V + L+ LY +  L  DA  +FD +  +N V  N+L+S   +         L R M  
Sbjct: 271 QVVYNVLLKLYMESGLFDDARKVFDGMSERNVVTWNSLISVLSKKVRVHEMFNLFRKMQE 330

Query: 181 LGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLV 240
             + +   TL+ +L AC+ ++A   G+++HA +++       DV + +SL++MYGKCG V
Sbjct: 331 EMIGFSWATLTTILPACSRVAALLTGKEIHAQILKS--KEKPDVPLLNSLMDMYGKCGEV 388

Query: 241 TKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAF 300
             + +VF++        + KD+  W  ML  Y  NG  +EVI L+E M+ +G  PD + F
Sbjct: 389 EYSRRVFDVM-------LTKDLASWNIMLNCYAINGNIEEVINLFEWMIESGVAPDGITF 441

Query: 301 VTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEML 360
           V ++S CS TG  + G+  FE M  ++++ P  EHY+CLVD+L RAG++ +A K+I  M 
Sbjct: 442 VALLSGCSDTGLTEYGLSLFERMKTEFRVSPALEHYACLVDILGRAGKIKEAVKVIETMP 501

Query: 361 DRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWD 420
            +     S S+WG+LL++C   G   +G++AA++   L+PHN G YVM+SN+YA   MWD
Sbjct: 502 FK----PSASIWGSLLNSCRLHGNVSVGEIAAKELFVLEPHNPGNYVMVSNIYADAKMWD 557

Query: 421 EIGQLRELMKEKGLKKDVGCSWIEV 445
            + ++RE+MK++G+KK+ GCSW++V
Sbjct: 558 NVDKIREMMKQRGVKKEAGCSWVQV 582

Arabidopsis thaliana (taxid: 3702)

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

 Score =  247 bits (630), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 151/447 (33%), Positives = 241/447 (53%), Gaps = 25/447 (5%)

Query: 2   VHAHQFETGLLLICLIIFQSRLMLPYTTCRHKKNLGTLTNCLKFLNP---RNPLPFNVVI 58
           VHAH  ++        IF+  +++  T        G+L    K       R+ + +  +I
Sbjct: 82  VHAHILQS--------IFRHDIVMGNTLLNMYAKCGSLEEARKVFEKMPQRDFVTWTTLI 133

Query: 59  SDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWL 118
           S + ++  P  AL  F+ M   G   + + L S + A+ + +    G Q+     K G+ 
Sbjct: 134 SGYSQHDRPCDALLFFNQMLRFGYSPNEFTLSSVIKAAAAERRGCCGHQLHGFCVKCGFD 193

Query: 119 SSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLM 178
           S+V VGSAL+DLY +  L+ DA+L+FD +  +N V  NAL++G+         LEL + M
Sbjct: 194 SNVHVGSALLDLYTRYGLMDDAQLVFDALESRNDVSWNALIAGHARRSGTEKALELFQGM 253

Query: 179 PALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCG 238
              G    HF+ ++L  AC+     E G+ VHAYMI+    L    F  ++L++MY K G
Sbjct: 254 LRDGFRPSHFSYASLFGACSSTGFLEQGKWVHAYMIKSGEKLV--AFAGNTLLDMYAKSG 311

Query: 239 LVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEV 298
            +  A ++F+    R       DVV W S+L  Y ++G+ KE +  +E M   G +P+E+
Sbjct: 312 SIHDARKIFDRLAKR-------DVVSWNSLLTAYAQHGFGKEAVWWFEEMRRVGIRPNEI 364

Query: 299 AFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINE 358
           +F++V++ACSH+G +  G  Y+E M  D  + P   HY  +VDLL RAG+L++A + I E
Sbjct: 365 SFLSVLTACSHSGLLDEGWHYYELMKKD-GIVPEAWHYVTVVDLLGRAGDLNRALRFIEE 423

Query: 359 MLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCM 418
           M        + ++W ALL+AC      ELG  AA+   ELDP + G +V+L N+YA    
Sbjct: 424 MPI----EPTAAIWKALLNACRMHKNTELGAYAAEHVFELDPDDPGPHVILYNIYASGGR 479

Query: 419 WDEIGQLRELMKEKGLKKDVGCSWIEV 445
           W++  ++R+ MKE G+KK+  CSW+E+
Sbjct: 480 WNDAARVRKKMKESGVKKEPACSWVEI 506

Arabidopsis thaliana (taxid: 3702)

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

 Score =  246 bits (629), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 140/400 (35%), Positives = 226/400 (56%), Gaps = 14/400 (3%)

Query: 49  RNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQV 108
           ++ + +  +I  F RNGS   A+  F  M   G+  +   + S L A+  V+D RFG+ V
Sbjct: 167 KDVVTWTAMIDGFVRNGSASEAMVYFVEMKKTGVAANEMTVVSVLKAAGKVEDVRFGRSV 226

Query: 109 QAHVTKSGWLS-SVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKL 167
                ++G +   VF+GS+L+D+Y K     DA+ +FDE+P +N V   AL++GY +++ 
Sbjct: 227 HGLYLETGRVKCDVFIGSSLVDMYGKCSCYDDAQKVFDEMPSRNVVTWTALIAGYVQSRC 286

Query: 168 WAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQ 227
           +  G+ +   M    +  +  TLS++L ACA + A   GR+VH YMI+    +       
Sbjct: 287 FDKGMLVFEEMLKSDVAPNEKTLSSVLSACAHVGALHRGRRVHCYMIKNSIEINTTA--G 344

Query: 228 SSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEA 287
           ++LI++Y KCG + +A+ VF     RL     K+V  WT+M+  +  +GY ++   L+  
Sbjct: 345 TTLIDLYVKCGCLEEAILVFE----RLH---EKNVYTWTAMINGFAAHGYARDAFDLFYT 397

Query: 288 MLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAG 347
           ML +   P+EV F+ V+SAC+H G V+ G   F  M   + +EP  +HY+C+VDL  R G
Sbjct: 398 MLSSHVSPNEVTFMAVLSACAHGGLVEEGRRLFLSMKGRFNMEPKADHYACMVDLFGRKG 457

Query: 348 ELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYV 407
            L++A  LI  M        +  +WGAL  +C     +ELGK AA + ++L P + G Y 
Sbjct: 458 LLEEAKALIERM----PMEPTNVVWGALFGSCLLHKDYELGKYAASRVIKLQPSHSGRYT 513

Query: 408 MLSNLYAKFCMWDEIGQLRELMKEKGLKKDVGCSWIEVTG 447
           +L+NLY++   WDE+ ++R+ MK++ + K  G SWIEV G
Sbjct: 514 LLANLYSESQNWDEVARVRKQMKDQQVVKSPGFSWIEVKG 553

Arabidopsis thaliana (taxid: 3702)

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

 Score =  244 bits (624), Expect = 7e-64,   Method: Compositional matrix adjust.
 Identities = 150/482 (31%), Positives = 246/482 (51%), Gaps = 50/482 (10%)

Query: 2   VHAHQFETGLLLICLIIFQSRLMLPYTTCRHKKNLGTLTNCLKFLNPRNPLPFNVVISDF 61
           V  H        +  +   S L+  Y+ C    N+         +  RN + +N +I+ F
Sbjct: 172 VQVHSLIAKSPFLSDVYIGSALVDMYSKC---GNVNDAQRVFDEMGDRNVVSWNSLITCF 228

Query: 62  CRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWL-SS 120
            +NG  + AL  F  M    +  D   L S ++A  S+   + G++V   V K+  L + 
Sbjct: 229 EQNGPAVEALDVFQMMLESRVEPDEVTLASVISACASLSAIKVGQEVHGRVVKNDKLRND 288

Query: 121 VFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAK-------------- 166
           + + +A +D+YAK   I +A  +FD +P++N +   +++SGY  A               
Sbjct: 289 IILSNAFVDMYAKCSRIKEARFIFDSMPIRNVIAETSMISGYAMAASTKAARLMFTKMAE 348

Query: 167 --------LWAG---------GLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQV 209
                   L AG          L L  L+    +   H++ + +L+ACA L+    G Q 
Sbjct: 349 RNVVSWNALIAGYTQNGENEEALSLFCLLKRESVCPTHYSFANILKACADLAELHLGMQA 408

Query: 210 HAYMIRKCCNLG----NDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLW 265
           H ++++          +D+F+ +SLI+MY KCG V +   VF          + +D V W
Sbjct: 409 HVHVLKHGFKFQSGEEDDIFVGNSLIDMYVKCGCVEEGYLVFRKM-------MERDCVSW 461

Query: 266 TSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVH 325
            +M+  + +NGY  E ++L+  ML +G KPD +  + V+SAC H G V+ G  YF  M  
Sbjct: 462 NAMIIGFAQNGYGNEALELFREMLESGEKPDHITMIGVLSACGHAGFVEEGRHYFSSMTR 521

Query: 326 DYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKF 385
           D+ + P  +HY+C+VDLL RAG L++A  +I EM  +     SV +WG+LL+AC      
Sbjct: 522 DFGVAPLRDHYTCMVDLLGRAGFLEEAKSMIEEMPMQ---PDSV-IWGSLLAACKVHRNI 577

Query: 386 ELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDVGCSWIEV 445
            LGK  A+K LE++P N G YV+LSN+YA+   W+++  +R+ M+++G+ K  GCSWI++
Sbjct: 578 TLGKYVAEKLLEVEPSNSGPYVLLSNMYAELGKWEDVMNVRKSMRKEGVTKQPGCSWIKI 637

Query: 446 TG 447
            G
Sbjct: 638 QG 639

Arabidopsis thaliana (taxid: 3702)

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

 Score =  243 bits (619), Expect = 3e-63,   Method: Compositional matrix adjust.
 Identities = 134/418 (32%), Positives = 229/418 (54%), Gaps = 15/418 (3%)

Query: 29  TCRHKKNLGTLTNCLKFLNPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYA 88
           TC     + ++    + +  ++ + +N +I+ + ++G    AL+    M    +  D++ 
Sbjct: 185 TCIMPFGIDSVRRVFEVMPRKDVVSYNTIIAGYAQSGMYEDALRMVREMGTTDLKPDSFT 244

Query: 89  LCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIP 148
           L S L   +   D   GK++  +V + G  S V++GS+L+D+YAK   I D+E +F  + 
Sbjct: 245 LSSVLPIFSEYVDVIKGKEIHGYVIRKGIDSDVYIGSSLVDMYAKSARIEDSERVFSRLY 304

Query: 149 VKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQ 208
            ++ +  N+L++GY +   +   L L R M    +       S+++ ACA L+    G+Q
Sbjct: 305 CRDGISWNSLVAGYVQNGRYNEALRLFRQMVTAKVKPGAVAFSSVIPACAHLATLHLGKQ 364

Query: 209 VHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINK-DVVLWTS 267
           +H Y++R     G+++F+ S+L++MY KCG +  A ++F+         +N  D V WT+
Sbjct: 365 LHGYVLRG--GFGSNIFIASALVDMYSKCGNIKAARKIFD--------RMNVLDEVSWTA 414

Query: 268 MLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDY 327
           ++  +  +G+  E + L+E M   G KP++VAFV V++ACSH G V     YF  M   Y
Sbjct: 415 IIMGHALHGHGHEAVSLFEEMKRQGVKPNQVAFVAVLTACSHVGLVDEAWGYFNSMTKVY 474

Query: 328 KLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFEL 387
            L    EHY+ + DLL RAG+L++A+  I++M     G    S+W  LLS+C      EL
Sbjct: 475 GLNQELEHYAAVADLLGRAGKLEEAYNFISKMCVEPTG----SVWSTLLSSCSVHKNLEL 530

Query: 388 GKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDVGCSWIEV 445
            +  A+K   +D  N+G YV++ N+YA    W E+ +LR  M++KGL+K   CSWIE+
Sbjct: 531 AEKVAEKIFTVDSENMGAYVLMCNMYASNGRWKEMAKLRLRMRKKGLRKKPACSWIEM 588

Arabidopsis thaliana (taxid: 3702)

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

 Score =  241 bits (614), Expect = 1e-62,   Method: Compositional matrix adjust.
 Identities = 130/365 (35%), Positives = 219/365 (60%), Gaps = 15/365 (4%)

Query: 83  FLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAEL 142
           F  TY L + + +  +V     GK++ AH+T+ G+ S V++ + L+D+YA+   +  A  
Sbjct: 179 FTYTYVLKACVASECTVNHLMKGKEIHAHLTRRGYSSHVYIMTTLVDMYARFGCVDYASY 238

Query: 143 MFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDY--DHFTLSALLRACAGL 200
           +F  +PV+N V  +A+++ Y +       L   R M     D   +  T+ ++L+ACA L
Sbjct: 239 VFGGMPVRNVVSWSAMIACYAKNGKAFEALRTFREMMRETKDSSPNSVTMVSVLQACASL 298

Query: 201 SAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINK 260
           +A E G+ +H Y++R+   L + + + S+L+ MYG+CG +    +VF+    R+    ++
Sbjct: 299 AALEQGKLIHGYILRR--GLDSILPVISALVTMYGRCGKLEVGQRVFD----RMH---DR 349

Query: 261 DVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYF 320
           DVV W S++  YG +GY K+ I+++E ML NG  P  V FV+V+ ACSH G V+ G   F
Sbjct: 350 DVVSWNSLISSYGVHGYGKKAIQIFEEMLANGASPTPVTFVSVLGACSHEGLVEEGKRLF 409

Query: 321 EWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACH 380
           E M  D+ ++P  EHY+C+VDLL RA  LD+A K++ +M           +WG+LL +C 
Sbjct: 410 ETMWRDHGIKPQIEHYACMVDLLGRANRLDEAAKMVQDM----RTEPGPKVWGSLLGSCR 465

Query: 381 DCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDVGC 440
             G  EL + A+++   L+P N G YV+L+++YA+  MWDE+ ++++L++ +GL+K  G 
Sbjct: 466 IHGNVELAERASRRLFALEPKNAGNYVLLADIYAEAQMWDEVKRVKKLLEHRGLQKLPGR 525

Query: 441 SWIEV 445
            W+EV
Sbjct: 526 CWMEV 530

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

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	447
356509543	472	PREDICTED: pentatricopeptide repeat-cont	0.991	0.938	0.638	1e-165
357467465	742	Pentatricopeptide repeat-containing prot	0.991	0.597	0.630	1e-161
297744703	371	unnamed protein product [Vitis vinifera]	0.827	0.997	0.713	1e-152
255543909	349	pentatricopeptide repeat-containing prot	0.727	0.931	0.712	1e-145
225427824	349	PREDICTED: putative pentatricopeptide re	0.778	0.997	0.721	1e-145
449458644	469	PREDICTED: pentatricopeptide repeat-cont	0.986	0.940	0.561	1e-141
449489793	497	PREDICTED: LOW QUALITY PROTEIN: pentatri	0.986	0.887	0.559	1e-140
359477366	327	PREDICTED: pentatricopeptide repeat-cont	0.702	0.960	0.640	1e-120
357146090	429	PREDICTED: pentatricopeptide repeat-cont	0.863	0.899	0.466	3e-96
242060330	430	hypothetical protein SORBIDRAFT_04g00223	0.796	0.827	0.489	2e-93

>gi|356509543|ref|XP_003523507.1| PREDICTED: pentatricopeptide repeat-containing protein At3g12770-like [Glycine max]

 Score =  587 bits (1513), Expect = e-165,   Method: Compositional matrix adjust.
 Identities = 284/445 (63%), Positives = 344/445 (77%), Gaps = 2/445 (0%)

Query: 2   VHAHQFETGLLLICLIIFQSRLMLPYTTCRHKKNLGTLTNCLKFLNPRNPLPFNVVISDF 61
           +HA    TG+L +   +  ++L+  Y  C    NL +L N  K +N  NPL FN +ISDF
Sbjct: 25  LHAQLLRTGMLFLSHNL-HTQLIATYAACLPNNNLQSLNNFFKCMNSTNPLHFNAIISDF 83

Query: 62  CRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSV 121
           CR G P  AL +FSF+H +G+ LDTYALCS+LTAS+ VKD   GKQ+ AHV KSGW SSV
Sbjct: 84  CRKGLPFLALASFSFVHANGVPLDTYALCSTLTASSKVKDLNLGKQIHAHVAKSGWSSSV 143

Query: 122 FVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPAL 181
           FVGSALID Y+KL  + DA  MFDEIP KN+VCANALLSGY EA LW   L+LVR MP L
Sbjct: 144 FVGSALIDFYSKLSNVKDAAHMFDEIPEKNTVCANALLSGYAEAGLWVQELQLVRKMPVL 203

Query: 182 GLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVT 241
            L +DHFTLSA LRAC GLSA E GRQVH Y++R   ++ +DVF+QS+L+EMYGKCGLV 
Sbjct: 204 KLKHDHFTLSAALRACTGLSAVEMGRQVHGYLLRTTPDIESDVFLQSALVEMYGKCGLVK 263

Query: 242 KALQVFNLAGHRLEGEI-NKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAF 300
           KA QVF L G  +  E+ ++DVVLWTSMLGVYGRNG++KEVI LY+ ML+ G +PD +AF
Sbjct: 264 KAWQVFKLVGMEIRKEVRSRDVVLWTSMLGVYGRNGHYKEVIDLYDEMLVEGIRPDGIAF 323

Query: 301 VTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEML 360
           +TVIS C HTGQV  G++YFE M +D+KL+PGPEHYSCLVDLLCRAGEL +AW+L+NE L
Sbjct: 324 LTVISTCGHTGQVHAGVKYFESMANDFKLDPGPEHYSCLVDLLCRAGELQRAWELLNETL 383

Query: 361 DRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWD 420
            +G G+ SVSMWGALLSAC D G  +LGKLAAQ+ALELDP NVGI +MLSNLYA+F MW+
Sbjct: 384 YKGMGNCSVSMWGALLSACVDRGDLDLGKLAAQRALELDPQNVGICIMLSNLYARFGMWE 443

Query: 421 EIGQLRELMKEKGLKKDVGCSWIEV 445
           EIG LR L+K +GLKKDVGCSW++V
Sbjct: 444 EIGHLRVLIKARGLKKDVGCSWVQV 468

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357467465|ref|XP_003604017.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355493065|gb|AES74268.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  574 bits (1480), Expect = e-161,   Method: Compositional matrix adjust.
 Identities = 281/446 (63%), Positives = 340/446 (76%), Gaps = 3/446 (0%)

Query: 2   VHAHQFETGLLLICLIIFQSRLMLPYTTCRHKKNLGTLTNCL-KFLNPRNPLPFNVVISD 60
           +HAH    G L I L    ++L+  YT+     NL TLTN   K +N  NPL FNV+IS 
Sbjct: 213 LHAHLLTKGTLFI-LHDLHTQLISTYTSFFPSNNLQTLTNSFFKCMNSTNPLHFNVIISH 271

Query: 61  FCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSS 120
           FCR G P  AL TFSFMH + + LDTYALCS+LTAS+  KD  FGKQ+ AHV KSGW SS
Sbjct: 272 FCRKGFPFLALTTFSFMHTNHVPLDTYALCSTLTASSKFKDVNFGKQIHAHVEKSGWSSS 331

Query: 121 VFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPA 180
           VFVGSALID Y+KLL + DA L+FDEIP +N+VCANALLSGYCE  LW    EL+R MP 
Sbjct: 332 VFVGSALIDFYSKLLNVKDAALVFDEIPDRNTVCANALLSGYCEFGLWVKAFELIRKMPL 391

Query: 181 LGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLV 240
           L L YDHFTLSA LRAC GLS+ E GRQ+H+Y++R   ++ +DVF+QS+LIEMYGKCG+V
Sbjct: 392 LKLKYDHFTLSAALRACTGLSSVEMGRQLHSYLLRTMADIESDVFLQSTLIEMYGKCGMV 451

Query: 241 TKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAF 300
            KA  VF L G  +  E ++DVV WTSMLGVYG+NG++KEVI LY  ML  G KPD ++F
Sbjct: 452 EKAQLVFKLDGMDIRKERSRDVVFWTSMLGVYGKNGHYKEVIDLYSEMLREGIKPDGISF 511

Query: 301 VTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEML 360
           +T+ISAC HTGQV  G++YFE M +D+KL+PGPEHYSCLVDLLCRAGEL+KAW+L+NE  
Sbjct: 512 LTIISACGHTGQVDAGVKYFESMTNDFKLDPGPEHYSCLVDLLCRAGELNKAWELLNETC 571

Query: 361 -DRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMW 419
             +G G+ SVSMWGALLSAC D G  ELGKLAAQ+ALELDP N GI VMLSN+YA+  MW
Sbjct: 572 HHKGIGNCSVSMWGALLSACVDSGNIELGKLAAQRALELDPQNAGICVMLSNVYARLGMW 631

Query: 420 DEIGQLRELMKEKGLKKDVGCSWIEV 445
           DEIG+LR L+ ++GL+KDVGCSW++ 
Sbjct: 632 DEIGRLRVLINQRGLRKDVGCSWVQT 657

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297744703|emb|CBI37965.3| unnamed protein product [Vitis vinifera]

 Score =  544 bits (1402), Expect = e-152,   Method: Compositional matrix adjust.
 Identities = 264/370 (71%), Positives = 310/370 (83%)

Query: 77  MHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLL 136
           MH +G+ LDTY+ C SL AS S+K+ +FG Q+ A V KSGWLSSVFVGSAL+D+YAKL L
Sbjct: 1   MHTNGVPLDTYSFCCSLVASCSMKNVKFGAQIHARVEKSGWLSSVFVGSALVDMYAKLSL 60

Query: 137 IHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRA 196
           I+DA ++FDEIPVKN+VCANALLSGY EAKLW  GL+ VR M +L L+ DHFTLSA+LR+
Sbjct: 61  INDAAMVFDEIPVKNTVCANALLSGYGEAKLWVEGLDFVRKMRSLNLNCDHFTLSAMLRS 120

Query: 197 CAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEG 256
           CAGLSA E GRQVH  +IRK  ++  DVF+QSSLIEMYGKCG V KA QVFNLAG   +G
Sbjct: 121 CAGLSAIELGRQVHGSVIRKVSDVEADVFLQSSLIEMYGKCGSVEKAWQVFNLAGFGYKG 180

Query: 257 EINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLG 316
           E  +DVVLWTSML V GRNG+F++VI+LY+ ML  G +PD VAFVTVISAC HTG VKLG
Sbjct: 181 ERKRDVVLWTSMLAVCGRNGHFEKVIELYKEMLREGIRPDGVAFVTVISACGHTGHVKLG 240

Query: 317 IEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALL 376
           I+YFE MV D+ LEPGPEHYSC+VDLLCRAGEL+KAWK++NEM  + +GS S+SMWGALL
Sbjct: 241 IKYFESMVSDFGLEPGPEHYSCVVDLLCRAGELEKAWKMVNEMTLKENGSYSISMWGALL 300

Query: 377 SACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKK 436
           +AC++ G  ELGKLAA KALE+DPHNVGIYV+LSN+YAKF MWDEIGQLRELMKE GLKK
Sbjct: 301 NACNEFGNVELGKLAAHKALEMDPHNVGIYVLLSNMYAKFSMWDEIGQLRELMKESGLKK 360

Query: 437 DVGCSWIEVT 446
           DVG SWIE+T
Sbjct: 361 DVGRSWIEIT 370

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255543909|ref|XP_002513017.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223548028|gb|EEF49520.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  522 bits (1345), Expect = e-145,   Method: Compositional matrix adjust.
 Identities = 248/348 (71%), Positives = 290/348 (83%)

Query: 99  VKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANAL 158
           +K+  FG+Q+ AHV KSGWLSSVFVGSALIDLY+KL    DA  +FDEIPVKN+VCANAL
Sbjct: 1   MKNVNFGEQIHAHVIKSGWLSSVFVGSALIDLYSKLSFPSDAATVFDEIPVKNTVCANAL 60

Query: 159 LSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCC 218
           LSGY EAKLW  G+EL++ MP L LDYD+FTLSA+LR  AGLSA EFG+QVHAY+IRK  
Sbjct: 61  LSGYIEAKLWYQGVELIKEMPFLSLDYDNFTLSAMLRISAGLSAIEFGKQVHAYLIRKIY 120

Query: 219 NLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYF 278
           ++ NDVFMQSSLIEMYGKCG V KALQV N AG R   + NKD+VLWTSMLGVYGRNG+F
Sbjct: 121 DVENDVFMQSSLIEMYGKCGYVGKALQVLNFAGFRPGRKRNKDIVLWTSMLGVYGRNGHF 180

Query: 279 KEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSC 338
           +EVI L+E ML  G +PD VA+VTVISAC HTGQV+LGIEYFE M  D+ L P PEHYSC
Sbjct: 181 EEVISLFEEMLKEGVRPDGVAYVTVISACGHTGQVQLGIEYFESMSRDFNLTPSPEHYSC 240

Query: 339 LVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALEL 398
           +VDL CRAGELD+AWKL+NEML +GH   S+SMWGA+LSAC + G  E GKLAA++AL+L
Sbjct: 241 VVDLFCRAGELDRAWKLVNEMLTKGHEIHSISMWGAVLSACEEHGNIEFGKLAAREALKL 300

Query: 399 DPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDVGCSWIEVT 446
           +P NVGIYVMLSNLYA+F MWDEI  LR++MK++GLKKDVGCSWIE+T
Sbjct: 301 EPQNVGIYVMLSNLYARFGMWDEIDHLRKIMKDRGLKKDVGCSWIEIT 348

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225427824|ref|XP_002275925.1| PREDICTED: putative pentatricopeptide repeat-containing protein At1g68930-like [Vitis vinifera]

 Score =  520 bits (1338), Expect = e-145,   Method: Compositional matrix adjust.
 Identities = 251/348 (72%), Positives = 294/348 (84%)

Query: 99  VKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANAL 158
           +K+ +FG Q+ A V KSGWLSSVFVGSAL+D+YAKL LI+DA ++FDEIPVKN+VCANAL
Sbjct: 1   MKNVKFGAQIHARVEKSGWLSSVFVGSALVDMYAKLSLINDAAMVFDEIPVKNTVCANAL 60

Query: 159 LSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCC 218
           LSGY EAKLW  GL+ VR M +L L+ DHFTLSA+LR+CAGLSA E GRQVH  +IRK  
Sbjct: 61  LSGYGEAKLWVEGLDFVRKMRSLNLNCDHFTLSAMLRSCAGLSAIELGRQVHGSVIRKVS 120

Query: 219 NLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYF 278
           ++  DVF+QSSLIEMYGKCG V KA QVFNLAG   +GE  +DVVLWTSML V GRNG+F
Sbjct: 121 DVEADVFLQSSLIEMYGKCGSVEKAWQVFNLAGFGYKGERKRDVVLWTSMLAVCGRNGHF 180

Query: 279 KEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSC 338
           ++VI+LY+ ML  G +PD VAFVTVISAC HTG VKLGI+YFE MV D+ LEPGPEHYSC
Sbjct: 181 EKVIELYKEMLREGIRPDGVAFVTVISACGHTGHVKLGIKYFESMVSDFGLEPGPEHYSC 240

Query: 339 LVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALEL 398
           +VDLLCRAGEL+KAWK++NEM  + +GS S+SMWGALL+AC++ G  ELGKLAA KALE+
Sbjct: 241 VVDLLCRAGELEKAWKMVNEMTLKENGSYSISMWGALLNACNEFGNVELGKLAAHKALEM 300

Query: 399 DPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDVGCSWIEVT 446
           DPHNVGIYV+LSN+YAKF MWDEIGQLRELMKE GLKKDVG SWIE+T
Sbjct: 301 DPHNVGIYVLLSNMYAKFSMWDEIGQLRELMKESGLKKDVGRSWIEIT 348

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449458644|ref|XP_004147057.1| PREDICTED: pentatricopeptide repeat-containing protein At4g18750, chloroplastic-like [Cucumis sativus]

 Score =  507 bits (1306), Expect = e-141,   Method: Compositional matrix adjust.
 Identities = 250/445 (56%), Positives = 323/445 (72%), Gaps = 4/445 (0%)

Query: 2   VHAHQFETGLLLICLIIFQSRLMLPYTTCRHKKNLGTLTNCLKFLNPRNPLPFNVVISDF 61
           +HAH   T        +  S+L+L Y+      +  +L    + + PR  L FNV+ISDF
Sbjct: 28  IHAHLLRTHFQFFSPNL-HSKLILSYSQIIPNFDAKSLNGIFQCIIPRTSLTFNVMISDF 86

Query: 62  CRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSV 121
            R+G   +AL  FSFMH +G+ +DTYALCSSL   + V++  +GKQ+ A V KSGWL SV
Sbjct: 87  SRHGFQDFALMGFSFMHSNGVPIDTYALCSSLNGCSFVQNVVYGKQIHAFVGKSGWLCSV 146

Query: 122 FVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPAL 181
           FVGSA++D+YAK  LI+DA  +FDE+P+KN+VCANALL+GY EA++W  GLEL+R M  L
Sbjct: 147 FVGSAIVDMYAKNSLIYDAVEVFDEMPMKNTVCANALLAGYGEARMWVEGLELLRKMQGL 206

Query: 182 GLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVT 241
            L YD FTLSA LRAC GLSA   G+QVHAY++R   ++ +DV +QS+L+EMYGK G+V 
Sbjct: 207 DLKYDQFTLSASLRACTGLSAIALGKQVHAYILRTVYDITSDVHLQSTLVEMYGKNGMVE 266

Query: 242 KALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFV 301
           KA  VF  AG   + +  +D+++WTSML VYGRNG +K VI+LY  MLM G KPD VAFV
Sbjct: 267 KAWNVFKFAGLGRQEDGKRDIIMWTSMLSVYGRNGCYKRVIELYNQMLMEGIKPDRVAFV 326

Query: 302 TVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLD 361
           TVISAC HTG+V LG++YF+ M  D+ LEPG EHYSCL DLLCRAGEL+KAWKL+N++  
Sbjct: 327 TVISACGHTGEVNLGVQYFDSMQSDFGLEPGQEHYSCLADLLCRAGELEKAWKLVNDIKS 386

Query: 362 RGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDE 421
           R +   +VS+WGALL AC + G  +LG LAA++ALELDP N GI VMLSNLYA F +W+E
Sbjct: 387 RDY---NVSLWGALLRACLEQGNIKLGNLAARRALELDPQNTGILVMLSNLYAGFGLWNE 443

Query: 422 IGQLRELMKEKGLKKDVGCSWIEVT 446
           I  LRE ++++GL KDV CSWIE+T
Sbjct: 444 IEHLRESVRKEGLYKDVACSWIEIT 468

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449489793|ref|XP_004158417.1| PREDICTED: LOW QUALITY PROTEIN: pentatricopeptide repeat-containing protein At4g18750, chloroplastic-like [Cucumis sativus]

 Score =  504 bits (1298), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 249/445 (55%), Positives = 321/445 (72%), Gaps = 4/445 (0%)

Query: 2   VHAHQFETGLLLICLIIFQSRLMLPYTTCRHKKNLGTLTNCLKFLNPRNPLPFNVVISDF 61
           +HAH   T        +  S+L+L Y+      +  +L    + + PR  L FNV+ISDF
Sbjct: 56  IHAHLLRTHFQFFSPNL-HSKLILSYSQIIPNFDAKSLNGIFQCIIPRTSLTFNVMISDF 114

Query: 62  CRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSV 121
            R+G   +AL  FSFMH +G+ +DTYALCSSL   +  +   +GKQ+ A V KSGWL SV
Sbjct: 115 SRHGFQDFALMGFSFMHSNGVPIDTYALCSSLNGCSLFRXVVYGKQIHAFVGKSGWLCSV 174

Query: 122 FVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPAL 181
           FVGSA++D+YAK  LI+DA  +FDE+P+KN+VCANALL+GY EA++W  GLEL+R M  L
Sbjct: 175 FVGSAIVDMYAKNSLIYDAVEVFDEMPMKNTVCANALLAGYGEARMWVEGLELLRKMQGL 234

Query: 182 GLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVT 241
            L YD FTLSA LRAC GLSA   G+QVHAY++R   ++ +DV +QS+L+EMYGK G+V 
Sbjct: 235 DLKYDQFTLSASLRACTGLSAIALGKQVHAYILRTVYDITSDVHLQSTLVEMYGKNGMVE 294

Query: 242 KALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFV 301
           KA  VF  AG   + +  +D+++WTSML VYGRNG +K VI+LY  MLM G KPD VAFV
Sbjct: 295 KAWNVFKFAGLGRQEDGKRDIIMWTSMLSVYGRNGCYKRVIELYNQMLMEGIKPDRVAFV 354

Query: 302 TVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLD 361
           TVISAC HTG+V LG++YF+ M  D+ LEPG EHYSCL DLLCRAGEL+KAWKL+N++  
Sbjct: 355 TVISACGHTGEVNLGVQYFDSMQSDFGLEPGQEHYSCLADLLCRAGELEKAWKLVNDIKS 414

Query: 362 RGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDE 421
           R +   +VS+WGALL AC + G  +LG LAA++ALELDP N GI VMLSNLYA F +W+E
Sbjct: 415 RDY---NVSLWGALLRACLEQGNIKLGNLAARRALELDPQNTGILVMLSNLYAGFGLWNE 471

Query: 422 IGQLRELMKEKGLKKDVGCSWIEVT 446
           I  LRE ++++GL KDV CSWIE+T
Sbjct: 472 IEHLRESVRKEGLYKDVACSWIEIT 496

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359477366|ref|XP_002279703.2| PREDICTED: pentatricopeptide repeat-containing protein At2g13600-like [Vitis vinifera]

 Score =  438 bits (1127), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 217/339 (64%), Positives = 259/339 (76%), Gaps = 25/339 (7%)

Query: 99  VKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANAL 158
           +K+ +FG Q+ A V KS                          ++FDEIPVKN+VCANAL
Sbjct: 1   MKNVKFGAQIHARVEKSA-------------------------MVFDEIPVKNTVCANAL 35

Query: 159 LSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCC 218
           LSGY EAKLW  GL+ VR M +L L+ DHFTLSA+LR+CAGLSA E G+QVH  +IRK  
Sbjct: 36  LSGYGEAKLWVEGLDFVRRMRSLNLNCDHFTLSAMLRSCAGLSAIELGKQVHGSVIRKVS 95

Query: 219 NLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYF 278
           ++  DVF+QSSLIEMYGKCG V KA +VFNLAG   +GE  +DVVLWTSML V GRNG+F
Sbjct: 96  DVEADVFLQSSLIEMYGKCGSVEKAWEVFNLAGFGYKGERKRDVVLWTSMLAVCGRNGHF 155

Query: 279 KEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSC 338
           ++VI+LY+ ML  G +PD VAFVT+ISAC HTG VKLGIEYFE MV D+ LEP PE+Y C
Sbjct: 156 EKVIELYKEMLREGIRPDGVAFVTIISACGHTGHVKLGIEYFESMVSDFGLEPRPEYYRC 215

Query: 339 LVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALEL 398
           +VDLLCRAGEL+KAWK++NEM  + +GS S+SMWGALL+AC++ G  ELGKLAA KALE+
Sbjct: 216 VVDLLCRAGELEKAWKMVNEMTSKENGSYSISMWGALLNACNEFGNVELGKLAAHKALEM 275

Query: 399 DPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKD 437
           DPHNVGIYV+LSN+YAKF MWDEI QLRELMKE GLKKD
Sbjct: 276 DPHNVGIYVLLSNMYAKFSMWDEIEQLRELMKESGLKKD 314

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357146090|ref|XP_003573872.1| PREDICTED: pentatricopeptide repeat-containing protein At3g12770-like [Brachypodium distachyon]

 Score =  358 bits (918), Expect = 3e-96,   Method: Compositional matrix adjust.
 Identities = 188/403 (46%), Positives = 256/403 (63%), Gaps = 17/403 (4%)

Query: 51  PLPFNVVISDFCRNGSPLY---ALKTFSFMHVHGIF---LDTYALCSSLTASTSVKDARF 104
           PL FN +++    + SP      L   +  H +      +D+Y LCS+L  +T+ +    
Sbjct: 32  PLSFNSLLAAAASSPSPRLRSLVLPALALAHRYPAAAGPIDSYTLCSALRHATADE---- 87

Query: 105 GKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCE 164
              + A   +SGWL SVFV  AL   Y       DA  +FDE PV+N V  NA+L+GY  
Sbjct: 88  ASPLHALAARSGWLGSVFVSCALAACYGGSGRSLDARRLFDESPVRNGVFGNAVLAGYVG 147

Query: 165 AKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLG--N 222
           A +WA  LE  R  P LGL  D +T++A++RAC   + A+ G + H + IR+    G  +
Sbjct: 148 AGMWAPALEFARRFPELGLPADGYTMTAVVRACGETANADLGAEAHGHAIRRATGGGMES 207

Query: 223 DVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVI 282
           DVF+ S+L++MYGKCGLV +A  VF LA  R +     DVVLWT+M+  YGR+G  KEVI
Sbjct: 208 DVFLSSALVDMYGKCGLVGRAELVFELARRRADA-CGGDVVLWTAMMNAYGRHGQCKEVI 266

Query: 283 KLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDL 342
           ++Y+ M+  G  PDE+A + V+SAC H G+V  G++YFE M  DY+L P PEHY C+V++
Sbjct: 267 RMYDQMVTLGVWPDELAILAVLSACQHAGEVIKGLQYFESMRADYELVPTPEHYGCVVNM 326

Query: 343 LCRAGELDKAWKLINEMLDRGHGSS-SVSMWGALLSACHDCGKFELGKLAAQKALELDPH 401
           LCRAG++ KAW++       G GS   VS WGALLSAC D G  E GK+AAQKA+EL+P 
Sbjct: 327 LCRAGDVAKAWEITTR---EGCGSDIGVSTWGALLSACRDRGDVEFGKMAAQKAIELEPT 383

Query: 402 NVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDVGCSWIE 444
           NVGIYV LSNLYA+  +W+EI  LRE+MK+KG +K VGC+W+E
Sbjct: 384 NVGIYVELSNLYARAGLWEEIDDLREVMKDKGFEKHVGCTWVE 426

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242060330|ref|XP_002451454.1| hypothetical protein SORBIDRAFT_04g002230 [Sorghum bicolor] gi|241931285|gb|EES04430.1| hypothetical protein SORBIDRAFT_04g002230 [Sorghum bicolor]

 Score =  349 bits (896), Expect = 2e-93,   Method: Compositional matrix adjust.
 Identities = 179/366 (48%), Positives = 238/366 (65%), Gaps = 10/366 (2%)

Query: 78  HVHG-IFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLL 136
           H  G + LD+YALCS+L ++ S  D      + A  +KSGWL SVFV  AL   Y     
Sbjct: 65  HASGRVPLDSYALCSALRSTPSAAD-----TLHALASKSGWLGSVFVSCALAASYGGSGR 119

Query: 137 IHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRA 196
             DA  +FDE P KN V  NA+L+ Y  A  W   L   R    L L  D +T++A++RA
Sbjct: 120 YQDARKLFDESPSKNGVFGNAVLAAYVGAAKWVPVLGFARRFSELQLQVDGYTMTAVVRA 179

Query: 197 CAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEG 256
           C  ++ A+ G Q H + IR+   +  DVF+ S+ ++MY KCGL+++A  VF LA     G
Sbjct: 180 CGEVANADLGVQAHGHAIRRLGGIEVDVFLVSAFVDMYAKCGLISQAECVFGLAQQETGG 239

Query: 257 EINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLG 316
               DVVLWT+ML  Y R+G  KEVI++Y+ M+ +G  PDE+A + V+SAC H G+V  G
Sbjct: 240 R--GDVVLWTAMLNAYARHGQCKEVIRMYDLMVASGVYPDELAMLAVLSACQHAGEVVKG 297

Query: 317 IEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALL 376
           + YFE M  DY L P PEHY C+V++LCRAGE+ KAW++  +  D    +  VS WGALL
Sbjct: 298 LNYFESMHADYGLVPTPEHYGCVVNMLCRAGEVTKAWEIATK--DGCDCAIGVSTWGALL 355

Query: 377 SACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKK 436
           SAC  C   E+G++AAQKA+ELDP NVGIY+ LSNLYA+ C+WD+I QLRE+MKEKGL+K
Sbjct: 356 SACQACLNVEVGRMAAQKAIELDPTNVGIYIELSNLYARACLWDDIDQLREVMKEKGLEK 415

Query: 437 DVGCSW 442
           DVGC+W
Sbjct: 416 DVGCTW 421

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

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	447
TAIR|locus:2205425	743	AT1G68930 "AT1G68930" [Arabido	0.861	0.518	0.362	3.7e-64
TAIR|locus:2124137	871	DOT4 "DEFECTIVELY ORGANIZED TR	0.921	0.473	0.343	9.7e-64
TAIR|locus:2056794	630	REME1 "required for efficiency	0.847	0.601	0.357	2.3e-62
TAIR|locus:2032955	790	AT1G25360 "AT1G25360" [Arabido	0.689	0.389	0.352	2.9e-61
TAIR|locus:2090990	710	AT3G14330 [Arabidopsis thalian	0.832	0.523	0.358	3.4e-61
TAIR|locus:2011892	596	AT1G50270 "AT1G50270" [Arabido	0.863	0.647	0.352	1.2e-60
TAIR|locus:2057630	727	AT2G33680 "AT2G33680" [Arabido	0.953	0.585	0.340	1.5e-60
TAIR|locus:2082886	850	EMB2261 "embryo defective 2261	0.885	0.465	0.340	5e-60
TAIR|locus:2148393	534	AT5G59600 "AT5G59600" [Arabido	0.559	0.468	0.338	9.9e-60
TAIR|locus:2102852	657	CRR2 "AT3G46790" [Arabidopsis	0.782	0.532	0.361	2.2e-59

TAIR|locus:2205425 AT1G68930 "AT1G68930" [Arabidopsis thaliana (taxid:3702)]

 Score = 654 (235.3 bits), Expect = 3.7e-64, P = 3.7e-64
 Identities = 145/400 (36%), Positives = 223/400 (55%)

Query:    49 RNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQV 108
             ++ + +  +I    +NG    A++ F  M V G+ +D Y   S L A   +     GKQ+
Sbjct:   233 KDSVSWAAMIKGLAQNGLAKEAIECFREMKVQGLKMDQYPFGSVLPACGGLGAINEGKQI 292

Query:   109 QAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLW 168
              A + ++ +   ++VGSALID+Y K   +H A+ +FD +  KN V   A++ GY +    
Sbjct:   293 HACIIRTNFQDHIYVGSALIDMYCKCKCLHYAKTVFDRMKQKNVVSWTAMVVGYGQTGRA 352

Query:   169 AGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQS 228
                +++   M   G+D DH+TL   + ACA +S+ E G Q H   I     L + V + +
Sbjct:   353 EEAVKIFLDMQRSGIDPDHYTLGQAISACANVSSLEEGSQFHGKAITS--GLIHYVTVSN 410

Query:   229 SLIEMYGKCGLVTKALQVFNLAGHRLEGEIN-KDVVLWTSMLGVYGRNGYFKEVIKLYEA 287
             SL+ +YGKCG +  + ++FN        E+N +D V WT+M+  Y + G   E I+L++ 
Sbjct:   411 SLVTLYGKCGDIDDSTRLFN--------EMNVRDAVSWTAMVSAYAQFGRAVETIQLFDK 462

Query:   288 MLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAG 347
             M+ +G KPD V    VISACS  G V+ G  YF+ M  +Y + P   HYSC++DL  R+G
Sbjct:   463 MVQHGLKPDGVTLTGVISACSRAGLVEKGQRYFKLMTSEYGIVPSIGHYSCMIDLFSRSG 522

Query:   348 ELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYV 407
              L++A + IN M        ++  W  LLSAC + G  E+GK AA+  +ELDPH+   Y 
Sbjct:   523 RLEEAMRFINGM---PFPPDAIG-WTTLLSACRNKGNLEIGKWAAESLIELDPHHPAGYT 578

Query:   408 MLSNLYAKFCMWDEIGQLRELMKEKGLKKDVGCSWIEVTG 447
             +LS++YA    WD + QLR  M+EK +KK+ G SWI+  G
Sbjct:   579 LLSSIYASKGKWDSVAQLRRGMREKNVKKEPGQSWIKWKG 618

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 650 (233.9 bits), Expect = 9.7e-64, P = 9.7e-64
 Identities = 148/431 (34%), Positives = 242/431 (56%)

Query:    19 FQSRLMLPYTTCRHKKNLGTLTNCLKFLNPRNPLPFNVVISDFCRNGSPLYALKTFSFMH 78
             F + L+  Y+ C    +L +     + ++ R+ + +  +I+ + R G    A+K F  M 
Sbjct:   333 FCNTLLDMYSKCG---DLDSAKAVFREMSDRSVVSYTSMIAGYAREGLAGEAVKLFEEME 389

Query:    79 VHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIH 138
               GI  D Y + + L      +    GK+V   + ++     +FV +AL+D+YAK   + 
Sbjct:   390 EEGISPDVYTVTAVLNCCARYRLLDEGKRVHEWIKENDLGFDIFVSNALMDMYAKCGSMQ 449

Query:   139 DAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLM-PALGLDYDHFTLSALLRAC 197
             +AEL+F E+ VK+ +  N ++ GY +       L L  L+        D  T++ +L AC
Sbjct:   450 EAELVFSEMRVKDIISWNTIIGGYSKNCYANEALSLFNLLLEEKRFSPDERTVACVLPAC 509

Query:   198 AGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGE 257
             A LSA + GR++H Y++R      +D  + +SL++MY KCG    AL    L  H L  +
Sbjct:   510 ASLSAFDKGREIHGYIMRN--GYFSDRHVANSLVDMYAKCG----AL----LLAHMLFDD 559

Query:   258 I-NKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLG 316
             I +KD+V WT M+  YG +G+ KE I L+  M   G + DE++FV+++ ACSH+G V  G
Sbjct:   560 IASKDLVSWTVMIAGYGMHGFGKEAIALFNQMRQAGIEADEISFVSLLYACSHSGLVDEG 619

Query:   317 IEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALL 376
               +F  M H+ K+EP  EHY+C+VD+L R G+L KA++ I  M          ++WGALL
Sbjct:   620 WRFFNIMRHECKIEPTVEHYACIVDMLARTGDLIKAYRFIENMPI----PPDATIWGALL 675

Query:   377 SACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKK 436
               C      +L +  A+K  EL+P N G YV+++N+YA+   W+++ +LR+ + ++GL+K
Sbjct:   676 CGCRIHHDVKLAEKVAEKVFELEPENTGYYVLMANIYAEAEKWEQVKRLRKRIGQRGLRK 735

Query:   437 DVGCSWIEVTG 447
             + GCSWIE+ G
Sbjct:   736 NPGCSWIEIKG 746

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 = 637 (229.3 bits), Expect = 2.3e-62, P = 2.3e-62
 Identities = 142/397 (35%), Positives = 219/397 (55%)

Query:    49 RNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQV 108
             RN + +  +IS + +      AL+    M    +  + Y   S L +   + D R    +
Sbjct:   125 RNVISWTTMISAYSKCKIHQKALELLVLMLRDNVRPNVYTYSSVLRSCNGMSDVRM---L 181

Query:   109 QAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLW 168
                + K G  S VFV SALID++AKL    DA  +FDE+   +++  N+++ G+ +    
Sbjct:   182 HCGIIKEGLESDVFVRSALIDVFAKLGEPEDALSVFDEMVTGDAIVWNSIIGGFAQNSRS 241

Query:   169 AGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQS 228
                LEL + M   G   +  TL+++LRAC GL+  E G Q H ++++       D+ + +
Sbjct:   242 DVALELFKRMKRAGFIAEQATLTSVLRACTGLALLELGMQAHVHIVK----YDQDLILNN 297

Query:   229 SLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAM 288
             +L++MY KCG +  AL+VFN    R       DV+ W++M+    +NGY +E +KL+E M
Sbjct:   298 ALVDMYCKCGSLEDALRVFNQMKER-------DVITWSTMISGLAQNGYSQEALKLFERM 350

Query:   289 LMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGE 348
               +GTKP+ +  V V+ ACSH G ++ G  YF  M   Y ++P  EHY C++DLL +AG+
Sbjct:   351 KSSGTKPNYITIVGVLFACSHAGLLEDGWYYFRSMKKLYGIDPVREHYGCMIDLLGKAGK 410

Query:   349 LDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVM 408
             LD A KL+NEM            W  LL AC       L + AA+K + LDP + G Y +
Sbjct:   411 LDDAVKLLNEM----ECEPDAVTWRTLLGACRVQRNMVLAEYAAKKVIALDPEDAGTYTL 466

Query:   409 LSNLYAKFCMWDEIGQLRELMKEKGLKKDVGCSWIEV 445
             LSN+YA    WD + ++R  M+++G+KK+ GCSWIEV
Sbjct:   467 LSNIYANSQKWDSVEEIRTRMRDRGIKKEPGCSWIEV 503

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0009451 "RNA modification" evidence=IMP

TAIR|locus:2032955 AT1G25360 "AT1G25360" [Arabidopsis thaliana (taxid:3702)]

 Score = 522 (188.8 bits), Expect = 2.9e-61, Sum P(2) = 2.9e-61
 Identities = 113/321 (35%), Positives = 182/321 (56%)

Query:   125 SALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLD 184
             +AL+  Y     I +A+L+F E+  KN +    ++SG  E      GL+L   M   G +
Sbjct:   355 NALLSGYVSSGHIGEAKLIFKEMKEKNILSWMIMISGLAENGFGEEGLKLFSCMKREGFE 414

Query:   185 YDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKAL 244
                +  S  +++CA L A   G+Q HA +++      + +   ++LI MY KCG+V +A 
Sbjct:   415 PCDYAFSGAIKSCAVLGAYCNGQQYHAQLLK--IGFDSSLSAGNALITMYAKCGVVEEAR 472

Query:   245 QVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVI 304
             QVF             D V W +++   G++G+  E + +YE ML  G +PD +  +TV+
Sbjct:   473 QVFRTMPCL-------DSVSWNALIAALGQHGHGAEAVDVYEEMLKKGIRPDRITLLTVL 525

Query:   305 SACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGH 364
             +ACSH G V  G +YF+ M   Y++ PG +HY+ L+DLLCR+G+   A  +I  +  +  
Sbjct:   526 TACSHAGLVDQGRKYFDSMETVYRIPPGADHYARLIDLLCRSGKFSDAESVIESLPFK-- 583

Query:   365 GSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQ 424
                +  +W ALLS C   G  ELG +AA K   L P + G Y++LSN++A    W+E+ +
Sbjct:   584 --PTAEIWEALLSGCRVHGNMELGIIAADKLFGLIPEHDGTYMLLSNMHAATGQWEEVAR 641

Query:   425 LRELMKEKGLKKDVGCSWIEV 445
             +R+LM+++G+KK+V CSWIE+
Sbjct:   642 VRKLMRDRGVKKEVACSWIEM 662

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2090990 AT3G14330 [Arabidopsis thaliana (taxid:3702)]

 Score = 626 (225.4 bits), Expect = 3.4e-61, P = 3.4e-61
 Identities = 138/385 (35%), Positives = 222/385 (57%)

Query:    61 FCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSS 120
             + RNGSP  AL  +  M    I    +++  +L A   +KD R G+ + A + K      
Sbjct:   211 YSRNGSPRDALIVYVDMLCSFIEPGNFSISVALKACVDLKDLRVGRGIHAQIVKRKEKVD 270

Query:   121 VFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPA 180
               V + L+ LY +  L  DA  +FD +  +N V  N+L+S   +         L R M  
Sbjct:   271 QVVYNVLLKLYMESGLFDDARKVFDGMSERNVVTWNSLISVLSKKVRVHEMFNLFRKMQE 330

Query:   181 LGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLV 240
               + +   TL+ +L AC+ ++A   G+++HA +++       DV + +SL++MYGKCG V
Sbjct:   331 EMIGFSWATLTTILPACSRVAALLTGKEIHAQILKS--KEKPDVPLLNSLMDMYGKCGEV 388

Query:   241 TKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAF 300
               + +VF++        + KD+  W  ML  Y  NG  +EVI L+E M+ +G  PD + F
Sbjct:   389 EYSRRVFDVM-------LTKDLASWNIMLNCYAINGNIEEVINLFEWMIESGVAPDGITF 441

Query:   301 VTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEML 360
             V ++S CS TG  + G+  FE M  ++++ P  EHY+CLVD+L RAG++ +A K+I  M 
Sbjct:   442 VALLSGCSDTGLTEYGLSLFERMKTEFRVSPALEHYACLVDILGRAGKIKEAVKVIETMP 501

Query:   361 DRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWD 420
              +     S S+WG+LL++C   G   +G++AA++   L+PHN G YVM+SN+YA   MWD
Sbjct:   502 FK----PSASIWGSLLNSCRLHGNVSVGEIAAKELFVLEPHNPGNYVMVSNIYADAKMWD 557

Query:   421 EIGQLRELMKEKGLKKDVGCSWIEV 445
              + ++RE+MK++G+KK+ GCSW++V
Sbjct:   558 NVDKIREMMKQRGVKKEAGCSWVQV 582

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0016556 "mRNA modification" evidence=RCA

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

 Score = 621 (223.7 bits), Expect = 1.2e-60, P = 1.2e-60
 Identities = 141/400 (35%), Positives = 228/400 (57%)

Query:    49 RNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQV 108
             ++ + +  +I  F RNGS   A+  F  M   G+  +   + S L A+  V+D RFG+ V
Sbjct:   167 KDVVTWTAMIDGFVRNGSASEAMVYFVEMKKTGVAANEMTVVSVLKAAGKVEDVRFGRSV 226

Query:   109 QAHVTKSGWLS-SVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKL 167
                  ++G +   VF+GS+L+D+Y K     DA+ +FDE+P +N V   AL++GY +++ 
Sbjct:   227 HGLYLETGRVKCDVFIGSSLVDMYGKCSCYDDAQKVFDEMPSRNVVTWTALIAGYVQSRC 286

Query:   168 WAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQ 227
             +  G+ +   M    +  +  TLS++L ACA + A   GR+VH YMI+    +       
Sbjct:   287 FDKGMLVFEEMLKSDVAPNEKTLSSVLSACAHVGALHRGRRVHCYMIKNSIEINTTA--G 344

Query:   228 SSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEA 287
             ++LI++Y KCG + +A+ VF     RL     K+V  WT+M+  +  +GY ++   L+  
Sbjct:   345 TTLIDLYVKCGCLEEAILVFE----RLH---EKNVYTWTAMINGFAAHGYARDAFDLFYT 397

Query:   288 MLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAG 347
             ML +   P+EV F+ V+SAC+H G V+ G   F  M   + +EP  +HY+C+VDL  R G
Sbjct:   398 MLSSHVSPNEVTFMAVLSACAHGGLVEEGRRLFLSMKGRFNMEPKADHYACMVDLFGRKG 457

Query:   348 ELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYV 407
              L++A  LI  M       ++V +WGAL  +C     +ELGK AA + ++L P + G Y 
Sbjct:   458 LLEEAKALIERMPME---PTNV-VWGALFGSCLLHKDYELGKYAASRVIKLQPSHSGRYT 513

Query:   408 MLSNLYAKFCMWDEIGQLRELMKEKGLKKDVGCSWIEVTG 447
             +L+NLY++   WDE+ ++R+ MK++ + K  G SWIEV G
Sbjct:   514 LLANLYSESQNWDEVARVRKQMKDQQVVKSPGFSWIEVKG 553

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:2057630 AT2G33680 "AT2G33680" [Arabidopsis thaliana (taxid:3702)]

 Score = 620 (223.3 bits), Expect = 1.5e-60, P = 1.5e-60
 Identities = 151/444 (34%), Positives = 235/444 (52%)

Query:     2 VHAHQFETGLLLICLIIFQSRLMLPYTTCRHKKNLGTLTNCLKFLNPRNPLPFNVVISDF 61
             +H    + GLL    +   + L+  Y+ C   ++L            RN + ++ +++ +
Sbjct:   243 IHCITIKNGLL--GFVALSNALVTMYSKC---ESLNEACKMFDSSGDRNSITWSAMVTGY 297

Query:    62 CRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSV 121
              +NG  L A+K FS M   GI    Y +   L A + +     GKQ+ + + K G+   +
Sbjct:   298 SQNGESLEAVKLFSRMFSAGIKPSEYTIVGVLNACSDICYLEEGKQLHSFLLKLGFERHL 357

Query:   122 FVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPAL 181
             F  +AL+D+YAK   + DA   FD +  ++     +L+SGY +       L L R M   
Sbjct:   358 FATTALVDMYAKAGCLADARKGFDCLQERDVALWTSLISGYVQNSDNEEALILYRRMKTA 417

Query:   182 GLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVT 241
             G+  +  T++++L+AC+ L+  E G+QVH + I+     G +V + S+L  MY KCG   
Sbjct:   418 GIIPNDPTMASVLKACSSLATLELGKQVHGHTIKH--GFGLEVPIGSALSTMYSKCG--- 472

Query:   242 KALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFV 301
              +L+  NL   R     NKDVV W +M+     NG   E ++L+E ML  G +PD+V FV
Sbjct:   473 -SLEDGNLVFRRTP---NKDVVSWNAMISGLSHNGQGDEALELFEEMLAEGMEPDDVTFV 528

Query:   302 TVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLD 361
              +ISACSH G V+ G  YF  M     L+P  +HY+C+VDLL RAG+L +A + I E  +
Sbjct:   529 NIISACSHKGFVERGWFYFNMMSDQIGLDPKVDHYACMVDLLSRAGQLKEAKEFI-ESAN 587

Query:   362 RGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDE 421
               HG   + +W  LLSAC + GK ELG  A +K + L       YV LS +Y       +
Sbjct:   588 IDHG---LCLWRILLSACKNHGKCELGVYAGEKLMALGSRESSTYVQLSGIYTALGRMRD 644

Query:   422 IGQLRELMKEKGLKKDVGCSWIEV 445
             + ++ + M+  G+ K+VGCSWIE+
Sbjct:   645 VERVWKHMRANGVSKEVGCSWIEL 668

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2082886 EMB2261 "embryo defective 2261" [Arabidopsis thaliana (taxid:3702)]

 Score = 615 (221.5 bits), Expect = 5.0e-60, P = 5.0e-60
 Identities = 141/414 (34%), Positives = 225/414 (54%)

Query:    37 GTLTNCLKF---LNPRNPLPFNVVISDFCRNGS-PLYALKTFSFMHVHG-IFLDTYALCS 91
             G++ +C K    +   + + +  +I+ + +N +    A+  FS M   G +  + +   S
Sbjct:   319 GSVDDCRKVFDRMEDHSVMSWTALITGYMKNCNLATEAINLFSEMITQGHVEPNHFTFSS 378

Query:    92 SLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKN 151
             +  A  ++ D R GKQV     K G  S+  V +++I ++ K   + DA+  F+ +  KN
Sbjct:   379 AFKACGNLSDPRVGKQVLGQAFKRGLASNSSVANSVISMFVKSDRMEDAQRAFESLSEKN 438

Query:   152 SVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHA 211
              V  N  L G C    +    +L+  +    L    FT ++LL   A + +   G Q+H+
Sbjct:   439 LVSYNTFLDGTCRNLNFEQAFKLLSEITERELGVSAFTFASLLSGVANVGSIRKGEQIHS 498

Query:   212 YMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGV 271
              +++   +    V   ++LI MY KCG +  A +VFN     +E   N++V+ WTSM+  
Sbjct:   499 QVVKLGLSCNQPVC--NALISMYSKCGSIDTASRVFNF----ME---NRNVISWTSMITG 549

Query:   272 YGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEP 331
             + ++G+   V++ +  M+  G KP+EV +V ++SACSH G V  G  +F  M  D+K++P
Sbjct:   550 FAKHGFAIRVLETFNQMIEEGVKPNEVTYVAILSACSHVGLVSEGWRHFNSMYEDHKIKP 609

Query:   332 GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLA 391
               EHY+C+VDLLCRAG L  A++ IN M  +    + V +W   L AC      ELGKLA
Sbjct:   610 KMEHYACMVDLLCRAGLLTDAFEFINTMPFQ----ADVLVWRTFLGACRVHSNTELGKLA 665

Query:   392 AQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDVGCSWIEV 445
             A+K LELDP+    Y+ LSN+YA    W+E  ++R  MKE+ L K+ GCSWIEV
Sbjct:   666 ARKILELDPNEPAAYIQLSNIYACAGKWEESTEMRRKMKERNLVKEGGCSWIEV 719

GO:0009507 "chloroplast" evidence=ISM

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

TAIR|locus:2148393 AT5G59600 "AT5G59600" [Arabidopsis thaliana (taxid:3702)]

 Score = 435 (158.2 bits), Expect = 9.9e-60, Sum P(2) = 9.9e-60
 Identities = 89/263 (33%), Positives = 155/263 (58%)

Query:   182 GLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVT 241
             GL  +  T+  LL AC  L+  + G+++H Y +     L +  F++S+L++MYGKCG ++
Sbjct:   283 GLYPNSATIITLLPACTTLAYMKHGKEIHGYSV--VTGLEDHGFVRSALLDMYGKCGFIS 340

Query:   242 KALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFV 301
             +A+ +F            K  V + SM+  Y  +G   + ++L++ M   G K D + F 
Sbjct:   341 EAMILFRKTP-------KKTTVTFNSMIFCYANHGLADKAVELFDQMEATGEKLDHLTFT 393

Query:   302 TVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLD 361
              +++ACSH G   LG   F  M + Y++ P  EHY+C+VDLL RAG+L +A+++I  M  
Sbjct:   394 AILTACSHAGLTDLGQNLFLLMQNKYRIVPRLEHYACMVDLLGRAGKLVEAYEMIKAM-- 451

Query:   362 RGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDE 421
                    + +WGALL+AC + G  EL ++AA+   EL+P N G  ++L++LYA    W+ 
Sbjct:   452 --RMEPDLFVWGALLAACRNHGNMELARIAAKHLAELEPENSGNGLLLTSLYANAGSWES 509

Query:   422 IGQLRELMKEKGLKKDVGCSWIE 444
             + ++++++K+K  ++ +G SW+E
Sbjct:   510 VVRMKKMIKKKRFRRFLGSSWVE 532

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0007062 "sister chromatid cohesion" evidence=RCA

GO:0007131 "reciprocal meiotic recombination" 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:2102852 CRR2 "AT3G46790" [Arabidopsis thaliana (taxid:3702)]

 Score = 609 (219.4 bits), Expect = 2.2e-59, P = 2.2e-59
 Identities = 132/365 (36%), Positives = 220/365 (60%)

Query:    83 FLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAEL 142
             F  TY L + + +  +V     GK++ AH+T+ G+ S V++ + L+D+YA+   +  A  
Sbjct:   179 FTYTYVLKACVASECTVNHLMKGKEIHAHLTRRGYSSHVYIMTTLVDMYARFGCVDYASY 238

Query:   143 MFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDY--DHFTLSALLRACAGL 200
             +F  +PV+N V  +A+++ Y +       L   R M     D   +  T+ ++L+ACA L
Sbjct:   239 VFGGMPVRNVVSWSAMIACYAKNGKAFEALRTFREMMRETKDSSPNSVTMVSVLQACASL 298

Query:   201 SAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINK 260
             +A E G+ +H Y++R+   L + + + S+L+ MYG+CG +    +VF+    R+    ++
Sbjct:   299 AALEQGKLIHGYILRR--GLDSILPVISALVTMYGRCGKLEVGQRVFD----RMH---DR 349

Query:   261 DVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYF 320
             DVV W S++  YG +GY K+ I+++E ML NG  P  V FV+V+ ACSH G V+ G   F
Sbjct:   350 DVVSWNSLISSYGVHGYGKKAIQIFEEMLANGASPTPVTFVSVLGACSHEGLVEEGKRLF 409

Query:   321 EWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACH 380
             E M  D+ ++P  EHY+C+VDLL RA  LD+A K++ +M  R      V  WG+LL +C 
Sbjct:   410 ETMWRDHGIKPQIEHYACMVDLLGRANRLDEAAKMVQDM--RTEPGPKV--WGSLLGSCR 465

Query:   381 DCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDVGC 440
               G  EL + A+++   L+P N G YV+L+++YA+  MWDE+ ++++L++ +GL+K  G 
Sbjct:   466 IHGNVELAERASRRLFALEPKNAGNYVLLADIYAEAQMWDEVKRVKKLLEHRGLQKLPGR 525

Query:   441 SWIEV 445
              W+EV
Sbjct:   526 CWMEV 530

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00035990001 SubName- Full=Chromosome chr3 scaffold_8, whole genome shotgun sequence; (472 aa) (Vitis vinifera)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	447
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-82
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	7e-74
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	8e-39
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	4e-29
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-23
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-13
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-09
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-08
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-06
COG0457	291	COG0457, NrfG, FOG: TPR repeat [General function p	6e-06
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	4e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	5e-04
pfam01535	31	pfam01535, PPR, PPR repeat	5e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	9e-04
pfam01535	31	pfam01535, PPR, PPR repeat	0.002
pfam13041	50	pfam13041, PPR_2, PPR repeat family	0.003

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

 Score =  270 bits (691), Expect = 3e-82
 Identities = 143/399 (35%), Positives = 225/399 (56%), Gaps = 15/399 (3%)

Query: 49  RNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQV 108
           ++ + +  +IS + +NG P  AL+T++ M    +  D   + S L+A   + D   G ++
Sbjct: 352 KDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKL 411

Query: 109 QAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLW 168
                + G +S V V +ALI++Y+K   I  A  +F  IP K+ +   ++++G       
Sbjct: 412 HELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRC 471

Query: 169 AGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQS 228
              L   R M  L L  +  TL A L ACA + A   G+++HA+++R    +G D F+ +
Sbjct: 472 FEALIFFRQM-LLTLKPNSVTLIAALSACARIGALMCGKEIHAHVLR--TGIGFDGFLPN 528

Query: 229 SLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAM 288
           +L+++Y +CG +  A   FN           KDVV W  +L  Y  +G     ++L+  M
Sbjct: 529 ALLDLYVRCGRMNYAWNQFNSH--------EKDVVSWNILLTGYVAHGKGSMAVELFNRM 580

Query: 289 LMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGE 348
           + +G  PDEV F++++ ACS +G V  G+EYF  M   Y + P  +HY+C+VDLL RAG+
Sbjct: 581 VESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGK 640

Query: 349 LDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVM 408
           L +A+  IN+M      +   ++WGALL+AC      ELG+LAAQ   ELDP++VG Y++
Sbjct: 641 LTEAYNFINKM----PITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYIL 696

Query: 409 LSNLYAKFCMWDEIGQLRELMKEKGLKKDVGCSWIEVTG 447
           L NLYA    WDE+ ++R+ M+E GL  D GCSW+EV G
Sbjct: 697 LCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEVKG 735

Length = 857

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

 Score =  244 bits (625), Expect = 7e-74
 Identities = 127/397 (31%), Positives = 204/397 (51%), Gaps = 13/397 (3%)

Query: 49  RNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQV 108
           RN   +  +I      G+   A   F  M   G   +       L AS  +  AR G+Q+
Sbjct: 187 RNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQL 246

Query: 109 QAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLW 168
              V K+G +   FV  ALID+Y+K   I DA  +FD +P K +V  N++L+GY      
Sbjct: 247 HCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYS 306

Query: 169 AGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQS 228
              L L   M   G+  D FT S ++R  + L+  E  +Q HA +IR       D+   +
Sbjct: 307 EEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRT--GFPLDIVANT 364

Query: 229 SLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAM 288
           +L+++Y K G +  A  VF+    +       +++ W +++  YG +G   + ++++E M
Sbjct: 365 ALVDLYSKWGRMEDARNVFDRMPRK-------NLISWNALIAGYGNHGRGTKAVEMFERM 417

Query: 289 LMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGE 348
           +  G  P+ V F+ V+SAC ++G  + G E F+ M  +++++P   HY+C+++LL R G 
Sbjct: 418 IAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGL 477

Query: 349 LDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVM 408
           LD+A+ +I     R     +V+MW ALL+AC      ELG+LAA+K   + P  +  YV+
Sbjct: 478 LDEAYAMIR----RAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVV 533

Query: 409 LSNLYAKFCMWDEIGQLRELMKEKGLKKDVGCSWIEV 445
           L NLY       E  ++ E +K KGL     C+WIEV
Sbjct: 534 LLNLYNSSGRQAEAAKVVETLKRKGLSMHPACTWIEV 570

Length = 697

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

 Score =  149 bits (377), Expect = 8e-39
 Identities = 92/318 (28%), Positives = 162/318 (50%), Gaps = 18/318 (5%)

Query: 49  RNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQV 108
           R+   +NV++  + + G    AL  +  M   G+  D Y     L     + D   G++V
Sbjct: 150 RDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREV 209

Query: 109 QAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLW 168
            AHV + G+   V V +ALI +Y K   +  A L+FD +P ++ +  NA++SGY E    
Sbjct: 210 HAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGEC 269

Query: 169 AGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQS 228
             GLEL   M  L +D D  T+++++ AC  L     GR++H Y+++       DV + +
Sbjct: 270 LEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKT--GFAVDVSVCN 327

Query: 229 SLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAM 288
           SLI+MY   G   +A +VF+    R+E    KD V WT+M+  Y +NG   + ++ Y  M
Sbjct: 328 SLIQMYLSLGSWGEAEKVFS----RME---TKDAVSWTAMISGYEKNGLPDKALETYALM 380

Query: 289 LMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHY----SCLVDLLC 344
             +   PDE+   +V+SAC+  G + +G++     +H+     G   Y    + L+++  
Sbjct: 381 EQDNVSPDEITIASVLSACACLGDLDVGVK-----LHELAERKGLISYVVVANALIEMYS 435

Query: 345 RAGELDKAWKLINEMLDR 362
           +   +DKA ++ + + ++
Sbjct: 436 KCKCIDKALEVFHNIPEK 453

Length = 857

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

 Score =  120 bits (302), Expect = 4e-29
 Identities = 80/290 (27%), Positives = 135/290 (46%), Gaps = 25/290 (8%)

Query: 93  LTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNS 152
           + A  ++K  R  K V  HV  SG+    ++ + ++ ++ K  ++ DA  +FDE+P +N 
Sbjct: 130 VEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNL 189

Query: 153 VCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAY 212
                ++ G  +A  +     L R M   G D +  T   +LRA AGL +A  G+Q+H  
Sbjct: 190 ASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLH-- 247

Query: 213 MIRKCCNL----GNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSM 268
               CC L      D F+  +LI+MY KCG +  A  VF       +G   K  V W SM
Sbjct: 248 ----CCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVF-------DGMPEKTTVAWNSM 296

Query: 269 LGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMV-HDY 327
           L  Y  +GY +E + LY  M  +G   D+  F  +I   S    ++   +    ++   +
Sbjct: 297 LAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGF 356

Query: 328 KLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLS 377
            L+      + LVDL  + G ++ A + + + + R     ++  W AL++
Sbjct: 357 PLDIVAN--TALVDLYSKWGRMEDA-RNVFDRMPR----KNLISWNALIA 399

Length = 697

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

 Score =  102 bits (255), Expect = 3e-23
 Identities = 76/283 (26%), Positives = 127/283 (44%), Gaps = 23/283 (8%)

Query: 105 GKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCE 164
           G +V +    S     V +G+A++ ++ +   +  A  +F ++P ++    N L+ GY +
Sbjct: 105 GSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAK 164

Query: 165 AKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDV 224
           A  +   L L   M   G+  D +T   +LR C G+     GR+VHA+++R       DV
Sbjct: 165 AGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVR--FGFELDV 222

Query: 225 FMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKL 284
            + ++LI MY KCG V  A  VF+    R       D + W +M+  Y  NG   E ++L
Sbjct: 223 DVVNALITMYVKCGDVVSARLVFDRMPRR-------DCISWNAMISGYFENGECLEGLEL 275

Query: 285 YEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG----PEHYSCLV 340
           +  M      PD +   +VISAC   G  +LG E     +H Y ++ G        + L+
Sbjct: 276 FFTMRELSVDPDLMTITSVISACELLGDERLGRE-----MHGYVVKTGFAVDVSVCNSLI 330

Query: 341 DLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCG 383
            +    G   +A K+ + M  +         W A++S     G
Sbjct: 331 QMYLSLGSWGEAEKVFSRMETK-----DAVSWTAMISGYEKNG 368

Length = 857

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

 Score = 71.8 bits (176), Expect = 3e-13
 Identities = 62/237 (26%), Positives = 98/237 (41%), Gaps = 28/237 (11%)

Query: 156 NALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIR 215
           N+ L   C        L+L+  M  L +  D     AL R C    A E G +V +  + 
Sbjct: 55  NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALS 114

Query: 216 KCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRN 275
              +LG  V + ++++ M+ + G +  A  VF     R       D+  W  ++G Y + 
Sbjct: 115 SHPSLG--VRLGNAMLSMFVRFGELVHAWYVFGKMPER-------DLFSWNVLVGGYAKA 165

Query: 276 GYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEH 335
           GYF E + LY  ML  G +PD   F  V+  C     +  G E     VH + +  G E 
Sbjct: 166 GYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGRE-----VHAHVVRFGFEL 220

Query: 336 ----YSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELG 388
                + L+ +  + G++  A  + + M  R   S     W A++S     G FE G
Sbjct: 221 DVDVVNALITMYVKCGDVVSARLVFDRMPRRDCIS-----WNAMIS-----GYFENG 267

Length = 857

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

 Score = 58.7 bits (142), Expect = 4e-09
 Identities = 53/227 (23%), Positives = 106/227 (46%), Gaps = 12/227 (5%)

Query: 183 LDYDHFTLSALLRACAGLSAAEFGRQVHAY-MIRKCCNLGNDVFMQSSLIEMYGKCGLVT 241
           +D DH T+ AL++ACA  +A +  R    Y MI +  N+     + +  +    + G   
Sbjct: 575 IDPDHITVGALMKACA--NAGQVDRAKEVYQMIHE-YNIKGTPEVYTIAVNSCSQKGDWD 631

Query: 242 KALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFV 301
            AL +++      +  +  D V +++++ V G  G   +  ++ +     G K   V++ 
Sbjct: 632 FALSIYD---DMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYS 688

Query: 302 TVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLD 361
           +++ ACS+    K  +E +E  +   KL P     + L+  LC   +L KA ++++EM  
Sbjct: 689 SLMGACSNAKNWKKALELYE-DIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKR 747

Query: 362 RGHGSSSVSMWGALLSACHDCGKFELG-KLAAQ-KALELDPHNVGIY 406
            G   ++++ +  LL A       ++G  L +Q K   + P N+ + 
Sbjct: 748 LGLCPNTIT-YSILLVASERKDDADVGLDLLSQAKEDGIKP-NLVMC 792

Length = 1060

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

 Score = 50.5 bits (122), Expect = 1e-08
 Identities = 13/50 (26%), Positives = 24/50 (48%)

Query: 260 KDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSH 309
            DVV + +++  Y + G  +E +KL+  M   G KP+   +  +I     
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 50.6 bits (121), Expect = 1e-06
 Identities = 44/204 (21%), Positives = 83/204 (40%), Gaps = 15/204 (7%)

Query: 187 HFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQV 246
            F +  L+  CA     +   +V   +  +   L  D  + ++LI    K G V    +V
Sbjct: 439 TFNM--LMSVCASSQDIDGALRVLRLV--QEAGLKADCKLYTTLISTCAKSGKVDAMFEV 494

Query: 247 FNLAGHRLE-GEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVIS 305
           F    H +    +  +V  + +++    R G   +    Y  M     KPD V F  +IS
Sbjct: 495 F----HEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALIS 550

Query: 306 ACSHTGQVKLGIEYFEWMVHDYKLEP-GPEH--YSCLVDLLCRAGELDKAWKLINEMLDR 362
           AC  +G V    +    M  +    P  P+H     L+     AG++D+A K + +M+  
Sbjct: 551 ACGQSGAVDRAFDVLAEMKAETH--PIDPDHITVGALMKACANAGQVDRA-KEVYQMIHE 607

Query: 363 GHGSSSVSMWGALLSACHDCGKFE 386
            +   +  ++   +++C   G ++
Sbjct: 608 YNIKGTPEVYTIAVNSCSQKGDWD 631

Length = 1060

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

 Score = 47.5 bits (111), Expect = 6e-06
 Identities = 42/203 (20%), Positives = 74/203 (36%), Gaps = 4/203 (1%)

Query: 221 GNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKE 280
            +   +   L     K G + +AL++   A       +        ++  +    G ++E
Sbjct: 56  SDLAGLLLLLALALLKLGRLEEALELLEKALELEL--LPNLAEALLNLGLLLEALGKYEE 113

Query: 281 VIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVH-DYKLEPGPEHYSCL 339
            ++L E  L     PD    +  + A    G  +  +E +E  +  D +L    E    L
Sbjct: 114 ALELLEKALALDPDPDLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLAL 173

Query: 340 VDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELD 399
             LL   G  ++A +L+ + L              L       GK+E      +KALELD
Sbjct: 174 GALLEALGRYEEALELLEKALKLNP-DDDAEALLNLGLLYLKLGKYEEALEYYEKALELD 232

Query: 400 PHNVGIYVMLSNLYAKFCMWDEI 422
           P N      L+ L  +   ++E 
Sbjct: 233 PDNAEALYNLALLLLELGRYEEA 255

Length = 291

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

 Score = 42.0 bits (100), Expect = 1e-05
 Identities = 14/44 (31%), Positives = 25/44 (56%), Gaps = 1/44 (2%)

Query: 336 YSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSAC 379
           Y+ L+D  C+ G++++A KL NEM  RG   +  + +  L+   
Sbjct: 6   YNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYT-YSILIDGL 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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 40.1 bits (95), Expect = 4e-05
 Identities = 13/29 (44%), Positives = 21/29 (72%)

Query: 336 YSCLVDLLCRAGELDKAWKLINEMLDRGH 364
           Y+ L+D LC+AG +++A +L  EM +RG 
Sbjct: 3   YNTLIDGLCKAGRVEEALELFKEMKERGI 31

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

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

 Score = 38.1 bits (90), Expect = 2e-04
 Identities = 13/24 (54%), Positives = 20/24 (83%)

Query: 336 YSCLVDLLCRAGELDKAWKLINEM 359
           Y+ L+D LCRAG +D+A +L++EM
Sbjct: 10  YNTLIDGLCRAGRVDEAVELLDEM 33

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

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

 Score = 37.4 bits (88), Expect = 5e-04
 Identities = 13/49 (26%), Positives = 21/49 (42%)

Query: 150 KNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACA 198
            + V  N L+ GYC+       L+L   M   G+  + +T S L+    
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 49

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

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

 Score = 37.0 bits (87), Expect = 5e-04
 Identities = 11/28 (39%), Positives = 20/28 (71%)

Query: 336 YSCLVDLLCRAGELDKAWKLINEMLDRG 363
           Y+ L+   C+AG+L++A +L  EM ++G
Sbjct: 3   YNSLISGYCKAGKLEEALELFKEMKEKG 30

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

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

 Score = 36.3 bits (85), Expect = 9e-04
 Identities = 8/35 (22%), Positives = 19/35 (54%)

Query: 263 VLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDE 297
           V + +++    + G  +E ++L++ M   G +PD 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 35.1 bits (82), Expect = 0.002
 Identities = 8/30 (26%), Positives = 17/30 (56%)

Query: 263 VLWTSMLGVYGRNGYFKEVIKLYEAMLMNG 292
           V + S++  Y + G  +E ++L++ M   G
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKG 30

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

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

 Score = 35.5 bits (83), Expect = 0.003
 Identities = 16/51 (31%), Positives = 26/51 (50%), Gaps = 1/51 (1%)

Query: 295 PDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCR 345
           PD V + T+I      G+V+  ++ F  M     ++P    YS L+D LC+
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMK-KRGIKPNVYTYSILIDGLCK 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	447
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03077	857	Protein ECB2; 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
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.95
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.94
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.93
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.93
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.92
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.92
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.92
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.92
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.91
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.91
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.9
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.89
PRK14574	822	hmsH outer membrane protein; Provisional	99.88
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.88
PRK14574	822	hmsH outer membrane protein; Provisional	99.85
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.85
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.78
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.78
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.77
KOG2076	895	consensus RNA polymerase III transcription factor	99.76
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.76
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.73
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.73
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.73
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.72
KOG1126	638	consensus DNA-binding cell division cycle control	99.71
KOG2076	895	consensus RNA polymerase III transcription factor	99.71
KOG2003	840	consensus TPR repeat-containing protein [General f	99.71
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.71
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.71
KOG1126	638	consensus DNA-binding cell division cycle control	99.7
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.7
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.69
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.68
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.68
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.68
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.67
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.66
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.63
KOG2003	840	consensus TPR repeat-containing protein [General f	99.63
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.62
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.61
KOG1129	478	consensus TPR repeat-containing protein [General f	99.59
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.59
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.58
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.57
KOG1129	478	consensus TPR repeat-containing protein [General f	99.57
PRK12370	553	invasion protein regulator; Provisional	99.55
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.55
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.53
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.53
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.51
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.5
PRK12370	553	invasion protein regulator; Provisional	99.5
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.49
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.45
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.45
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.41
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.41
PF13041	50	PPR_2: PPR repeat family	99.41
PRK11189	296	lipoprotein NlpI; Provisional	99.4
PRK11189	296	lipoprotein NlpI; Provisional	99.4
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.39
PF13041	50	PPR_2: PPR repeat family	99.38
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.37
KOG1125	579	consensus TPR repeat-containing protein [General f	99.37
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.37
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.35
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.35
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.32
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.3
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.3
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.28
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.26
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.24
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.23
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.22
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.22
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.18
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.18
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.18
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.17
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	99.15
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	99.13
PRK04841	903	transcriptional regulator MalT; Provisional	99.13
PRK10370	198	formate-dependent nitrite reductase complex subuni	99.12
PLN02789	320	farnesyltranstransferase	99.11
PRK15359	144	type III secretion system chaperone protein SscB;	99.09
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	99.07
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.07
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	99.06
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.06
PRK15359	144	type III secretion system chaperone protein SscB;	99.05
KOG1125	579	consensus TPR repeat-containing protein [General f	99.05
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	99.04
KOG1128	777	consensus Uncharacterized conserved protein, conta	99.03
PRK04841	903	transcriptional regulator MalT; Provisional	99.02
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	99.01
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.98
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.98
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.98
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.97
PLN02789	320	farnesyltranstransferase	98.95
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.93
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.92
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.91
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.91
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.9
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.89
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.88
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.87
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.86
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.84
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.82
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.82
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.79
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.79
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.77
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.75
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.75
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.75
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.74
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.73
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.73
PF12854	34	PPR_1: PPR repeat	98.72
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.72
PF12854	34	PPR_1: PPR repeat	98.72
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.7
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.69
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.68
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.59
KOG0553	304	consensus TPR repeat-containing protein [General f	98.55
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.53
KOG0553	304	consensus TPR repeat-containing protein [General f	98.51
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.51
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.5
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.48
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.47
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.42
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.39
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.36
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.36
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	98.35
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.35
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.35
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.29
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	98.29
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.28
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	98.28
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.27
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.26
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.25
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.24
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	98.24
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.23
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.22
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.22
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.19
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.18
COG4700	251	Uncharacterized protein conserved in bacteria cont	98.16
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.13
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.13
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	98.11
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.11
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.09
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.07
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.06
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.05
PRK15331	165	chaperone protein SicA; Provisional	98.04
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.04
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.03
PF13371	73	TPR_9: Tetratricopeptide repeat	98.02
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	98.01
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.0
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.99
PF12688	120	TPR_5: Tetratrico peptide repeat	97.98
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.97
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.96
PRK10803	263	tol-pal system protein YbgF; Provisional	97.94
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.93
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	97.93
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.93
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.93
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.86
PF13371	73	TPR_9: Tetratricopeptide repeat	97.83
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.83
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.83
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.77
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.77
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.74
PRK10803	263	tol-pal system protein YbgF; Provisional	97.73
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.7
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.69
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.69
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.68
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.67
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.64
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.63
PF12688	120	TPR_5: Tetratrico peptide repeat	97.63
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.6
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.58
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.56
PRK11906	458	transcriptional regulator; Provisional	97.55
PF13431	34	TPR_17: Tetratricopeptide repeat	97.54
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.53
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.48
PF13428	44	TPR_14: Tetratricopeptide repeat	97.48
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.44
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.37
KOG4555	175	consensus TPR repeat-containing protein [Function	97.3
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.3
PRK15331	165	chaperone protein SicA; Provisional	97.29
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.29
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.23
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.22
PF13512	142	TPR_18: Tetratricopeptide repeat	97.2
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.17
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.13
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.12
KOG2610	491	consensus Uncharacterized conserved protein [Funct	97.1
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.1
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.1
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	97.09
KOG1585	308	consensus Protein required for fusion of vesicles	97.07
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.06
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.05
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.99
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.94
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.87
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.86
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.85
PF13428	44	TPR_14: Tetratricopeptide repeat	96.85
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.82
KOG4234	271	consensus TPR repeat-containing protein [General f	96.77
COG0457	291	NrfG FOG: TPR repeat [General function prediction	96.71
PRK11906	458	transcriptional regulator; Provisional	96.7
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.7
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.64
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.55
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.54
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.53
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.52
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.49
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.48
COG0457	291	NrfG FOG: TPR repeat [General function prediction	96.47
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.44
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.42
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	96.42
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	96.38
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	96.38
PF13512	142	TPR_18: Tetratricopeptide repeat	96.32
PRK11619	644	lytic murein transglycosylase; Provisional	96.32
KOG4234	271	consensus TPR repeat-containing protein [General f	96.29
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	96.27
KOG4555	175	consensus TPR repeat-containing protein [Function	96.23
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	96.17
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	96.08
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	96.03
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.9
KOG3941	406	consensus Intermediate in Toll signal transduction	95.9
PF13431	34	TPR_17: Tetratricopeptide repeat	95.73
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	95.54
COG3629	280	DnrI DNA-binding transcriptional activator of the	95.5
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	95.22
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	95.22
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.19
COG1747	711	Uncharacterized N-terminal domain of the transcrip	95.19
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.17
KOG4648	536	consensus Uncharacterized conserved protein, conta	95.15
KOG1258	577	consensus mRNA processing protein [RNA processing	95.14
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	95.05
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.02
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	95.01
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	95.0
KOG4648	536	consensus Uncharacterized conserved protein, conta	95.0
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.89
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	94.86
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.73
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	94.7
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	94.56
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	94.53
COG3629	280	DnrI DNA-binding transcriptional activator of the	94.5
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	94.33
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	94.32
KOG3941	406	consensus Intermediate in Toll signal transduction	94.31
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	94.18
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	94.14
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	94.02
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	93.91
PRK09687	280	putative lyase; Provisional	93.69
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	93.58
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	93.49
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	93.38
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	93.36
KOG1308	377	consensus Hsp70-interacting protein Hip/Transient	93.3
KOG2471	696	consensus TPR repeat-containing protein [General f	93.2
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	93.08
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	93.06
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	92.89
KOG1550	552	consensus Extracellular protein SEL-1 and related	92.49
PRK09687	280	putative lyase; Provisional	92.48
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	92.39
PRK10941	269	hypothetical protein; Provisional	92.27
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	92.25
COG3947	361	Response regulator containing CheY-like receiver a	92.23
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	92.23
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	92.2
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	92.1
COG4455	273	ImpE Protein of avirulence locus involved in tempe	92.09
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	91.88
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	91.86
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	91.83
KOG0376	476	consensus Serine-threonine phosphatase 2A, catalyt	91.8
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	91.67
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	91.62
KOG1586	288	consensus Protein required for fusion of vesicles	91.57
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	91.53
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	91.47
PF08311	126	Mad3_BUB1_I: Mad3/BUB1 homology region 1; InterPro	91.35
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	91.29
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	91.25
KOG1585	308	consensus Protein required for fusion of vesicles	91.18
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	91.15
PRK11619	644	lytic murein transglycosylase; Provisional	91.13
KOG4570	418	consensus Uncharacterized conserved protein [Funct	91.12
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	91.03
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	90.72
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	90.68
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	90.63
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	90.5
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	90.47
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	90.39
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	90.3
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	90.21
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	90.18
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	90.05
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	89.96
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	89.88
KOG4570	418	consensus Uncharacterized conserved protein [Funct	89.8
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	89.7
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	89.64
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	89.59
KOG0545	329	consensus Aryl-hydrocarbon receptor-interacting pr	89.33
PF13929	292	mRNA_stabil: mRNA stabilisation	89.26
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	88.8
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	88.79
PF14561	90	TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S	88.53
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	88.43
COG4455	273	ImpE Protein of avirulence locus involved in tempe	88.31
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	88.14
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	87.34
smart00386	33	HAT HAT (Half-A-TPR) repeats. Present in several R	87.22
KOG4507	886	consensus Uncharacterized conserved protein, conta	87.08
PF08424	321	NRDE-2: NRDE-2, necessary for RNA interference; In	86.99
PF08424	321	NRDE-2: NRDE-2, necessary for RNA interference; In	86.75
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	86.75
KOG3364	149	consensus Membrane protein involved in organellar	86.66
COG5191	435	Uncharacterized conserved protein, contains HAT (H	86.38
PRK10941	269	hypothetical protein; Provisional	86.11
PF14561	90	TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S	85.26
COG4976	287	Predicted methyltransferase (contains TPR repeat)	85.07
KOG0376	476	consensus Serine-threonine phosphatase 2A, catalyt	84.61
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	84.22
KOG1550	552	consensus Extracellular protein SEL-1 and related	84.22
KOG1258	577	consensus mRNA processing protein [RNA processing	84.09
PF07575	566	Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR0	84.01
KOG3364	149	consensus Membrane protein involved in organellar	81.99
PRK13800	897	putative oxidoreductase/HEAT repeat-containing pro	81.85
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	81.66
KOG0545	329	consensus Aryl-hydrocarbon receptor-interacting pr	81.55
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	81.35
KOG4507	886	consensus Uncharacterized conserved protein, conta	81.24
PRK13800	897	putative oxidoreductase/HEAT repeat-containing pro	80.81
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	80.19
COG1747	711	Uncharacterized N-terminal domain of the transcrip	80.09
PF13762	145	MNE1: Mitochondrial splicing apparatus component	80.05
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	80.02

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

Probab=100.00  E-value=2.1e-69  Score=525.62  Aligned_cols=429  Identities=31%  Similarity=0.517  Sum_probs=413.7

Q ss_pred             CcchhHHHhhhhhhhhHHHhhhhhhhhhcccccCCcchHHHhhccCCCCCCccHHHHHHHHHhCCChhhHHHHHHHHHhc
Q 048090            1 NVHAHQFETGLLLICLIIFQSRLMLPYTTCRHKKNLGTLTNCLKFLNPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVH   80 (447)
Q Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~   80 (447)
                      ++|..+.+.|+.  ||+.++|.|+.+|+++|   +++.|.++|++|+.||+.+||.++.+|++.|++++|+++|++|.+.
T Consensus       144 ~l~~~m~~~g~~--~~~~~~n~Li~~y~k~g---~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~  218 (697)
T PLN03081        144 AVYWHVESSGFE--PDQYMMNRVLLMHVKCG---MLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWED  218 (697)
T ss_pred             HHHHHHHHhCCC--cchHHHHHHHHHHhcCC---CHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHh
Confidence            378899999987  55899999999999999   5999999999999999999999999999999999999999999999


Q ss_pred             CCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCCCCchhhHHHHHH
Q 048090           81 GIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLS  160 (447)
Q Consensus        81 ~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~  160 (447)
                      |+.|+..+|+.++.+|++.|+.+.+.+++..+.+.|+.||..+|+.|+++|+++|++++|.++|++|.++|..+||.++.
T Consensus       219 g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~  298 (697)
T PLN03081        219 GSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLA  298 (697)
T ss_pred             CCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCCh
Q 048090          161 GYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLV  240 (447)
Q Consensus       161 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  240 (447)
                      +|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.+++..|.+.  |+.|+..++++|+.+|++.|++
T Consensus       299 ~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~--g~~~d~~~~~~Li~~y~k~G~~  376 (697)
T PLN03081        299 GYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRT--GFPLDIVANTALVDLYSKWGRM  376 (697)
T ss_pred             HHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHh--CCCCCeeehHHHHHHHHHCCCH
Confidence            99999999999999999999999999999999999999999999999999999999  8999999999999999999999


Q ss_pred             HHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHH
Q 048090          241 TKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYF  320 (447)
Q Consensus       241 ~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~  320 (447)
                      ++|.++|++|       ..||..+||.||.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|++.|.+++|.++|
T Consensus       377 ~~A~~vf~~m-------~~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f  449 (697)
T PLN03081        377 EDARNVFDRM-------PRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIF  449 (697)
T ss_pred             HHHHHHHHhC-------CCCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHH
Confidence            9999999965       457999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCC
Q 048090          321 EWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDP  400 (447)
Q Consensus       321 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  400 (447)
                      +.|.+.+|+.|+..+|+.++++|++.|++++|.+++++|.   +.| +..+|++|+.+|...|+++.|..+++++.+..|
T Consensus       450 ~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~~---~~p-~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p  525 (697)
T PLN03081        450 QSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAP---FKP-TVNMWAALLTACRIHKNLELGRLAAEKLYGMGP  525 (697)
T ss_pred             HHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHCC---CCC-CHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCC
Confidence            9999877999999999999999999999999999998873   446 566799999999999999999999999999999


Q ss_pred             CchhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCCccccccccC
Q 048090          401 HNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDVGCSWIEVTG  447 (447)
Q Consensus       401 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~~~~g  447 (447)
                      ++..+|..|+..|.+.|++++|.++++.|++.|+.+.++.+|+.++|
T Consensus       526 ~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~k~~g~s~i~~~~  572 (697)
T PLN03081        526 EKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPACTWIEVKK  572 (697)
T ss_pred             CCCcchHHHHHHHHhCCCHHHHHHHHHHHHHcCCccCCCeeEEEECC
Confidence            99999999999999999999999999999999999999999999875

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=3e-67  Score=522.37  Aligned_cols=436  Identities=36%  Similarity=0.606  Sum_probs=412.6

Q ss_pred             CcchhHHHhhhhhhhhHHHhhhhhhhhhcccccCCcchHHHhhccCCCCCCccHHHHHHHHHhCCChhhHHHHHHHHHhc
Q 048090            1 NVHAHQFETGLLLICLIIFQSRLMLPYTTCRHKKNLGTLTNCLKFLNPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVH   80 (447)
Q Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~   80 (447)
                      +||.++.+.|+.  +|+.++|+|+.+|+++|   +++.|.++|++|+.||+.+||++|.+|++.|++++|+++|++|.+.
T Consensus       208 ~~~~~~~~~g~~--~~~~~~n~Li~~y~k~g---~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~  282 (857)
T PLN03077        208 EVHAHVVRFGFE--LDVDVVNALITMYVKCG---DVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMREL  282 (857)
T ss_pred             HHHHHHHHcCCC--cccchHhHHHHHHhcCC---CHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHc
Confidence            478899999986  55899999999999999   5999999999999999999999999999999999999999999999


Q ss_pred             CCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCCCCchhhHHHHHH
Q 048090           81 GIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLS  160 (447)
Q Consensus        81 ~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~  160 (447)
                      |+.||..||+.++.+|++.|+++.|.+++..|.+.|+.||..+|+.++.+|+++|++++|.++|++|..||..+||.++.
T Consensus       283 g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~  362 (857)
T PLN03077        283 SVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMIS  362 (857)
T ss_pred             CCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCCh
Q 048090          161 GYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLV  240 (447)
Q Consensus       161 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  240 (447)
                      +|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.++++.+.+.  |+.|+..+++.|+.+|++.|++
T Consensus       363 ~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~--g~~~~~~~~n~Li~~y~k~g~~  440 (857)
T PLN03077        363 GYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERK--GLISYVVVANALIEMYSKCKCI  440 (857)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHh--CCCcchHHHHHHHHHHHHcCCH
Confidence            99999999999999999999999999999999999999999999999999999998  7899999999999999999999


Q ss_pred             HHHHHHHHhhhhhcc---------------------------cC------------------------------------
Q 048090          241 TKALQVFNLAGHRLE---------------------------GE------------------------------------  257 (447)
Q Consensus       241 ~~A~~~~~~~~~~~~---------------------------~~------------------------------------  257 (447)
                      ++|.++|++|.....                           .+                                    
T Consensus       441 ~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~  520 (857)
T PLN03077        441 DKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGI  520 (857)
T ss_pred             HHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCC
Confidence            999999986643200                           00                                    


Q ss_pred             -----------------------------CCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHh
Q 048090          258 -----------------------------INKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACS  308 (447)
Q Consensus       258 -----------------------------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  308 (447)
                                                   ..+|..+|+++|.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|+
T Consensus       521 ~~~~~~~naLi~~y~k~G~~~~A~~~f~~~~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~  600 (857)
T PLN03077        521 GFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACS  600 (857)
T ss_pred             CccceechHHHHHHHHcCCHHHHHHHHHhcCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHh
Confidence                                         156777899999999999999999999999999999999999999999999


Q ss_pred             ccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHH
Q 048090          309 HTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELG  388 (447)
Q Consensus       309 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  388 (447)
                      +.|++++|.++|+.|.+.+|+.|+..+|+.++++|++.|++++|.+++++|.   +.| +..+|.+|+.+|...|+.+.+
T Consensus       601 ~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m~---~~p-d~~~~~aLl~ac~~~~~~e~~  676 (857)
T PLN03077        601 RSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMP---ITP-DPAVWGALLNACRIHRHVELG  676 (857)
T ss_pred             hcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHCC---CCC-CHHHHHHHHHHHHHcCChHHH
Confidence            9999999999999999777999999999999999999999999999999994   446 677799999999999999999


Q ss_pred             HHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCCccccccccC
Q 048090          389 KLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDVGCSWIEVTG  447 (447)
Q Consensus       389 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~~~~g  447 (447)
                      +...++++++.|++...|..|.+.|...|+|++|.++.+.|++.|++++++++|++|+|
T Consensus       677 e~~a~~l~~l~p~~~~~y~ll~n~ya~~g~~~~a~~vr~~M~~~g~~k~~g~s~ie~~~  735 (857)
T PLN03077        677 ELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEVKG  735 (857)
T ss_pred             HHHHHHHHhhCCCCcchHHHHHHHHHHCCChHHHHHHHHHHHHcCCCCCCCccEEEECC
Confidence            99999999999999999999999999999999999999999999999999999999976

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=8e-65  Score=496.41  Aligned_cols=434  Identities=18%  Similarity=0.203  Sum_probs=398.9

Q ss_pred             cchhHHHhhhhhhhhHHHhhhhhhhhhcccccCCcchHHHhhccCCCCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcC
Q 048090            2 VHAHQFETGLLLICLIIFQSRLMLPYTTCRHKKNLGTLTNCLKFLNPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHG   81 (447)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~   81 (447)
                      ++..|.+.|... ++..+++.++..|.+.|   .+++|..+|+.|+.||..+|+.++.+|++.|+++.|.++|++|.+.|
T Consensus       392 Lfd~M~~~gvv~-~~~v~~~~li~~~~~~g---~~~eAl~lf~~M~~pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~G  467 (1060)
T PLN03218        392 LLEDMEKRGLLD-MDKIYHAKFFKACKKQR---AVKEAFRFAKLIRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAG  467 (1060)
T ss_pred             HHHHHHhCCCCC-chHHHHHHHHHHHHHCC---CHHHHHHHHHHcCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcC
Confidence            345677777643 56788889999999887   59999999999999999999999999999999999999999999999


Q ss_pred             CCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCC----CCchhhHHH
Q 048090           82 IFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIP----VKNSVCANA  157 (447)
Q Consensus        82 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~----~~~~~~~~~  157 (447)
                      +.||..+|+.+|.+|++.|+++.|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.    .||..+|+.
T Consensus       468 l~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYns  547 (1060)
T PLN03218        468 LKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNA  547 (1060)
T ss_pred             CCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999996    689999999


Q ss_pred             HHHHHHhcCCHHHHHHHHHhhhh--cCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHH
Q 048090          158 LLSGYCEAKLWAGGLELVRLMPA--LGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYG  235 (447)
Q Consensus       158 l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  235 (447)
                      +|.+|++.|++++|.++|++|..  .|+.||..+|+.++.+|++.|++++|.++|+.|.+.  ++.|+..+|+.++.+|+
T Consensus       548 LI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~--gi~p~~~tynsLI~ay~  625 (1060)
T PLN03218        548 LISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEY--NIKGTPEVYTIAVNSCS  625 (1060)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc--CCCCChHHHHHHHHHHH
Confidence            99999999999999999999976  678999999999999999999999999999999998  88999999999999999


Q ss_pred             hcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHH
Q 048090          236 KCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKL  315 (447)
Q Consensus       236 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  315 (447)
                      +.|++++|.++|++|..   .|..||..+|+.++.+|++.|++++|.+++++|.+.|+.||..+|+.+|.+|++.|++++
T Consensus       626 k~G~~deAl~lf~eM~~---~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~ee  702 (1060)
T PLN03218        626 QKGDWDFALSIYDDMKK---KGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKK  702 (1060)
T ss_pred             hcCCHHHHHHHHHHHHH---cCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHH
Confidence            99999999999996554   589999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHH
Q 048090          316 GIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKA  395 (447)
Q Consensus       316 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  395 (447)
                      |.++|++|... ++.|+..+|+.||.+|++.|++++|.++|++|...|+.| +..+|+.++.+|.+.|++++|.++++++
T Consensus       703 A~~lf~eM~~~-g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~P-d~~Ty~sLL~a~~k~G~le~A~~l~~~M  780 (1060)
T PLN03218        703 ALELYEDIKSI-KLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCP-NTITYSILLVASERKDDADVGLDLLSQA  780 (1060)
T ss_pred             HHHHHHHHHHc-CCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            99999999876 899999999999999999999999999999999999977 5666999999999999999999999999


Q ss_pred             hhhC-CCchhHHHHHHHHHHh----c-------------------CChHHHHHHHHHHHHcCCCCCCcccccccc
Q 048090          396 LELD-PHNVGIYVMLSNLYAK----F-------------------CMWDEIGQLRELMKEKGLKKDVGCSWIEVT  446 (447)
Q Consensus       396 ~~~~-~~~~~~~~~l~~~~~~----~-------------------g~~~~A~~~~~~m~~~~~~p~~~~~~~~~~  446 (447)
                      .+.+ .+|..+|+.++..|.+    .                   +..++|..+|++|.+.|+.||..|+..++.
T Consensus       781 ~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~~~Gi~Pd~~T~~~vL~  855 (1060)
T PLN03218        781 KEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETISAGTLPTMEVLSQVLG  855 (1060)
T ss_pred             HHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Confidence            9987 6688889998865432    1                   234679999999999999999988877653

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=4.1e-64  Score=499.90  Aligned_cols=425  Identities=24%  Similarity=0.350  Sum_probs=381.0

Q ss_pred             cchhHHHhhhhhhhhHHHhhhhhhhhhcccccCCcchHHHhhccCCCCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcC
Q 048090            2 VHAHQFETGLLLICLIIFQSRLMLPYTTCRHKKNLGTLTNCLKFLNPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHG   81 (447)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~   81 (447)
                      +|.++.+.|..  +++.++|+|+.+|+++|   +++.|.++|++|++||+.+||.+|.+|++.|++++|+++|++|...|
T Consensus       108 ~~~~~~~~~~~--~~~~~~n~li~~~~~~g---~~~~A~~~f~~m~~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g  182 (857)
T PLN03077        108 VCSRALSSHPS--LGVRLGNAMLSMFVRFG---ELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAG  182 (857)
T ss_pred             HHHHHHHcCCC--CCchHHHHHHHHHHhCC---ChHHHHHHHhcCCCCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcC
Confidence            57777888864  56899999999999999   59999999999999999999999999999999999999999999999


Q ss_pred             CCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCCCCchhhHHHHHHH
Q 048090           82 IFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSG  161 (447)
Q Consensus        82 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~  161 (447)
                      +.||..||+.++++|+..+++..+.+++..|.+.|+.||..+++.++.+|+++|++++|.++|++|+.+|..+||++|.+
T Consensus       183 ~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~  262 (857)
T PLN03077        183 VRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISG  262 (857)
T ss_pred             CCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChH
Q 048090          162 YCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVT  241 (447)
Q Consensus       162 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  241 (447)
                      |++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+.+.+.+++..+.+.  |+.||..+|+.++.+|++.|+++
T Consensus       263 ~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~--g~~~d~~~~n~Li~~y~k~g~~~  340 (857)
T PLN03077        263 YFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKT--GFAVDVSVCNSLIQMYLSLGSWG  340 (857)
T ss_pred             HHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHh--CCccchHHHHHHHHHHHhcCCHH
Confidence            9999999999999999999999999999999999999999999999999999999  89999999999999999999999


Q ss_pred             HHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHH
Q 048090          242 KALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFE  321 (447)
Q Consensus       242 ~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  321 (447)
                      +|.++|++|       ..||..+|+.+|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.++++
T Consensus       341 ~A~~vf~~m-------~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~  413 (857)
T PLN03077        341 EAEKVFSRM-------ETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHE  413 (857)
T ss_pred             HHHHHHhhC-------CCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHH
Confidence            999999965       4578999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhC--
Q 048090          322 WMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELD--  399 (447)
Q Consensus       322 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--  399 (447)
                      .+.+. |+.|+..+|+.|+++|++.|++++|.++|++|.+.     +..+|+.++.+|.+.|+.++|..+|++|.+..  
T Consensus       414 ~~~~~-g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~-----d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~~~~p  487 (857)
T PLN03077        414 LAERK-GLISYVVVANALIEMYSKCKCIDKALEVFHNIPEK-----DVISWTSIIAGLRLNNRCFEALIFFRQMLLTLKP  487 (857)
T ss_pred             HHHHh-CCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCC-----CeeeHHHHHHHHHHCCCHHHHHHHHHHHHhCCCC
Confidence            99887 99999999999999999999999999998888653     23335555555555555555555554443211  


Q ss_pred             ---------------------------------------------------------------CCchhHHHHHHHHHHhc
Q 048090          400 ---------------------------------------------------------------PHNVGIYVMLSNLYAKF  416 (447)
Q Consensus       400 ---------------------------------------------------------------~~~~~~~~~l~~~~~~~  416 (447)
                                                                                     ++|..+|+.++.+|.+.
T Consensus       488 d~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~~~d~~s~n~lI~~~~~~  567 (857)
T PLN03077        488 NSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAH  567 (857)
T ss_pred             CHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhcCCChhhHHHHHHHHHHc
Confidence                                                                           33556677777778788


Q ss_pred             CChHHHHHHHHHHHHcCCCCCCcccccccc
Q 048090          417 CMWDEIGQLRELMKEKGLKKDVGCSWIEVT  446 (447)
Q Consensus       417 g~~~~A~~~~~~m~~~~~~p~~~~~~~~~~  446 (447)
                      |+.++|.++|++|.+.|+.||..|+..++.
T Consensus       568 G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~  597 (857)
T PLN03077        568 GKGSMAVELFNRMVESGVNPDEVTFISLLC  597 (857)
T ss_pred             CCHHHHHHHHHHHHHcCCCCCcccHHHHHH
Confidence            888888888888777777787777776653

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.5e-63  Score=487.55  Aligned_cols=425  Identities=18%  Similarity=0.161  Sum_probs=397.9

Q ss_pred             hhhhhhhhHHHhhhhhhhhhcccccCCcchHHHhhccCCCCCCc-----cHHHHHHHHHhCCChhhHHHHHHHHHhcCCC
Q 048090            9 TGLLLICLIIFQSRLMLPYTTCRHKKNLGTLTNCLKFLNPRNPL-----PFNVVISDFCRNGSPLYALKTFSFMHVHGIF   83 (447)
Q Consensus         9 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-----~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~   83 (447)
                      .|+...++...|..++..+.++|   ++++|.++|++|+.++..     .++.++..|.+.|.+++|+.+|+.|..    
T Consensus       362 ~~~~~~~~~~~~~~~y~~l~r~G---~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~----  434 (1060)
T PLN03218        362 GGVSGKRKSPEYIDAYNRLLRDG---RIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN----  434 (1060)
T ss_pred             cccCCCCCchHHHHHHHHHHHCc---CHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCC----
Confidence            44445566777888888888877   599999999999765544     456778889999999999999999964    


Q ss_pred             CchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCC----CCchhhHHHHH
Q 048090           84 LDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIP----VKNSVCANALL  159 (447)
Q Consensus        84 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~----~~~~~~~~~l~  159 (447)
                      ||..+|+.++.+|++.|+++.|.++++.|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.    .||..+|+.+|
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            89999999999999999999999999999999999999999999999999999999999999998    68999999999


Q ss_pred             HHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCC
Q 048090          160 SGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGL  239 (447)
Q Consensus       160 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  239 (447)
                      .+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.++|++|...+.++.||..+|+.++.+|++.|+
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            99999999999999999999999999999999999999999999999999999987544789999999999999999999


Q ss_pred             hHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHH
Q 048090          240 VTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEY  319 (447)
Q Consensus       240 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~  319 (447)
                      +++|.++|+.|.+   .+.+|+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.++
T Consensus       595 ldeA~elf~~M~e---~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l  671 (1060)
T PLN03218        595 VDRAKEVYQMIHE---YNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEI  671 (1060)
T ss_pred             HHHHHHHHHHHHH---cCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHH
Confidence            9999999996654   4889999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhC
Q 048090          320 FEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELD  399 (447)
Q Consensus       320 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  399 (447)
                      |++|.+. |+.|+..+|+.||.+|++.|++++|.++|++|...|+.| +..+|+.|+.+|++.|++++|.+++++|.+.+
T Consensus       672 ~~eM~k~-G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~P-dvvtyN~LI~gy~k~G~~eeAlelf~eM~~~G  749 (1060)
T PLN03218        672 LQDARKQ-GIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRP-TVSTMNALITALCEGNQLPKALEVLSEMKRLG  749 (1060)
T ss_pred             HHHHHHc-CCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC
Confidence            9999887 999999999999999999999999999999999999877 66779999999999999999999999999876


Q ss_pred             -CCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCCccccccc
Q 048090          400 -PHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDVGCSWIEV  445 (447)
Q Consensus       400 -~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~~~  445 (447)
                       .||..+|..++.+|.+.|++++|.+++++|.+.|+.||..+++.++
T Consensus       750 i~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLI  796 (1060)
T PLN03218        750 LCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCIT  796 (1060)
T ss_pred             CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence             7799999999999999999999999999999999999998887765

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

Probab=100.00  E-value=3.1e-57  Score=440.50  Aligned_cols=383  Identities=22%  Similarity=0.316  Sum_probs=366.0

Q ss_pred             CCCccHHHHHHHHHhCCChhhHHHHHHHHHhcC-CCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHH
Q 048090           49 RNPLPFNVVISDFCRNGSPLYALKTFSFMHVHG-IFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSAL  127 (447)
Q Consensus        49 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  127 (447)
                      ++..+|+.+|.++.+.|++++|+++|++|...+ ..||..+|+.++.+|.+.++++.+.+++..|.+.|+.||..+|+.+
T Consensus        85 ~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~L  164 (697)
T PLN03081         85 KSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRV  164 (697)
T ss_pred             CCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHH
Confidence            456789999999999999999999999998764 7899999999999999999999999999999999999999999999


Q ss_pred             HHHHHccCChhhHHHHhccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHH
Q 048090          128 IDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGR  207 (447)
Q Consensus       128 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  207 (447)
                      +.+|++.|++++|.++|++|.+||..+||.++.+|++.|++++|+++|++|.+.|+.|+..||..++.+|++.|..+.+.
T Consensus       165 i~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~  244 (697)
T PLN03081        165 LLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQ  244 (697)
T ss_pred             HHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHH
Q 048090          208 QVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEA  287 (447)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  287 (447)
                      +++..+.+.  |+.||..++++|+.+|++.|++++|.++|+.|       ..+|+.+|+.++.+|++.|++++|.++|++
T Consensus       245 ~l~~~~~~~--g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m-------~~~~~vt~n~li~~y~~~g~~~eA~~lf~~  315 (697)
T PLN03081        245 QLHCCVLKT--GVVGDTFVSCALIDMYSKCGDIEDARCVFDGM-------PEKTTVAWNSMLAGYALHGYSEEALCLYYE  315 (697)
T ss_pred             HHHHHHHHh--CCCccceeHHHHHHHHHHCCCHHHHHHHHHhC-------CCCChhHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            999999998  88999999999999999999999999999965       457999999999999999999999999999


Q ss_pred             HHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCC
Q 048090          288 MLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSS  367 (447)
Q Consensus       288 m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~  367 (447)
                      |.+.|+.||..||+.++.+|++.|++++|.+++..|.+. |+.|+..+|+.|+++|+++|++++|.++|++|.+    | 
T Consensus       316 M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~-g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~-  389 (697)
T PLN03081        316 MRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRT-GFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----K-  389 (697)
T ss_pred             HHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHh-CCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----C-
Confidence            999999999999999999999999999999999999888 9999999999999999999999999999999975    3 


Q ss_pred             chHhHHHHHHHHHhcCCccHHHHHHHHHhhhC-CCchhHHHHHHHHHHhcCChHHHHHHHHHHHH-cCCCCCCccccccc
Q 048090          368 SVSMWGALLSACHDCGKFELGKLAAQKALELD-PHNVGIYVMLSNLYAKFCMWDEIGQLRELMKE-KGLKKDVGCSWIEV  445 (447)
Q Consensus       368 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~-~~~~p~~~~~~~~~  445 (447)
                      +..+|+.|+.+|++.|+.++|.++|++|.+.+ .||..+|..++.+|.+.|+.++|.++|+.|.+ .|+.|+..+|..+|
T Consensus       390 d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li  469 (697)
T PLN03081        390 NLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMI  469 (697)
T ss_pred             CeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHH
Confidence            56679999999999999999999999999877 67999999999999999999999999999986 69999999988877


Q ss_pred             c
Q 048090          446 T  446 (447)
Q Consensus       446 ~  446 (447)
                      +
T Consensus       470 ~  470 (697)
T PLN03081        470 E  470 (697)
T ss_pred             H
Confidence            5

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

Probab=100.00  E-value=1.5e-28  Score=250.37  Aligned_cols=398  Identities=13%  Similarity=0.032  Sum_probs=250.4

Q ss_pred             HHHhhhhhhhhhcccccCCcchHHHhhccCC---CCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHH
Q 048090           17 IIFQSRLMLPYTTCRHKKNLGTLTNCLKFLN---PRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSL   93 (447)
Q Consensus        17 ~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll   93 (447)
                      +.+++.+...|.+.|   +.++|...|++..   +.+...+..+...+...|++++|.+.|+++.+.+ +.+..++..+.
T Consensus       465 ~~~~~~l~~~~~~~~---~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~  540 (899)
T TIGR02917       465 ASLHNLLGAIYLGKG---DLAKAREAFEKALSIEPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILALA  540 (899)
T ss_pred             cHHHHHHHHHHHhCC---CHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHH
Confidence            344555555555444   3555555555432   2333444555555555555555555555555442 22344555555


Q ss_pred             HHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCC---CCchhhHHHHHHHHHhcCCHHH
Q 048090           94 TASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIP---VKNSVCANALLSGYCEAKLWAG  170 (447)
Q Consensus        94 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~  170 (447)
                      ..+.+.|+.++|..+++++.+.+ +.+...+..++..+...|++++|..+++++.   ..+...|..+...+...|++++
T Consensus       541 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  619 (899)
T TIGR02917       541 GLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDLNK  619 (899)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHH
Confidence            55555555566665555555443 3344455555556666666666666665554   2245556666666666666666


Q ss_pred             HHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhh
Q 048090          171 GLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLA  250 (447)
Q Consensus       171 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  250 (447)
                      |...|+++.+.. +.+...+..+..++.+.|++++|...++.+.+.   .+.+...+..++..+...|++++|.++++.+
T Consensus       620 A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  695 (899)
T TIGR02917       620 AVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALEL---KPDNTEAQIGLAQLLLAAKRTESAKKIAKSL  695 (899)
T ss_pred             HHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            666666665543 234445556666666666666666666666654   2334556666666666666666666666655


Q ss_pred             hhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCC
Q 048090          251 GHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLE  330 (447)
Q Consensus       251 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  330 (447)
                      ...    .+.+...+..+...+...|++++|...|+++...+  |+..++..+..++...|++++|.+.++++.+.  .+
T Consensus       696 ~~~----~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~--~~  767 (899)
T TIGR02917       696 QKQ----HPKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKT--HP  767 (899)
T ss_pred             Hhh----CcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CC
Confidence            443    34455666667777777777777777777777643  44456666777777777777777777777654  24


Q ss_pred             CChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHH
Q 048090          331 PGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLS  410 (447)
Q Consensus       331 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~  410 (447)
                      .+...+..+...|...|++++|.+.|+++.+..  |++..++..++..+...|+ .+|...++++++..|.++.++..++
T Consensus       768 ~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~  844 (899)
T TIGR02917       768 NDAVLRTALAELYLAQKDYDKAIKHYRTVVKKA--PDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILDTLG  844 (899)
T ss_pred             CCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHHHHH
Confidence            456677777777777888888888888877765  7777777777777777777 6677777777777777777777777


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCC
Q 048090          411 NLYAKFCMWDEIGQLRELMKEKGL  434 (447)
Q Consensus       411 ~~~~~~g~~~~A~~~~~~m~~~~~  434 (447)
                      .++.+.|++++|.+.++++.+.+.
T Consensus       845 ~~~~~~g~~~~A~~~~~~a~~~~~  868 (899)
T TIGR02917       845 WLLVEKGEADRALPLLRKAVNIAP  868 (899)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhCC
Confidence            778888888888888888877543

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=1.9e-28  Score=249.55  Aligned_cols=395  Identities=11%  Similarity=0.004  Sum_probs=349.5

Q ss_pred             HHHhhhhhhhhhcccccCCcchHHHhhccCC---CCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHH
Q 048090           17 IIFQSRLMLPYTTCRHKKNLGTLTNCLKFLN---PRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSL   93 (447)
Q Consensus        17 ~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll   93 (447)
                      ..++..+...+.+.|   ++++|...|+.+.   +.+..++..+...+.+.|++++|...++++.+.+ +.+...+..+.
T Consensus       499 ~~~~~~la~~~~~~g---~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~  574 (899)
T TIGR02917       499 FPAAANLARIDIQEG---NPDDAIQRFEKVLTIDPKNLRAILALAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALA  574 (899)
T ss_pred             HHHHHHHHHHHHHCC---CHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHH
Confidence            556677778888777   5999999998864   4567789999999999999999999999998764 34667788899


Q ss_pred             HHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCC---CCchhhHHHHHHHHHhcCCHHH
Q 048090           94 TASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIP---VKNSVCANALLSGYCEAKLWAG  170 (447)
Q Consensus        94 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~  170 (447)
                      ..+...|++++|..+++.+.+.. +.+..+|..+..++...|++++|...|+++.   ..+...+..+...+...|++++
T Consensus       575 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  653 (899)
T TIGR02917       575 QYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQPDSALALLLLADAYAVMKNYAK  653 (899)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHH
Confidence            99999999999999999998764 6678899999999999999999999998875   3367788999999999999999


Q ss_pred             HHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhh
Q 048090          171 GLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLA  250 (447)
Q Consensus       171 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  250 (447)
                      |...++++.+.. +.+..++..+...+...|++++|.++++.+...   .+.+...+..+...+...|++++|.+.|+.+
T Consensus       654 A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~  729 (899)
T TIGR02917       654 AITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQ---HPKAALGFELEGDLYLRQKDYPAAIQAYRKA  729 (899)
T ss_pred             HHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh---CcCChHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            999999998764 446778899999999999999999999999887   3557788889999999999999999999977


Q ss_pred             hhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCC
Q 048090          251 GHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLE  330 (447)
Q Consensus       251 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  330 (447)
                      ...     .|+..++..++.++.+.|++++|.+.++++.+.. +.+...+..+...|...|++++|..+|+++.+.  .+
T Consensus       730 ~~~-----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~p  801 (899)
T TIGR02917       730 LKR-----APSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKK--AP  801 (899)
T ss_pred             Hhh-----CCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHh--CC
Confidence            653     4555778889999999999999999999998864 447888999999999999999999999999875  25


Q ss_pred             CChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHH
Q 048090          331 PGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLS  410 (447)
Q Consensus       331 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~  410 (447)
                      ++...+..+...+...|+ ++|+.+++++....  |++..++..++.++...|++++|...++++++.+|.++.++..++
T Consensus       802 ~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~l~  878 (899)
T TIGR02917       802 DNAVVLNNLAWLYLELKD-PRALEYAEKALKLA--PNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPEAAAIRYHLA  878 (899)
T ss_pred             CCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhC--CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCChHHHHHHH
Confidence            568889999999999999 88999999999875  888888999999999999999999999999999999999999999


Q ss_pred             HHHHhcCChHHHHHHHHHHHH
Q 048090          411 NLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       411 ~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      .++.+.|++++|.+++++|++
T Consensus       879 ~~~~~~g~~~~A~~~~~~~~~  899 (899)
T TIGR02917       879 LALLATGRKAEARKELDKLLN  899 (899)
T ss_pred             HHHHHcCCHHHHHHHHHHHhC
Confidence            999999999999999999863

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

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

Probab=99.95  E-value=1.9e-24  Score=190.02  Aligned_cols=402  Identities=15%  Similarity=0.084  Sum_probs=326.0

Q ss_pred             HHHhhhhhhhhhcccccCCcchHHHhhccCC---CCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHH-
Q 048090           17 IIFQSRLMLPYTTCRHKKNLGTLTNCLKFLN---PRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSS-   92 (447)
Q Consensus        17 ~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l-   92 (447)
                      ..+|+.+.+.+...|   ++++|+.+++.+.   +..+..|..+..++...|+.+.|.+.|....+.  .|+.....+- 
T Consensus       116 ae~ysn~aN~~kerg---~~~~al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~l  190 (966)
T KOG4626|consen  116 AEAYSNLANILKERG---QLQDALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDL  190 (966)
T ss_pred             HHHHHHHHHHHHHhc---hHHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--Ccchhhhhcch
Confidence            456777777777776   5999999998764   456788999999999999999999999988874  5655443332 


Q ss_pred             HHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCCCCc---hhhHHHHHHHHHhcCCHH
Q 048090           93 LTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKN---SVCANALLSGYCEAKLWA  169 (447)
Q Consensus        93 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~  169 (447)
                      -..+...|++.+|...|.+.++.. +-=...|..|...+..+|++..|+..|++...-|   ...|-.|...|...+.++
T Consensus       191 gnLlka~Grl~ea~~cYlkAi~~q-p~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d  269 (966)
T KOG4626|consen  191 GNLLKAEGRLEEAKACYLKAIETQ-PCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFD  269 (966)
T ss_pred             hHHHHhhcccchhHHHHHHHHhhC-CceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcch
Confidence            233445789999999999888753 3335578888888999999999999999877443   567888999999999999


Q ss_pred             HHHHHHHhhhhcCCCC-cHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHH
Q 048090          170 GGLELVRLMPALGLDY-DHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFN  248 (447)
Q Consensus       170 ~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  248 (447)
                      +|...|.+....  .| ....+..+...|...|.++.|+..|++.+...|   .-...|+.|..++-..|++.+|++.++
T Consensus       270 ~Avs~Y~rAl~l--rpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P---~F~~Ay~NlanALkd~G~V~ea~~cYn  344 (966)
T KOG4626|consen  270 RAVSCYLRALNL--RPNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQP---NFPDAYNNLANALKDKGSVTEAVDCYN  344 (966)
T ss_pred             HHHHHHHHHHhc--CCcchhhccceEEEEeccccHHHHHHHHHHHHhcCC---CchHHHhHHHHHHHhccchHHHHHHHH
Confidence            999999888765  44 456777888888899999999999999998733   346789999999999999999999999


Q ss_pred             hhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHHHHhc
Q 048090          249 LAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPD-EVAFVTVISACSHTGQVKLGIEYFEWMVHDY  327 (447)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  327 (447)
                      +....    .+....+.+.+...|...|.+++|..+|....+  +.|. ...++.|...|-.+|++++|+..+++.+   
T Consensus       345 kaL~l----~p~hadam~NLgni~~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykeal---  415 (966)
T KOG4626|consen  345 KALRL----CPNHADAMNNLGNIYREQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEAL---  415 (966)
T ss_pred             HHHHh----CCccHHHHHHHHHHHHHhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHH---
Confidence            87665    555677889999999999999999999999888  5554 4678889999999999999999999998   


Q ss_pred             CCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHH
Q 048090          328 KLEPG-PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIY  406 (447)
Q Consensus       328 ~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  406 (447)
                      .++|+ ...|+.+...|-..|+.+.|.+.+.+.+..+  |.-..+++.|...|...|++.+|++.|+.++++.|+.+.+|
T Consensus       416 rI~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~n--Pt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA~  493 (966)
T KOG4626|consen  416 RIKPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQIN--PTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDAY  493 (966)
T ss_pred             hcCchHHHHHHhcchHHHHhhhHHHHHHHHHHHHhcC--cHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchhh
Confidence            57888 7889999999999999999999999999877  88888899999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCCh-------HHHHHHHHHHHHcCCCCCCcc
Q 048090          407 VMLSNLYAKFCMW-------DEIGQLRELMKEKGLKKDVGC  440 (447)
Q Consensus       407 ~~l~~~~~~~g~~-------~~A~~~~~~m~~~~~~p~~~~  440 (447)
                      ..++.++--..+|       ++..++.++-.....-|.++-
T Consensus       494 cNllh~lq~vcdw~D~d~~~~kl~sivrdql~~~rlpsvhP  534 (966)
T KOG4626|consen  494 CNLLHCLQIVCDWTDYDKRMKKLVSIVRDQLEKNRLPSVHP  534 (966)
T ss_pred             hHHHHHHHHHhcccchHHHHHHHHHHHHHHHhhhcCCccCc
Confidence            8888776443333       333344444444445555543

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

Probab=99.94  E-value=8.8e-24  Score=185.89  Aligned_cols=367  Identities=13%  Similarity=0.056  Sum_probs=317.4

Q ss_pred             ccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhH-HHHHHH
Q 048090           52 LPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVG-SALIDL  130 (447)
Q Consensus        52 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~  130 (447)
                      .+|..+...+-..|++.+|+..++.+.+... -....|..+..++...|+.+.|.+.|.+.++.  .|+.... ..+...
T Consensus       117 e~ysn~aN~~kerg~~~~al~~y~~aiel~p-~fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~lgnL  193 (966)
T KOG4626|consen  117 EAYSNLANILKERGQLQDALALYRAAIELKP-KFIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDLGNL  193 (966)
T ss_pred             HHHHHHHHHHHHhchHHHHHHHHHHHHhcCc-hhhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--CcchhhhhcchhHH
Confidence            4578888899999999999999999998632 25688999999999999999999999999884  5665543 334455


Q ss_pred             HHccCChhhHHHHhccCC--CC-chhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCc-HhhHHHHHHHHhcCCcHHHH
Q 048090          131 YAKLLLIHDAELMFDEIP--VK-NSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYD-HFTLSALLRACAGLSAAEFG  206 (447)
Q Consensus       131 ~~~~g~~~~a~~~~~~~~--~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a  206 (447)
                      ....|++++|...+.+..  .| =...|..|...+-.+|+...|+..|++..+.  .|+ ...|..|...|...+.++.|
T Consensus       194 lka~Grl~ea~~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~ke~~~~d~A  271 (966)
T KOG4626|consen  194 LKAEGRLEEAKACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYKEARIFDRA  271 (966)
T ss_pred             HHhhcccchhHHHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHHHHhcchHH
Confidence            667899999988887655  33 3567999999999999999999999999875  454 45789999999999999999


Q ss_pred             HHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHH
Q 048090          207 RQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYE  286 (447)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  286 (447)
                      ...|.+.....   +....++..+...|...|.+|.|++.+++..+.    .|.-...|+.|..++-..|++.+|.+.|.
T Consensus       272 vs~Y~rAl~lr---pn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~----~P~F~~Ay~NlanALkd~G~V~ea~~cYn  344 (966)
T KOG4626|consen  272 VSCYLRALNLR---PNHAVAHGNLACIYYEQGLLDLAIDTYKRALEL----QPNFPDAYNNLANALKDKGSVTEAVDCYN  344 (966)
T ss_pred             HHHHHHHHhcC---CcchhhccceEEEEeccccHHHHHHHHHHHHhc----CCCchHHHhHHHHHHHhccchHHHHHHHH
Confidence            99999998862   336778888999999999999999999988775    44557889999999999999999999999


Q ss_pred             HHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCC
Q 048090          287 AMLMNGTKP-DEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG-PEHYSCLVDLLCRAGELDKAWKLINEMLDRGH  364 (447)
Q Consensus       287 ~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  364 (447)
                      +....  .| -....+.|...+...|.++.|..+|....+   +.|. ....+.|...|-..|++++|+..+++.++.. 
T Consensus       345 kaL~l--~p~hadam~NLgni~~E~~~~e~A~~ly~~al~---v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~-  418 (966)
T KOG4626|consen  345 KALRL--CPNHADAMNNLGNIYREQGKIEEATRLYLKALE---VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIK-  418 (966)
T ss_pred             HHHHh--CCccHHHHHHHHHHHHHhccchHHHHHHHHHHh---hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcC-
Confidence            99885  44 467888999999999999999999999884   4665 6778999999999999999999999999865 


Q ss_pred             CCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCCc
Q 048090          365 GSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDVG  439 (447)
Q Consensus       365 ~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~  439 (447)
                       |.-..+++.++..|-..|+.+.|.+.+.+++..+|.-..+++.|+..|..+|+..+|++-++...+  ++||..
T Consensus       419 -P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLk--lkPDfp  490 (966)
T KOG4626|consen  419 -PTFADALSNMGNTYKEMGDVSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALK--LKPDFP  490 (966)
T ss_pred             -chHHHHHHhcchHHHHhhhHHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHc--cCCCCc
Confidence             988899999999999999999999999999999999999999999999999999999999999886  667653

>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=99.93  E-value=1.2e-21  Score=188.66  Aligned_cols=363  Identities=14%  Similarity=0.000  Sum_probs=275.9

Q ss_pred             HHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHcc
Q 048090           55 NVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKL  134 (447)
Q Consensus        55 ~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  134 (447)
                      ......+.+.|++++|+..|++..+  ..|+...|..+..++.+.|++++|.+.++..++.. +.+...+..+..+|...
T Consensus       131 k~~G~~~~~~~~~~~Ai~~y~~al~--~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~l  207 (615)
T TIGR00990       131 KEKGNKAYRNKDFNKAIKLYSKAIE--CKPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDGL  207 (615)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHh--cCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHc
Confidence            3455667777888888888887766  35666777777777777888888888888877753 33455677777777788


Q ss_pred             CChhhHHHHhccCC---------------------------------CCchhhHHHH-----------------------
Q 048090          135 LLIHDAELMFDEIP---------------------------------VKNSVCANAL-----------------------  158 (447)
Q Consensus       135 g~~~~a~~~~~~~~---------------------------------~~~~~~~~~l-----------------------  158 (447)
                      |++++|+..|....                                 .++...+..+                       
T Consensus       208 g~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  287 (615)
T TIGR00990       208 GKYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNELD  287 (615)
T ss_pred             CCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhcccccc
Confidence            88777765442211                                 0000000000                       


Q ss_pred             -------HHHH------HhcCCHHHHHHHHHhhhhcC-CCC-cHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCC
Q 048090          159 -------LSGY------CEAKLWAGGLELVRLMPALG-LDY-DHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGND  223 (447)
Q Consensus       159 -------~~~~------~~~~~~~~a~~~~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  223 (447)
                             +...      ...+++++|.+.|++..+.+ ..| ....+..+...+...|++++|...++..+...   +..
T Consensus       288 ~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~---P~~  364 (615)
T TIGR00990       288 EETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD---PRV  364 (615)
T ss_pred             cccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC---CCc
Confidence                   0000      12357889999999988764 223 44567777888889999999999999999863   234


Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 048090          224 VFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTV  303 (447)
Q Consensus       224 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  303 (447)
                      ...|..+...+...|++++|...|+++...    .+.+...|..+...+...|++++|...|++..+.. +.+...+..+
T Consensus       365 ~~~~~~la~~~~~~g~~~eA~~~~~~al~~----~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~l  439 (615)
T TIGR00990       365 TQSYIKRASMNLELGDPDKAEEDFDKALKL----NSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQL  439 (615)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHh----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHH
Confidence            668888999999999999999999987664    45567889999999999999999999999999864 2356777788


Q ss_pred             HHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHh-------HHHHH
Q 048090          304 ISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSM-------WGALL  376 (447)
Q Consensus       304 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~-------~~~l~  376 (447)
                      ..++.+.|++++|+..|++..+.  .+.+...++.+...+...|++++|...|++.+...  |.....       ++..+
T Consensus       440 a~~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~--p~~~~~~~~~~~l~~~a~  515 (615)
T TIGR00990       440 GVTQYKEGSIASSMATFRRCKKN--FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELE--KETKPMYMNVLPLINKAL  515 (615)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcC--CccccccccHHHHHHHHH
Confidence            88999999999999999999864  23357889999999999999999999999998775  432221       12222


Q ss_pred             HHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 048090          377 SACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       377 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  432 (447)
                      ..+...|++++|...++++++.+|.+..++..++.++.+.|++++|++.|++..+.
T Consensus       516 ~~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l  571 (615)
T TIGR00990       516 ALFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALKLFERAAEL  571 (615)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            33344699999999999999999999999999999999999999999999998763

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.93  E-value=2.7e-21  Score=185.72  Aligned_cols=353  Identities=11%  Similarity=-0.032  Sum_probs=282.1

Q ss_pred             CcchHHHhhccCCC------CCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHH
Q 048090           35 NLGTLTNCLKFLNP------RNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQV  108 (447)
Q Consensus        35 ~~~~A~~~~~~~~~------~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~  108 (447)
                      +|+...-.|...++      .+..-...++..+.+.|++++|..+++........ +...+..++.++...|+++.|.+.
T Consensus        20 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~-~~~~l~~l~~~~l~~g~~~~A~~~   98 (656)
T PRK15174         20 DWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKN-GRDLLRRWVISPLASSQPDAVLQV   98 (656)
T ss_pred             chhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCC-chhHHHHHhhhHhhcCCHHHHHHH
Confidence            46666666665542      23344566778889999999999999999887433 345566666777789999999999


Q ss_pred             HHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCCC---CchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCC
Q 048090          109 QAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPV---KNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDY  185 (447)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  185 (447)
                      ++++.+.. |.+...+..+...+...|++++|...|++...   .+...+..+...+...|++++|...++.+..... .
T Consensus        99 l~~~l~~~-P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P-~  176 (656)
T PRK15174         99 VNKLLAVN-VCQPEDVLLVASVLLKSKQYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLARTQAQEVP-P  176 (656)
T ss_pred             HHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCC-C
Confidence            99999874 55677888888999999999999999988763   3577888899999999999999999998876532 2


Q ss_pred             cHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhH
Q 048090          186 DHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLW  265 (447)
Q Consensus       186 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  265 (447)
                      +...+..+ ..+...|++++|...++.+++.  ...++......+..++...|++++|...++++...    .+.+...+
T Consensus       177 ~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~--~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~----~p~~~~~~  249 (656)
T PRK15174        177 RGDMIATC-LSFLNKSRLPEDHDLARALLPF--FALERQESAGLAVDTLCAVGKYQEAIQTGESALAR----GLDGAALR  249 (656)
T ss_pred             CHHHHHHH-HHHHHcCCHHHHHHHHHHHHhc--CCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhc----CCCCHHHH
Confidence            33333333 3477889999999999998876  22233444556677889999999999999977664    45567788


Q ss_pred             HHHHHHHHhcCCHHH----HHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHH
Q 048090          266 TSMLGVYGRNGYFKE----VIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG-PEHYSCLV  340 (447)
Q Consensus       266 ~~l~~~~~~~g~~~~----a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~  340 (447)
                      ..+...+...|++++    |...|++..+.. +.+...+..+...+...|++++|...++++...   .|+ ...+..+.
T Consensus       250 ~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l---~P~~~~a~~~La  325 (656)
T PRK15174        250 RSLGLAYYQSGRSREAKLQAAEHWRHALQFN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLAT---HPDLPYVRAMYA  325 (656)
T ss_pred             HHHHHHHHHcCCchhhHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHH
Confidence            889999999999986    899999998853 235678889999999999999999999999864   454 66778888


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCch
Q 048090          341 DLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNV  403 (447)
Q Consensus       341 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  403 (447)
                      .++.+.|++++|...++++...+  |.+...+..++.++...|++++|...++++++..|.+.
T Consensus       326 ~~l~~~G~~~eA~~~l~~al~~~--P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~~~  386 (656)
T PRK15174        326 RALRQVGQYTAASDEFVQLAREK--GVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARASHL  386 (656)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC--ccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChhhc
Confidence            99999999999999999999876  77666566678889999999999999999999987743

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.92  E-value=1.4e-21  Score=200.40  Aligned_cols=381  Identities=9%  Similarity=0.018  Sum_probs=244.3

Q ss_pred             CCcchHHHhhccCC---CCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCC-chhhH------------HHHHHHhc
Q 048090           34 KNLGTLTNCLKFLN---PRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFL-DTYAL------------CSSLTAST   97 (447)
Q Consensus        34 ~~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~------------~~ll~~~~   97 (447)
                      |++++|...|++..   +.++..+..+..++.+.|++++|...|++..+..... ....+            ......+.
T Consensus       283 g~~~~A~~~l~~aL~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~  362 (1157)
T PRK11447        283 GQGGKAIPELQQAVRANPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAAL  362 (1157)
T ss_pred             CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHH
Confidence            36888888887653   4567778888888889999999999998887753221 11111            11233566


Q ss_pred             cCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCCC---CchhhHHHHHHHHHhcCCHHHHHHH
Q 048090           98 SVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPV---KNSVCANALLSGYCEAKLWAGGLEL  174 (447)
Q Consensus        98 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~  174 (447)
                      +.|++++|...++++++.. +.+...+..+..++...|++++|++.|++...   .+...+..+...|. .++.++|..+
T Consensus       363 ~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~a~~~L~~l~~-~~~~~~A~~~  440 (1157)
T PRK11447        363 KANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNAVRGLANLYR-QQSPEKALAF  440 (1157)
T ss_pred             HCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH-hcCHHHHHHH
Confidence            7888999999999888864 44566777788888888999999988888762   24455556666553 4567777777


Q ss_pred             HHhhhhcCCC--------CcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHH
Q 048090          175 VRLMPALGLD--------YDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQV  246 (447)
Q Consensus       175 ~~~~~~~~~~--------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  246 (447)
                      ++.+......        .....+..+...+...|++++|.+.+++.++..   +.+...+..+...|.+.|++++|...
T Consensus       441 l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~---P~~~~~~~~LA~~~~~~G~~~~A~~~  517 (1157)
T PRK11447        441 IASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD---PGSVWLTYRLAQDLRQAGQRSQADAL  517 (1157)
T ss_pred             HHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            7665432100        001223445566677788888888888888763   23566777788888888888888888


Q ss_pred             HHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH---------HHHHHHHHHhccCcHHHHH
Q 048090          247 FNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEV---------AFVTVISACSHTGQVKLGI  317 (447)
Q Consensus       247 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~---------~~~~ll~~~~~~~~~~~a~  317 (447)
                      ++++...    .+.+...+..+...+...++.++|...++.+......++..         .+..+...+...|+.++|.
T Consensus       518 l~~al~~----~P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~  593 (1157)
T PRK11447        518 MRRLAQQ----KPNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAE  593 (1157)
T ss_pred             HHHHHHc----CCCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHH
Confidence            8866543    33344445445555566777777777776653322111111         1223344555666666666


Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhh
Q 048090          318 EYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALE  397 (447)
Q Consensus       318 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  397 (447)
                      .+++.      .+.+...+..+...+.+.|++++|+..|++.++..  |++..++..++..+...|++++|...++++.+
T Consensus       594 ~~l~~------~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~--P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~  665 (1157)
T PRK11447        594 ALLRQ------QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTRE--PGNADARLGLIEVDIAQGDLAAARAQLAKLPA  665 (1157)
T ss_pred             HHHHh------CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhc
Confidence            66551      13344455556666666666666666666666654  66666666666666666666666666666666


Q ss_pred             hCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          398 LDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       398 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      ..|++..++..++.++...|++++|.++++++..
T Consensus       666 ~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~  699 (1157)
T PRK11447        666 TANDSLNTQRRVALAWAALGDTAAAQRTFNRLIP  699 (1157)
T ss_pred             cCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhh
Confidence            6666666666666666666666666666666654

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.92  E-value=4.7e-21  Score=196.44  Aligned_cols=400  Identities=10%  Similarity=0.001  Sum_probs=313.6

Q ss_pred             hHHHhhhhhhhhhcccccCCcchHHHhhccCCC--CCC---ccHHH------------HHHHHHhCCChhhHHHHHHHHH
Q 048090           16 LIIFQSRLMLPYTTCRHKKNLGTLTNCLKFLNP--RNP---LPFNV------------VISDFCRNGSPLYALKTFSFMH   78 (447)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~~--~~~---~~~~~------------l~~~~~~~~~~~~a~~~~~~m~   78 (447)
                      |..++..|...|.+.|   +.++|...|++...  |+.   ..|..            ....+.+.|++++|...|++..
T Consensus       302 ~~~a~~~Lg~~~~~~g---~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al  378 (1157)
T PRK11447        302 DSEALGALGQAYSQQG---DRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAALKANNLAQAERLYQQAR  378 (1157)
T ss_pred             CHHHHHHHHHHHHHcC---CHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            4677888888888887   59999999987643  221   12222            2346778999999999999999


Q ss_pred             hcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCCCCc-------
Q 048090           79 VHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKN-------  151 (447)
Q Consensus        79 ~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-------  151 (447)
                      +.. +.+...+..+...+...|++++|.+.|+++++.. +.+...+..+...+. .++.++|..+++.+....       
T Consensus       379 ~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l~~-~~~~~~A~~~l~~l~~~~~~~~~~~  455 (1157)
T PRK11447        379 QVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANLYR-QQSPEKALAFIASLSASQRRSIDDI  455 (1157)
T ss_pred             HhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH-hcCHHHHHHHHHhCCHHHHHHHHHH
Confidence            864 3356677788889999999999999999999864 445566777777774 467899999998876321       


Q ss_pred             -----hhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhH
Q 048090          152 -----SVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFM  226 (447)
Q Consensus       152 -----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  226 (447)
                           ...+..+...+...|++++|++.|++..+.. +-+...+..+...+.+.|++++|...++++.+..   +.+...
T Consensus       456 ~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~---P~~~~~  531 (1157)
T PRK11447        456 ERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQK---PNDPEQ  531 (1157)
T ss_pred             HHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC---CCCHHH
Confidence                 2235566778889999999999999998864 3356677788889999999999999999998863   335556


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcch---------hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH
Q 048090          227 QSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDV---------VLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDE  297 (447)
Q Consensus       227 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~---------~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~  297 (447)
                      +..+...+...++.++|...++.+...   ...++.         ..+......+...|+.++|..+++.     .+++.
T Consensus       532 ~~a~al~l~~~~~~~~Al~~l~~l~~~---~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~-----~p~~~  603 (1157)
T PRK11447        532 VYAYGLYLSGSDRDRAALAHLNTLPRA---QWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQ-----QPPST  603 (1157)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHhCCch---hcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHh-----CCCCc
Confidence            666666778899999999999865321   111111         1123456778899999999999882     24456


Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHH
Q 048090          298 VAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLS  377 (447)
Q Consensus       298 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~  377 (447)
                      ..+..+...+.+.|++++|+..|+++.+.  -+.+...+..++..|...|++++|++.++.+....  |++..++..+..
T Consensus       604 ~~~~~La~~~~~~g~~~~A~~~y~~al~~--~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~--p~~~~~~~~la~  679 (1157)
T PRK11447        604 RIDLTLADWAQQRGDYAAARAAYQRVLTR--EPGNADARLGLIEVDIAQGDLAAARAQLAKLPATA--NDSLNTQRRVAL  679 (1157)
T ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC--CCChHHHHHHHH
Confidence            67778888999999999999999999865  23358889999999999999999999999988765  888888899999


Q ss_pred             HHHhcCCccHHHHHHHHHhhhCCCch------hHHHHHHHHHHhcCChHHHHHHHHHHHH-cCCCCC
Q 048090          378 ACHDCGKFELGKLAAQKALELDPHNV------GIYVMLSNLYAKFCMWDEIGQLRELMKE-KGLKKD  437 (447)
Q Consensus       378 ~~~~~g~~~~a~~~~~~~~~~~~~~~------~~~~~l~~~~~~~g~~~~A~~~~~~m~~-~~~~p~  437 (447)
                      ++...|++++|.++++++++..|+++      .++..++..+...|++++|++.|++... .|+.|+
T Consensus       680 ~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~~~~~~~~  746 (1157)
T PRK11447        680 AWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMVASGITPT  746 (1157)
T ss_pred             HHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcCCCCC
Confidence            99999999999999999998765432      4667778899999999999999998864 456554

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.92  E-value=7.1e-22  Score=181.10  Aligned_cols=296  Identities=12%  Similarity=0.006  Sum_probs=200.1

Q ss_pred             HHccCChhhHHHHhccCCC---CchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCc---HhhHHHHHHHHhcCCcHH
Q 048090          131 YAKLLLIHDAELMFDEIPV---KNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYD---HFTLSALLRACAGLSAAE  204 (447)
Q Consensus       131 ~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~  204 (447)
                      +...|++++|...|+++..   .+..++..+...+...|++++|..+++.+...+..++   ...+..+...+.+.|+++
T Consensus        45 ~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~  124 (389)
T PRK11788         45 FLLNEQPDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLD  124 (389)
T ss_pred             HHhcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHH
Confidence            3445555555555555542   1334556666666666666666666666655321111   134556666666777777


Q ss_pred             HHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcc----hhhHHHHHHHHHhcCCHHH
Q 048090          205 FGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKD----VVLWTSMLGVYGRNGYFKE  280 (447)
Q Consensus       205 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~  280 (447)
                      .|..+|+.+.+.   .+.+..++..++..+.+.|++++|.+.++.+...   +..+.    ...+..+...+.+.|++++
T Consensus       125 ~A~~~~~~~l~~---~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~~~~~~~~~la~~~~~~~~~~~  198 (389)
T PRK11788        125 RAEELFLQLVDE---GDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKL---GGDSLRVEIAHFYCELAQQALARGDLDA  198 (389)
T ss_pred             HHHHHHHHHHcC---CcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHh---cCCcchHHHHHHHHHHHHHHHhCCCHHH
Confidence            777777776654   2335566677777777777777777777755442   11111    1234556667778888888


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC--hhhHHHHHHHHHHcCCHHHHHHHHHH
Q 048090          281 VIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG--PEHYSCLVDLLCRAGELDKAWKLINE  358 (447)
Q Consensus       281 a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~  358 (447)
                      |...|+++.+.. +.+...+..+...+.+.|++++|.++++++...   .|+  ..++..++.+|...|++++|...+++
T Consensus       199 A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~---~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~  274 (389)
T PRK11788        199 ARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQ---DPEYLSEVLPKLMECYQALGDEAEGLEFLRR  274 (389)
T ss_pred             HHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH---ChhhHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            888888887653 224556777778888888888888888888754   333  45677888888899999999999998


Q ss_pred             HHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHh---cCChHHHHHHHHHHHHcCCC
Q 048090          359 MLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAK---FCMWDEIGQLRELMKEKGLK  435 (447)
Q Consensus       359 ~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~---~g~~~~A~~~~~~m~~~~~~  435 (447)
                      +.+..  |+.. .+..++..+.+.|++++|..+++++++..|++. .+..++..+..   .|+.++++.++++|.+.++.
T Consensus       275 ~~~~~--p~~~-~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~-~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~  350 (389)
T PRK11788        275 ALEEY--PGAD-LLLALAQLLEEQEGPEAAQALLREQLRRHPSLR-GFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLK  350 (389)
T ss_pred             HHHhC--CCch-HHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHH-HHHHHHHHhhhccCCccchhHHHHHHHHHHHHHh
Confidence            88775  6544 458888888899999999999998888887766 44445545443   55888899999999888888


Q ss_pred             CCCcc
Q 048090          436 KDVGC  440 (447)
Q Consensus       436 p~~~~  440 (447)
                      |++..
T Consensus       351 ~~p~~  355 (389)
T PRK11788        351 RKPRY  355 (389)
T ss_pred             CCCCE
Confidence            88754

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.92  E-value=1.6e-21  Score=178.80  Aligned_cols=297  Identities=15%  Similarity=0.063  Sum_probs=164.6

Q ss_pred             HHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhH
Q 048090           61 FCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDA  140 (447)
Q Consensus        61 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  140 (447)
                      +...|++++|...|+++.+.+ +.+..++..+...+...|++++|..+++.+...+..++..                  
T Consensus        45 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~------------------  105 (389)
T PRK11788         45 FLLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQ------------------  105 (389)
T ss_pred             HHhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHH------------------
Confidence            344556666666666665542 1233445555555555566666666555555432111000                  


Q ss_pred             HHHhccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcC
Q 048090          141 ELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNL  220 (447)
Q Consensus       141 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  220 (447)
                                ....+..+...|.+.|++++|..+|+++.+.. +++..++..++..+.+.|++++|.+.++.+.+..+..
T Consensus       106 ----------~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~  174 (389)
T PRK11788        106 ----------RLLALQELGQDYLKAGLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDS  174 (389)
T ss_pred             ----------HHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCc
Confidence                      01234455555556666666666666655432 2344455556666666666666666666665542110


Q ss_pred             CC--ChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH
Q 048090          221 GN--DVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEV  298 (447)
Q Consensus       221 ~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  298 (447)
                      ..  ....+..+...+.+.|++++|...|+++...    .+.+...+..+...+.+.|++++|.++++++.+.+......
T Consensus       175 ~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~----~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~  250 (389)
T PRK11788        175 LRVEIAHFYCELAQQALARGDLDAARALLKKALAA----DPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSE  250 (389)
T ss_pred             chHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhH----CcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHH
Confidence            00  0113344555666666677776666655443    23344556666666677777777777777766543222234


Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHH
Q 048090          299 AFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSA  378 (447)
Q Consensus       299 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~  378 (447)
                      ++..++.+|...|++++|...++++.+.   .|+...+..++..+.+.|++++|..+++++.+..  |++.. +..++..
T Consensus       251 ~~~~l~~~~~~~g~~~~A~~~l~~~~~~---~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~--P~~~~-~~~l~~~  324 (389)
T PRK11788        251 VLPKLMECYQALGDEAEGLEFLRRALEE---YPGADLLLALAQLLEEQEGPEAAQALLREQLRRH--PSLRG-FHRLLDY  324 (389)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhC--cCHHH-HHHHHHH
Confidence            5566666677777777777777766543   4555555666666777777777777777666654  54443 5555554


Q ss_pred             HHh---cCCccHHHHHHHHHhh
Q 048090          379 CHD---CGKFELGKLAAQKALE  397 (447)
Q Consensus       379 ~~~---~g~~~~a~~~~~~~~~  397 (447)
                      +..   .|+.+++..+++++++
T Consensus       325 ~~~~~~~g~~~~a~~~~~~~~~  346 (389)
T PRK11788        325 HLAEAEEGRAKESLLLLRDLVG  346 (389)
T ss_pred             hhhccCCccchhHHHHHHHHHH
Confidence            443   3466666666666665

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.91  E-value=9.9e-21  Score=181.85  Aligned_cols=331  Identities=9%  Similarity=-0.053  Sum_probs=274.8

Q ss_pred             hhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCC---CCchhhHHHHHHHHH
Q 048090           87 YALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIP---VKNSVCANALLSGYC  163 (447)
Q Consensus        87 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~l~~~~~  163 (447)
                      .-...++..+.+.|+++.|..+++..+... +-+...+..++.+....|++++|...|+++.   +.+...+..+...+.
T Consensus        43 ~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~-p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P~~~~a~~~la~~l~  121 (656)
T PRK15174         43 QNIILFAIACLRKDETDVGLTLLSDRVLTA-KNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVNVCQPEDVLLVASVLL  121 (656)
T ss_pred             cCHHHHHHHHHhcCCcchhHHHhHHHHHhC-CCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHH
Confidence            345667778889999999999999999875 4445556666677778999999999999986   235677888999999


Q ss_pred             hcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHH
Q 048090          164 EAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKA  243 (447)
Q Consensus       164 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  243 (447)
                      ..|++++|...+++..+.. +.+...+..+..++...|++++|...++.+....|   .+...+..+ ..+...|++++|
T Consensus       122 ~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P---~~~~a~~~~-~~l~~~g~~~eA  196 (656)
T PRK15174        122 KSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQEVP---PRGDMIATC-LSFLNKSRLPED  196 (656)
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCC---CCHHHHHHH-HHHHHcCCHHHH
Confidence            9999999999999998863 34566788889999999999999999998887632   233344333 347889999999


Q ss_pred             HHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHH----HHHH
Q 048090          244 LQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKL----GIEY  319 (447)
Q Consensus       244 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~----a~~~  319 (447)
                      ...++.+...   ...++...+..+..++.+.|++++|+..++++.+.. +.+...+..+...+...|++++    |...
T Consensus       197 ~~~~~~~l~~---~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~  272 (656)
T PRK15174        197 HDLARALLPF---FALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEH  272 (656)
T ss_pred             HHHHHHHHhc---CCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHH
Confidence            9999965443   122334455566788899999999999999999864 3356778888999999999986    8999


Q ss_pred             HHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhh
Q 048090          320 FEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALEL  398 (447)
Q Consensus       320 ~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  398 (447)
                      |+++...   .| +...+..+...+.+.|++++|...+++.....  |++..++..+..++.+.|++++|...++++.+.
T Consensus       273 ~~~Al~l---~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~--P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~  347 (656)
T PRK15174        273 WRHALQF---NSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATH--PDLPYVRAMYARALRQVGQYTAASDEFVQLARE  347 (656)
T ss_pred             HHHHHhh---CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            9999854   45 47788999999999999999999999999876  888988999999999999999999999999999


Q ss_pred             CCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 048090          399 DPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       399 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  432 (447)
                      .|.+...+..++.++...|++++|+..|++..+.
T Consensus       348 ~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~  381 (656)
T PRK15174        348 KGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQA  381 (656)
T ss_pred             CccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            9988877777788999999999999999998764

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.91  E-value=1.2e-20  Score=185.08  Aligned_cols=398  Identities=7%  Similarity=-0.061  Sum_probs=300.9

Q ss_pred             HhhhhhhhhhcccccCCcchHHHhhccCCC---CCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHH
Q 048090           19 FQSRLMLPYTTCRHKKNLGTLTNCLKFLNP---RNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTA   95 (447)
Q Consensus        19 ~~~~l~~~~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~   95 (447)
                      .-+-.+......|   +.++|+.++....+   .+...+..+...+...|++++|.++|++..+.. +.+...+..+...
T Consensus        17 ~~~d~~~ia~~~g---~~~~A~~~~~~~~~~~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~   92 (765)
T PRK10049         17 QIADWLQIALWAG---QDAEVITVYNRYRVHMQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILT   92 (765)
T ss_pred             HHHHHHHHHHHcC---CHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            3344555555566   58899999988654   333458999999999999999999999998863 3346667788888


Q ss_pred             hccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCCC--C-chhhHHHHHHHHHhcCCHHHHH
Q 048090           96 STSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPV--K-NSVCANALLSGYCEAKLWAGGL  172 (447)
Q Consensus        96 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~  172 (447)
                      +...|+.++|...++++++.. +.+.. +..+..++...|+.++|+..+++...  | +...+..+...+...+..+.|+
T Consensus        93 l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la~~l~~~~~~e~Al  170 (765)
T PRK10049         93 LADAGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYVQALRNNRLSAPAL  170 (765)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCChHHHH
Confidence            899999999999999999873 55566 88888999999999999999998863  3 5666677888888999999999


Q ss_pred             HHHHhhhhcCCCCcH------hhHHHHHHHHh-----cCCcH---HHHHHHHHHHHHhhhcCCCChhHH----HHHHHHH
Q 048090          173 ELVRLMPALGLDYDH------FTLSALLRACA-----GLSAA---EFGRQVHAYMIRKCCNLGNDVFMQ----SSLIEMY  234 (447)
Q Consensus       173 ~~~~~~~~~~~~~~~------~~~~~l~~~~~-----~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~----~~l~~~~  234 (447)
                      +.++....   .|+.      .....++....     ..+++   ++|.+.++.+.+..+..+.+...+    ...+..+
T Consensus       171 ~~l~~~~~---~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~L  247 (765)
T PRK10049        171 GAIDDANL---TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGAL  247 (765)
T ss_pred             HHHHhCCC---CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHH
Confidence            99987764   2331      11122222221     22234   778888888886522221111111    1113345


Q ss_pred             HhcCChHHHHHHHHhhhhhcccCC-CcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC---CHHHHHHHHHHHhcc
Q 048090          235 GKCGLVTKALQVFNLAGHRLEGEI-NKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKP---DEVAFVTVISACSHT  310 (447)
Q Consensus       235 ~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p---~~~~~~~ll~~~~~~  310 (447)
                      ...|++++|+..|+.+...   +. .|+. .-..+..+|...|++++|+..|+++.+.....   .......+..++...
T Consensus       248 l~~g~~~eA~~~~~~ll~~---~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~  323 (765)
T PRK10049        248 LARDRYKDVISEYQRLKAE---GQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLES  323 (765)
T ss_pred             HHhhhHHHHHHHHHHhhcc---CCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhc
Confidence            6779999999999976543   21 1221 22225778999999999999999987653211   134566677788999


Q ss_pred             CcHHHHHHHHHHHHHhcC----------CCCC---hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHH
Q 048090          311 GQVKLGIEYFEWMVHDYK----------LEPG---PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLS  377 (447)
Q Consensus       311 ~~~~~a~~~~~~~~~~~~----------~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~  377 (447)
                      |++++|..+++.+.....          -.|+   ...+..+...+...|++++|+++++++....  |.+...+..++.
T Consensus       324 g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~--P~n~~l~~~lA~  401 (765)
T PRK10049        324 ENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA--PGNQGLRIDYAS  401 (765)
T ss_pred             ccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHH
Confidence            999999999999986411          0122   2345567778899999999999999999876  999999999999


Q ss_pred             HHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          378 ACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       378 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      .+...|++++|+..++++++..|++...+..++..+...|++++|+.+++++.+
T Consensus       402 l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~  455 (765)
T PRK10049        402 VLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVA  455 (765)
T ss_pred             HHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999987

>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=99.90  E-value=2e-19  Score=173.41  Aligned_cols=364  Identities=8%  Similarity=-0.097  Sum_probs=281.7

Q ss_pred             hhhhhhhcccccCCcchHHHhhccCC--CCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccC
Q 048090           22 RLMLPYTTCRHKKNLGTLTNCLKFLN--PRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSV   99 (447)
Q Consensus        22 ~l~~~~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~   99 (447)
                      ..-..|.+.|   +++.|+..|++..  .|++..|..+..+|.+.|++++|++.++...+.. +.+...+..+..++...
T Consensus       132 ~~G~~~~~~~---~~~~Ai~~y~~al~~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~l  207 (615)
T TIGR00990       132 EKGNKAYRNK---DFNKAIKLYSKAIECKPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDGL  207 (615)
T ss_pred             HHHHHHHHcC---CHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHc
Confidence            3444555555   6999999999854  4677889999999999999999999999998864 22566888889999999


Q ss_pred             CchhHHHHHHHHHHHcC-----------------------------CCCchhhHHHHHH---------------------
Q 048090          100 KDARFGKQVQAHVTKSG-----------------------------WLSSVFVGSALID---------------------  129 (447)
Q Consensus       100 ~~~~~a~~~~~~~~~~~-----------------------------~~~~~~~~~~l~~---------------------  129 (447)
                      |++++|...+......+                             .+++...+..+..                     
T Consensus       208 g~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  287 (615)
T TIGR00990       208 GKYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNELD  287 (615)
T ss_pred             CCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhcccccc
Confidence            99999986554432211                             0111001110000                     


Q ss_pred             ---------HH------HccCChhhHHHHhccCCC-----C-chhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHh
Q 048090          130 ---------LY------AKLLLIHDAELMFDEIPV-----K-NSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHF  188 (447)
Q Consensus       130 ---------~~------~~~g~~~~a~~~~~~~~~-----~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  188 (447)
                               ..      ...+++++|.+.|++...     | ....|+.+...+...|++++|+..+++..+.. +....
T Consensus       288 ~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~~  366 (615)
T TIGR00990       288 EETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRVTQ  366 (615)
T ss_pred             cccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHH
Confidence                     00      122567888888877652     2 45568888888999999999999999998763 23356


Q ss_pred             hHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHH
Q 048090          189 TLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSM  268 (447)
Q Consensus       189 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l  268 (447)
                      .|..+...+...|++++|...++.+++..   +.+..++..+...+...|++++|...|++....    .+.+...+..+
T Consensus       367 ~~~~la~~~~~~g~~~eA~~~~~~al~~~---p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l----~P~~~~~~~~l  439 (615)
T TIGR00990       367 SYIKRASMNLELGDPDKAEEDFDKALKLN---SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDL----DPDFIFSHIQL  439 (615)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc----CccCHHHHHHH
Confidence            78888888999999999999999998873   346788999999999999999999999987765    45567788889


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCCh-h-------hHHHHH
Q 048090          269 LGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGP-E-------HYSCLV  340 (447)
Q Consensus       269 ~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~-------~~~~l~  340 (447)
                      ..++.+.|++++|+..|++..+.. +.+...+..+...+...|++++|...|++....   .|+. .       .++...
T Consensus       440 a~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l---~p~~~~~~~~~~~l~~~a~  515 (615)
T TIGR00990       440 GVTQYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIEL---EKETKPMYMNVLPLINKAL  515 (615)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhc---CCccccccccHHHHHHHHH
Confidence            999999999999999999998753 335778888999999999999999999998753   3321 1       112222


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCch
Q 048090          341 DLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNV  403 (447)
Q Consensus       341 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  403 (447)
                      ..+...|++++|.+++++.+..+  |++..++..++..+...|++++|...|+++.++.+...
T Consensus       516 ~~~~~~~~~~eA~~~~~kAl~l~--p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l~~~~~  576 (615)
T TIGR00990       516 ALFQWKQDFIEAENLCEKALIID--PECDIAVATMAQLLLQQGDVDEALKLFERAAELARTEG  576 (615)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhcC--CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHhccHH
Confidence            33445799999999999998876  88888899999999999999999999999999876533

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.89  E-value=4.4e-18  Score=167.49  Aligned_cols=221  Identities=10%  Similarity=0.032  Sum_probs=172.5

Q ss_pred             CcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHH
Q 048090          201 SAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKE  280 (447)
Q Consensus       201 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  280 (447)
                      ++.++|...+.+....    .|+......+...+...|++++|...|+++..     .+|+...+..+..++.+.|+.++
T Consensus       490 ~~~~eAi~a~~~Al~~----~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~-----~~p~~~a~~~la~all~~Gd~~e  560 (987)
T PRK09782        490 TLPGVALYAWLQAEQR----QPDAWQHRAVAYQAYQVEDYATALAAWQKISL-----HDMSNEDLLAAANTAQAAGNGAA  560 (987)
T ss_pred             CCcHHHHHHHHHHHHh----CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhc-----cCCCcHHHHHHHHHHHHCCCHHH
Confidence            4445566655555554    23433333445555678888888888886533     34444556667778888899999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHH
Q 048090          281 VIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEML  360 (447)
Q Consensus       281 a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  360 (447)
                      |...+++..+.. +++...+..+.......|++++|...+++..+.   .|+...|..+..++.+.|++++|+..+++.+
T Consensus       561 A~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l---~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL  636 (987)
T PRK09782        561 RDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNI---APSANAYVARATIYRQRHNVPAAVSDLRAAL  636 (987)
T ss_pred             HHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh---CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            999998888754 223333334444455669999999999999854   6788889999999999999999999999999


Q ss_pred             hCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCC
Q 048090          361 DRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDV  438 (447)
Q Consensus       361 ~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~  438 (447)
                      ...  |++..++..++.++...|++++|...++++++..|.++.++..++.++...|++++|+..+++..+  ..|+.
T Consensus       637 ~l~--Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~--l~P~~  710 (987)
T PRK09782        637 ELE--PNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRLDDMAATQHYARLVID--DIDNQ  710 (987)
T ss_pred             HhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCC
Confidence            987  999999999999999999999999999999999999999999999999999999999999999986  44554

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.88  E-value=5.2e-18  Score=163.69  Aligned_cols=390  Identities=10%  Similarity=0.006  Sum_probs=273.5

Q ss_pred             CCcchHHHhhccCCCCCCc---cHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHH
Q 048090           34 KNLGTLTNCLKFLNPRNPL---PFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQA  110 (447)
Q Consensus        34 ~~~~~A~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  110 (447)
                      |+++.|+..|.+....++.   ....++..+...|+.++|+..+++.... ..........+...+...|++++|.++|+
T Consensus        48 Gd~~~Al~~L~qaL~~~P~~~~av~dll~l~~~~G~~~~A~~~~eka~~p-~n~~~~~llalA~ly~~~gdyd~Aiely~  126 (822)
T PRK14574         48 GDTAPVLDYLQEESKAGPLQSGQVDDWLQIAGWAGRDQEVIDVYERYQSS-MNISSRGLASAARAYRNEKRWDQALALWQ  126 (822)
T ss_pred             CCHHHHHHHHHHHHhhCccchhhHHHHHHHHHHcCCcHHHHHHHHHhccC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            3688888888876543332   1237777777888888888888888721 11222333333556777788888888888


Q ss_pred             HHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCCCCchhhHHHHHHHHHh--cCCHHHHHHHHHhhhhcCCCCcHh
Q 048090          111 HVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCE--AKLWAGGLELVRLMPALGLDYDHF  188 (447)
Q Consensus       111 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~  188 (447)
                      ++.+.. |-++..+..++..+...++.++|++.++++.+.++.....++.++..  .++..+|++.++++.+.. +-+..
T Consensus       127 kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~~-P~n~e  204 (822)
T PRK14574        127 SSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAERDPTVQNYMTLSYLNRATDRNYDALQASSEAVRLA-PTSEE  204 (822)
T ss_pred             HHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcchHHHHHHHHHHHhcchHHHHHHHHHHHHHhC-CCCHH
Confidence            888864 44466667777888888888888888888875443332224344443  455555888888887763 22344


Q ss_pred             hHHHHHHHHhcCCcHH------------------------------------------------HHHHHHHHHHHhhhcC
Q 048090          189 TLSALLRACAGLSAAE------------------------------------------------FGRQVHAYMIRKCCNL  220 (447)
Q Consensus       189 ~~~~l~~~~~~~~~~~------------------------------------------------~a~~~~~~~~~~~~~~  220 (447)
                      .+..+..++.+.|-..                                                .|..-++.+...-+..
T Consensus       205 ~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~~~~~~~  284 (822)
T PRK14574        205 VLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNLLTRWGKD  284 (822)
T ss_pred             HHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHhhccCC
Confidence            4444444444333322                                                2333333333321112


Q ss_pred             CCChh----HHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC---
Q 048090          221 GNDVF----MQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGT---  293 (447)
Q Consensus       221 ~~~~~----~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~---  293 (447)
                      ++...    ...-.+-++...|+..++++.|+.+...   +.+....+-..+..+|...+++++|+.+|+.+.....   
T Consensus       285 p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~---~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~  361 (822)
T PRK14574        285 PEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAE---GYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTF  361 (822)
T ss_pred             CccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhc---CCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhcccccc
Confidence            22211    2223455677889999999999966432   3333445667889999999999999999999876431   


Q ss_pred             --CCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcC----------CCCC---hhhHHHHHHHHHHcCCHHHHHHHHHH
Q 048090          294 --KPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYK----------LEPG---PEHYSCLVDLLCRAGELDKAWKLINE  358 (447)
Q Consensus       294 --~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~----------~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~  358 (447)
                        .++......|.-++..++++++|..+++++.+...          -.|+   ...+..++..+...|++.+|++.+++
T Consensus       362 ~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~  441 (822)
T PRK14574        362 RNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLED  441 (822)
T ss_pred             CCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence              22344457788899999999999999999976311          0122   23345567778899999999999999


Q ss_pred             HHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          359 MLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       359 ~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      +....  |.+......+...+...|.+.+|+..++.+....|.+..+....+.++...|++++|..+.+.+..
T Consensus       442 l~~~a--P~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~  512 (822)
T PRK14574        442 LSSTA--PANQNLRIALASIYLARDLPRKAEQELKAVESLAPRSLILERAQAETAMALQEWHQMELLTDDVIS  512 (822)
T ss_pred             HHHhC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCccHHHHHHHHHHHHhhhhHHHHHHHHHHHHh
Confidence            98877  999999999999999999999999999999999999999999999999999999999988877765

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.88  E-value=2.4e-18  Score=168.96  Aligned_cols=377  Identities=9%  Similarity=-0.046  Sum_probs=285.6

Q ss_pred             HHHhhhhhhhhhcccccCCcchHHHhhcc---CCCCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHH
Q 048090           17 IIFQSRLMLPYTTCRHKKNLGTLTNCLKF---LNPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSL   93 (447)
Q Consensus        17 ~~~~~~l~~~~~~~~~~~~~~~A~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll   93 (447)
                      ...+..+..++.+.|   ++++|..+|++   ..|.++..+..+...+...|++++|+..+++..+.. +.+.. +..+.
T Consensus        49 a~~~~~lA~~~~~~g---~~~~A~~~~~~al~~~P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la  123 (765)
T PRK10049         49 ARGYAAVAVAYRNLK---QWQNSLTLWQKALSLEPQNDDYQRGLILTLADAGQYDEALVKAKQLVSGA-PDKAN-LLALA  123 (765)
T ss_pred             HHHHHHHHHHHHHcC---CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHH
Confidence            456788888888887   59999999998   445667788899999999999999999999998863 33455 87888


Q ss_pred             HHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCCCCchh--------hHHHHHHHHHh-
Q 048090           94 TASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSV--------CANALLSGYCE-  164 (447)
Q Consensus        94 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--------~~~~l~~~~~~-  164 (447)
                      .++...|+.++|...++++.+.. |.+...+..+...+...+..++|++.++.... ++.        ....++..... 
T Consensus       124 ~~l~~~g~~~~Al~~l~~al~~~-P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~-~p~~~~~l~~~~~~~~~r~~~~~  201 (765)
T PRK10049        124 YVYKRAGRHWDELRAMTQALPRA-PQTQQYPTEYVQALRNNRLSAPALGAIDDANL-TPAEKRDLEADAAAELVRLSFMP  201 (765)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCChHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHhhccc
Confidence            88999999999999999999964 44566667788888889999999999988775 211        12222332221 


Q ss_pred             ----cCCH---HHHHHHHHhhhhc-CCCCcHh-hHH----HHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHH
Q 048090          165 ----AKLW---AGGLELVRLMPAL-GLDYDHF-TLS----ALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLI  231 (447)
Q Consensus       165 ----~~~~---~~a~~~~~~~~~~-~~~~~~~-~~~----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~  231 (447)
                          .+++   ++|++.++.+.+. ...|+.. .+.    ..+.++...+++++|...|+.+.+.++.. |+ .....+.
T Consensus       202 ~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~-P~-~a~~~la  279 (765)
T PRK10049        202 TRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQII-PP-WAQRWVA  279 (765)
T ss_pred             ccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCC-CH-HHHHHHH
Confidence                2234   7788888888754 1223221 111    11334567799999999999998872211 22 1223357


Q ss_pred             HHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-----------CCC---H
Q 048090          232 EMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGT-----------KPD---E  297 (447)
Q Consensus       232 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~-----------~p~---~  297 (447)
                      .+|...|++++|+..|+++.................+..++.+.|++++|..+++.+.....           .|+   .
T Consensus       280 ~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~  359 (765)
T PRK10049        280 SAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWL  359 (765)
T ss_pred             HHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHH
Confidence            78999999999999999765421000011134566677788999999999999999987531           123   2


Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHH
Q 048090          298 VAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLS  377 (447)
Q Consensus       298 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~  377 (447)
                      ..+..+...+...|++++|++.++++...  .+.+...+..+...+...|++++|++.+++.+...  |++...+..++.
T Consensus       360 ~a~~~~a~~l~~~g~~~eA~~~l~~al~~--~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~--Pd~~~l~~~~a~  435 (765)
T PRK10049        360 QGQSLLSQVAKYSNDLPQAEMRARELAYN--APGNQGLRIDYASVLQARGWPRAAENELKKAEVLE--PRNINLEVEQAW  435 (765)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhC--CCChHHHHHHHH
Confidence            34556777888999999999999999865  34458888999999999999999999999999877  999999999999


Q ss_pred             HHHhcCCccHHHHHHHHHhhhCCCchhHH
Q 048090          378 ACHDCGKFELGKLAAQKALELDPHNVGIY  406 (447)
Q Consensus       378 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  406 (447)
                      .+...|++++|..+++++++..|+++.+.
T Consensus       436 ~al~~~~~~~A~~~~~~ll~~~Pd~~~~~  464 (765)
T PRK10049        436 TALDLQEWRQMDVLTDDVVAREPQDPGVQ  464 (765)
T ss_pred             HHHHhCCHHHHHHHHHHHHHhCCCCHHHH
Confidence            99999999999999999999999988544

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.85  E-value=1.3e-16  Score=154.02  Aligned_cols=371  Identities=13%  Similarity=-0.010  Sum_probs=279.5

Q ss_pred             HHHHHHhCCChhhHHHHHHHHHhcCCCCch--hhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHcc
Q 048090           57 VISDFCRNGSPLYALKTFSFMHVHGIFLDT--YALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKL  134 (447)
Q Consensus        57 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  134 (447)
                      -+-...+.|++..|++.|++..+.  .|+.  ..+ .++..+...|+.++|+..+++..... +........+...+...
T Consensus        40 ~aii~~r~Gd~~~Al~~L~qaL~~--~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p~-n~~~~~llalA~ly~~~  115 (822)
T PRK14574         40 SLIIRARAGDTAPVLDYLQEESKA--GPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSSM-NISSRGLASAARAYRNE  115 (822)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhh--CccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccCC-CCCHHHHHHHHHHHHHc
Confidence            334457899999999999999886  3443  233 77788888899999999999998211 22233333345688889


Q ss_pred             CChhhHHHHhccCCC--C-chhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHH
Q 048090          135 LLIHDAELMFDEIPV--K-NSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHA  211 (447)
Q Consensus       135 g~~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  211 (447)
                      |++++|+++|+++.+  | ++..+..++..+...++.++|++.++++...  .|+...+..++..+...++..+|.+.++
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 KRWDQALALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASS  193 (822)
T ss_pred             CCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHH
Confidence            999999999999873  2 5667778888999999999999999999876  5666666555555555667767999999


Q ss_pred             HHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhh----------------------------------------
Q 048090          212 YMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAG----------------------------------------  251 (447)
Q Consensus       212 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----------------------------------------  251 (447)
                      ++.+..   +.+...+..+..++.+.|-...|.++..+-.                                        
T Consensus       194 kll~~~---P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~a  270 (822)
T PRK14574        194 EAVRLA---PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKA  270 (822)
T ss_pred             HHHHhC---CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHH
Confidence            999983   3366677777777777776666665554211                                        


Q ss_pred             -----hhcc--cCCCcchhhH----HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHH
Q 048090          252 -----HRLE--GEINKDVVLW----TSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYF  320 (447)
Q Consensus       252 -----~~~~--~~~~~~~~~~----~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~  320 (447)
                           ....  ...|+....|    .-.+-++...|++.++++.|+.+...+......+-..+.++|...+++++|..++
T Consensus       271 la~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~  350 (822)
T PRK14574        271 LADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPIL  350 (822)
T ss_pred             HHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHH
Confidence                 1000  0112221122    2234567788999999999999999887666778889999999999999999999


Q ss_pred             HHHHHhcC----CCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCC-------------CCCchHhHHHHHHHHHhcC
Q 048090          321 EWMVHDYK----LEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGH-------------GSSSVSMWGALLSACHDCG  383 (447)
Q Consensus       321 ~~~~~~~~----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-------------~p~~~~~~~~l~~~~~~~g  383 (447)
                      +.+....+    ..++......|.-+|...+++++|..+++++.+..-             .|+-...+..++..+.-.|
T Consensus       351 ~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~g  430 (822)
T PRK14574        351 SSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALN  430 (822)
T ss_pred             HHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcC
Confidence            99976522    122344457889999999999999999999987321             1222334566788899999


Q ss_pred             CccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCC
Q 048090          384 KFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDV  438 (447)
Q Consensus       384 ~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~  438 (447)
                      ++.+|++.++++....|.|..+...++..+...|++.+|.+.++....  ..|+.
T Consensus       431 dl~~Ae~~le~l~~~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~--l~P~~  483 (822)
T PRK14574        431 DLPTAQKKLEDLSSTAPANQNLRIALASIYLARDLPRKAEQELKAVES--LAPRS  483 (822)
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhh--hCCcc
Confidence            999999999999999999999999999999999999999999977664  45653

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.85  E-value=7.3e-17  Score=159.03  Aligned_cols=388  Identities=10%  Similarity=-0.041  Sum_probs=291.9

Q ss_pred             HhhhhhhhhhcccccCCcchHHHhhccCCCCCCccHHHHHHHH--HhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHh
Q 048090           19 FQSRLMLPYTTCRHKKNLGTLTNCLKFLNPRNPLPFNVVISDF--CRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTAS   96 (447)
Q Consensus        19 ~~~~l~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~   96 (447)
                      +.-.++..+.+.+   +++-|..+.+ ..+.++.   ..++..  ...+...++...+..|-+.. +-+......+--..
T Consensus       315 ~~~~~~~~~~~~~---~~~~~~~~~~-~~~~~~~---~~~r~~~~~~~~~~~~~~~~~~~~y~~~-~~~~~~l~q~~~~~  386 (987)
T PRK09782        315 VVGATLPVLLKEG---QYDAAQKLLA-TLPANEM---LEERYAVSVATRNKAEALRLARLLYQQE-PANLTRLDQLTWQL  386 (987)
T ss_pred             HHHHHHHHHHhcc---HHHHHHHHhc-CCCcchH---HHHHHhhccccCchhHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            3344577777777   4666666643 3333442   233322  23467778888888887652 22445555555556


Q ss_pred             ccCCchhHHHHHHHHHHHc-C-CCCchhhHHHHHHHHHccCC---hhhHHHHhccC------------------------
Q 048090           97 TSVKDARFGKQVQAHVTKS-G-WLSSVFVGSALIDLYAKLLL---IHDAELMFDEI------------------------  147 (447)
Q Consensus        97 ~~~~~~~~a~~~~~~~~~~-~-~~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~------------------------  147 (447)
                      .+.|+.++|.++++..... + -.++.....-++..|.+.+.   ..++..+-..+                        
T Consensus       387 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  466 (987)
T PRK09782        387 MQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVR  466 (987)
T ss_pred             HHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHH
Confidence            7889999999999998873 1 12234445577888888776   33443332111                        


Q ss_pred             -C---CC--chhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCC
Q 048090          148 -P---VK--NSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLG  221 (447)
Q Consensus       148 -~---~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  221 (447)
                       .   .+  +...|..+..++.. +++++|+..+.+....  .|+......+...+...|++++|...++++...    +
T Consensus       467 al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~----~  539 (987)
T PRK09782        467 LLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAWQKISLH----D  539 (987)
T ss_pred             hcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc----C
Confidence             1   12  45667778777776 8999999988887765  466555444555567899999999999997654    3


Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH
Q 048090          222 NDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFV  301 (447)
Q Consensus       222 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~  301 (447)
                      |+...+..+..++.+.|++++|...++.....    .+.+...+..+.......|++++|...+++..+.  .|+...+.
T Consensus       540 p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l----~P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~  613 (987)
T PRK09782        540 MSNEDLLAAANTAQAAGNGAARDRWLQQAEQR----GLGDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYV  613 (987)
T ss_pred             CCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhc----CCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHH
Confidence            44555677788899999999999999977654    2333334444444555669999999999999984  56788899


Q ss_pred             HHHHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHH
Q 048090          302 TVISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACH  380 (447)
Q Consensus       302 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~  380 (447)
                      .+..++.+.|++++|...+++....   .| +...+..+..++...|++++|+..+++.++..  |++..++..+..++.
T Consensus       614 ~LA~~l~~lG~~deA~~~l~~AL~l---~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~--P~~~~a~~nLA~al~  688 (987)
T PRK09782        614 ARATIYRQRHNVPAAVSDLRAALEL---EPNNSNYQAALGYALWDSGDIAQSREMLERAHKGL--PDDPALIRQLAYVNQ  688 (987)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHH
Confidence            9999999999999999999999854   55 47788888899999999999999999999987  999999999999999


Q ss_pred             hcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 048090          381 DCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       381 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  432 (447)
                      ..|++++|...++++++..|++..+.....+...+..+++.|.+.+++....
T Consensus       689 ~lGd~~eA~~~l~~Al~l~P~~a~i~~~~g~~~~~~~~~~~a~~~~~r~~~~  740 (987)
T PRK09782        689 RLDDMAATQHYARLVIDDIDNQALITPLTPEQNQQRFNFRRLHEEVGRRWTF  740 (987)
T ss_pred             HCCCHHHHHHHHHHHHhcCCCCchhhhhhhHHHHHHHHHHHHHHHHHHHhhc
Confidence            9999999999999999999999999999999999999999999988887653

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

Probab=99.78  E-value=1.3e-15  Score=141.61  Aligned_cols=386  Identities=11%  Similarity=0.070  Sum_probs=205.5

Q ss_pred             cchHHHhhccC---CCCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCC--CchhhHHHHHHHhccCCchhHHHHHHH
Q 048090           36 LGTLTNCLKFL---NPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIF--LDTYALCSSLTASTSVKDARFGKQVQA  110 (447)
Q Consensus        36 ~~~A~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~--p~~~~~~~ll~~~~~~~~~~~a~~~~~  110 (447)
                      +..+..++...   .+.||++.+.|...|.-.|+++.++.+...+......  .-..+|..+.+++...|++++|..+|.
T Consensus       252 ~~~~~~ll~~ay~~n~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~  331 (1018)
T KOG2002|consen  252 YKKGVQLLQRAYKENNENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYM  331 (1018)
T ss_pred             HHHHHHHHHHHHhhcCCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHH
Confidence            44455554432   3567777777777777777777777777777553211  123456677777777777777777777


Q ss_pred             HHHHcCCCCch--hhHHHHHHHHHccCChhhHHHHhccCCC---CchhhHHHHHHHHHhcC----CHHHHHHHHHhhhhc
Q 048090          111 HVTKSGWLSSV--FVGSALIDLYAKLLLIHDAELMFDEIPV---KNSVCANALLSGYCEAK----LWAGGLELVRLMPAL  181 (447)
Q Consensus       111 ~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~~~  181 (447)
                      +..+..  ++.  ..+..+...+.+.|+++.+...|+.+..   .+..+...|...|...+    ..+.|..++.+..+.
T Consensus       332 ~s~k~~--~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~  409 (1018)
T KOG2002|consen  332 ESLKAD--NDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQLPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQ  409 (1018)
T ss_pred             HHHccC--CCCccccccchhHHHHHhchHHHHHHHHHHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhc
Confidence            766543  333  2334566677777777777777766642   23444444444444443    334455554444433


Q ss_pred             CCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHH----HhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccC
Q 048090          182 GLDYDHFTLSALLRACAGLSAAEFGRQVHAYMI----RKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGE  257 (447)
Q Consensus       182 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  257 (447)
                      - +.|...|..+...+....-+. +...|..+.    ..  +..+.+...|.+...+...|++.+|...|+.........
T Consensus       410 ~-~~d~~a~l~laql~e~~d~~~-sL~~~~~A~d~L~~~--~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~  485 (1018)
T KOG2002|consen  410 T-PVDSEAWLELAQLLEQTDPWA-SLDAYGNALDILESK--GKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEV  485 (1018)
T ss_pred             c-cccHHHHHHHHHHHHhcChHH-HHHHHHHHHHHHHHc--CCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhh
Confidence            2 234444444444443322222 233333322    12  222444555555555555555555555555443331111


Q ss_pred             CC------cchhh-HHH--------------------------HHHHHHhc-------CCHHHHHHHHHHHHhCC-C---
Q 048090          258 IN------KDVVL-WTS--------------------------MLGVYGRN-------GYFKEVIKLYEAMLMNG-T---  293 (447)
Q Consensus       258 ~~------~~~~~-~~~--------------------------l~~~~~~~-------g~~~~a~~~~~~m~~~~-~---  293 (447)
                      ..      +++.+ ||.                          .|.+|.+.       ++..+|...++...... -   
T Consensus       486 ~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkehp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~  565 (1018)
T KOG2002|consen  486 ANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEHPGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSSNPN  565 (1018)
T ss_pred             cCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHCchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccCCcH
Confidence            11      11111 111                          01111111       23334444444333211 1   


Q ss_pred             -------------------------------CCCHHHHHHHHHHHhc------------cCcHHHHHHHHHHHHHhcCCC
Q 048090          294 -------------------------------KPDEVAFVTVISACSH------------TGQVKLGIEYFEWMVHDYKLE  330 (447)
Q Consensus       294 -------------------------------~p~~~~~~~ll~~~~~------------~~~~~~a~~~~~~~~~~~~~~  330 (447)
                                                     .+|..+...|...|..            .+..++|++.|.++++.  -+
T Consensus       566 arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~--dp  643 (1018)
T KOG2002|consen  566 ARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRN--DP  643 (1018)
T ss_pred             HHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhc--Cc
Confidence                                           1233333333332221            12345566666666542  23


Q ss_pred             CChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhC--CCchhHHHH
Q 048090          331 PGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELD--PHNVGIYVM  408 (447)
Q Consensus       331 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--~~~~~~~~~  408 (447)
                      .|...-+-+.-.++..|++.+|..+|....+...  +...+|..++.+|...|++..|.+.|+..++..  .+++.+...
T Consensus       644 kN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~--~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~  721 (1018)
T KOG2002|consen  644 KNMYAANGIGIVLAEKGRFSEARDIFSQVREATS--DFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHY  721 (1018)
T ss_pred             chhhhccchhhhhhhccCchHHHHHHHHHHHHHh--hCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHH
Confidence            3556666666667777777777777777766642  244457777777777777777777777776654  336667777


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHH
Q 048090          409 LSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       409 l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      |++++.+.|.+.+|.+.....+.
T Consensus       722 Lara~y~~~~~~eak~~ll~a~~  744 (1018)
T KOG2002|consen  722 LARAWYEAGKLQEAKEALLKARH  744 (1018)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHH
Confidence            77777777777777776666554

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.78  E-value=1.8e-14  Score=122.42  Aligned_cols=251  Identities=14%  Similarity=0.132  Sum_probs=134.1

Q ss_pred             hhccCCCCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCch
Q 048090           42 CLKFLNPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSV  121 (447)
Q Consensus        42 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  121 (447)
                      ++-+..+.++.+|..+|.++++-...+.|.++|++-.....+.+..+||.+|.+-.-..    ...+..+|+...+.||.
T Consensus       198 L~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~----~K~Lv~EMisqkm~Pnl  273 (625)
T KOG4422|consen  198 LLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV----GKKLVAEMISQKMTPNL  273 (625)
T ss_pred             HHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc----cHHHHHHHHHhhcCCch
Confidence            33344556777788888888887777888888877777666777778887777643222    26677777777777888


Q ss_pred             hhHHHHHHHHHccCChhhHHHHhccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCC
Q 048090          122 FVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLS  201 (447)
Q Consensus       122 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  201 (447)
                      .|+|+++.+.++.|+++.|...                           |.+++.+|++.|+.|...+|..+|..+++.+
T Consensus       274 ~TfNalL~c~akfg~F~~ar~a---------------------------alqil~EmKeiGVePsLsSyh~iik~f~re~  326 (625)
T KOG4422|consen  274 FTFNALLSCAAKFGKFEDARKA---------------------------ALQILGEMKEIGVEPSLSSYHLIIKNFKRES  326 (625)
T ss_pred             HhHHHHHHHHHHhcchHHHHHH---------------------------HHHHHHHHHHhCCCcchhhHHHHHHHhcccC
Confidence            8888877777777777665432                           3344445555555555555555555444444


Q ss_pred             cHH-HHHHHHHHHHHhhh--cC----CCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccC-CCcch---hhHHHHHH
Q 048090          202 AAE-FGRQVHAYMIRKCC--NL----GNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGE-INKDV---VLWTSMLG  270 (447)
Q Consensus       202 ~~~-~a~~~~~~~~~~~~--~~----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~---~~~~~l~~  270 (447)
                      +.. .+..++..+...-.  .+    +.+...|...+..|.+..+.+.|.++-..+..-.... ++|+.   .-|..+..
T Consensus       327 dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~  406 (625)
T KOG4422|consen  327 DPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFD  406 (625)
T ss_pred             CchhhhHHHHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHH
Confidence            332 23333333332210  11    1123334444444445555555544443222211000 11211   12334444


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHH
Q 048090          271 VYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWM  323 (447)
Q Consensus       271 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  323 (447)
                      ..|+....+....+|+.|.-.-.-|+..+...++++....+.++-.-+++.++
T Consensus       407 licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~  459 (625)
T KOG4422|consen  407 LICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDS  459 (625)
T ss_pred             HHHHHHHHHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHH
Confidence            44555555555555555554444455555555555555555555444444444

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

Probab=99.77  E-value=5.1e-18  Score=147.48  Aligned_cols=260  Identities=18%  Similarity=0.167  Sum_probs=106.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHh-hHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHH
Q 048090          157 ALLSGYCEAKLWAGGLELVRLMPALGLDYDHF-TLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYG  235 (447)
Q Consensus       157 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  235 (447)
                      .+...+.+.|++++|++++++......+|+.. -|..+...+...++.+.|...++++...++.   ++..+..++.. .
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~---~~~~~~~l~~l-~   88 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA---NPQDYERLIQL-L   88 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc---ccccccccccc-c
Confidence            34566677778888887775544332123333 3333444555677788888888888776322   44556666666 6


Q ss_pred             hcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHhccCcHH
Q 048090          236 KCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNG-TKPDEVAFVTVISACSHTGQVK  314 (447)
Q Consensus       236 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~-~~p~~~~~~~ll~~~~~~~~~~  314 (447)
                      ..+++++|.+++...-.     ..++...+..++..+.+.++++++..+++.+.... ..++...|..+...+.+.|+.+
T Consensus        89 ~~~~~~~A~~~~~~~~~-----~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~  163 (280)
T PF13429_consen   89 QDGDPEEALKLAEKAYE-----RDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPD  163 (280)
T ss_dssp             ----------------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHH
T ss_pred             ccccccccccccccccc-----cccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHH
Confidence            77888888877764332     23455666777777888888888888888876532 2346667777778888888888


Q ss_pred             HHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHH
Q 048090          315 LGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQ  393 (447)
Q Consensus       315 ~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~  393 (447)
                      +|...+++..+.   .| |......++..+...|+.+++.+++....+..  |+++..+..++.++...|+.++|...++
T Consensus       164 ~A~~~~~~al~~---~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~--~~~~~~~~~la~~~~~lg~~~~Al~~~~  238 (280)
T PF13429_consen  164 KALRDYRKALEL---DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAA--PDDPDLWDALAAAYLQLGRYEEALEYLE  238 (280)
T ss_dssp             HHHHHHHHHHHH----TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH---HTSCCHCHHHHHHHHHHT-HHHHHHHHH
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC--cCHHHHHHHHHHHhcccccccccccccc
Confidence            888888888865   55 47777788888888888888888888877765  6666778888888888888888888888


Q ss_pred             HHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 048090          394 KALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMK  430 (447)
Q Consensus       394 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  430 (447)
                      ++.+..|.|+.+...++.++...|+.++|.++.++..
T Consensus       239 ~~~~~~p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  239 KALKLNPDDPLWLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             HHHHHSTT-HHHHHHHHHHHT----------------
T ss_pred             ccccccccccccccccccccccccccccccccccccc
Confidence            8888888888888888888888888888888877654

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

Probab=99.76  E-value=1e-14  Score=134.93  Aligned_cols=336  Identities=12%  Similarity=0.042  Sum_probs=254.2

Q ss_pred             hhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHh---ccCCCCchhhHHHHHHHH
Q 048090           86 TYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMF---DEIPVKNSVCANALLSGY  162 (447)
Q Consensus        86 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~---~~~~~~~~~~~~~l~~~~  162 (447)
                      ........+.....|++++|.+++.+.++.. +.....|..|...|-..|+.+++...+   ..+.+.|...|-.+....
T Consensus       139 l~~ll~eAN~lfarg~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls  217 (895)
T KOG2076|consen  139 LRQLLGEANNLFARGDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLS  217 (895)
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHH
Confidence            3334444444444599999999999999875 667788999999999999999987765   344466788899999989


Q ss_pred             HhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhH----HHHHHHHHHhcC
Q 048090          163 CEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFM----QSSLIEMYGKCG  238 (447)
Q Consensus       163 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~----~~~l~~~~~~~g  238 (447)
                      .+.|.++.|.-.|.+.++.. +++...+-.-...|-+.|+...|...|.++.+..|  +.|..-    ....++.+...+
T Consensus       218 ~~~~~i~qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p--~~d~er~~d~i~~~~~~~~~~~  294 (895)
T KOG2076|consen  218 EQLGNINQARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDP--PVDIERIEDLIRRVAHYFITHN  294 (895)
T ss_pred             HhcccHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCC--chhHHHHHHHHHHHHHHHHHhh
Confidence            99999999999999998874 45555555667778889999999999999998732  223222    233456677778


Q ss_pred             ChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC--------------------------
Q 048090          239 LVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNG--------------------------  292 (447)
Q Consensus       239 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~--------------------------  292 (447)
                      +.+.|.+.++....  ..+...+...++.++..|.+...++.|......+....                          
T Consensus       295 ~~e~a~~~le~~~s--~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~  372 (895)
T KOG2076|consen  295 ERERAAKALEGALS--KEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGK  372 (895)
T ss_pred             HHHHHHHHHHHHHh--hccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCC
Confidence            77888888885433  23344566678888999999999999988888776621                          


Q ss_pred             -CCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC--ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCch
Q 048090          293 -TKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEP--GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSV  369 (447)
Q Consensus       293 -~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~  369 (447)
                       ..++...+ .+.-++...+..+....+....... .+.|  +...|.-+.++|...|++.+|+.++..+...... .+.
T Consensus       373 ~~s~~l~v~-rl~icL~~L~~~e~~e~ll~~l~~~-n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~-~~~  449 (895)
T KOG2076|consen  373 ELSYDLRVI-RLMICLVHLKERELLEALLHFLVED-NVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGY-QNA  449 (895)
T ss_pred             CCCccchhH-hHhhhhhcccccchHHHHHHHHHHh-cCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccc-cch
Confidence             12222221 1222334444444444445545444 4344  4788999999999999999999999999887542 345


Q ss_pred             HhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 048090          370 SMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMK  430 (447)
Q Consensus       370 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  430 (447)
                      ..|..++.+|...|.+++|.+.|++++...|.+..+...|...+.+.|+.++|.++++.+.
T Consensus       450 ~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~  510 (895)
T KOG2076|consen  450 FVWYKLARCYMELGEYEEAIEFYEKVLILAPDNLDARITLASLYQQLGNHEKALETLEQII  510 (895)
T ss_pred             hhhHHHHHHHHHHhhHHHHHHHHHHHHhcCCCchhhhhhHHHHHHhcCCHHHHHHHHhccc
Confidence            5799999999999999999999999999999999999999999999999999999999876

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

Probab=99.76  E-value=5.8e-14  Score=125.48  Aligned_cols=366  Identities=8%  Similarity=-0.028  Sum_probs=284.4

Q ss_pred             HHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHH----HcCCCCchhhHHHHHHHHHccC
Q 048090           60 DFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVT----KSGWLSSVFVGSALIDLYAKLL  135 (447)
Q Consensus        60 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~g  135 (447)
                      ++++..-++.|..+++..++. ++.+...|.+....--..|+.+....++...+    ..|+..+...|..=...|-..|
T Consensus       415 AlarLetYenAkkvLNkaRe~-iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~ag  493 (913)
T KOG0495|consen  415 ALARLETYENAKKVLNKAREI-IPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAG  493 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHhh-CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcC
Confidence            445555566677777776665 55566666666655566666666666655433    3456666666666566666666


Q ss_pred             ChhhHHHHhccCC------CCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHH
Q 048090          136 LIHDAELMFDEIP------VKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQV  209 (447)
Q Consensus       136 ~~~~a~~~~~~~~------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  209 (447)
                      ..--+..+.....      +.-..+|+.-...|.+.+.++-|..+|....+. .+-+...|......--..|..+....+
T Consensus       494 sv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~Esl~Al  572 (913)
T KOG0495|consen  494 SVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTRESLEAL  572 (913)
T ss_pred             ChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcHHHHHHH
Confidence            6655555554433      113457778888888888999999999888775 233455666666665677899999999


Q ss_pred             HHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 048090          210 HAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAML  289 (447)
Q Consensus       210 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  289 (447)
                      +++.+..   ++.....|......+...|+...|..++..+.+.    .+.+...|.+-+.....+.+++.|..+|.+..
T Consensus       573 lqkav~~---~pkae~lwlM~ake~w~agdv~~ar~il~~af~~----~pnseeiwlaavKle~en~e~eraR~llakar  645 (913)
T KOG0495|consen  573 LQKAVEQ---CPKAEILWLMYAKEKWKAGDVPAARVILDQAFEA----NPNSEEIWLAAVKLEFENDELERARDLLAKAR  645 (913)
T ss_pred             HHHHHHh---CCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHh----CCCcHHHHHHHHHHhhccccHHHHHHHHHHHh
Confidence            9999987   5556777888888899999999999999877664    55578889999999999999999999999988


Q ss_pred             hCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCch
Q 048090          290 MNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSV  369 (447)
Q Consensus       290 ~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~  369 (447)
                      .  ..|+...|.--+...-..++.++|.+++++.++.  ++.-...|..+.+.+.+.++++.|.+.|..-.+.-  |..+
T Consensus       646 ~--~sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~c--P~~i  719 (913)
T KOG0495|consen  646 S--ISGTERVWMKSANLERYLDNVEEALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKC--PNSI  719 (913)
T ss_pred             c--cCCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccC--CCCc
Confidence            7  4678888877777777789999999999999875  23347889999999999999999999998877665  9899


Q ss_pred             HhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCCcccc
Q 048090          370 SMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDVGCSW  442 (447)
Q Consensus       370 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~  442 (447)
                      ..|..|...--+.|.+-+|..+++++.-.+|.+...|...+++-.+.|+.+.|..++.+..+  --|+.+..|
T Consensus       720 pLWllLakleEk~~~~~rAR~ildrarlkNPk~~~lwle~Ir~ElR~gn~~~a~~lmakALQ--ecp~sg~LW  790 (913)
T KOG0495|consen  720 PLWLLLAKLEEKDGQLVRARSILDRARLKNPKNALLWLESIRMELRAGNKEQAELLMAKALQ--ECPSSGLLW  790 (913)
T ss_pred             hHHHHHHHHHHHhcchhhHHHHHHHHHhcCCCcchhHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCccchhH
Confidence            99999999999999999999999999999999999999999999999999999988887765  345555554

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

Probab=99.73  E-value=2.4e-14  Score=133.49  Aligned_cols=261  Identities=16%  Similarity=0.093  Sum_probs=174.5

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHhhhhc---CCCCcH------hhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcC-
Q 048090          151 NSVCANALLSGYCEAKLWAGGLELVRLMPAL---GLDYDH------FTLSALLRACAGLSAAEFGRQVHAYMIRKCCNL-  220 (447)
Q Consensus       151 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-  220 (447)
                      -+...|.+...+...|++.+|...|......   ...+|.      .+-..+....-..++.+.|.+.|..+.+..|+. 
T Consensus       451 p~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkehp~YI  530 (1018)
T KOG2002|consen  451 PPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEHPGYI  530 (1018)
T ss_pred             CHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHCchhH
Confidence            4455666666666777777777777665543   111222      122233444445556666666666666553221 


Q ss_pred             ------------------------------CCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHH
Q 048090          221 ------------------------------GNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLG  270 (447)
Q Consensus       221 ------------------------------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~  270 (447)
                                                    ..++..+..+...+.....+..|.+-|..+....  ...+|+.+.-.|.+
T Consensus       531 d~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~--~~~~D~YsliaLGN  608 (1018)
T KOG2002|consen  531 DAYLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLLGNLHLKKSEWKPAKKKFETILKKT--STKTDAYSLIALGN  608 (1018)
T ss_pred             HHHHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhh--ccCCchhHHHHhhH
Confidence                                          1122233333334444444444444333222211  11244444445555


Q ss_pred             HHHh------------cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHH
Q 048090          271 VYGR------------NGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSC  338 (447)
Q Consensus       271 ~~~~------------~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  338 (447)
                      .|.+            .+..++|+++|.+.++.. +-|...-+-+.-.++..|++..|..+|.++++.  ......+|..
T Consensus       609 ~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-pkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa--~~~~~dv~lN  685 (1018)
T KOG2002|consen  609 VYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-PKNMYAANGIGIVLAEKGRFSEARDIFSQVREA--TSDFEDVWLN  685 (1018)
T ss_pred             HHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-cchhhhccchhhhhhhccCchHHHHHHHHHHHH--HhhCCceeee
Confidence            4432            245678999999988864 337777788888899999999999999999876  2345678999


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhc
Q 048090          339 LVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKF  416 (447)
Q Consensus       339 l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  416 (447)
                      +..+|..+|++..|+++|+...+.-..-++..+...|..++...|.+.+|.+....+....|.++.+-..++.+..+.
T Consensus       686 lah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~v~kkl  763 (1018)
T KOG2002|consen  686 LAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLALVLKKL  763 (1018)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHHHHHHH
Confidence            999999999999999999998888776778889999999999999999999999999999999988777776655443

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

Probab=99.73  E-value=3.4e-14  Score=122.75  Aligned_cols=360  Identities=14%  Similarity=0.034  Sum_probs=249.2

Q ss_pred             HHHHHHHHHhCCChhhHHHHHHHHHhcCCCCc-hhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCc-hhhHHHHHHHH
Q 048090           54 FNVVISDFCRNGSPLYALKTFSFMHVHGIFLD-TYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSS-VFVGSALIDLY  131 (447)
Q Consensus        54 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~  131 (447)
                      +....+-|.++|++++|++.|.+..+.  .|+ +..|.....+|...|+++++.+--...++.  .|+ ...+..-.+++
T Consensus       118 lK~~GN~~f~~kkY~eAIkyY~~AI~l--~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl--~P~Y~KAl~RRA~A~  193 (606)
T KOG0547|consen  118 LKTKGNKFFRNKKYDEAIKYYTQAIEL--CPDEPIFYSNRAACYESLGDWEKVIEDCTKALEL--NPDYVKALLRRASAH  193 (606)
T ss_pred             HHhhhhhhhhcccHHHHHHHHHHHHhc--CCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhc--CcHHHHHHHHHHHHH
Confidence            344556678889999999999999884  567 677788888888889999888877777764  343 23444445566


Q ss_pred             HccCChhhHHH----------------------Hhcc---------CC---C---CchhhHHHHHHHHH-----------
Q 048090          132 AKLLLIHDAEL----------------------MFDE---------IP---V---KNSVCANALLSGYC-----------  163 (447)
Q Consensus       132 ~~~g~~~~a~~----------------------~~~~---------~~---~---~~~~~~~~l~~~~~-----------  163 (447)
                      -..|++++|+.                      ++.+         +.   +   |+....++....+.           
T Consensus       194 E~lg~~~eal~D~tv~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~~~~~~~~  273 (606)
T KOG0547|consen  194 EQLGKFDEALFDVTVLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHADPKPLFDNKS  273 (606)
T ss_pred             HhhccHHHHHHhhhHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhccccccccccCCC
Confidence            66666665542                      1111         01   1   11111111111110           


Q ss_pred             --------------hcC---CHHHHHHHHHhhhhc-CCCCcH-----------hhHHHHHHHHhcCCcHHHHHHHHHHHH
Q 048090          164 --------------EAK---LWAGGLELVRLMPAL-GLDYDH-----------FTLSALLRACAGLSAAEFGRQVHAYMI  214 (447)
Q Consensus       164 --------------~~~---~~~~a~~~~~~~~~~-~~~~~~-----------~~~~~l~~~~~~~~~~~~a~~~~~~~~  214 (447)
                                    ..+   .+..|...+.+-... -..++.           .+.......+.-.|+.-.+..-|+..+
T Consensus       274 ~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~~a~~d~~~~I  353 (606)
T KOG0547|consen  274 DKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSLGAQEDFDAAI  353 (606)
T ss_pred             ccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCchhhhhhHHHHH
Confidence                          001   122222222221100 001111           111111112334588889999999998


Q ss_pred             HhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 048090          215 RKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTK  294 (447)
Q Consensus       215 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  294 (447)
                      +..   +.+...|--+...|....+.++-++.|++....    .+.+..+|-.-.+.+.-.+++++|..=|++.+..  .
T Consensus       354 ~l~---~~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~l----dp~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L--~  424 (606)
T KOG0547|consen  354 KLD---PAFNSLYIKRAAAYADENQSEKMWKDFNKAEDL----DPENPDVYYHRGQMRFLLQQYEEAIADFQKAISL--D  424 (606)
T ss_pred             hcC---cccchHHHHHHHHHhhhhccHHHHHHHHHHHhc----CCCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhc--C
Confidence            873   234444777888899999999999999988776    6667788888888888889999999999999884  4


Q ss_pred             C-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCC------
Q 048090          295 P-DEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSS------  367 (447)
Q Consensus       295 p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~------  367 (447)
                      | +...|..+..+..+.++++++...|++..++  ++-.+..|+.....+...++++.|.+.|+..++..  |.      
T Consensus       425 pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk--FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE--~~~~~~~v  500 (606)
T KOG0547|consen  425 PENAYAYIQLCCALYRQHKIAESMKTFEEAKKK--FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELE--PREHLIIV  500 (606)
T ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhc--cccccccc
Confidence            4 4566777777777899999999999999876  46668999999999999999999999999998765  43      


Q ss_pred             chHh--HHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          368 SVSM--WGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       368 ~~~~--~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      ++..  .-.++..- =.+++..|..+++++++.+|....+|..|+..-.+.|+.++|+++|++-..
T Consensus       501 ~~~plV~Ka~l~~q-wk~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  501 NAAPLVHKALLVLQ-WKEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             cchhhhhhhHhhhc-hhhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            2221  12222222 248999999999999999999999999999999999999999999997643

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.73  E-value=2.1e-14  Score=130.50  Aligned_cols=282  Identities=9%  Similarity=0.025  Sum_probs=209.2

Q ss_pred             cCChhhHHHHhccCCCC--chhh-HHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHH--HHHHHHhcCCcHHHHHH
Q 048090          134 LLLIHDAELMFDEIPVK--NSVC-ANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLS--ALLRACAGLSAAEFGRQ  208 (447)
Q Consensus       134 ~g~~~~a~~~~~~~~~~--~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a~~  208 (447)
                      .|+++.|++.+......  ++.. |-.......+.|+++.|.+.+.++.+.  .|+.....  .....+...|+++.|..
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al~  174 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAARH  174 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHHH
Confidence            58888888887765532  2233 333344557889999999999988764  45554333  33556778899999999


Q ss_pred             HHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcch------hhHHHHHHHHHhcCCHHHHH
Q 048090          209 VHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDV------VLWTSMLGVYGRNGYFKEVI  282 (447)
Q Consensus       209 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~g~~~~a~  282 (447)
                      .++.+.+..   +.++.....+...|.+.|++++|.+++..+.+...  ..+..      .+|..++.......+.+...
T Consensus       175 ~l~~~~~~~---P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~--~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~  249 (398)
T PRK10747        175 GVDKLLEVA---PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHV--GDEEHRAMLEQQAWIGLMDQAMADQGSEGLK  249 (398)
T ss_pred             HHHHHHhcC---CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCC--CCHHHHHHHHHHHHHHHHHHHHHhcCHHHHH
Confidence            999988873   34677888888999999999999988887665421  11111      13333444444455566677


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 048090          283 KLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDR  362 (447)
Q Consensus       283 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  362 (447)
                      ++++.+.+. .+.++.....+..++...|+.++|..++++..+.   .|+....  ++.+....++.+++++.+++..+.
T Consensus       250 ~~w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~---~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~  323 (398)
T PRK10747        250 RWWKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR---QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQ  323 (398)
T ss_pred             HHHHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCCHHHH--HHHhhccCCChHHHHHHHHHHHhh
Confidence            777776443 3447778888999999999999999999988754   5555322  233344669999999999999988


Q ss_pred             CCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          363 GHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       363 ~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      .  |+++..+..++..|.+.+++++|...|+++++..|++. .+..+..++.+.|+.++|.+++++-..
T Consensus       324 ~--P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~-~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        324 H--GDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAY-DYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             C--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            7  99999899999999999999999999999999888654 467899999999999999999997754

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

Probab=99.72  E-value=2.8e-13  Score=121.22  Aligned_cols=372  Identities=8%  Similarity=-0.005  Sum_probs=297.5

Q ss_pred             CccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHH
Q 048090           51 PLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDL  130 (447)
Q Consensus        51 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  130 (447)
                      ..+|+.-.+.|.+.+.++-|..+|...++- .+-+...|......--..|..+....++++++.. .+-....|......
T Consensus       516 ~~tw~~da~~~~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~-~pkae~lwlM~ake  593 (913)
T KOG0495|consen  516 KSTWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQ-CPKAEILWLMYAKE  593 (913)
T ss_pred             HhHHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHh-CCcchhHHHHHHHH
Confidence            356777778888888888888888888774 2334566777776667778889999999998886 35555666677777


Q ss_pred             HHccCChhhHHHHhccCC---CCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHH
Q 048090          131 YAKLLLIHDAELMFDEIP---VKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGR  207 (447)
Q Consensus       131 ~~~~g~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  207 (447)
                      +-..|++..|..++.+.-   ..+...|-+-+.....+..++.|..+|.+....  .|+...|..-+...--.+..++|.
T Consensus       594 ~w~agdv~~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~  671 (913)
T KOG0495|consen  594 KWKAGDVPAARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEAL  671 (913)
T ss_pred             HHhcCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHH
Confidence            888899999998887765   236777888888888999999999999988765  577777766666666678899999


Q ss_pred             HHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHH
Q 048090          208 QVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEA  287 (447)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  287 (447)
                      +++++.++.   ++.-...|..+.+.+-+.++++.|.+.|..-...    .|..+..|-.+...--+.|++-+|..++++
T Consensus       672 rllEe~lk~---fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~----cP~~ipLWllLakleEk~~~~~rAR~ildr  744 (913)
T KOG0495|consen  672 RLLEEALKS---FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK----CPNSIPLWLLLAKLEEKDGQLVRARSILDR  744 (913)
T ss_pred             HHHHHHHHh---CCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc----CCCCchHHHHHHHHHHHhcchhhHHHHHHH
Confidence            999999887   5556778889999999999999999988743332    566677788888888888999999999999


Q ss_pred             HHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCC
Q 048090          288 MLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSS  367 (447)
Q Consensus       288 m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~  367 (447)
                      .+-.+.. +...|-..|++-.+.|+.+.|..+..+.++.  ++.+...|..-|...-+.++-..+...+++.      ..
T Consensus       745 arlkNPk-~~~lwle~Ir~ElR~gn~~~a~~lmakALQe--cp~sg~LWaEaI~le~~~~rkTks~DALkkc------e~  815 (913)
T KOG0495|consen  745 ARLKNPK-NALLWLESIRMELRAGNKEQAELLMAKALQE--CPSSGLLWAEAIWLEPRPQRKTKSIDALKKC------EH  815 (913)
T ss_pred             HHhcCCC-cchhHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCccchhHHHHHHhccCcccchHHHHHHHhc------cC
Confidence            9887643 7788999999999999999999999998875  5667788888888777777755555544433      23


Q ss_pred             chHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCCcccccc
Q 048090          368 SVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDVGCSWIE  444 (447)
Q Consensus       368 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~~  444 (447)
                      |+.....+...+....++++|...|.++++.+|++-.+|..+...+.+.|.-++-.+++.+...  .+|.-+..|.-
T Consensus       816 dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d~GD~wa~fykfel~hG~eed~kev~~~c~~--~EP~hG~~W~a  890 (913)
T KOG0495|consen  816 DPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPDNGDAWAWFYKFELRHGTEEDQKEVLKKCET--AEPTHGELWQA  890 (913)
T ss_pred             CchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCccchHHHHHHHHHHHhCCHHHHHHHHHHHhc--cCCCCCcHHHH
Confidence            5566788889999999999999999999999999999999999999999998888888888875  56776666653

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

Probab=99.71  E-value=6.6e-15  Score=131.97  Aligned_cols=278  Identities=13%  Similarity=0.068  Sum_probs=224.0

Q ss_pred             ChhhHHHHhccCCC--C-chhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCC--CCcHhhHHHHHHHHhcCCcHHHHHHHH
Q 048090          136 LIHDAELMFDEIPV--K-NSVCANALLSGYCEAKLWAGGLELVRLMPALGL--DYDHFTLSALLRACAGLSAAEFGRQVH  210 (447)
Q Consensus       136 ~~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~  210 (447)
                      +..+|...|..++.  + .......+..+|...+++++|.++|+.+.+...  .-+...|++.+--+-+    +-+...+
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            45788888888652  2 345566778899999999999999999987521  1255677777665432    2222222


Q ss_pred             -HHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 048090          211 -AYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAML  289 (447)
Q Consensus       211 -~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  289 (447)
                       +.+...   -+..+.+|.++.++|.-.++.+.|++.|+++...    .+....+|+.+..-+.....+|.|...|+..+
T Consensus       410 aq~Li~~---~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQl----dp~faYayTLlGhE~~~~ee~d~a~~~fr~Al  482 (638)
T KOG1126|consen  410 AQDLIDT---DPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQL----DPRFAYAYTLLGHESIATEEFDKAMKSFRKAL  482 (638)
T ss_pred             HHHHHhh---CCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhcc----CCccchhhhhcCChhhhhHHHHhHHHHHHhhh
Confidence             233333   3446889999999999999999999999988774    44478899999999999999999999999986


Q ss_pred             hCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCC
Q 048090          290 MNGTKP-DEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG-PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSS  367 (447)
Q Consensus       290 ~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~  367 (447)
                      ..  .| +-..|.-+.-.|.+.++++.|+-.|+++.   .+.|. ......+...+.+.|+.++|+++++++...+  |.
T Consensus       483 ~~--~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~---~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld--~k  555 (638)
T KOG1126|consen  483 GV--DPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAV---EINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLD--PK  555 (638)
T ss_pred             cC--CchhhHHHHhhhhheeccchhhHHHHHHHhhh---cCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcC--CC
Confidence            53  33 23455667778999999999999999998   45674 6677778888999999999999999999887  88


Q ss_pred             chHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          368 SVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       368 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      ++..-...+..+...+++++|...++++.+.-|++..++..++..|.+.|+.+.|+.-|.-+.+
T Consensus       556 n~l~~~~~~~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~  619 (638)
T KOG1126|consen  556 NPLCKYHRASILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALLHFSWALD  619 (638)
T ss_pred             CchhHHHHHHHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHHhhHHHhc
Confidence            8888888899999999999999999999999999999999999999999999999988887765

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

Probab=99.71  E-value=3.1e-13  Score=125.30  Aligned_cols=364  Identities=12%  Similarity=0.014  Sum_probs=272.0

Q ss_pred             HHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhH
Q 048090           61 FCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDA  140 (447)
Q Consensus        61 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  140 (447)
                      +...|++++|.+++.+..+.. +.+...|.+|...+-..|+.+++...+-.+.... +-|...|..+.....+.|.++.|
T Consensus       149 lfarg~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~ladls~~~~~i~qA  226 (895)
T KOG2076|consen  149 LFARGDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRLADLSEQLGNINQA  226 (895)
T ss_pred             HHHhCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHhcccHHHH
Confidence            334599999999999998874 4467789999999999999999888776555543 55667888888888899999999


Q ss_pred             HHHhccCCCC---chhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHh----hHHHHHHHHhcCCcHHHHHHHHHHH
Q 048090          141 ELMFDEIPVK---NSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHF----TLSALLRACAGLSAAEFGRQVHAYM  213 (447)
Q Consensus       141 ~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~  213 (447)
                      .-.|.+..+.   +...+-.-+..|-+.|+...|...|.++.....+.|..    +-...+..+...++-+.|.+.++..
T Consensus       227 ~~cy~rAI~~~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~  306 (895)
T KOG2076|consen  227 RYCYSRAIQANPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGA  306 (895)
T ss_pred             HHHHHHHHhcCCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            9999887643   33334445677888999999999999998764222222    2223455666777778888888888


Q ss_pred             HHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhh------------------------cccCCCcchhhHHHHH
Q 048090          214 IRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHR------------------------LEGEINKDVVLWTSML  269 (447)
Q Consensus       214 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~------------------------~~~~~~~~~~~~~~l~  269 (447)
                      .... +-..+...++.++..|.+...++.|..........                        ...+..++... --++
T Consensus       307 ~s~~-~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v-~rl~  384 (895)
T KOG2076|consen  307 LSKE-KDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRV-IRLM  384 (895)
T ss_pred             Hhhc-cccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchh-HhHh
Confidence            8742 34456677888888999999999988877654431                        01112223333 1233


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcC
Q 048090          270 GVYGRNGYFKEVIKLYEAMLMNGTKP--DEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAG  347 (447)
Q Consensus       270 ~~~~~~g~~~~a~~~~~~m~~~~~~p--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  347 (447)
                      -++...+..+....+...+.+..+.|  +...|.-+..++...|++.+|+.+|..+... ...-+...|-.+.++|...|
T Consensus       385 icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~-~~~~~~~vw~~~a~c~~~l~  463 (895)
T KOG2076|consen  385 ICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNR-EGYQNAFVWYKLARCYMELG  463 (895)
T ss_pred             hhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcC-ccccchhhhHHHHHHHHHHh
Confidence            44555555555666666666666444  5677899999999999999999999999865 23335778999999999999


Q ss_pred             CHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhC---------CCchhHHHHHHHHHHhcCC
Q 048090          348 ELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELD---------PHNVGIYVMLSNLYAKFCM  418 (447)
Q Consensus       348 ~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~---------~~~~~~~~~l~~~~~~~g~  418 (447)
                      ..++|.+.|+..+...  |++..+-..|...+.+.|++++|.+.+..+..-+         +++..+.......+...|+
T Consensus       464 e~e~A~e~y~kvl~~~--p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk  541 (895)
T KOG2076|consen  464 EYEEAIEFYEKVLILA--PDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGK  541 (895)
T ss_pred             hHHHHHHHHHHHHhcC--CCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhh
Confidence            9999999999999887  9999999999999999999999999999865322         3456677778888999999


Q ss_pred             hHHHHHHHHHHHH
Q 048090          419 WDEIGQLRELMKE  431 (447)
Q Consensus       419 ~~~A~~~~~~m~~  431 (447)
                      .++-+.+-..|..
T Consensus       542 ~E~fi~t~~~Lv~  554 (895)
T KOG2076|consen  542 REEFINTASTLVD  554 (895)
T ss_pred             HHHHHHHHHHHHH
Confidence            9987766666654

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

Probab=99.71  E-value=1.8e-14  Score=123.36  Aligned_cols=206  Identities=9%  Similarity=0.040  Sum_probs=132.2

Q ss_pred             CCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHH
Q 048090          200 LSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFK  279 (447)
Q Consensus       200 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  279 (447)
                      .|++++|.+.|++.+..+   ..-......+.-.+-..|++++|+++|-++...    ...+..+.-.+.+.|-...+..
T Consensus       503 ngd~dka~~~ykeal~nd---asc~ealfniglt~e~~~~ldeald~f~klh~i----l~nn~evl~qianiye~led~a  575 (840)
T KOG2003|consen  503 NGDLDKAAEFYKEALNND---ASCTEALFNIGLTAEALGNLDEALDCFLKLHAI----LLNNAEVLVQIANIYELLEDPA  575 (840)
T ss_pred             cCcHHHHHHHHHHHHcCc---hHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHH----HHhhHHHHHHHHHHHHHhhCHH
Confidence            366777777777666541   111122222333455667777777777766554    4445666666777777777777


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHH
Q 048090          280 EVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEM  359 (447)
Q Consensus       280 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  359 (447)
                      .|++++.+.... ++.|+.....|...|-+.|+-..|.+.+-+--+  -++-+..+...|...|....-+++|+.+|++.
T Consensus       576 qaie~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyr--yfp~nie~iewl~ayyidtqf~ekai~y~eka  652 (840)
T KOG2003|consen  576 QAIELLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYR--YFPCNIETIEWLAAYYIDTQFSEKAINYFEKA  652 (840)
T ss_pred             HHHHHHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhccc--ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            777777666553 344566777777777777777777766544322  23446777777777777777777787777776


Q ss_pred             HhCCCCCCchHhHHHHHHHH-HhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCC
Q 048090          360 LDRGHGSSSVSMWGALLSAC-HDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCM  418 (447)
Q Consensus       360 ~~~~~~p~~~~~~~~l~~~~-~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  418 (447)
                      .-.  .|+... |..++..| .+.|++.+|..+|+...+..|.+..+...|++.+...|.
T Consensus       653 ali--qp~~~k-wqlmiasc~rrsgnyqka~d~yk~~hrkfpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  653 ALI--QPNQSK-WQLMIASCFRRSGNYQKAFDLYKDIHRKFPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             Hhc--CccHHH-HHHHHHHHHHhcccHHHHHHHHHHHHHhCccchHHHHHHHHHhccccc
Confidence            543  254444 66655544 457778888888887777777777777777777766664

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

Probab=99.71  E-value=2.1e-13  Score=117.18  Aligned_cols=319  Identities=13%  Similarity=0.045  Sum_probs=233.9

Q ss_pred             hccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCCCCchh-hHHHHHHHHHhcCCHHHHHHH
Q 048090           96 STSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSV-CANALLSGYCEAKLWAGGLEL  174 (447)
Q Consensus        96 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~  174 (447)
                      +.+.|..+.|...+...+.. .|-.-..|..|...   ..+.+.+..+...++..+.. .--.+..++....+.++++.-
T Consensus       174 ~k~~~~~s~A~~sfv~~v~~-~P~~W~AWleL~~l---it~~e~~~~l~~~l~~~~h~M~~~F~~~a~~el~q~~e~~~k  249 (559)
T KOG1155|consen  174 LKELGLLSLAIDSFVEVVNR-YPWFWSAWLELSEL---ITDIEILSILVVGLPSDMHWMKKFFLKKAYQELHQHEEALQK  249 (559)
T ss_pred             HHhhchHHHHHHHHHHHHhc-CCcchHHHHHHHHh---hchHHHHHHHHhcCcccchHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44455666666666555543 23333344333332   22333333333333322111 112234556666788888888


Q ss_pred             HHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCC-hHHHHHHHHhhhhh
Q 048090          175 VRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGL-VTKALQVFNLAGHR  253 (447)
Q Consensus       175 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-~~~A~~~~~~~~~~  253 (447)
                      .+.....|++.+...-+....+.....++++|+.+|+++.+.+|=--.|..+|..++.+-....+ .-.|..+++.    
T Consensus       250 ~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA~~v~~i----  325 (559)
T KOG1155|consen  250 KERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLAQNVSNI----  325 (559)
T ss_pred             HHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHHHHHHHh----
Confidence            88888888766655555555566778999999999999999854333466777776654433222 2234445441    


Q ss_pred             cccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCCh
Q 048090          254 LEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGP  333 (447)
Q Consensus       254 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  333 (447)
                          .+--+.|..++.+-|.-.++.++|...|++..+.+.. ....|+.+..-|....+...|.+-++.+++-  .+.|-
T Consensus       326 ----dKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi--~p~Dy  398 (559)
T KOG1155|consen  326 ----DKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIESYRRAVDI--NPRDY  398 (559)
T ss_pred             ----ccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHHHHHHHHhc--CchhH
Confidence                3344577888889999999999999999999986522 4677888888999999999999999999853  24478


Q ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHH
Q 048090          334 EHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLY  413 (447)
Q Consensus       334 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  413 (447)
                      ..|-.|.++|.-.+...-|+-+|++.....  |+|...|.+|+.+|.+.++.++|+..|..+...+-.+..++..|+..|
T Consensus       399 RAWYGLGQaYeim~Mh~YaLyYfqkA~~~k--PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~LakLy  476 (559)
T KOG1155|consen  399 RAWYGLGQAYEIMKMHFYALYYFQKALELK--PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAKLY  476 (559)
T ss_pred             HHHhhhhHHHHHhcchHHHHHHHHHHHhcC--CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHHHH
Confidence            999999999999999999999999999876  999999999999999999999999999999998877889999999999


Q ss_pred             HhcCChHHHHHHHHHHHH
Q 048090          414 AKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       414 ~~~g~~~~A~~~~~~m~~  431 (447)
                      .+.++.++|...+++-.+
T Consensus       477 e~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  477 EELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             HHHHhHHHHHHHHHHHHH
Confidence            999999999998887765

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

Probab=99.71  E-value=2.4e-16  Score=136.98  Aligned_cols=258  Identities=13%  Similarity=0.102  Sum_probs=114.0

Q ss_pred             HHHHHHHccCChhhHHHHhccC-C----CCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcC
Q 048090          126 ALIDLYAKLLLIHDAELMFDEI-P----VKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGL  200 (447)
Q Consensus       126 ~l~~~~~~~g~~~~a~~~~~~~-~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  200 (447)
                      .+...+.+.|++++|.+++++. .    ..|...|..+.......++++.|.+.++++...+ +-+...+..++.. ...
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~-~~~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASD-KANPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccccc-ccc
Confidence            4466777788888888888432 2    2255556666667777888889999888888765 2355566666666 678


Q ss_pred             CcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHH
Q 048090          201 SAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKE  280 (447)
Q Consensus       201 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  280 (447)
                      +++++|.+++....+.    .+++..+..++..+...++++++.++++.+...  ...+.+...|..+...+.+.|+.++
T Consensus        91 ~~~~~A~~~~~~~~~~----~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~--~~~~~~~~~~~~~a~~~~~~G~~~~  164 (280)
T PF13429_consen   91 GDPEEALKLAEKAYER----DGDPRYLLSALQLYYRLGDYDEAEELLEKLEEL--PAAPDSARFWLALAEIYEQLGDPDK  164 (280)
T ss_dssp             -------------------------------H-HHHTT-HHHHHHHHHHHHH---T---T-HHHHHHHHHHHHHCCHHHH
T ss_pred             cccccccccccccccc----ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhc--cCCCCCHHHHHHHHHHHHHcCCHHH
Confidence            8889998888776654    245566777888888999999999999876532  2235677888899999999999999


Q ss_pred             HHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHH
Q 048090          281 VIKLYEAMLMNGTKP-DEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEM  359 (447)
Q Consensus       281 a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  359 (447)
                      |++.+++..+.  .| |......++..+...|+.+++..++....+.  .+.++..+..+..+|...|+.++|+.++++.
T Consensus       165 A~~~~~~al~~--~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~--~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~  240 (280)
T PF13429_consen  165 ALRDYRKALEL--DPDDPDARNALAWLLIDMGDYDEAREALKRLLKA--APDDPDLWDALAAAYLQLGRYEEALEYLEKA  240 (280)
T ss_dssp             HHHHHHHHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH---HTSCCHCHHHHHHHHHHT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHc--CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHH--CcCHHHHHHHHHHHhcccccccccccccccc
Confidence            99999999985  45 5677888999999999999999999988765  2556778889999999999999999999999


Q ss_pred             HhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhh
Q 048090          360 LDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALE  397 (447)
Q Consensus       360 ~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  397 (447)
                      .+.+  |+|+.+...++.++...|+.++|..+.+++.+
T Consensus       241 ~~~~--p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  241 LKLN--PDDPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HHHS--TT-HHHHHHHHHHHT-----------------
T ss_pred             cccc--cccccccccccccccccccccccccccccccc
Confidence            9877  99999999999999999999999999988765

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

Probab=99.70  E-value=1.9e-15  Score=135.34  Aligned_cols=261  Identities=14%  Similarity=0.083  Sum_probs=212.8

Q ss_pred             CCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCC-hHHHH
Q 048090          166 KLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGL-VTKAL  244 (447)
Q Consensus       166 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-~~~A~  244 (447)
                      -+..+|+..|.++.+. +.-+......+..+|...+++++|+++|+.+.+..|-.-.+..+|.+.+--+-+.-. --.|.
T Consensus       333 y~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq  411 (638)
T KOG1126|consen  333 YNCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQ  411 (638)
T ss_pred             HHHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHH
Confidence            4678899999995554 344556777888999999999999999999999865444566777776654432111 11222


Q ss_pred             HHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHH
Q 048090          245 QVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKP-DEVAFVTVISACSHTGQVKLGIEYFEWM  323 (447)
Q Consensus       245 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~  323 (447)
                      ++.+        ..+..+.+|.++.++|.-.++.+.|++.|++..+  +.| ...+|+.+..-+.....+|.|...|+..
T Consensus       412 ~Li~--------~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQ--ldp~faYayTLlGhE~~~~ee~d~a~~~fr~A  481 (638)
T KOG1126|consen  412 DLID--------TDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQ--LDPRFAYAYTLLGHESIATEEFDKAMKSFRKA  481 (638)
T ss_pred             HHHh--------hCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhc--cCCccchhhhhcCChhhhhHHHHhHHHHHHhh
Confidence            3332        2566789999999999999999999999999988  455 6788888888888899999999999988


Q ss_pred             HHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCc
Q 048090          324 VHDYKLEPG-PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHN  402 (447)
Q Consensus       324 ~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  402 (447)
                      +   ++.|. -..|--|.-.|.+.++++.|+-.|+++.+.+  |.+..+...++..+.+.|+.|+|+++++++..++|.|
T Consensus       482 l---~~~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~IN--P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn  556 (638)
T KOG1126|consen  482 L---GVDPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEIN--PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKN  556 (638)
T ss_pred             h---cCCchhhHHHHhhhhheeccchhhHHHHHHHhhhcCC--ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCC
Confidence            7   44443 4455667778999999999999999999887  9999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCCcccccc
Q 048090          403 VGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDVGCSWIE  444 (447)
Q Consensus       403 ~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~~  444 (447)
                      +-.-...+..+...+++++|+..++++++  +.|+......+
T Consensus       557 ~l~~~~~~~il~~~~~~~eal~~LEeLk~--~vP~es~v~~l  596 (638)
T KOG1126|consen  557 PLCKYHRASILFSLGRYVEALQELEELKE--LVPQESSVFAL  596 (638)
T ss_pred             chhHHHHHHHHHhhcchHHHHHHHHHHHH--hCcchHHHHHH
Confidence            99999999999999999999999999987  67776554433

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

Probab=99.70  E-value=1e-12  Score=113.30  Aligned_cols=383  Identities=10%  Similarity=0.012  Sum_probs=243.4

Q ss_pred             CcchHHHhhccCC---CCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHH
Q 048090           35 NLGTLTNCLKFLN---PRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAH  111 (447)
Q Consensus        35 ~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  111 (447)
                      ++..|.++|++..   ..+...|-.-+..=.+++.+..|..+|++....=+..| ..|.-.+..--..|++..|.++|+.
T Consensus        88 e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVd-qlWyKY~ymEE~LgNi~gaRqifer  166 (677)
T KOG1915|consen   88 EIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVD-QLWYKYIYMEEMLGNIAGARQIFER  166 (677)
T ss_pred             HHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHH-HHHHHHHHHHHHhcccHHHHHHHHH
Confidence            6788999999864   36677788888889999999999999999987533333 2344444444567999999999998


Q ss_pred             HHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCC--CCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHh-
Q 048090          112 VTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIP--VKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHF-  188 (447)
Q Consensus       112 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-  188 (447)
                      -.+  ..|+...|++.|+.=.+...++.|..++++..  .|++.+|-.....-.+.|+...|.++|+...+.  -.|.. 
T Consensus       167 W~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~--~~~d~~  242 (677)
T KOG1915|consen  167 WME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARSVYERAIEF--LGDDEE  242 (677)
T ss_pred             HHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH--hhhHHH
Confidence            887  58999999999999999999999999999865  789999988888888999999999999887764  12222 


Q ss_pred             ---hHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCC--hhHHHHHHHHHHhcCChHHHHHHHHh---h--hhhcccCC
Q 048090          189 ---TLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGND--VFMQSSLIEMYGKCGLVTKALQVFNL---A--GHRLEGEI  258 (447)
Q Consensus       189 ---~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~---~--~~~~~~~~  258 (447)
                         .+.+....-.+...++.|.-+|+-.+..   ++.+  ...|..+...--+-|+.....+..-.   +  ... -...
T Consensus       243 ~e~lfvaFA~fEe~qkE~ERar~iykyAld~---~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~-v~~n  318 (677)
T KOG1915|consen  243 AEILFVAFAEFEERQKEYERARFIYKYALDH---IPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKE-VSKN  318 (677)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh---cCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHH-HHhC
Confidence               2333333334566778888888887776   3333  34454444444455554444333210   0  000 0124


Q ss_pred             CcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH-------HHHHHHHHH---hccCcHHHHHHHHHHHHHhcC
Q 048090          259 NKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEV-------AFVTVISAC---SHTGQVKLGIEYFEWMVHDYK  328 (447)
Q Consensus       259 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~-------~~~~ll~~~---~~~~~~~~a~~~~~~~~~~~~  328 (447)
                      +.|-.+|--.+..-...|+.+...++|++.+.. ++|-..       .|.-+=-+|   ....+++.+.++++..++-  
T Consensus       319 p~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~l--  395 (677)
T KOG1915|consen  319 PYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLDL--  395 (677)
T ss_pred             CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh--
Confidence            556666666666666677777777777777654 344211       111111111   2355666666666666531  


Q ss_pred             CCCChhhHHHHHHHH----HHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchh
Q 048090          329 LEPGPEHYSCLVDLL----CRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVG  404 (447)
Q Consensus       329 ~~~~~~~~~~l~~~~----~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  404 (447)
                      ++....|+..+--+|    .++.++..|.+++..++..  .|.+. +|...+..-.+.++++....++++.++.+|.|..
T Consensus       396 IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~--cPK~K-lFk~YIelElqL~efDRcRkLYEkfle~~Pe~c~  472 (677)
T KOG1915|consen  396 IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGK--CPKDK-LFKGYIELELQLREFDRCRKLYEKFLEFSPENCY  472 (677)
T ss_pred             cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhcc--CCchh-HHHHHHHHHHHHhhHHHHHHHHHHHHhcChHhhH
Confidence            222344443333322    3455666666666655433  25333 3666666666666666666666666666666666


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 048090          405 IYVMLSNLYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       405 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~  432 (447)
                      +|...+..-...|+++.|..+|+-....
T Consensus       473 ~W~kyaElE~~LgdtdRaRaifelAi~q  500 (677)
T KOG1915|consen  473 AWSKYAELETSLGDTDRARAIFELAISQ  500 (677)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhcC
Confidence            6666666666666666666666655543

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.69  E-value=1.4e-13  Score=125.26  Aligned_cols=284  Identities=12%  Similarity=-0.029  Sum_probs=170.2

Q ss_pred             CCchhHHHHHHHHHHHcCCCCchhhHHHH-HHHHHccCChhhHHHHhccCCCC--chhhHH--HHHHHHHhcCCHHHHHH
Q 048090           99 VKDARFGKQVQAHVTKSGWLSSVFVGSAL-IDLYAKLLLIHDAELMFDEIPVK--NSVCAN--ALLSGYCEAKLWAGGLE  173 (447)
Q Consensus        99 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-~~~~~~~g~~~~a~~~~~~~~~~--~~~~~~--~l~~~~~~~~~~~~a~~  173 (447)
                      .|+++.|++.+....+..  +++..+..+ .....+.|+++.|.+.|.++.+.  +.....  .....+...|+++.|.+
T Consensus        97 eGd~~~A~k~l~~~~~~~--~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~~~~~~~~~l~~a~l~l~~g~~~~Al~  174 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHA--EQPVVNYLLAAEAAQQRGDEARANQHLERAAELADNDQLPVEITRVRIQLARNENHAARH  174 (398)
T ss_pred             CCCHHHHHHHHHHHHhcc--cchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHCCCHHHHHH
Confidence            456666665555443321  122222222 23335556666666666555422  221111  22445556666666666


Q ss_pred             HHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCCh------hHHHHHHHHHHhcCChHHHHHHH
Q 048090          174 LVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDV------FMQSSLIEMYGKCGLVTKALQVF  247 (447)
Q Consensus       174 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~g~~~~A~~~~  247 (447)
                      .++++.+.. +-+...+..+...+.+.|+++.|.+++..+.+... ..+..      .+|..++.......+.+...+++
T Consensus       175 ~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~-~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w  252 (398)
T PRK10747        175 GVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHV-GDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWW  252 (398)
T ss_pred             HHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            666665553 23444555556666666666666666666666521 11111      13333444444444556666666


Q ss_pred             HhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhc
Q 048090          248 NLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDY  327 (447)
Q Consensus       248 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  327 (447)
                      +.+...    .+.++.....+...+...|+.++|.+++++..+.  .|+....  ++.+....++.+++.+..+...+. 
T Consensus       253 ~~lp~~----~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~-  323 (398)
T PRK10747        253 KNQSRK----TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQ-  323 (398)
T ss_pred             HhCCHH----HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HHHhhccCCChHHHHHHHHHHHhh-
Confidence            654332    3456777777888888888888888888887773  4444222  233444558888888888888765 


Q ss_pred             CCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhC
Q 048090          328 KLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELD  399 (447)
Q Consensus       328 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  399 (447)
                       .+-|...+..+.+.+.+.|++++|.+.|+.+.+..  |++. .+..+..++...|+.++|.+++++.+...
T Consensus       324 -~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~--P~~~-~~~~La~~~~~~g~~~~A~~~~~~~l~~~  391 (398)
T PRK10747        324 -HGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQR--PDAY-DYAWLADALDRLHKPEEAAAMRRDGLMLT  391 (398)
T ss_pred             -CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHhhh
Confidence             23346667788888888888888888888888775  6444 37788888888888888888888887643

>TIGR00540 hemY_coli hemY protein

Probab=99.68  E-value=1.7e-13  Score=125.39  Aligned_cols=284  Identities=11%  Similarity=-0.082  Sum_probs=190.3

Q ss_pred             ccCChhhHHHHhccCCC--Cc-hhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHh--hHHHHHHHHhcCCcHHHHH
Q 048090          133 KLLLIHDAELMFDEIPV--KN-SVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHF--TLSALLRACAGLSAAEFGR  207 (447)
Q Consensus       133 ~~g~~~~a~~~~~~~~~--~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~  207 (447)
                      ..|+++.|++.+.+..+  |+ ...+-....+..+.|+++.|.+.+.+..+.  .|+..  ........+...|+++.|.
T Consensus        96 ~~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~--~p~~~l~~~~~~a~l~l~~~~~~~Al  173 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAEL--AGNDNILVEIARTRILLAQNELHAAR  173 (409)
T ss_pred             hCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCcCchHHHHHHHHHHHHCCCHHHHH
Confidence            46777777777766542  22 223344456667778888888888887654  24432  2333456667788888888


Q ss_pred             HHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHH----HHHHHHHhcCCHHHHHH
Q 048090          208 QVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWT----SMLGVYGRNGYFKEVIK  283 (447)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~----~l~~~~~~~g~~~~a~~  283 (447)
                      ..++.+.+..   +-+..+...+...+...|++++|.+.+..+.+.   + ..+...+.    .........+..++..+
T Consensus       174 ~~l~~l~~~~---P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~---~-~~~~~~~~~l~~~a~~~~l~~~~~~~~~~  246 (409)
T TIGR00540       174 HGVDKLLEMA---PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKA---G-LFDDEEFADLEQKAEIGLLDEAMADEGID  246 (409)
T ss_pred             HHHHHHHHhC---CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHc---C-CCCHHHHHHHHHHHHHHHHHHHHHhcCHH
Confidence            8888888863   335667778888888888888888888766543   1 22222221    11111122233333334


Q ss_pred             HHHHHHhCCC---CCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhh---HHHHHHHHHHcCCHHHHHHHHH
Q 048090          284 LYEAMLMNGT---KPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEH---YSCLVDLLCRAGELDKAWKLIN  357 (447)
Q Consensus       284 ~~~~m~~~~~---~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~g~~~~A~~~~~  357 (447)
                      .+..+.+...   +.+...+..+...+...|+.++|.+++++..+.   .|+...   .....-.....++.+.+.+.++
T Consensus       247 ~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~---~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e  323 (409)
T TIGR00540       247 GLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK---LGDDRAISLPLCLPIPRLKPEDNEKLEKLIE  323 (409)
T ss_pred             HHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh---CCCcccchhHHHHHhhhcCCCChHHHHHHHH
Confidence            4444444321   136778888888999999999999999999865   444331   1111122334578888999999


Q ss_pred             HHHhCCCCCCch--HhHHHHHHHHHhcCCccHHHHHHHH--HhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          358 EMLDRGHGSSSV--SMWGALLSACHDCGKFELGKLAAQK--ALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       358 ~~~~~~~~p~~~--~~~~~l~~~~~~~g~~~~a~~~~~~--~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      +..+..  |+++  ....+++..+.+.|++++|.+.|++  +.+..|++. .+..++..+.+.|+.++|.++|++...
T Consensus       324 ~~lk~~--p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~-~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       324 KQAKNV--DDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDAN-DLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             HHHHhC--CCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            888876  8888  7788999999999999999999994  555666544 466999999999999999999998654

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.

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.68  E-value=8.7e-13  Score=112.40  Aligned_cols=374  Identities=13%  Similarity=0.059  Sum_probs=251.5

Q ss_pred             CccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhc--cCCchhHH-HHHHHHHHHc------------
Q 048090           51 PLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTAST--SVKDARFG-KQVQAHVTKS------------  115 (447)
Q Consensus        51 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~--~~~~~~~a-~~~~~~~~~~------------  115 (447)
                      +.+=|.|+.. ...|.++++.-+|+.|.+.|+..+...-..+++..+  ...+..-| .+.|-.|...            
T Consensus       116 V~~E~nL~km-IS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK~G~  194 (625)
T KOG4422|consen  116 VETENNLLKM-ISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWKSGA  194 (625)
T ss_pred             hcchhHHHHH-HhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhcccccccccccccccc
Confidence            4456666665 557899999999999999998877766555555322  22221111 1112222211            


Q ss_pred             -------CCCCchhhHHHHHHHHHccCChhhHHHHhccCC----CCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCC
Q 048090          116 -------GWLSSVFVGSALIDLYAKLLLIHDAELMFDEIP----VKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLD  184 (447)
Q Consensus       116 -------~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  184 (447)
                             -.+.+..++.++|.++++-...+.|.+++++-.    +-+..+||.+|.+-.-.    ...+++.+|....+.
T Consensus       195 vAdL~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~----~~K~Lv~EMisqkm~  270 (625)
T KOG4422|consen  195 VADLLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYS----VGKKLVAEMISQKMT  270 (625)
T ss_pred             HHHHHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhh----ccHHHHHHHHHhhcC
Confidence                   135678899999999999999999999998876    33778888888764332    226788999999999


Q ss_pred             CcHhhHHHHHHHHhcCCcHHH----HHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHH-HHHHHHhhhh-h----c
Q 048090          185 YDHFTLSALLRACAGLSAAEF----GRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTK-ALQVFNLAGH-R----L  254 (447)
Q Consensus       185 ~~~~~~~~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~~-~----~  254 (447)
                      ||..|+++++++..+.|+++.    |.+++.+|.+.  |++|...+|..++..+++.+++.+ |..++..+.. .    .
T Consensus       271 Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKei--GVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~f  348 (625)
T KOG4422|consen  271 PNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEI--GVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTF  348 (625)
T ss_pred             CchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHh--CCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcc
Confidence            999999999999999997764    45677778887  899999999999999999888755 3333332221 1    1


Q ss_pred             ccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC----CCCC---HHHHHHHHHHHhccCcHHHHHHHHHHHHHhc
Q 048090          255 EGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNG----TKPD---EVAFVTVISACSHTGQVKLGIEYFEWMVHDY  327 (447)
Q Consensus       255 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~----~~p~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  327 (447)
                      ....+.|...|...|..|.+..+.+-|.++-.-+....    +.|+   ..-|..+....|.....+.-...|+.|... 
T Consensus       349 kp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~-  427 (625)
T KOG4422|consen  349 KPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPS-  427 (625)
T ss_pred             cCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc-
Confidence            12233355567777888888888888887766554321    2333   234667777888888889999999999876 


Q ss_pred             CCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcC-Ccc-HHHH-----------HHHH
Q 048090          328 KLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCG-KFE-LGKL-----------AAQK  394 (447)
Q Consensus       328 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g-~~~-~a~~-----------~~~~  394 (447)
                      -.-|+..+...++++..-.+.++-.-+++..++..|..-... .-.-++..+++.. ... -+.+           .+.+
T Consensus       428 ~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~-l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e  506 (625)
T KOG4422|consen  428 AYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSD-LREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKE  506 (625)
T ss_pred             eecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHH-HHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHH
Confidence            567888888888898888999999888888888776432221 1222333333332 110 0000           1111


Q ss_pred             Hhhh-------CCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 048090          395 ALEL-------DPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKG  433 (447)
Q Consensus       395 ~~~~-------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  433 (447)
                      ..+.       ..-.+...+..+..+.+.|++++|.+++.-+.+.+
T Consensus       507 ~~e~~~~R~r~~~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~  552 (625)
T KOG4422|consen  507 AYESQPIRQRAQDWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKH  552 (625)
T ss_pred             HHHhhHHHHHhccCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcC
Confidence            1111       11134556677777889999999999998886544

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

Probab=99.68  E-value=6.3e-13  Score=114.33  Aligned_cols=357  Identities=14%  Similarity=0.045  Sum_probs=238.6

Q ss_pred             CCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhH--HH
Q 048090           49 RNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVG--SA  126 (447)
Q Consensus        49 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~  126 (447)
                      .|+..+-...-.+.+.|..+.|.+.|...... .+-.-..|..|...+..       .++...... |.+.|....  -.
T Consensus       162 ~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~-~P~~W~AWleL~~lit~-------~e~~~~l~~-~l~~~~h~M~~~F  232 (559)
T KOG1155|consen  162 KDEFLLYLYGVVLKELGLLSLAIDSFVEVVNR-YPWFWSAWLELSELITD-------IEILSILVV-GLPSDMHWMKKFF  232 (559)
T ss_pred             chhHHHHHHHHHHHhhchHHHHHHHHHHHHhc-CCcchHHHHHHHHhhch-------HHHHHHHHh-cCcccchHHHHHH
Confidence            44444444444556678888888888877654 22233344444333322       222222322 222221111  22


Q ss_pred             HHHHHHccCChhhHHHHhccCCC----CchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCC--CcHhhHHHHHHHHhcC
Q 048090          127 LIDLYAKLLLIHDAELMFDEIPV----KNSVCANALLSGYCEAKLWAGGLELVRLMPALGLD--YDHFTLSALLRACAGL  200 (447)
Q Consensus       127 l~~~~~~~g~~~~a~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~  200 (447)
                      +..++....+.+++..-.+.+..    .+...-+....+.-...|+++|+.+|+++.+...-  .|..+|+.++-.-...
T Consensus       233 ~~~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~  312 (559)
T KOG1155|consen  233 LKKAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDK  312 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhh
Confidence            34555555666666655544432    12222333334445677899999999998876311  1566777766543221


Q ss_pred             CcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHH
Q 048090          201 SAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKE  280 (447)
Q Consensus       201 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  280 (447)
                      .    ....+.+-.-.  -.+-.+.|+..+.+-|.-.++.++|...|+++...    .+.....|+.|.+-|...++...
T Consensus       313 s----kLs~LA~~v~~--idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkL----Np~~~~aWTLmGHEyvEmKNt~A  382 (559)
T KOG1155|consen  313 S----KLSYLAQNVSN--IDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKL----NPKYLSAWTLMGHEYVEMKNTHA  382 (559)
T ss_pred             H----HHHHHHHHHHH--hccCCccceeeehhHHHHHHhHHHHHHHHHHHHhc----CcchhHHHHHhhHHHHHhcccHH
Confidence            1    12222222222  12235567788888888899999999999977665    55567789999999999999999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHH
Q 048090          281 VIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEM  359 (447)
Q Consensus       281 a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~  359 (447)
                      |.+.++..++-+ +-|-..|..|.++|.-.+.+.-|+-+|++..+   ++| |...|.+|.++|.+.++.++|+..|.+.
T Consensus       383 Ai~sYRrAvdi~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~---~kPnDsRlw~aLG~CY~kl~~~~eAiKCykra  458 (559)
T KOG1155|consen  383 AIESYRRAVDIN-PRDYRAWYGLGQAYEIMKMHFYALYYFQKALE---LKPNDSRLWVALGECYEKLNRLEEAIKCYKRA  458 (559)
T ss_pred             HHHHHHHHHhcC-chhHHHHhhhhHHHHHhcchHHHHHHHHHHHh---cCCCchHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence            999999998853 33778899999999999999999999998874   466 5889999999999999999999999999


Q ss_pred             HhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhh-------hCCCchhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 048090          360 LDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALE-------LDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMK  430 (447)
Q Consensus       360 ~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  430 (447)
                      ...|-  .+..++..|+..|-+.++.++|...+++.++       ..|....+..-|..-+.+.+++++|........
T Consensus       459 i~~~d--te~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~  534 (559)
T KOG1155|consen  459 ILLGD--TEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVL  534 (559)
T ss_pred             Hhccc--cchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHh
Confidence            88773  3456789999999999999999999998877       234445555567778888888888876555443

>TIGR00540 hemY_coli hemY protein

Probab=99.67  E-value=1.5e-13  Score=125.62  Aligned_cols=268  Identities=12%  Similarity=-0.025  Sum_probs=197.5

Q ss_pred             HhcCCHHHHHHHHHhhhhcCCCCcH-hhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChH
Q 048090          163 CEAKLWAGGLELVRLMPALGLDYDH-FTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVT  241 (447)
Q Consensus       163 ~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  241 (447)
                      ...|+++.|.+.+.+..+.  .|++ ..+.....+..+.|+.+.|.+.+.+..+..+  .+...+.......+...|+++
T Consensus        95 ~~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p--~~~l~~~~~~a~l~l~~~~~~  170 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAG--NDNILVEIARTRILLAQNELH  170 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC--cCchHHHHHHHHHHHHCCCHH
Confidence            4679999999999887765  3543 3344556777889999999999999987621  122234445688889999999


Q ss_pred             HHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH---hccCcHHHHHH
Q 048090          242 KALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISAC---SHTGQVKLGIE  318 (447)
Q Consensus       242 ~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~---~~~~~~~~a~~  318 (447)
                      .|...++.+...    .|.+...+..+...+.+.|++++|.+.+..+.+.++.++......-..++   ...+..+.+.+
T Consensus       171 ~Al~~l~~l~~~----~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~  246 (409)
T TIGR00540       171 AARHGVDKLLEM----APRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGID  246 (409)
T ss_pred             HHHHHHHHHHHh----CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHH
Confidence            999999987664    45577788999999999999999999999999987543332211111121   23333333444


Q ss_pred             HHHHHHHhcC--CCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhH--HHHHHHHHhcCCccHHHHHHHH
Q 048090          319 YFEWMVHDYK--LEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMW--GALLSACHDCGKFELGKLAAQK  394 (447)
Q Consensus       319 ~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~--~~l~~~~~~~g~~~~a~~~~~~  394 (447)
                      .+..+.+...  .+.+...+..+...+...|+.++|.+++++..+..  |++....  ..........++.+.+.+.+++
T Consensus       247 ~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~--pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~  324 (409)
T TIGR00540       247 GLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL--GDDRAISLPLCLPIPRLKPEDNEKLEKLIEK  324 (409)
T ss_pred             HHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC--CCcccchhHHHHHhhhcCCCChHHHHHHHHH
Confidence            5555554310  12378889999999999999999999999999976  6555321  2222233445788899999999


Q ss_pred             HhhhCCCch--hHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCCcc
Q 048090          395 ALELDPHNV--GIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDVGC  440 (447)
Q Consensus       395 ~~~~~~~~~--~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~  440 (447)
                      .++..|+++  ....++++.+.+.|++++|.+.|++.......||...
T Consensus       325 ~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~  372 (409)
T TIGR00540       325 QAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDAND  372 (409)
T ss_pred             HHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHH
Confidence            999999999  9999999999999999999999996555445676544

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.

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

Probab=99.66  E-value=5.2e-12  Score=109.09  Aligned_cols=407  Identities=9%  Similarity=-0.026  Sum_probs=304.8

Q ss_pred             cchhHHHhhhhhhhhHHHhhhhhhhhhcccccCCcchHHHhhccCCC--CCC-ccHHHHHHHHHhCCChhhHHHHHHHHH
Q 048090            2 VHAHQFETGLLLICLIIFQSRLMLPYTTCRHKKNLGTLTNCLKFLNP--RNP-LPFNVVISDFCRNGSPLYALKTFSFMH   78 (447)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~~--~~~-~~~~~l~~~~~~~~~~~~a~~~~~~m~   78 (447)
                      ||.+.+.-..   ++..+|-..+.+=.++.   .+..|..+|++...  |-+ ..|-..+..=-..|++..|.++|++..
T Consensus        95 v~ERALdvd~---r~itLWlkYae~Emknk---~vNhARNv~dRAvt~lPRVdqlWyKY~ymEE~LgNi~gaRqiferW~  168 (677)
T KOG1915|consen   95 VFERALDVDY---RNITLWLKYAEFEMKNK---QVNHARNVWDRAVTILPRVDQLWYKYIYMEEMLGNIAGARQIFERWM  168 (677)
T ss_pred             HHHHHHhccc---ccchHHHHHHHHHHhhh---hHhHHHHHHHHHHHhcchHHHHHHHHHHHHHHhcccHHHHHHHHHHH
Confidence            3444444332   33566766777666766   48889999998643  222 345555666667899999999999998


Q ss_pred             hcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCCCC------ch
Q 048090           79 VHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVK------NS  152 (447)
Q Consensus        79 ~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~------~~  152 (447)
                      +  ..|+...|.+.++.-.+.+.++.|..+|+..+-  +.|+...|--....=.++|.+..|..+|+...+.      +.
T Consensus       169 ~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~--~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~d~~~e  244 (677)
T KOG1915|consen  169 E--WEPDEQAWLSFIKFELRYKEIERARSIYERFVL--VHPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGDDEEAE  244 (677)
T ss_pred             c--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe--ecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhhHHHHH
Confidence            7  589999999999999999999999999999886  4599999988888888999999999999876521      34


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCc--HhhHHHHHHHHhcCCcHHHHHH--------HHHHHHHhhhcCCC
Q 048090          153 VCANALLSGYCEAKLWAGGLELVRLMPALGLDYD--HFTLSALLRACAGLSAAEFGRQ--------VHAYMIRKCCNLGN  222 (447)
Q Consensus       153 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~--------~~~~~~~~~~~~~~  222 (447)
                      ..+.++..--.++..++.|.-+|+-..+.- +.+  ...|......--+-|+....++        -++.+++.   .+.
T Consensus       245 ~lfvaFA~fEe~qkE~ERar~iykyAld~~-pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~---np~  320 (677)
T KOG1915|consen  245 ILFVAFAEFEERQKEYERARFIYKYALDHI-PKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSK---NPY  320 (677)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-CcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHh---CCC
Confidence            456666666667778889988888877652 222  2334444333333455443332        23444444   345


Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchh--hHHHHHH-----H---HHhcCCHHHHHHHHHHHHhCC
Q 048090          223 DVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVV--LWTSMLG-----V---YGRNGYFKEVIKLYEAMLMNG  292 (447)
Q Consensus       223 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~--~~~~l~~-----~---~~~~g~~~~a~~~~~~m~~~~  292 (447)
                      |-.+|-..+..-...|+.+...++|+++..-    +||-..  .|.-.|-     +   -....+.+.+.++|+..++. 
T Consensus       321 nYDsWfdylrL~e~~g~~~~Ire~yErAIan----vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~l-  395 (677)
T KOG1915|consen  321 NYDSWFDYLRLEESVGDKDRIRETYERAIAN----VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLDL-  395 (677)
T ss_pred             CchHHHHHHHHHHhcCCHHHHHHHHHHHHcc----CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh-
Confidence            6778888888888899999999999976553    555321  2222221     1   12468899999999999883 


Q ss_pred             CCCCHHHHHHHHHHH----hccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCc
Q 048090          293 TKPDEVAFVTVISAC----SHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSS  368 (447)
Q Consensus       293 ~~p~~~~~~~ll~~~----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~  368 (447)
                      ++....||.-+--.|    .++.++..|.+++...+   |..|...++...|..-.+.++++.+..++++.+.-+  |.+
T Consensus       396 IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI---G~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~--Pe~  470 (677)
T KOG1915|consen  396 IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI---GKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFS--PEN  470 (677)
T ss_pred             cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh---ccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcC--hHh
Confidence            344556666544433    46789999999999988   889999999999999999999999999999999987  999


Q ss_pred             hHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCC--chhHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 048090          369 VSMWGALLSACHDCGKFELGKLAAQKALELDPH--NVGIYVMLSNLYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       369 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  432 (447)
                      ..+|...+..-...|+.+.|..+|.-+++...-  ....|-..+..-...|.++.|..+++++.+.
T Consensus       471 c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~r  536 (677)
T KOG1915|consen  471 CYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDR  536 (677)
T ss_pred             hHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHh
Confidence            999999999999999999999999988874422  2446788888888999999999999999874

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.63  E-value=4.1e-13  Score=113.94  Aligned_cols=202  Identities=11%  Similarity=0.042  Sum_probs=167.7

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 048090          223 DVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVT  302 (447)
Q Consensus       223 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~  302 (447)
                      ....+..+...+...|++++|.+.++++...    .+.+...+..+...+...|++++|.+.+++..+.. +.+...+..
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~----~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~  104 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEH----DPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNN  104 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh----CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHH
Confidence            4566777888888999999999999876553    34556778888888999999999999999988764 335567777


Q ss_pred             HHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhc
Q 048090          303 VISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDC  382 (447)
Q Consensus       303 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~  382 (447)
                      +...+...|++++|...++++............+..+..++...|++++|...+++.....  |++...+..++..+...
T Consensus       105 ~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~  182 (234)
T TIGR02521       105 YGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID--PQRPESLLELAELYYLR  182 (234)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cCChHHHHHHHHHHHHc
Confidence            8888889999999999999987642222335567778888999999999999999998876  77777899999999999


Q ss_pred             CCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          383 GKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       383 g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      |++++|...++++.+..|.++..+..++..+...|+.++|..+.+.+..
T Consensus       183 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       183 GQYKDARAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            9999999999999998888888888999999999999999999888765

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.

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

Probab=99.63  E-value=2e-12  Score=111.10  Aligned_cols=374  Identities=12%  Similarity=0.026  Sum_probs=246.0

Q ss_pred             HHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCC------------CchhhH
Q 048090           57 VISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWL------------SSVFVG  124 (447)
Q Consensus        57 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~------------~~~~~~  124 (447)
                      +.-.+.+.|+++.|+..|+...+.  .|+..+-..++-++...|+.++..+.|..|+.....            |+....
T Consensus       282 igvtfiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll  359 (840)
T KOG2003|consen  282 IGVTFIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLL  359 (840)
T ss_pred             cCeeEEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHH
Confidence            334456777788888888777764  466555444444445567777777777777754222            222222


Q ss_pred             HHHH-----HHHHccC--ChhhHH----HHhccCCCCchh-------------hHH--------HHHHHHHhcCCHHHHH
Q 048090          125 SALI-----DLYAKLL--LIHDAE----LMFDEIPVKNSV-------------CAN--------ALLSGYCEAKLWAGGL  172 (447)
Q Consensus       125 ~~l~-----~~~~~~g--~~~~a~----~~~~~~~~~~~~-------------~~~--------~l~~~~~~~~~~~~a~  172 (447)
                      +..+     .-+.+.+  +.++++    ++..-+..|+-.             .+.        .-...+.+.|+++.|+
T Consensus       360 ~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~ai  439 (840)
T KOG2003|consen  360 NEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGAI  439 (840)
T ss_pred             HHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHHH
Confidence            2211     1111111  112221    111111222210             011        1124477899999999


Q ss_pred             HHHHhhhhcCCCCcHhhHHHH--HHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhh
Q 048090          173 ELVRLMPALGLDYDHFTLSAL--LRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLA  250 (447)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~~l--~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  250 (447)
                      ++++-+.+..-+.-...-+.|  +..+....++..|.++-+..+..+   .-++.....-.+.-...|++++|.+.+++.
T Consensus       440 eilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d---ryn~~a~~nkgn~~f~ngd~dka~~~ykea  516 (840)
T KOG2003|consen  440 EILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID---RYNAAALTNKGNIAFANGDLDKAAEFYKEA  516 (840)
T ss_pred             HHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc---ccCHHHhhcCCceeeecCcHHHHHHHHHHH
Confidence            999988765433222222222  222333457788888887776652   234444444555667789999999999955


Q ss_pred             hhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCC
Q 048090          251 GHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLE  330 (447)
Q Consensus       251 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  330 (447)
                      ..-    ....+.....+.-.+-..|+.++|++.|-++..- +..+..+...+...|....+...|++++-+...  -++
T Consensus       517 l~n----dasc~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~s--lip  589 (840)
T KOG2003|consen  517 LNN----DASCTEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQANS--LIP  589 (840)
T ss_pred             HcC----chHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcc--cCC
Confidence            321    2222333333445677899999999999887653 344777888889999999999999999988753  244


Q ss_pred             CChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHH
Q 048090          331 PGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLS  410 (447)
Q Consensus       331 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~  410 (447)
                      .|+.....|.+.|-+.|+-..|.+.+-+--+--  |.+..+..=|...|....=++++...|+++.-+.|........++
T Consensus       590 ~dp~ilskl~dlydqegdksqafq~~ydsyryf--p~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlmia  667 (840)
T KOG2003|consen  590 NDPAILSKLADLYDQEGDKSQAFQCHYDSYRYF--PCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLMIA  667 (840)
T ss_pred             CCHHHHHHHHHHhhcccchhhhhhhhhhccccc--CcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHHHH
Confidence            468899999999999999999999877665543  888888888888999999999999999999888886666556666


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCCCccccccc
Q 048090          411 NLYAKFCMWDEIGQLRELMKEKGLKKDVGCSWIEV  445 (447)
Q Consensus       411 ~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~~~  445 (447)
                      .++.+.|++++|.++++.... .+.-|..+..++|
T Consensus       668 sc~rrsgnyqka~d~yk~~hr-kfpedldclkflv  701 (840)
T KOG2003|consen  668 SCFRRSGNYQKAFDLYKDIHR-KFPEDLDCLKFLV  701 (840)
T ss_pred             HHHHhcccHHHHHHHHHHHHH-hCccchHHHHHHH
Confidence            677889999999999998854 4555655554444

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

Probab=99.62  E-value=2.8e-12  Score=105.38  Aligned_cols=298  Identities=13%  Similarity=0.094  Sum_probs=212.9

Q ss_pred             ccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcC-CCCc--hhhHHHHH
Q 048090           52 LPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSG-WLSS--VFVGSALI  128 (447)
Q Consensus        52 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~--~~~~~~l~  128 (447)
                      ..|-.=++.+. ..+.++|.++|-+|.+.+ +-+..+..++-+.+.+.|..+.|.++++.+.++. ++-+  ......|.
T Consensus        37 r~Yv~GlNfLL-s~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~  114 (389)
T COG2956          37 RDYVKGLNFLL-SNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLG  114 (389)
T ss_pred             HHHHhHHHHHh-hcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHH
Confidence            34444444443 567899999999998853 2345667788888999999999999999998752 1111  12334566


Q ss_pred             HHHHccCChhhHHHHhccCCCC---chhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHh----hHHHHHHHHhcCC
Q 048090          129 DLYAKLLLIHDAELMFDEIPVK---NSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHF----TLSALLRACAGLS  201 (447)
Q Consensus       129 ~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~~  201 (447)
                      .-|...|-+|.|+.+|..+...   -......|+..|-...+|++|+++-+++.+.+-.+...    -|.-+...+....
T Consensus       115 ~Dym~aGl~DRAE~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~  194 (389)
T COG2956         115 RDYMAAGLLDRAEDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASS  194 (389)
T ss_pred             HHHHHhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhh
Confidence            7788899999999999998753   34567788999999999999999999888775444322    3444555556678


Q ss_pred             cHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHH
Q 048090          202 AAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEV  281 (447)
Q Consensus       202 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  281 (447)
                      +.+.|..++.+..+.++   ..+..--.+.+.+...|+++.|.+.++.+.+.   +..--..+...+..+|.+.|+.++.
T Consensus       195 ~~d~A~~~l~kAlqa~~---~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQ---n~~yl~evl~~L~~~Y~~lg~~~~~  268 (389)
T COG2956         195 DVDRARELLKKALQADK---KCVRASIILGRVELAKGDYQKAVEALERVLEQ---NPEYLSEVLEMLYECYAQLGKPAEG  268 (389)
T ss_pred             hHHHHHHHHHHHHhhCc---cceehhhhhhHHHHhccchHHHHHHHHHHHHh---ChHHHHHHHHHHHHHHHHhCCHHHH
Confidence            88899999999888733   35556667788889999999999999866543   2223345677888899999999999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHH---HcCCHHHHHHHHHH
Q 048090          282 IKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLC---RAGELDKAWKLINE  358 (447)
Q Consensus       282 ~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~---~~g~~~~A~~~~~~  358 (447)
                      ...+.++.+....++  .-..+........-.+.|..++.+-..+   +|+...+..||+.-.   ..|...+.+.+++.
T Consensus       269 ~~fL~~~~~~~~g~~--~~l~l~~lie~~~G~~~Aq~~l~~Ql~r---~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~  343 (389)
T COG2956         269 LNFLRRAMETNTGAD--AELMLADLIELQEGIDAAQAYLTRQLRR---KPTMRGFHRLMDYHLADAEEGRAKESLDLLRD  343 (389)
T ss_pred             HHHHHHHHHccCCcc--HHHHHHHHHHHhhChHHHHHHHHHHHhh---CCcHHHHHHHHHhhhccccccchhhhHHHHHH
Confidence            999999888643333  3334444444455566777776666654   799888888888654   33456666777777


Q ss_pred             HHhC
Q 048090          359 MLDR  362 (447)
Q Consensus       359 ~~~~  362 (447)
                      |+..
T Consensus       344 mvge  347 (389)
T COG2956         344 MVGE  347 (389)
T ss_pred             HHHH
Confidence            7644

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

Probab=99.61  E-value=5.7e-12  Score=106.76  Aligned_cols=290  Identities=12%  Similarity=0.024  Sum_probs=224.6

Q ss_pred             cCChhhHHHHhccCCC---CchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHH
Q 048090          134 LLLIHDAELMFDEIPV---KNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVH  210 (447)
Q Consensus       134 ~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  210 (447)
                      .|++..|++...+-.+   .....|..-+.+.-+.|+.+.+-.++.+.-+.--.++...+.+........|+++.|..-.
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            6999999999877543   2344566666777888999999999999887533455566667777788899999999999


Q ss_pred             HHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcch-------hhHHHHHHHHHhcCCHHHHHH
Q 048090          211 AYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDV-------VLWTSMLGVYGRNGYFKEVIK  283 (447)
Q Consensus       211 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~g~~~~a~~  283 (447)
                      +++...   -+-++.+......+|.+.|++.....++..+.+.   +.-.+.       .+|..++.-....+..+.-..
T Consensus       177 ~~ll~~---~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka---~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~  250 (400)
T COG3071         177 DQLLEM---TPRHPEVLRLALRAYIRLGAWQALLAILPKLRKA---GLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKT  250 (400)
T ss_pred             HHHHHh---CcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHc---cCCChHHHHHHHHHHHHHHHHHHhccccchHHHH
Confidence            999887   3446778888999999999999999999866554   333332       245666666555666666666


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 048090          284 LYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRG  363 (447)
Q Consensus       284 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  363 (447)
                      .|+....+ .+-++..-.+++.-+...|+.++|.++..+..+. +..|+   ...+ -.+.+-++.+.-++..++-.+..
T Consensus       251 ~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~-~~D~~---L~~~-~~~l~~~d~~~l~k~~e~~l~~h  324 (400)
T COG3071         251 WWKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKR-QWDPR---LCRL-IPRLRPGDPEPLIKAAEKWLKQH  324 (400)
T ss_pred             HHHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHh-ccChh---HHHH-HhhcCCCCchHHHHHHHHHHHhC
Confidence            77776544 4556677778888889999999999999998877 55665   1122 23567788888888888877766


Q ss_pred             CCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCC
Q 048090          364 HGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDV  438 (447)
Q Consensus       364 ~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~  438 (447)
                        |+++..+.+|+..|.+.+.+.+|...++.+++..| +...|..++.++.+.|+..+|.+..++....-..|+.
T Consensus       325 --~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~-s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~~~~~~  396 (400)
T COG3071         325 --PEDPLLLSTLGRLALKNKLWGKASEALEAALKLRP-SASDYAELADALDQLGEPEEAEQVRREALLLTRQPNL  396 (400)
T ss_pred             --CCChhHHHHHHHHHHHhhHHHHHHHHHHHHHhcCC-ChhhHHHHHHHHHHcCChHHHHHHHHHHHHHhcCCCC
Confidence              77888999999999999999999999998888776 6778999999999999999999999988765555554

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.59  E-value=3.9e-13  Score=110.52  Aligned_cols=232  Identities=14%  Similarity=0.083  Sum_probs=200.2

Q ss_pred             hHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHH
Q 048090          189 TLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSM  268 (447)
Q Consensus       189 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l  268 (447)
                      --..+..+|.+.|.+..|++.++..++.    .|-+.+|..|-.+|.+..++..|+.+|.+-.+.    .|-++....-+
T Consensus       225 Wk~Q~gkCylrLgm~r~AekqlqssL~q----~~~~dTfllLskvY~ridQP~~AL~~~~~gld~----fP~~VT~l~g~  296 (478)
T KOG1129|consen  225 WKQQMGKCYLRLGMPRRAEKQLQSSLTQ----FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS----FPFDVTYLLGQ  296 (478)
T ss_pred             HHHHHHHHHHHhcChhhhHHHHHHHhhc----CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc----CCchhhhhhhh
Confidence            3446788999999999999999998886    467778899999999999999999999865553    55566666778


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCC
Q 048090          269 LGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGE  348 (447)
Q Consensus       269 ~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  348 (447)
                      ...+-..++.++|.++|+...+.. ..+.....++...|...++++.|..+++++.+- | .-++..|+.+.-+|.-.++
T Consensus       297 ARi~eam~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqm-G-~~speLf~NigLCC~yaqQ  373 (478)
T KOG1129|consen  297 ARIHEAMEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQM-G-AQSPELFCNIGLCCLYAQQ  373 (478)
T ss_pred             HHHHHHHHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHh-c-CCChHHHhhHHHHHHhhcc
Confidence            888899999999999999998864 446777778888899999999999999999876 5 3578889999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCCC-chHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHH
Q 048090          349 LDKAWKLINEMLDRGHGSS-SVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRE  427 (447)
Q Consensus       349 ~~~A~~~~~~~~~~~~~p~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  427 (447)
                      ++-++.-|++....--.|. ...+|..+.......||+..|.+.|+-++..++++...++.|+..-.+.|+.++|..+++
T Consensus       374 ~D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~ealnNLavL~~r~G~i~~Arsll~  453 (478)
T KOG1129|consen  374 IDLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGEALNNLAVLAARSGDILGARSLLN  453 (478)
T ss_pred             hhhhHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHHHHHhHHHHHhhcCchHHHHHHHH
Confidence            9999999999876643332 344699999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHH
Q 048090          428 LMKE  431 (447)
Q Consensus       428 ~m~~  431 (447)
                      ....
T Consensus       454 ~A~s  457 (478)
T KOG1129|consen  454 AAKS  457 (478)
T ss_pred             Hhhh
Confidence            8876

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

Probab=99.59  E-value=1e-11  Score=109.67  Aligned_cols=274  Identities=14%  Similarity=0.040  Sum_probs=215.4

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHH
Q 048090          151 NSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSL  230 (447)
Q Consensus       151 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l  230 (447)
                      ++........-+...+++.+..++.+...+.. ++....+..-|.++...|+..+-..+-.++++.   .|..+.+|-++
T Consensus       243 ~~dll~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~---yP~~a~sW~aV  318 (611)
T KOG1173|consen  243 NLDLLAEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL---YPSKALSWFAV  318 (611)
T ss_pred             cHHHHHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHh---CCCCCcchhhH
Confidence            45555566667778899999999999988764 556666666677888888888888888888887   45578889999


Q ss_pred             HHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcc
Q 048090          231 IEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHT  310 (447)
Q Consensus       231 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  310 (447)
                      .-.|...|+..+|.+.|.+...+    .+.-...|-.+..+|+-.|..++|+..+...-+.= +-....+--+.--|.+.
T Consensus       319 g~YYl~i~k~seARry~SKat~l----D~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~-~G~hlP~LYlgmey~~t  393 (611)
T KOG1173|consen  319 GCYYLMIGKYSEARRYFSKATTL----DPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLM-PGCHLPSLYLGMEYMRT  393 (611)
T ss_pred             HHHHHHhcCcHHHHHHHHHHhhc----CccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhc-cCCcchHHHHHHHHHHh
Confidence            99999999999999999987665    45556789999999999999999999988876641 11111222334457788


Q ss_pred             CcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhC----C-CCCCchHhHHHHHHHHHhcCC
Q 048090          311 GQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDR----G-HGSSSVSMWGALLSACHDCGK  384 (447)
Q Consensus       311 ~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~-~~p~~~~~~~~l~~~~~~~g~  384 (447)
                      ++.+.|.+.|....   ++.| |+...+-+.-.....+.+.+|..+|+..+..    + -.+....+++.|+.+|.+.+.
T Consensus       394 ~n~kLAe~Ff~~A~---ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~  470 (611)
T KOG1173|consen  394 NNLKLAEKFFKQAL---AIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNK  470 (611)
T ss_pred             ccHHHHHHHHHHHH---hcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhh
Confidence            99999999999887   5566 4667777776677788999999999887621    1 011234458999999999999


Q ss_pred             ccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCC
Q 048090          385 FELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDV  438 (447)
Q Consensus       385 ~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~  438 (447)
                      +++|+..+++++...|.+..++..++-.|...|+++.|++.|.+...  +.||-
T Consensus       471 ~~eAI~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~--l~p~n  522 (611)
T KOG1173|consen  471 YEEAIDYYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALA--LKPDN  522 (611)
T ss_pred             HHHHHHHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCcc
Confidence            99999999999999999999999999999999999999999987764  66664

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

Probab=99.58  E-value=2.2e-11  Score=103.25  Aligned_cols=284  Identities=15%  Similarity=0.026  Sum_probs=170.9

Q ss_pred             CCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCCCC----chhhHHHHHHHHHhcCCHHHHHHH
Q 048090           99 VKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVK----NSVCANALLSGYCEAKLWAGGLEL  174 (447)
Q Consensus        99 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~  174 (447)
                      .|++..|+.......+.+-.| ...|..-..+-...|+.+.+-.++.+..++    +...+-+..+.....|+.+.|..-
T Consensus        97 eG~~~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            355555555555544443221 222333334444455555555555444322    223333444445555555555555


Q ss_pred             HHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCC-------hhHHHHHHHHHHhcCChHHHHHHH
Q 048090          175 VRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGND-------VFMQSSLIEMYGKCGLVTKALQVF  247 (447)
Q Consensus       175 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~~~l~~~~~~~g~~~~A~~~~  247 (447)
                      +.++.+.+ +-.+........+|.+.|++.....+...+.+.  +.-.+       ..+|..+++-....+..+.-...+
T Consensus       176 v~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka--~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W  252 (400)
T COG3071         176 VDQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKA--GLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWW  252 (400)
T ss_pred             HHHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHc--cCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHH
Confidence            55555443 223344445555555555555555555555555  22222       234555666555555555555566


Q ss_pred             HhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhc
Q 048090          248 NLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDY  327 (447)
Q Consensus       248 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  327 (447)
                      +.....    ...++..-.+++.-+.+.|+.++|.++.++..+++..|+.    ...-.+.+.++.+.-++..++-.+..
T Consensus       253 ~~~pr~----lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L----~~~~~~l~~~d~~~l~k~~e~~l~~h  324 (400)
T COG3071         253 KNQPRK----LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRL----CRLIPRLRPGDPEPLIKAAEKWLKQH  324 (400)
T ss_pred             HhccHH----hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhH----HHHHhhcCCCCchHHHHHHHHHHHhC
Confidence            644333    4445666667777788888888888888888887666652    22234566777777777777776654


Q ss_pred             CCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhC
Q 048090          328 KLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELD  399 (447)
Q Consensus       328 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  399 (447)
                      +..  +..+.+|...|.+.+.+.+|.+.|+..++..  | +...|..+..++.+.|+.++|.+..++++..-
T Consensus       325 ~~~--p~L~~tLG~L~~k~~~w~kA~~~leaAl~~~--~-s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~  391 (400)
T COG3071         325 PED--PLLLSTLGRLALKNKLWGKASEALEAALKLR--P-SASDYAELADALDQLGEPEEAEQVRREALLLT  391 (400)
T ss_pred             CCC--hhHHHHHHHHHHHhhHHHHHHHHHHHHHhcC--C-ChhhHHHHHHHHHHcCChHHHHHHHHHHHHHh
Confidence            433  4677888888888888888888888877775  5 55558888888888888888888888887543

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

Probab=99.57  E-value=2e-11  Score=100.52  Aligned_cols=269  Identities=13%  Similarity=0.093  Sum_probs=173.8

Q ss_pred             CCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCC-CCch------hhHHHHHHHHHhcCCHHHH
Q 048090           99 VKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIP-VKNS------VCANALLSGYCEAKLWAGG  171 (447)
Q Consensus        99 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-~~~~------~~~~~l~~~~~~~~~~~~a  171 (447)
                      .++.++|.+.|-+|.+.. +-+..+..+|.+.|-+.|.+|.|+++-+.+. .||.      .....|..-|...|-+|.|
T Consensus        48 s~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRA  126 (389)
T COG2956          48 SNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRA  126 (389)
T ss_pred             hcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHH
Confidence            467888888888888743 3445566778888888899999988887766 3432      2344566678888888888


Q ss_pred             HHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCC----hhHHHHHHHHHHhcCChHHHHHHH
Q 048090          172 LELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGND----VFMQSSLIEMYGKCGLVTKALQVF  247 (447)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~  247 (447)
                      ..+|..+.+.+ ..-......|+..|-...+|++|.++-+++.+.+  -.+.    ...|.-|...+....+.+.|...+
T Consensus       127 E~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~--~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l  203 (389)
T COG2956         127 EDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLG--GQTYRVEIAQFYCELAQQALASSDVDRARELL  203 (389)
T ss_pred             HHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcC--CccchhHHHHHHHHHHHHHhhhhhHHHHHHHH
Confidence            88888887754 3344566778888888888888888888887762  1221    123445555555666777777777


Q ss_pred             HhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhc
Q 048090          248 NLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDY  327 (447)
Q Consensus       248 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  327 (447)
                      .+....    .+..+..--.+...+...|+++.|.+.++...+.+..--..+...|..+|...|++++....+..+.+. 
T Consensus       204 ~kAlqa----~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~-  278 (389)
T COG2956         204 KKALQA----DKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMET-  278 (389)
T ss_pred             HHHHhh----CccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHc-
Confidence            655443    344455555566667777777777777777776654444556666667777777777777777666543 


Q ss_pred             CCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHh
Q 048090          328 KLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHD  381 (447)
Q Consensus       328 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~  381 (447)
                        .++...-..+.+.-....-.+.|..++.+-+...  | +...+..++.....
T Consensus       279 --~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~--P-t~~gf~rl~~~~l~  327 (389)
T COG2956         279 --NTGADAELMLADLIELQEGIDAAQAYLTRQLRRK--P-TMRGFHRLMDYHLA  327 (389)
T ss_pred             --cCCccHHHHHHHHHHHhhChHHHHHHHHHHHhhC--C-cHHHHHHHHHhhhc
Confidence              3444444444444444444556666555555543  4 44445556555443

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.57  E-value=4.3e-13  Score=110.29  Aligned_cols=234  Identities=13%  Similarity=0.079  Sum_probs=207.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHH
Q 048090          155 ANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMY  234 (447)
Q Consensus       155 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~  234 (447)
                      -+.+.++|.+.|.+.+|.+.++.-.+.  .|-+.||..|-..|.+..+...|..++.+.+..   ++.++.....+...+
T Consensus       226 k~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~---fP~~VT~l~g~ARi~  300 (478)
T KOG1129|consen  226 KQQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS---FPFDVTYLLGQARIH  300 (478)
T ss_pred             HHHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc---CCchhhhhhhhHHHH
Confidence            367889999999999999999988876  677789999999999999999999999999886   566777778888999


Q ss_pred             HhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHH
Q 048090          235 GKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVK  314 (447)
Q Consensus       235 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~  314 (447)
                      -..++.++|.++++...+.    .+.++.....+...|.-.++++-|+..|+++.+.|+. +...|..+.-+|...++++
T Consensus       301 eam~~~~~a~~lYk~vlk~----~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D  375 (478)
T KOG1129|consen  301 EAMEQQEDALQLYKLVLKL----HPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQID  375 (478)
T ss_pred             HHHHhHHHHHHHHHHHHhc----CCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchh
Confidence            9999999999999977665    5667777888888899999999999999999999976 7788999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCC--hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHH
Q 048090          315 LGIEYFEWMVHDYKLEPG--PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAA  392 (447)
Q Consensus       315 ~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~  392 (447)
                      -++.-|++.... --.|+  ...|-.+.......|++..|.+.|+-.+..+  |++..+++.|.-.-.+.|+++.|..++
T Consensus       376 ~~L~sf~RAlst-at~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d--~~h~ealnNLavL~~r~G~i~~Arsll  452 (478)
T KOG1129|consen  376 LVLPSFQRALST-ATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD--AQHGEALNNLAVLAARSGDILGARSLL  452 (478)
T ss_pred             hhHHHHHHHHhh-ccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC--cchHHHHHhHHHHHhhcCchHHHHHHH
Confidence            999999998765 33454  5678888888889999999999999999888  888999999999999999999999999


Q ss_pred             HHHhhhCCC
Q 048090          393 QKALELDPH  401 (447)
Q Consensus       393 ~~~~~~~~~  401 (447)
                      +.+.+..|.
T Consensus       453 ~~A~s~~P~  461 (478)
T KOG1129|consen  453 NAAKSVMPD  461 (478)
T ss_pred             HHhhhhCcc
Confidence            999988886

>PRK12370 invasion protein regulator; Provisional

Probab=99.55  E-value=6e-12  Score=119.59  Aligned_cols=263  Identities=13%  Similarity=-0.015  Sum_probs=192.4

Q ss_pred             chhhHHHHHHHHHh-----cCCHHHHHHHHHhhhhcCCCCc-HhhHHHHHHHHh---------cCCcHHHHHHHHHHHHH
Q 048090          151 NSVCANALLSGYCE-----AKLWAGGLELVRLMPALGLDYD-HFTLSALLRACA---------GLSAAEFGRQVHAYMIR  215 (447)
Q Consensus       151 ~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~---------~~~~~~~a~~~~~~~~~  215 (447)
                      +...|...+++-..     .+++++|.+.|++..+.  .|+ ...|..+..++.         ..+++++|...+++.++
T Consensus       255 ~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~  332 (553)
T PRK12370        255 SIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATE  332 (553)
T ss_pred             ChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHh
Confidence            45556666665322     23467899999999876  454 445555544432         33568999999999998


Q ss_pred             hhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 048090          216 KCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKP  295 (447)
Q Consensus       216 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p  295 (447)
                      .+   +.+...+..+...+...|++++|...|+++...    .|.+...+..+..++...|++++|...+++..+.... 
T Consensus       333 ld---P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l----~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~-  404 (553)
T PRK12370        333 LD---HNNPQALGLLGLINTIHSEYIVGSLLFKQANLL----SPISADIKYYYGWNLFMAGQLEEALQTINECLKLDPT-  404 (553)
T ss_pred             cC---CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHh----CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-
Confidence            73   347788888999999999999999999987775    5556778888999999999999999999999986433 


Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHH
Q 048090          296 DEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGA  374 (447)
Q Consensus       296 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~  374 (447)
                      +...+..++..+...|++++|...++++...  ..| +...+..+..++...|++++|...+.++....  |.+....+.
T Consensus       405 ~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~--~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~--~~~~~~~~~  480 (553)
T PRK12370        405 RAAAGITKLWITYYHTGIDDAIRLGDELRSQ--HLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQE--ITGLIAVNL  480 (553)
T ss_pred             ChhhHHHHHHHHHhccCHHHHHHHHHHHHHh--ccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhcc--chhHHHHHH
Confidence            2223334444566789999999999998754  235 35567778888999999999999999987664  667777778


Q ss_pred             HHHHHHhcCCccHHHHHHHHHhhhC---CCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 048090          375 LLSACHDCGKFELGKLAAQKALELD---PHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKG  433 (447)
Q Consensus       375 l~~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  433 (447)
                      +...+...|+  .|...++++.+..   +.++..   +...|.-.|+.+.+... +++.+.+
T Consensus       481 l~~~~~~~g~--~a~~~l~~ll~~~~~~~~~~~~---~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        481 LYAEYCQNSE--RALPTIREFLESEQRIDNNPGL---LPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             HHHHHhccHH--HHHHHHHHHHHHhhHhhcCchH---HHHHHHHHhhhHHHHHH-HHhhccc
Confidence            8888888884  7888888777643   333333   44456667776666555 7777654

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

Probab=99.55  E-value=5.4e-11  Score=103.34  Aligned_cols=350  Identities=11%  Similarity=-0.026  Sum_probs=245.3

Q ss_pred             cCCcchHHHhhccCC--CCC-CccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCc-hhhHHHHHHHhccCCchhHHHH-
Q 048090           33 KKNLGTLTNCLKFLN--PRN-PLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLD-TYALCSSLTASTSVKDARFGKQ-  107 (447)
Q Consensus        33 ~~~~~~A~~~~~~~~--~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~-  107 (447)
                      .|++++|++.+.+..  .|| +..|.....+|...|+|+++.+--...++.  .|+ +..+..-.+++-..|++++|+. 
T Consensus       128 ~kkY~eAIkyY~~AI~l~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl--~P~Y~KAl~RRA~A~E~lg~~~eal~D  205 (606)
T KOG0547|consen  128 NKKYDEAIKYYTQAIELCPDEPIFYSNRAACYESLGDWEKVIEDCTKALEL--NPDYVKALLRRASAHEQLGKFDEALFD  205 (606)
T ss_pred             cccHHHHHHHHHHHHhcCCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhc--CcHHHHHHHHHHHHHHhhccHHHHHHh
Confidence            447999999999864  466 888999999999999999998887777764  444 2334444445555555555432 


Q ss_pred             ---------------------HHHHH--------HH-cC--CCCchhhHHHHHHHHHcc--------CC-----hhhHHH
Q 048090          108 ---------------------VQAHV--------TK-SG--WLSSVFVGSALIDLYAKL--------LL-----IHDAEL  142 (447)
Q Consensus       108 ---------------------~~~~~--------~~-~~--~~~~~~~~~~l~~~~~~~--------g~-----~~~a~~  142 (447)
                                           ++...        .+ .+  +-|+.....+..+.+...        ++     ..++.+
T Consensus       206 ~tv~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~~~~~~~~~ksDa~l~~~l~  285 (606)
T KOG0547|consen  206 VTVLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHADPKPLFDNKSDKSDAALAEALE  285 (606)
T ss_pred             hhHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhccccccccccCCCccchhhHHHHHH
Confidence                                 22111        11 11  223333333333322211        11     112222


Q ss_pred             HhccCC--------------------CC-----c------hhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHH
Q 048090          143 MFDEIP--------------------VK-----N------SVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLS  191 (447)
Q Consensus       143 ~~~~~~--------------------~~-----~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  191 (447)
                      .+..-.                    .+     |      ..+...-...+.-.|+...|..-|+..++....++ ..|.
T Consensus       286 ~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~~a~~d~~~~I~l~~~~~-~lyI  364 (606)
T KOG0547|consen  286 ALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSLGAQEDFDAAIKLDPAFN-SLYI  364 (606)
T ss_pred             HHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCchhhhhhHHHHHhcCcccc-hHHH
Confidence            221110                    01     1      11112222234456889999999999988643222 2377


Q ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHH
Q 048090          192 ALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGV  271 (447)
Q Consensus       192 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~  271 (447)
                      .+...|...++.++..+.|......+   +.++.+|..-.+.+.-.+++++|..=|++....    .|.++..|-.+..+
T Consensus       365 ~~a~~y~d~~~~~~~~~~F~~A~~ld---p~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L----~pe~~~~~iQl~~a  437 (606)
T KOG0547|consen  365 KRAAAYADENQSEKMWKDFNKAEDLD---PENPDVYYHRGQMRFLLQQYEEAIADFQKAISL----DPENAYAYIQLCCA  437 (606)
T ss_pred             HHHHHHhhhhccHHHHHHHHHHHhcC---CCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhc----ChhhhHHHHHHHHH
Confidence            78888999999999999999999874   346778888888888899999999999987765    56677788888888


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC-------hhh--HHHHHHH
Q 048090          272 YGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG-------PEH--YSCLVDL  342 (447)
Q Consensus       272 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~--~~~l~~~  342 (447)
                      .-+.+++++++..|++.++. ++--+..|+.....+...++++.|.+.|+....   +.|.       ...  --.++. 
T Consensus       438 ~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~---LE~~~~~~~v~~~plV~Ka~l~-  512 (606)
T KOG0547|consen  438 LYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIE---LEPREHLIIVNAAPLVHKALLV-  512 (606)
T ss_pred             HHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHh---hccccccccccchhhhhhhHhh-
Confidence            88999999999999999886 455678899999999999999999999999874   3444       111  112221 


Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhC
Q 048090          343 LCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELD  399 (447)
Q Consensus       343 ~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  399 (447)
                      +.-.+++..|.+++++.++.+  |....++..|...-.++|+.++|+++|++...+-
T Consensus       513 ~qwk~d~~~a~~Ll~KA~e~D--pkce~A~~tlaq~~lQ~~~i~eAielFEksa~lA  567 (606)
T KOG0547|consen  513 LQWKEDINQAENLLRKAIELD--PKCEQAYETLAQFELQRGKIDEAIELFEKSAQLA  567 (606)
T ss_pred             hchhhhHHHHHHHHHHHHccC--chHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence            113489999999999999988  8888899999999999999999999999987754

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

Probab=99.53  E-value=3.1e-11  Score=106.68  Aligned_cols=283  Identities=12%  Similarity=0.012  Sum_probs=224.1

Q ss_pred             CchhhHHHHHHHHHccCChhhHHHHhccCCCC---chhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHH
Q 048090          119 SSVFVGSALIDLYAKLLLIHDAELMFDEIPVK---NSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLR  195 (447)
Q Consensus       119 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  195 (447)
                      .+........+-+...+++.+..++++.+.+.   ....+..-|..+...|+..+-..+=.++.+. .+-.+.+|-++.-
T Consensus       242 ~~~dll~~~ad~~y~~c~f~~c~kit~~lle~dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aVg~  320 (611)
T KOG1173|consen  242 ENLDLLAEKADRLYYGCRFKECLKITEELLEKDPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAVGC  320 (611)
T ss_pred             hcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhCCCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhHHH
Confidence            34445555566677889999999999888744   4455666677888889988888877788776 2456678888888


Q ss_pred             HHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhc
Q 048090          196 ACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRN  275 (447)
Q Consensus       196 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  275 (447)
                      -|...|..++|.+.|.+....++.   -...|-.+..+|.-.|..|.|...+..+.+...    .....+--+..-|.+.
T Consensus       321 YYl~i~k~seARry~SKat~lD~~---fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~----G~hlP~LYlgmey~~t  393 (611)
T KOG1173|consen  321 YYLMIGKYSEARRYFSKATTLDPT---FGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMP----GCHLPSLYLGMEYMRT  393 (611)
T ss_pred             HHHHhcCcHHHHHHHHHHhhcCcc---ccHHHHHHhHHhhhcchHHHHHHHHHHHHHhcc----CCcchHHHHHHHHHHh
Confidence            888889999999999998876433   355889999999999999999999988766633    3333344566678889


Q ss_pred             CCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhc-CCCC----ChhhHHHHHHHHHHcCCH
Q 048090          276 GYFKEVIKLYEAMLMNGTKP-DEVAFVTVISACSHTGQVKLGIEYFEWMVHDY-KLEP----GPEHYSCLVDLLCRAGEL  349 (447)
Q Consensus       276 g~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~----~~~~~~~l~~~~~~~g~~  349 (447)
                      ++.+.|.++|.+....  .| |+..++-+.-.....+.+.+|..+|+.....- .+.+    -..+++.|..+|.+.+++
T Consensus       394 ~n~kLAe~Ff~~A~ai--~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~  471 (611)
T KOG1173|consen  394 NNLKLAEKFFKQALAI--APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKY  471 (611)
T ss_pred             ccHHHHHHHHHHHHhc--CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhH
Confidence            9999999999998874  44 66677777766677899999999999886320 1111    234578899999999999


Q ss_pred             HHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHH
Q 048090          350 DKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLY  413 (447)
Q Consensus       350 ~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  413 (447)
                      ++|+..+++.+...  |.+..++.+++-.|...|+++.|...|.+++-+.|+|..+-..|..+.
T Consensus       472 ~eAI~~~q~aL~l~--~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~lL~~ai  533 (611)
T KOG1173|consen  472 EEAIDYYQKALLLS--PKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISELLKLAI  533 (611)
T ss_pred             HHHHHHHHHHHHcC--CCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHHHHHHH
Confidence            99999999999887  899999999999999999999999999999999999977666665443

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.53  E-value=3.4e-11  Score=109.35  Aligned_cols=245  Identities=17%  Similarity=0.161  Sum_probs=184.8

Q ss_pred             cHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhh---hc-CCCChh-HHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCc
Q 048090          186 DHFTLSALLRACAGLSAAEFGRQVHAYMIRKC---CN-LGNDVF-MQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINK  260 (447)
Q Consensus       186 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~-~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  260 (447)
                      -..+...+...|...|+++.|+.+++..++.-   .| ..|... ..+.+...|...+++++|..+|+++.........+
T Consensus       198 ~~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~  277 (508)
T KOG1840|consen  198 RLRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGE  277 (508)
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCC
Confidence            34567778899999999999999999987751   11 123332 34457788999999999999999887765533222


Q ss_pred             ----chhhHHHHHHHHHhcCCHHHHHHHHHHHHhC-----CCC-CCH-HHHHHHHHHHhccCcHHHHHHHHHHHHHhcC-
Q 048090          261 ----DVVLWTSMLGVYGRNGYFKEVIKLYEAMLMN-----GTK-PDE-VAFVTVISACSHTGQVKLGIEYFEWMVHDYK-  328 (447)
Q Consensus       261 ----~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~-----~~~-p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-  328 (447)
                          -..+++.|..+|.+.|++++|...+++..+-     |.. |.. ..++.+...|+..+++++|..+++...+... 
T Consensus       278 ~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~  357 (508)
T KOG1840|consen  278 DHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLD  357 (508)
T ss_pred             CCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHh
Confidence                3456778888999999999988888776431     222 222 3466777788899999999999988765432 


Q ss_pred             -CCCC----hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCC------CCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhh
Q 048090          329 -LEPG----PEHYSCLVDLLCRAGELDKAWKLINEMLDRG------HGSSSVSMWGALLSACHDCGKFELGKLAAQKALE  397 (447)
Q Consensus       329 -~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~------~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  397 (447)
                       +.++    ..+++.|...|...|++++|.+++++++...      ..+.....++.|...|.+.+++++|.++|.+...
T Consensus       358 ~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~  437 (508)
T KOG1840|consen  358 APGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKD  437 (508)
T ss_pred             hccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHH
Confidence             2222    4678999999999999999999999986542      1122234588999999999999999999987765


Q ss_pred             h----C---CCchhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 048090          398 L----D---PHNVGIYVMLSNLYAKFCMWDEIGQLRELMK  430 (447)
Q Consensus       398 ~----~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  430 (447)
                      .    +   |....+|..|+..|.+.|++++|+++.+...
T Consensus       438 i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  438 IMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            3    2   4456789999999999999999999988775

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.51  E-value=3e-10  Score=104.21  Aligned_cols=404  Identities=13%  Similarity=0.019  Sum_probs=268.1

Q ss_pred             hhhhhHHHhhhhhhhhhcccccCCcchHHHhhccCCC---CCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCc-hh
Q 048090           12 LLICLIIFQSRLMLPYTTCRHKKNLGTLTNCLKFLNP---RNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLD-TY   87 (447)
Q Consensus        12 ~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~   87 (447)
                      ...-|..+|..|.-+.++||   +++.+-+.|++..+   .....|+.+...+...|.-..|+.+++........|+ ..
T Consensus       318 ~~qnd~ai~d~Lt~al~~~g---~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s  394 (799)
T KOG4162|consen  318 KFQNDAAIFDHLTFALSRCG---QFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDIS  394 (799)
T ss_pred             hhcchHHHHHHHHHHHHHHH---HHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcch
Confidence            33446789999999999998   59999999988654   3345688888999999999999999988765433343 34


Q ss_pred             hHHHHHHHhc-cCCchhHHHHHHHHHHHc--CC--CCchhhHHHHHHHHHccC-----------ChhhHHHHhccCC---
Q 048090           88 ALCSSLTAST-SVKDARFGKQVQAHVTKS--GW--LSSVFVGSALIDLYAKLL-----------LIHDAELMFDEIP---  148 (447)
Q Consensus        88 ~~~~ll~~~~-~~~~~~~a~~~~~~~~~~--~~--~~~~~~~~~l~~~~~~~g-----------~~~~a~~~~~~~~---  148 (447)
                      .+...-+.|. +.+..+++..+..+++..  +.  ...+..|..+.-+|...-           ...++.+.+++..   
T Consensus       395 ~~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d  474 (799)
T KOG4162|consen  395 VLLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFD  474 (799)
T ss_pred             HHHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcC
Confidence            4444444454 447778888777777662  11  122334444444443221           1234556666553   


Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHH
Q 048090          149 VKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQS  228 (447)
Q Consensus       149 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  228 (447)
                      ..|+...-.+.--|+..++.+.|.+..++..+.+-..+...|..+.-.+...+++..|+.+.+.....-   +.|-....
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 PTDPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEF---GDNHVLMD  551 (799)
T ss_pred             CCCchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHh---hhhhhhch
Confidence            224444334444567788999999999999887656788888888888888999999999999888762   22222222


Q ss_pred             HHHHHHHhcCChHHHHHHHHhhhhhcc------------------c------CCCc-chhhHHHHHHHHHhcC---CHHH
Q 048090          229 SLIEMYGKCGLVTKALQVFNLAGHRLE------------------G------EINK-DVVLWTSMLGVYGRNG---YFKE  280 (447)
Q Consensus       229 ~l~~~~~~~g~~~~A~~~~~~~~~~~~------------------~------~~~~-~~~~~~~l~~~~~~~g---~~~~  280 (447)
                      .-++.-...++.++++.....+...-+                  .      +.+. ...++.-+..-....+   ..+.
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            222233334555555444332211100                  0      0001 1111221111111000   0011


Q ss_pred             HHHHHHHHHhCCCCC--C------HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHH
Q 048090          281 VIKLYEAMLMNGTKP--D------EVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKA  352 (447)
Q Consensus       281 a~~~~~~m~~~~~~p--~------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  352 (447)
                      .      +...-+.|  +      ...|......+.+.+..++|..-+.+..+.  .+.....|......+...|.+++|
T Consensus       632 ~------Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~--~~l~~~~~~~~G~~~~~~~~~~EA  703 (799)
T KOG4162|consen  632 K------LPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKI--DPLSASVYYLRGLLLEVKGQLEEA  703 (799)
T ss_pred             c------cCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhc--chhhHHHHHHhhHHHHHHHhhHHH
Confidence            0      11111122  2      123445566777888899998887777642  344577788888889999999999


Q ss_pred             HHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHH--HHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 048090          353 WKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKL--AAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMK  430 (447)
Q Consensus       353 ~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~--~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  430 (447)
                      .+.|......+  |+++.+..+++.++.+.|+...|..  ++..+++.+|.++.+|..++..+.+.|+.++|.+.|....
T Consensus       704 ~~af~~Al~ld--P~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~  781 (799)
T KOG4162|consen  704 KEAFLVALALD--PDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAAL  781 (799)
T ss_pred             HHHHHHHHhcC--CCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHH
Confidence            99999999887  9999999999999999999888888  9999999999999999999999999999999999999887


Q ss_pred             H
Q 048090          431 E  431 (447)
Q Consensus       431 ~  431 (447)
                      +
T Consensus       782 q  782 (799)
T KOG4162|consen  782 Q  782 (799)
T ss_pred             h
Confidence            6

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.50  E-value=3e-11  Score=102.41  Aligned_cols=200  Identities=12%  Similarity=0.083  Sum_probs=122.6

Q ss_pred             hhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHH
Q 048090          188 FTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTS  267 (447)
Q Consensus       188 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  267 (447)
                      ..+..+...+...|++++|...+++..+..   +.+...+..+...+...|++++|.+.+++....    .+.+...+..
T Consensus        32 ~~~~~la~~~~~~~~~~~A~~~~~~~l~~~---p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~----~~~~~~~~~~  104 (234)
T TIGR02521        32 KIRVQLALGYLEQGDLEVAKENLDKALEHD---PDDYLAYLALALYYQQLGELEKAEDSFRRALTL----NPNNGDVLNN  104 (234)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC---cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh----CCCCHHHHHH
Confidence            344455555556666666666666665541   223455555666666666666666666654443    2334455556


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHc
Q 048090          268 MLGVYGRNGYFKEVIKLYEAMLMNGTKP-DEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRA  346 (447)
Q Consensus       268 l~~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  346 (447)
                      +...+...|++++|...+++.......| ....+..+..++...|++++|...+++....  .+.+...+..+...+...
T Consensus       105 ~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~  182 (234)
T TIGR02521       105 YGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQI--DPQRPESLLELAELYYLR  182 (234)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCChHHHHHHHHHHHHc
Confidence            6666666667777776666666532112 2344555666667777777777777777643  122355666677777777


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhh
Q 048090          347 GELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALEL  398 (447)
Q Consensus       347 g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  398 (447)
                      |++++|...+++.....  |++...+..++..+...|+.+.|..+.+.+...
T Consensus       183 ~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       183 GQYKDARAYLERYQQTY--NQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             CCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            77777777777776653  555666666777777777777777776666544

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

>PRK12370 invasion protein regulator; Provisional

Probab=99.50  E-value=1.1e-11  Score=117.71  Aligned_cols=232  Identities=11%  Similarity=-0.045  Sum_probs=179.6

Q ss_pred             cHhhHHHHHHHHh-----cCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHH---------hcCChHHHHHHHHhhh
Q 048090          186 DHFTLSALLRACA-----GLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYG---------KCGLVTKALQVFNLAG  251 (447)
Q Consensus       186 ~~~~~~~l~~~~~-----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~---------~~g~~~~A~~~~~~~~  251 (447)
                      +...|...+.+..     ..+++++|...|++.++.+|+   +...+..+..++.         ..+++++|...++++.
T Consensus       255 ~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ldP~---~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al  331 (553)
T PRK12370        255 SIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMSPN---SIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKAT  331 (553)
T ss_pred             ChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcCCc---cHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHH
Confidence            3444555555421     234578999999999987433   4556666665554         2345889999999877


Q ss_pred             hhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC
Q 048090          252 HRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEP  331 (447)
Q Consensus       252 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  331 (447)
                      ..    .+.+...+..+...+...|++++|...|++..+.+ +.+...+..+..++...|++++|...++++.+.   .|
T Consensus       332 ~l----dP~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l---~P  403 (553)
T PRK12370        332 EL----DHNNPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKL---DP  403 (553)
T ss_pred             hc----CCCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CC
Confidence            65    56678888899999999999999999999999864 224667888888999999999999999999854   56


Q ss_pred             Ch-hhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHH
Q 048090          332 GP-EHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLS  410 (447)
Q Consensus       332 ~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~  410 (447)
                      +. ..+..++..+...|++++|...++++.... .|+++..+..+..++...|++++|...++++....|.+......+.
T Consensus       404 ~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~-~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~  482 (553)
T PRK12370        404 TRAAAGITKLWITYYHTGIDDAIRLGDELRSQH-LQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLY  482 (553)
T ss_pred             CChhhHHHHHHHHHhccCHHHHHHHHHHHHHhc-cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHH
Confidence            53 333444555777899999999999988664 2556666888999999999999999999998888888888888888


Q ss_pred             HHHHhcCChHHHHHHHHHHHH
Q 048090          411 NLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       411 ~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      ..|...|  ++|...++.+.+
T Consensus       483 ~~~~~~g--~~a~~~l~~ll~  501 (553)
T PRK12370        483 AEYCQNS--ERALPTIREFLE  501 (553)
T ss_pred             HHHhccH--HHHHHHHHHHHH
Confidence            8888888  478887777765

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.49  E-value=1.3e-09  Score=92.96  Aligned_cols=296  Identities=13%  Similarity=-0.046  Sum_probs=209.9

Q ss_pred             CchhHHHHHHHHHHHc-CCCCchhhHHHHHHHHHccCChhhHHHHhccCCCCchhhHH---HHHHHHHhcCCHHHHHHHH
Q 048090          100 KDARFGKQVQAHVTKS-GWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCAN---ALLSGYCEAKLWAGGLELV  175 (447)
Q Consensus       100 ~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~---~l~~~~~~~~~~~~a~~~~  175 (447)
                      ++...+.+.+-.+... -++.+......+..++...|+.++|+-.|++...-|+.+..   ...-.+.+.|+.+....+.
T Consensus       210 ~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~MD~Ya~LL~~eg~~e~~~~L~  289 (564)
T KOG1174|consen  210 FKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAMDLYAVLLGQEGGCEQDSALM  289 (564)
T ss_pred             cccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhhHHHHHHHHHhccCHhhHHHHH
Confidence            4444444443333322 25667778888889999999999999999887644433322   2233455778888887777


Q ss_pred             HhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcc
Q 048090          176 RLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLE  255 (447)
Q Consensus       176 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  255 (447)
                      ..+.... +-+...|-.-.......++++.|..+-++.++.+   +.+...+-.-...+...|++++|.-.|+.+...  
T Consensus       290 ~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~---~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~L--  363 (564)
T KOG1174|consen  290 DYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSE---PRNHEALILKGRLLIALERHTQAVIAFRTAQML--  363 (564)
T ss_pred             HHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccC---cccchHHHhccHHHHhccchHHHHHHHHHHHhc--
Confidence            7765432 1222222222333445678888888888887763   235556666667788899999999999877664  


Q ss_pred             cCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH-HHHh-ccCcHHHHHHHHHHHHHhcCCCCC-
Q 048090          256 GEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVI-SACS-HTGQVKLGIEYFEWMVHDYKLEPG-  332 (447)
Q Consensus       256 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll-~~~~-~~~~~~~a~~~~~~~~~~~~~~~~-  332 (447)
                        .|-+..+|.-++.+|...|++.+|...-+..... .+.+..+...+. ..|. ...--++|..++++-.   .+.|+ 
T Consensus       364 --ap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L---~~~P~Y  437 (564)
T KOG1174|consen  364 --APYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSL---KINPIY  437 (564)
T ss_pred             --chhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhh---ccCCcc
Confidence              4567889999999999999999998887776654 344666666553 3333 3334577888888776   45776 


Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHH
Q 048090          333 PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLS  410 (447)
Q Consensus       333 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~  410 (447)
                      ...-+.+...+...|+.+.+..++++.+..-  | |....+.|+..+...+.+.+|...|..+++.+|.+..+..-|-
T Consensus       438 ~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~--~-D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~~~~sl~Gl~  512 (564)
T KOG1174|consen  438 TPAVNLIAELCQVEGPTKDIIKLLEKHLIIF--P-DVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPKSKRTLRGLR  512 (564)
T ss_pred             HHHHHHHHHHHHhhCccchHHHHHHHHHhhc--c-ccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCccchHHHHHHH
Confidence            5666778888899999999999999988764  5 5555999999999999999999999999999998876655443

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.45  E-value=5.1e-09  Score=94.35  Aligned_cols=126  Identities=10%  Similarity=-0.022  Sum_probs=63.2

Q ss_pred             ccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcC------CCCchhhHH
Q 048090           52 LPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSG------WLSSVFVGS  125 (447)
Q Consensus        52 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~  125 (447)
                      ..|...+......+-++-+..+|++.++.    ++..-...+..+++.+++++|.+.+...+...      .+.+...|.
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            34555555555555555555555555442    12223444455555555555555555543211      122333333


Q ss_pred             HHHHHHHccCC---hhhHHHHhccCCCC--c--hhhHHHHHHHHHhcCCHHHHHHHHHhhhhc
Q 048090          126 ALIDLYAKLLL---IHDAELMFDEIPVK--N--SVCANALLSGYCEAKLWAGGLELVRLMPAL  181 (447)
Q Consensus       126 ~l~~~~~~~g~---~~~a~~~~~~~~~~--~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  181 (447)
                      .+.+..++.-+   --....+++.+...  |  ...|+.|..-|.+.|.+++|..+|++....
T Consensus       215 elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~  277 (835)
T KOG2047|consen  215 ELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQT  277 (835)
T ss_pred             HHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHh
Confidence            33333333211   11122233333211  2  235888888889999999988888887654

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.45  E-value=1.6e-11  Score=96.40  Aligned_cols=200  Identities=11%  Similarity=0.030  Sum_probs=157.6

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 048090          225 FMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVI  304 (447)
Q Consensus       225 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll  304 (447)
                      .+...|.-.|...|+...|..-+++..+.    .|.+..+|..+...|.+.|+.+.|.+-|++...... -+..+.|...
T Consensus        36 ~arlqLal~YL~~gd~~~A~~nlekAL~~----DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p-~~GdVLNNYG  110 (250)
T COG3063          36 KARLQLALGYLQQGDYAQAKKNLEKALEH----DPSYYLAHLVRAHYYQKLGENDLADESYRKALSLAP-NNGDVLNNYG  110 (250)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHh----CcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCC-Cccchhhhhh
Confidence            35666777888888998888888877665    566677888888888888988888888888887532 2556777777


Q ss_pred             HHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCC
Q 048090          305 SACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGK  384 (447)
Q Consensus       305 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  384 (447)
                      .-+|..|++++|.+.|++...+....--..+|..+.-+..+.|+++.|.+.|++.++..  |+...+...+.....+.|+
T Consensus       111 ~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d--p~~~~~~l~~a~~~~~~~~  188 (250)
T COG3063         111 AFLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD--PQFPPALLELARLHYKAGD  188 (250)
T ss_pred             HHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC--cCCChHHHHHHHHHHhccc
Confidence            77888888888988888888763333336778888888888888889998888888877  7777778888888888888


Q ss_pred             ccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          385 FELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       385 ~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      +..|...++......+.+.......++.-.+.|+.+.+-+.=.++..
T Consensus       189 y~~Ar~~~~~~~~~~~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r  235 (250)
T COG3063         189 YAPARLYLERYQQRGGAQAESLLLGIRIAKRLGDRAAAQRYQAQLQR  235 (250)
T ss_pred             chHHHHHHHHHHhcccccHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            88888888888887777888888888888888888777665554443

>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=99.41  E-value=5.1e-10  Score=103.01  Aligned_cols=263  Identities=14%  Similarity=0.092  Sum_probs=180.9

Q ss_pred             HHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhc--
Q 048090          160 SGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKC--  237 (447)
Q Consensus       160 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--  237 (447)
                      ..+...|++++|++.+++-... +......+......+.+.|+.++|..++..+++.+   +.+..-|..+..+..-.  
T Consensus        12 ~il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN---Pdn~~Yy~~L~~~~g~~~~   87 (517)
T PF12569_consen   12 SILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN---PDNYDYYRGLEEALGLQLQ   87 (517)
T ss_pred             HHHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC---CCcHHHHHHHHHHHhhhcc
Confidence            4456677888888877664443 23333445556666777788888888888887762   23444555555554222  


Q ss_pred             ---CChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCH-HHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcH
Q 048090          238 ---GLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYF-KEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQV  313 (447)
Q Consensus       238 ---g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~  313 (447)
                         .+.+....+++++...     -|.......+.-.+.....+ ..+...+..+...|+++   +|+.|-..|....+.
T Consensus        88 ~~~~~~~~~~~~y~~l~~~-----yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs---lF~~lk~Ly~d~~K~  159 (517)
T PF12569_consen   88 LSDEDVEKLLELYDELAEK-----YPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPS---LFSNLKPLYKDPEKA  159 (517)
T ss_pred             cccccHHHHHHHHHHHHHh-----CccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCch---HHHHHHHHHcChhHH
Confidence               2456667777765443     23322222222222222223 34556677777888653   566666666666666


Q ss_pred             HHHHHHHHHHHHhc-------------CCCCChh--hHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHH
Q 048090          314 KLGIEYFEWMVHDY-------------KLEPGPE--HYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSA  378 (447)
Q Consensus       314 ~~a~~~~~~~~~~~-------------~~~~~~~--~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~  378 (447)
                      +...+++.......             .-+|+..  ++.-+...|...|++++|++++++.+...  |..+..|..-+..
T Consensus       160 ~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~ht--Pt~~ely~~Kari  237 (517)
T PF12569_consen  160 AIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHT--PTLVELYMTKARI  237 (517)
T ss_pred             HHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC--CCcHHHHHHHHHH
Confidence            66666666654321             1134443  34556778889999999999999999987  9899999999999


Q ss_pred             HHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 048090          379 CHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKK  436 (447)
Q Consensus       379 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p  436 (447)
                      +-..|++.+|...++.+.++++.|..+-+..+..+.++|+.++|.+++..+...+..|
T Consensus       238 lKh~G~~~~Aa~~~~~Ar~LD~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~  295 (517)
T PF12569_consen  238 LKHAGDLKEAAEAMDEARELDLADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDP  295 (517)
T ss_pred             HHHCCCHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCc
Confidence            9999999999999999999999999999999999999999999999999998766533

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.41  E-value=3.9e-10  Score=88.79  Aligned_cols=202  Identities=13%  Similarity=0.061  Sum_probs=101.6

Q ss_pred             HHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHH
Q 048090          190 LSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSML  269 (447)
Q Consensus       190 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~  269 (447)
                      ...+.-.|.+.|+...|.+-+++.++.   -+.+..++..+...|.+.|+.+.|.+.|++...+    .+.+..+.|...
T Consensus        38 rlqLal~YL~~gd~~~A~~nlekAL~~---DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl----~p~~GdVLNNYG  110 (250)
T COG3063          38 RLQLALGYLQQGDYAQAKKNLEKALEH---DPSYYLAHLVRAHYYQKLGENDLADESYRKALSL----APNNGDVLNNYG  110 (250)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHh---CcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhc----CCCccchhhhhh
Confidence            333444455555555555555555554   2333445555555555555555555555554443    344445555555


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcC
Q 048090          270 GVYGRNGYFKEVIKLYEAMLMNGTKP-DEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG-PEHYSCLVDLLCRAG  347 (447)
Q Consensus       270 ~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g  347 (447)
                      .-+|..|++++|...|++....-.-| -..||..+.-+..+.|+++.|..+|++..+.   .|+ ......+.+...+.|
T Consensus       111 ~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~---dp~~~~~~l~~a~~~~~~~  187 (250)
T COG3063         111 AFLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALEL---DPQFPPALLELARLHYKAG  187 (250)
T ss_pred             HHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHh---CcCCChHHHHHHHHHHhcc
Confidence            55555555555555555555431111 2234555555555555555555555555532   232 334445555555555


Q ss_pred             CHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCch
Q 048090          348 ELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNV  403 (447)
Q Consensus       348 ~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  403 (447)
                      ++..|..+++.....+.  ....+.-..+..-...|+-+.+.+.=.+..+..|.+.
T Consensus       188 ~y~~Ar~~~~~~~~~~~--~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~fP~s~  241 (250)
T COG3063         188 DYAPARLYLERYQQRGG--AQAESLLLGIRIAKRLGDRAAAQRYQAQLQRLFPYSE  241 (250)
T ss_pred             cchHHHHHHHHHHhccc--ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcH
Confidence            55555555555555442  2333344444555555555555554444444444433

>PF13041 PPR_2: PPR repeat family

Probab=99.41  E-value=6.3e-13  Score=81.28  Aligned_cols=50  Identities=28%  Similarity=0.436  Sum_probs=43.7

Q ss_pred             CCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhcc
Q 048090           49 RNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTS   98 (447)
Q Consensus        49 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~   98 (447)
                      ||+.+||++|.+|++.|++++|.++|++|.+.|++||..||+.+|++|++
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            68888888888888888888888888888888888888888888888864

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.40  E-value=3.3e-10  Score=98.78  Aligned_cols=235  Identities=10%  Similarity=-0.056  Sum_probs=161.5

Q ss_pred             hcCCHHHHHHHHHhhhhcC-CCCc--HhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCCh
Q 048090          164 EAKLWAGGLELVRLMPALG-LDYD--HFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLV  240 (447)
Q Consensus       164 ~~~~~~~a~~~~~~~~~~~-~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  240 (447)
                      ..+..+.++.-+.++.... ..|+  ...|..+...+...|++++|...|++.++..   +.+...|+.+...+...|++
T Consensus        38 ~~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~---P~~~~a~~~lg~~~~~~g~~  114 (296)
T PRK11189         38 PTLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR---PDMADAYNYLGIYLTQAGNF  114 (296)
T ss_pred             CchHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC---CCCHHHHHHHHHHHHHCCCH
Confidence            3466777888888877542 2222  3457777778888999999999999998873   34678899999999999999


Q ss_pred             HHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHH
Q 048090          241 TKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYF  320 (447)
Q Consensus       241 ~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~  320 (447)
                      ++|...|++....    .+.+..+|..+..++...|++++|.+.|++..+.  .|+..........+...+++++|...|
T Consensus       115 ~~A~~~~~~Al~l----~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l  188 (296)
T PRK11189        115 DAAYEAFDSVLEL----DPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENL  188 (296)
T ss_pred             HHHHHHHHHHHHh----CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHH
Confidence            9999999977664    4445677888888888999999999999998875  444322222222344567899999999


Q ss_pred             HHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhC---C--CCCCchHhHHHHHHHHHhcCCccHHHHHHHHH
Q 048090          321 EWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDR---G--HGSSSVSMWGALLSACHDCGKFELGKLAAQKA  395 (447)
Q Consensus       321 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~--~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  395 (447)
                      .+....  ..|+...+ .  ......|+..++ +.+..+.+.   .  ..|....+|..++..+.+.|++++|...|+++
T Consensus       189 ~~~~~~--~~~~~~~~-~--~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~A  262 (296)
T PRK11189        189 KQRYEK--LDKEQWGW-N--IVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLA  262 (296)
T ss_pred             HHHHhh--CCccccHH-H--HHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            776543  23332222 2  223345665444 344444321   1  11344567899999999999999999999999


Q ss_pred             hhhCCC-chhHHHHHHHHH
Q 048090          396 LELDPH-NVGIYVMLSNLY  413 (447)
Q Consensus       396 ~~~~~~-~~~~~~~l~~~~  413 (447)
                      ++.+|+ .+.....++...
T Consensus       263 l~~~~~~~~e~~~~~~e~~  281 (296)
T PRK11189        263 LANNVYNFVEHRYALLELA  281 (296)
T ss_pred             HHhCCchHHHHHHHHHHHH
Confidence            999875 444444455443

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.40  E-value=3.9e-10  Score=98.29  Aligned_cols=94  Identities=15%  Similarity=0.098  Sum_probs=48.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHH
Q 048090          226 MQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKP-DEVAFVTVI  304 (447)
Q Consensus       226 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~ll  304 (447)
                      .|..+...|...|+.++|...|++....    .+.+...|+.+...+...|++++|...|++..+.  .| +..++..+.
T Consensus        66 ~~~~~g~~~~~~g~~~~A~~~~~~Al~l----~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l--~P~~~~a~~~lg  139 (296)
T PRK11189         66 LHYERGVLYDSLGLRALARNDFSQALAL----RPDMADAYNYLGIYLTQAGNFDAAYEAFDSVLEL--DPTYNYAYLNRG  139 (296)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHc----CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            3444555555555555555555544432    3334455555555555555555555555555543  22 234444444


Q ss_pred             HHHhccCcHHHHHHHHHHHHH
Q 048090          305 SACSHTGQVKLGIEYFEWMVH  325 (447)
Q Consensus       305 ~~~~~~~~~~~a~~~~~~~~~  325 (447)
                      .++...|++++|.+.|++..+
T Consensus       140 ~~l~~~g~~~eA~~~~~~al~  160 (296)
T PRK11189        140 IALYYGGRYELAQDDLLAFYQ  160 (296)
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
Confidence            455555555555555555543

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

Probab=99.39  E-value=6.7e-09  Score=93.76  Aligned_cols=385  Identities=12%  Similarity=0.023  Sum_probs=204.4

Q ss_pred             CCcchHHHhhccCC---CCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHH
Q 048090           34 KNLGTLTNCLKFLN---PRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQA  110 (447)
Q Consensus        34 ~~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  110 (447)
                      |+.++|........   ..+.+.|..+.-.+-...++++|++.|.....-+ +-|...+.-+.-.-++.|+++.......
T Consensus        55 g~~~ea~~~vr~glr~d~~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~~tr~  133 (700)
T KOG1156|consen   55 GKKEEAYELVRLGLRNDLKSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGYLETRN  133 (700)
T ss_pred             cchHHHHHHHHHHhccCcccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHHHHHH
Confidence            34555555544332   2344555555555555566666666666665532 2233444444444455556655555555


Q ss_pred             HHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCC-----CCchhhHHHH------HHHHHhcCCHHHHHHHHHhhh
Q 048090          111 HVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIP-----VKNSVCANAL------LSGYCEAKLWAGGLELVRLMP  179 (447)
Q Consensus       111 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-----~~~~~~~~~l------~~~~~~~~~~~~a~~~~~~~~  179 (447)
                      +..+.. +.....|..+..++.-.|+...|..++++..     .++...|...      .......|..++|.+.+..-.
T Consensus       134 ~LLql~-~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e  212 (700)
T KOG1156|consen  134 QLLQLR-PSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNE  212 (700)
T ss_pred             HHHHhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhh
Confidence            555431 2223344455555555566666655554433     1222222111      122344555555555554433


Q ss_pred             hcCCCCcHhhH-HHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHH-HHHHhhhhhcccC
Q 048090          180 ALGLDYDHFTL-SALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKAL-QVFNLAGHRLEGE  257 (447)
Q Consensus       180 ~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~-~~~~~~~~~~~~~  257 (447)
                      ..  ..|...+ ..-...+.+.+++++|..++..++..   .+.+...|..+..++.+..+.-+++ .+|......    
T Consensus       213 ~~--i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~r---nPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~----  283 (700)
T KOG1156|consen  213 KQ--IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLER---NPDNLDYYEGLEKALGKIKDMLEALKALYAILSEK----  283 (700)
T ss_pred             hH--HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhh---CchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhc----
Confidence            22  1122221 12233345556666666666666665   1223333333334443222222222 444433221    


Q ss_pred             CCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhc-C--------
Q 048090          258 INKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDY-K--------  328 (447)
Q Consensus       258 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~--------  328 (447)
                      .+.....-..=++......-.+..-.++..+.+.|+++   ++..+...|-.....+-..++...+.... |        
T Consensus       284 y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~---vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D  360 (700)
T KOG1156|consen  284 YPRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPS---VFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLD  360 (700)
T ss_pred             CcccccchhccHHHhCcchhHHHHHHHHHHHhhcCCCc---hhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCccc
Confidence            11111111111111111122333445566666777654   33333333332222221111111111100 1        


Q ss_pred             ----CCCChhhH--HHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCc
Q 048090          329 ----LEPGPEHY--SCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHN  402 (447)
Q Consensus       329 ----~~~~~~~~--~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  402 (447)
                          -+|....|  -.++..+-+.|+++.|..+++..+..-  |.-+..|..-.+.+...|++++|..+++++.+++-+|
T Consensus       361 ~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdHT--PTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aD  438 (700)
T KOG1156|consen  361 DGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDHT--PTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTAD  438 (700)
T ss_pred             ccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccC--chHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchh
Confidence                14555554  456778889999999999999999875  8888888888899999999999999999999999888


Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 048090          403 VGIYVMLSNLYAKFCMWDEIGQLRELMKEKGL  434 (447)
Q Consensus       403 ~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  434 (447)
                      ..+-.--+.-..++++.++|.++...+...|.
T Consensus       439 R~INsKcAKYmLrAn~i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  439 RAINSKCAKYMLRANEIEEAEEVLSKFTREGF  470 (700)
T ss_pred             HHHHHHHHHHHHHccccHHHHHHHHHhhhccc
Confidence            87777778888899999999999999887764

>PF13041 PPR_2: PPR repeat family

Probab=99.38  E-value=1.9e-12  Score=79.12  Aligned_cols=50  Identities=30%  Similarity=0.602  Sum_probs=42.9

Q ss_pred             cchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc
Q 048090          260 KDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSH  309 (447)
Q Consensus       260 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  309 (447)
                      ||+.+||++|.+|++.|++++|.++|++|.+.|+.||..||+.+|++|++
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            67888888888888888888888888888888888888888888888864

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

Probab=99.37  E-value=1.7e-10  Score=107.27  Aligned_cols=254  Identities=11%  Similarity=0.000  Sum_probs=148.1

Q ss_pred             HHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCCCCc
Q 048090           72 KTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKN  151 (447)
Q Consensus        72 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  151 (447)
                      .+|-.+...|+.|+..||..+|.-||..|+++.|- +|.-|.-...+.+...++.++.+...+++.+.+.       +|.
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-------ep~   82 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-------EPL   82 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-------CCc
Confidence            46677888899999999999999999999999988 8888888888888889999999888888888776       778


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHh-hh-------hcCCCCcHhhHHHHHHHH--------------hcCCcHHHHHHH
Q 048090          152 SVCANALLSGYCEAKLWAGGLELVRL-MP-------ALGLDYDHFTLSALLRAC--------------AGLSAAEFGRQV  209 (447)
Q Consensus       152 ~~~~~~l~~~~~~~~~~~~a~~~~~~-~~-------~~~~~~~~~~~~~l~~~~--------------~~~~~~~~a~~~  209 (447)
                      ..+|..|..+|...||... ++..++ |.       ..|+.....-+-..++++              .-.|-++.+.++
T Consensus        83 aDtyt~Ll~ayr~hGDli~-fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkl  161 (1088)
T KOG4318|consen   83 ADTYTNLLKAYRIHGDLIL-FEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKL  161 (1088)
T ss_pred             hhHHHHHHHHHHhccchHH-HHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHH
Confidence            8899999999999998765 333332 21       122211111111111111              111222222222


Q ss_pred             HHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 048090          210 HAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAML  289 (447)
Q Consensus       210 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  289 (447)
                      +..+.... ..  .+...  +++-....  ..-..++.+......   ..|+..+|.+.+.+-...|+.+.|..++.+|+
T Consensus       162 l~~~Pvsa-~~--~p~~v--fLrqnv~~--ntpvekLl~~cksl~---e~~~s~~l~a~l~~alaag~~d~Ak~ll~emk  231 (1088)
T KOG4318|consen  162 LAKVPVSA-WN--APFQV--FLRQNVVD--NTPVEKLLNMCKSLV---EAPTSETLHAVLKRALAAGDVDGAKNLLYEMK  231 (1088)
T ss_pred             HhhCCccc-cc--chHHH--HHHHhccC--CchHHHHHHHHHHhh---cCCChHHHHHHHHHHHhcCchhhHHHHHHHHH
Confidence            22211110 00  00000  11111111  111222222111110   14666666666666666666666766777776


Q ss_pred             hCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCC
Q 048090          290 MNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGE  348 (447)
Q Consensus       290 ~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  348 (447)
                      +.|++.+..-|-.|+-+   .++...+..++.-|... |+.|+..|+...+..+...|.
T Consensus       232 e~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~-gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  232 EKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEK-GVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             HcCCCcccccchhhhhc---CccchHHHHHHHHHHHh-cCCCCcchhHHHHHhhhcchh
Confidence            66666666655555544   55666666666666555 666666666665555555443

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.37  E-value=8e-11  Score=104.56  Aligned_cols=224  Identities=14%  Similarity=0.061  Sum_probs=184.0

Q ss_pred             HhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcC
Q 048090          197 CAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNG  276 (447)
Q Consensus       197 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  276 (447)
                      +.+.|++.+|.-.|+..++.+|   -+...|..|.......++-..|+..+.+..+.    .+.+......|.-+|...|
T Consensus       295 lm~nG~L~~A~LafEAAVkqdP---~haeAW~~LG~~qaENE~E~~ai~AL~rcl~L----dP~NleaLmaLAVSytNeg  367 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQDP---QHAEAWQKLGITQAENENEQNAISALRRCLEL----DPTNLEALMALAVSYTNEG  367 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhCh---HHHHHHHHhhhHhhhccchHHHHHHHHHHHhc----CCccHHHHHHHHHHHhhhh
Confidence            4577889999999999999843   47889999999999999999999999877775    5667888888999999999


Q ss_pred             CHHHHHHHHHHHHhCCCC--------CCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCC
Q 048090          277 YFKEVIKLYEAMLMNGTK--------PDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGE  348 (447)
Q Consensus       277 ~~~~a~~~~~~m~~~~~~--------p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  348 (447)
                      .-..|++.++.-+....+        ++...-..  ..+.....+....++|-++....+..+|+.+...|.-.|--.|+
T Consensus       368 ~q~~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~e  445 (579)
T KOG1125|consen  368 LQNQALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGE  445 (579)
T ss_pred             hHHHHHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchH
Confidence            999999999888664311        00000000  12233334556667777776665666788888889888999999


Q ss_pred             HHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHH
Q 048090          349 LDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLREL  428 (447)
Q Consensus       349 ~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  428 (447)
                      +++|...|+.++...  |+|..+|+.|+..++...+.++|+..|++++++.|.-+++...|+..|...|.+++|.+.|-.
T Consensus       446 fdraiDcf~~AL~v~--Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~  523 (579)
T KOG1125|consen  446 FDRAVDCFEAALQVK--PNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLE  523 (579)
T ss_pred             HHHHHHHHHHHHhcC--CchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHH
Confidence            999999999999877  999999999999999999999999999999999999999999999999999999999988776


Q ss_pred             HHH
Q 048090          429 MKE  431 (447)
Q Consensus       429 m~~  431 (447)
                      .+.
T Consensus       524 AL~  526 (579)
T KOG1125|consen  524 ALS  526 (579)
T ss_pred             HHH
Confidence            654

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.37  E-value=1.9e-10  Score=104.54  Aligned_cols=244  Identities=14%  Similarity=0.096  Sum_probs=182.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhhhhc-----C-CCCcHhhHH-HHHHHHhcCCcHHHHHHHHHHHHHhhh-----cCC
Q 048090          154 CANALLSGYCEAKLWAGGLELVRLMPAL-----G-LDYDHFTLS-ALLRACAGLSAAEFGRQVHAYMIRKCC-----NLG  221 (447)
Q Consensus       154 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~  221 (447)
                      +...+...|...|+++.|..+++...+.     | ..|...+.. .+...|...+++++|..+|+.+.....     ..+
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            4555889999999999999999887654     2 134443333 366778899999999999999987521     222


Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHHhhhhhccc---CCCcchh-hHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCC
Q 048090          222 NDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEG---EINKDVV-LWTSMLGVYGRNGYFKEVIKLYEAMLMN---GTK  294 (447)
Q Consensus       222 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~---~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~m~~~---~~~  294 (447)
                      .-..+++.|...|.+.|++++|...++.+......   ...|.+. .++.+...++..+++++|..+++...+.   -+.
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            23457788888999999999999999877665443   2233333 3667778889999999999999876543   122


Q ss_pred             CC----HHHHHHHHHHHhccCcHHHHHHHHHHHHHhc----C-CCCC-hhhHHHHHHHHHHcCCHHHHHHHHHHHHh---
Q 048090          295 PD----EVAFVTVISACSHTGQVKLGIEYFEWMVHDY----K-LEPG-PEHYSCLVDLLCRAGELDKAWKLINEMLD---  361 (447)
Q Consensus       295 p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~----~-~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---  361 (447)
                      ++    ..+++.|...|...|++++|.+++++++...    + ..+. ...++.|...|.+.++..+|.++|.+...   
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            22    4679999999999999999999999987642    1 1222 45678888999999999999999888543   


Q ss_pred             -CCC-CCCchHhHHHHHHHHHhcCCccHHHHHHHHHhh
Q 048090          362 -RGH-GSSSVSMWGALLSACHDCGKFELGKLAAQKALE  397 (447)
Q Consensus       362 -~~~-~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  397 (447)
                       .|. .|+...+|..|+..|...|+++.|.++.+.+..
T Consensus       441 ~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  441 LCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence             231 144556799999999999999999999998875

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

Probab=99.35  E-value=2.1e-09  Score=100.15  Aligned_cols=213  Identities=17%  Similarity=0.060  Sum_probs=132.4

Q ss_pred             CcchhHHHhhhhhhhhHHHhhhhhhhhhcccccCCcchHHHhhccCCCC----CCccHHHHHHHHHhCCChhhHHHHHHH
Q 048090            1 NVHAHQFETGLLLICLIIFQSRLMLPYTTCRHKKNLGTLTNCLKFLNPR----NPLPFNVVISDFCRNGSPLYALKTFSF   76 (447)
Q Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~   76 (447)
                      |+|+-+...|+.|++  ++|.+++.-|+..|   +++.|- +|..|.-.    +...++.++.+..+.++.+.+.     
T Consensus        11 nfla~~e~~gi~PnR--vtyqsLiarYc~~g---dieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-----   79 (1088)
T KOG4318|consen   11 NFLALHEISGILPNR--VTYQSLIARYCTKG---DIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-----   79 (1088)
T ss_pred             hHHHHHHHhcCCCch--hhHHHHHHHHcccC---CCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-----
Confidence            467888889998765  99999999999988   587776 77766421    2334555555555555544443     


Q ss_pred             HHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHH-------cC-----------------CCCchhhHHHHHHHHH
Q 048090           77 MHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTK-------SG-----------------WLSSVFVGSALIDLYA  132 (447)
Q Consensus        77 m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-------~~-----------------~~~~~~~~~~l~~~~~  132 (447)
                            .|...||..++.+|...||+.....+-+.+..       .|                 .-||..   ..+....
T Consensus        80 ------ep~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~---n~illlv  150 (1088)
T KOG4318|consen   80 ------EPLADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAE---NAILLLV  150 (1088)
T ss_pred             ------CCchhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHH---HHHHHHH
Confidence                  34455555555555555554332111111110       11                 011111   1111112


Q ss_pred             ccCChhhHHHHh---------------------------------ccCC-CCchhhHHHHHHHHHhcCCHHHHHHHHHhh
Q 048090          133 KLLLIHDAELMF---------------------------------DEIP-VKNSVCANALLSGYCEAKLWAGGLELVRLM  178 (447)
Q Consensus       133 ~~g~~~~a~~~~---------------------------------~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  178 (447)
                      -.|-++.+++++                                 .... .++..+|.+++.+-..+|+.+.|..++.+|
T Consensus       151 ~eglwaqllkll~~~Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~em  230 (1088)
T KOG4318|consen  151 LEGLWAQLLKLLAKVPVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEM  230 (1088)
T ss_pred             HHHHHHHHHHHHhhCCcccccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHH
Confidence            222222222222                                 2222 267888999999999999999999999999


Q ss_pred             hhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcC
Q 048090          179 PALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCG  238 (447)
Q Consensus       179 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  238 (447)
                      .+.|++.+.+-|-.++-+   .++...++.++.-|...  |+.|+..|+...+..+..+|
T Consensus       231 ke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~--gv~p~seT~adyvip~l~N~  285 (1088)
T KOG4318|consen  231 KEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEK--GVQPGSETQADYVIPQLSNG  285 (1088)
T ss_pred             HHcCCCcccccchhhhhc---CccchHHHHHHHHHHHh--cCCCCcchhHHHHHhhhcch
Confidence            999988888777666654   67778888888888887  78888888776666555533

>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=99.35  E-value=2.9e-09  Score=98.19  Aligned_cols=292  Identities=13%  Similarity=0.063  Sum_probs=179.4

Q ss_pred             HHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHcc----
Q 048090           59 SDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKL----  134 (447)
Q Consensus        59 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----  134 (447)
                      ..+...|++++|++.++.-... +......+......+.+.|+.++|..+|+.+++.+ |.+..-|..+..+..-.    
T Consensus        12 ~il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN-Pdn~~Yy~~L~~~~g~~~~~~   89 (517)
T PF12569_consen   12 SILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN-PDNYDYYRGLEEALGLQLQLS   89 (517)
T ss_pred             HHHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHhhhcccc
Confidence            4456678888888888665443 33233445556667778888888888888888875 33333444444444222    


Q ss_pred             -CChhhHHHHhccCCCC--chhhHHHHHHHHHhcCCH-HHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHH
Q 048090          135 -LLIHDAELMFDEIPVK--NSVCANALLSGYCEAKLW-AGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVH  210 (447)
Q Consensus       135 -g~~~~a~~~~~~~~~~--~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  210 (447)
                       .+.+...++++++...  .......+.-.+.....+ ..+...+..+...|+++   +|..+-..|......+-..+++
T Consensus        90 ~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs---lF~~lk~Ly~d~~K~~~i~~l~  166 (517)
T PF12569_consen   90 DEDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPS---LFSNLKPLYKDPEKAAIIESLV  166 (517)
T ss_pred             cccHHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCch---HHHHHHHHHcChhHHHHHHHHH
Confidence             2455566666665421  111111111111111122 23445566677777644   4555656666555555556666


Q ss_pred             HHHHHhhh------------cCCCCh--hHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcC
Q 048090          211 AYMIRKCC------------NLGNDV--FMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNG  276 (447)
Q Consensus       211 ~~~~~~~~------------~~~~~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  276 (447)
                      ........            .-+|+.  .++.-+.+.|...|++++|++++++....    .|..+..|..-...+-..|
T Consensus       167 ~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h----tPt~~ely~~KarilKh~G  242 (517)
T PF12569_consen  167 EEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH----TPTLVELYMTKARILKHAG  242 (517)
T ss_pred             HHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc----CCCcHHHHHHHHHHHHHCC
Confidence            66554310            112333  34456677788889999999999877664    4444677888888888899


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhh------H--HHHHHHHHHcCC
Q 048090          277 YFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEH------Y--SCLVDLLCRAGE  348 (447)
Q Consensus       277 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~------~--~~l~~~~~~~g~  348 (447)
                      ++.+|.+.++..+..... |-..=+..+..+.+.|++++|.+++....+. +..|....      |  .....+|.+.|+
T Consensus       243 ~~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~-~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~  320 (517)
T PF12569_consen  243 DLKEAAEAMDEARELDLA-DRYINSKCAKYLLRAGRIEEAEKTASLFTRE-DVDPLSNLNDMQCMWFETECAEAYLRQGD  320 (517)
T ss_pred             CHHHHHHHHHHHHhCChh-hHHHHHHHHHHHHHCCCHHHHHHHHHhhcCC-CCCcccCHHHHHHHHHHHHHHHHHHHHhh
Confidence            999999999888876432 5555566667778889999999888887654 43332221      2  344567888888


Q ss_pred             HHHHHHHHHHHHh
Q 048090          349 LDKAWKLINEMLD  361 (447)
Q Consensus       349 ~~~A~~~~~~~~~  361 (447)
                      +..|+..|....+
T Consensus       321 ~~~ALk~~~~v~k  333 (517)
T PF12569_consen  321 YGLALKRFHAVLK  333 (517)
T ss_pred             HHHHHHHHHHHHH
Confidence            8888877665543

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 [], [].

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=99.32  E-value=8.5e-09  Score=86.04  Aligned_cols=293  Identities=12%  Similarity=0.048  Sum_probs=157.8

Q ss_pred             HHHHHHccCChhhHHHHhccCCCCchhhHHHHH---HHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHH-HHHHHHhcCCc
Q 048090          127 LIDLYAKLLLIHDAELMFDEIPVKNSVCANALL---SGYCEAKLWAGGLELVRLMPALGLDYDHFTLS-ALLRACAGLSA  202 (447)
Q Consensus       127 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~---~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~  202 (447)
                      +...+...|++.+|+.-|....+-|+..|.++.   ..|...|+...|+.-+.+..+.  +||-..-. .-...+.+.|.
T Consensus        44 lGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~vllK~Ge  121 (504)
T KOG0624|consen   44 LGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGVVLLKQGE  121 (504)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhchhhhhccc
Confidence            344444455555555555555555554444442   3355555555555555555543  44432111 11223445566


Q ss_pred             HHHHHHHHHHHHHhhhcCCCChhHH------------HHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHH
Q 048090          203 AEFGRQVHAYMIRKCCNLGNDVFMQ------------SSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLG  270 (447)
Q Consensus       203 ~~~a~~~~~~~~~~~~~~~~~~~~~------------~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~  270 (447)
                      ++.|..=|+.+++..|+.......+            ...+..+.-.|+...|+..+..+.+.    .+-|...+..-..
T Consensus       122 le~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi----~~Wda~l~~~Rak  197 (504)
T KOG0624|consen  122 LEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEI----QPWDASLRQARAK  197 (504)
T ss_pred             HHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhc----CcchhHHHHHHHH
Confidence            6666666666555532111111111            12233344556666666666655553    4556666666666


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHH----HH-------
Q 048090          271 VYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYS----CL-------  339 (447)
Q Consensus       271 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----~l-------  339 (447)
                      +|...|++..|+.-++...+.. .-+..++.-+-..+...|+.+.++...++.+   .+.|+....-    .|       
T Consensus       198 c~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECL---KldpdHK~Cf~~YKklkKv~K~l  273 (504)
T KOG0624|consen  198 CYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECL---KLDPDHKLCFPFYKKLKKVVKSL  273 (504)
T ss_pred             HHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHH---ccCcchhhHHHHHHHHHHHHHHH
Confidence            7777777777666666554432 2233444445555556666666666665555   3455533211    11       


Q ss_pred             --HHHHHHcCCHHHHHHHHHHHHhCCCCCC----chHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHH
Q 048090          340 --VDLLCRAGELDKAWKLINEMLDRGHGSS----SVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLY  413 (447)
Q Consensus       340 --~~~~~~~g~~~~A~~~~~~~~~~~~~p~----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  413 (447)
                        +....+.+++.++++..+..++..  |.    ....+..+-.++...|++.+|++...++++.+|+|..++.--+.+|
T Consensus       274 es~e~~ie~~~~t~cle~ge~vlk~e--p~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d~~dv~~l~dRAeA~  351 (504)
T KOG0624|consen  274 ESAEQAIEEKHWTECLEAGEKVLKNE--PEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDIDPDDVQVLCDRAEAY  351 (504)
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHhcC--CcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcCchHHHHHHHHHHHH
Confidence              112234566666666666666554  33    1123444555666667777777777777777777777777777777


Q ss_pred             HhcCChHHHHHHHHHHHH
Q 048090          414 AKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       414 ~~~g~~~~A~~~~~~m~~  431 (447)
                      .-...++.|+.-|+...+
T Consensus       352 l~dE~YD~AI~dye~A~e  369 (504)
T KOG0624|consen  352 LGDEMYDDAIHDYEKALE  369 (504)
T ss_pred             hhhHHHHHHHHHHHHHHh
Confidence            777777777777766654

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.30  E-value=6.5e-08  Score=82.91  Aligned_cols=268  Identities=9%  Similarity=-0.031  Sum_probs=200.9

Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhh-HHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHH
Q 048090          149 VKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFT-LSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQ  227 (447)
Q Consensus       149 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  227 (447)
                      ..|+.....+...+...|+.++|...|++....  .|+..+ ...-.-.+.+.|+++....+...+...   .......|
T Consensus       229 r~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~--dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~---~~~ta~~w  303 (564)
T KOG1174|consen  229 RCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCA--NPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAK---VKYTASHW  303 (564)
T ss_pred             CccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC--ChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhh---hhcchhhh
Confidence            347778888999999999999999999988764  343322 112222345778888888888877765   22334444


Q ss_pred             HHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 048090          228 SSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISAC  307 (447)
Q Consensus       228 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  307 (447)
                      ..-+.......++..|+.+-++....    .+.++..+-.-...+...|++++|.-.|+..+... +-+...|..|+.+|
T Consensus       304 fV~~~~l~~~K~~~rAL~~~eK~I~~----~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsY  378 (564)
T KOG1174|consen  304 FVHAQLLYDEKKFERALNFVEKCIDS----EPRNHEALILKGRLLIALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSY  378 (564)
T ss_pred             hhhhhhhhhhhhHHHHHHHHHHHhcc----CcccchHHHhccHHHHhccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHH
Confidence            44555566778889998888866554    45566667666778889999999999999987742 23678999999999


Q ss_pred             hccCcHHHHHHHHHHHHHhcCCCCChhhHHHHH-HHHH-HcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCc
Q 048090          308 SHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLV-DLLC-RAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKF  385 (447)
Q Consensus       308 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~-~~~~-~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  385 (447)
                      ...|++.+|...-+...+.  ++.+..+...+. ..+. ...--++|..++++.++..  |.-..+.+.+...|...|..
T Consensus       379 LA~~~~kEA~~~An~~~~~--~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~~--P~Y~~AV~~~AEL~~~Eg~~  454 (564)
T KOG1174|consen  379 LAQKRFKEANALANWTIRL--FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKIN--PIYTPAVNLIAELCQVEGPT  454 (564)
T ss_pred             HhhchHHHHHHHHHHHHHH--hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhccC--CccHHHHHHHHHHHHhhCcc
Confidence            9999999998887777654  344555555442 2232 2233588999999988876  88888899999999999999


Q ss_pred             cHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          386 ELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       386 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      +.+..++++.+...| |...++.|++.+...+.+++|++.|.....
T Consensus       455 ~D~i~LLe~~L~~~~-D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr  499 (564)
T KOG1174|consen  455 KDIIKLLEKHLIIFP-DVNLHNHLGDIMRAQNEPQKAMEYYYKALR  499 (564)
T ss_pred             chHHHHHHHHHhhcc-ccHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            999999999998776 566789999999999999999988876654

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.30  E-value=6.6e-09  Score=91.87  Aligned_cols=369  Identities=15%  Similarity=0.119  Sum_probs=208.5

Q ss_pred             CCcchHHHhhccC---CCCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCc-hhhHHHHHHHhccCCchhHHHHHH
Q 048090           34 KNLGTLTNCLKFL---NPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLD-TYALCSSLTASTSVKDARFGKQVQ  109 (447)
Q Consensus        34 ~~~~~A~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~  109 (447)
                      |+++.|...|.+.   .++|-+.|..-..+|++.|++++|++=-.+-++  +.|+ ...|.....++.-.|++++|...|
T Consensus        16 ~d~~~ai~~~t~ai~l~p~nhvlySnrsaa~a~~~~~~~al~da~k~~~--l~p~w~kgy~r~Gaa~~~lg~~~eA~~ay   93 (539)
T KOG0548|consen   16 GDFETAIRLFTEAIMLSPTNHVLYSNRSAAYASLGSYEKALKDATKTRR--LNPDWAKGYSRKGAALFGLGDYEEAILAY   93 (539)
T ss_pred             ccHHHHHHHHHHHHccCCCccchhcchHHHHHHHhhHHHHHHHHHHHHh--cCCchhhHHHHhHHHHHhcccHHHHHHHH
Confidence            4799999999874   467888899999999999999999886666665  4555 467899999999999999999999


Q ss_pred             HHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhcc------CC-CC------chhhHHHHHHHHHhc----------C
Q 048090          110 AHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDE------IP-VK------NSVCANALLSGYCEA----------K  166 (447)
Q Consensus       110 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~------~~-~~------~~~~~~~l~~~~~~~----------~  166 (447)
                      .+-++.. +.+...++.+..++...   ..+.+.|..      +. .|      ....|..++..+-+.          .
T Consensus        94 ~~GL~~d-~~n~~L~~gl~~a~~~~---~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~~~l~d~  169 (539)
T KOG0548|consen   94 SEGLEKD-PSNKQLKTGLAQAYLED---YAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLKLYLNDP  169 (539)
T ss_pred             HHHhhcC-CchHHHHHhHHHhhhHH---HHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhhcccccH
Confidence            9988763 44555666676666111   011111111      10 00      112233333222111          0


Q ss_pred             CHHHHHHHHHhh-----hhcC-------CCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHH
Q 048090          167 LWAGGLELVRLM-----PALG-------LDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMY  234 (447)
Q Consensus       167 ~~~~a~~~~~~~-----~~~~-------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~  234 (447)
                      +...+.-.+...     ...|       ..|..           +.   ...........+.. ....-..-...+.++.
T Consensus       170 r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~-----------~~---~~~~~~~~d~~ee~-~~k~~a~~ek~lgnaa  234 (539)
T KOG0548|consen  170 RLMKADGQLKGVDELLFYASGIEILASMAEPCK-----------QE---HNGFPIIEDNTEER-RVKEKAHKEKELGNAA  234 (539)
T ss_pred             HHHHHHHHHhcCccccccccccccCCCCCCccc-----------cc---CCCCCccchhHHHH-HHHHhhhHHHHHHHHH
Confidence            111111111100     0001       11100           00   00000000000000 0000011123344444


Q ss_pred             HhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHH-------HHHHHHH
Q 048090          235 GKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAF-------VTVISAC  307 (447)
Q Consensus       235 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~-------~~ll~~~  307 (447)
                      .+..+++.|++.+......     ..+..-++....+|...|.+..+...-....+.|.. ...-|       ..+..++
T Consensus       235 ykkk~f~~a~q~y~~a~el-----~~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g~a~  308 (539)
T KOG0548|consen  235 YKKKDFETAIQHYAKALEL-----ATDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLGNAY  308 (539)
T ss_pred             HHhhhHHHHHHHHHHHHhH-----hhhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhhhhh
Confidence            4555555555555544332     133333444445555555555544444444333311 11111       1122233


Q ss_pred             hccCcHHHHHHHHHHHHHhc-----------------------CCCCCh-hhHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 048090          308 SHTGQVKLGIEYFEWMVHDY-----------------------KLEPGP-EHYSCLVDLLCRAGELDKAWKLINEMLDRG  363 (447)
Q Consensus       308 ~~~~~~~~a~~~~~~~~~~~-----------------------~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  363 (447)
                      .+.++++.++..|++....+                       -+.|.. .--..-...+.+.|++..|...|.+++..+
T Consensus       309 ~k~~~~~~ai~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~  388 (539)
T KOG0548|consen  309 TKREDYEGAIKYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRD  388 (539)
T ss_pred             hhHHhHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC
Confidence            44445555555555544321                       112221 001112345678899999999999999888


Q ss_pred             CCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          364 HGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       364 ~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                        |+|...|....-+|.+.|.+..|..-.+..++++|+....|..=+.++....+|++|.+.|++..+
T Consensus       389 --P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eale  454 (539)
T KOG0548|consen  389 --PEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEALE  454 (539)
T ss_pred             --CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence              999999999999999999999999999999999999999998888888889999999998888765

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

Probab=99.28  E-value=8.7e-08  Score=85.86  Aligned_cols=397  Identities=11%  Similarity=0.063  Sum_probs=212.6

Q ss_pred             hhhhhhhhcccccCCcchHHHhhccCC---CCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhc
Q 048090           21 SRLMLPYTTCRHKKNLGTLTNCLKFLN---PRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTAST   97 (447)
Q Consensus        21 ~~l~~~~~~~~~~~~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~   97 (447)
                      ..++.-..+.+..+++++|.+....+.   +.++..+.+=+-++.+.++|++|+.+.+.-...  ..+...+..-.-+..
T Consensus        13 ~~l~t~ln~~~~~~e~e~a~k~~~Kil~~~pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~Y   90 (652)
T KOG2376|consen   13 EALLTDLNRHGKNGEYEEAVKTANKILSIVPDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCEY   90 (652)
T ss_pred             HHHHHHHHHhccchHHHHHHHHHHHHHhcCCCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHHH
Confidence            456666666677778999988877753   455666777777788888888888655433211  111111111122334


Q ss_pred             cCCchhHHHHHHHHHHHcCCCCch-hhHHHHHHHHHccCChhhHHHHhccCCCCc-------------------------
Q 048090           98 SVKDARFGKQVQAHVTKSGWLSSV-FVGSALIDLYAKLLLIHDAELMFDEIPVKN-------------------------  151 (447)
Q Consensus        98 ~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-------------------------  151 (447)
                      +.+..++|+..+.     |..++. .+...-...+.+.|++++|..+|+.+.+.+                         
T Consensus        91 rlnk~Dealk~~~-----~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q  165 (652)
T KOG2376|consen   91 RLNKLDEALKTLK-----GLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQ  165 (652)
T ss_pred             HcccHHHHHHHHh-----cccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHH
Confidence            5677888877776     233332 244555566777888888888887774221                         


Q ss_pred             ------hhhHHHH---HHHHHhcCCHHHHHHHHHhhhhcCC----CCcH--hhH--------HHHHHHHhcCCcHHHHHH
Q 048090          152 ------SVCANAL---LSGYCEAKLWAGGLELVRLMPALGL----DYDH--FTL--------SALLRACAGLSAAEFGRQ  208 (447)
Q Consensus       152 ------~~~~~~l---~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~--~~~--------~~l~~~~~~~~~~~~a~~  208 (447)
                            ..+|..+   ...++..|++.+|+++++...+.+.    ..|.  .-+        ..+.-.+-..|+.++|.+
T Consensus       166 ~v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~  245 (652)
T KOG2376|consen  166 SVPEVPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASS  245 (652)
T ss_pred             hccCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHH
Confidence                  1122222   2335566777777777777633211    1111  111        112223446677777777


Q ss_pred             HHHHHHHhhhcCCCChhH-HHHHHHHHHhcCChH-HHHHHHHh------------hhhh---------------------
Q 048090          209 VHAYMIRKCCNLGNDVFM-QSSLIEMYGKCGLVT-KALQVFNL------------AGHR---------------------  253 (447)
Q Consensus       209 ~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~g~~~-~A~~~~~~------------~~~~---------------------  253 (447)
                      ++...++..+.-.|...+ -|.|+..-....-++ .++..++.            +...                     
T Consensus       246 iy~~~i~~~~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~tnk~~q  325 (652)
T KOG2376|consen  246 IYVDIIKRNPADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFTNKMDQ  325 (652)
T ss_pred             HHHHHHHhcCCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHH
Confidence            777777763221111111 122221111000000 00111100            0000                     


Q ss_pred             ---cccCCCcc--hhhHHHHHHHH--HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHH-----
Q 048090          254 ---LEGEINKD--VVLWTSMLGVY--GRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFE-----  321 (447)
Q Consensus       254 ---~~~~~~~~--~~~~~~l~~~~--~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~-----  321 (447)
                         .....++.  ...+.+++...  ++...+..+.+++...-+....-.....-..+......|+++.|.+++.     
T Consensus       326 ~r~~~a~lp~~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~  405 (652)
T KOG2376|consen  326 VRELSASLPGMSPESLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLES  405 (652)
T ss_pred             HHHHHHhCCccCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhh
Confidence               00001111  11122222221  1222455566666665553222123344455566677889999988888     


Q ss_pred             ---HHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCC-----CCCCchHhHHHHHHHHHhcCCccHHHHHHH
Q 048090          322 ---WMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRG-----HGSSSVSMWGALLSACHDCGKFELGKLAAQ  393 (447)
Q Consensus       322 ---~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-----~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~  393 (447)
                         .+.+-   .-.+.+-..+...+.+.++.+.|..++.+.+..-     -.+.-..++.-+...-.+.|+.++|...++
T Consensus       406 ~~ss~~~~---~~~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~le  482 (652)
T KOG2376|consen  406 WKSSILEA---KHLPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLE  482 (652)
T ss_pred             hhhhhhhh---ccChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHH
Confidence               44322   2334445556667777777666776666654220     001122234555556667899999999999


Q ss_pred             HHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHH
Q 048090          394 KALELDPHNVGIYVMLSNLYAKFCMWDEIGQLREL  428 (447)
Q Consensus       394 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  428 (447)
                      ++++.+|++..+...++.+|++. +.+.|..+-+.
T Consensus       483 el~k~n~~d~~~l~~lV~a~~~~-d~eka~~l~k~  516 (652)
T KOG2376|consen  483 ELVKFNPNDTDLLVQLVTAYARL-DPEKAESLSKK  516 (652)
T ss_pred             HHHHhCCchHHHHHHHHHHHHhc-CHHHHHHHhhc
Confidence            99999999999999999888776 56777655443

>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=99.26  E-value=1.2e-09  Score=93.70  Aligned_cols=253  Identities=12%  Similarity=0.050  Sum_probs=153.1

Q ss_pred             HHHHccCChhhHHHHhc--cCCC-CchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHH
Q 048090          129 DLYAKLLLIHDAELMFD--EIPV-KNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEF  205 (447)
Q Consensus       129 ~~~~~~g~~~~a~~~~~--~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  205 (447)
                      +-+.-.|++..++.-.+  .... .+......+.+++...|+++.++   .++.... .|.......+...+....+.+.
T Consensus         9 rn~fy~G~Y~~~i~e~~~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~~e~   84 (290)
T PF04733_consen    9 RNQFYLGNYQQCINEASLKSFSPENKLERDFYQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSDKES   84 (290)
T ss_dssp             HHHHCTT-HHHHCHHHHCHTSTCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTTHHC
T ss_pred             HHHHHhhhHHHHHHHhhccCCCchhHHHHHHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccchHH
Confidence            33445677777775443  1111 13344556677788888877544   3443333 5665555555555544344444


Q ss_pred             HHHHHHHHHHhhhcCC-CChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHH
Q 048090          206 GRQVHAYMIRKCCNLG-NDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKL  284 (447)
Q Consensus       206 a~~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  284 (447)
                      +..-++.....  ... .+.........++...|++++|++++..         ..+.......+.+|.+.++++.|.+.
T Consensus        85 ~l~~l~~~~~~--~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~---------~~~lE~~al~Vqi~L~~~R~dlA~k~  153 (290)
T PF04733_consen   85 ALEELKELLAD--QAGESNEIVQLLAATILFHEGDYEEALKLLHK---------GGSLELLALAVQILLKMNRPDLAEKE  153 (290)
T ss_dssp             HHHHHHHCCCT--S---CHHHHHHHHHHHHCCCCHHHHHHCCCTT---------TTCHHHHHHHHHHHHHTT-HHHHHHH
T ss_pred             HHHHHHHHHHh--ccccccHHHHHHHHHHHHHcCCHHHHHHHHHc---------cCcccHHHHHHHHHHHcCCHHHHHHH
Confidence            44444433332  111 2333333444566677888888877652         14556667778888888888888888


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHhc----cCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHH
Q 048090          285 YEAMLMNGTKPDEVAFVTVISACSH----TGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEML  360 (447)
Q Consensus       285 ~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  360 (447)
                      ++.|.+.  ..| .+...+..++..    .+.+..|..+|+++..  ...+++.+.+.+..++...|++++|.+++.+..
T Consensus       154 l~~~~~~--~eD-~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~--~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al  228 (290)
T PF04733_consen  154 LKNMQQI--DED-SILTQLAEAWVNLATGGEKYQDAFYIFEELSD--KFGSTPKLLNGLAVCHLQLGHYEEAEELLEEAL  228 (290)
T ss_dssp             HHHHHCC--SCC-HHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHC--CS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHC
T ss_pred             HHHHHhc--CCc-HHHHHHHHHHHHHHhCchhHHHHHHHHHHHHh--ccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            8888763  333 444445554432    3458888888888754  345677778888888888888888888888877


Q ss_pred             hCCCCCCchHhHHHHHHHHHhcCCc-cHHHHHHHHHhhhCCCch
Q 048090          361 DRGHGSSSVSMWGALLSACHDCGKF-ELGKLAAQKALELDPHNV  403 (447)
Q Consensus       361 ~~~~~p~~~~~~~~l~~~~~~~g~~-~~a~~~~~~~~~~~~~~~  403 (447)
                      ..+  |.++.+...++.+....|+. +.+.+.+.++....|..+
T Consensus       229 ~~~--~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~~p~h~  270 (290)
T PF04733_consen  229 EKD--PNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQSNPNHP  270 (290)
T ss_dssp             CC---CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHHTTTSH
T ss_pred             Hhc--cCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHhCCCCh
Confidence            665  77888788888887777777 556677777777777644

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.24  E-value=4.6e-08  Score=82.15  Aligned_cols=164  Identities=9%  Similarity=-0.013  Sum_probs=84.7

Q ss_pred             HHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChh
Q 048090           59 SDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIH  138 (447)
Q Consensus        59 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  138 (447)
                      .++.+.|++++|+.++.-+.... .|+...+..+..+..-.|.+.+|.++-...     +.++-....++..-.+.++-+
T Consensus        65 ~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg~Y~eA~~~~~ka-----~k~pL~~RLlfhlahklndEk  138 (557)
T KOG3785|consen   65 HCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLGQYIEAKSIAEKA-----PKTPLCIRLLFHLAHKLNDEK  138 (557)
T ss_pred             HHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHHHHHHHHHHHhhC-----CCChHHHHHHHHHHHHhCcHH
Confidence            34455566666666666555432 334444444444444445555555544332     122222233344444555544


Q ss_pred             hHHHHhccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHH-HHHHhcCCcHHHHHHHHHHHHHhh
Q 048090          139 DAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSAL-LRACAGLSAAEFGRQVHAYMIRKC  217 (447)
Q Consensus       139 ~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~  217 (447)
                      +-..+-+.+... ..---+|.+..-..-.+++|+++|.+....  .|+-...+.- .-+|.+..-++.+.+++.-.++. 
T Consensus       139 ~~~~fh~~LqD~-~EdqLSLAsvhYmR~HYQeAIdvYkrvL~d--n~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q-  214 (557)
T KOG3785|consen  139 RILTFHSSLQDT-LEDQLSLASVHYMRMHYQEAIDVYKRVLQD--NPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ-  214 (557)
T ss_pred             HHHHHHHHHhhh-HHHHHhHHHHHHHHHHHHHHHHHHHHHHhc--ChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh-
Confidence            444443333321 122223344433445688999999888765  3444444433 34567777788888888887776 


Q ss_pred             hcCCCChhHHHHHHHHH
Q 048090          218 CNLGNDVFMQSSLIEMY  234 (447)
Q Consensus       218 ~~~~~~~~~~~~l~~~~  234 (447)
                        ++.++...|..+...
T Consensus       215 --~pdStiA~NLkacn~  229 (557)
T KOG3785|consen  215 --FPDSTIAKNLKACNL  229 (557)
T ss_pred             --CCCcHHHHHHHHHHH
Confidence              444445444444333

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=99.23  E-value=8.3e-08  Score=86.97  Aligned_cols=91  Identities=7%  Similarity=0.104  Sum_probs=45.4

Q ss_pred             HHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcc--hhhHHHHHHH
Q 048090          194 LRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKD--VVLWTSMLGV  271 (447)
Q Consensus       194 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~--~~~~~~l~~~  271 (447)
                      ...+...|++++|...+++..+.   .+.+...+..+..++...|++++|...+++.......  .++  ...|..+...
T Consensus       121 a~~~~~~G~~~~A~~~~~~al~~---~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~--~~~~~~~~~~~la~~  195 (355)
T cd05804         121 AFGLEEAGQYDRAEEAARRALEL---NPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDC--SSMLRGHNWWHLALF  195 (355)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhh---CCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCC--CcchhHHHHHHHHHH
Confidence            33445555555555555555554   1223444555555555556666666555543332110  111  1223345555


Q ss_pred             HHhcCCHHHHHHHHHHHH
Q 048090          272 YGRNGYFKEVIKLYEAML  289 (447)
Q Consensus       272 ~~~~g~~~~a~~~~~~m~  289 (447)
                      +...|++++|..++++..
T Consensus       196 ~~~~G~~~~A~~~~~~~~  213 (355)
T cd05804         196 YLERGDYEAALAIYDTHI  213 (355)
T ss_pred             HHHCCCHHHHHHHHHHHh
Confidence            566666666666666654

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.

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=99.22  E-value=7.8e-08  Score=80.44  Aligned_cols=315  Identities=14%  Similarity=0.090  Sum_probs=181.0

Q ss_pred             HHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHH---HHhccCCchhHHHHHHHHHHHcCCCCchhhHH-HHHH
Q 048090           54 FNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSL---TASTSVKDARFGKQVQAHVTKSGWLSSVFVGS-ALID  129 (447)
Q Consensus        54 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll---~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~  129 (447)
                      .--+...+..+|++..|+.-|....+-    |+..|..+.   ..|...|+-..|+.=+...++.  +||-..-. .-..
T Consensus        41 hlElGk~lla~~Q~sDALt~yHaAve~----dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~  114 (504)
T KOG0624|consen   41 HLELGKELLARGQLSDALTHYHAAVEG----DPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGV  114 (504)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHcC----CchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhch
Confidence            344566666777777777777766653    333333333   2456667777777777766663  55543221 1224


Q ss_pred             HHHccCChhhHHHHhccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHH
Q 048090          130 LYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQV  209 (447)
Q Consensus       130 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  209 (447)
                      .+.+.|.++.|..=|+.+...++.- +....++.+.--.++-.                .....+..+...|+...|+..
T Consensus       115 vllK~Gele~A~~DF~~vl~~~~s~-~~~~eaqskl~~~~e~~----------------~l~~ql~s~~~~GD~~~ai~~  177 (504)
T KOG0624|consen  115 VLLKQGELEQAEADFDQVLQHEPSN-GLVLEAQSKLALIQEHW----------------VLVQQLKSASGSGDCQNAIEM  177 (504)
T ss_pred             hhhhcccHHHHHHHHHHHHhcCCCc-chhHHHHHHHHhHHHHH----------------HHHHHHHHHhcCCchhhHHHH
Confidence            4566777777776666655322100 00011111100000000                111122233445666666666


Q ss_pred             HHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 048090          210 HAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAML  289 (447)
Q Consensus       210 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  289 (447)
                      ...+++.   .+-|...+..-..+|...|++..|+.=++.....    ...++..+--+-..+...|+.+.++...++..
T Consensus       178 i~~llEi---~~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askL----s~DnTe~~ykis~L~Y~vgd~~~sL~~iRECL  250 (504)
T KOG0624|consen  178 ITHLLEI---QPWDASLRQARAKCYIAEGEPKKAIHDLKQASKL----SQDNTEGHYKISQLLYTVGDAENSLKEIRECL  250 (504)
T ss_pred             HHHHHhc---CcchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhc----cccchHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            6666664   3345666666666666666666666555544333    23344455555555666666666666666665


Q ss_pred             hCCCCCCHHH----HHHH---------HHHHhccCcHHHHHHHHHHHHHhcCCCCC-----hhhHHHHHHHHHHcCCHHH
Q 048090          290 MNGTKPDEVA----FVTV---------ISACSHTGQVKLGIEYFEWMVHDYKLEPG-----PEHYSCLVDLLCRAGELDK  351 (447)
Q Consensus       290 ~~~~~p~~~~----~~~l---------l~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~  351 (447)
                      +  +.||...    |..+         +......++|.++.+..+.+.+.   .|.     ...+..+-.++...|++.+
T Consensus       251 K--ldpdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~---ep~~~~ir~~~~r~~c~C~~~d~~~~e  325 (504)
T KOG0624|consen  251 K--LDPDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKN---EPEETMIRYNGFRVLCTCYREDEQFGE  325 (504)
T ss_pred             c--cCcchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhc---CCcccceeeeeeheeeecccccCCHHH
Confidence            5  3444321    1111         11223456677777777776643   443     2334455567778888999


Q ss_pred             HHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhH
Q 048090          352 AWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGI  405 (447)
Q Consensus       352 A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  405 (447)
                      |++...+.+...  |+++.++.--..+|.-...++.|+.-|+++.+.+++|..+
T Consensus       326 AiqqC~evL~~d--~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n~sn~~~  377 (504)
T KOG0624|consen  326 AIQQCKEVLDID--PDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELNESNTRA  377 (504)
T ss_pred             HHHHHHHHHhcC--chHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcccHHH
Confidence            999999988776  8888888888889999899999999999999988876655

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.22  E-value=1.9e-07  Score=86.27  Aligned_cols=103  Identities=22%  Similarity=0.126  Sum_probs=83.3

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHh
Q 048090          336 YSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAK  415 (447)
Q Consensus       336 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  415 (447)
                      |......+.+.+..++|...+.+.....  |-....|+..+..+...|.+++|.+.|..++..+|+.+.+...++.++.+
T Consensus       653 wllaa~~~~~~~~~~~a~~CL~Ea~~~~--~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~ldP~hv~s~~Ala~~lle  730 (799)
T KOG4162|consen  653 WLLAADLFLLSGNDDEARSCLLEASKID--PLSASVYYLRGLLLEVKGQLEEAKEAFLVALALDPDHVPSMTALAELLLE  730 (799)
T ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHhcc--hhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhcCCCCcHHHHHHHHHHHH
Confidence            3445556677788888888888777655  76777788888999999999999999999999999999999999999999


Q ss_pred             cCChHHHHH--HHHHHHHcCCCCCCcccc
Q 048090          416 FCMWDEIGQ--LRELMKEKGLKKDVGCSW  442 (447)
Q Consensus       416 ~g~~~~A~~--~~~~m~~~~~~p~~~~~~  442 (447)
                      .|+..-|..  ++.++.+  +.|+-.-.|
T Consensus       731 ~G~~~la~~~~~L~dalr--~dp~n~eaW  757 (799)
T KOG4162|consen  731 LGSPRLAEKRSLLSDALR--LDPLNHEAW  757 (799)
T ss_pred             hCCcchHHHHHHHHHHHh--hCCCCHHHH
Confidence            998877777  7887776  555544444

>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=99.18  E-value=3.4e-09  Score=91.04  Aligned_cols=250  Identities=11%  Similarity=0.081  Sum_probs=145.2

Q ss_pred             HHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCC
Q 048090          160 SGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGL  239 (447)
Q Consensus       160 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  239 (447)
                      +-+.-.|++..++.-.+ .....-..+......+.+++...|+++.+.   .++..   +..|.......+...+...++
T Consensus         9 rn~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~---~~~~~l~av~~la~y~~~~~~   81 (290)
T PF04733_consen    9 RNQFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVL---SEIKK---SSSPELQAVRLLAEYLSSPSD   81 (290)
T ss_dssp             HHHHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-T---TSSCCCHHHHHHHHHHCTSTT
T ss_pred             HHHHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHH---HHhcc---CCChhHHHHHHHHHHHhCccc
Confidence            33455677777775555 222211223334445667777777765443   22222   235555555555554444345


Q ss_pred             hHHHHHHHHhhhhhcccCCC-cchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHH
Q 048090          240 VTKALQVFNLAGHRLEGEIN-KDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIE  318 (447)
Q Consensus       240 ~~~A~~~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~  318 (447)
                      -+.+..-++   +....... .+..........+...|++++|++++..-      .+.......+..+.+.++++.|.+
T Consensus        82 ~e~~l~~l~---~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k  152 (290)
T PF04733_consen   82 KESALEELK---ELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEK  152 (290)
T ss_dssp             HHCHHHHHH---HCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             hHHHHHHHH---HHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHH
Confidence            555555444   22222222 22222333334566678888888777542      345566667777888888888888


Q ss_pred             HHHHHHHhcCCCCChhhHHHHHHHHH----HcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHH
Q 048090          319 YFEWMVHDYKLEPGPEHYSCLVDLLC----RAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQK  394 (447)
Q Consensus       319 ~~~~~~~~~~~~~~~~~~~~l~~~~~----~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  394 (447)
                      .++.|.+   +..|. +...+..++.    -.+.+.+|..+|+++....  ++++.+.+.++.++...|++++|..++++
T Consensus       153 ~l~~~~~---~~eD~-~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~~--~~t~~~lng~A~~~l~~~~~~eAe~~L~~  226 (290)
T PF04733_consen  153 ELKNMQQ---IDEDS-ILTQLAEAWVNLATGGEKYQDAFYIFEELSDKF--GSTPKLLNGLAVCHLQLGHYEEAEELLEE  226 (290)
T ss_dssp             HHHHHHC---CSCCH-HHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCCS----SHHHHHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHh---cCCcH-HHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            8888863   34442 2333444333    2335788888888876653  45667778888888888888888888888


Q ss_pred             HhhhCCCchhHHHHHHHHHHhcCCh-HHHHHHHHHHHH
Q 048090          395 ALELDPHNVGIYVMLSNLYAKFCMW-DEIGQLRELMKE  431 (447)
Q Consensus       395 ~~~~~~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~m~~  431 (447)
                      +++.+|.++.+...++.+....|+. +.+.+.+.++..
T Consensus       227 al~~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~  264 (290)
T PF04733_consen  227 ALEKDPNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQ  264 (290)
T ss_dssp             HCCC-CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHH
T ss_pred             HHHhccCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHH
Confidence            8888888888888888777777777 556677777665

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=99.18  E-value=2.3e-07  Score=84.10  Aligned_cols=301  Identities=11%  Similarity=-0.096  Sum_probs=181.8

Q ss_pred             hHHHHHHHHHccCChhhHHHHhccCC---CC--ch-hhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHH
Q 048090          123 VGSALIDLYAKLLLIHDAELMFDEIP---VK--NS-VCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRA  196 (447)
Q Consensus       123 ~~~~l~~~~~~~g~~~~a~~~~~~~~---~~--~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  196 (447)
                      .|..+...+...|+.+.+.+.+....   .+  +. .........+...|++++|.+.+++..+.. +.+...+.. ...
T Consensus         8 a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~-~~~   85 (355)
T cd05804           8 GHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLALKL-HLG   85 (355)
T ss_pred             HHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHH-hHH
Confidence            34444455555555555444443322   11  11 112222344567889999999999887763 333333332 212


Q ss_pred             Hh----cCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHH
Q 048090          197 CA----GLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVY  272 (447)
Q Consensus       197 ~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  272 (447)
                      +.    ..+..+.+.+.+..   ..+..+........+...+...|++++|...+++....    .+.+...+..+...+
T Consensus        86 ~~~~~~~~~~~~~~~~~l~~---~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~----~p~~~~~~~~la~i~  158 (355)
T cd05804          86 AFGLGDFSGMRDHVARVLPL---WAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALEL----NPDDAWAVHAVAHVL  158 (355)
T ss_pred             HHHhcccccCchhHHHHHhc---cCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh----CCCCcHHHHHHHHHH
Confidence            22    23444455554443   11122233445556777899999999999999987775    555677888899999


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCC-CCH--HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhH-H--HHHHHHHHc
Q 048090          273 GRNGYFKEVIKLYEAMLMNGTK-PDE--VAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHY-S--CLVDLLCRA  346 (447)
Q Consensus       273 ~~~g~~~~a~~~~~~m~~~~~~-p~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~--~l~~~~~~~  346 (447)
                      ...|++++|...+++....... |+.  ..|..+...+...|++++|..++++........+..... +  .++.-+...
T Consensus       159 ~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  238 (355)
T cd05804         159 EMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELA  238 (355)
T ss_pred             HHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhc
Confidence            9999999999999998875321 232  345577888999999999999999986431111222111 1  223334444


Q ss_pred             CCHHHHHHH---HHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCC---------chhHHHHHHHHHH
Q 048090          347 GELDKAWKL---INEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPH---------NVGIYVMLSNLYA  414 (447)
Q Consensus       347 g~~~~A~~~---~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~---------~~~~~~~l~~~~~  414 (447)
                      |....+.++   ..........+...........++...|+.+.|...++.+......         ..........++.
T Consensus       239 g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~  318 (355)
T cd05804         239 GHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAF  318 (355)
T ss_pred             CCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHH
Confidence            543333333   2221111100111122236777888999999999999887663311         3445556666778


Q ss_pred             hcCChHHHHHHHHHHHHc
Q 048090          415 KFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       415 ~~g~~~~A~~~~~~m~~~  432 (447)
                      ..|++++|.+.+.+....
T Consensus       319 ~~g~~~~A~~~L~~al~~  336 (355)
T cd05804         319 AEGNYATALELLGPVRDD  336 (355)
T ss_pred             HcCCHHHHHHHHHHHHHH
Confidence            999999999999888754

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.

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.18  E-value=1.9e-07  Score=84.62  Aligned_cols=375  Identities=14%  Similarity=0.058  Sum_probs=198.4

Q ss_pred             CccHHHHHHHHHhCCChhhHHHHHHHHHhc-CCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHH
Q 048090           51 PLPFNVVISDFCRNGSPLYALKTFSFMHVH-GIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALID  129 (447)
Q Consensus        51 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  129 (447)
                      +..|-.-+..+.++|++......|++.+.. .+......|...+....+.+-.+.+.++|+..++.    ++..-+-.+.
T Consensus       102 pRIwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~----~P~~~eeyie  177 (835)
T KOG2047|consen  102 PRIWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV----APEAREEYIE  177 (835)
T ss_pred             CHHHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc----CHHHHHHHHH
Confidence            344555555666667777777777666543 23334455666677666777777777777777653    3333566677


Q ss_pred             HHHccCChhhHHHHhccCCCC----------chhhHHHHHHHHHhcCCH---HHHHHHHHhhhhcCCCCcH--hhHHHHH
Q 048090          130 LYAKLLLIHDAELMFDEIPVK----------NSVCANALLSGYCEAKLW---AGGLELVRLMPALGLDYDH--FTLSALL  194 (447)
Q Consensus       130 ~~~~~g~~~~a~~~~~~~~~~----------~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~~--~~~~~l~  194 (447)
                      .+++.+++++|-+.+..+...          +-..|+.+-....+.-+.   -...++++.+...  -+|.  ..|.+|.
T Consensus       178 ~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~r--ftDq~g~Lw~SLA  255 (835)
T KOG2047|consen  178 YLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRR--FTDQLGFLWCSLA  255 (835)
T ss_pred             HHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhccc--CcHHHHHHHHHHH
Confidence            777778888777777666532          233455444444433221   2223333333332  3443  3567777


Q ss_pred             HHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCCh----------------------HHHHHHHHhhhh
Q 048090          195 RACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLV----------------------TKALQVFNLAGH  252 (447)
Q Consensus       195 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~----------------------~~A~~~~~~~~~  252 (447)
                      +-|.+.|.+++|..+|++.++.    ..+..-|..+-++|+.-...                      +-...-|+.+..
T Consensus       256 dYYIr~g~~ekarDvyeeai~~----v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~  331 (835)
T KOG2047|consen  256 DYYIRSGLFEKARDVYEEAIQT----VMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMN  331 (835)
T ss_pred             HHHHHhhhhHHHHHHHHHHHHh----heehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHh
Confidence            8888888888888888887775    13444455555555532111                      111111111100


Q ss_pred             hc--------ccCCCcch--------------------------------------hhHHHHHHHHHhcCCHHHHHHHHH
Q 048090          253 RL--------EGEINKDV--------------------------------------VLWTSMLGVYGRNGYFKEVIKLYE  286 (447)
Q Consensus       253 ~~--------~~~~~~~~--------------------------------------~~~~~l~~~~~~~g~~~~a~~~~~  286 (447)
                      ..        -...+.++                                      ..|..+...|-..|+.+.|..+|+
T Consensus       332 rr~~~lNsVlLRQn~~nV~eW~kRV~l~e~~~~~~i~tyteAv~~vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvife  411 (835)
T KOG2047|consen  332 RRPLLLNSVLLRQNPHNVEEWHKRVKLYEGNAAEQINTYTEAVKTVDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFE  411 (835)
T ss_pred             ccchHHHHHHHhcCCccHHHHHhhhhhhcCChHHHHHHHHHHHHccCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHH
Confidence            00        00000011                                      113333444445555555555555


Q ss_pred             HHHhCCCCCC---HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-----------------ChhhHHHHHHHHHHc
Q 048090          287 AMLMNGTKPD---EVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEP-----------------GPEHYSCLVDLLCRA  346 (447)
Q Consensus       287 ~m~~~~~~p~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-----------------~~~~~~~l~~~~~~~  346 (447)
                      +..+...+--   ..+|..-...-.+..+++.|..+++....- .-.|                 +...|..+++.....
T Consensus       412 ka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~v-P~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~  490 (835)
T KOG2047|consen  412 KATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHV-PTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESL  490 (835)
T ss_pred             HhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcC-CCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHh
Confidence            5544321110   122333333333445555555555544321 0010                 112344445555556


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhC--CCchhHHHHHHHHHHh---cCChHH
Q 048090          347 GELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELD--PHNVGIYVMLSNLYAK---FCMWDE  421 (447)
Q Consensus       347 g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--~~~~~~~~~l~~~~~~---~g~~~~  421 (447)
                      |-++....+++++++..+..|  .+....+..+-.+.-++++.++|++.+.+.  |.-..+|+..+.-+.+   ..+.+.
T Consensus       491 gtfestk~vYdriidLriaTP--qii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEr  568 (835)
T KOG2047|consen  491 GTFESTKAVYDRIIDLRIATP--QIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLER  568 (835)
T ss_pred             ccHHHHHHHHHHHHHHhcCCH--HHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHH
Confidence            666666666666666654432  223444555556666777777777777766  3345567766665543   347888


Q ss_pred             HHHHHHHHHHcCCCCCCc
Q 048090          422 IGQLRELMKEKGLKKDVG  439 (447)
Q Consensus       422 A~~~~~~m~~~~~~p~~~  439 (447)
                      |..+|++..+ |..|...
T Consensus       569 aRdLFEqaL~-~Cpp~~a  585 (835)
T KOG2047|consen  569 ARDLFEQALD-GCPPEHA  585 (835)
T ss_pred             HHHHHHHHHh-cCCHHHH
Confidence            9999998888 6666543

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

Probab=99.17  E-value=4.8e-07  Score=82.11  Aligned_cols=399  Identities=11%  Similarity=0.042  Sum_probs=232.2

Q ss_pred             HHhhhhhhhhhcccccCCcchHHHhhccCCCCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhc
Q 048090           18 IFQSRLMLPYTTCRHKKNLGTLTNCLKFLNPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTAST   97 (447)
Q Consensus        18 ~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~   97 (447)
                      ..+...+..|-.-.-...+..+..++...+ ..+.+.....-.+...|+-++|.+....-.+.++. +...|..+.-.+.
T Consensus         9 ~lF~~~lk~yE~kQYkkgLK~~~~iL~k~~-eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~~-S~vCwHv~gl~~R   86 (700)
T KOG1156|consen    9 ALFRRALKCYETKQYKKGLKLIKQILKKFP-EHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDLK-SHVCWHVLGLLQR   86 (700)
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHhCC-ccchhHHhccchhhcccchHHHHHHHHHHhccCcc-cchhHHHHHHHHh
Confidence            344445555543221112444555555332 23334443344455567888888877766665433 5566766666667


Q ss_pred             cCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCC---CCchhhHHHHHHHHHhcCCHHHHHHH
Q 048090           98 SVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIP---VKNSVCANALLSGYCEAKLWAGGLEL  174 (447)
Q Consensus        98 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~  174 (447)
                      ...++++|...|+.+...+ +.|...+.-+.-.-++.|+++.....-.++.   ......|..++.++.-.|+...|..+
T Consensus        87 ~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~~~ra~w~~~Avs~~L~g~y~~A~~i  165 (700)
T KOG1156|consen   87 SDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLRPSQRASWIGFAVAQHLLGEYKMALEI  165 (700)
T ss_pred             hhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7788888888888888764 5556677766666667777776665554443   33556777788888888888888888


Q ss_pred             HHhhhhcCC-CCcHhhHHHHHH------HHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHH
Q 048090          175 VRLMPALGL-DYDHFTLSALLR------ACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVF  247 (447)
Q Consensus       175 ~~~~~~~~~-~~~~~~~~~l~~------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  247 (447)
                      +++..+... .|+...|.....      ...+.|..+.|.+.+......   +......-..-...+.+.+++++|..++
T Consensus       166 l~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~---i~Dkla~~e~ka~l~~kl~~lEeA~~~y  242 (700)
T KOG1156|consen  166 LEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ---IVDKLAFEETKADLLMKLGQLEEAVKVY  242 (700)
T ss_pred             HHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH---HHHHHHHhhhHHHHHHHHhhHHhHHHHH
Confidence            888776542 355555443322      234567777777666655443   2222333344566777888888888888


Q ss_pred             HhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHH-HHHHHHHhCCCCCCHHHH-HHHHHHHhccCcHHHHHHHHHHHHH
Q 048090          248 NLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVI-KLYEAMLMNGTKPDEVAF-VTVISACSHTGQVKLGIEYFEWMVH  325 (447)
Q Consensus       248 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~-~~~~~m~~~~~~p~~~~~-~~ll~~~~~~~~~~~a~~~~~~~~~  325 (447)
                      ..+..+    .|.+...|..+..++.+-.+.-++. .+|....+.  .|....- ..=+.......-.+....++....+
T Consensus       243 ~~Ll~r----nPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~--y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~  316 (700)
T KOG1156|consen  243 RRLLER----NPDNLDYYEGLEKALGKIKDMLEALKALYAILSEK--YPRHECPRRLPLSVLNGEELKEIVDKYLRPLLS  316 (700)
T ss_pred             HHHHhh----CchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhc--CcccccchhccHHHhCcchhHHHHHHHHHHHhh
Confidence            877664    3333444444455554333333333 555555443  1111111 1111111122223334445555555


Q ss_pred             hcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHH----HHhCC---------CCCCchHh--HHHHHHHHHhcCCccHHHH
Q 048090          326 DYKLEPGPEHYSCLVDLLCRAGELDKAWKLINE----MLDRG---------HGSSSVSM--WGALLSACHDCGKFELGKL  390 (447)
Q Consensus       326 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~----~~~~~---------~~p~~~~~--~~~l~~~~~~~g~~~~a~~  390 (447)
                      . |+++-   +..+...|-.....+-..++.-.    +...|         ..|+....  +..++..+-..|+++.|..
T Consensus       317 K-g~p~v---f~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~  392 (700)
T KOG1156|consen  317 K-GVPSV---FKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALE  392 (700)
T ss_pred             c-CCCch---hhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHH
Confidence            4 65543   23333333222221111111111    11111         12444433  4567788889999999999


Q ss_pred             HHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 048090          391 AAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       391 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  432 (447)
                      .++.++...|.-+..|..-++.+...|.+++|..++++..+.
T Consensus       393 yId~AIdHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~el  434 (700)
T KOG1156|consen  393 YIDLAIDHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQEL  434 (700)
T ss_pred             HHHHHhccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Confidence            999999999998999999999999999999999999988764

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=99.15  E-value=3.9e-06  Score=74.87  Aligned_cols=129  Identities=11%  Similarity=0.066  Sum_probs=68.9

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHH
Q 048090          299 AFVTVISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLS  377 (447)
Q Consensus       299 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~  377 (447)
                      +|..++....+..-++.|..+|.++.++ +..+ .+..+++++.-|| .++.+-|.++|+--++.-  ++++..-...+.
T Consensus       368 v~~~~mn~irR~eGlkaaR~iF~kaR~~-~r~~hhVfVa~A~mEy~c-skD~~~AfrIFeLGLkkf--~d~p~yv~~Yld  443 (656)
T KOG1914|consen  368 VYCQYMNFIRRAEGLKAARKIFKKARED-KRTRHHVFVAAALMEYYC-SKDKETAFRIFELGLKKF--GDSPEYVLKYLD  443 (656)
T ss_pred             ehhHHHHHHHHhhhHHHHHHHHHHHhhc-cCCcchhhHHHHHHHHHh-cCChhHHHHHHHHHHHhc--CCChHHHHHHHH
Confidence            4555555555555566666666666554 3333 4445555555333 345555666665544443  344443445555


Q ss_pred             HHHhcCCccHHHHHHHHHhhhC-C-C-chhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          378 ACHDCGKFELGKLAAQKALELD-P-H-NVGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       378 ~~~~~g~~~~a~~~~~~~~~~~-~-~-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      .+...++-..+..+|++++... + + ...+|..++..-..-|+...+.++-+++..
T Consensus       444 fL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~  500 (656)
T KOG1914|consen  444 FLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFT  500 (656)
T ss_pred             HHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            5555566566666666665542 1 1 345566666555566666666665555543

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=99.13  E-value=2e-08  Score=98.10  Aligned_cols=208  Identities=14%  Similarity=0.155  Sum_probs=116.0

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHhhhhhccc-CCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH
Q 048090          223 DVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEG-EINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFV  301 (447)
Q Consensus       223 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~  301 (447)
                      +...|-..|......++.++|.++++++.....- ....-...|.++++.-...|.-+...++|+++.+.  .-.-..|.
T Consensus      1457 SSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy--cd~~~V~~ 1534 (1710)
T KOG1070|consen 1457 SSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY--CDAYTVHL 1534 (1710)
T ss_pred             cchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh--cchHHHHH
Confidence            4445555566666666666666666544332100 00011234555555555555555666666666553  11233455


Q ss_pred             HHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCC--chHhHHHHHHHH
Q 048090          302 TVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSS--SVSMWGALLSAC  379 (447)
Q Consensus       302 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~--~~~~~~~l~~~~  379 (447)
                      .|...|.+.+.+++|.++|+.|.++++  -....|...++.+.+..+-+.|..++.++++.-  |.  ......-.+..-
T Consensus      1535 ~L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~l--Pk~eHv~~IskfAqLE 1610 (1710)
T KOG1070|consen 1535 KLLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALKSL--PKQEHVEFISKFAQLE 1610 (1710)
T ss_pred             HHHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhc--chhhhHHHHHHHHHHH
Confidence            556666666666666666666666543  344556666666666666666666666665543  32  333444455555


Q ss_pred             HhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 048090          380 HDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKK  436 (447)
Q Consensus       380 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p  436 (447)
                      .+.|+.++++.+|+..+...|.....|+.+++.-.+.|+.+.++.+|++....++.|
T Consensus      1611 Fk~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~ 1667 (1710)
T KOG1070|consen 1611 FKYGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSI 1667 (1710)
T ss_pred             hhcCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCCh
Confidence            566666666666666666666666666666666666666666666666666655544

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.13  E-value=4.2e-07  Score=93.18  Aligned_cols=337  Identities=9%  Similarity=-0.058  Sum_probs=210.8

Q ss_pred             ccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCC----CC----c----hhhHHHHHHHHHh
Q 048090           97 TSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIP----VK----N----SVCANALLSGYCE  164 (447)
Q Consensus        97 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~----~~----~----~~~~~~l~~~~~~  164 (447)
                      ...|+++.+..++..+.......++.........+...|+++++...+....    ..    +    ......+...+..
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            3456666666655544211111223333444555667889999888776542    11    1    1112223345668


Q ss_pred             cCCHHHHHHHHHhhhhcCCCCcH----hhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCC---ChhHHHHHHHHHHhc
Q 048090          165 AKLWAGGLELVRLMPALGLDYDH----FTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGN---DVFMQSSLIEMYGKC  237 (447)
Q Consensus       165 ~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~  237 (447)
                      .|++++|...+++..+.-...+.    .....+...+...|+++.|...+++.........+   .......+...+...
T Consensus       465 ~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~  544 (903)
T PRK04841        465 DGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQ  544 (903)
T ss_pred             CCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHC
Confidence            89999999999887653111121    23444555677899999999999988764221111   123455667788899


Q ss_pred             CChHHHHHHHHhhhhhcccCCCc----chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC--CCC--CHHHHHHHHHHHhc
Q 048090          238 GLVTKALQVFNLAGHRLEGEINK----DVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNG--TKP--DEVAFVTVISACSH  309 (447)
Q Consensus       238 g~~~~A~~~~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~--~~p--~~~~~~~ll~~~~~  309 (447)
                      |+++.|...+++..........+    ....+..+...+...|++++|...+.+.....  ..+  ....+..+......
T Consensus       545 G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~  624 (903)
T PRK04841        545 GFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLA  624 (903)
T ss_pred             CCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHH
Confidence            99999999988665543221111    22334455666777899999999988875531  112  23344455667778


Q ss_pred             cCcHHHHHHHHHHHHHhcCCCCChhhH-----HHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCc--hHhHHHHHHHHHhc
Q 048090          310 TGQVKLGIEYFEWMVHDYKLEPGPEHY-----SCLVDLLCRAGELDKAWKLINEMLDRGHGSSS--VSMWGALLSACHDC  382 (447)
Q Consensus       310 ~~~~~~a~~~~~~~~~~~~~~~~~~~~-----~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~--~~~~~~l~~~~~~~  382 (447)
                      .|+++.|...++..............+     ...+..+...|+.+.|..++............  ...+..+..++...
T Consensus       625 ~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~  704 (903)
T PRK04841        625 RGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILL  704 (903)
T ss_pred             cCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHc
Confidence            999999999998875421111111111     11224455689999999998776543211110  11145678888999


Q ss_pred             CCccHHHHHHHHHhhhC------CCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 048090          383 GKFELGKLAAQKALELD------PHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKG  433 (447)
Q Consensus       383 g~~~~a~~~~~~~~~~~------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  433 (447)
                      |++++|...++++....      +....++..++.++.+.|+.++|...+.+..+..
T Consensus       705 g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        705 GQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKLA  761 (903)
T ss_pred             CCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            99999999999988752      1234567888889999999999999999887643

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=99.12  E-value=2e-08  Score=81.47  Aligned_cols=119  Identities=13%  Similarity=0.145  Sum_probs=84.9

Q ss_pred             cCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHH-HhcCC--cc
Q 048090          310 TGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSAC-HDCGK--FE  386 (447)
Q Consensus       310 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~-~~~g~--~~  386 (447)
                      .++.+++...++...+.  -+.+...|..+...|...|++++|...+++..+..  |++..++..+..++ ...|+  .+
T Consensus        52 ~~~~~~~i~~l~~~L~~--~P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~--P~~~~~~~~lA~aL~~~~g~~~~~  127 (198)
T PRK10370         52 QQTPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWRNDYDNALLAYRQALQLR--GENAELYAALATVLYYQAGQHMTP  127 (198)
T ss_pred             chhHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhcCCCCcH
Confidence            55566666666666553  24457777777777777777777777777777766  77777777777764 55565  47


Q ss_pred             HHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 048090          387 LGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       387 ~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  432 (447)
                      +|..+++++++.+|.++.++..++..+.+.|++++|+..|+++.+.
T Consensus       128 ~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l  173 (198)
T PRK10370        128 QTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKVLDL  173 (198)
T ss_pred             HHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            7777777777777777777777777777777777777777777663

>PLN02789 farnesyltranstransferase

Probab=99.11  E-value=1.5e-07  Score=82.11  Aligned_cols=230  Identities=12%  Similarity=0.014  Sum_probs=141.7

Q ss_pred             CCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcC-ChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCH
Q 048090          200 LSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCG-LVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYF  278 (447)
Q Consensus       200 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  278 (447)
                      .+..+.|..+..++++..   +-+..+|+....++...| ++++++..++++...    .+.+..+|+.....+.+.|+.
T Consensus        50 ~e~serAL~lt~~aI~ln---P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~----npknyqaW~~R~~~l~~l~~~  122 (320)
T PLN02789         50 DERSPRALDLTADVIRLN---PGNYTVWHFRRLCLEALDADLEEELDFAEDVAED----NPKNYQIWHHRRWLAEKLGPD  122 (320)
T ss_pred             CCCCHHHHHHHHHHHHHC---chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHH----CCcchHHhHHHHHHHHHcCch
Confidence            345555555555555542   223344444444444444 456666666655443    344445555544444444442


Q ss_pred             --HHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHc---CC----H
Q 048090          279 --KEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRA---GE----L  349 (447)
Q Consensus       279 --~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~----~  349 (447)
                        +++..+++++.+...+ +..+|+...-++...|+++++++.++++++. + .-+...|+.....+.+.   |.    .
T Consensus       123 ~~~~el~~~~kal~~dpk-Ny~AW~~R~w~l~~l~~~~eeL~~~~~~I~~-d-~~N~sAW~~R~~vl~~~~~l~~~~~~~  199 (320)
T PLN02789        123 AANKELEFTRKILSLDAK-NYHAWSHRQWVLRTLGGWEDELEYCHQLLEE-D-VRNNSAWNQRYFVITRSPLLGGLEAMR  199 (320)
T ss_pred             hhHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-C-CCchhHHHHHHHHHHhccccccccccH
Confidence              4566666666664322 5566666666666667777777777777654 1 22345555544444333   22    3


Q ss_pred             HHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhc----CCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcC--------
Q 048090          350 DKAWKLINEMLDRGHGSSSVSMWGALLSACHDC----GKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFC--------  417 (447)
Q Consensus       350 ~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~----g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--------  417 (447)
                      ++++++..+++...  |++..+|+.+...+...    ++..+|...+.++.+.+|.++.+...|+..|+...        
T Consensus       200 e~el~y~~~aI~~~--P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~~~~~  277 (320)
T PLN02789        200 DSELKYTIDAILAN--PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSNHVFALSDLLDLLCEGLQPTAEFRD  277 (320)
T ss_pred             HHHHHHHHHHHHhC--CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCCcHHHHHHHHHHHHhhhccchhhhh
Confidence            46777777777776  88888899888888773    34566888888888888889999999999988642        


Q ss_pred             ----------ChHHHHHHHHHHHHcCCCCCCccccc
Q 048090          418 ----------MWDEIGQLRELMKEKGLKKDVGCSWI  443 (447)
Q Consensus       418 ----------~~~~A~~~~~~m~~~~~~p~~~~~~~  443 (447)
                                ..++|.++++.+.  ...|=...||-
T Consensus       278 ~~~~~~~~~~~~~~a~~~~~~l~--~~d~ir~~yw~  311 (320)
T PLN02789        278 TVDTLAEELSDSTLAQAVCSELE--VADPMRRNYWA  311 (320)
T ss_pred             hhhccccccccHHHHHHHHHHHH--hhCcHHHHHHH
Confidence                      3367888888883  56665555553

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=99.09  E-value=2.8e-09  Score=81.85  Aligned_cols=122  Identities=16%  Similarity=0.114  Sum_probs=74.3

Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 048090          283 KLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLD  361 (447)
Q Consensus       283 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  361 (447)
                      .++++..+  ..|+.  +..+..++...|++++|...|+.+...   .| +...|..+..++...|++++|...|++...
T Consensus        14 ~~~~~al~--~~p~~--~~~~g~~~~~~g~~~~A~~~~~~al~~---~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~   86 (144)
T PRK15359         14 DILKQLLS--VDPET--VYASGYASWQEGDYSRAVIDFSWLVMA---QPWSWRAHIALAGTWMMLKEYTTAINFYGHALM   86 (144)
T ss_pred             HHHHHHHH--cCHHH--HHHHHHHHHHcCCHHHHHHHHHHHHHc---CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            44555544  23432  334455556666666666666666532   33 456666666666666666666666666666


Q ss_pred             CCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHH
Q 048090          362 RGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLY  413 (447)
Q Consensus       362 ~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  413 (447)
                      .+  |.+..++..++.++...|++++|...++++++..|.++..+.....+.
T Consensus        87 l~--p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~~~~~~~~~~~~  136 (144)
T PRK15359         87 LD--ASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYADASWSEIRQNAQ  136 (144)
T ss_pred             cC--CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHH
Confidence            55  666666666666666666666666666666666666666665555443

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=99.07  E-value=4.7e-08  Score=82.82  Aligned_cols=186  Identities=12%  Similarity=0.029  Sum_probs=116.0

Q ss_pred             CCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcch---hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH
Q 048090          221 GNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDV---VLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDE  297 (447)
Q Consensus       221 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~  297 (447)
                      +.....+..++..+...|++++|...|+++...    .+.+.   .++..+..++.+.|++++|...++++.+.......
T Consensus        30 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~----~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~  105 (235)
T TIGR03302        30 EWPAEELYEEAKEALDSGDYTEAIKYFEALESR----YPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPD  105 (235)
T ss_pred             cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh----CCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCc
Confidence            344556666677777777777777777765443    22221   34566667777777777777777777664321111


Q ss_pred             --HHHHHHHHHHhcc--------CcHHHHHHHHHHHHHhcCCCCCh-hhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCC
Q 048090          298 --VAFVTVISACSHT--------GQVKLGIEYFEWMVHDYKLEPGP-EHYSCLVDLLCRAGELDKAWKLINEMLDRGHGS  366 (447)
Q Consensus       298 --~~~~~ll~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p  366 (447)
                        .++..+..++...        |+++.|.+.|+.+...   .|+. ..+..+...    +....       ..      
T Consensus       106 ~~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~a~~~~----~~~~~-------~~------  165 (235)
T TIGR03302       106 ADYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR---YPNSEYAPDAKKRM----DYLRN-------RL------  165 (235)
T ss_pred             hHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH---CCCChhHHHHHHHH----HHHHH-------HH------
Confidence              1333344444433        5666677777776644   3332 222221111    00000       00      


Q ss_pred             CchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCC---chhHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 048090          367 SSVSMWGALLSACHDCGKFELGKLAAQKALELDPH---NVGIYVMLSNLYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       367 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  432 (447)
                        ......+...+.+.|++++|...++++++..|+   .+..+..++.++...|++++|..+++.+...
T Consensus       166 --~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       166 --AGKELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             --HHHHHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence              011235677889999999999999999998765   4578999999999999999999999988764

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).

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.07  E-value=6e-07  Score=73.86  Aligned_cols=395  Identities=9%  Similarity=-0.025  Sum_probs=239.0

Q ss_pred             hhhhhhhcccccCCcchHHHhhccCCC---CCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHH-HHHhc
Q 048090           22 RLMLPYTTCRHKKNLGTLTNCLKFLNP---RNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSS-LTAST   97 (447)
Q Consensus        22 ~l~~~~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l-l~~~~   97 (447)
                      +.+.-+.+..   ++++|++++....+   ++....+.|..+|-+..++..|-+.++++-..  .|...-|... ...+-
T Consensus        15 aviy~lI~d~---ry~DaI~~l~s~~Er~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQSLY   89 (459)
T KOG4340|consen   15 AVVYRLIRDA---RYADAIQLLGSELERSPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQSLY   89 (459)
T ss_pred             HHHHHHHHHh---hHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHHHH
Confidence            3344445555   48888888776544   35566788889999999999999999999774  4555444322 23456


Q ss_pred             cCCchhHHHHHHHHHHHcCCCCchhhHHHHH--HHHHccCChhhHHHHhccCC-CCchhhHHHHHHHHHhcCCHHHHHHH
Q 048090           98 SVKDARFGKQVQAHVTKSGWLSSVFVGSALI--DLYAKLLLIHDAELMFDEIP-VKNSVCANALLSGYCEAKLWAGGLEL  174 (447)
Q Consensus        98 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~--~~~~~~g~~~~a~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~  174 (447)
                      +.+.+..|+++...|...   |+...-..-+  ......+++..+..++++.+ +.+..+.+...-...+.|+++.|.+-
T Consensus        90 ~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqk  166 (459)
T KOG4340|consen   90 KACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQK  166 (459)
T ss_pred             HhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHH
Confidence            678888999998887652   2222111111  22346789999999999998 46677777777777899999999999


Q ss_pred             HHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCC-----------Ch---------------hHHH
Q 048090          175 VRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGN-----------DV---------------FMQS  228 (447)
Q Consensus       175 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----------~~---------------~~~~  228 (447)
                      |+...+.+---....|+..+ +..+.++++.|.+...+++.+|....|           |+               ..+|
T Consensus       167 FqaAlqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfN  245 (459)
T KOG4340|consen  167 FQAALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFN  245 (459)
T ss_pred             HHHHHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhh
Confidence            99987754333445666544 556789999999999999988432222           11               1233


Q ss_pred             HHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHh
Q 048090          229 SLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACS  308 (447)
Q Consensus       229 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  308 (447)
                      .-...+.+.|+++.|.+.+-.|.-+.+.  ..|+.|...+.-. -..+++.+..+-+.-+...+. ....||..++-.||
T Consensus       246 LKaAIeyq~~n~eAA~eaLtDmPPRaE~--elDPvTLHN~Al~-n~~~~p~~g~~KLqFLL~~nP-fP~ETFANlLllyC  321 (459)
T KOG4340|consen  246 LKAAIEYQLRNYEAAQEALTDMPPRAEE--ELDPVTLHNQALM-NMDARPTEGFEKLQFLLQQNP-FPPETFANLLLLYC  321 (459)
T ss_pred             hhhhhhhhcccHHHHHHHhhcCCCcccc--cCCchhhhHHHHh-cccCCccccHHHHHHHHhcCC-CChHHHHHHHHHHh
Confidence            3334467889999999888755433222  2344444333222 123455555555555666543 45678999999999


Q ss_pred             ccCcHHHHHHHHHHHHHhcCC-CCChhhHHHHHHHHH-HcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHH--hcCC
Q 048090          309 HTGQVKLGIEYFEWMVHDYKL-EPGPEHYSCLVDLLC-RAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACH--DCGK  384 (447)
Q Consensus       309 ~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~l~~~~~-~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~--~~g~  384 (447)
                      +..-++.|..++.+-... .. -.+...|+ |++++. ..-..++|.+-++.+...-  ....  -..-+..-.  ..++
T Consensus       322 KNeyf~lAADvLAEn~~l-Tyk~L~~Yly~-LLdaLIt~qT~pEea~KKL~~La~~l--~~kL--RklAi~vQe~r~~~d  395 (459)
T KOG4340|consen  322 KNEYFDLAADVLAENAHL-TYKFLTPYLYD-LLDALITCQTAPEEAFKKLDGLAGML--TEKL--RKLAIQVQEARHNRD  395 (459)
T ss_pred             hhHHHhHHHHHHhhCcch-hHHHhhHHHHH-HHHHHHhCCCCHHHHHHHHHHHHHHH--HHHH--HHHHHHHHHHHhccc
Confidence            999999888887543211 11 12333343 333433 3345667766655543321  0000  111111111  1111


Q ss_pred             ---ccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCC
Q 048090          385 ---FELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDV  438 (447)
Q Consensus       385 ---~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~  438 (447)
                         ...+.+-+++.+++--   .+....++.|.+..++..++++|..-.+.--+-|+
T Consensus       396 d~a~R~ai~~Yd~~LE~YL---PVlMa~AkiyW~~~Dy~~vEk~Fr~SvefC~ehd~  449 (459)
T KOG4340|consen  396 DEAIRKAVNEYDETLEKYL---PVLMAQAKIYWNLEDYPMVEKIFRKSVEFCNDHDV  449 (459)
T ss_pred             HHHHHHHHHHHHHHHHHHH---HHHHHHHHhhccccccHHHHHHHHHHHhhhcccce
Confidence               1223333444444331   23445566788899999999999877664433333

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=99.06  E-value=8e-07  Score=82.91  Aligned_cols=360  Identities=12%  Similarity=0.053  Sum_probs=220.8

Q ss_pred             hhhHHHhhhhhh--hhhcccccCCcchHHHhhccCCCCCCccHHHHHHHHHhCCChhhHHHHHHHHHhc-C--------C
Q 048090           14 ICLIIFQSRLML--PYTTCRHKKNLGTLTNCLKFLNPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVH-G--------I   82 (447)
Q Consensus        14 ~~~~~~~~~l~~--~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-~--------~   82 (447)
                      +.|..|-.++++  .|.--|   +.+.|.+-...+  .+...|..+.+.|.+..+.+-|.-.+-.|... |        -
T Consensus       723 ~Cd~~TRkaml~FSfyvtiG---~MD~AfksI~~I--kS~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q  797 (1416)
T KOG3617|consen  723 NCDESTRKAMLDFSFYVTIG---SMDAAFKSIQFI--KSDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQ  797 (1416)
T ss_pred             ccCHHHHHhhhceeEEEEec---cHHHHHHHHHHH--hhhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHh
Confidence            356677777764  355555   688887777665  45567999999999999988888887777431 1        1


Q ss_pred             CCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCCCC-chhhHHHHHHH
Q 048090           83 FLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVK-NSVCANALLSG  161 (447)
Q Consensus        83 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~l~~~  161 (447)
                      .|+ .+-..+.......|.+++|+.+|++..+.         ..|-..|...|.+++|.++-+.-..- =..||......
T Consensus       798 ~~~-e~eakvAvLAieLgMlEeA~~lYr~ckR~---------DLlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~  867 (1416)
T KOG3617|consen  798 NGE-EDEAKVAVLAIELGMLEEALILYRQCKRY---------DLLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKY  867 (1416)
T ss_pred             CCc-chhhHHHHHHHHHhhHHHHHHHHHHHHHH---------HHHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHH
Confidence            122 22223333346778999999999988774         34456778889999999887654321 12456666676


Q ss_pred             HHhcCCHHHHHHHHHhhhhcC-------------------CCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCC
Q 048090          162 YCEAKLWAGGLELVRLMPALG-------------------LDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGN  222 (447)
Q Consensus       162 ~~~~~~~~~a~~~~~~~~~~~-------------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  222 (447)
                      +-..+|.+.|++.|++.....                   -..|...|......+...|+.+.|..+|.....       
T Consensus       868 Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D-------  940 (1416)
T KOG3617|consen  868 LEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD-------  940 (1416)
T ss_pred             HHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh-------
Confidence            777788888888887643210                   022344455555555667777777777776544       


Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 048090          223 DVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVT  302 (447)
Q Consensus       223 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~  302 (447)
                          |.+++...|-.|+.++|-++-+         ...|....-.+...|-..|++.+|..+|.+...         |..
T Consensus       941 ----~fs~VrI~C~qGk~~kAa~iA~---------esgd~AAcYhlaR~YEn~g~v~~Av~FfTrAqa---------fsn  998 (1416)
T KOG3617|consen  941 ----YFSMVRIKCIQGKTDKAARIAE---------ESGDKAACYHLARMYENDGDVVKAVKFFTRAQA---------FSN  998 (1416)
T ss_pred             ----hhhheeeEeeccCchHHHHHHH---------hcccHHHHHHHHHHhhhhHHHHHHHHHHHHHHH---------HHH
Confidence                3456667777888888888776         244666777788888889999999888877643         222


Q ss_pred             HHHHHhc---------------cCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHH--------H
Q 048090          303 VISACSH---------------TGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINE--------M  359 (447)
Q Consensus       303 ll~~~~~---------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~--------~  359 (447)
                      .|+.|-.               ..+.-.|..+|++.    |..     ...-+..|.+.|.+.+|+++.-+        +
T Consensus       999 AIRlcKEnd~~d~L~nlal~s~~~d~v~aArYyEe~----g~~-----~~~AVmLYHkAGm~~kALelAF~tqQf~aL~l 1069 (1416)
T KOG3617|consen  999 AIRLCKENDMKDRLANLALMSGGSDLVSAARYYEEL----GGY-----AHKAVMLYHKAGMIGKALELAFRTQQFSALDL 1069 (1416)
T ss_pred             HHHHHHhcCHHHHHHHHHhhcCchhHHHHHHHHHHc----chh-----hhHHHHHHHhhcchHHHHHHHHhhcccHHHHH
Confidence            2222221               22233344444443    111     11223446677777776665221        2


Q ss_pred             HhCCCCC-CchHhHHHHHHHHHhcCCccHHHHHHHHHhh---------------------h-------CCC---chhHHH
Q 048090          360 LDRGHGS-SSVSMWGALLSACHDCGKFELGKLAAQKALE---------------------L-------DPH---NVGIYV  407 (447)
Q Consensus       360 ~~~~~~p-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---------------------~-------~~~---~~~~~~  407 (447)
                      +..+..| .|+...+.-...+....++++|..++-.+.+                     +       .|+   ...+..
T Consensus      1070 Ia~DLd~~sDp~ll~RcadFF~~~~qyekAV~lL~~ar~~~~AlqlC~~~nv~vtee~aE~mTp~Kd~~~~e~~R~~vLe 1149 (1416)
T KOG3617|consen 1070 IAKDLDAGSDPKLLRRCADFFENNQQYEKAVNLLCLAREFSGALQLCKNRNVRVTEEFAELMTPTKDDMPNEQERKQVLE 1149 (1416)
T ss_pred             HHHhcCCCCCHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHhcCcCcCCCccHHHHHHHHH
Confidence            2222222 2444455555555566666666554433222                     1       122   234678


Q ss_pred             HHHHHHHhcCChHHHHHHH
Q 048090          408 MLSNLYAKFCMWDEIGQLR  426 (447)
Q Consensus       408 ~l~~~~~~~g~~~~A~~~~  426 (447)
                      .++..|.++|.+..|-+-|
T Consensus      1150 qvae~c~qQG~Yh~AtKKf 1168 (1416)
T KOG3617|consen 1150 QVAELCLQQGAYHAATKKF 1168 (1416)
T ss_pred             HHHHHHHhccchHHHHHHH
Confidence            8888999999888776544

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

Probab=99.06  E-value=5.5e-06  Score=74.68  Aligned_cols=361  Identities=11%  Similarity=0.048  Sum_probs=216.1

Q ss_pred             HHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCCh
Q 048090           58 ISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLI  137 (447)
Q Consensus        58 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  137 (447)
                      ++.+...|++++|.+...++...+ +-+...+..-+-++.+.+.+++|+.+.+.-..  ...+...+.--.-+..+.+..
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~--~~~~~~~~fEKAYc~Yrlnk~   95 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGA--LLVINSFFFEKAYCEYRLNKL   95 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcch--hhhcchhhHHHHHHHHHcccH
Confidence            455677899999999999999865 33556677777788899999999865543221  111111112223445588999


Q ss_pred             hhHHHHhccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCC---------------------------cHhhH
Q 048090          138 HDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDY---------------------------DHFTL  190 (447)
Q Consensus       138 ~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---------------------------~~~~~  190 (447)
                      ++|+..++-....+..+...-...+-+.+++++|+.+|+.+.+.+.+-                           ...+|
T Consensus        96 Dealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q~v~~v~e~sy  175 (652)
T KOG2376|consen   96 DEALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQSVPEVPEDSY  175 (652)
T ss_pred             HHHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHHhccCCCcchH
Confidence            999999996666666677777888889999999999999996543210                           11234


Q ss_pred             HHHHH---HHhcCCcHHHHHHHHHHHHHhhh-----c-CC-CCh-----hHHHHHHHHHHhcCChHHHHHHHHhhhhhcc
Q 048090          191 SALLR---ACAGLSAAEFGRQVHAYMIRKCC-----N-LG-NDV-----FMQSSLIEMYGKCGLVTKALQVFNLAGHRLE  255 (447)
Q Consensus       191 ~~l~~---~~~~~~~~~~a~~~~~~~~~~~~-----~-~~-~~~-----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  255 (447)
                      ..+.+   .+...|++.+|+++++...+.+.     + .. .+.     .+..-+..++-..|+-++|..++......  
T Consensus       176 el~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~~--  253 (652)
T KOG2376|consen  176 ELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDIIKR--  253 (652)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHh--
Confidence            33332   23456788888888877733210     0 00 011     12233445566778888888887766554  


Q ss_pred             cCCCcchhhH----HHHHHHHHhcCCH-----------------HHHHHHH-------------------------HHHH
Q 048090          256 GEINKDVVLW----TSMLGVYGRNGYF-----------------KEVIKLY-------------------------EAML  289 (447)
Q Consensus       256 ~~~~~~~~~~----~~l~~~~~~~g~~-----------------~~a~~~~-------------------------~~m~  289 (447)
                        .++|....    |.++.. ....++                 +.++.-+                         ++..
T Consensus       254 --~~~D~~~~Av~~NNLva~-~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~tnk~~q~r~~~  330 (652)
T KOG2376|consen  254 --NPADEPSLAVAVNNLVAL-SKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFTNKMDQVRELS  330 (652)
T ss_pred             --cCCCchHHHHHhcchhhh-ccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence              33333221    111111 000000                 0000000                         0000


Q ss_pred             hC--CCCCCHHHHHHHHHHHhc--cCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHH-------
Q 048090          290 MN--GTKPDEVAFVTVISACSH--TGQVKLGIEYFEWMVHDYKLEPG-PEHYSCLVDLLCRAGELDKAWKLIN-------  357 (447)
Q Consensus       290 ~~--~~~p~~~~~~~ll~~~~~--~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~-------  357 (447)
                      ..  +..| ...+..++..+.+  ...+..+..++....+.  .+-+ ..+....+......|+++.|.+++.       
T Consensus       331 a~lp~~~p-~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~--~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~  407 (652)
T KOG2376|consen  331 ASLPGMSP-ESLFPILLQEATKVREKKHKKAIELLLQFADG--HPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWK  407 (652)
T ss_pred             HhCCccCc-hHHHHHHHHHHHHHHHHHHhhhHHHHHHHhcc--CCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhh
Confidence            00  1112 2233344443322  22456667777666543  2222 4556667778889999999999999       


Q ss_pred             -HHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhC----CC---chhHHHHHHHHHHhcCChHHHHHHHHHH
Q 048090          358 -EMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELD----PH---NVGIYVMLSNLYAKFCMWDEIGQLRELM  429 (447)
Q Consensus       358 -~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~----~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~m  429 (447)
                       .+.+.+..|   .+...+...+.+.++-+.|..++.+++..-    +.   -..++..++..-.+.|+-++|...++++
T Consensus       408 ss~~~~~~~P---~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel  484 (652)
T KOG2376|consen  408 SSILEAKHLP---GTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEEL  484 (652)
T ss_pred             hhhhhhccCh---hHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHH
Confidence             666666544   335567777788888888888888877632    22   2234455555667889999999999999


Q ss_pred             HHc
Q 048090          430 KEK  432 (447)
Q Consensus       430 ~~~  432 (447)
                      .+.
T Consensus       485 ~k~  487 (652)
T KOG2376|consen  485 VKF  487 (652)
T ss_pred             HHh
Confidence            873

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=99.05  E-value=1.3e-08  Score=78.15  Aligned_cols=117  Identities=9%  Similarity=-0.095  Sum_probs=98.7

Q ss_pred             HHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHh
Q 048090          317 IEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKAL  396 (447)
Q Consensus       317 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  396 (447)
                      ..++++..+   +.|+.  +..+...+...|++++|...|+......  |.+..+|..++.++...|++++|...|++++
T Consensus        13 ~~~~~~al~---~~p~~--~~~~g~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al   85 (144)
T PRK15359         13 EDILKQLLS---VDPET--VYASGYASWQEGDYSRAVIDFSWLVMAQ--PWSWRAHIALAGTWMMLKEYTTAINFYGHAL   85 (144)
T ss_pred             HHHHHHHHH---cCHHH--HHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            345666653   35654  5567778899999999999999998877  8899999999999999999999999999999


Q ss_pred             hhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCCcccc
Q 048090          397 ELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDVGCSW  442 (447)
Q Consensus       397 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~  442 (447)
                      +.+|.++.++..++.++...|++++|+..+++..+  ..|+...+|
T Consensus        86 ~l~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~--~~p~~~~~~  129 (144)
T PRK15359         86 MLDASHPEPVYQTGVCLKMMGEPGLAREAFQTAIK--MSYADASWS  129 (144)
T ss_pred             hcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCChHHH
Confidence            99999999999999999999999999999999886  456554443

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.05  E-value=3.6e-08  Score=88.12  Aligned_cols=254  Identities=12%  Similarity=0.047  Sum_probs=193.6

Q ss_pred             HHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCCh
Q 048090          161 GYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLV  240 (447)
Q Consensus       161 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  240 (447)
                      -+.+.|++.+|.-.|+...+.. +-+...|..|.......++-..|+..+++.++.+|   .+..+...|.-.|...|.-
T Consensus       294 ~lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP---~NleaLmaLAVSytNeg~q  369 (579)
T KOG1125|consen  294 NLMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDP---TNLEALMALAVSYTNEGLQ  369 (579)
T ss_pred             HHHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCC---ccHHHHHHHHHHHhhhhhH
Confidence            3568899999999999988774 44677899999899999999999999999998743   3778889999999999999


Q ss_pred             HHHHHHHHhhhhhccc-C--CC--cchhhHHHHHHHHHhcCCHHHHHHHHHHHH-hCCCCCCHHHHHHHHHHHhccCcHH
Q 048090          241 TKALQVFNLAGHRLEG-E--IN--KDVVLWTSMLGVYGRNGYFKEVIKLYEAML-MNGTKPDEVAFVTVISACSHTGQVK  314 (447)
Q Consensus       241 ~~A~~~~~~~~~~~~~-~--~~--~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~-~~~~~p~~~~~~~ll~~~~~~~~~~  314 (447)
                      ..|+..++......-+ .  ..  ++...-..  ..+.....+....++|-++. ..+..+|......|.-.|--.|+++
T Consensus       370 ~~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efd  447 (579)
T KOG1125|consen  370 NQALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFD  447 (579)
T ss_pred             HHHHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHH
Confidence            9999999865443100 0  00  00000000  12222233445555555554 4454467777778887888899999


Q ss_pred             HHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHH
Q 048090          315 LGIEYFEWMVHDYKLEPG-PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQ  393 (447)
Q Consensus       315 ~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~  393 (447)
                      +|..-|+.++.   ++|+ ..+||.|...++...+.++|...|+++++..  |.-+.+...|+-+|...|.+++|...|-
T Consensus       448 raiDcf~~AL~---v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLq--P~yVR~RyNlgIS~mNlG~ykEA~~hlL  522 (579)
T KOG1125|consen  448 RAVDCFEAALQ---VKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQ--PGYVRVRYNLGISCMNLGAYKEAVKHLL  522 (579)
T ss_pred             HHHHHHHHHHh---cCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcC--CCeeeeehhhhhhhhhhhhHHHHHHHHH
Confidence            99999999985   4774 8899999999999999999999999999876  9899999999999999999999999999


Q ss_pred             HHhhhCCC----------chhHHHHHHHHHHhcCChHHHHHH
Q 048090          394 KALELDPH----------NVGIYVMLSNLYAKFCMWDEIGQL  425 (447)
Q Consensus       394 ~~~~~~~~----------~~~~~~~l~~~~~~~g~~~~A~~~  425 (447)
                      .++.+.+.          +..+|..|=.++.-.++.|-+.+.
T Consensus       523 ~AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~a  564 (579)
T KOG1125|consen  523 EALSMQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQEA  564 (579)
T ss_pred             HHHHhhhcccccccCCcchHHHHHHHHHHHHHcCCchHHHHh
Confidence            98886533          235788888888888887755443

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=99.04  E-value=7.5e-08  Score=92.40  Aligned_cols=146  Identities=8%  Similarity=0.023  Sum_probs=102.1

Q ss_pred             CCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC-hhh
Q 048090          258 INKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPD-EVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG-PEH  335 (447)
Q Consensus       258 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~  335 (447)
                      .+.++..+..|.....+.|.+++|..+++...+.  .|+ ......+...+.+.+++++|....++....   .|+ ...
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~---~p~~~~~  156 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSG---GSSSARE  156 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhc---CCCCHHH
Confidence            3445667777777777777777887777777773  454 455566667777777777777777777643   443 555


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHH
Q 048090          336 YSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLS  410 (447)
Q Consensus       336 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~  410 (447)
                      ...+..++.+.|++++|..+|+++...+  |++..++..+..++...|+.++|...|+++++...+....|+.++
T Consensus       157 ~~~~a~~l~~~g~~~~A~~~y~~~~~~~--p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~~~~~~~  229 (694)
T PRK15179        157 ILLEAKSWDEIGQSEQADACFERLSRQH--PEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGARKLTRRL  229 (694)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHhcC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchHHHHHHH
Confidence            6666777777777778877777777755  666777777777777777777777777777776655445544443

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=99.03  E-value=5e-07  Score=83.18  Aligned_cols=241  Identities=13%  Similarity=0.050  Sum_probs=190.9

Q ss_pred             CCCchhhHHHHHHHHHccCChhhHHHHhccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHH
Q 048090          117 WLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRA  196 (447)
Q Consensus       117 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  196 (447)
                      ++|-...-..+...+...|-...|..+|+++     ..|..++.+|...|+..+|..+..+..+.  +||+..|..+.+.
T Consensus       394 lpp~Wq~q~~laell~slGitksAl~I~Erl-----emw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv  466 (777)
T KOG1128|consen  394 LPPIWQLQRLLAELLLSLGITKSALVIFERL-----EMWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDV  466 (777)
T ss_pred             CCCcchHHHHHHHHHHHcchHHHHHHHHHhH-----HHHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhh
Confidence            4566666677888999999999999999986     46778899999999999999998887773  7999999999998


Q ss_pred             HhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcC
Q 048090          197 CAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNG  276 (447)
Q Consensus       197 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  276 (447)
                      .....-+++|.++.+....+         ....+.....+.+++.++.+.|+....+    .+.-..+|-.+..+..+.+
T Consensus       467 ~~d~s~yEkawElsn~~sar---------A~r~~~~~~~~~~~fs~~~~hle~sl~~----nplq~~~wf~~G~~ALqle  533 (777)
T KOG1128|consen  467 LHDPSLYEKAWELSNYISAR---------AQRSLALLILSNKDFSEADKHLERSLEI----NPLQLGTWFGLGCAALQLE  533 (777)
T ss_pred             ccChHHHHHHHHHhhhhhHH---------HHHhhccccccchhHHHHHHHHHHHhhc----CccchhHHHhccHHHHHHh
Confidence            88888888998888876443         2222333344578999999999865554    5556788998999999999


Q ss_pred             CHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHH
Q 048090          277 YFKEVIKLYEAMLMNGTKPD-EVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKL  355 (447)
Q Consensus       277 ~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  355 (447)
                      +++.|.+.|..-..  ..|| ...|+.+-.+|.+.++-.+|...+.+..+- + .-+...|...+....+.|.+++|++.
T Consensus       534 k~q~av~aF~rcvt--L~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKc-n-~~~w~iWENymlvsvdvge~eda~~A  609 (777)
T KOG1128|consen  534 KEQAAVKAFHRCVT--LEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKC-N-YQHWQIWENYMLVSVDVGEFEDAIKA  609 (777)
T ss_pred             hhHHHHHHHHHHhh--cCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhc-C-CCCCeeeechhhhhhhcccHHHHHHH
Confidence            99999999999887  4554 578999999999999999999999999875 3 55677788888888999999999999


Q ss_pred             HHHHHhCCCCCCchHhHHHHHHHHHh
Q 048090          356 INEMLDRGHGSSSVSMWGALLSACHD  381 (447)
Q Consensus       356 ~~~~~~~~~~p~~~~~~~~l~~~~~~  381 (447)
                      +.++......-.+......++....+
T Consensus       610 ~~rll~~~~~~~d~~vl~~iv~~~~~  635 (777)
T KOG1128|consen  610 YHRLLDLRKKYKDDEVLLIIVRTVLE  635 (777)
T ss_pred             HHHHHHhhhhcccchhhHHHHHHHHh
Confidence            99987654433344445555554443

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.02  E-value=2.3e-06  Score=87.85  Aligned_cols=379  Identities=8%  Similarity=-0.053  Sum_probs=230.8

Q ss_pred             HhhhhhhhhhcccccCCcchHHHhhccCCCCCCcc--HHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHh
Q 048090           19 FQSRLMLPYTTCRHKKNLGTLTNCLKFLNPRNPLP--FNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTAS   96 (447)
Q Consensus        19 ~~~~l~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~   96 (447)
                      +.......+...|   ++.+|..............  ...........|++..+..+++.+.......+..........+
T Consensus       343 lh~raa~~~~~~g---~~~~Al~~a~~a~d~~~~~~ll~~~a~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~  419 (903)
T PRK04841        343 LHRAAAEAWLAQG---FPSEAIHHALAAGDAQLLRDILLQHGWSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLA  419 (903)
T ss_pred             HHHHHHHHHHHCC---CHHHHHHHHHHCCCHHHHHHHHHHhHHHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHH
Confidence            3344444455544   4666666555544332111  1122234455677777777776653221111222223334445


Q ss_pred             ccCCchhHHHHHHHHHHHcCC------CCch--hhHHHHHHHHHccCChhhHHHHhccCCC----Cc----hhhHHHHHH
Q 048090           97 TSVKDARFGKQVQAHVTKSGW------LSSV--FVGSALIDLYAKLLLIHDAELMFDEIPV----KN----SVCANALLS  160 (447)
Q Consensus        97 ~~~~~~~~a~~~~~~~~~~~~------~~~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~----~~----~~~~~~l~~  160 (447)
                      ...|+++++..++......--      .+..  .....+...+...|++++|...+++...    .+    ....+.+..
T Consensus       420 ~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~  499 (903)
T PRK04841        420 QSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGE  499 (903)
T ss_pred             HHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHH
Confidence            677899999999887755311      1111  1222233455678999999888876432    22    134556667


Q ss_pred             HHHhcCCHHHHHHHHHhhhhcCC---CC--cHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhc--CC--C-ChhHHHHH
Q 048090          161 GYCEAKLWAGGLELVRLMPALGL---DY--DHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCN--LG--N-DVFMQSSL  230 (447)
Q Consensus       161 ~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~--~-~~~~~~~l  230 (447)
                      .+...|++++|...+++.....-   .+  ...++..+...+...|+++.|...+++.......  ..  + ....+..+
T Consensus       500 ~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l  579 (903)
T PRK04841        500 VHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIR  579 (903)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHH
Confidence            77889999999999888764211   11  1234455666778899999999999887764211  11  1 22334556


Q ss_pred             HHHHHhcCChHHHHHHHHhhhhhcccCCC-cchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC--CCCCHH--HH--HHH
Q 048090          231 IEMYGKCGLVTKALQVFNLAGHRLEGEIN-KDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNG--TKPDEV--AF--VTV  303 (447)
Q Consensus       231 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~--~~p~~~--~~--~~l  303 (447)
                      ...+...|++++|...+.+.........+ .....+..+...+...|+++.|...+.+.....  ......  ..  ...
T Consensus       580 a~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~  659 (903)
T PRK04841        580 AQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVR  659 (903)
T ss_pred             HHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHH
Confidence            66778889999999999876554322111 123445556677888999999999998875421  111110  10  111


Q ss_pred             HHHHhccCcHHHHHHHHHHHHHhcCCCCC---hhhHHHHHHHHHHcCCHHHHHHHHHHHHhC----CCCCCchHhHHHHH
Q 048090          304 ISACSHTGQVKLGIEYFEWMVHDYKLEPG---PEHYSCLVDLLCRAGELDKAWKLINEMLDR----GHGSSSVSMWGALL  376 (447)
Q Consensus       304 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~p~~~~~~~~l~  376 (447)
                      +..+...|+.+.|...+...... .....   ...+..+..++...|+.++|...+++....    +..+....+...+.
T Consensus       660 ~~~~~~~g~~~~A~~~l~~~~~~-~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la  738 (903)
T PRK04841        660 LIYWQMTGDKEAAANWLRQAPKP-EFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLN  738 (903)
T ss_pred             HHHHHHCCCHHHHHHHHHhcCCC-CCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHH
Confidence            23345578999999987765432 11111   111345677788999999999999987653    32233344677788


Q ss_pred             HHHHhcCCccHHHHHHHHHhhhCCC
Q 048090          377 SACHDCGKFELGKLAAQKALELDPH  401 (447)
Q Consensus       377 ~~~~~~g~~~~a~~~~~~~~~~~~~  401 (447)
                      .++...|+.++|...+.++++...+
T Consensus       739 ~a~~~~G~~~~A~~~L~~Al~la~~  763 (903)
T PRK04841        739 QLYWQQGRKSEAQRVLLEALKLANR  763 (903)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHhCc
Confidence            8999999999999999999997643

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=99.01  E-value=1.6e-05  Score=71.03  Aligned_cols=128  Identities=15%  Similarity=0.007  Sum_probs=85.3

Q ss_pred             hhHHHhhhhhhhhhcccccCCcchHHHhhccCCC---CCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHH
Q 048090           15 CLIIFQSRLMLPYTTCRHKKNLGTLTNCLKFLNP---RNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCS   91 (447)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~   91 (447)
                      .|+..|+.|+.-+....    .+++...++++..   ..+..|..-|+.-.+.++++....+|.+.+..-  .+...|..
T Consensus        18 ~di~sw~~lire~qt~~----~~~~R~~YEq~~~~FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkv--LnlDLW~l   91 (656)
T KOG1914|consen   18 YDIDSWSQLIREAQTQP----IDKVRETYEQLVNVFPSSPRAWKLYIERELASKDFESVEKLFSRCLVKV--LNLDLWKL   91 (656)
T ss_pred             ccHHHHHHHHHHHccCC----HHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH--hhHhHHHH
Confidence            56899999999988764    8999999998753   466789999999999999999999999998763  35666666


Q ss_pred             HHHHhcc-CCchhHHH----HHHHHH-HHcCCCCc-hhhHHHHHHH---------HHccCChhhHHHHhccCC
Q 048090           92 SLTASTS-VKDARFGK----QVQAHV-TKSGWLSS-VFVGSALIDL---------YAKLLLIHDAELMFDEIP  148 (447)
Q Consensus        92 ll~~~~~-~~~~~~a~----~~~~~~-~~~~~~~~-~~~~~~l~~~---------~~~~g~~~~a~~~~~~~~  148 (447)
                      -|..-.+ .++...+.    +.|+-. .+.|..+- -..|+..+..         |....+++...+++.++.
T Consensus        92 Yl~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral  164 (656)
T KOG1914|consen   92 YLSYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRAL  164 (656)
T ss_pred             HHHHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHh
Confidence            6654333 23333322    223322 23344333 2345444432         334456677788888775

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.98  E-value=4.2e-07  Score=86.44  Aligned_cols=400  Identities=11%  Similarity=-0.032  Sum_probs=225.5

Q ss_pred             cchhHHHhhhhhhhhHHHhhhhhhhhhcccccCCcchHHHhhccC---CCCCCccHHHHHHHHHhCCChhhHHHHHHHHH
Q 048090            2 VHAHQFETGLLLICLIIFQSRLMLPYTTCRHKKNLGTLTNCLKFL---NPRNPLPFNVVISDFCRNGSPLYALKTFSFMH   78 (447)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~   78 (447)
                      +|+.+....++.+. ..+|+.|-..|+...   +...|.+.|+..   .+.+..++....+.|++..+++.|..+.-..-
T Consensus       478 l~ali~alrld~~~-apaf~~LG~iYrd~~---Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~l~~~  553 (1238)
T KOG1127|consen  478 LHALIRALRLDVSL-APAFAFLGQIYRDSD---DMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEICLRAA  553 (1238)
T ss_pred             HHHHHHHHhcccch-hHHHHHHHHHHHHHH---HHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHHHHHh
Confidence            45666667777665 778888888887665   578888888764   34567788889999999999999988833322


Q ss_pred             hcC-CCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCCCCchhh-H-
Q 048090           79 VHG-IFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVC-A-  155 (447)
Q Consensus        79 ~~~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-~-  155 (447)
                      +.. ...-...|...--.+.+.++...|..-|+...+.. |.|...|..+..+|.++|++..|.++|.+...-++.. | 
T Consensus       554 qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~y~  632 (1238)
T KOG1127|consen  554 QKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLSKYG  632 (1238)
T ss_pred             hhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHhHHH
Confidence            211 11111223333334677788888888888888764 5677889999999999999999999997766333222 1 


Q ss_pred             -HHHHHHHHhcCCHHHHHHHHHhhhhc------CCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhh-----cCCCC
Q 048090          156 -NALLSGYCEAKLWAGGLELVRLMPAL------GLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCC-----NLGND  223 (447)
Q Consensus       156 -~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~  223 (447)
                       -......+..|.+.+|...+......      +...-..++..+...+.-.|-..++..+++..++.-.     ....+
T Consensus       633 ~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~~  712 (1238)
T KOG1127|consen  633 RFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQSD  712 (1238)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhh
Confidence             12223345678888888888776542      1111222333333333333333344444443332200     11122


Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCH---H---HHHHHHHHHHhCCCCCCH
Q 048090          224 VFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYF---K---EVIKLYEAMLMNGTKPDE  297 (447)
Q Consensus       224 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~---~---~a~~~~~~m~~~~~~p~~  297 (447)
                      ...|-.+.+          |..+|-...    . ..|+.....++..-+-..+..   +   -+.+.+-.-.+  ...+.
T Consensus       713 ~~~Wi~asd----------ac~~f~q~e----~-~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hls--l~~~~  775 (1238)
T KOG1127|consen  713 RLQWIVASD----------ACYIFSQEE----P-SIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLS--LAIHM  775 (1238)
T ss_pred             HHHHHHHhH----------HHHHHHHhc----c-cchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHH--Hhhcc
Confidence            222222222          222232111    0 122222222222211112111   1   01111111111  11122


Q ss_pred             HHHHHHHHHHhc-------c-CcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCch
Q 048090          298 VAFVTVISACSH-------T-GQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSV  369 (447)
Q Consensus       298 ~~~~~ll~~~~~-------~-~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~  369 (447)
                      .+|..+...|.+       . .+...|+.-+.+.++-  ..-+..+|+.|.-. ...|++.-|...|-+.....  |...
T Consensus       776 ~~WyNLGinylr~f~~l~et~~~~~~Ai~c~KkaV~L--~ann~~~WnaLGVl-sg~gnva~aQHCfIks~~se--p~~~  850 (1238)
T KOG1127|consen  776 YPWYNLGINYLRYFLLLGETMKDACTAIRCCKKAVSL--CANNEGLWNALGVL-SGIGNVACAQHCFIKSRFSE--PTCH  850 (1238)
T ss_pred             chHHHHhHHHHHHHHHcCCcchhHHHHHHHHHHHHHH--hhccHHHHHHHHHh-hccchhhhhhhhhhhhhhcc--ccch
Confidence            333333332221       1 1233566666665542  23345666666544 55577777777776666655  7777


Q ss_pred             HhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHH
Q 048090          370 SMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLREL  428 (447)
Q Consensus       370 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  428 (447)
                      .+|..+...+.+..+++-|...|.++..+.|.|...|.-........|+.-++..+|..
T Consensus       851 ~~W~NlgvL~l~n~d~E~A~~af~~~qSLdP~nl~~WlG~Ali~eavG~ii~~~~lfaH  909 (1238)
T KOG1127|consen  851 CQWLNLGVLVLENQDFEHAEPAFSSVQSLDPLNLVQWLGEALIPEAVGRIIERLILFAH  909 (1238)
T ss_pred             hheeccceeEEecccHHHhhHHHHhhhhcCchhhHHHHHHHHhHHHHHHHHHHHHHHHh
Confidence            77888888888888888888888888888888888877777666777776666666554

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.98  E-value=4.4e-08  Score=89.91  Aligned_cols=196  Identities=13%  Similarity=0.115  Sum_probs=123.6

Q ss_pred             CCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHH
Q 048090          220 LGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVA  299 (447)
Q Consensus       220 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~  299 (447)
                      .+|-...-..+...+...|-...|..+|+++            ..|.-.+-+|+..|+..+|..+..+..+  -+||+..
T Consensus       394 lpp~Wq~q~~laell~slGitksAl~I~Erl------------emw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~l  459 (777)
T KOG1128|consen  394 LPPIWQLQRLLAELLLSLGITKSALVIFERL------------EMWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRL  459 (777)
T ss_pred             CCCcchHHHHHHHHHHHcchHHHHHHHHHhH------------HHHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchh
Confidence            4455555677788889999999999999854            3477788999999999999999888877  3778888


Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHHhc-------------------------CCCC-ChhhHHHHHHHHHHcCCHHHHH
Q 048090          300 FVTVISACSHTGQVKLGIEYFEWMVHDY-------------------------KLEP-GPEHYSCLVDLLCRAGELDKAW  353 (447)
Q Consensus       300 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~-------------------------~~~~-~~~~~~~l~~~~~~~g~~~~A~  353 (447)
                      |..+.+......-+++|.++.+....+-                         .+.| ...+|-.+..+..+.+++..|.
T Consensus       460 yc~LGDv~~d~s~yEkawElsn~~sarA~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~av  539 (777)
T KOG1128|consen  460 YCLLGDVLHDPSLYEKAWELSNYISARAQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQAAV  539 (777)
T ss_pred             HHHhhhhccChHHHHHHHHHhhhhhHHHHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHHHH
Confidence            8888777666555666666665543210                         0111 2334444444444555555555


Q ss_pred             HHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          354 KLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       354 ~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      +.|.......  |++..+|+.+..+|.+.++-.+|...++++++.+-.+..+|...+....+.|.+++|++.+.++.+
T Consensus       540 ~aF~rcvtL~--Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w~iWENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  540 KAFHRCVTLE--PDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHWQIWENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             HHHHHHhhcC--CCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCCeeeechhhhhhhcccHHHHHHHHHHHHH
Confidence            5555555544  555555555555555555555555555555555544555555555555555555555555555543

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.98  E-value=2.2e-07  Score=75.19  Aligned_cols=161  Identities=11%  Similarity=0.034  Sum_probs=117.1

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHH
Q 048090          261 DVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLV  340 (447)
Q Consensus       261 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  340 (447)
                      |... ..+-..+...|+-+....+........ .-|.......+......|++..|...+++...  .-++|...|+.+.
T Consensus        66 d~~i-~~~a~a~~~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~--l~p~d~~~~~~lg  141 (257)
T COG5010          66 DLSI-AKLATALYLRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAAR--LAPTDWEAWNLLG  141 (257)
T ss_pred             hHHH-HHHHHHHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhc--cCCCChhhhhHHH
Confidence            4444 555566666777777777666654421 22444555577777788888888888888764  3456688888888


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChH
Q 048090          341 DLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWD  420 (447)
Q Consensus       341 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  420 (447)
                      -+|.+.|++++|..-|.+..+..  |.++...+.++..+.-.|+.+.|..++.++....+.+..+-..+..+....|+++
T Consensus       142 aaldq~Gr~~~Ar~ay~qAl~L~--~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~  219 (257)
T COG5010         142 AALDQLGRFDEARRAYRQALELA--PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFR  219 (257)
T ss_pred             HHHHHccChhHHHHHHHHHHHhc--cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChH
Confidence            88888888888888888887765  6777778888888888888888888888887777777888888888888888888


Q ss_pred             HHHHHHH
Q 048090          421 EIGQLRE  427 (447)
Q Consensus       421 ~A~~~~~  427 (447)
                      +|..+..
T Consensus       220 ~A~~i~~  226 (257)
T COG5010         220 EAEDIAV  226 (257)
T ss_pred             HHHhhcc
Confidence            8866544

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.97  E-value=5.4e-07  Score=88.55  Aligned_cols=227  Identities=12%  Similarity=0.153  Sum_probs=182.3

Q ss_pred             CcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCC-----ChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCC
Q 048090          185 YDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGN-----DVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEIN  259 (447)
Q Consensus       185 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  259 (447)
                      -+...|..-|....+.++.++|.++.++++..   +.+     -..+|.++++.-...|.-+...++|+++.+.     -
T Consensus      1456 NSSi~WI~YMaf~LelsEiekAR~iaerAL~t---IN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy-----c 1527 (1710)
T KOG1070|consen 1456 NSSILWIRYMAFHLELSEIEKARKIAERALKT---INFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY-----C 1527 (1710)
T ss_pred             CcchHHHHHHHHHhhhhhhHHHHHHHHHHhhh---CCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh-----c
Confidence            34556777788888999999999999999886   322     2347888888888889889999999977653     3


Q ss_pred             cchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC---hhhH
Q 048090          260 KDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG---PEHY  336 (447)
Q Consensus       260 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~  336 (447)
                      .....|..|...|.+.+.+++|.++++.|.+. ..-....|...+..+.+.++-+.|..++.++.+.   -|.   ....
T Consensus      1528 d~~~V~~~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~---lPk~eHv~~I 1603 (1710)
T KOG1070|consen 1528 DAYTVHLKLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKS---LPKQEHVEFI 1603 (1710)
T ss_pred             chHHHHHHHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh---cchhhhHHHH
Confidence            34567889999999999999999999999886 3456788999999999999999999999999864   444   4556


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhC--CCch-hHHHHHHHHH
Q 048090          337 SCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELD--PHNV-GIYVMLSNLY  413 (447)
Q Consensus       337 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--~~~~-~~~~~l~~~~  413 (447)
                      ...+..-.+.|+.+.+..+|+..+...  |.....|+.++..-.++|+.+.++.+|++++.+.  |... .+|..++..-
T Consensus      1604 skfAqLEFk~GDaeRGRtlfEgll~ay--PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyE 1681 (1710)
T KOG1070|consen 1604 SKFAQLEFKYGDAERGRTLFEGLLSAY--PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYE 1681 (1710)
T ss_pred             HHHHHHHhhcCCchhhHHHHHHHHhhC--ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHH
Confidence            667777889999999999999999887  7777889999999999999999999999999987  3344 3566666555


Q ss_pred             HhcCChHHHHHH
Q 048090          414 AKFCMWDEIGQL  425 (447)
Q Consensus       414 ~~~g~~~~A~~~  425 (447)
                      -..|+-+.++.+
T Consensus      1682 k~~Gde~~vE~V 1693 (1710)
T KOG1070|consen 1682 KSHGDEKNVEYV 1693 (1710)
T ss_pred             HhcCchhhHHHH
Confidence            556775555443

>PLN02789 farnesyltranstransferase

Probab=98.95  E-value=6.6e-07  Score=78.09  Aligned_cols=189  Identities=12%  Similarity=0.080  Sum_probs=146.2

Q ss_pred             HHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcC-CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCc
Q 048090          234 YGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNG-YFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQ  312 (447)
Q Consensus       234 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~  312 (447)
                      +...++.++|+....++..+    .+-+..+|+.-..++...| .+++++..++++.+.+.+ +..+|+.....+.+.|+
T Consensus        47 l~~~e~serAL~lt~~aI~l----nP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l~~l~~  121 (320)
T PLN02789         47 YASDERSPRALDLTADVIRL----NPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWLAEKLGP  121 (320)
T ss_pred             HHcCCCCHHHHHHHHHHHHH----CchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHHHHHcCc
Confidence            33446778888888877775    5556677887777777777 579999999999986533 45566655545555565


Q ss_pred             --HHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhc---CCc--
Q 048090          313 --VKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDC---GKF--  385 (447)
Q Consensus       313 --~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~---g~~--  385 (447)
                        .+++..+++++.+.  -+-+..+|+....++...|+++++++.++++++.+  |.+..+|+....++.+.   |..  
T Consensus       122 ~~~~~el~~~~kal~~--dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d--~~N~sAW~~R~~vl~~~~~l~~~~~  197 (320)
T PLN02789        122 DAANKELEFTRKILSL--DAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEED--VRNNSAWNQRYFVITRSPLLGGLEA  197 (320)
T ss_pred             hhhHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHC--CCchhHHHHHHHHHHhccccccccc
Confidence              36788888888854  23468889988888999999999999999999988  77888899988887665   333  


Q ss_pred             --cHHHHHHHHHhhhCCCchhHHHHHHHHHHhc----CChHHHHHHHHHHHH
Q 048090          386 --ELGKLAAQKALELDPHNVGIYVMLSNLYAKF----CMWDEIGQLRELMKE  431 (447)
Q Consensus       386 --~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~----g~~~~A~~~~~~m~~  431 (447)
                        +.......+++...|.|..+|+.+...+...    ++..+|.+.+.+..+
T Consensus       198 ~~e~el~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~  249 (320)
T PLN02789        198 MRDSELKYTIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLS  249 (320)
T ss_pred             cHHHHHHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhc
Confidence              4677888899999999999999999999873    455678888877665

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.93  E-value=5.2e-06  Score=70.16  Aligned_cols=373  Identities=10%  Similarity=-0.016  Sum_probs=216.1

Q ss_pred             cCCcchHHHhhccCCC---CCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHH
Q 048090           33 KKNLGTLTNCLKFLNP---RNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQ  109 (447)
Q Consensus        33 ~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~  109 (447)
                      .|++++|...++.+..   ++...+-.|.-++.-.|.+.+|..+-....+     ++---..+++...+.++-++-..+.
T Consensus        70 LgdY~~Al~~Y~~~~~~~~~~~el~vnLAcc~FyLg~Y~eA~~~~~ka~k-----~pL~~RLlfhlahklndEk~~~~fh  144 (557)
T KOG3785|consen   70 LGDYEEALNVYTFLMNKDDAPAELGVNLACCKFYLGQYIEAKSIAEKAPK-----TPLCIRLLFHLAHKLNDEKRILTFH  144 (557)
T ss_pred             hccHHHHHHHHHHHhccCCCCcccchhHHHHHHHHHHHHHHHHHHhhCCC-----ChHHHHHHHHHHHHhCcHHHHHHHH
Confidence            3489999999987642   4455666676666667888888887665433     3333445555666677766666665


Q ss_pred             HHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCCCC--chhhHHH-HHHHHHhcCCHHHHHHHHHhhhhcCCCCc
Q 048090          110 AHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVK--NSVCANA-LLSGYCEAKLWAGGLELVRLMPALGLDYD  186 (447)
Q Consensus       110 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~-l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  186 (447)
                      ..+...     .+-..+|.+.....-.+.+|++++.++...  +-...|. +.-+|.+..-++-+.+++.-..+.  -||
T Consensus       145 ~~LqD~-----~EdqLSLAsvhYmR~HYQeAIdvYkrvL~dn~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q--~pd  217 (557)
T KOG3785|consen  145 SSLQDT-----LEDQLSLASVHYMRMHYQEAIDVYKRVLQDNPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ--FPD  217 (557)
T ss_pred             HHHhhh-----HHHHHhHHHHHHHHHHHHHHHHHHHHHHhcChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh--CCC
Confidence            555432     223334444444445678888888887643  3333333 334566667777777777666554  233


Q ss_pred             H-hhHHHHHHHHhcC--CcH---------------------------------HHHHHHHHHHHHhhhcCCCChhHHHHH
Q 048090          187 H-FTLSALLRACAGL--SAA---------------------------------EFGRQVHAYMIRKCCNLGNDVFMQSSL  230 (447)
Q Consensus       187 ~-~~~~~l~~~~~~~--~~~---------------------------------~~a~~~~~~~~~~~~~~~~~~~~~~~l  230 (447)
                      + ...+.......+.  |+.                                 +.|.+++-.+.+.      -+.....|
T Consensus       218 StiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~~~f~~~l~rHNLVvFrngEgALqVLP~L~~~------IPEARlNL  291 (557)
T KOG3785|consen  218 STIAKNLKACNLFRLINGRTAEDEKKELADNIDQEYPFIEYLCRHNLVVFRNGEGALQVLPSLMKH------IPEARLNL  291 (557)
T ss_pred             cHHHHHHHHHHHhhhhccchhHHHHHHHHhcccccchhHHHHHHcCeEEEeCCccHHHhchHHHhh------ChHhhhhh
Confidence            3 2322222211111  111                                 1122222222221      12233455


Q ss_pred             HHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCC-------HHHHHHHHHHHHhCCCCCCH-HHHHH
Q 048090          231 IEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGY-------FKEVIKLYEAMLMNGTKPDE-VAFVT  302 (447)
Q Consensus       231 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-------~~~a~~~~~~m~~~~~~p~~-~~~~~  302 (447)
                      +-.|.+.+++.+|..+.+.+       .|.++.-|-.-.-.++..|+       ..-|.+.|+-.-..+..-|. .--.+
T Consensus       292 ~iYyL~q~dVqeA~~L~Kdl-------~PttP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQs  364 (557)
T KOG3785|consen  292 IIYYLNQNDVQEAISLCKDL-------DPTTPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQS  364 (557)
T ss_pred             eeeecccccHHHHHHHHhhc-------CCCChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHH
Confidence            66688999999999988743       23333333332333333332       34455555554444333222 22344


Q ss_pred             HHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhc
Q 048090          303 VISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDC  382 (447)
Q Consensus       303 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~  382 (447)
                      +..++.-..++++++.++..+..-  +.-|...-..+.++++..|++.+|+++|-++....++ ++...-..|.++|.+.
T Consensus       365 mAs~fFL~~qFddVl~YlnSi~sY--F~NdD~Fn~N~AQAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~n  441 (557)
T KOG3785|consen  365 MASYFFLSFQFDDVLTYLNSIESY--FTNDDDFNLNLAQAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRN  441 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH--hcCcchhhhHHHHHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhc
Confidence            555666677888888888888653  2333333345788899999999999999777655432 2444345677888889


Q ss_pred             CCccHHHHHHHHHhhhC-CCc-hhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 048090          383 GKFELGKLAAQKALELD-PHN-VGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKK  436 (447)
Q Consensus       383 g~~~~a~~~~~~~~~~~-~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p  436 (447)
                      +.++.|..++-   +.+ |.+ .......++-|.+.+.+--|.+.|..+......|
T Consensus       442 kkP~lAW~~~l---k~~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP~p  494 (557)
T KOG3785|consen  442 KKPQLAWDMML---KTNTPSERFSLLQLIANDCYKANEFYYAAKAFDELEILDPTP  494 (557)
T ss_pred             CCchHHHHHHH---hcCCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCCCc
Confidence            99888766554   444 333 3344555667888888888888888887643333

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.92  E-value=4.4e-07  Score=76.86  Aligned_cols=188  Identities=10%  Similarity=-0.030  Sum_probs=132.3

Q ss_pred             CcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCCh---hHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcc
Q 048090          185 YDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDV---FMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKD  261 (447)
Q Consensus       185 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  261 (447)
                      .....+..+...+...|+++.|...++++.+.   .+.+.   ..+..+..++...|++++|...++.+...    .+.+
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~----~p~~  103 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESR---YPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRL----HPNH  103 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH----CcCC
Confidence            34566777888899999999999999999886   33333   46688899999999999999999987664    2222


Q ss_pred             hh---hHHHHHHHHHhc--------CCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCC
Q 048090          262 VV---LWTSMLGVYGRN--------GYFKEVIKLYEAMLMNGTKPDE-VAFVTVISACSHTGQVKLGIEYFEWMVHDYKL  329 (447)
Q Consensus       262 ~~---~~~~l~~~~~~~--------g~~~~a~~~~~~m~~~~~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  329 (447)
                      ..   ++..+..++.+.        |++++|.+.++.+...  .|+. .....+....    ..      .... .    
T Consensus       104 ~~~~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~~----~~------~~~~-~----  166 (235)
T TIGR03302       104 PDADYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRMD----YL------RNRL-A----  166 (235)
T ss_pred             CchHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHHH----HH------HHHH-H----
Confidence            22   455556666654        7889999999999885  3443 2222221110    00      0000 0    


Q ss_pred             CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCC-CCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCC
Q 048090          330 EPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGH-GSSSVSMWGALLSACHDCGKFELGKLAAQKALELDP  400 (447)
Q Consensus       330 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  400 (447)
                          .....+...+.+.|++++|...+++..+..- .|....++..++.++...|++++|...++.+....|
T Consensus       167 ----~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~~  234 (235)
T TIGR03302       167 ----GKELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANYP  234 (235)
T ss_pred             ----HHHHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence                0122456678899999999999999987741 133456789999999999999999998888776554

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).

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.91  E-value=4.1e-06  Score=74.70  Aligned_cols=383  Identities=12%  Similarity=0.006  Sum_probs=240.0

Q ss_pred             HhhhhhhhhHHHhhhhhhhhhcccccCCcchHHHhhcc---CCCCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCC
Q 048090            8 ETGLLLICLIIFQSRLMLPYTTCRHKKNLGTLTNCLKF---LNPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFL   84 (447)
Q Consensus         8 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p   84 (447)
                      ...+++ ++.++|+.=..+|++.|   ++++|++=-.+   +.|.-+..|+....++.-.|++++|+..|.+-++.. +-
T Consensus        28 ai~l~p-~nhvlySnrsaa~a~~~---~~~~al~da~k~~~l~p~w~kgy~r~Gaa~~~lg~~~eA~~ay~~GL~~d-~~  102 (539)
T KOG0548|consen   28 AIMLSP-TNHVLYSNRSAAYASLG---SYEKALKDATKTRRLNPDWAKGYSRKGAALFGLGDYEEAILAYSEGLEKD-PS  102 (539)
T ss_pred             HHccCC-CccchhcchHHHHHHHh---hHHHHHHHHHHHHhcCCchhhHHHHhHHHHHhcccHHHHHHHHHHHhhcC-Cc
Confidence            344555 36788888888999888   48888765444   334456789999999999999999999999998864 23


Q ss_pred             chhhHHHHHHHhccC---CchhHHHHHHHHHHHcC---CCCchhhHHHHHHHHHc----------cCChhhHHHHhccC-
Q 048090           85 DTYALCSSLTASTSV---KDARFGKQVQAHVTKSG---WLSSVFVGSALIDLYAK----------LLLIHDAELMFDEI-  147 (447)
Q Consensus        85 ~~~~~~~ll~~~~~~---~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~----------~g~~~~a~~~~~~~-  147 (447)
                      +...+..+..+....   ++.-.--.++..+....   .......|..++..+-+          ..++..+.-.+... 
T Consensus       103 n~~L~~gl~~a~~~~~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~~~l~d~r~m~a~~~l~~~~  182 (539)
T KOG0548|consen  103 NKQLKTGLAQAYLEDYAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLKLYLNDPRLMKADGQLKGVD  182 (539)
T ss_pred             hHHHHHhHHHhhhHHHHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhhcccccHHHHHHHHHHhcCc
Confidence            455666666655111   00000001111111000   00011112222222111          11111222111110 


Q ss_pred             ---------------CCC------------c----------hhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhH
Q 048090          148 ---------------PVK------------N----------SVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTL  190 (447)
Q Consensus       148 ---------------~~~------------~----------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  190 (447)
                                     ..|            |          ..-...+.+...+..+++.|++-+....+..  -+..-+
T Consensus       183 ~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~  260 (539)
T KOG0548|consen  183 ELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFETAIQHYAKALELA--TDITYL  260 (539)
T ss_pred             cccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHH
Confidence                           011            1          1124556777777888888988888887753  333344


Q ss_pred             HHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCCh----hHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHH
Q 048090          191 SALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDV----FMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWT  266 (447)
Q Consensus       191 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  266 (447)
                      +....++...|.+......-...++.+.....+.    ..+..+..+|.+.++++.|...|++....   ...|+     
T Consensus       261 ~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r~g~a~~k~~~~~~ai~~~~kaLte---~Rt~~-----  332 (539)
T KOG0548|consen  261 NNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALARLGNAYTKREDYEGAIKYYQKALTE---HRTPD-----  332 (539)
T ss_pred             HHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHHHHHhhh---hcCHH-----
Confidence            4555567888887777776666665532111111    11222344666778888888888853322   11222     


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHH
Q 048090          267 SMLGVYGRNGYFKEVIKLYEAMLMNGTKPDE-VAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCR  345 (447)
Q Consensus       267 ~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  345 (447)
                          ...+....+++....+...-  +.|.. .-...-...+.+.|++..|...|.++++.  -+-|...|....-+|.+
T Consensus       333 ----~ls~lk~~Ek~~k~~e~~a~--~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr--~P~Da~lYsNRAac~~k  404 (539)
T KOG0548|consen  333 ----LLSKLKEAEKALKEAERKAY--INPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKR--DPEDARLYSNRAACYLK  404 (539)
T ss_pred             ----HHHHHHHHHHHHHHHHHHHh--hChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhc--CCchhHHHHHHHHHHHH
Confidence                22233445555555555443  33332 12223356678899999999999999876  24468999999999999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHh
Q 048090          346 AGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAK  415 (447)
Q Consensus       346 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  415 (447)
                      .|.+..|+.-.+..++.+  |+....|..-+.++....++++|.+.|+++++.+|.+..+...+.+++..
T Consensus       405 L~~~~~aL~Da~~~ieL~--p~~~kgy~RKg~al~~mk~ydkAleay~eale~dp~~~e~~~~~~rc~~a  472 (539)
T KOG0548|consen  405 LGEYPEALKDAKKCIELD--PNFIKAYLRKGAALRAMKEYDKALEAYQEALELDPSNAEAIDGYRRCVEA  472 (539)
T ss_pred             HhhHHHHHHHHHHHHhcC--chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHH
Confidence            999999999999999887  88999999999999999999999999999999999998888888777664

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.91  E-value=4.2e-07  Score=73.82  Aligned_cols=156  Identities=11%  Similarity=0.084  Sum_probs=120.8

Q ss_pred             HHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcc
Q 048090          231 IEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHT  310 (447)
Q Consensus       231 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  310 (447)
                      +-.|...|+++.+....+.+.       .|. .       .+...++.+++...++...+.+ +.+...|..+...|...
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~-------~~~-~-------~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~   86 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLA-------DPL-H-------QFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWR   86 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHh-------Ccc-c-------cccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHC
Confidence            345778888877655443211       110 0       1123567788888888877764 44788899999999999


Q ss_pred             CcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHH-HHcCC--HHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCcc
Q 048090          311 GQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLL-CRAGE--LDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFE  386 (447)
Q Consensus       311 ~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~-~~~g~--~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  386 (447)
                      |+++.|...|++..+.   .| +...+..+..++ ...|+  .++|.+++++.++.+  |++..++..++..+...|+++
T Consensus        87 g~~~~A~~a~~~Al~l---~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~d--P~~~~al~~LA~~~~~~g~~~  161 (198)
T PRK10370         87 NDYDNALLAYRQALQL---RGENAELYAALATVLYYQAGQHMTPQTREMIDKALALD--ANEVTALMLLASDAFMQADYA  161 (198)
T ss_pred             CCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhC--CCChhHHHHHHHHHHHcCCHH
Confidence            9999999999999854   45 577788888764 67777  599999999999988  999999999999999999999


Q ss_pred             HHHHHHHHHhhhCCCchhHHH
Q 048090          387 LGKLAAQKALELDPHNVGIYV  407 (447)
Q Consensus       387 ~a~~~~~~~~~~~~~~~~~~~  407 (447)
                      +|...|+++++..|++..-+.
T Consensus       162 ~Ai~~~~~aL~l~~~~~~r~~  182 (198)
T PRK10370        162 QAIELWQKVLDLNSPRVNRTQ  182 (198)
T ss_pred             HHHHHHHHHHhhCCCCccHHH
Confidence            999999999999988665443

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.90  E-value=2.3e-06  Score=68.87  Aligned_cols=200  Identities=18%  Similarity=0.203  Sum_probs=149.2

Q ss_pred             CcHHHHHHHHHHHHHhhh-c-CCCChh-HHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCC
Q 048090          201 SAAEFGRQVHAYMIRKCC-N-LGNDVF-MQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGY  277 (447)
Q Consensus       201 ~~~~~a~~~~~~~~~~~~-~-~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  277 (447)
                      .+.++..+++..+....+ + ..++.. .+..+.-+....|+.+.|..+++.+...    .|.+...-..-...+-..|+
T Consensus        26 rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~----fp~S~RV~~lkam~lEa~~~  101 (289)
T KOG3060|consen   26 RNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDR----FPGSKRVGKLKAMLLEATGN  101 (289)
T ss_pred             cCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHh----CCCChhHHHHHHHHHHHhhc
Confidence            455666666666655421 2 334443 4566677778889999999999977665    44344443333444566899


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHH
Q 048090          278 FKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLIN  357 (447)
Q Consensus       278 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  357 (447)
                      +++|+++++.+.+.+ +.|..++..=+...-..|+.-+|++-+....+.  +..|...|.-+...|...|++++|.-.++
T Consensus       102 ~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~--F~~D~EAW~eLaeiY~~~~~f~kA~fClE  178 (289)
T KOG3060|consen  102 YKEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK--FMNDQEAWHELAEIYLSEGDFEKAAFCLE  178 (289)
T ss_pred             hhhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH--hcCcHHHHHHHHHHHHhHhHHHHHHHHHH
Confidence            999999999999876 335666766666666778888898888888775  57889999999999999999999999999


Q ss_pred             HHHhCCCCCCchHhHHHHHHHHHhcC---CccHHHHHHHHHhhhCCCchhHHHHH
Q 048090          358 EMLDRGHGSSSVSMWGALLSACHDCG---KFELGKLAAQKALELDPHNVGIYVML  409 (447)
Q Consensus       358 ~~~~~~~~p~~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~~~~~~~~~~l  409 (447)
                      +++-..  |.++..|..+...+.-.|   +.+.+.+.|.+++++.|.+...+.-+
T Consensus       179 E~ll~~--P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~~~~ral~GI  231 (289)
T KOG3060|consen  179 ELLLIQ--PFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNPKNLRALFGI  231 (289)
T ss_pred             HHHHcC--CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhChHhHHHHHHH
Confidence            998766  888888888888776665   56778999999999998766555444

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.89  E-value=5.3e-08  Score=74.51  Aligned_cols=94  Identities=20%  Similarity=0.200  Sum_probs=52.9

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHh
Q 048090          336 YSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAK  415 (447)
Q Consensus       336 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  415 (447)
                      ...+...+...|++++|.+.++.+...+  |.+...+..++.++...|+++.|...++++++.+|.++..+..++.+|..
T Consensus        20 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~   97 (135)
T TIGR02552        20 IYALAYNLYQQGRYDEALKLFQLLAAYD--PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLLA   97 (135)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHH
Confidence            3444445555555555555555555544  55555555555555555555555555555555555555555555555555


Q ss_pred             cCChHHHHHHHHHHHH
Q 048090          416 FCMWDEIGQLRELMKE  431 (447)
Q Consensus       416 ~g~~~~A~~~~~~m~~  431 (447)
                      .|++++|...+++..+
T Consensus        98 ~g~~~~A~~~~~~al~  113 (135)
T TIGR02552        98 LGEPESALKALDLAIE  113 (135)
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            5555555555555554

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.88  E-value=1e-06  Score=72.51  Aligned_cols=293  Identities=12%  Similarity=0.028  Sum_probs=181.1

Q ss_pred             HHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHH-HHHHHH
Q 048090           54 FNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSA-LIDLYA  132 (447)
Q Consensus        54 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-l~~~~~  132 (447)
                      +.+.+..+.+..+++.|++++..-.+... .+......+..+|-...++..|-..|+++...  -|...-|.. -...+.
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~p-~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQSLY   89 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERSP-RSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQSLY   89 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHHHH
Confidence            66778888888999999999988877632 26667777778888888999999999998774  455554432 235566


Q ss_pred             ccCChhhHHHHhccCCCC-chhhHHHHHHH--HHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHH
Q 048090          133 KLLLIHDAELMFDEIPVK-NSVCANALLSG--YCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQV  209 (447)
Q Consensus       133 ~~g~~~~a~~~~~~~~~~-~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  209 (447)
                      +.+.+.+|+++...|... +...-..-+.+  .-..+++..+..++++....|   +..+.....-...+.|+++.|.+-
T Consensus        90 ~A~i~ADALrV~~~~~D~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqyEaAvqk  166 (459)
T KOG4340|consen   90 KACIYADALRVAFLLLDNPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQYEAAVQK  166 (459)
T ss_pred             HhcccHHHHHHHHHhcCCHHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccHHHHHHH
Confidence            788889999998888753 22221111222  235678888888887766432   333444444445688999999999


Q ss_pred             HHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCc----------ch---------------hh
Q 048090          210 HAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINK----------DV---------------VL  264 (447)
Q Consensus       210 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~----------~~---------------~~  264 (447)
                      |+...+-+ |..| ...|+ +.-+..+.|+++.|++...++.++.-...|.          |+               ..
T Consensus       167 FqaAlqvs-Gyqp-llAYn-iALaHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eA  243 (459)
T KOG4340|consen  167 FQAALQVS-GYQP-LLAYN-LALAHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEA  243 (459)
T ss_pred             HHHHHhhc-CCCc-hhHHH-HHHHHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHH
Confidence            98888863 5444 23344 4445667788899988888665542211121          11               11


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHH
Q 048090          265 WTSMLGVYGRNGYFKEVIKLYEAMLMN-GTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDL  342 (447)
Q Consensus       265 ~~~l~~~~~~~g~~~~a~~~~~~m~~~-~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~  342 (447)
                      +|.-...+.+.|+++.|.+.+-.|.-. .-..|+.|...+.-.= ..+++-...+-++-+..   +.| -..|+..++-.
T Consensus       244 fNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~---~nPfP~ETFANlLll  319 (459)
T KOG4340|consen  244 FNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQ---QNPFPPETFANLLLL  319 (459)
T ss_pred             hhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHh---cCCCChHHHHHHHHH
Confidence            222223345667777777766666322 1233556655543221 23445555555555553   333 35667777777


Q ss_pred             HHHcCCHHHHHHHHHHH
Q 048090          343 LCRAGELDKAWKLINEM  359 (447)
Q Consensus       343 ~~~~g~~~~A~~~~~~~  359 (447)
                      ||+..-++.|-.++.+-
T Consensus       320 yCKNeyf~lAADvLAEn  336 (459)
T KOG4340|consen  320 YCKNEYFDLAADVLAEN  336 (459)
T ss_pred             HhhhHHHhHHHHHHhhC
Confidence            77777777777776553

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.87  E-value=2.3e-05  Score=75.21  Aligned_cols=317  Identities=13%  Similarity=0.089  Sum_probs=176.0

Q ss_pred             CCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCC--CCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHH
Q 048090           49 RNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGI--FLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSA  126 (447)
Q Consensus        49 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~--~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  126 (447)
                      .||..-+..+.++..++-+.+-++++++..-..-  .-+...-+.++-...+ -+.....++.+++-.-+ .|+      
T Consensus       982 ~dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAik-ad~trVm~YI~rLdnyD-a~~------ 1053 (1666)
T KOG0985|consen  982 QDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIK-ADRTRVMEYINRLDNYD-APD------ 1053 (1666)
T ss_pred             CChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhh-cChHHHHHHHHHhccCC-chh------
Confidence            5777778888999999999999999998864321  1112222333333222 23333444444443221 111      


Q ss_pred             HHHHHHccCChhhHHHHhccCC-------------------------CCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhc
Q 048090          127 LIDLYAKLLLIHDAELMFDEIP-------------------------VKNSVCANALLSGYCEAKLWAGGLELVRLMPAL  181 (447)
Q Consensus       127 l~~~~~~~g~~~~a~~~~~~~~-------------------------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  181 (447)
                      +.......+-+++|..+|++..                         -..+..|..+..+-.+.|...+|++-|-+.   
T Consensus      1054 ia~iai~~~LyEEAF~ifkkf~~n~~A~~VLie~i~~ldRA~efAe~~n~p~vWsqlakAQL~~~~v~dAieSyika--- 1130 (1666)
T KOG0985|consen 1054 IAEIAIENQLYEEAFAIFKKFDMNVSAIQVLIENIGSLDRAYEFAERCNEPAVWSQLAKAQLQGGLVKDAIESYIKA--- 1130 (1666)
T ss_pred             HHHHHhhhhHHHHHHHHHHHhcccHHHHHHHHHHhhhHHHHHHHHHhhCChHHHHHHHHHHHhcCchHHHHHHHHhc---
Confidence            1122223333344444433321                         013456888888888888888888776543   


Q ss_pred             CCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcc
Q 048090          182 GLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKD  261 (447)
Q Consensus       182 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  261 (447)
                         .|+..|..+++.+.+.|.|++-.+++....+.  .-+|.  +-..|+-+|++.++..+-++++.          .|+
T Consensus      1131 ---dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk--~~E~~--id~eLi~AyAkt~rl~elE~fi~----------gpN 1193 (1666)
T KOG0985|consen 1131 ---DDPSNYLEVIDVASRTGKYEDLVKYLLMARKK--VREPY--IDSELIFAYAKTNRLTELEEFIA----------GPN 1193 (1666)
T ss_pred             ---CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHh--hcCcc--chHHHHHHHHHhchHHHHHHHhc----------CCC
Confidence               35667888888888999999888888877766  33343  33678888888888888777663          556


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 048090          262 VVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVD  341 (447)
Q Consensus       262 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  341 (447)
                      ..-...+..-|...|.++.|.-+|...         ..|..|...+...|++..|..--++.       .+..+|-.+-.
T Consensus      1194 ~A~i~~vGdrcf~~~~y~aAkl~y~~v---------SN~a~La~TLV~LgeyQ~AVD~aRKA-------ns~ktWK~Vcf 1257 (1666)
T KOG0985|consen 1194 VANIQQVGDRCFEEKMYEAAKLLYSNV---------SNFAKLASTLVYLGEYQGAVDAARKA-------NSTKTWKEVCF 1257 (1666)
T ss_pred             chhHHHHhHHHhhhhhhHHHHHHHHHh---------hhHHHHHHHHHHHHHHHHHHHHhhhc-------cchhHHHHHHH
Confidence            666666666666777777666555432         23445555555555555554432222       23344444444


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHh
Q 048090          342 LLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAK  415 (447)
Q Consensus       342 ~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  415 (447)
                      +|...+.+.-|     .|...++.. ...-..-++..|..+|-+++-..+++..+.+......+|.-|+..|.+
T Consensus      1258 aCvd~~EFrlA-----QiCGL~iiv-hadeLeeli~~Yq~rGyFeElIsl~Ea~LGLERAHMgmfTELaiLYsk 1325 (1666)
T KOG0985|consen 1258 ACVDKEEFRLA-----QICGLNIIV-HADELEELIEYYQDRGYFEELISLLEAGLGLERAHMGMFTELAILYSK 1325 (1666)
T ss_pred             HHhchhhhhHH-----HhcCceEEE-ehHhHHHHHHHHHhcCcHHHHHHHHHhhhchhHHHHHHHHHHHHHHHh
Confidence            44444333222     121111111 111134455555555555555555555555444444455555544443

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.86  E-value=2.7e-06  Score=78.66  Aligned_cols=169  Identities=13%  Similarity=0.181  Sum_probs=91.3

Q ss_pred             HHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHH
Q 048090          193 LLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVY  272 (447)
Q Consensus       193 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  272 (447)
                      .+.+......|.+|..+++.+...  +  .....|..+.+-|...|+++.|.++|-+.            ..++-.|..|
T Consensus       738 aieaai~akew~kai~ildniqdq--k--~~s~yy~~iadhyan~~dfe~ae~lf~e~------------~~~~dai~my  801 (1636)
T KOG3616|consen  738 AIEAAIGAKEWKKAISILDNIQDQ--K--TASGYYGEIADHYANKGDFEIAEELFTEA------------DLFKDAIDMY  801 (1636)
T ss_pred             HHHHHhhhhhhhhhHhHHHHhhhh--c--cccccchHHHHHhccchhHHHHHHHHHhc------------chhHHHHHHH
Confidence            344555667777777777766655  2  23345566667777777777777777632            2245566677


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHH
Q 048090          273 GRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKA  352 (447)
Q Consensus       273 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  352 (447)
                      .+.|+|++|.++-.+..  |.......|-.-..-.-+.|++.+|.+++-.+.     .|+.     -|.+|-+.|..+..
T Consensus       802 ~k~~kw~da~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyiti~-----~p~~-----aiqmydk~~~~ddm  869 (1636)
T KOG3616|consen  802 GKAGKWEDAFKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYITIG-----EPDK-----AIQMYDKHGLDDDM  869 (1636)
T ss_pred             hccccHHHHHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeEEcc-----CchH-----HHHHHHhhCcchHH
Confidence            77777777777766543  223334444444444555666666665554331     2322     24455555555555


Q ss_pred             HHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHH
Q 048090          353 WKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQ  393 (447)
Q Consensus       353 ~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~  393 (447)
                      +++..+-....    -..+...+..-+...|+...|..-|-
T Consensus       870 irlv~k~h~d~----l~dt~~~f~~e~e~~g~lkaae~~fl  906 (1636)
T KOG3616|consen  870 IRLVEKHHGDH----LHDTHKHFAKELEAEGDLKAAEEHFL  906 (1636)
T ss_pred             HHHHHHhChhh----hhHHHHHHHHHHHhccChhHHHHHHH
Confidence            55554432221    11123444444444555554444443

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.84  E-value=3e-06  Score=81.68  Aligned_cols=131  Identities=14%  Similarity=0.070  Sum_probs=82.4

Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHH
Q 048090          296 DEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG-PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGA  374 (447)
Q Consensus       296 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~  374 (447)
                      +...+..|.......|++++|..+++.+.+   +.|+ ......+...+.+.+++++|+..+++.....  |++......
T Consensus        85 ~~~~~~~La~i~~~~g~~~ea~~~l~~~~~---~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~--p~~~~~~~~  159 (694)
T PRK15179         85 TELFQVLVARALEAAHRSDEGLAVWRGIHQ---RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG--SSSAREILL  159 (694)
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHHh---hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC--CCCHHHHHH
Confidence            455666666666666666666666666653   3454 4444555566666666666666666666655  666666666


Q ss_pred             HHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          375 LLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       375 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      +..++.+.|++++|..+|++++..+|+++.++..++.++...|+.++|...|++..+
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~  216 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLD  216 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            666666666666666666666665566666666666666666666666666666544

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.82  E-value=1.1e-05  Score=65.59  Aligned_cols=249  Identities=12%  Similarity=0.034  Sum_probs=162.7

Q ss_pred             ccCChhhHHHHhccCC-C-CchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHH-HHH
Q 048090          133 KLLLIHDAELMFDEIP-V-KNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFG-RQV  209 (447)
Q Consensus       133 ~~g~~~~a~~~~~~~~-~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a-~~~  209 (447)
                      -.|.+..++..-.... . .+...-.-+-++|...|++.....   +..... .|....+..+.......++.+.- .++
T Consensus        20 Y~Gnyq~~ine~~~~~~~~~~~e~d~y~~raylAlg~~~~~~~---eI~~~~-~~~lqAvr~~a~~~~~e~~~~~~~~~l   95 (299)
T KOG3081|consen   20 YLGNYQQCINEAEKFSSSKTDVELDVYMYRAYLALGQYQIVIS---EIKEGK-ATPLQAVRLLAEYLELESNKKSILASL   95 (299)
T ss_pred             HhhHHHHHHHHHHhhccccchhHHHHHHHHHHHHccccccccc---cccccc-CChHHHHHHHHHHhhCcchhHHHHHHH
Confidence            3455555554443332 2 234444445666777776654332   222222 34444444444444444444333 344


Q ss_pred             HHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 048090          210 HAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAML  289 (447)
Q Consensus       210 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  289 (447)
                      .+.+...  ....+......-...|+..|++++|++....         ..+......=+..+.+..+.+-|.+.+++|.
T Consensus        96 ~E~~a~~--~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~---------~~~lE~~Al~VqI~lk~~r~d~A~~~lk~mq  164 (299)
T KOG3081|consen   96 YELVADS--TDGSNLIDLLLAAIIYMHDGDFDEALKALHL---------GENLEAAALNVQILLKMHRFDLAEKELKKMQ  164 (299)
T ss_pred             HHHHHhh--ccchhHHHHHHhhHHhhcCCChHHHHHHHhc---------cchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444  3333434444556678999999999998873         2234444444566778889999999999998


Q ss_pred             hCCCCCCHHHHHHHHHHHhc----cCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCC
Q 048090          290 MNGTKPDEVAFVTVISACSH----TGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHG  365 (447)
Q Consensus       290 ~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  365 (447)
                      +-   -+..|.+.|..++.+    .+.+..|.-+|+++..  ...|+..+.+...-++...|++++|..++++.+.+.  
T Consensus       165 ~i---ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~--k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd--  237 (299)
T KOG3081|consen  165 QI---DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSE--KTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKD--  237 (299)
T ss_pred             cc---chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhc--ccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhcc--
Confidence            73   366778877777653    4568999999999975  368999999999999999999999999999999887  


Q ss_pred             CCchHhHHHHHHHHHhcCCccHH-HHHHHHHhhhCCCch
Q 048090          366 SSSVSMWGALLSACHDCGKFELG-KLAAQKALELDPHNV  403 (447)
Q Consensus       366 p~~~~~~~~l~~~~~~~g~~~~a-~~~~~~~~~~~~~~~  403 (447)
                      ++++.+...++.+-...|...++ .+.+.+.....|..+
T Consensus       238 ~~dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~~~p~h~  276 (299)
T KOG3081|consen  238 AKDPETLANLIVLALHLGKDAEVTERNLSQLKLSHPEHP  276 (299)
T ss_pred             CCCHHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCcch
Confidence            77888888887777777766444 456666666666543

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.82  E-value=1.4e-06  Score=84.73  Aligned_cols=235  Identities=10%  Similarity=0.098  Sum_probs=152.7

Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHh-hHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHH
Q 048090          149 VKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHF-TLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQ  227 (447)
Q Consensus       149 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  227 (447)
                      ..+...+..|+..+...+++++|.++.+...+.  .|+.. .|..+...+.+.++...+..+  .+              
T Consensus        28 p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv--~~--------------   89 (906)
T PRK14720         28 LSKFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL--NL--------------   89 (906)
T ss_pred             cchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh--hh--------------
Confidence            346777888999998999999999998876665  45543 333333355566665555444  22              


Q ss_pred             HHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 048090          228 SSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISAC  307 (447)
Q Consensus       228 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  307 (447)
                         +.......++..+..+.+.+..     ...+...+..+..+|-+.|+.++|..+|+++.+.. +-|+.+.+.+...+
T Consensus        90 ---l~~~~~~~~~~~ve~~~~~i~~-----~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~  160 (906)
T PRK14720         90 ---IDSFSQNLKWAIVEHICDKILL-----YGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSY  160 (906)
T ss_pred             ---hhhcccccchhHHHHHHHHHHh-----hhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHH
Confidence               2222333333333333333322     33445578889999999999999999999999976 34788899999999


Q ss_pred             hccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHH---H--HHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhc
Q 048090          308 SHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDL---L--CRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDC  382 (447)
Q Consensus       308 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~---~--~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~  382 (447)
                      +.. ++++|.+++.++...+   -+..-|+.+...   +  ....+++.-..+.+.+...-..-.-..++..+-..|...
T Consensus       161 ae~-dL~KA~~m~~KAV~~~---i~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~  236 (906)
T PRK14720        161 EEE-DKEKAITYLKKAIYRF---IKKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKAL  236 (906)
T ss_pred             HHh-hHHHHHHHHHHHHHHH---HhhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhh
Confidence            988 9999999998887541   111111111111   1  122233444444444433311111233455666788888


Q ss_pred             CCccHHHHHHHHHhhhCCCchhHHHHHHHHHH
Q 048090          383 GKFELGKLAAQKALELDPHNVGIYVMLSNLYA  414 (447)
Q Consensus       383 g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  414 (447)
                      ++++++..+++.+++.+|.|..+..-++.+|.
T Consensus       237 ~~~~~~i~iLK~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        237 EDWDEVIYILKKILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             hhhhHHHHHHHHHHhcCCcchhhHHHHHHHHH
Confidence            99999999999999999999999999998886

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.79  E-value=1.2e-05  Score=75.33  Aligned_cols=343  Identities=13%  Similarity=0.129  Sum_probs=216.7

Q ss_pred             CCCCCccHHHHHH--HHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHc-C-------
Q 048090           47 NPRNPLPFNVVIS--DFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKS-G-------  116 (447)
Q Consensus        47 ~~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~-------  116 (447)
                      ..=|+.|...+++  .|.--|+.+.|.+-.+..++      ...|..+.+.|.+.++++-|.-.+..|... |       
T Consensus       722 e~Cd~~TRkaml~FSfyvtiG~MD~AfksI~~IkS------~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a  795 (1416)
T KOG3617|consen  722 ENCDESTRKAMLDFSFYVTIGSMDAAFKSIQFIKS------DSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRA  795 (1416)
T ss_pred             cccCHHHHHhhhceeEEEEeccHHHHHHHHHHHhh------hHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHH
Confidence            3446777777764  46778999999887766554      467899999999998888887766665431 1       


Q ss_pred             -CCCchhhHHHHHHHHHccCChhhHHHHhccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHH
Q 048090          117 -WLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLR  195 (447)
Q Consensus       117 -~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  195 (447)
                       -.|+ .+-....-.....|.+++|+.+|++-+.     |..|=..|...|.|++|+++-+.=-...   -..||..-..
T Consensus       796 ~q~~~-e~eakvAvLAieLgMlEeA~~lYr~ckR-----~DLlNKlyQs~g~w~eA~eiAE~~DRiH---Lr~Tyy~yA~  866 (1416)
T KOG3617|consen  796 QQNGE-EDEAKVAVLAIELGMLEEALILYRQCKR-----YDLLNKLYQSQGMWSEAFEIAETKDRIH---LRNTYYNYAK  866 (1416)
T ss_pred             HhCCc-chhhHHHHHHHHHhhHHHHHHHHHHHHH-----HHHHHHHHHhcccHHHHHHHHhhcccee---hhhhHHHHHH
Confidence             1222 2222333344577999999999988754     4455667888999999999866533221   2246666666


Q ss_pred             HHhcCCcHHHHHHHHHHH----------HHhhhc-------CCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCC
Q 048090          196 ACAGLSAAEFGRQVHAYM----------IRKCCN-------LGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEI  258 (447)
Q Consensus       196 ~~~~~~~~~~a~~~~~~~----------~~~~~~-------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  258 (447)
                      -+...++.+.|.+.|++.          +...|+       -..|...|.--...+-..|+.+.|+.+|..++       
T Consensus       867 ~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~-------  939 (1416)
T KOG3617|consen  867 YLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAK-------  939 (1416)
T ss_pred             HHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhh-------
Confidence            667778888888888753          222110       11244445555556667888888888887433       


Q ss_pred             CcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcC-CC--CChhh
Q 048090          259 NKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYK-LE--PGPEH  335 (447)
Q Consensus       259 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~--~~~~~  335 (447)
                           -|..++...|-.|+.++|-++-++-      -|......|.+.|-..|++.+|...|.+...-.+ +.  .....
T Consensus       940 -----D~fs~VrI~C~qGk~~kAa~iA~es------gd~AAcYhlaR~YEn~g~v~~Av~FfTrAqafsnAIRlcKEnd~ 1008 (1416)
T KOG3617|consen  940 -----DYFSMVRIKCIQGKTDKAARIAEES------GDKAACYHLARMYENDGDVVKAVKFFTRAQAFSNAIRLCKENDM 1008 (1416)
T ss_pred             -----hhhhheeeEeeccCchHHHHHHHhc------ccHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhcCH
Confidence                 3667778888889999988877652      3566677889999999999999999988753100 00  00000


Q ss_pred             HHHHHHHHHHc--CCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHH----------hhhCCC-c
Q 048090          336 YSCLVDLLCRA--GELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKA----------LELDPH-N  402 (447)
Q Consensus       336 ~~~l~~~~~~~--g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~----------~~~~~~-~  402 (447)
                      -..|...+...  .+.-.|-.+|++.   |.      -+..-...|-+.|.+.+|.++.-+-          ..++|. |
T Consensus      1009 ~d~L~nlal~s~~~d~v~aArYyEe~---g~------~~~~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa~DLd~~sD 1079 (1416)
T KOG3617|consen 1009 KDRLANLALMSGGSDLVSAARYYEEL---GG------YAHKAVMLYHKAGMIGKALELAFRTQQFSALDLIAKDLDAGSD 1079 (1416)
T ss_pred             HHHHHHHHhhcCchhHHHHHHHHHHc---ch------hhhHHHHHHHhhcchHHHHHHHHhhcccHHHHHHHHhcCCCCC
Confidence            11122222222  2233344444442   11      1333455667777777776644321          123443 7


Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          403 VGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       403 ~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      +.....-.+.++...++++|..++...++
T Consensus      1080 p~ll~RcadFF~~~~qyekAV~lL~~ar~ 1108 (1416)
T KOG3617|consen 1080 PKLLRRCADFFENNQQYEKAVNLLCLARE 1108 (1416)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence            88888888888889999998887765543

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.79  E-value=6.9e-05  Score=72.09  Aligned_cols=138  Identities=19%  Similarity=0.275  Sum_probs=100.9

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHH
Q 048090          261 DVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLV  340 (447)
Q Consensus       261 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  340 (447)
                      ....|..+..+-.+.|...+|++-|-+.      -|+..|..+++.+.+.|.+++-..++...+++ .-.|.+.  ..|+
T Consensus      1103 ~p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk-~~E~~id--~eLi 1173 (1666)
T KOG0985|consen 1103 EPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKK-VREPYID--SELI 1173 (1666)
T ss_pred             ChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHh-hcCccch--HHHH
Confidence            3567888888888888888888776542      36678899999999999999999999888766 4455544  5678


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChH
Q 048090          341 DLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWD  420 (447)
Q Consensus       341 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  420 (447)
                      -+|++.+++.+.++++     .|  |+... ...++.-|...|.++.|.-+|.        +..-|..|+..+...|.++
T Consensus      1174 ~AyAkt~rl~elE~fi-----~g--pN~A~-i~~vGdrcf~~~~y~aAkl~y~--------~vSN~a~La~TLV~LgeyQ 1237 (1666)
T KOG0985|consen 1174 FAYAKTNRLTELEEFI-----AG--PNVAN-IQQVGDRCFEEKMYEAAKLLYS--------NVSNFAKLASTLVYLGEYQ 1237 (1666)
T ss_pred             HHHHHhchHHHHHHHh-----cC--CCchh-HHHHhHHHhhhhhhHHHHHHHH--------HhhhHHHHHHHHHHHHHHH
Confidence            8899999988877665     23  54444 7778888888888887777776        3344566666666666666


Q ss_pred             HHH
Q 048090          421 EIG  423 (447)
Q Consensus       421 ~A~  423 (447)
                      .|.
T Consensus      1238 ~AV 1240 (1666)
T KOG0985|consen 1238 GAV 1240 (1666)
T ss_pred             HHH
Confidence            554

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.77  E-value=3.4e-06  Score=80.50  Aligned_cols=360  Identities=13%  Similarity=-0.010  Sum_probs=194.0

Q ss_pred             hhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhcc
Q 048090           67 PLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDE  146 (447)
Q Consensus        67 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  146 (447)
                      ...|+..|-+..+..+. =...|..+...|+...+...|...|+..-+.+ +.+...+....+.|++..+++.|..+.-.
T Consensus       474 ~~~al~ali~alrld~~-~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~l~  551 (1238)
T KOG1127|consen  474 SALALHALIRALRLDVS-LAPAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEICLR  551 (1238)
T ss_pred             HHHHHHHHHHHHhcccc-hhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHHHH
Confidence            55555555555443222 13456777777777777777888888777654 34555667777888888888888777322


Q ss_pred             CCCCc-----hhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCC
Q 048090          147 IPVKN-----SVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLG  221 (447)
Q Consensus       147 ~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  221 (447)
                      ..+.+     ...|....-.|...++...|..-|+...+.. +-|...|..+..+|.+.|++..|.++|.++....   +
T Consensus       552 ~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~Lr---P  627 (1238)
T KOG1127|consen  552 AAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLLR---P  627 (1238)
T ss_pred             HhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhcC---c
Confidence            22211     1122223334555566666666666655542 2355566666666666666666666666655531   1


Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHHhhhhhccc---CCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHH-------hC
Q 048090          222 NDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEG---EINKDVVLWTSMLGVYGRNGYFKEVIKLYEAML-------MN  291 (447)
Q Consensus       222 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~-------~~  291 (447)
                      .+...-.-.....+..|.+.+|+..+..+......   +...-..++-.+...+.-.|-..++.+++++-+       .+
T Consensus       628 ~s~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h  707 (1238)
T KOG1127|consen  628 LSKYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIH  707 (1238)
T ss_pred             HhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHH
Confidence            12222222233345556666666665543322110   011111222222222222222222222222211       11


Q ss_pred             C--------------------CCCC---HHHHHHHHHHHhccCcH---H---HHHHHHHHHHHhcCCCCChhhHHHHHHH
Q 048090          292 G--------------------TKPD---EVAFVTVISACSHTGQV---K---LGIEYFEWMVHDYKLEPGPEHYSCLVDL  342 (447)
Q Consensus       292 ~--------------------~~p~---~~~~~~ll~~~~~~~~~---~---~a~~~~~~~~~~~~~~~~~~~~~~l~~~  342 (447)
                      .                    +.|+   ......+..-.-..+..   +   .+.+.+-.-.   .+..+..+|..|+..
T Consensus       708 ~~~~~~~~Wi~asdac~~f~q~e~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hl---sl~~~~~~WyNLGin  784 (1238)
T KOG1127|consen  708 SLQSDRLQWIVASDACYIFSQEEPSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHL---SLAIHMYPWYNLGIN  784 (1238)
T ss_pred             hhhhhHHHHHHHhHHHHHHHHhcccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHH---HHhhccchHHHHhHH
Confidence            1                    1122   11111111101111111   1   1111111111   122334555555555


Q ss_pred             HHH--------cCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHH
Q 048090          343 LCR--------AGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYA  414 (447)
Q Consensus       343 ~~~--------~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  414 (447)
                      |.+        ..+...|...+...++..  .++..+|+.|+-. ...|++.-+...|-+.....|.+..+|..++-.+.
T Consensus       785 ylr~f~~l~et~~~~~~Ai~c~KkaV~L~--ann~~~WnaLGVl-sg~gnva~aQHCfIks~~sep~~~~~W~NlgvL~l  861 (1238)
T KOG1127|consen  785 YLRYFLLLGETMKDACTAIRCCKKAVSLC--ANNEGLWNALGVL-SGIGNVACAQHCFIKSRFSEPTCHCQWLNLGVLVL  861 (1238)
T ss_pred             HHHHHHHcCCcchhHHHHHHHHHHHHHHh--hccHHHHHHHHHh-hccchhhhhhhhhhhhhhccccchhheeccceeEE
Confidence            443        123457888888888765  6677778888777 66789999999999999999999999999999999


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCCcc
Q 048090          415 KFCMWDEIGQLRELMKEKGLKKDVGC  440 (447)
Q Consensus       415 ~~g~~~~A~~~~~~m~~~~~~p~~~~  440 (447)
                      +..+++-|...|...+.  +.|+-..
T Consensus       862 ~n~d~E~A~~af~~~qS--LdP~nl~  885 (1238)
T KOG1127|consen  862 ENQDFEHAEPAFSSVQS--LDPLNLV  885 (1238)
T ss_pred             ecccHHHhhHHHHhhhh--cCchhhH
Confidence            99999999999988765  5565433

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.75  E-value=1.6e-05  Score=77.61  Aligned_cols=237  Identities=12%  Similarity=0.076  Sum_probs=156.3

Q ss_pred             hhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCCCCchhhHHHHHHHHHhc
Q 048090           86 TYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEA  165 (447)
Q Consensus        86 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~  165 (447)
                      ...+..|+..+...+++++|.++.+...+.. |-....|-.+...+.+.++.+++..+             .++......
T Consensus        31 ~~a~~~Li~~~~~~~~~deai~i~~~~l~~~-P~~i~~yy~~G~l~~q~~~~~~~~lv-------------~~l~~~~~~   96 (906)
T PRK14720         31 FKELDDLIDAYKSENLTDEAKDICEEHLKEH-KKSISALYISGILSLSRRPLNDSNLL-------------NLIDSFSQN   96 (906)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CcceehHHHHHHHHHhhcchhhhhhh-------------hhhhhcccc
Confidence            3456666666666667777776666555532 22233333333355555554444322             344444455


Q ss_pred             CCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHH
Q 048090          166 KLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQ  245 (447)
Q Consensus       166 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  245 (447)
                      .++.-+.-++..|...  .-+...+..+..+|-+.|+.+++..+++++++.+   +.++.+.|.+...|... ++++|.+
T Consensus        97 ~~~~~ve~~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D---~~n~~aLNn~AY~~ae~-dL~KA~~  170 (906)
T PRK14720         97 LKWAIVEHICDKILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKAD---RDNPEIVKKLATSYEEE-DKEKAIT  170 (906)
T ss_pred             cchhHHHHHHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC---cccHHHHHHHHHHHHHh-hHHHHHH
Confidence            5554444455555553  3344577788888999999999999999999883   45788889999999888 9999988


Q ss_pred             HHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHHH
Q 048090          246 VFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPD-EVAFVTVISACSHTGQVKLGIEYFEWMV  324 (447)
Q Consensus       246 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~  324 (447)
                      ++.++..                  .|...+++..+.++|.++...  .|+ ...+                .++.+.+.
T Consensus       171 m~~KAV~------------------~~i~~kq~~~~~e~W~k~~~~--~~~d~d~f----------------~~i~~ki~  214 (906)
T PRK14720        171 YLKKAIY------------------RFIKKKQYVGIEEIWSKLVHY--NSDDFDFF----------------LRIERKVL  214 (906)
T ss_pred             HHHHHHH------------------HHHhhhcchHHHHHHHHHHhc--CcccchHH----------------HHHHHHHH
Confidence            8874422                  266677889999999999875  333 2222                23333343


Q ss_pred             HhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHH
Q 048090          325 HDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACH  380 (447)
Q Consensus       325 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~  380 (447)
                      ...+..--+.++..+...|-..++++++..+++.+++..  |.+..+..-++.+|.
T Consensus       215 ~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~--~~n~~a~~~l~~~y~  268 (906)
T PRK14720        215 GHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHD--NKNNKAREELIRFYK  268 (906)
T ss_pred             hhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcC--CcchhhHHHHHHHHH
Confidence            332334445566677778888889999999999998876  777777788888776

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.75  E-value=1.7e-06  Score=70.21  Aligned_cols=137  Identities=15%  Similarity=0.159  Sum_probs=117.2

Q ss_pred             CCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHH
Q 048090          294 KPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWG  373 (447)
Q Consensus       294 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~  373 (447)
                      .|+......+-..+...|+-+....+.......  ...+......++....+.|++.+|...+++.....  |+|..+|+
T Consensus        63 ~p~d~~i~~~a~a~~~~G~a~~~l~~~~~~~~~--~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~--p~d~~~~~  138 (257)
T COG5010          63 NPEDLSIAKLATALYLRGDADSSLAVLQKSAIA--YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA--PTDWEAWN  138 (257)
T ss_pred             CcchHHHHHHHHHHHhcccccchHHHHhhhhcc--CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC--CCChhhhh
Confidence            453332266667778888888888888876532  23455666779999999999999999999999887  99999999


Q ss_pred             HHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 048090          374 ALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGL  434 (447)
Q Consensus       374 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  434 (447)
                      .++-+|.+.|+++.|...|.+++++.|.++.+.+.++-.|.-.|+.+.|..++......+.
T Consensus       139 ~lgaaldq~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~  199 (257)
T COG5010         139 LLGAALDQLGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPA  199 (257)
T ss_pred             HHHHHHHHccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCC
Confidence            9999999999999999999999999999999999999999999999999999998876554

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.75  E-value=2.8e-07  Score=69.48  Aligned_cols=96  Identities=11%  Similarity=-0.013  Sum_probs=82.9

Q ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHH
Q 048090          334 EHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLY  413 (447)
Q Consensus       334 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  413 (447)
                      ...-.+...+...|++++|..+|+-+...+  |.+...|..|+.++...|++++|...|..+..++|+++..+..++.++
T Consensus        36 ~~lY~~A~~ly~~G~l~~A~~~f~~L~~~D--p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~  113 (157)
T PRK15363         36 NTLYRYAMQLMEVKEFAGAARLFQLLTIYD--AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECY  113 (157)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHH
Confidence            334455556778899999999999988877  888888999999999999999999999999999999999999999999


Q ss_pred             HhcCChHHHHHHHHHHHH
Q 048090          414 AKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       414 ~~~g~~~~A~~~~~~m~~  431 (447)
                      ...|+.+.|.+.|+..+.
T Consensus       114 L~lG~~~~A~~aF~~Ai~  131 (157)
T PRK15363        114 LACDNVCYAIKALKAVVR  131 (157)
T ss_pred             HHcCCHHHHHHHHHHHHH
Confidence            999999999999988776

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.74  E-value=6.4e-06  Score=66.40  Aligned_cols=189  Identities=16%  Similarity=0.106  Sum_probs=145.6

Q ss_pred             CChHHHHHHHHhhhhhcccC-CCcchhh-HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccCcHH
Q 048090          238 GLVTKALQVFNLAGHRLEGE-INKDVVL-WTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDE-VAFVTVISACSHTGQVK  314 (447)
Q Consensus       238 g~~~~A~~~~~~~~~~~~~~-~~~~~~~-~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~-~~~~~ll~~~~~~~~~~  314 (447)
                      .+.++..+++..+......+ ..++..+ |..++-+....|+.+.|...++++.+.-  |.. ..-..-.--+-..|+++
T Consensus        26 rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f--p~S~RV~~lkam~lEa~~~~~  103 (289)
T KOG3060|consen   26 RNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF--PGSKRVGKLKAMLLEATGNYK  103 (289)
T ss_pred             cCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC--CCChhHHHHHHHHHHHhhchh
Confidence            46777777777665554444 4444433 4555666778899999999999998763  433 22222222344679999


Q ss_pred             HHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHH
Q 048090          315 LGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQK  394 (447)
Q Consensus       315 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  394 (447)
                      +|.++++.+.++ . +.|..++-.-+...-..|+.-+|++-+.+..+.-  +.|..+|.-+...|...|++++|.-.+++
T Consensus       104 ~A~e~y~~lL~d-d-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~F--~~D~EAW~eLaeiY~~~~~f~kA~fClEE  179 (289)
T KOG3060|consen  104 EAIEYYESLLED-D-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDKF--MNDQEAWHELAEIYLSEGDFEKAAFCLEE  179 (289)
T ss_pred             hHHHHHHHHhcc-C-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHh--cCcHHHHHHHHHHHHhHhHHHHHHHHHHH
Confidence            999999999976 2 4457777777777778888889999999988876  88999999999999999999999999999


Q ss_pred             HhhhCCCchhHHHHHHHHHHhcC---ChHHHHHHHHHHHHc
Q 048090          395 ALELDPHNVGIYVMLSNLYAKFC---MWDEIGQLRELMKEK  432 (447)
Q Consensus       395 ~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~m~~~  432 (447)
                      ++-..|-++..+..+++.+.-.|   +.+-|.+.|++..+.
T Consensus       180 ~ll~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl  220 (289)
T KOG3060|consen  180 LLLIQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKL  220 (289)
T ss_pred             HHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence            99999999999999999887766   455677888887763

>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=98.73  E-value=7.8e-07  Score=79.16  Aligned_cols=126  Identities=20%  Similarity=0.183  Sum_probs=108.9

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHH
Q 048090          298 VAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLS  377 (447)
Q Consensus       298 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~  377 (447)
                      .....|+..+...++++.|..+|+++.+.   .|+  ....+++.+...++-.+|.+++++.+...  |.+...+.....
T Consensus       170 yLv~~Ll~~l~~t~~~~~ai~lle~L~~~---~pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~--p~d~~LL~~Qa~  242 (395)
T PF09295_consen  170 YLVDTLLKYLSLTQRYDEAIELLEKLRER---DPE--VAVLLARVYLLMNEEVEAIRLLNEALKEN--PQDSELLNLQAE  242 (395)
T ss_pred             HHHHHHHHHHhhcccHHHHHHHHHHHHhc---CCc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC--CCCHHHHHHHHH
Confidence            34456677777889999999999999865   455  34557888888899999999999999876  888888888888


Q ss_pred             HHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 048090          378 ACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMK  430 (447)
Q Consensus       378 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  430 (447)
                      .+.+.++++.|..+.+++.+..|.+..+|..|+.+|...|+++.|+..++.+-
T Consensus       243 fLl~k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  243 FLLSKKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HHHhcCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            99999999999999999999999999999999999999999999998888664

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.73  E-value=1.8e-05  Score=70.12  Aligned_cols=137  Identities=18%  Similarity=0.185  Sum_probs=91.4

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCC
Q 048090          271 VYGRNGYFKEVIKLYEAMLMNGTKP-DEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG-PEHYSCLVDLLCRAGE  348 (447)
Q Consensus       271 ~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~  348 (447)
                      .+...|++++|+..++.+...  .| |..........+.+.++.++|.+.++++...   .|+ ....-.+..+|.+.|+
T Consensus       315 ~~~~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l---~P~~~~l~~~~a~all~~g~  389 (484)
T COG4783         315 QTYLAGQYDEALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKALAL---DPNSPLLQLNLAQALLKGGK  389 (484)
T ss_pred             HHHHhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc---CCCccHHHHHHHHHHHhcCC
Confidence            345567777777777777764  34 3444445555677777788888887777743   555 5555666777777888


Q ss_pred             HHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHH
Q 048090          349 LDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLREL  428 (447)
Q Consensus       349 ~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  428 (447)
                      +.+|..++++.....  |+++..|..|.++|...|+..++.....+                 .|...|+++.|+..+.+
T Consensus       390 ~~eai~~L~~~~~~~--p~dp~~w~~LAqay~~~g~~~~a~~A~AE-----------------~~~~~G~~~~A~~~l~~  450 (484)
T COG4783         390 PQEAIRILNRYLFND--PEDPNGWDLLAQAYAELGNRAEALLARAE-----------------GYALAGRLEQAIIFLMR  450 (484)
T ss_pred             hHHHHHHHHHHhhcC--CCCchHHHHHHHHHHHhCchHHHHHHHHH-----------------HHHhCCCHHHHHHHHHH
Confidence            888888777777766  77777788888888777776665554443                 44555566666655555


Q ss_pred             HHH
Q 048090          429 MKE  431 (447)
Q Consensus       429 m~~  431 (447)
                      ..+
T Consensus       451 A~~  453 (484)
T COG4783         451 ASQ  453 (484)
T ss_pred             HHH
Confidence            544

>PF12854 PPR_1: PPR repeat

Probab=98.72  E-value=1.7e-08  Score=55.20  Aligned_cols=32  Identities=34%  Similarity=0.409  Sum_probs=20.3

Q ss_pred             CCCCchhhHHHHHHHHHccCChhhHHHHhccC
Q 048090          116 GWLSSVFVGSALIDLYAKLLLIHDAELMFDEI  147 (447)
Q Consensus       116 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  147 (447)
                      |+.||..+|+++|++|++.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            55666666666666666666666666666655

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.72  E-value=1.4e-05  Score=64.98  Aligned_cols=251  Identities=11%  Similarity=0.048  Sum_probs=160.9

Q ss_pred             HHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcC
Q 048090          159 LSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCG  238 (447)
Q Consensus       159 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  238 (447)
                      ++-+.-.|.+..++..-......  +.+...-..+.++|...|.+.....-   +..   +-.|.......+......-+
T Consensus        15 iRn~fY~Gnyq~~ine~~~~~~~--~~~~e~d~y~~raylAlg~~~~~~~e---I~~---~~~~~lqAvr~~a~~~~~e~   86 (299)
T KOG3081|consen   15 IRNYFYLGNYQQCINEAEKFSSS--KTDVELDVYMYRAYLALGQYQIVISE---IKE---GKATPLQAVRLLAEYLELES   86 (299)
T ss_pred             HHHHHHhhHHHHHHHHHHhhccc--cchhHHHHHHHHHHHHcccccccccc---ccc---ccCChHHHHHHHHHHhhCcc
Confidence            34455668888887766655443  13333444455666666655433322   111   22333344444444444444


Q ss_pred             ChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHH
Q 048090          239 LVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIE  318 (447)
Q Consensus       239 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~  318 (447)
                      +.++-+.-+.+  .........+......-...|+..|++++|++......      +......=+..+.+..+++.|.+
T Consensus        87 ~~~~~~~~l~E--~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~  158 (299)
T KOG3081|consen   87 NKKSILASLYE--LVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEK  158 (299)
T ss_pred             hhHHHHHHHHH--HHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHH
Confidence            44433332221  11111233333334444567889999999999887621      22223333345567889999999


Q ss_pred             HHHHHHHhcCCCCChhhHHHHHHHHHH----cCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHH
Q 048090          319 YFEWMVHDYKLEPGPEHYSCLVDLLCR----AGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQK  394 (447)
Q Consensus       319 ~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  394 (447)
                      .+++|.+-    .+..+.+-|..+|.+    .+.+..|.-+|++|-.+-  |+...+.+-.+.++...|++++|..+++.
T Consensus       159 ~lk~mq~i----ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k~--~~T~~llnG~Av~~l~~~~~eeAe~lL~e  232 (299)
T KOG3081|consen  159 ELKKMQQI----DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEKT--PPTPLLLNGQAVCHLQLGRYEEAESLLEE  232 (299)
T ss_pred             HHHHHHcc----chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhccc--CCChHHHccHHHHHHHhcCHHHHHHHHHH
Confidence            99999742    345566666666654    467999999999998854  56777799999999999999999999999


Q ss_pred             HhhhCCCchhHHHHHHHHHHhcCChHHHH-HHHHHHHH
Q 048090          395 ALELDPHNVGIYVMLSNLYAKFCMWDEIG-QLRELMKE  431 (447)
Q Consensus       395 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~-~~~~~m~~  431 (447)
                      ++..++.++.+...++-+-...|...++. +.+.+.+.
T Consensus       233 aL~kd~~dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~  270 (299)
T KOG3081|consen  233 ALDKDAKDPETLANLIVLALHLGKDAEVTERNLSQLKL  270 (299)
T ss_pred             HHhccCCCHHHHHHHHHHHHHhCCChHHHHHHHHHHHh
Confidence            99999999999999998888888876653 45555554

>PF12854 PPR_1: PPR repeat

Probab=98.72  E-value=2.2e-08  Score=54.77  Aligned_cols=32  Identities=41%  Similarity=0.770  Sum_probs=23.4

Q ss_pred             CCCCChhhHHHHHHHHHHcCCHHHHHHHHHHH
Q 048090          328 KLEPGPEHYSCLVDLLCRAGELDKAWKLINEM  359 (447)
Q Consensus       328 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  359 (447)
                      |+.||..+|++||.+|++.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            66777777777777777777777777777766

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.70  E-value=0.00035  Score=66.64  Aligned_cols=391  Identities=11%  Similarity=0.069  Sum_probs=210.0

Q ss_pred             CcchHHHhhccCCCCCCc-cHHHHHHHH--HhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHH
Q 048090           35 NLGTLTNCLKFLNPRNPL-PFNVVISDF--CRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAH  111 (447)
Q Consensus        35 ~~~~A~~~~~~~~~~~~~-~~~~l~~~~--~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  111 (447)
                      +...|++..+.+....|. .|..++.++  .+.|+.++|..+++.....+.. |..|...+-..|.+.++.++|..+|+.
T Consensus        24 qfkkal~~~~kllkk~Pn~~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~~~Ye~  102 (932)
T KOG2053|consen   24 QFKKALAKLGKLLKKHPNALYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAVHLYER  102 (932)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHHHHHHH
Confidence            466777766665443333 244455544  5678888888777777655444 667777777777888888888888888


Q ss_pred             HHHcCCCCchhhHHHHHHHHHccCChhh----HHHHhccCCCCchhhHHHHHHHHHhc-CC---------HHHHHHHHHh
Q 048090          112 VTKSGWLSSVFVGSALIDLYAKLLLIHD----AELMFDEIPVKNSVCANALLSGYCEA-KL---------WAGGLELVRL  177 (447)
Q Consensus       112 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~----a~~~~~~~~~~~~~~~~~l~~~~~~~-~~---------~~~a~~~~~~  177 (447)
                      ....  .|+......+..+|++.+++.+    |.+++...++. ...+-.+++...+. ..         ..-|.+.++.
T Consensus       103 ~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~~pk~-~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m~~~  179 (932)
T KOG2053|consen  103 ANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKNFPKR-AYYFWSVISLILQSIFSENELLDPILLALAEKMVQK  179 (932)
T ss_pred             HHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcc-cchHHHHHHHHHHhccCCcccccchhHHHHHHHHHH
Confidence            7764  4556666667777777766543    56666655443 33333444443332 11         1224444555


Q ss_pred             hhhcC-CCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhccc
Q 048090          178 MPALG-LDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEG  256 (447)
Q Consensus       178 ~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  256 (447)
                      +.+.+ -.-+..-...-...+...|.+++|.+++..-.... -...+...-+.-+..+...++|.+..++-.++...   
T Consensus       180 ~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~-l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k---  255 (932)
T KOG2053|consen  180 LLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEK-LTSANLYLENKKLDLLKLLNRWQELFELSSRLLEK---  255 (932)
T ss_pred             HhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHh-ccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHh---
Confidence            54433 11111112222233445677788877774333220 12223334455666777777887777776655443   


Q ss_pred             CCCcchhhHHHHHHHHHh----------------cCCHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHhccCcHHHHHHH
Q 048090          257 EINKDVVLWTSMLGVYGR----------------NGYFKEVIKLYEAMLMNGT-KPDEVAFVTVISACSHTGQVKLGIEY  319 (447)
Q Consensus       257 ~~~~~~~~~~~l~~~~~~----------------~g~~~~a~~~~~~m~~~~~-~p~~~~~~~ll~~~~~~~~~~~a~~~  319 (447)
                        .+|.  |...+..+.+                .+..+...+...+...... .|-...+ -+..-+..-|+.+++...
T Consensus       256 --~~Dd--y~~~~~sv~klLe~~~~~~a~~~~s~~~~l~~~~ek~~~~i~~~~Rgp~LA~l-el~kr~~~~gd~ee~~~~  330 (932)
T KOG2053|consen  256 --GNDD--YKIYTDSVFKLLELLNKEPAEAAHSLSKSLDECIEKAQKNIGSKSRGPYLARL-ELDKRYKLIGDSEEMLSY  330 (932)
T ss_pred             --CCcc--hHHHHHHHHHHHHhcccccchhhhhhhhhHHHHHHHHHHhhcccccCcHHHHH-HHHHHhcccCChHHHHHH
Confidence              2221  3332222111                1222333333333332211 1211111 222222345777776544


Q ss_pred             HHHHHHhcCCCC----C---------hhhHHHHHHHHHH------------------------cCC-----HHHHHHHHH
Q 048090          320 FEWMVHDYKLEP----G---------PEHYSCLVDLLCR------------------------AGE-----LDKAWKLIN  357 (447)
Q Consensus       320 ~~~~~~~~~~~~----~---------~~~~~~l~~~~~~------------------------~g~-----~~~A~~~~~  357 (447)
                      |-+-.   |-+|    |         ......++..+..                        .|.     .+.-..+++
T Consensus       331 y~~kf---g~kpcc~~Dl~~yl~~l~~~q~~~l~~~l~~~~~~~s~~~k~l~~h~c~l~~~rl~G~~~~l~ad~i~a~~~  407 (932)
T KOG2053|consen  331 YFKKF---GDKPCCAIDLNHYLGHLNIDQLKSLMSKLVLADDDSSGDEKVLQQHLCVLLLLRLLGLYEKLPADSILAYVR  407 (932)
T ss_pred             HHHHh---CCCcHhHhhHHHhhccCCHHHHHHHHHHhhccCCcchhhHHHHHHHHHHHHHHHHhhccccCChHHHHHHHH
Confidence            43321   2222    1         1111222222221                        221     122222332


Q ss_pred             HHH---hCC------CCCCchH--------hHHHHHHHHHhcCCcc---HHHHHHHHHhhhCCCchhHHHHHHHHHHhcC
Q 048090          358 EML---DRG------HGSSSVS--------MWGALLSACHDCGKFE---LGKLAAQKALELDPHNVGIYVMLSNLYAKFC  417 (447)
Q Consensus       358 ~~~---~~~------~~p~~~~--------~~~~l~~~~~~~g~~~---~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  417 (447)
                      +..   +.|      .-|.+..        +-+.|+..|.+.++..   +|+.+++..+...|.|..+--.+++.|+-.|
T Consensus       408 kl~~~ye~gls~~K~ll~TE~~~g~~~llLav~~Lid~~rktnd~~~l~eaI~LLE~glt~s~hnf~~KLlLiriY~~lG  487 (932)
T KOG2053|consen  408 KLKLTYEKGLSLSKDLLPTEYSFGDELLLLAVNHLIDLWRKTNDLTDLFEAITLLENGLTKSPHNFQTKLLLIRIYSYLG  487 (932)
T ss_pred             HHHHHHhccccccccccccccccHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhcCCccHHHHHHHHHHHHHhc
Confidence            221   112      1122221        3456778888888754   6778888889999999999999999999999


Q ss_pred             ChHHHHHHHHHHHHcCCCCCCccc
Q 048090          418 MWDEIGQLRELMKEKGLKKDVGCS  441 (447)
Q Consensus       418 ~~~~A~~~~~~m~~~~~~p~~~~~  441 (447)
                      -+..|.+.|+.+.-+.+..|.--|
T Consensus       488 a~p~a~~~y~tLdIK~IQ~DTlgh  511 (932)
T KOG2053|consen  488 AFPDAYELYKTLDIKNIQTDTLGH  511 (932)
T ss_pred             CChhHHHHHHhcchHHhhhccchH
Confidence            999999999998777777775433

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.69  E-value=6.2e-06  Score=72.91  Aligned_cols=129  Identities=16%  Similarity=0.102  Sum_probs=112.5

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHH
Q 048090          298 VAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLS  377 (447)
Q Consensus       298 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~  377 (447)
                      .-|..-+ .+...|+++.|+..++.+.+.  .+-|+..+....+.+.+.++.++|.+.++++....  |........+..
T Consensus       308 a~YG~A~-~~~~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~--P~~~~l~~~~a~  382 (484)
T COG4783         308 AQYGRAL-QTYLAGQYDEALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKALALD--PNSPLLQLNLAQ  382 (484)
T ss_pred             HHHHHHH-HHHHhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC--CCccHHHHHHHH
Confidence            3444444 345679999999999999875  34457777788899999999999999999999987  888888999999


Q ss_pred             HHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          378 ACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       378 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      ++.+.|++.+|..+++.....+|+++..|..|.++|...|+..+|....-+...
T Consensus       383 all~~g~~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~  436 (484)
T COG4783         383 ALLKGGKPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARAEGYA  436 (484)
T ss_pred             HHHhcCChHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999888777654

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.68  E-value=1.1e-06  Score=67.11  Aligned_cols=117  Identities=10%  Similarity=-0.022  Sum_probs=93.8

Q ss_pred             HHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 048090          284 LYEAMLMNGTKP-DEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDR  362 (447)
Q Consensus       284 ~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  362 (447)
                      .+++....  .| +......+...+...|++++|...|+.+...  .+.+...+..+..++...|++++|...++.....
T Consensus         5 ~~~~~l~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~   80 (135)
T TIGR02552         5 TLKDLLGL--DSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAY--DPYNSRYWLGLAACCQMLKEYEEAIDAYALAAAL   80 (135)
T ss_pred             hHHHHHcC--ChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            44555553  33 3445666777788899999999999988764  2446788888889999999999999999998887


Q ss_pred             CCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHH
Q 048090          363 GHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIY  406 (447)
Q Consensus       363 ~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  406 (447)
                      +  |++...+..+..++...|++++|...++++++..|++....
T Consensus        81 ~--p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  122 (135)
T TIGR02552        81 D--PDDPRPYFHAAECLLALGEPESALKALDLAIEICGENPEYS  122 (135)
T ss_pred             C--CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHH
Confidence            6  87888899999999999999999999999999998776543

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.59  E-value=6.9e-05  Score=69.69  Aligned_cols=293  Identities=14%  Similarity=0.069  Sum_probs=163.2

Q ss_pred             HHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhh
Q 048090           60 DFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHD  139 (447)
Q Consensus        60 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  139 (447)
                      .+...|+++.|+.-|-+..         .....+.+....+.+.+|..+++.+....  .-..-|..+.+.|+..|+++.
T Consensus       715 hl~~~~q~daainhfiea~---------~~~kaieaai~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~  783 (1636)
T KOG3616|consen  715 HLEQIGQLDAAINHFIEAN---------CLIKAIEAAIGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEI  783 (1636)
T ss_pred             HHHHHHhHHHHHHHHHHhh---------hHHHHHHHHhhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHH
Confidence            3445566666666554332         12234555666777888888877766543  223345666677888888888


Q ss_pred             HHHHhccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhc
Q 048090          140 AELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCN  219 (447)
Q Consensus       140 a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  219 (447)
                      |+++|-+.     ..++.-|..|.+.|+|+.|.++-.+...  .......|..-..-+-+.|++.+|+++|-.+.     
T Consensus       784 ae~lf~e~-----~~~~dai~my~k~~kw~da~kla~e~~~--~e~t~~~yiakaedldehgkf~eaeqlyiti~-----  851 (1636)
T KOG3616|consen  784 AEELFTEA-----DLFKDAIDMYGKAGKWEDAFKLAEECHG--PEATISLYIAKAEDLDEHGKFAEAEQLYITIG-----  851 (1636)
T ss_pred             HHHHHHhc-----chhHHHHHHHhccccHHHHHHHHHHhcC--chhHHHHHHHhHHhHHhhcchhhhhheeEEcc-----
Confidence            88887654     2355667778888888888877666542  23344455555555666777777777665431     


Q ss_pred             CCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHH
Q 048090          220 LGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVA  299 (447)
Q Consensus       220 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~  299 (447)
                       .|+     ..|.+|-+.|..+..+++..+-  .    ...-..|...+..-|-..|+...|+..|-+..+         
T Consensus       852 -~p~-----~aiqmydk~~~~ddmirlv~k~--h----~d~l~dt~~~f~~e~e~~g~lkaae~~flea~d---------  910 (1636)
T KOG3616|consen  852 -EPD-----KAIQMYDKHGLDDDMIRLVEKH--H----GDHLHDTHKHFAKELEAEGDLKAAEEHFLEAGD---------  910 (1636)
T ss_pred             -Cch-----HHHHHHHhhCcchHHHHHHHHh--C----hhhhhHHHHHHHHHHHhccChhHHHHHHHhhhh---------
Confidence             222     3456677777777777766521  0    111233455556666666777776665544322         


Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHH-------------HhcCCCCChh------hHHHHHHHHHHcCCHHHHHHHHHHHH
Q 048090          300 FVTVISACSHTGQVKLGIEYFEWMV-------------HDYKLEPGPE------HYSCLVDLLCRAGELDKAWKLINEML  360 (447)
Q Consensus       300 ~~~ll~~~~~~~~~~~a~~~~~~~~-------------~~~~~~~~~~------~~~~l~~~~~~~g~~~~A~~~~~~~~  360 (447)
                      |.+.+..|-.++-+++|.++-+.--             +..|-..-+.      ....-++..+..+-++-|.++-+-..
T Consensus       911 ~kaavnmyk~s~lw~dayriaktegg~n~~k~v~flwaksiggdaavkllnk~gll~~~id~a~d~~afd~afdlari~~  990 (1636)
T KOG3616|consen  911 FKAAVNMYKASELWEDAYRIAKTEGGANAEKHVAFLWAKSIGGDAAVKLLNKHGLLEAAIDFAADNCAFDFAFDLARIAA  990 (1636)
T ss_pred             HHHHHHHhhhhhhHHHHHHHHhccccccHHHHHHHHHHHhhCcHHHHHHHHhhhhHHHHhhhhhcccchhhHHHHHHHhh
Confidence            3333444444555554444322110             0000000000      11122333344555666666555444


Q ss_pred             hCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCC
Q 048090          361 DRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDP  400 (447)
Q Consensus       361 ~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  400 (447)
                      +..    .......+...+...|++++|.+-|-++++++.
T Consensus       991 k~k----~~~vhlk~a~~ledegk~edaskhyveaiklnt 1026 (1636)
T KOG3616|consen  991 KDK----MGEVHLKLAMFLEDEGKFEDASKHYVEAIKLNT 1026 (1636)
T ss_pred             hcc----CccchhHHhhhhhhccchhhhhHhhHHHhhccc
Confidence            433    222355667777788888888888888877653

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.55  E-value=4.5e-07  Score=74.94  Aligned_cols=110  Identities=23%  Similarity=0.207  Sum_probs=92.7

Q ss_pred             HHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCC
Q 048090          306 ACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGK  384 (447)
Q Consensus       306 ~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  384 (447)
                      -..+.+++++|+..|.+.++   +.| |...|..-..+|.+.|.++.|.+-.+..+..+  |....+|..|+.+|...|+
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~---l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD--p~yskay~RLG~A~~~~gk  164 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIE---LDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSID--PHYSKAYGRLGLAYLALGK  164 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHh---cCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC--hHHHHHHHHHHHHHHccCc
Confidence            35677899999999999984   465 57777778889999999999999999998877  8888899999999999999


Q ss_pred             ccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChH
Q 048090          385 FELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWD  420 (447)
Q Consensus       385 ~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  420 (447)
                      +++|.+.|+++++++|+|......|-.+-.+.+..+
T Consensus       165 ~~~A~~aykKaLeldP~Ne~~K~nL~~Ae~~l~e~~  200 (304)
T KOG0553|consen  165 YEEAIEAYKKALELDPDNESYKSNLKIAEQKLNEPK  200 (304)
T ss_pred             HHHHHHHHHhhhccCCCcHHHHHHHHHHHHHhcCCC
Confidence            999999999999999999988888777666665555

>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=98.53  E-value=1.9e-06  Score=61.20  Aligned_cols=94  Identities=28%  Similarity=0.328  Sum_probs=78.7

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHh
Q 048090          336 YSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAK  415 (447)
Q Consensus       336 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  415 (447)
                      +..+...+...|++++|...++++.+..  |++..++..++.++...+++++|...++++.+..|.+..++..++..+..
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELD--PDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYK   80 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHH
Confidence            4556677788889999999998888765  66666788888888888999999999999888888888888888888999


Q ss_pred             cCChHHHHHHHHHHHH
Q 048090          416 FCMWDEIGQLRELMKE  431 (447)
Q Consensus       416 ~g~~~~A~~~~~~m~~  431 (447)
                      .|++++|...+++..+
T Consensus        81 ~~~~~~a~~~~~~~~~   96 (100)
T cd00189          81 LGKYEEALEAYEKALE   96 (100)
T ss_pred             HHhHHHHHHHHHHHHc
Confidence            9999999888887765

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.51  E-value=1.6e-06  Score=71.71  Aligned_cols=150  Identities=15%  Similarity=0.158  Sum_probs=107.2

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHc
Q 048090          269 LGVYGRNGYFKEVIKLYEAMLMNGTKP-DEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG-PEHYSCLVDLLCRA  346 (447)
Q Consensus       269 ~~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~  346 (447)
                      ..-+.+.+++.+|+..|.+.++.  .| |+.-|..-..+|++.|.++.|++-.+..+   .+.|. ..+|..|..+|...
T Consensus        88 GN~~m~~~~Y~eAv~kY~~AI~l--~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al---~iDp~yskay~RLG~A~~~~  162 (304)
T KOG0553|consen   88 GNKLMKNKDYQEAVDKYTEAIEL--DPTNAVYYCNRAAAYSKLGEYEDAVKDCESAL---SIDPHYSKAYGRLGLAYLAL  162 (304)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHhc--CCCcchHHHHHHHHHHHhcchHHHHHHHHHHH---hcChHHHHHHHHHHHHHHcc
Confidence            34567789999999999999985  44 56677778889999999999999888887   45675 78899999999999


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCcc---HHHHHHHHHhhhC--CCchhHHHHHHHHHHhcCChHH
Q 048090          347 GELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFE---LGKLAAQKALELD--PHNVGIYVMLSNLYAKFCMWDE  421 (447)
Q Consensus       347 g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~---~a~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~  421 (447)
                      |++++|.+.|++.++..  |++......|-.+--+.+...   .+...++.....+  |+....++      ...-.-..
T Consensus       163 gk~~~A~~aykKaLeld--P~Ne~~K~nL~~Ae~~l~e~~~~~~~~~~~d~~~~ig~~Pd~~s~~~------~~l~nnp~  234 (304)
T KOG0553|consen  163 GKYEEAIEAYKKALELD--PDNESYKSNLKIAEQKLNEPKSSAQASGSFDMAGLIGAFPDSRSMFN------GDLMNNPQ  234 (304)
T ss_pred             CcHHHHHHHHHhhhccC--CCcHHHHHHHHHHHHHhcCCCcccccccchhhhhhccCCccchhhhc------cccccCHH
Confidence            99999999999998877  888886777776666666655   3334444333333  33343333      12223344


Q ss_pred             HHHHHHHHHH
Q 048090          422 IGQLRELMKE  431 (447)
Q Consensus       422 A~~~~~~m~~  431 (447)
                      ...+...|..
T Consensus       235 l~~~~~~m~~  244 (304)
T KOG0553|consen  235 LMQLASQMMK  244 (304)
T ss_pred             HHHHHHHHhh
Confidence            4555555555

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.51  E-value=1.1e-05  Score=62.38  Aligned_cols=125  Identities=14%  Similarity=0.133  Sum_probs=71.3

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCc---hHhHHHH
Q 048090          300 FVTVISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSS---VSMWGAL  375 (447)
Q Consensus       300 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~---~~~~~~l  375 (447)
                      |..++..+ ..++...+...++.+.+.++-.| .......+...+...|++++|...|+......  |++   ..+...|
T Consensus        15 y~~~~~~~-~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~--~d~~l~~~a~l~L   91 (145)
T PF09976_consen   15 YEQALQAL-QAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANA--PDPELKPLARLRL   91 (145)
T ss_pred             HHHHHHHH-HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCHHHHHHHHHHH
Confidence            33444443 35666666666666665421111 12233344456666777777777777776654  222   1234456


Q ss_pred             HHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHH
Q 048090          376 LSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLREL  428 (447)
Q Consensus       376 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  428 (447)
                      ...+...|++++|...++.. ...+-.+..+...+++|.+.|++++|...|++
T Consensus        92 A~~~~~~~~~d~Al~~L~~~-~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen   92 ARILLQQGQYDEALATLQQI-PDEAFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHcCCHHHHHHHHHhc-cCcchHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            66667777777777777552 22233555666777777777777777777665

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.50  E-value=4.3e-07  Score=62.64  Aligned_cols=80  Identities=25%  Similarity=0.307  Sum_probs=62.0

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCC--chHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHH
Q 048090          346 AGELDKAWKLINEMLDRGHGSS--SVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIG  423 (447)
Q Consensus       346 ~g~~~~A~~~~~~~~~~~~~p~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  423 (447)
                      .|+++.|+.+++++.+..  |.  +...+..++.++.+.|++++|..++++ .+.+|.+......++.++.+.|++++|+
T Consensus         2 ~~~y~~Ai~~~~k~~~~~--~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~~~~~~~l~a~~~~~l~~y~eAi   78 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELD--PTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPSNPDIHYLLARCLLKLGKYEEAI   78 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHH--CGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHCHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             CccHHHHHHHHHHHHHHC--CCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHHhCCHHHHH
Confidence            578888888888888776  42  444566688888888998888888888 6666777777778888888999999998


Q ss_pred             HHHHH
Q 048090          424 QLREL  428 (447)
Q Consensus       424 ~~~~~  428 (447)
                      +++++
T Consensus        79 ~~l~~   83 (84)
T PF12895_consen   79 KALEK   83 (84)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            88875

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.48  E-value=1.7e-06  Score=77.37  Aligned_cols=106  Identities=14%  Similarity=0.195  Sum_probs=91.5

Q ss_pred             HHHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHh
Q 048090          303 VISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHD  381 (447)
Q Consensus       303 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~  381 (447)
                      -...+...|+++.|+..|+++++.   .| +...|..+..+|.+.|++++|+..+++++..+  |.+..+|..++.+|..
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~---~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~--P~~~~a~~~lg~~~~~   82 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDL---DPNNAELYADRAQANIKLGNFTEAVADANKAIELD--PSLAKAYLRKGTACMK   82 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cCCHHHHHHHHHHHHH
Confidence            345567789999999999999864   44 57788888899999999999999999999887  8888899999999999


Q ss_pred             cCCccHHHHHHHHHhhhCCCchhHHHHHHHHH
Q 048090          382 CGKFELGKLAAQKALELDPHNVGIYVMLSNLY  413 (447)
Q Consensus       382 ~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  413 (447)
                      .|++++|...++++++.+|.+..+...+..+.
T Consensus        83 lg~~~eA~~~~~~al~l~P~~~~~~~~l~~~~  114 (356)
T PLN03088         83 LEEYQTAKAALEKGASLAPGDSRFTKLIKECD  114 (356)
T ss_pred             hCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            99999999999999999999888777765543

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.47  E-value=5e-06  Score=61.87  Aligned_cols=103  Identities=16%  Similarity=0.151  Sum_probs=49.6

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCc---hHhHHHH
Q 048090          300 FVTVISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSS---VSMWGAL  375 (447)
Q Consensus       300 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~---~~~~~~l  375 (447)
                      +..+...+...|++++|...|..+.....-.+ ....+..+..++.+.|++++|...++++....  |++   ..++..+
T Consensus         5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~~   82 (119)
T TIGR02795         5 YYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKY--PKSPKAPDALLKL   82 (119)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHC--CCCCcccHHHHHH
Confidence            34444445555555555555555544311101 12234445555555555555555555555433  221   2334555


Q ss_pred             HHHHHhcCCccHHHHHHHHHhhhCCCchh
Q 048090          376 LSACHDCGKFELGKLAAQKALELDPHNVG  404 (447)
Q Consensus       376 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  404 (447)
                      +.++...|++++|...++++++..|++..
T Consensus        83 ~~~~~~~~~~~~A~~~~~~~~~~~p~~~~  111 (119)
T TIGR02795        83 GMSLQELGDKEKAKATLQQVIKRYPGSSA  111 (119)
T ss_pred             HHHHHHhCChHHHHHHHHHHHHHCcCChh
Confidence            55555555555555555555555555443

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=98.42  E-value=1.2e-05  Score=59.76  Aligned_cols=96  Identities=15%  Similarity=0.076  Sum_probs=66.5

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCc---hHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCc---hhHHHH
Q 048090          335 HYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSS---VSMWGALLSACHDCGKFELGKLAAQKALELDPHN---VGIYVM  408 (447)
Q Consensus       335 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~~~~  408 (447)
                      ++..++..+.+.|++++|.+.+..+....  |++   ..++..++.++...|+++.|...++++....|.+   +.++..
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~   81 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKY--PKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLK   81 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHH
Confidence            45556666777777777777777776654  433   3346667777777777777777777777766553   456777


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHc
Q 048090          409 LSNLYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       409 l~~~~~~~g~~~~A~~~~~~m~~~  432 (447)
                      ++.++.+.|++++|...++++.+.
T Consensus        82 ~~~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        82 LGMSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHHHhCChHHHHHHHHHHHHH
Confidence            777777777777777777777764

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.

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=98.39  E-value=1.9e-06  Score=56.02  Aligned_cols=60  Identities=25%  Similarity=0.392  Sum_probs=30.2

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCc
Q 048090          341 DLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHN  402 (447)
Q Consensus       341 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  402 (447)
                      ..+.+.|++++|...|+++++..  |.+..++..++.++...|++++|...++++++..|++
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l~~~--P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~~   64 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQALKQD--PDNPEAWYLLGRILYQQGRYDEALAYYERALELDPDN   64 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHHCCS--TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCC
Confidence            34445555555555555555544  5555555555555555555555555555555555543

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.36  E-value=7.8e-07  Score=49.56  Aligned_cols=35  Identities=31%  Similarity=0.495  Sum_probs=29.8

Q ss_pred             ccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCch
Q 048090           52 LPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDT   86 (447)
Q Consensus        52 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~   86 (447)
                      .+||++|.+|++.|++++|.++|++|.+.|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            36888889999999999999999888888888873

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.

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.36  E-value=1.5e-05  Score=71.39  Aligned_cols=102  Identities=9%  Similarity=0.001  Sum_probs=77.9

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHc
Q 048090          268 MLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRA  346 (447)
Q Consensus       268 l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~  346 (447)
                      ....+...|++++|+..|++.++... -+...|..+..++...|++++|+..+++++..   .| +...|..+..+|...
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~~P-~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l---~P~~~~a~~~lg~~~~~l   83 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDLDP-NNAELYADRAQANIKLGNFTEAVADANKAIEL---DPSLAKAYLRKGTACMKL   83 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CcCCHHHHHHHHHHHHHh
Confidence            34556677888888888888887542 25667777788888888888888888888753   44 477788888888888


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCchHhHHHH
Q 048090          347 GELDKAWKLINEMLDRGHGSSSVSMWGAL  375 (447)
Q Consensus       347 g~~~~A~~~~~~~~~~~~~p~~~~~~~~l  375 (447)
                      |++++|...|++.+..+  |.+..+...+
T Consensus        84 g~~~eA~~~~~~al~l~--P~~~~~~~~l  110 (356)
T PLN03088         84 EEYQTAKAALEKGASLA--PGDSRFTKLI  110 (356)
T ss_pred             CCHHHHHHHHHHHHHhC--CCCHHHHHHH
Confidence            88888888888888876  7777644443

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=98.35  E-value=2.5e-05  Score=65.26  Aligned_cols=107  Identities=15%  Similarity=0.077  Sum_probs=91.2

Q ss_pred             CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcC---CccHHHHHHHHHhhhCCCchhHH
Q 048090          330 EPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCG---KFELGKLAAQKALELDPHNVGIY  406 (447)
Q Consensus       330 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~~~~~~~~  406 (447)
                      +-|...|..|...|...|+++.|..-|.+..+..  |+++..+..+..++....   +..++..++++++..+|.|+...
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~--g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral  230 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLA--GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRAL  230 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHH
Confidence            4468999999999999999999999999998876  888888888888776544   35678899999999999999999


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCCC
Q 048090          407 VMLSNLYAKFCMWDEIGQLRELMKEKGLKKDV  438 (447)
Q Consensus       407 ~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~  438 (447)
                      ..|+..+...|++.+|...|+.|.+..-.-++
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~~  262 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLLPADDP  262 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcCCCCCc
Confidence            99999999999999999999999886544333

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.35  E-value=8.5e-07  Score=48.98  Aligned_cols=33  Identities=24%  Similarity=0.409  Sum_probs=27.7

Q ss_pred             ccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCC
Q 048090           52 LPFNVVISDFCRNGSPLYALKTFSFMHVHGIFL   84 (447)
Q Consensus        52 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p   84 (447)
                      .+|+.++.+|++.|+++.|.++|++|.+.|++|
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            578888888888888888888888888888776

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.35  E-value=3.7e-05  Score=59.32  Aligned_cols=128  Identities=18%  Similarity=0.184  Sum_probs=85.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC--hhhHHHH
Q 048090          264 LWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKP--DEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG--PEHYSCL  339 (447)
Q Consensus       264 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l  339 (447)
                      .|..++..+ ..++...+...++.+......-  .......+...+...|++++|...|+.+... ...|.  ......|
T Consensus        14 ~y~~~~~~~-~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~-~~d~~l~~~a~l~L   91 (145)
T PF09976_consen   14 LYEQALQAL-QAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALAN-APDPELKPLARLRL   91 (145)
T ss_pred             HHHHHHHHH-HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh-CCCHHHHHHHHHHH
Confidence            344444444 4777888888888887753221  1233334556777888888888888888765 32222  2244556


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHh
Q 048090          340 VDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKAL  396 (447)
Q Consensus       340 ~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  396 (447)
                      ...+...|++++|+..++.....   +.....+...+.++...|++++|...|++++
T Consensus        92 A~~~~~~~~~d~Al~~L~~~~~~---~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~Al  145 (145)
T PF09976_consen   92 ARILLQQGQYDEALATLQQIPDE---AFKALAAELLGDIYLAQGDYDEARAAYQKAL  145 (145)
T ss_pred             HHHHHHcCCHHHHHHHHHhccCc---chHHHHHHHHHHHHHHCCCHHHHHHHHHHhC
Confidence            77788888888888888775443   2344557788888888888888888888753

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.29  E-value=5.4e-05  Score=60.41  Aligned_cols=101  Identities=17%  Similarity=0.173  Sum_probs=51.2

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHH
Q 048090          300 FVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG-PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSA  378 (447)
Q Consensus       300 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~  378 (447)
                      +..+...+...|++++|...|++..+...-.++ ...+..+..++.+.|++++|...+++.+...  |.+...+..++.+
T Consensus        38 ~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~  115 (172)
T PRK02603         38 YYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN--PKQPSALNNIAVI  115 (172)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cccHHHHHHHHHH
Confidence            344444444555555555555555432100111 2344455555555555555555555555543  4445445555555


Q ss_pred             HHhcCC--------------ccHHHHHHHHHhhhCCCc
Q 048090          379 CHDCGK--------------FELGKLAAQKALELDPHN  402 (447)
Q Consensus       379 ~~~~g~--------------~~~a~~~~~~~~~~~~~~  402 (447)
                      +...|+              +++|.++++++++.+|++
T Consensus       116 ~~~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~~~p~~  153 (172)
T PRK02603        116 YHKRGEKAEEAGDQDEAEALFDKAAEYWKQAIRLAPNN  153 (172)
T ss_pred             HHHcCChHhHhhCHHHHHHHHHHHHHHHHHHHhhCchh
Confidence            555444              455666666666666665

>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=98.29  E-value=4.4e-06  Score=55.08  Aligned_cols=64  Identities=27%  Similarity=0.295  Sum_probs=50.4

Q ss_pred             chHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcC-ChHHHHHHHHHHHH
Q 048090          368 SVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFC-MWDEIGQLRELMKE  431 (447)
Q Consensus       368 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~m~~  431 (447)
                      ++.+|..++..+...|++++|...|+++++.+|.++.+|..++.+|.+.| ++++|++.+++..+
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            34567778888888888888888888888888888888888888888888 68888888777765

...

>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=98.28  E-value=3.5e-05  Score=68.83  Aligned_cols=118  Identities=14%  Similarity=0.051  Sum_probs=56.5

Q ss_pred             HHHHHHccCChhhHHHHhccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHH
Q 048090          127 LIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFG  206 (447)
Q Consensus       127 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  206 (447)
                      |+..+...++++.|+.+|+++.+.++.....+++.+...++-.+|.+++.+..+.. +-+...+..-...+.+.++++.|
T Consensus       175 Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k~~~~lA  253 (395)
T PF09295_consen  175 LLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSKKKYELA  253 (395)
T ss_pred             HHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHH
Confidence            33444444555555555555554444444445555555555555555555544331 22333333333344455555555


Q ss_pred             HHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHH
Q 048090          207 RQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFN  248 (447)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  248 (447)
                      .++.+++...   .+.+-.+|..|..+|...|+++.|+..++
T Consensus       254 L~iAk~av~l---sP~~f~~W~~La~~Yi~~~d~e~ALlaLN  292 (395)
T PF09295_consen  254 LEIAKKAVEL---SPSEFETWYQLAECYIQLGDFENALLALN  292 (395)
T ss_pred             HHHHHHHHHh---CchhHHHHHHHHHHHHhcCCHHHHHHHHh
Confidence            5555555544   12233455555555555555555555554

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>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=98.28  E-value=4.4e-06  Score=55.09  Aligned_cols=67  Identities=21%  Similarity=0.315  Sum_probs=61.2

Q ss_pred             ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcC-CccHHHHHHHHHhhhCC
Q 048090          332 GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCG-KFELGKLAAQKALELDP  400 (447)
Q Consensus       332 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~~~~  400 (447)
                      +...|..+...+...|++++|+..|++.++.+  |++..+|..++.++...| ++++|...++++++++|
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~--p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELD--PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS--TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            45678888899999999999999999999987  999999999999999999 79999999999999887

...

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.27  E-value=3.7e-05  Score=61.33  Aligned_cols=99  Identities=15%  Similarity=0.073  Sum_probs=82.9

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCC-chHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHH
Q 048090          333 PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSS-SVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSN  411 (447)
Q Consensus       333 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  411 (447)
                      ...+..+...+...|++++|...+++.++....++ ....+..++.++...|++++|...++++++..|.+...+..++.
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~  114 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALNNIAV  114 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHH
Confidence            45677788889999999999999999987653232 24578999999999999999999999999999999999999999


Q ss_pred             HHHhcCC--------------hHHHHHHHHHHHH
Q 048090          412 LYAKFCM--------------WDEIGQLRELMKE  431 (447)
Q Consensus       412 ~~~~~g~--------------~~~A~~~~~~m~~  431 (447)
                      +|...|+              +++|.+++++...
T Consensus       115 ~~~~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~  148 (172)
T PRK02603        115 IYHKRGEKAEEAGDQDEAEALFDKAAEYWKQAIR  148 (172)
T ss_pred             HHHHcCChHhHhhCHHHHHHHHHHHHHHHHHHHh
Confidence            9988877              4667777766654

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.26  E-value=6.9e-05  Score=70.18  Aligned_cols=134  Identities=13%  Similarity=0.027  Sum_probs=66.7

Q ss_pred             CCCHHHHHHHHHHHhc-----cCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHc--------CCHHHHHHHHHHH
Q 048090          294 KPDEVAFVTVISACSH-----TGQVKLGIEYFEWMVHDYKLEPG-PEHYSCLVDLLCRA--------GELDKAWKLINEM  359 (447)
Q Consensus       294 ~p~~~~~~~ll~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~--------g~~~~A~~~~~~~  359 (447)
                      +.+...|..++++...     .+....|..+|+++.+.   .|+ ...|..+..++...        ++...+.+..++.
T Consensus       334 ~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l---dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a  410 (517)
T PRK10153        334 PHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS---EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNI  410 (517)
T ss_pred             CCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHh
Confidence            3344555555554332     12244556666665532   444 33333333322211        1123333333333


Q ss_pred             HhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          360 LDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       360 ~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      ......|.+..+|..+.......|++++|...++++++++| +...|..++.++...|+.++|.+.+++...
T Consensus       411 ~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~p-s~~a~~~lG~~~~~~G~~~eA~~~~~~A~~  481 (517)
T PRK10153        411 VALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEM-SWLNYVLLGKVYELKGDNRLAADAYSTAFN  481 (517)
T ss_pred             hhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            33222244445555555555556666666666666666665 455666666666666666666666665554

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=98.25  E-value=4.7e-06  Score=54.16  Aligned_cols=58  Identities=26%  Similarity=0.275  Sum_probs=54.1

Q ss_pred             HHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          374 ALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       374 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      .++..+...|++++|...|+++++..|.++.++..++.++...|++++|...|+++.+
T Consensus         2 ~~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    2 ALARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             hHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4677899999999999999999999999999999999999999999999999999986

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.24  E-value=2.4e-05  Score=62.19  Aligned_cols=116  Identities=9%  Similarity=-0.093  Sum_probs=83.1

Q ss_pred             HHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCC-chHhHHHHHHHHHhcCCccHHHHHH
Q 048090          314 KLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSS-SVSMWGALLSACHDCGKFELGKLAA  392 (447)
Q Consensus       314 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~~l~~~~~~~g~~~~a~~~~  392 (447)
                      ..+...+..+.+..+..-....|..+...+...|++++|...+++.+.....|. ...++..++.++...|++++|...+
T Consensus        16 ~~~~~~l~~~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~   95 (168)
T CHL00033         16 TIVADILLRILPTTSGEKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYY   95 (168)
T ss_pred             ccchhhhhHhccCCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            334444444432212222355667777788888999999999999876642222 2346888999999999999999999


Q ss_pred             HHHhhhCCCchhHHHHHHHHHH-------hcCChHHHHHHHHHH
Q 048090          393 QKALELDPHNVGIYVMLSNLYA-------KFCMWDEIGQLRELM  429 (447)
Q Consensus       393 ~~~~~~~~~~~~~~~~l~~~~~-------~~g~~~~A~~~~~~m  429 (447)
                      +++++..|.....+..++..+.       ..|++++|...+++.
T Consensus        96 ~~Al~~~~~~~~~~~~la~i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033         96 FQALERNPFLPQALNNMAVICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHHhCcCcHHHHHHHHHHHHHhhHHHHHcccHHHHHHHHHHH
Confidence            9999988888888888888887       788888666655544

>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=98.24  E-value=3.6e-06  Score=55.32  Aligned_cols=63  Identities=21%  Similarity=0.332  Sum_probs=38.2

Q ss_pred             HcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHH
Q 048090          345 RAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVML  409 (447)
Q Consensus       345 ~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l  409 (447)
                      ..|++++|+++|+++....  |++..++..++.+|.+.|++++|..+++++....|+++..+..+
T Consensus         3 ~~~~~~~A~~~~~~~l~~~--p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~l~   65 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRN--PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQDPDNPEYQQLL   65 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHT--TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTTHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCHHHHHHHH
Confidence            4566666666666666555  66666666666666666666666666666666666655444433

...

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.23  E-value=2.7e-06  Score=47.33  Aligned_cols=33  Identities=24%  Similarity=0.584  Sum_probs=26.5

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC
Q 048090          264 LWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPD  296 (447)
Q Consensus       264 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~  296 (447)
                      +|+.++.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            677888888888888888888888888887776

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.

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.22  E-value=3e-05  Score=66.99  Aligned_cols=136  Identities=14%  Similarity=0.252  Sum_probs=93.0

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH-HhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 048090          263 VLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISA-CSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVD  341 (447)
Q Consensus       263 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  341 (447)
                      .+|..++....+.+..+.|..+|.+.++.+ ..+...|...... +...++.+.|..+|+...+.  +..+...|...++
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~--f~~~~~~~~~Y~~   78 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK--FPSDPDFWLEYLD   78 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH--HTT-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHH
Confidence            467778888888888888888888887543 2233344433333 23356677788888888775  3556777888888


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCch---HhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCch
Q 048090          342 LLCRAGELDKAWKLINEMLDRGHGSSSV---SMWGALLSACHDCGKFELGKLAAQKALELDPHNV  403 (447)
Q Consensus       342 ~~~~~g~~~~A~~~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  403 (447)
                      .+.+.|+.+.|..+|++.+..-  |.+.   .+|...+..-.+.|+.+.+..+.+++.+..|.+.
T Consensus        79 ~l~~~~d~~~aR~lfer~i~~l--~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~~~~  141 (280)
T PF05843_consen   79 FLIKLNDINNARALFERAISSL--PKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFPEDN  141 (280)
T ss_dssp             HHHHTT-HHHHHHHHHHHCCTS--SCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTTS-
T ss_pred             HHHHhCcHHHHHHHHHHHHHhc--CchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhhh
Confidence            8888888888888888887662  3333   4688888888888888888888888888777643

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.

>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=98.22  E-value=2.4e-05  Score=55.28  Aligned_cols=97  Identities=23%  Similarity=0.279  Sum_probs=62.2

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHH
Q 048090          300 FVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSAC  379 (447)
Q Consensus       300 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~  379 (447)
                      +..+...+...|++++|...++.+.+.  .+.+...+..+...+...|++++|.+.+++.....  |.+..++..++..+
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~~~~   78 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALEL--DPDNADAYYNLAAAYYKLGKYEEALEDYEKALELD--PDNAKAYYNLGLAY   78 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC--CcchhHHHHHHHHH
Confidence            334455556667777777777766543  12233555666666677777777777777776654  55555667777777


Q ss_pred             HhcCCccHHHHHHHHHhhhCC
Q 048090          380 HDCGKFELGKLAAQKALELDP  400 (447)
Q Consensus       380 ~~~g~~~~a~~~~~~~~~~~~  400 (447)
                      ...|+++.|...++++.+..|
T Consensus        79 ~~~~~~~~a~~~~~~~~~~~~   99 (100)
T cd00189          79 YKLGKYEEALEAYEKALELDP   99 (100)
T ss_pred             HHHHhHHHHHHHHHHHHccCC
Confidence            777777777777777766554

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.19  E-value=4.3e-06  Score=57.63  Aligned_cols=82  Identities=21%  Similarity=0.274  Sum_probs=45.8

Q ss_pred             cCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHH
Q 048090          310 TGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGK  389 (447)
Q Consensus       310 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  389 (447)
                      .|+++.|+.+++++.+.....++...+..+..+|.+.|++++|..++++ ...+  |.+......++.++.+.|++++|+
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~--~~~~~~~~l~a~~~~~l~~y~eAi   78 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLD--PSNPDIHYLLARCLLKLGKYEEAI   78 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHH--HCHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCC--CCCHHHHHHHHHHHHHhCCHHHHH
Confidence            3566666666666665421112333444466666677777777776666 2222  334444555566666777777776


Q ss_pred             HHHHH
Q 048090          390 LAAQK  394 (447)
Q Consensus       390 ~~~~~  394 (447)
                      .++++
T Consensus        79 ~~l~~   83 (84)
T PF12895_consen   79 KALEK   83 (84)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            66664

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.18  E-value=3.8e-06  Score=46.32  Aligned_cols=33  Identities=21%  Similarity=0.463  Sum_probs=22.7

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 048090          263 VLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKP  295 (447)
Q Consensus       263 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p  295 (447)
                      .+|+.++.+|++.|+++.|.++|++|.+.|+.|
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            466677777777777777777777777666665

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=98.16  E-value=0.0011  Score=51.19  Aligned_cols=132  Identities=11%  Similarity=0.069  Sum_probs=88.6

Q ss_pred             CCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhH
Q 048090          293 TKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMW  372 (447)
Q Consensus       293 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~  372 (447)
                      ..|+...-..|..+..+.|+..+|...|++.... -+.-|......+.++....+++.+|...++++.+.+-.-.++...
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG-~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~  163 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQALSG-IFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGH  163 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhcc-ccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCch
Confidence            4566666667777778888888888888877653 344567777777777778888888888888776654222233345


Q ss_pred             HHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHH
Q 048090          373 GALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLR  426 (447)
Q Consensus       373 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  426 (447)
                      ..+.+.+...|++..|+..|+.++..-|. +.........+.+.|+.++|..-+
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~a~~~ypg-~~ar~~Y~e~La~qgr~~ea~aq~  216 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEVAISYYPG-PQARIYYAEMLAKQGRLREANAQY  216 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHhCCC-HHHHHHHHHHHHHhcchhHHHHHH
Confidence            66777788888888888888877776553 333444445566777666665433

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.13  E-value=0.0096  Score=57.35  Aligned_cols=225  Identities=10%  Similarity=0.051  Sum_probs=143.5

Q ss_pred             HHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHH--hccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCCh
Q 048090           60 DFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTA--STSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLI  137 (447)
Q Consensus        60 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  137 (447)
                      .....+++..|+....++.+.  .|+. .|..++.+  ..+.|+.++|..+++.....+.. |..|...+-.+|...++.
T Consensus        18 d~ld~~qfkkal~~~~kllkk--~Pn~-~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~   93 (932)
T KOG2053|consen   18 DLLDSSQFKKALAKLGKLLKK--HPNA-LYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKL   93 (932)
T ss_pred             HHhhhHHHHHHHHHHHHHHHH--CCCc-HHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhh
Confidence            345567888999988888775  3443 34444554  46788889998888877766533 777888888899999999


Q ss_pred             hhHHHHhccCCC--CchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCC----c------HHH
Q 048090          138 HDAELMFDEIPV--KNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLS----A------AEF  205 (447)
Q Consensus       138 ~~a~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~------~~~  205 (447)
                      ++|..+|++...  |+......+..+|++.+++.+-.++--+|.+. ++-+...|-++++...+.-    .      ..-
T Consensus        94 d~~~~~Ye~~~~~~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~L  172 (932)
T KOG2053|consen   94 DEAVHLYERANQKYPSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLAL  172 (932)
T ss_pred             hHHHHHHHHHHhhCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHHH
Confidence            999999988874  44445555666777777776655544444432 2344555555555543321    1      124


Q ss_pred             HHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHH
Q 048090          206 GRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLY  285 (447)
Q Consensus       206 a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  285 (447)
                      |.+.++.+++.+ |-..+..-.......+...|++++|++++..  ...+.-.+.+...-+.-+..+...+++.+..++-
T Consensus       173 A~~m~~~~l~~~-gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~--~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~  249 (932)
T KOG2053|consen  173 AEKMVQKLLEKK-GKIESEAEIILYLLILELQGKYQEALEFLAI--TLAEKLTSANLYLENKKLDLLKLLNRWQELFELS  249 (932)
T ss_pred             HHHHHHHHhccC-CccchHHHHHHHHHHHHhcccHHHHHHHHHH--HHHHhccccchHHHHHHHHHHHHhcChHHHHHHH
Confidence            566666666663 3222222233344556678888999888851  2212223334444456677778888888888888


Q ss_pred             HHHHhCC
Q 048090          286 EAMLMNG  292 (447)
Q Consensus       286 ~~m~~~~  292 (447)
                      .++...|
T Consensus       250 ~~Ll~k~  256 (932)
T KOG2053|consen  250 SRLLEKG  256 (932)
T ss_pred             HHHHHhC
Confidence            8888875

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.13  E-value=7.3e-05  Score=56.66  Aligned_cols=97  Identities=6%  Similarity=-0.064  Sum_probs=84.3

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHH
Q 048090          298 VAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALL  376 (447)
Q Consensus       298 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~  376 (447)
                      .....+..-+...|++++|..+|+.+..-   .| +..-|-.|.-++-..|++++|+..|......+  |+++..+..++
T Consensus        36 ~~lY~~A~~ly~~G~l~~A~~~f~~L~~~---Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~--~ddp~~~~~ag  110 (157)
T PRK15363         36 NTLYRYAMQLMEVKEFAGAARLFQLLTIY---DAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK--IDAPQAPWAAA  110 (157)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC--CCCchHHHHHH
Confidence            34445556677899999999999998743   55 47777889999999999999999999999887  89999999999


Q ss_pred             HHHHhcCCccHHHHHHHHHhhhC
Q 048090          377 SACHDCGKFELGKLAAQKALELD  399 (447)
Q Consensus       377 ~~~~~~g~~~~a~~~~~~~~~~~  399 (447)
                      .++...|+.+.|++.|+.++...
T Consensus       111 ~c~L~lG~~~~A~~aF~~Ai~~~  133 (157)
T PRK15363        111 ECYLACDNVCYAIKALKAVVRIC  133 (157)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHh
Confidence            99999999999999999998865

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.11  E-value=0.00021  Score=62.05  Aligned_cols=159  Identities=14%  Similarity=0.131  Sum_probs=106.5

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH--HHhccCcHHHHHHHHHHHHHhcCCCCChhhHHH---------
Q 048090          270 GVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVIS--ACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSC---------  338 (447)
Q Consensus       270 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~---------  338 (447)
                      .++.-.|++++|...--..++..  + ...+..+++  ++-..++.+.+...|++.+   .+.|+...--.         
T Consensus       177 ~cl~~~~~~~~a~~ea~~ilkld--~-~n~~al~vrg~~~yy~~~~~ka~~hf~qal---~ldpdh~~sk~~~~~~k~le  250 (486)
T KOG0550|consen  177 ECLAFLGDYDEAQSEAIDILKLD--A-TNAEALYVRGLCLYYNDNADKAINHFQQAL---RLDPDHQKSKSASMMPKKLE  250 (486)
T ss_pred             hhhhhcccchhHHHHHHHHHhcc--c-chhHHHHhcccccccccchHHHHHHHhhhh---ccChhhhhHHhHhhhHHHHH
Confidence            35566788888877766666532  1 123334444  3345677888888888776   34555332211         


Q ss_pred             ----HHHHHHHcCCHHHHHHHHHHHHhCCCCCCchH----hHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHH
Q 048090          339 ----LVDLLCRAGELDKAWKLINEMLDRGHGSSSVS----MWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLS  410 (447)
Q Consensus       339 ----l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~----~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~  410 (447)
                          =..-..+.|++..|.+.|.+.+..+  |++..    .|.....+..+.|+.++|+.-.+++++++|.-...|..-+
T Consensus       251 ~~k~~gN~~fk~G~y~~A~E~Yteal~id--P~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~syikall~ra  328 (486)
T KOG0550|consen  251 VKKERGNDAFKNGNYRKAYECYTEALNID--PSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSSYIKALLRRA  328 (486)
T ss_pred             HHHhhhhhHhhccchhHHHHHHHHhhcCC--ccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHHHHHHHHHHH
Confidence                1122456788888888888887665  55443    3666666777888888888888888888887777788888


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCC
Q 048090          411 NLYAKFCMWDEIGQLRELMKEKGLKK  436 (447)
Q Consensus       411 ~~~~~~g~~~~A~~~~~~m~~~~~~p  436 (447)
                      +++.-.++|++|.+-+++..+..-.+
T Consensus       329 ~c~l~le~~e~AV~d~~~a~q~~~s~  354 (486)
T KOG0550|consen  329 NCHLALEKWEEAVEDYEKAMQLEKDC  354 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhcccc
Confidence            88888888888888888776643333

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=98.11  E-value=0.00031  Score=61.00  Aligned_cols=179  Identities=17%  Similarity=0.211  Sum_probs=102.6

Q ss_pred             HHhcCChHHHHHHHHhhhhhcccCCCcc--hhhHHHHHHHHHhcCCHHHHHHHHHHHHh----CCCCCC--HHHHHHHHH
Q 048090          234 YGKCGLVTKALQVFNLAGHRLEGEINKD--VVLWTSMLGVYGRNGYFKEVIKLYEAMLM----NGTKPD--EVAFVTVIS  305 (447)
Q Consensus       234 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~m~~----~~~~p~--~~~~~~ll~  305 (447)
                      |...|++++|.+.|.+..........+.  ...|.....+|.+. ++++|...+++..+    .| .|+  ...+..+..
T Consensus        45 fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G-~~~~aA~~~~~lA~  122 (282)
T PF14938_consen   45 FKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKG-DPDEAIECYEKAIEIYREAG-RFSQAAKCLKELAE  122 (282)
T ss_dssp             HHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT-THHHHHHHHHHHHHHHHHCT--HHHHHHHHHHHHH
T ss_pred             HHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhh-CHHHHHHHHHHHHHHHHhcC-cHHHHHHHHHHHHH
Confidence            4445555555555554433322111111  12233333444333 66666666666543    22 222  235566667


Q ss_pred             HHhcc-CcHHHHHHHHHHHHHhcCCCCC----hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCC----ch-HhHHHH
Q 048090          306 ACSHT-GQVKLGIEYFEWMVHDYKLEPG----PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSS----SV-SMWGAL  375 (447)
Q Consensus       306 ~~~~~-~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~----~~-~~~~~l  375 (447)
                      .|... |+++.|.+.|++...-+....+    ..++..+...+.+.|++++|.++|++........+    +. ..+...
T Consensus       123 ~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a  202 (282)
T PF14938_consen  123 IYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKA  202 (282)
T ss_dssp             HHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHH
Confidence            77777 8999999999887653221112    44566777888999999999999998876532211    11 124445


Q ss_pred             HHHHHhcCCccHHHHHHHHHhhhCCC-----chhHHHHHHHHHH
Q 048090          376 LSACHDCGKFELGKLAAQKALELDPH-----NVGIYVMLSNLYA  414 (447)
Q Consensus       376 ~~~~~~~g~~~~a~~~~~~~~~~~~~-----~~~~~~~l~~~~~  414 (447)
                      +-++...||+..|...+++....+|.     ...+...|+.++-
T Consensus       203 ~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~  246 (282)
T PF14938_consen  203 ILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYE  246 (282)
T ss_dssp             HHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHH
Confidence            56777889999999999999887763     3456677777664

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.09  E-value=8.7e-05  Score=66.69  Aligned_cols=126  Identities=11%  Similarity=0.095  Sum_probs=98.7

Q ss_pred             CCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcc
Q 048090          182 GLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKD  261 (447)
Q Consensus       182 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  261 (447)
                      +.+.+......+++.+....+.+.+..++.+..........-..+..+++..|.+.|..+.++.+++   .....|+-||
T Consensus        61 ~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~---n~~~yGiF~D  137 (429)
T PF10037_consen   61 KKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLK---NRLQYGIFPD  137 (429)
T ss_pred             CCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHh---ChhhcccCCC
Confidence            3355677777888888888888888888888777632232334566789999999999999999887   6777788899


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcc
Q 048090          262 VVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHT  310 (447)
Q Consensus       262 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  310 (447)
                      ..+++.+|..+.+.|++..|.++...|...+...+..|+...+.+|.+-
T Consensus       138 ~~s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  138 NFSFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             hhhHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            9999999999999999999999988888877777777777666666554

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 [].

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.07  E-value=0.00028  Score=60.98  Aligned_cols=134  Identities=13%  Similarity=0.128  Sum_probs=93.1

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHH-HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 048090          225 FMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGV-YGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTV  303 (447)
Q Consensus       225 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  303 (447)
                      .+|..++...-+.+..+.|..+|.++...    ...+...|...... |...++.+.|.++|+...+. ...+...+...
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~----~~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y   76 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKD----KRCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEY   76 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCC----CCS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcC----CCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHH
Confidence            46788888888888899999999866431    22334445444444 23356667799999988876 45567778888


Q ss_pred             HHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 048090          304 ISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRG  363 (447)
Q Consensus       304 l~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  363 (447)
                      +..+...++.+.|..+|++......-.. ....|...++.-.+.|+++.+..+.+++.+.-
T Consensus        77 ~~~l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~  137 (280)
T PF05843_consen   77 LDFLIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELF  137 (280)
T ss_dssp             HHHHHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHT
T ss_pred             HHHHHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            8888888999999999998875421112 23578888888888899999999888888763

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.06  E-value=0.004  Score=52.52  Aligned_cols=177  Identities=10%  Similarity=0.079  Sum_probs=107.4

Q ss_pred             HHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhh---HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 048090          229 SLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVL---WTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVIS  305 (447)
Q Consensus       229 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  305 (447)
                      .....+...|++++|.+.|+.+...    .|-+...   .-.++.++.+.+++++|...+++..+..+.-....+...+.
T Consensus        37 ~~A~~~~~~g~y~~Ai~~f~~l~~~----yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~  112 (243)
T PRK10866         37 ATAQQKLQDGNWKQAITQLEALDNR----YPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMR  112 (243)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHh----CCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHH
Confidence            3445556678888888888766553    2222222   23456677788888888888888877533322333333333


Q ss_pred             HHhc--c---------------Cc---HHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCC
Q 048090          306 ACSH--T---------------GQ---VKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHG  365 (447)
Q Consensus       306 ~~~~--~---------------~~---~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  365 (447)
                      +.+.  .               .+   ...|...|+.+++.   -|+.             .-..+|...+..+...=  
T Consensus       113 g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~---yP~S-------------~ya~~A~~rl~~l~~~l--  174 (243)
T PRK10866        113 GLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG---YPNS-------------QYTTDATKRLVFLKDRL--  174 (243)
T ss_pred             HHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH---CcCC-------------hhHHHHHHHHHHHHHHH--
Confidence            3321  1               11   23455556666544   2332             22344444333332220  


Q ss_pred             CCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCC---chhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 048090          366 SSSVSMWGALLSACHDCGKFELGKLAAQKALELDPH---NVGIYVMLSNLYAKFCMWDEIGQLRELMK  430 (447)
Q Consensus       366 p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  430 (447)
                         ..--..++..|.+.|.+..|..-++.+++.-|.   ...+...++.+|...|..++|.++...+.
T Consensus       175 ---a~~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        175 ---AKYELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             ---HHHHHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence               001235677788999999999999999987765   55678888999999999999988776554

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.05  E-value=0.0004  Score=65.19  Aligned_cols=143  Identities=20%  Similarity=0.099  Sum_probs=103.4

Q ss_pred             CCCcchhhHHHHHHHHHhc-----CCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHhcc--------CcHHHHHHHHHH
Q 048090          257 EINKDVVLWTSMLGVYGRN-----GYFKEVIKLYEAMLMNGTKPD-EVAFVTVISACSHT--------GQVKLGIEYFEW  322 (447)
Q Consensus       257 ~~~~~~~~~~~l~~~~~~~-----g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~--------~~~~~a~~~~~~  322 (447)
                      ..+.+...|...+.+....     +....|..+|++..+.  .|+ ...+..+..++...        .+...+.+..++
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~  409 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDN  409 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHH
Confidence            3677888999888875543     2367899999999985  555 34444443333221        123344444444


Q ss_pred             HHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCc
Q 048090          323 MVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHN  402 (447)
Q Consensus       323 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  402 (447)
                      .........+...|..+.-.....|++++|...+++++..+  | +..+|..++..+...|+.++|...++++..++|.+
T Consensus       410 a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--p-s~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~  486 (517)
T PRK10153        410 IVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--M-SWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGE  486 (517)
T ss_pred             hhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--C-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC
Confidence            33221123356778887777778899999999999999998  7 56779999999999999999999999999999987


Q ss_pred             hh
Q 048090          403 VG  404 (447)
Q Consensus       403 ~~  404 (447)
                      +.
T Consensus       487 pt  488 (517)
T PRK10153        487 NT  488 (517)
T ss_pred             ch
Confidence            74

>PRK15331 chaperone protein SicA; Provisional

Probab=98.04  E-value=6.9e-05  Score=57.06  Aligned_cols=85  Identities=11%  Similarity=-0.029  Sum_probs=39.5

Q ss_pred             ccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHH
Q 048090          309 HTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELG  388 (447)
Q Consensus       309 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  388 (447)
                      ..|++++|..+|+-+..- + .-+..-|..|..++-..+++++|...|......+  ++|+..+...+.++...|+.+.|
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  124 (165)
T PRK15331         49 NQGRLDEAETFFRFLCIY-D-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL--KNDYRPVFFTGQCQLLMRKAAKA  124 (165)
T ss_pred             HCCCHHHHHHHHHHHHHh-C-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc--cCCCCccchHHHHHHHhCCHHHH
Confidence            445555555555544321 0 1123334444444445555555555554444333  33344444455555555555555


Q ss_pred             HHHHHHHhh
Q 048090          389 KLAAQKALE  397 (447)
Q Consensus       389 ~~~~~~~~~  397 (447)
                      +..|+.+++
T Consensus       125 ~~~f~~a~~  133 (165)
T PRK15331        125 RQCFELVNE  133 (165)
T ss_pred             HHHHHHHHh
Confidence            555554444

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.04  E-value=0.0002  Score=56.89  Aligned_cols=104  Identities=14%  Similarity=0.090  Sum_probs=65.9

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHH
Q 048090          297 EVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGAL  375 (447)
Q Consensus       297 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l  375 (447)
                      ...+..+...+...|++++|...|++......-.+ ...++..+..++...|++++|+..+++.....  |....++..+
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~--~~~~~~~~~l  112 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN--PFLPQALNNM  112 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cCcHHHHHHH
Confidence            34455556666667777777777777764311111 13466777777778888888888887777654  6566666666


Q ss_pred             HHHHH-------hcCCcc-------HHHHHHHHHhhhCCCc
Q 048090          376 LSACH-------DCGKFE-------LGKLAAQKALELDPHN  402 (447)
Q Consensus       376 ~~~~~-------~~g~~~-------~a~~~~~~~~~~~~~~  402 (447)
                      +..+.       ..|+++       +|..++++++...|++
T Consensus       113 a~i~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~a~~~~p~~  153 (168)
T CHL00033        113 AVICHYRGEQAIEQGDSEIAEAWFDQAAEYWKQAIALAPGN  153 (168)
T ss_pred             HHHHHHhhHHHHHcccHHHHHHHHHHHHHHHHHHHHhCccc
Confidence            66666       666665       4455555566666654

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.03  E-value=0.006  Score=51.43  Aligned_cols=196  Identities=10%  Similarity=-0.032  Sum_probs=99.0

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcH-hh---HHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhH
Q 048090          151 NSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDH-FT---LSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFM  226 (447)
Q Consensus       151 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~---~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  226 (447)
                      +...+-.....+...|++++|.+.|+++...-  |+. ..   ...+..++.+.++++.|...+++.++..|+.+--..+
T Consensus        31 ~~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~y--P~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a  108 (243)
T PRK10866         31 PPSEIYATAQQKLQDGNWKQAITQLEALDNRY--PFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYV  108 (243)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHH
Confidence            33334345555677899999999999988753  332 22   2345677888999999999999999886554333333


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcc-------hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHH
Q 048090          227 QSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKD-------VVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVA  299 (447)
Q Consensus       227 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-------~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~  299 (447)
                      +-.++.++...+.     ..|.......  ....|       ...+..++.-|-.+.-..+|...+..+...   .-.. 
T Consensus       109 ~Y~~g~~~~~~~~-----~~~~~~~~~~--~~~rD~~~~~~A~~~~~~li~~yP~S~ya~~A~~rl~~l~~~---la~~-  177 (243)
T PRK10866        109 LYMRGLTNMALDD-----SALQGFFGVD--RSDRDPQHARAAFRDFSKLVRGYPNSQYTTDATKRLVFLKDR---LAKY-  177 (243)
T ss_pred             HHHHHHhhhhcch-----hhhhhccCCC--ccccCHHHHHHHHHHHHHHHHHCcCChhHHHHHHHHHHHHHH---HHHH-
Confidence            3333322211110     0111000000  00000       012233333333333344444433333221   0001 


Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHH
Q 048090          300 FVTVISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEM  359 (447)
Q Consensus       300 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~  359 (447)
                      -..+.+-|.+.|.+..|..-++.+.+.+.-.| .......++.+|...|..++|..+...+
T Consensus       178 e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l  238 (243)
T PRK10866        178 ELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKII  238 (243)
T ss_pred             HHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            11344456666667667766666665533222 2444455566666667666666655443

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=98.02  E-value=4.1e-05  Score=51.08  Aligned_cols=64  Identities=16%  Similarity=0.330  Sum_probs=46.4

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHH
Q 048090          341 DLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIY  406 (447)
Q Consensus       341 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  406 (447)
                      ..|.+.+++++|.+++++++..+  |+++..+...+.++...|++++|...++++++..|.++...
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~~~~   66 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELD--PDDPELWLQRARCLFQLGRYEEALEDLERALELSPDDPDAR   66 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC--cccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcHHHH
Confidence            45667777777777777777766  77777777777777777777777777777777777665543

>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=98.01  E-value=4.9e-06  Score=54.68  Aligned_cols=53  Identities=25%  Similarity=0.337  Sum_probs=49.1

Q ss_pred             HhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 048090          380 HDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       380 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  432 (447)
                      ...|++++|...++++++..|.+..++..++.+|.+.|++++|.++++++...
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             hhccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            56899999999999999999999999999999999999999999999998863

...

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.00  E-value=9.3e-06  Score=43.59  Aligned_cols=31  Identities=35%  Similarity=0.623  Sum_probs=24.6

Q ss_pred             ccHHHHHHHHHhCCChhhHHHHHHHHHhcCC
Q 048090           52 LPFNVVISDFCRNGSPLYALKTFSFMHVHGI   82 (447)
Q Consensus        52 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~   82 (447)
                      ++||.++++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            3688888888888888888888888877663

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.

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.99  E-value=8e-05  Score=52.27  Aligned_cols=79  Identities=9%  Similarity=-0.059  Sum_probs=67.2

Q ss_pred             HHHHHHHHhCCChhhHHHHHHHHHhcCC-CCchhhHHHHHHHhccCC--------chhHHHHHHHHHHHcCCCCchhhHH
Q 048090           55 NVVISDFCRNGSPLYALKTFSFMHVHGI-FLDTYALCSSLTASTSVK--------DARFGKQVQAHVTKSGWLSSVFVGS  125 (447)
Q Consensus        55 ~~l~~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~~~~~ll~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~~  125 (447)
                      ..-|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        .+-..+.+|+.|+..+++|+..+|+
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYn  108 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYN  108 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHH
Confidence            4456667777999999999999999999 899999999999876643        3456788999999999999999999


Q ss_pred             HHHHHHHc
Q 048090          126 ALIDLYAK  133 (447)
Q Consensus       126 ~l~~~~~~  133 (447)
                      .++..+.+
T Consensus       109 ivl~~Llk  116 (120)
T PF08579_consen  109 IVLGSLLK  116 (120)
T ss_pred             HHHHHHHH
Confidence            99987654

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 [, , ].

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.98  E-value=0.00025  Score=51.87  Aligned_cols=87  Identities=18%  Similarity=0.104  Sum_probs=45.3

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCc-hHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCC---chhHHHHHHHHHHhc
Q 048090          341 DLLCRAGELDKAWKLINEMLDRGHGSSS-VSMWGALLSACHDCGKFELGKLAAQKALELDPH---NVGIYVMLSNLYAKF  416 (447)
Q Consensus       341 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~~~~l~~~~~~~  416 (447)
                      .++-..|+.++|..+|++....|...+. ...+..+..++...|++++|..++++.....|+   +......+..++...
T Consensus         9 ~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~~~   88 (120)
T PF12688_consen    9 WAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALYNL   88 (120)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHHC
Confidence            3444555666666666665555532211 223444555555566666666666655555454   444444444455555


Q ss_pred             CChHHHHHHHH
Q 048090          417 CMWDEIGQLRE  427 (447)
Q Consensus       417 g~~~~A~~~~~  427 (447)
                      |+.++|++.+-
T Consensus        89 gr~~eAl~~~l   99 (120)
T PF12688_consen   89 GRPKEALEWLL   99 (120)
T ss_pred             CCHHHHHHHHH
Confidence            66666555443

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.97  E-value=0.0078  Score=52.73  Aligned_cols=172  Identities=10%  Similarity=-0.038  Sum_probs=93.1

Q ss_pred             HhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhh------------
Q 048090          197 CAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVL------------  264 (447)
Q Consensus       197 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~------------  264 (447)
                      +.-.++.+.|.++--.+++..   ..+......-..++.-.++.+.|...|++...+     .|+...            
T Consensus       179 l~~~~~~~~a~~ea~~ilkld---~~n~~al~vrg~~~yy~~~~~ka~~hf~qal~l-----dpdh~~sk~~~~~~k~le  250 (486)
T KOG0550|consen  179 LAFLGDYDEAQSEAIDILKLD---ATNAEALYVRGLCLYYNDNADKAINHFQQALRL-----DPDHQKSKSASMMPKKLE  250 (486)
T ss_pred             hhhcccchhHHHHHHHHHhcc---cchhHHHHhcccccccccchHHHHHHHhhhhcc-----ChhhhhHHhHhhhHHHHH
Confidence            345566666666666666541   112222222222334456667777777654332     222221            


Q ss_pred             -HHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC-hhhHHHH
Q 048090          265 -WTSMLGVYGRNGYFKEVIKLYEAMLMN---GTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG-PEHYSCL  339 (447)
Q Consensus       265 -~~~l~~~~~~~g~~~~a~~~~~~m~~~---~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l  339 (447)
                       +..=.+-..+.|++..|.+.|.+.+..   ++.|+...|.....+..+.|+.++|+.--+...   .+.|. ...|..-
T Consensus       251 ~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al---~iD~syikall~r  327 (486)
T KOG0550|consen  251 VKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEAL---KIDSSYIKALLRR  327 (486)
T ss_pred             HHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhh---hcCHHHHHHHHHH
Confidence             111122345677788888888777653   234455666666667777788888877777665   23333 3334444


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHH
Q 048090          340 VDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSAC  379 (447)
Q Consensus       340 ~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~  379 (447)
                      ..++.-.++|++|.+-++...+..-.+....++.-...++
T Consensus       328 a~c~l~le~~e~AV~d~~~a~q~~~s~e~r~~l~~A~~aL  367 (486)
T KOG0550|consen  328 ANCHLALEKWEEAVEDYEKAMQLEKDCEIRRTLREAQLAL  367 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHH
Confidence            4555666777777777777766543333333333333333

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.96  E-value=0.00015  Score=65.18  Aligned_cols=136  Identities=11%  Similarity=0.016  Sum_probs=92.8

Q ss_pred             HHHHHHHh-hhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHH
Q 048090          209 VHAYMIRK-CCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEA  287 (447)
Q Consensus       209 ~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  287 (447)
                      ++..|.+. ..+.+.+......+++......+.+.+..++-+........ ..-..|..++++.|.+.|..+.++.+++.
T Consensus        50 ~~~~l~~k~~~~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~-~~~~~t~ha~vR~~l~~~~~~~~l~~L~n  128 (429)
T PF10037_consen   50 LYSELDKKFERKKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCS-YLLPSTHHALVRQCLELGAEDELLELLKN  128 (429)
T ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccc-cccCccHHHHHHHHHhcCCHHHHHHHHhC
Confidence            45555443 22344555667777777777777888888887654432222 11233445888888888888888888888


Q ss_pred             HHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHc
Q 048090          288 MLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRA  346 (447)
Q Consensus       288 m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  346 (447)
                      =...|+-||..+++.|++.+.+.|++..|.++...|..+ +...+..|+..-+.+|.+.
T Consensus       129 ~~~yGiF~D~~s~n~Lmd~fl~~~~~~~A~~V~~~~~lQ-e~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  129 RLQYGIFPDNFSFNLLMDHFLKKGNYKSAAKVATEMMLQ-EEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             hhhcccCCChhhHHHHHHHHhhcccHHHHHHHHHHHHHh-hccCCchHHHHHHHHHHHh
Confidence            888888888888888888888888888888888877665 4455556655555545444

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 [].

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.94  E-value=0.00022  Score=60.51  Aligned_cols=101  Identities=16%  Similarity=0.134  Sum_probs=54.7

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC----hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCCchHhHHH
Q 048090          300 FVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG----PEHYSCLVDLLCRAGELDKAWKLINEMLDRG-HGSSSVSMWGA  374 (447)
Q Consensus       300 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~p~~~~~~~~  374 (447)
                      |...+....+.|++++|...|+.+.+.   .|+    ...+..+..+|...|++++|...|+.+.+.. ..|....++..
T Consensus       146 Y~~A~~l~~~~~~y~~Ai~af~~fl~~---yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~k  222 (263)
T PRK10803        146 YNAAIALVQDKSRQDDAIVAFQNFVKK---YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFK  222 (263)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHH---CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHH
Confidence            444443334456666666666666654   232    2345555566666666666666666665443 01122333444


Q ss_pred             HHHHHHhcCCccHHHHHHHHHhhhCCCch
Q 048090          375 LLSACHDCGKFELGKLAAQKALELDPHNV  403 (447)
Q Consensus       375 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  403 (447)
                      ++.++...|+.+.|..+++++++..|.+.
T Consensus       223 lg~~~~~~g~~~~A~~~~~~vi~~yP~s~  251 (263)
T PRK10803        223 VGVIMQDKGDTAKAKAVYQQVIKKYPGTD  251 (263)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCcCCH
Confidence            55555566666666666666666666544

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.93  E-value=0.0003  Score=49.46  Aligned_cols=79  Identities=16%  Similarity=0.301  Sum_probs=61.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHhccC--------cHHHHHHHHHHHHHhcCCCCChhhH
Q 048090          266 TSMLGVYGRNGYFKEVIKLYEAMLMNGT-KPDEVAFVTVISACSHTG--------QVKLGIEYFEWMVHDYKLEPGPEHY  336 (447)
Q Consensus       266 ~~l~~~~~~~g~~~~a~~~~~~m~~~~~-~p~~~~~~~ll~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~~  336 (447)
                      ...|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        +.-..+.+|+.|... +++|+..+|
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~-~lKP~~etY  107 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSN-KLKPNDETY  107 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHh-ccCCcHHHH
Confidence            4455566666899999999999999998 889999999988876532        345567788888876 788888888


Q ss_pred             HHHHHHHHH
Q 048090          337 SCLVDLLCR  345 (447)
Q Consensus       337 ~~l~~~~~~  345 (447)
                      +.++..+.+
T Consensus       108 nivl~~Llk  116 (120)
T PF08579_consen  108 NIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHH
Confidence            888877654

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 [, , ].

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=97.93  E-value=0.00019  Score=62.50  Aligned_cols=96  Identities=22%  Similarity=0.188  Sum_probs=85.9

Q ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHH
Q 048090          334 EHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLY  413 (447)
Q Consensus       334 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  413 (447)
                      .+++.|.-++.+.+++.+|++...+.+..+  |++..+...-+.++...|+++.|+..|+++++..|.|..+-..++.+-
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~--~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l~  335 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELD--PNNVKALYRRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKLK  335 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcC--CCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHH
Confidence            457778889999999999999999999987  999999999999999999999999999999999999999999999887


Q ss_pred             HhcCChHHH-HHHHHHHHH
Q 048090          414 AKFCMWDEI-GQLRELMKE  431 (447)
Q Consensus       414 ~~~g~~~~A-~~~~~~m~~  431 (447)
                      .+...+.+. .++|..|..
T Consensus       336 ~k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  336 QKIREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHHHHHHHHHHHhh
Confidence            776666554 788998875

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.93  E-value=0.0036  Score=54.41  Aligned_cols=134  Identities=18%  Similarity=0.222  Sum_probs=76.0

Q ss_pred             HHHHHHHHHhc-CCHHHHHHHHHHHHhC----CCCCC--HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCC-----CC
Q 048090          265 WTSMLGVYGRN-GYFKEVIKLYEAMLMN----GTKPD--EVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLE-----PG  332 (447)
Q Consensus       265 ~~~l~~~~~~~-g~~~~a~~~~~~m~~~----~~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~  332 (447)
                      +..+...|... |++++|.+.|++..+.    | .+.  ...+..+...+.+.|++++|.++|+++... ...     .+
T Consensus       117 ~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~-~l~~~l~~~~  194 (282)
T PF14938_consen  117 LKELAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKK-CLENNLLKYS  194 (282)
T ss_dssp             HHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHT-CCCHCTTGHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH-hhcccccchh
Confidence            33445566666 7888888888887543    2 221  345667777888899999999999988764 221     12


Q ss_pred             h-hhHHHHHHHHHHcCCHHHHHHHHHHHHhCC--CCCC-chHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCC
Q 048090          333 P-EHYSCLVDLLCRAGELDKAWKLINEMLDRG--HGSS-SVSMWGALLSACHDCGKFELGKLAAQKALELDPH  401 (447)
Q Consensus       333 ~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~p~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  401 (447)
                      . ..+...+-++...|+...|...+++.....  +..+ .......|+.++ ..||.+.......+.-+..+-
T Consensus       195 ~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~-~~~D~e~f~~av~~~d~~~~l  266 (282)
T PF14938_consen  195 AKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAY-EEGDVEAFTEAVAEYDSISRL  266 (282)
T ss_dssp             HHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHH-HTT-CCCHHHHCHHHTTSS--
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHH-HhCCHHHHHHHHHHHcccCcc
Confidence            2 223344556777899999999999987654  2111 222344555555 445555544444444444433

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.93  E-value=0.012  Score=51.32  Aligned_cols=296  Identities=17%  Similarity=0.080  Sum_probs=189.9

Q ss_pred             HHHHHHHHH--ccCChhhHHHHhccCC---CCchhhHHHHHHH--HHhcCCHHHHHHHHHhhhhcCCCCcHhh--HHHHH
Q 048090          124 GSALIDLYA--KLLLIHDAELMFDEIP---VKNSVCANALLSG--YCEAKLWAGGLELVRLMPALGLDYDHFT--LSALL  194 (447)
Q Consensus       124 ~~~l~~~~~--~~g~~~~a~~~~~~~~---~~~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~  194 (447)
                      |..|-.++.  -.|+-..|.++-.+-.   ..|....-.++.+  -.-.|+++.|.+-|+.|..   .|....  ...|.
T Consensus        85 yqALStGliAagAGda~lARkmt~~~~~llssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~---dPEtRllGLRgLy  161 (531)
T COG3898          85 YQALSTGLIAAGAGDASLARKMTARASKLLSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLD---DPETRLLGLRGLY  161 (531)
T ss_pred             HHHHhhhhhhhccCchHHHHHHHHHHHhhhhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhc---ChHHHHHhHHHHH
Confidence            334444433  3567777766654432   3454444444443  3456999999999999986   243322  22233


Q ss_pred             HHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhh--HHHHHHHH
Q 048090          195 RACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVL--WTSMLGVY  272 (447)
Q Consensus       195 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~--~~~l~~~~  272 (447)
                      -..-+.|+.+.|..+-+..-..   -+.-...+.+.+...+..|+|+.|+++.+.-...  .-+.+++.-  -..|+.+-
T Consensus       162 leAqr~GareaAr~yAe~Aa~~---Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~--~vie~~~aeR~rAvLLtAk  236 (531)
T COG3898         162 LEAQRLGAREAARHYAERAAEK---APQLPWAARATLEARCAAGDWDGALKLVDAQRAA--KVIEKDVAERSRAVLLTAK  236 (531)
T ss_pred             HHHHhcccHHHHHHHHHHHHhh---ccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHH--HhhchhhHHHHHHHHHHHH
Confidence            3345778888888888777665   2334567888999999999999999999854332  123344322  22232221


Q ss_pred             H---hcCCHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCC
Q 048090          273 G---RNGYFKEVIKLYEAMLMNGTKPDEV-AFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGE  348 (447)
Q Consensus       273 ~---~~g~~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  348 (447)
                      .   -.-+...|...-.+..+  +.||.. .-.....++.+.|+..++-.+++.+-+.   .|.+..+...+  +.+.|+
T Consensus       237 A~s~ldadp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~---ePHP~ia~lY~--~ar~gd  309 (531)
T COG3898         237 AMSLLDADPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAWKA---EPHPDIALLYV--RARSGD  309 (531)
T ss_pred             HHHHhcCChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHHhc---CCChHHHHHHH--HhcCCC
Confidence            1   12345556665555544  455533 2334456889999999999999999854   67776665544  456665


Q ss_pred             HHHHHHHHHHHHh-CCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHH-hcCChHHHHHHH
Q 048090          349 LDKAWKLINEMLD-RGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYA-KFCMWDEIGQLR  426 (447)
Q Consensus       349 ~~~A~~~~~~~~~-~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~-~~g~~~~A~~~~  426 (447)
                      ..  +.-+++..+ ...+|++..+...+..+-...|++..|..--+.+....| ...+|-.|.+.-. ..|+-.++...+
T Consensus       310 ta--~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~~p-res~~lLlAdIeeAetGDqg~vR~wl  386 (531)
T COG3898         310 TA--LDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAREAP-RESAYLLLADIEEAETGDQGKVRQWL  386 (531)
T ss_pred             cH--HHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhhhCc-hhhHHHHHHHHHhhccCchHHHHHHH
Confidence            43  333333221 123488888888999999999999999988888887776 4556777776654 459999999999


Q ss_pred             HHHHHcCCCCC
Q 048090          427 ELMKEKGLKKD  437 (447)
Q Consensus       427 ~~m~~~~~~p~  437 (447)
                      -+..+..-+|+
T Consensus       387 Aqav~APrdPa  397 (531)
T COG3898         387 AQAVKAPRDPA  397 (531)
T ss_pred             HHHhcCCCCCc
Confidence            98888766665

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.86  E-value=2.3e-05  Score=42.00  Aligned_cols=29  Identities=24%  Similarity=0.597  Sum_probs=20.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 048090          264 LWTSMLGVYGRNGYFKEVIKLYEAMLMNG  292 (447)
Q Consensus       264 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  292 (447)
                      +|+.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            56777777777777777777777776655

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.

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.83  E-value=7.2e-05  Score=49.86  Aligned_cols=58  Identities=17%  Similarity=0.165  Sum_probs=54.3

Q ss_pred             HHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 048090          376 LSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKG  433 (447)
Q Consensus       376 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  433 (447)
                      ...|.+.+++++|..++++++..+|.++..+...+.++.+.|++++|.+.+++..+.+
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~   59 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELS   59 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHC
Confidence            4578899999999999999999999999999999999999999999999999999743

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.83  E-value=0.01  Score=48.75  Aligned_cols=51  Identities=16%  Similarity=0.128  Sum_probs=39.1

Q ss_pred             HHHHHHHHhcCCccHHHHHHHHHhhhCCCch---hHHHHHHHHHHhcCChHHHH
Q 048090          373 GALLSACHDCGKFELGKLAAQKALELDPHNV---GIYVMLSNLYAKFCMWDEIG  423 (447)
Q Consensus       373 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~  423 (447)
                      ..++..|.+.|.+..|..-++.+++.-|++.   .+...++.+|.+.|..+.|.
T Consensus       145 ~~ia~~Y~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  145 LYIARFYYKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             HHHHHHHHCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            3467788899999999999999999888744   46778888899999887543

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.83  E-value=0.00027  Score=61.38  Aligned_cols=135  Identities=11%  Similarity=0.050  Sum_probs=99.2

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHH---HHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHH----HhCCCCCCch
Q 048090          298 VAFVTVISACSHTGQVKLGIEYFEWM---VHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEM----LDRGHGSSSV  369 (447)
Q Consensus       298 ~~~~~ll~~~~~~~~~~~a~~~~~~~---~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~~p~~~  369 (447)
                      ..|..|...|.-.|+++.|+...+.=   .+.+|-.. ....+..|..++.-.|+++.|.+.|+..    ++.|-+....
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            34666666677788999998766542   23334333 2566788889999999999999998874    3444334455


Q ss_pred             HhHHHHHHHHHhcCCccHHHHHHHHHhhhC------CCchhHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 048090          370 SMWGALLSACHDCGKFELGKLAAQKALELD------PHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       370 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  432 (447)
                      .+..+|...|.-..++++|+.++++=+.+-      ......+.+|+.+|...|..++|+.+.+.-...
T Consensus       276 QscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~~  344 (639)
T KOG1130|consen  276 QSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLRS  344 (639)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            567889999999999999999888655432      235678999999999999999999887766543

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.77  E-value=0.0016  Score=54.82  Aligned_cols=107  Identities=18%  Similarity=0.135  Sum_probs=87.2

Q ss_pred             CCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcC---CHHHHHHHHHHHHhCCCCCCchH
Q 048090          294 KPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAG---ELDKAWKLINEMLDRGHGSSSVS  370 (447)
Q Consensus       294 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~~~p~~~~  370 (447)
                      +-|...|..|..+|...|++..|..-|.+..+-  ..++...+..+..++....   ...++..+|++++..+  |.++.
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL--~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D--~~~ir  228 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRL--AGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD--PANIR  228 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC--CccHH
Confidence            337888999999999999999999999988754  2345666666766655432   4678899999999887  89999


Q ss_pred             hHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchh
Q 048090          371 MWGALLSACHDCGKFELGKLAAQKALELDPHNVG  404 (447)
Q Consensus       371 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  404 (447)
                      +...|...+...|++.+|...|+.+++..|++..
T Consensus       229 al~lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~~  262 (287)
T COG4235         229 ALSLLAFAAFEQGDYAEAAAAWQMLLDLLPADDP  262 (287)
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHhcCCCCCc
Confidence            9999999999999999999999999998877543

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.77  E-value=0.0063  Score=47.19  Aligned_cols=136  Identities=10%  Similarity=0.034  Sum_probs=89.2

Q ss_pred             CCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHH
Q 048090          258 INKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYS  337 (447)
Q Consensus       258 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  337 (447)
                      ..|++..--.+..++.+.|+..+|...|++...--..-|......+.++....+++..|...++++.+...-.-++.+..
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~L  164 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHL  164 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchH
Confidence            45666666677777778888888888887776544445666777777777777888888888877765421111344556


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHh
Q 048090          338 CLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKAL  396 (447)
Q Consensus       338 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  396 (447)
                      .+.+.|...|+...|+.-|+.....-  | +...-......+.+.|+.+++..-+..+.
T Consensus       165 l~aR~laa~g~~a~Aesafe~a~~~y--p-g~~ar~~Y~e~La~qgr~~ea~aq~~~v~  220 (251)
T COG4700         165 LFARTLAAQGKYADAESAFEVAISYY--P-GPQARIYYAEMLAKQGRLREANAQYVAVV  220 (251)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHHhC--C-CHHHHHHHHHHHHHhcchhHHHHHHHHHH
Confidence            66777777888888888887777664  3 33334445555667776666655444443

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.74  E-value=0.04  Score=51.83  Aligned_cols=131  Identities=11%  Similarity=-0.003  Sum_probs=77.7

Q ss_pred             cchHHHhhccCCCCCCccHHHHHHHHHhCCChhhHHHHHHHHHhc-CCCCchhhHHHH-------HHHhccCCchhHHHH
Q 048090           36 LGTLTNCLKFLNPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVH-GIFLDTYALCSS-------LTASTSVKDARFGKQ  107 (447)
Q Consensus        36 ~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-~~~p~~~~~~~l-------l~~~~~~~~~~~a~~  107 (447)
                      +++|..+.+.  .|.+..|..|.......-.++-|...|-+.... |++.-.. ...+       ...-.-.|++++|++
T Consensus       679 ledA~qfiEd--nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkr-l~~i~s~~~q~aei~~~~g~feeaek  755 (1189)
T KOG2041|consen  679 LEDAIQFIED--NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKR-LRTIHSKEQQRAEISAFYGEFEEAEK  755 (1189)
T ss_pred             hHHHHHHHhc--CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHH-hhhhhhHHHHhHhHhhhhcchhHhhh
Confidence            4445544443  467778888887766666666666666554321 2211000 0000       011123478899998


Q ss_pred             HHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCCCC-----chhhHHHHHHHHHhcCCHHHHHHHHHhh
Q 048090          108 VQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVK-----NSVCANALLSGYCEAKLWAGGLELVRLM  178 (447)
Q Consensus       108 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~  178 (447)
                      +|-+|-+++         ..+..+.+.|++-...++++.-...     -...|+.+...+.....|++|.+.|..-
T Consensus       756 ~yld~drrD---------LAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~  822 (1189)
T KOG2041|consen  756 LYLDADRRD---------LAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYC  822 (1189)
T ss_pred             hhhccchhh---------hhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            888776653         3456677778888877777664322     2345777777777777777777777654

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.73  E-value=0.00085  Score=56.97  Aligned_cols=94  Identities=10%  Similarity=0.001  Sum_probs=55.5

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCc---hHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCC---chhHHHHH
Q 048090          336 YSCLVDLLCRAGELDKAWKLINEMLDRGHGSSS---VSMWGALLSACHDCGKFELGKLAAQKALELDPH---NVGIYVML  409 (447)
Q Consensus       336 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~~~~l  409 (447)
                      |..-+..+.+.|++++|...|+.+++..  |++   ..++.-++.+|...|++++|...|+++++..|.   .+.++..+
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            3333333345566666666666666654  544   234566666666666666666666666665544   34445555


Q ss_pred             HHHHHhcCChHHHHHHHHHHHH
Q 048090          410 SNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       410 ~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      +..+...|++++|..+++++.+
T Consensus       224 g~~~~~~g~~~~A~~~~~~vi~  245 (263)
T PRK10803        224 GVIMQDKGDTAKAKAVYQQVIK  245 (263)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHH
Confidence            5566666666666666666655

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.70  E-value=0.05  Score=51.61  Aligned_cols=331  Identities=11%  Similarity=0.034  Sum_probs=180.7

Q ss_pred             HHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCch--hHHHHHHHHHHHcCCCCchhhHHHHHHHHH
Q 048090           55 NVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDA--RFGKQVQAHVTKSGWLSSVFVGSALIDLYA  132 (447)
Q Consensus        55 ~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  132 (447)
                      ..+++-+...+.+..|+++-..+...-..- ...|.....-..+..+.  +.+.+.+.+=++... .+...|..+.....
T Consensus       441 ~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~-~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~~-~~~iSy~~iA~~Ay  518 (829)
T KOG2280|consen  441 EVVIDRLVDRHLYSVAIQVAKLLNLPESQG-DRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAKL-TPGISYAAIARRAY  518 (829)
T ss_pred             hhhhHHHHhcchhHHHHHHHHHhCCccccc-cHHHHHHHHHHHhccCccchHHHHHHHHHhcccC-CCceeHHHHHHHHH
Confidence            345666777778888888777764322121 44555555555444222  223333332222222 23334555666666


Q ss_pred             ccCChhhHHHHhccCCCC--------chhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHH
Q 048090          133 KLLLIHDAELMFDEIPVK--------NSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAE  204 (447)
Q Consensus       133 ~~g~~~~a~~~~~~~~~~--------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  204 (447)
                      .+|+.+-|..+++.=+..        +..-+..-+.-+...|+.+-...++..+.+.   .+...|...      ..+..
T Consensus       519 ~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~---~~~s~l~~~------l~~~p  589 (829)
T KOG2280|consen  519 QEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNK---LNRSSLFMT------LRNQP  589 (829)
T ss_pred             hcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHH---HHHHHHHHH------HHhch
Confidence            778888888777654321        2223444455556666666666666655542   111111111      12344


Q ss_pred             HHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCH------
Q 048090          205 FGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYF------  278 (447)
Q Consensus       205 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~------  278 (447)
                      .|..+|.+..+..     +.   ..+-..| ..++-..+...|..-.........+-..........+.+....      
T Consensus       590 ~a~~lY~~~~r~~-----~~---~~l~d~y-~q~dn~~~~a~~~~q~~~~~~~~~~r~~~lk~~a~~~a~sk~~s~e~ka  660 (829)
T KOG2280|consen  590 LALSLYRQFMRHQ-----DR---ATLYDFY-NQDDNHQALASFHLQASYAAETIEGRIPALKTAANAFAKSKEKSFEAKA  660 (829)
T ss_pred             hhhHHHHHHHHhh-----ch---hhhhhhh-hcccchhhhhhhhhhhhhhhhhhcccchhHHHHHHHHhhhhhhhhHHHH
Confidence            5666666666541     11   1111222 2222222222222000000000111122233334444444331      


Q ss_pred             ----HHHHHHHHHHHhC-CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHH
Q 048090          279 ----KEVIKLYEAMLMN-GTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAW  353 (447)
Q Consensus       279 ----~~a~~~~~~m~~~-~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  353 (447)
                          .+-+.+.+.+... |......+.+--+.-+...|+..+|.++-.+.+     .|+...|..-+.+++..+++++-+
T Consensus       661 ~ed~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk-----ipdKr~~wLk~~aLa~~~kweeLe  735 (829)
T KOG2280|consen  661 LEDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK-----IPDKRLWWLKLTALADIKKWEELE  735 (829)
T ss_pred             HHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC-----CcchhhHHHHHHHHHhhhhHHHHH
Confidence                1122222333222 334455566666777778899999998876663     688889999999999999999988


Q ss_pred             HHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHH
Q 048090          354 KLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQL  425 (447)
Q Consensus       354 ~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  425 (447)
                      ++-+....    |   .-|.-...+|.+.|+.++|..++-+.-.    .+    -...+|.+.|++.+|.++
T Consensus       736 kfAkskks----P---IGy~PFVe~c~~~~n~~EA~KYiprv~~----l~----ekv~ay~~~~~~~eAad~  792 (829)
T KOG2280|consen  736 KFAKSKKS----P---IGYLPFVEACLKQGNKDEAKKYIPRVGG----LQ----EKVKAYLRVGDVKEAADL  792 (829)
T ss_pred             HHHhccCC----C---CCchhHHHHHHhcccHHHHhhhhhccCC----hH----HHHHHHHHhccHHHHHHH
Confidence            87766542    2   2278889999999999999988875532    11    567789999999998764

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.69  E-value=0.013  Score=54.32  Aligned_cols=93  Identities=17%  Similarity=0.199  Sum_probs=51.4

Q ss_pred             CCCccHHHHHHHHHhCCChhhHHHHH---------HHHHhcCCCCchhhHHHHHHHhccCCchhHHH--HHHHHHHHcCC
Q 048090           49 RNPLPFNVVISDFCRNGSPLYALKTF---------SFMHVHGIFLDTYALCSSLTASTSVKDARFGK--QVQAHVTKSGW  117 (447)
Q Consensus        49 ~~~~~~~~l~~~~~~~~~~~~a~~~~---------~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~--~~~~~~~~~~~  117 (447)
                      +-+..+.+-+..|...|.+++|..+-         +.+...  ..+.-.++..=++|.+.++..--.  .-++++.++|-
T Consensus       554 ~~evp~~~~m~q~Ieag~f~ea~~iaclgVv~~DW~~LA~~--ALeAL~f~~ARkAY~rVRdl~~L~li~EL~~~k~rge  631 (1081)
T KOG1538|consen  554 AVEVPQSAPMYQYIERGLFKEAYQIACLGVTDTDWRELAME--ALEALDFETARKAYIRVRDLRYLELISELEERKKRGE  631 (1081)
T ss_pred             cccccccccchhhhhccchhhhhcccccceecchHHHHHHH--HHhhhhhHHHHHHHHHHhccHHHHHHHHHHHHHhcCC
Confidence            44566677777888888888876542         111111  012223444444555555544322  23456666776


Q ss_pred             CCchhhHHHHHHHHHccCChhhHHHHhcc
Q 048090          118 LSSVFVGSALIDLYAKLLLIHDAELMFDE  146 (447)
Q Consensus       118 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  146 (447)
                      .|+...   +...++-.|++.+|-++|.+
T Consensus       632 ~P~~iL---lA~~~Ay~gKF~EAAklFk~  657 (1081)
T KOG1538|consen  632 TPNDLL---LADVFAYQGKFHEAAKLFKR  657 (1081)
T ss_pred             CchHHH---HHHHHHhhhhHHHHHHHHHH
Confidence            666543   44556667777777766654

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.69  E-value=0.025  Score=50.15  Aligned_cols=172  Identities=16%  Similarity=0.147  Sum_probs=94.4

Q ss_pred             HHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHh---cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 048090          229 SLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGR---NGYFKEVIKLYEAMLMNGTKPDEVAFVTVIS  305 (447)
Q Consensus       229 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  305 (447)
                      .++-+|....+++...++.+.+.....-........-....-++-+   .|+.++|.+++..+......+++.+|..+.+
T Consensus       146 ~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GR  225 (374)
T PF13281_consen  146 NLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGR  225 (374)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHH
Confidence            4444566666666666666655443111111122222233444445   6777777777777555555666667766665


Q ss_pred             HHhc---------cCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCC-HH---HHHHHH----HHHHhCCCCC--
Q 048090          306 ACSH---------TGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGE-LD---KAWKLI----NEMLDRGHGS--  366 (447)
Q Consensus       306 ~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-~~---~A~~~~----~~~~~~~~~p--  366 (447)
                      .|-.         ....++|+..|.+.-   .+.|+...--.+...+...|. ++   +..++-    ..+.+.|...  
T Consensus       226 IyKD~~~~s~~~d~~~ldkAi~~Y~kgF---e~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~  302 (374)
T PF13281_consen  226 IYKDLFLESNFTDRESLDKAIEWYRKGF---EIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKM  302 (374)
T ss_pred             HHHHHHHHcCccchHHHHHHHHHHHHHH---cCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcccccc
Confidence            5432         223667777777654   345553332222223333332 22   222222    1122233222  


Q ss_pred             CchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCch
Q 048090          367 SSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNV  403 (447)
Q Consensus       367 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  403 (447)
                      .+.-.+.+++.++.-.|++++|.+..+++.+..|+.-
T Consensus       303 ~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~~~W  339 (374)
T PF13281_consen  303 QDYWDVATLLEASVLAGDYEKAIQAAEKAFKLKPPAW  339 (374)
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCcch
Confidence            2444466789999999999999999999999887654

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.68  E-value=0.00023  Score=63.46  Aligned_cols=100  Identities=15%  Similarity=0.027  Sum_probs=76.0

Q ss_pred             ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchH---hHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHH
Q 048090          332 GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVS---MWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVM  408 (447)
Q Consensus       332 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  408 (447)
                      +...++.+..+|...|++++|+..|++.++.+  |++..   +|+.+..+|...|++++|...++++++..++   .|..
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~--Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALelsn~---~f~~  148 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALELN--PNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRDYNL---KFST  148 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcch---hHHH
Confidence            47788999999999999999999999999887  87764   4999999999999999999999999997422   1221


Q ss_pred             HHH--HHHhcCChHHHHHHHHHHHHcCCCC
Q 048090          409 LSN--LYAKFCMWDEIGQLRELMKEKGLKK  436 (447)
Q Consensus       409 l~~--~~~~~g~~~~A~~~~~~m~~~~~~p  436 (447)
                      +..  .+....+.++..++++...+.|...
T Consensus       149 i~~DpdL~plR~~pef~eLlee~rk~G~~~  178 (453)
T PLN03098        149 ILNDPDLAPFRASPEFKELQEEARKGGEDI  178 (453)
T ss_pred             HHhCcchhhhcccHHHHHHHHHHHHhCCcc
Confidence            111  1223344557778888888877643

>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=97.67  E-value=0.00099  Score=51.50  Aligned_cols=70  Identities=24%  Similarity=0.243  Sum_probs=56.2

Q ss_pred             hHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHH-----HcCCCCCCcc
Q 048090          371 MWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMK-----EKGLKKDVGC  440 (447)
Q Consensus       371 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~-----~~~~~p~~~~  440 (447)
                      +...++..+...|+++.|...+++++..+|-+...|..++.+|...|+..+|.+.|+++.     +.|+.|++.+
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            466788888899999999999999999999999999999999999999999999998874     3588888654

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.64  E-value=0.011  Score=48.58  Aligned_cols=136  Identities=12%  Similarity=0.075  Sum_probs=110.5

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHH--
Q 048090          263 VLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLV--  340 (447)
Q Consensus       263 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~--  340 (447)
                      ...+.++.++...|.+.-....+++.++.....++.....|.+.-.+.|+.+.|..+|++..+. .-+.+..+.+.++  
T Consensus       178 ~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~-~~kL~~~q~~~~V~~  256 (366)
T KOG2796|consen  178 RVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKV-TQKLDGLQGKIMVLM  256 (366)
T ss_pred             HHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHH-HhhhhccchhHHHHh
Confidence            3456777888888999999999999999776668888889999999999999999999988765 3344444444433  


Q ss_pred             ---HHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCC
Q 048090          341 ---DLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPH  401 (447)
Q Consensus       341 ---~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  401 (447)
                         ..|.-.+++.+|...+.+....+  |.++.+.+.-.-+..-.|+..+|.+.++.+++..|.
T Consensus       257 n~a~i~lg~nn~a~a~r~~~~i~~~D--~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~  318 (366)
T KOG2796|consen  257 NSAFLHLGQNNFAEAHRFFTEILRMD--PRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDPR  318 (366)
T ss_pred             hhhhheecccchHHHHHHHhhccccC--CCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCCc
Confidence               33556788999999999998887  778887888888888899999999999999998875

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.63  E-value=0.042  Score=49.02  Aligned_cols=382  Identities=10%  Similarity=0.032  Sum_probs=201.6

Q ss_pred             CCcchHHHhhccCCC---CCCcc------HHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHH--hccCCch
Q 048090           34 KNLGTLTNCLKFLNP---RNPLP------FNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTA--STSVKDA  102 (447)
Q Consensus        34 ~~~~~A~~~~~~~~~---~~~~~------~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~--~~~~~~~  102 (447)
                      ++..+|.++|.++.+   .++..      -+.++++|..+ +.+.....+....+.  .| ...|..+..+  +-+.+.+
T Consensus        20 ~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl~-nld~Me~~l~~l~~~--~~-~s~~l~LF~~L~~Y~~k~~   95 (549)
T PF07079_consen   20 KKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFLN-NLDLMEKQLMELRQQ--FG-KSAYLPLFKALVAYKQKEY   95 (549)
T ss_pred             hhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHHh-hHHHHHHHHHHHHHh--cC-CchHHHHHHHHHHHHhhhH
Confidence            368999999988753   23322      34667777643 455555555555543  23 3345455544  4567888


Q ss_pred             hHHHHHHHHHHHc--CCCC------------chhhHHHHHHHHHccCChhhHHHHhccCCC--------CchhhHHHHHH
Q 048090          103 RFGKQVQAHVTKS--GWLS------------SVFVGSALIDLYAKLLLIHDAELMFDEIPV--------KNSVCANALLS  160 (447)
Q Consensus       103 ~~a~~~~~~~~~~--~~~~------------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--------~~~~~~~~l~~  160 (447)
                      +.|.+.+......  +..|            |-..-+..++++...|++.+++.+++++.+        -+..+|+.++-
T Consensus        96 ~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~vl  175 (549)
T PF07079_consen   96 RKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAVL  175 (549)
T ss_pred             HHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHHH
Confidence            9998888766554  2221            222235667888899999999999888762        37888888666


Q ss_pred             HHHhcC---------------CHHHHHHHHHhhhhc------CCCCcHhhHHHHHHHHhcC--CcHHHHHHHHHHHHHhh
Q 048090          161 GYCEAK---------------LWAGGLELVRLMPAL------GLDYDHFTLSALLRACAGL--SAAEFGRQVHAYMIRKC  217 (447)
Q Consensus       161 ~~~~~~---------------~~~~a~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~--~~~~~a~~~~~~~~~~~  217 (447)
                      .+.++-               -++.+.-...+|...      .+.|.......++....-.  .+..--.++++.-... 
T Consensus       176 mlsrSYfLEl~e~~s~dl~pdyYemilfY~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~~We~~-  254 (549)
T PF07079_consen  176 MLSRSYFLELKESMSSDLYPDYYEMILFYLKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILENWENF-  254 (549)
T ss_pred             HHhHHHHHHHHHhcccccChHHHHHHHHHHHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHHHHHhh-
Confidence            555431               122333333333322      2334444444444433211  1112222222222222 


Q ss_pred             hcCCCCh-hHHHHHHHHHHhcCChHHHHHHHHhhhhhcccC-CCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 048090          218 CNLGNDV-FMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGE-INKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKP  295 (447)
Q Consensus       218 ~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p  295 (447)
                       -+.|+- -+...+...+..  +.+++..+-+.+....... ...-+.+|..++....+.++...|...+.-+...  .|
T Consensus       255 -yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~l--dp  329 (549)
T PF07079_consen  255 -YVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKIL--DP  329 (549)
T ss_pred             -ccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhc--CC
Confidence             122322 122333333333  3444443333221110000 1112345666666677777777777666655442  22


Q ss_pred             CHHH----------H-----------------------------------HHHHHH---HhccCc-HHHHHHHHHHHHHh
Q 048090          296 DEVA----------F-----------------------------------VTVISA---CSHTGQ-VKLGIEYFEWMVHD  326 (447)
Q Consensus       296 ~~~~----------~-----------------------------------~~ll~~---~~~~~~-~~~a~~~~~~~~~~  326 (447)
                      +...          +                                   ..++.+   +-+.|. -++|+++++.+.+ 
T Consensus       330 ~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~DiDrqQLvh~L~~~Ak~lW~~g~~dekalnLLk~il~-  408 (549)
T PF07079_consen  330 RISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDIDRQQLVHYLVFGAKHLWEIGQCDEKALNLLKLILQ-  408 (549)
T ss_pred             cchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhcccHHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHH-
Confidence            2111          1                                   111111   111222 4556666666553 


Q ss_pred             cCCCC-ChhhHHHHH----HHHH---HcCCHHHHHHHHHHHHhCCCCCCchH---hHHHHHH--HHHhcCCccHHHHHHH
Q 048090          327 YKLEP-GPEHYSCLV----DLLC---RAGELDKAWKLINEMLDRGHGSSSVS---MWGALLS--ACHDCGKFELGKLAAQ  393 (447)
Q Consensus       327 ~~~~~-~~~~~~~l~----~~~~---~~g~~~~A~~~~~~~~~~~~~p~~~~---~~~~l~~--~~~~~g~~~~a~~~~~  393 (447)
                        +.| |..+-|.+.    ..|.   ....+..-..+-+-+.+.|+.|-++.   .-+.|..  .+...|++.++.-.-.
T Consensus       409 --ft~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~  486 (549)
T PF07079_consen  409 --FTNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSS  486 (549)
T ss_pred             --hccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHH
Confidence              222 222222221    1221   12334444444455556676554332   2333333  4567899998888777


Q ss_pred             HHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHH
Q 048090          394 KALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELM  429 (447)
Q Consensus       394 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  429 (447)
                      -..+..| ++.+|..++-+.....++++|+.++..+
T Consensus       487 WL~~iaP-S~~~~RLlGl~l~e~k~Y~eA~~~l~~L  521 (549)
T PF07079_consen  487 WLTKIAP-SPQAYRLLGLCLMENKRYQEAWEYLQKL  521 (549)
T ss_pred             HHHHhCC-cHHHHHHHHHHHHHHhhHHHHHHHHHhC
Confidence            7777888 9999999999999999999999988754

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.63  E-value=0.003  Score=46.23  Aligned_cols=58  Identities=19%  Similarity=0.218  Sum_probs=28.7

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHhccCcHHHHHHHHHHHHHh
Q 048090          269 LGVYGRNGYFKEVIKLYEAMLMNGTKPD--EVAFVTVISACSHTGQVKLGIEYFEWMVHD  326 (447)
Q Consensus       269 ~~~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  326 (447)
                      ..++-..|+.++|+.+|++....|...+  ...+-.+..++...|++++|..+|++....
T Consensus         8 A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~   67 (120)
T PF12688_consen    8 AWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEE   67 (120)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3444455555555555555555544332  123334444455555555555555555443

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.60  E-value=0.023  Score=46.76  Aligned_cols=153  Identities=12%  Similarity=0.051  Sum_probs=117.3

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHH
Q 048090          278 FKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLIN  357 (447)
Q Consensus       278 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  357 (447)
                      .+.-.++|++-..       ...+.++..+...|.+.-....+.++++. .-+.++.....|++.-.+.|+.+.|...|+
T Consensus       165 ~ESsv~lW~KRl~-------~Vmy~~~~~llG~kEy~iS~d~~~~vi~~-~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~  236 (366)
T KOG2796|consen  165 EESSIRLWRKRLG-------RVMYSMANCLLGMKEYVLSVDAYHSVIKY-YPEQEPQLLSGLGRISMQIGDIKTAEKYFQ  236 (366)
T ss_pred             hhhHHHHHHHHHH-------HHHHHHHHHHhcchhhhhhHHHHHHHHHh-CCcccHHHHHHHHHHHHhcccHHHHHHHHH
Confidence            3555566655332       34567777788888899999999999876 445568888899999999999999999999


Q ss_pred             HHHhCCCCC----CchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 048090          358 EMLDRGHGS----SSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKG  433 (447)
Q Consensus       358 ~~~~~~~~p----~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  433 (447)
                      +..+..-.-    ............+.-.+++..|...+.+....+|.++...+.-+.+..-.|+..+|++.++.|... 
T Consensus       237 ~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~-  315 (366)
T KOG2796|consen  237 DVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ-  315 (366)
T ss_pred             HHHHHHhhhhccchhHHHHhhhhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc-
Confidence            665443222    233344555667778889999999999999999999999988888888899999999999999874 


Q ss_pred             CCCCCcc
Q 048090          434 LKKDVGC  440 (447)
Q Consensus       434 ~~p~~~~  440 (447)
                       .|.+.+
T Consensus       316 -~P~~~l  321 (366)
T KOG2796|consen  316 -DPRHYL  321 (366)
T ss_pred             -CCccch
Confidence             444433

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.58  E-value=0.03  Score=45.97  Aligned_cols=45  Identities=11%  Similarity=0.112  Sum_probs=20.0

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhCCCCCCchH---hHHHHHHHHHhcCCcc
Q 048090          340 VDLLCRAGELDKAWKLINEMLDRGHGSSSVS---MWGALLSACHDCGKFE  386 (447)
Q Consensus       340 ~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~  386 (447)
                      .+.|.+.|.+..|..-++.+++.-  |+...   +...++.++.+.|..+
T Consensus       148 a~~Y~~~~~y~aA~~r~~~v~~~y--p~t~~~~~al~~l~~~y~~l~~~~  195 (203)
T PF13525_consen  148 ARFYYKRGKYKAAIIRFQYVIENY--PDTPAAEEALARLAEAYYKLGLKQ  195 (203)
T ss_dssp             HHHHHCTT-HHHHHHHHHHHHHHS--TTSHHHHHHHHHHHHHHHHTT-HH
T ss_pred             HHHHHHcccHHHHHHHHHHHHHHC--CCCchHHHHHHHHHHHHHHhCChH
Confidence            344555555555555555555443  32222   2334444555555444

>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=97.56  E-value=0.00058  Score=54.47  Aligned_cols=99  Identities=9%  Similarity=0.126  Sum_probs=79.3

Q ss_pred             hHHHhhccC--CCCCCccHHHHHHHHHhC-----CChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccC-----------
Q 048090           38 TLTNCLKFL--NPRNPLPFNVVISDFCRN-----GSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSV-----------   99 (447)
Q Consensus        38 ~A~~~~~~~--~~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~-----------   99 (447)
                      .-...|+..  ...+-.+|..+++.+.+.     |.++=....+..|.+.|+.-|..+|+.|+..+-+.           
T Consensus        32 ~~~~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~  111 (228)
T PF06239_consen   32 PHEELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAE  111 (228)
T ss_pred             chHHHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHH
Confidence            345566665  457888899999888754     67777888899999999999999999999987653           


Q ss_pred             -----CchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCC
Q 048090          100 -----KDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLL  136 (447)
Q Consensus       100 -----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  136 (447)
                           .+-+-|.+++++|...|+-||.+++..+++.+.+.+.
T Consensus       112 F~hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  112 FMHYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             hccCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence                 2346688899999999999999999999888876654

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PRK11906 transcriptional regulator; Provisional

Probab=97.55  E-value=0.0031  Score=56.66  Aligned_cols=160  Identities=9%  Similarity=0.082  Sum_probs=100.2

Q ss_pred             hhH--HHHHHHHHhc-----CCHHHHHHHHHHHHhC-CCCCC-HHHHHHHHHHHhcc---------CcHHHHHHHHHHHH
Q 048090          263 VLW--TSMLGVYGRN-----GYFKEVIKLYEAMLMN-GTKPD-EVAFVTVISACSHT---------GQVKLGIEYFEWMV  324 (447)
Q Consensus       263 ~~~--~~l~~~~~~~-----g~~~~a~~~~~~m~~~-~~~p~-~~~~~~ll~~~~~~---------~~~~~a~~~~~~~~  324 (447)
                      ..|  ...+.+....     ...+.|..+|.+.... ...|+ ...|..+..++...         ....+|.+.-++..
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            455  5555554432     1345677788887722 24454 44555555444321         23344555555555


Q ss_pred             HhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCch
Q 048090          325 HDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNV  403 (447)
Q Consensus       325 ~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  403 (447)
                      +   +.| |......+..+..-.++++.|..+|++....+  |+...+|......+.-.|+.++|.+.+++++++.|-..
T Consensus       332 e---ld~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~--Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~  406 (458)
T PRK11906        332 D---ITTVDGKILAIMGLITGLSGQAKVSHILFEQAKIHS--TDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRR  406 (458)
T ss_pred             h---cCCCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcC--CccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhh
Confidence            3   233 46666666666677777888888888888777  88888888888888888888888888888888887643


Q ss_pred             --hHHHHHHHHHHhcCChHHHHHHHHH
Q 048090          404 --GIYVMLSNLYAKFCMWDEIGQLREL  428 (447)
Q Consensus       404 --~~~~~l~~~~~~~g~~~~A~~~~~~  428 (447)
                        .+....+..|+..+ .++|+.++-+
T Consensus       407 ~~~~~~~~~~~~~~~~-~~~~~~~~~~  432 (458)
T PRK11906        407 KAVVIKECVDMYVPNP-LKNNIKLYYK  432 (458)
T ss_pred             HHHHHHHHHHHHcCCc-hhhhHHHHhh
Confidence              33344444565554 5667666543

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=97.54  E-value=9.6e-05  Score=40.29  Aligned_cols=32  Identities=38%  Similarity=0.520  Sum_probs=29.6

Q ss_pred             HHHHhhhCCCchhHHHHHHHHHHhcCChHHHH
Q 048090          392 AQKALELDPHNVGIYVMLSNLYAKFCMWDEIG  423 (447)
Q Consensus       392 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  423 (447)
                      |+++++.+|+++.+|..++.+|...|++++|+
T Consensus         2 y~kAie~~P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    2 YKKAIELNPNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             hHHHHHHCCCCHHHHHHHHHHHHHCcCHHhhc
Confidence            67899999999999999999999999999986

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.53  E-value=0.042  Score=51.68  Aligned_cols=51  Identities=10%  Similarity=0.025  Sum_probs=26.2

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHH
Q 048090          152 SVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHA  211 (447)
Q Consensus       152 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  211 (447)
                      ....-.+...+.+.|.-++|.+.+-+.-    .|.     ..+..|...++|.+|.++-+
T Consensus       852 s~llp~~a~mf~svGMC~qAV~a~Lr~s----~pk-----aAv~tCv~LnQW~~avelaq  902 (1189)
T KOG2041|consen  852 SELLPVMADMFTSVGMCDQAVEAYLRRS----LPK-----AAVHTCVELNQWGEAVELAQ  902 (1189)
T ss_pred             cchHHHHHHHHHhhchHHHHHHHHHhcc----CcH-----HHHHHHHHHHHHHHHHHHHH
Confidence            3344555666666666666665544322    121     23344555566666655544

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.48  E-value=0.063  Score=47.19  Aligned_cols=108  Identities=18%  Similarity=0.175  Sum_probs=79.6

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHH
Q 048090          297 EVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALL  376 (447)
Q Consensus       297 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~  376 (447)
                      ..+.+..|.-|...|+...|.++-.+.    . .|+...|...+.+++..++|++-..+...   . - +  +.-|..++
T Consensus       177 ~~Sl~~Ti~~li~~~~~k~A~kl~k~F----k-v~dkrfw~lki~aLa~~~~w~eL~~fa~s---k-K-s--PIGyepFv  244 (319)
T PF04840_consen  177 GLSLNDTIRKLIEMGQEKQAEKLKKEF----K-VPDKRFWWLKIKALAENKDWDELEKFAKS---K-K-S--PIGYEPFV  244 (319)
T ss_pred             cCCHHHHHHHHHHCCCHHHHHHHHHHc----C-CcHHHHHHHHHHHHHhcCCHHHHHHHHhC---C-C-C--CCChHHHH
Confidence            345556666777788887777664444    4 47888899999999999999988876543   1 1 2  23388999


Q ss_pred             HHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHH
Q 048090          377 SACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQL  425 (447)
Q Consensus       377 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  425 (447)
                      .+|.+.|+..+|..+..++    +     +..-+..|.+.|++.+|.+.
T Consensus       245 ~~~~~~~~~~eA~~yI~k~----~-----~~~rv~~y~~~~~~~~A~~~  284 (319)
T PF04840_consen  245 EACLKYGNKKEASKYIPKI----P-----DEERVEMYLKCGDYKEAAQE  284 (319)
T ss_pred             HHHHHCCCHHHHHHHHHhC----C-----hHHHHHHHHHCCCHHHHHHH
Confidence            9999999999998888772    1     24566778899999888754

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

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=97.48  E-value=0.00028  Score=41.35  Aligned_cols=41  Identities=27%  Similarity=0.403  Sum_probs=32.9

Q ss_pred             hHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHH
Q 048090          371 MWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSN  411 (447)
Q Consensus       371 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  411 (447)
                      ++..+..+|...|++++|.++++++++..|+|+..+..++.
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~La~   43 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRALAQ   43 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHhhh
Confidence            46778888888888888888888888888888887777653

>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=97.44  E-value=0.00023  Score=48.14  Aligned_cols=63  Identities=13%  Similarity=0.218  Sum_probs=40.6

Q ss_pred             hHhHHHHHHHHHhcCCccHHHHHHHHHhhhC---C-C---chhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          369 VSMWGALLSACHDCGKFELGKLAAQKALELD---P-H---NVGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       369 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~---~-~---~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      ..+++.+..+|...|++++|...++++++..   + .   ...++..++.+|...|++++|++.+++..+
T Consensus         5 a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    5 ANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            4456667777777777777777777666531   1 1   245677777777777777777777776543

...

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.37  E-value=0.0026  Score=57.06  Aligned_cols=65  Identities=22%  Similarity=0.158  Sum_probs=56.7

Q ss_pred             CCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCCh----hhHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 048090          295 PDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGP----EHYSCLVDLLCRAGELDKAWKLINEMLDR  362 (447)
Q Consensus       295 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  362 (447)
                      .+...++.+..+|...|++++|+..|++.++   +.|+.    .+|..+..+|...|++++|++.++++++.
T Consensus        73 ~~a~a~~NLG~AL~~lGryeEAIa~f~rALe---L~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         73 KTAEDAVNLGLSLFSKGRVKDALAQFETALE---LNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh---hCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3567889999999999999999999999885   46763    35889999999999999999999999986

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=97.30  E-value=0.0054  Score=44.43  Aligned_cols=88  Identities=25%  Similarity=0.171  Sum_probs=41.5

Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhC-CCc---hhHHHHHHHHHHhcCC
Q 048090          343 LCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELD-PHN---VGIYVMLSNLYAKFCM  418 (447)
Q Consensus       343 ~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~~---~~~~~~l~~~~~~~g~  418 (447)
                      +...|+++.|++.|.+.+..-  |....+|+.-.+++.-.|+.++|..-+.+++++. +..   ...|..-+..|...|+
T Consensus        53 laE~g~Ld~AlE~F~qal~l~--P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   53 LAEAGDLDGALELFGQALCLA--PERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHhccchHHHHHHHHHHHHhc--ccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            344455555555555544433  4455555555555555555555555555555543 221   1123333334444555


Q ss_pred             hHHHHHHHHHHHHc
Q 048090          419 WDEIGQLRELMKEK  432 (447)
Q Consensus       419 ~~~A~~~~~~m~~~  432 (447)
                      -+.|..-|+.....
T Consensus       131 dd~AR~DFe~AA~L  144 (175)
T KOG4555|consen  131 DDAARADFEAAAQL  144 (175)
T ss_pred             hHHHHHhHHHHHHh
Confidence            55555544444433

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=97.30  E-value=0.12  Score=46.32  Aligned_cols=399  Identities=10%  Similarity=-0.025  Sum_probs=219.9

Q ss_pred             hhhHHHhhhhhhhhhcccccCCcchHHHhhccCCCCCC---ccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHH
Q 048090           14 ICLIIFQSRLMLPYTTCRHKKNLGTLTNCLKFLNPRNP---LPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALC   90 (447)
Q Consensus        14 ~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~   90 (447)
                      ..|...|=+|+..|...++   .+.-.++++++..|-+   .+|..-|++-...+++.....+|.+.+....  +...|.
T Consensus        39 PtnI~S~fqLiq~~~tq~s---~~~~re~yeq~~~pfp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~l--~ldLW~  113 (660)
T COG5107          39 PTNILSYFQLIQYLETQES---MDAEREMYEQLSSPFPIMEHAWRLYMSGELARKDFRSVESLFGRCLKKSL--NLDLWM  113 (660)
T ss_pred             chhHHHHHHHHHHHhhhhh---HHHHHHHHHHhcCCCccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhhc--cHhHHH
Confidence            3567788888988888874   8888888888887765   3577777777778888888889988887644  355555


Q ss_pred             HHHHHhccCCchh------HHHHHHHHHHH-cCCCCchh-hHHHHHH---HHHccC------ChhhHHHHhccCCC-C--
Q 048090           91 SSLTASTSVKDAR------FGKQVQAHVTK-SGWLSSVF-VGSALID---LYAKLL------LIHDAELMFDEIPV-K--  150 (447)
Q Consensus        91 ~ll~~~~~~~~~~------~a~~~~~~~~~-~~~~~~~~-~~~~l~~---~~~~~g------~~~~a~~~~~~~~~-~--  150 (447)
                      .-+....+.++.-      ...+.|+-.+. .++.|-.. .|+..+.   ..-..|      +++...+.+.++.. |  
T Consensus       114 lYl~YIRr~n~~~tGq~r~~i~~ayefv~~~~~~e~~s~~~W~ey~~fle~~~~~~kwEeQqrid~iR~~Y~ral~tP~~  193 (660)
T COG5107         114 LYLEYIRRVNNLITGQKRFKIYEAYEFVLGCAIFEPQSENYWDEYGLFLEYIEELGKWEEQQRIDKIRNGYMRALQTPMG  193 (660)
T ss_pred             HHHHHHHhhCcccccchhhhhHHHHHHHHhcccccccccchHHHHHHHHHhccccccHHHHHHHHHHHHHHHHHHcCccc
Confidence            5555443333211      11122332222 33444332 3333332   222223      34455556655542 2  


Q ss_pred             -------chhhHHHHHHH-----HHh--cCCHHHHHHHHHhhhh--cCCC----CcHhhHHH-----------HHHHHhc
Q 048090          151 -------NSVCANALLSG-----YCE--AKLWAGGLELVRLMPA--LGLD----YDHFTLSA-----------LLRACAG  199 (447)
Q Consensus       151 -------~~~~~~~l~~~-----~~~--~~~~~~a~~~~~~~~~--~~~~----~~~~~~~~-----------l~~~~~~  199 (447)
                             |-..|..=++.     +..  .--+-.|.+.++++..  .|..    .+..+++.           .|.--..
T Consensus       194 nleklW~dy~~fE~e~N~~TarKfvge~sp~ym~ar~~yqe~~nlt~Gl~v~~~~~~Rt~nK~~r~s~S~WlNwIkwE~e  273 (660)
T COG5107         194 NLEKLWKDYENFELELNKITARKFVGETSPIYMSARQRYQEIQNLTRGLSVKNPINLRTANKAARTSDSNWLNWIKWEME  273 (660)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhccccccCchhhhhhccccccccchhhhHhhHhhc
Confidence                   11111111111     110  1113345555555432  1211    11222222           1111000


Q ss_pred             ------CCcH-HHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHH
Q 048090          200 ------LSAA-EFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVY  272 (447)
Q Consensus       200 ------~~~~-~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  272 (447)
                            .+-. ....-++++.+.-   +.....+|.---..+...++-+.|+........+     .|+..  ..+-..|
T Consensus       274 n~l~L~~~~~~qRi~y~~~q~~~y---~~~~~evw~dys~Y~~~isd~q~al~tv~rg~~~-----spsL~--~~lse~y  343 (660)
T COG5107         274 NGLKLGGRPHEQRIHYIHNQILDY---FYYAEEVWFDYSEYLIGISDKQKALKTVERGIEM-----SPSLT--MFLSEYY  343 (660)
T ss_pred             CCcccCCCcHHHHHHHHHHHHHHH---hhhhHHHHHHHHHHHhhccHHHHHHHHHHhcccC-----CCchh--eeHHHHH
Confidence                  0001 1112223333332   2233344444444445667777777776643221     22211  1112222


Q ss_pred             HhcCCHHHHHHHHHHHHh--------------CCCC--C-------------CHHHHHHHHHHHhccCcHHHHHHHHHHH
Q 048090          273 GRNGYFKEVIKLYEAMLM--------------NGTK--P-------------DEVAFVTVISACSHTGQVKLGIEYFEWM  323 (447)
Q Consensus       273 ~~~g~~~~a~~~~~~m~~--------------~~~~--p-------------~~~~~~~ll~~~~~~~~~~~a~~~~~~~  323 (447)
                      .-.++.+.....|+...+              .+..  |             -..+|...+.+..+..-++.|..+|-++
T Consensus       344 el~nd~e~v~~~fdk~~q~L~r~ys~~~s~~~s~~D~N~e~~~Ell~kr~~k~t~v~C~~~N~v~r~~Gl~aaR~~F~k~  423 (660)
T COG5107         344 ELVNDEEAVYGCFDKCTQDLKRKYSMGESESASKVDNNFEYSKELLLKRINKLTFVFCVHLNYVLRKRGLEAARKLFIKL  423 (660)
T ss_pred             hhcccHHHHhhhHHHHHHHHHHHHhhhhhhhhccccCCccccHHHHHHHHhhhhhHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            223333333333332211              0110  0             1234556677777778889999999999


Q ss_pred             HHhcC-CCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCc
Q 048090          324 VHDYK-LEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHN  402 (447)
Q Consensus       324 ~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  402 (447)
                      .+. + +.+++..+++++..+ ..|+...|..+|+--+..-  |++...-+..+..+...++-+.|..+|+..++.-..+
T Consensus       424 rk~-~~~~h~vyi~~A~~E~~-~~~d~~ta~~ifelGl~~f--~d~~~y~~kyl~fLi~inde~naraLFetsv~r~~~~  499 (660)
T COG5107         424 RKE-GIVGHHVYIYCAFIEYY-ATGDRATAYNIFELGLLKF--PDSTLYKEKYLLFLIRINDEENARALFETSVERLEKT  499 (660)
T ss_pred             hcc-CCCCcceeeeHHHHHHH-hcCCcchHHHHHHHHHHhC--CCchHHHHHHHHHHHHhCcHHHHHHHHHHhHHHHHHh
Confidence            877 5 567788888888755 5677888999998766654  6666656677788888899999999999777654333


Q ss_pred             --hhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          403 --VGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       403 --~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                        ..+|..++.--..-|+...|..+-++|..
T Consensus       500 q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e  530 (660)
T COG5107         500 QLKRIYDKMIEYESMVGSLNNVYSLEERFRE  530 (660)
T ss_pred             hhhHHHHHHHHHHHhhcchHHHHhHHHHHHH
Confidence              67899999888889999888877777764

>PRK15331 chaperone protein SicA; Provisional

Probab=97.29  E-value=0.014  Score=44.82  Aligned_cols=90  Identities=14%  Similarity=0.007  Sum_probs=79.6

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCCh
Q 048090          340 VDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMW  419 (447)
Q Consensus       340 ~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  419 (447)
                      ..-+...|++++|..+|+-+...+  |-+...|..|+.++-..+++++|...|..+..++++|+..+...+.+|...|+.
T Consensus        44 Ay~~y~~Gk~~eA~~~F~~L~~~d--~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f~agqC~l~l~~~  121 (165)
T PRK15331         44 AYEFYNQGRLDEAETFFRFLCIYD--FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRKA  121 (165)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC--cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCCH
Confidence            344568899999999999988876  667777889999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHH
Q 048090          420 DEIGQLRELMKE  431 (447)
Q Consensus       420 ~~A~~~~~~m~~  431 (447)
                      +.|+..|+...+
T Consensus       122 ~~A~~~f~~a~~  133 (165)
T PRK15331        122 AKARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHHh
Confidence            999999988876

>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=97.29  E-value=0.0067  Score=48.59  Aligned_cols=36  Identities=22%  Similarity=0.252  Sum_probs=25.9

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCc
Q 048090          277 YFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQ  312 (447)
Q Consensus       277 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~  312 (447)
                      +-+-|++++++|...|+.||..|+..+++.+.+.+.
T Consensus       118 Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  118 QQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            345677777777777777777777777777766554

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>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=97.23  E-value=0.033  Score=42.94  Aligned_cols=57  Identities=19%  Similarity=0.201  Sum_probs=30.9

Q ss_pred             HHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 048090          228 SSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAM  288 (447)
Q Consensus       228 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  288 (447)
                      ..++..+...|++++|....+.+...    .|.+...|..+|.+|...|+...|.+.|+++
T Consensus        66 ~~l~~~~~~~~~~~~a~~~~~~~l~~----dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~  122 (146)
T PF03704_consen   66 ERLAEALLEAGDYEEALRLLQRALAL----DPYDEEAYRLLMRALAAQGRRAEALRVYERY  122 (146)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHHHH----STT-HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHhccCHHHHHHHHHHHHhc----CCCCHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            34455555566666666666555443    4445555666666666666666666666554

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.22  E-value=0.19  Score=48.00  Aligned_cols=107  Identities=18%  Similarity=0.197  Sum_probs=62.6

Q ss_pred             HHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 048090          228 SSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISAC  307 (447)
Q Consensus       228 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  307 (447)
                      +--+.-+...|+-.+|.++-.+.       .-||-..|-.-+.+++..+++++-+++-+.++      .+.-|..+..+|
T Consensus       688 ~dTv~~li~~g~~k~a~ql~~~F-------kipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~c  754 (829)
T KOG2280|consen  688 HDTVTTLILIGQNKRAEQLKSDF-------KIPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVEAC  754 (829)
T ss_pred             HHHHHHHHHccchHHHHHHHHhc-------CCcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHHH
Confidence            33444455566666666665532       34566666666677777777766655544432      134455566677


Q ss_pred             hccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHH
Q 048090          308 SHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLIN  357 (447)
Q Consensus       308 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  357 (447)
                      .+.|+.++|.+++-+..   |..       -...+|.+.|++.+|.++.-
T Consensus       755 ~~~~n~~EA~KYiprv~---~l~-------ekv~ay~~~~~~~eAad~A~  794 (829)
T KOG2280|consen  755 LKQGNKDEAKKYIPRVG---GLQ-------EKVKAYLRVGDVKEAADLAA  794 (829)
T ss_pred             HhcccHHHHhhhhhccC---ChH-------HHHHHHHHhccHHHHHHHHH
Confidence            77777777776665542   111       35566667777766666543

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=97.20  E-value=0.022  Score=42.70  Aligned_cols=56  Identities=13%  Similarity=0.166  Sum_probs=26.9

Q ss_pred             hccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 048090          308 SHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRG  363 (447)
Q Consensus       308 ~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  363 (447)
                      .+.|++++|.+.|+.+..++...| ....-..|+.+|.+.+++++|...+++.++.+
T Consensus        21 l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLh   77 (142)
T PF13512_consen   21 LQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLH   77 (142)
T ss_pred             HHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            344555555555555544432222 13333444555555555555555555555444

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.17  E-value=0.011  Score=51.89  Aligned_cols=136  Identities=15%  Similarity=0.040  Sum_probs=73.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhhhhh-cccCC-CcchhhHHHHHHHHHhcCCHHHHHHHHHHHHh----CC-CCCCHH
Q 048090          226 MQSSLIEMYGKCGLVTKALQVFNLAGHR-LEGEI-NKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLM----NG-TKPDEV  298 (447)
Q Consensus       226 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~----~~-~~p~~~  298 (447)
                      .|..|.+.|.-.|+++.|+..-+.-... .+-|. ......+..+.+++.-.|+++.|.+.|+....    .| -.....
T Consensus       197 a~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQ  276 (639)
T KOG1130|consen  197 AYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQ  276 (639)
T ss_pred             hhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHH
Confidence            4555666666667777776655421111 11111 12234566667777777777777777665432    12 122344


Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHHh----cCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 048090          299 AFVTVISACSHTGQVKLGIEYFEWMVHD----YKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLD  361 (447)
Q Consensus       299 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  361 (447)
                      ...+|...|.-..+++.|+.++.+-...    ....-....+.+|..+|...|..++|+.+.+.-++
T Consensus       277 scYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  277 SCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            5556666666666677777666554321    01122345566666666666666666666555443

>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=97.13  E-value=0.0017  Score=43.81  Aligned_cols=65  Identities=23%  Similarity=0.303  Sum_probs=43.4

Q ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHhC----CCC-CCchHhHHHHHHHHHhcCCccHHHHHHHHHhhh
Q 048090          334 EHYSCLVDLLCRAGELDKAWKLINEMLDR----GHG-SSSVSMWGALLSACHDCGKFELGKLAAQKALEL  398 (447)
Q Consensus       334 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~-p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  398 (447)
                      .+|+.+...|...|++++|+..+++.++.    |-. |.-..++..++.++...|++++|.+.+++++++
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i   75 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALDI   75 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            45667777777778888877777776533    100 112446777888888888888888888877653

...

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.12  E-value=0.17  Score=44.61  Aligned_cols=79  Identities=19%  Similarity=0.156  Sum_probs=36.3

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCC
Q 048090          269 LGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGE  348 (447)
Q Consensus       269 ~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  348 (447)
                      +.-+...|+...|.++-.+..    .|+..-|..-+.+++..++|++-.++-.    .   +-++.-|..++.+|.+.|+
T Consensus       184 i~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~----s---kKsPIGyepFv~~~~~~~~  252 (319)
T PF04840_consen  184 IRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAK----S---KKSPIGYEPFVEACLKYGN  252 (319)
T ss_pred             HHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHh----C---CCCCCChHHHHHHHHHCCC
Confidence            344444455444444443331    3445555555555555555544433211    0   1233445555555555555


Q ss_pred             HHHHHHHHHH
Q 048090          349 LDKAWKLINE  358 (447)
Q Consensus       349 ~~~A~~~~~~  358 (447)
                      ..+|..+..+
T Consensus       253 ~~eA~~yI~k  262 (319)
T PF04840_consen  253 KKEASKYIPK  262 (319)
T ss_pred             HHHHHHHHHh
Confidence            5555555444

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

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.10  E-value=0.024  Score=48.39  Aligned_cols=159  Identities=16%  Similarity=0.026  Sum_probs=106.4

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHH----HHHHHHcCCH
Q 048090          274 RNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCL----VDLLCRAGEL  349 (447)
Q Consensus       274 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l----~~~~~~~g~~  349 (447)
                      ..|++.+|-..++++.+. .+.|...+...=.+|...|+.......++++...  ..|+...|..+    .-++..+|-+
T Consensus       115 ~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~--wn~dlp~~sYv~GmyaFgL~E~g~y  191 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK--WNADLPCYSYVHGMYAFGLEECGIY  191 (491)
T ss_pred             ccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc--cCCCCcHHHHHHHHHHhhHHHhccc
Confidence            457777777777777765 3446666666667788888888888888877653  35555444333    2334578888


Q ss_pred             HHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCC----chhHHHHHHHHHHhcCChHHHHHH
Q 048090          350 DKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPH----NVGIYVMLSNLYAKFCMWDEIGQL  425 (447)
Q Consensus       350 ~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~A~~~  425 (447)
                      ++|++..++..+.+  |.|.-+..++...+...|++.++.++..+-...-..    -..-|-..+..+...+.++.|+++
T Consensus       192 ~dAEk~A~ralqiN--~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleI  269 (491)
T KOG2610|consen  192 DDAEKQADRALQIN--RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEI  269 (491)
T ss_pred             hhHHHHHHhhccCC--CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHH
Confidence            88888888888776  777777778888888888888888887765442211    112244445567777888888888


Q ss_pred             HHHHHHcCCCCC
Q 048090          426 RELMKEKGLKKD  437 (447)
Q Consensus       426 ~~~m~~~~~~p~  437 (447)
                      |++-.-.....|
T Consensus       270 yD~ei~k~l~k~  281 (491)
T KOG2610|consen  270 YDREIWKRLEKD  281 (491)
T ss_pred             HHHHHHHHhhcc
Confidence            876544333333

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.10  E-value=0.19  Score=45.05  Aligned_cols=362  Identities=11%  Similarity=0.035  Sum_probs=192.0

Q ss_pred             HHHhhhhhhhhhcccccCCcchHHHhhccCCCCC-CccHHHHHHHH--HhCCChhhHHHHHHHHHhc--CCCC-------
Q 048090           17 IIFQSRLMLPYTTCRHKKNLGTLTNCLKFLNPRN-PLPFNVVISDF--CRNGSPLYALKTFSFMHVH--GIFL-------   84 (447)
Q Consensus        17 ~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~l~~~~--~~~~~~~~a~~~~~~m~~~--~~~p-------   84 (447)
                      ....+.++++|-...    ++.....+..+.+.. ...|-.|..++  -+.+.+.+|++.+....++  +..|       
T Consensus        46 Evl~grilnAffl~n----ld~Me~~l~~l~~~~~~s~~l~LF~~L~~Y~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni  121 (549)
T PF07079_consen   46 EVLGGRILNAFFLNN----LDLMEKQLMELRQQFGKSAYLPLFKALVAYKQKEYRKALQALSVWKEQIKGTESPWLDTNI  121 (549)
T ss_pred             HHHhhHHHHHHHHhh----HHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhhhHHHHHHHHHHHHhhhcccccchhhhhH
Confidence            456677888887654    666666555554322 34566666554  3578899999988877664  3222       


Q ss_pred             -----chhhHHHHHHHhccCCchhHHHHHHHHHHHcCCC----CchhhHHHHHHHHHccC--------C-------hhhH
Q 048090           85 -----DTYALCSSLTASTSVKDARFGKQVQAHVTKSGWL----SSVFVGSALIDLYAKLL--------L-------IHDA  140 (447)
Q Consensus        85 -----~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~l~~~~~~~g--------~-------~~~a  140 (447)
                           |-..=+..++++...|++.+++.+++++...=++    -+..+|+.++-.+++.=        .       ++.+
T Consensus       122 ~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~vlmlsrSYfLEl~e~~s~dl~pdyYemi  201 (549)
T PF07079_consen  122 QQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAVLMLSRSYFLELKESMSSDLYPDYYEMI  201 (549)
T ss_pred             HHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHHHHHhHHHHHHHHHhcccccChHHHHHH
Confidence                 1222355667788999999999999988765433    67778877554444321        1       1111


Q ss_pred             HHHhccCCC----------Cc----------------------------------hhhHHHHHHHHHh--cCCHHHHHHH
Q 048090          141 ELMFDEIPV----------KN----------------------------------SVCANALLSGYCE--AKLWAGGLEL  174 (447)
Q Consensus       141 ~~~~~~~~~----------~~----------------------------------~~~~~~l~~~~~~--~~~~~~a~~~  174 (447)
                      .-...+|..          |.                                  ..-|+.++.....  ..+.+++..+
T Consensus       202 lfY~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~~We~~yv~p~~~LVi~~L~~~f~~~~e~~~~~  281 (549)
T PF07079_consen  202 LFYLKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILENWENFYVHPNYDLVIEPLKQQFMSDPEQVGHF  281 (549)
T ss_pred             HHHHHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHHHHHhhccCCchhHHHHHHHHHHhcChHHHHHH
Confidence            111111110          00                                  0012222222111  0144444444


Q ss_pred             HHhhhhcCCCC----cHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHH-------HHHHHHh-c---CC
Q 048090          175 VRLMPALGLDY----DHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSS-------LIEMYGK-C---GL  239 (447)
Q Consensus       175 ~~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~-------l~~~~~~-~---g~  239 (447)
                      -+.+....+.+    -..+|..++....+.++...|.+.+.-+...+    |+......       +.+..+. -   -+
T Consensus       282 ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~ld----p~~svs~Kllls~~~lq~Iv~~DD~~~Tk  357 (549)
T PF07079_consen  282 CEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKILD----PRISVSEKLLLSPKVLQDIVCEDDESYTK  357 (549)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcC----CcchhhhhhhcCHHHHHHHHhcchHHHHH
Confidence            44433222111    23467777788888888888888877665543    33322221       1222221 1   11


Q ss_pred             hHHHHHHHHhhhhhcccCCCcc--hhhHHHHHHHHHhcCC-HHHHHHHHHHHHhCCCCC-CHHH----HHHHHHHHhc--
Q 048090          240 VTKALQVFNLAGHRLEGEINKD--VVLWTSMLGVYGRNGY-FKEVIKLYEAMLMNGTKP-DEVA----FVTVISACSH--  309 (447)
Q Consensus       240 ~~~A~~~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~-~~~a~~~~~~m~~~~~~p-~~~~----~~~ll~~~~~--  309 (447)
                      ..+=+.+++.+..   ..+..-  +...-.-..-+-+.|. -++|+++++...+-  .| |...    +..+=.+|..  
T Consensus       358 lr~yL~lwe~~qs---~DiDrqQLvh~L~~~Ak~lW~~g~~dekalnLLk~il~f--t~yD~ec~n~v~~fvKq~Y~qaL  432 (549)
T PF07079_consen  358 LRDYLNLWEEIQS---YDIDRQQLVHYLVFGAKHLWEIGQCDEKALNLLKLILQF--TNYDIECENIVFLFVKQAYKQAL  432 (549)
T ss_pred             HHHHHHHHHHHHh---hcccHHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHh--ccccHHHHHHHHHHHHHHHHHHH
Confidence            2222233332211   111111  2222223445556665 77888888888763  33 3222    2222223332  


Q ss_pred             -cCcHHHHHHHHHHHHHhcCCCCC----hhhHHHHHHH--HHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhc
Q 048090          310 -TGQVKLGIEYFEWMVHDYKLEPG----PEHYSCLVDL--LCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDC  382 (447)
Q Consensus       310 -~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~--~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~  382 (447)
                       ...+.+-..+-+-+ ++-|+.|-    ...-|.|.++  +...|++.++.-.-.-+.+..  | ++.+|..++.+....
T Consensus       433 s~~~~~rLlkLe~fi-~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~~ia--P-S~~~~RLlGl~l~e~  508 (549)
T PF07079_consen  433 SMHAIPRLLKLEDFI-TEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLTKIA--P-SPQAYRLLGLCLMEN  508 (549)
T ss_pred             hhhhHHHHHHHHHHH-HhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhC--C-cHHHHHHHHHHHHHH
Confidence             23344444444433 33377763    3334444443  456788888887766666553  6 777788888888888


Q ss_pred             CCccHHHHHHHHH
Q 048090          383 GKFELGKLAAQKA  395 (447)
Q Consensus       383 g~~~~a~~~~~~~  395 (447)
                      .++++|..++.+.
T Consensus       509 k~Y~eA~~~l~~L  521 (549)
T PF07079_consen  509 KRYQEAWEYLQKL  521 (549)
T ss_pred             hhHHHHHHHHHhC
Confidence            8888888888764

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.10  E-value=0.17  Score=44.40  Aligned_cols=282  Identities=13%  Similarity=0.029  Sum_probs=168.2

Q ss_pred             cCCchhHHHHHHHHHHHcCCCCchhhHHHHHHH--HHccCChhhHHHHhccCCCCchhh----HHHHHHHHHhcCCHHHH
Q 048090           98 SVKDARFGKQVQAHVTKSGWLSSVFVGSALIDL--YAKLLLIHDAELMFDEIPVKNSVC----ANALLSGYCEAKLWAGG  171 (447)
Q Consensus        98 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~a~~~~~~~~~~~~~~----~~~l~~~~~~~~~~~~a  171 (447)
                      -.||-..|.++-.+..+. +..|....-.++.+  -.-.|+.+.|.+-|+.|.. |+.+    ...|.-.-.+.|+.+.|
T Consensus        96 gAGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~-dPEtRllGLRgLyleAqr~GareaA  173 (531)
T COG3898          96 GAGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLD-DPETRLLGLRGLYLEAQRLGAREAA  173 (531)
T ss_pred             ccCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhc-ChHHHHHhHHHHHHHHHhcccHHHH
Confidence            346777776665544321 23344433334433  2345888888888888874 2222    22233333467888888


Q ss_pred             HHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhH--HHHHHHHH---HhcCChHHHHHH
Q 048090          172 LELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFM--QSSLIEMY---GKCGLVTKALQV  246 (447)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~~~l~~~~---~~~g~~~~A~~~  246 (447)
                      .++-++.-..- +--.......+...+..|+|+.|+++++.-.... -+.++..-  -..|+.+-   .-.-+...|...
T Consensus       174 r~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~-vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~  251 (531)
T COG3898         174 RHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAK-VIEKDVAERSRAVLLTAKAMSLLDADPASARDD  251 (531)
T ss_pred             HHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHH-hhchhhHHHHHHHHHHHHHHHHhcCChHHHHHH
Confidence            87777665542 2234466677888888899999998888766652 23333321  11222211   112345555554


Q ss_pred             HHhhhhhcccCCCcchhh-HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHH
Q 048090          247 FNLAGHRLEGEINKDVVL-WTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVH  325 (447)
Q Consensus       247 ~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  325 (447)
                      -.+..+     ..|+... --.-..++.+.|+..++-.+++.+=+....|+.  ...  ....+.|+.  +..-+++..+
T Consensus       252 A~~a~K-----L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~i--a~l--Y~~ar~gdt--a~dRlkRa~~  320 (531)
T COG3898         252 ALEANK-----LAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPDI--ALL--YVRARSGDT--ALDRLKRAKK  320 (531)
T ss_pred             HHHHhh-----cCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChHH--HHH--HHHhcCCCc--HHHHHHHHHH
Confidence            443323     4555433 333456788999999999999999876555543  222  223455553  3333444433


Q ss_pred             hcCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHh-cCCccHHHHHHHHHhh
Q 048090          326 DYKLEPG-PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHD-CGKFELGKLAAQKALE  397 (447)
Q Consensus       326 ~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~-~g~~~~a~~~~~~~~~  397 (447)
                      -..++|| ......+.++....|++..|..--+......  | ...+|..|...-.. .||-.++...+-+.++
T Consensus       321 L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~~--p-res~~lLlAdIeeAetGDqg~vR~wlAqav~  391 (531)
T COG3898         321 LESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAREA--P-RESAYLLLADIEEAETGDQGKVRQWLAQAVK  391 (531)
T ss_pred             HHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhhhC--c-hhhHHHHHHHHHhhccCchHHHHHHHHHHhc
Confidence            3355665 6666777788888999998888777776654  5 44457777766554 4899999999988877

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=97.09  E-value=0.0038  Score=54.66  Aligned_cols=66  Identities=17%  Similarity=0.103  Sum_probs=61.8

Q ss_pred             hHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCC
Q 048090          371 MWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDV  438 (447)
Q Consensus       371 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~  438 (447)
                      .+..+..++.+.+++..|++...++++.+|+|......-+.+|...|+++.|+..|+++.+  +.|+-
T Consensus       259 ~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k--~~P~N  324 (397)
T KOG0543|consen  259 CHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALK--LEPSN  324 (397)
T ss_pred             HhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHH--hCCCc
Confidence            4888999999999999999999999999999999999999999999999999999999987  56653

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.07  E-value=0.12  Score=42.21  Aligned_cols=85  Identities=11%  Similarity=0.003  Sum_probs=45.5

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHh----CCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhh----CCCchhHHHHHH
Q 048090          339 LVDLLCRAGELDKAWKLINEMLD----RGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALEL----DPHNVGIYVMLS  410 (447)
Q Consensus       339 l~~~~~~~g~~~~A~~~~~~~~~----~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~~~~~~~~l~  410 (447)
                      ..+.+.+..++++|-..+.+-..    ..-.++.-..|...+-.+.-..++..|..+++...+.    .|.+..+...|+
T Consensus       156 ~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL  235 (308)
T KOG1585|consen  156 CSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLL  235 (308)
T ss_pred             hhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHH
Confidence            33445555666655554443211    1111223334555555666666777777777765443    255666777777


Q ss_pred             HHHHhcCChHHHHH
Q 048090          411 NLYAKFCMWDEIGQ  424 (447)
Q Consensus       411 ~~~~~~g~~~~A~~  424 (447)
                      .+| ..|+.+++..
T Consensus       236 ~ay-d~gD~E~~~k  248 (308)
T KOG1585|consen  236 TAY-DEGDIEEIKK  248 (308)
T ss_pred             HHh-ccCCHHHHHH
Confidence            655 5566665543

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.06  E-value=0.21  Score=44.56  Aligned_cols=167  Identities=14%  Similarity=0.049  Sum_probs=106.1

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC---CCCCHHHHHHHHHHHhc---cCcHHHHHHHHHHHHHhcCCCCChhh
Q 048090          262 VVLWTSMLGVYGRNGYFKEVIKLYEAMLMNG---TKPDEVAFVTVISACSH---TGQVKLGIEYFEWMVHDYKLEPGPEH  335 (447)
Q Consensus       262 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~---~~p~~~~~~~ll~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~  335 (447)
                      ..+.-.++-+|....+++..+++.+.+...-   +.-....-....-++.+   .|+.++|.+++..+... .-.+++.+
T Consensus       141 ~div~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~-~~~~~~d~  219 (374)
T PF13281_consen  141 PDIVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLES-DENPDPDT  219 (374)
T ss_pred             hhHHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhc-cCCCChHH
Confidence            3344456667999999999999999998741   11122222234445566   89999999999996555 45678888


Q ss_pred             HHHHHHHHH----H-----cCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCC-ccHHHHHHHHH------h-hh
Q 048090          336 YSCLVDLLC----R-----AGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGK-FELGKLAAQKA------L-EL  398 (447)
Q Consensus       336 ~~~l~~~~~----~-----~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~-~~~a~~~~~~~------~-~~  398 (447)
                      |..+.+.|-    .     ....++|...|.+.-+..  |+...-.|... .+...|. .+...++-+-.      + +.
T Consensus       220 ~gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~~--~~~Y~GIN~At-LL~~~g~~~~~~~el~~i~~~l~~llg~k  296 (374)
T PF13281_consen  220 LGLLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEIE--PDYYSGINAAT-LLMLAGHDFETSEELRKIGVKLSSLLGRK  296 (374)
T ss_pred             HHHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcCC--ccccchHHHHH-HHHHcCCcccchHHHHHHHHHHHHHHHhh
Confidence            888887663    2     224788999999887665  43333233332 2233332 33222211111      1 11


Q ss_pred             C----CCchhHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 048090          399 D----PHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       399 ~----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  432 (447)
                      +    -.+--.+..++.+..-.|++++|.+..++|.+.
T Consensus       297 g~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  297 GSLEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             ccccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            1    123445677888899999999999999999875

>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=97.05  E-value=0.0099  Score=44.03  Aligned_cols=53  Identities=9%  Similarity=0.279  Sum_probs=40.8

Q ss_pred             CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHH
Q 048090          292 GTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLC  344 (447)
Q Consensus       292 ~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  344 (447)
                      ...|+..+..+++.+|+..+++..|.++.+...+.++++.+..+|..|++-..
T Consensus        47 pl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~   99 (126)
T PF12921_consen   47 PLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAY   99 (126)
T ss_pred             CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            35677888888888888888888888888888888777777777877776443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.99  E-value=0.013  Score=48.85  Aligned_cols=106  Identities=12%  Similarity=0.149  Sum_probs=63.9

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCCchHhHHHHH
Q 048090          299 AFVTVISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRG-HGSSSVSMWGALL  376 (447)
Q Consensus       299 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~p~~~~~~~~l~  376 (447)
                      .|+.-+.. .+.|++..|...|...++.+.-.+ ....+-.|..++...|++++|..+|..+.+.. -.|..+.++..|+
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            45555543 345567777777777766421111 24445566677777777777777777665543 1133334566666


Q ss_pred             HHHHhcCCccHHHHHHHHHhhhCCCchhH
Q 048090          377 SACHDCGKFELGKLAAQKALELDPHNVGI  405 (447)
Q Consensus       377 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  405 (447)
                      .+..+.|+.++|...|+++.+.-|.+..+
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~YP~t~aA  251 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKRYPGTDAA  251 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHCCCCHHH
Confidence            67777777777777777777777765543

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.94  E-value=0.071  Score=46.18  Aligned_cols=129  Identities=12%  Similarity=0.047  Sum_probs=75.9

Q ss_pred             HHHHHHHhccCcHHHHHHHHHHHHHhcCC--CC--ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCCCCch-----
Q 048090          301 VTVISACSHTGQVKLGIEYFEWMVHDYKL--EP--GPEHYSCLVDLLCRAGELDKAWKLINEMLDR--GHGSSSV-----  369 (447)
Q Consensus       301 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~p~~~-----  369 (447)
                      .++..++...+.++++++.|+...+--.-  .|  ...++-.|...|.+..++++|.-+..+..+.  .+...+.     
T Consensus       126 l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr  205 (518)
T KOG1941|consen  126 LSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYR  205 (518)
T ss_pred             hhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHH
Confidence            34555666666777777777766532111  11  2455677777777777777777666554322  1111111     


Q ss_pred             -HhHHHHHHHHHhcCCccHHHHHHHHHhhhC--CC----chhHHHHHHHHHHhcCChHHHHHHHHHH
Q 048090          370 -SMWGALLSACHDCGKFELGKLAAQKALELD--PH----NVGIYVMLSNLYAKFCMWDEIGQLRELM  429 (447)
Q Consensus       370 -~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~m  429 (447)
                       .+...+..++...|....|.+..+++.++.  ..    .......+++.|...|+.+.|+.-|+..
T Consensus       206 ~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~A  272 (518)
T KOG1941|consen  206 AMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQA  272 (518)
T ss_pred             HHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHH
Confidence             124455667777788877887777776532  22    3344556677777778777777665543

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.87  E-value=0.11  Score=45.07  Aligned_cols=232  Identities=13%  Similarity=0.026  Sum_probs=124.6

Q ss_pred             hcCCHHHHHHHHHhhhhc--CCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCC---ChhHHHHHHHHHHhcC
Q 048090          164 EAKLWAGGLELVRLMPAL--GLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGN---DVFMQSSLIEMYGKCG  238 (447)
Q Consensus       164 ~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g  238 (447)
                      ...+.++|+..+.+-...  .....-.+|..+..+.++.|.++++...--..+........   --..|..+..++-+..
T Consensus        18 ~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~l~   97 (518)
T KOG1941|consen   18 QSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKLC   97 (518)
T ss_pred             cCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445555555555544332  00112234555566666666666655432222211000111   1223444555555555


Q ss_pred             ChHHHHHHHHhhhhhcccCCCc---chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC-----CCCCHHHHHHHHHHHhcc
Q 048090          239 LVTKALQVFNLAGHRLEGEINK---DVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNG-----TKPDEVAFVTVISACSHT  310 (447)
Q Consensus       239 ~~~~A~~~~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~-----~~p~~~~~~~ll~~~~~~  310 (447)
                      ++.+++.+-+.-...  .|..|   .-....++..++...+.++++++.|+...+.-     .......+..|-..|...
T Consensus        98 ~f~kt~~y~k~~l~l--pgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l  175 (518)
T KOG1941|consen   98 EFHKTISYCKTCLGL--PGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQL  175 (518)
T ss_pred             HhhhHHHHHHHHhcC--CCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHH
Confidence            555555554422221  11111   11234456677777788888888888775431     112335677777788888


Q ss_pred             CcHHHHHHHHHHHHH---hcCCCCChhhHHH-----HHHHHHHcCCHHHHHHHHHHHH----hCCCCCCchHhHHHHHHH
Q 048090          311 GQVKLGIEYFEWMVH---DYKLEPGPEHYSC-----LVDLLCRAGELDKAWKLINEML----DRGHGSSSVSMWGALLSA  378 (447)
Q Consensus       311 ~~~~~a~~~~~~~~~---~~~~~~~~~~~~~-----l~~~~~~~g~~~~A~~~~~~~~----~~~~~p~~~~~~~~l~~~  378 (447)
                      .++++|.-+..+..+   ..++..-..-|..     +.-++...|++-.|.+..++..    ..|-.|........+...
T Consensus       176 ~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDI  255 (518)
T KOG1941|consen  176 KDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADI  255 (518)
T ss_pred             HhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHH
Confidence            888888766655432   2222221222222     2334667788777777777754    344444444456677888


Q ss_pred             HHhcCCccHHHHHHHHHhh
Q 048090          379 CHDCGKFELGKLAAQKALE  397 (447)
Q Consensus       379 ~~~~g~~~~a~~~~~~~~~  397 (447)
                      |...|+.+.|..-|+.+..
T Consensus       256 yR~~gd~e~af~rYe~Am~  274 (518)
T KOG1941|consen  256 YRSRGDLERAFRRYEQAMG  274 (518)
T ss_pred             HHhcccHhHHHHHHHHHHH
Confidence            8888988888887777655

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.86  E-value=0.21  Score=41.48  Aligned_cols=65  Identities=14%  Similarity=-0.134  Sum_probs=42.2

Q ss_pred             hhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhh
Q 048090          188 FTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHR  253 (447)
Q Consensus       188 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  253 (447)
                      ..|+..+.. .+.|++++|.+.|+.+....|.-+-...+...++.++.+.++++.|+..+++....
T Consensus        36 ~LY~~g~~~-L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~l  100 (254)
T COG4105          36 ELYNEGLTE-LQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRL  100 (254)
T ss_pred             HHHHHHHHH-HhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            344443333 35677777777777777765555555566666777777777777777777755444

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.85  E-value=0.13  Score=48.14  Aligned_cols=164  Identities=12%  Similarity=0.044  Sum_probs=100.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCCH-----HHHHHHHHHHhc----cCcHHHHHHHHHHHHHhcCCCCChh
Q 048090          265 WTSMLGVYGRNGYFKEVIKLYEAMLMNG-TKPDE-----VAFVTVISACSH----TGQVKLGIEYFEWMVHDYKLEPGPE  334 (447)
Q Consensus       265 ~~~l~~~~~~~g~~~~a~~~~~~m~~~~-~~p~~-----~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~  334 (447)
                      ...+++...-.|+-+.+++.+.+..+.+ +.-..     .+|..++..++.    ....+.|.++++.+.+.   -|+..
T Consensus       191 ~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~---yP~s~  267 (468)
T PF10300_consen  191 VLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR---YPNSA  267 (468)
T ss_pred             HHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh---CCCcH
Confidence            3445555666677777777777665532 22111     234444444433    34577788888888765   46655


Q ss_pred             hHHHH-HHHHHHcCCHHHHHHHHHHHHhC--CCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHH
Q 048090          335 HYSCL-VDLLCRAGELDKAWKLINEMLDR--GHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSN  411 (447)
Q Consensus       335 ~~~~l-~~~~~~~g~~~~A~~~~~~~~~~--~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  411 (447)
                      .|... .+.+...|++++|.+.|++....  ..+.-....+.-++..+.-..++++|...+.++.+...-+..+|..+.-
T Consensus       268 lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~WSka~Y~Y~~a  347 (468)
T PF10300_consen  268 LFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKWSKAFYAYLAA  347 (468)
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccccHHHHHHHHHH
Confidence            55433 45566778888888888876532  1112222345667777888888888888888888866555555544433


Q ss_pred             -HHHhcCCh-------HHHHHHHHHHHH
Q 048090          412 -LYAKFCMW-------DEIGQLRELMKE  431 (447)
Q Consensus       412 -~~~~~g~~-------~~A~~~~~~m~~  431 (447)
                       ++...|+.       ++|.+++.+...
T Consensus       348 ~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  348 ACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence             44567777       777777776644

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.

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.85  E-value=0.0043  Score=36.23  Aligned_cols=42  Identities=24%  Similarity=0.354  Sum_probs=34.7

Q ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHH
Q 048090          334 EHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLS  377 (447)
Q Consensus       334 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~  377 (447)
                      .++..+...|.+.|++++|.++++++++..  |++..++..++.
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~--P~~~~a~~~La~   43 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALD--PDDPEAWRALAQ   43 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--cCCHHHHHHhhh
Confidence            356778888999999999999999999887  888887776653

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.82  E-value=0.25  Score=41.85  Aligned_cols=143  Identities=13%  Similarity=0.075  Sum_probs=64.1

Q ss_pred             HHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcH
Q 048090          234 YGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQV  313 (447)
Q Consensus       234 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~  313 (447)
                      ....|++.+|...|+.....    .+.+...-..++.+|...|+.+.|..++..+-..--.........-|..+.+....
T Consensus       144 ~~~~e~~~~a~~~~~~al~~----~~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~  219 (304)
T COG3118         144 LIEAEDFGEAAPLLKQALQA----APENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAAT  219 (304)
T ss_pred             hhhccchhhHHHHHHHHHHh----CcccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcC
Confidence            34445555555555544333    22223344445555555555555555555543221111111111112222222222


Q ss_pred             HHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCC
Q 048090          314 KLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGK  384 (447)
Q Consensus       314 ~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  384 (447)
                      .+...+-.+.-.    .| |...-..+...+...|+.++|.+.+-.+++.+....+...-..|+..+.-.|.
T Consensus       220 ~~~~~l~~~~aa----dPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g~  287 (304)
T COG3118         220 PEIQDLQRRLAA----DPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFGP  287 (304)
T ss_pred             CCHHHHHHHHHh----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcCC
Confidence            222233233321    23 45555556666666677777766666666554444444445555555554443

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=96.77  E-value=0.045  Score=43.18  Aligned_cols=102  Identities=14%  Similarity=0.086  Sum_probs=79.4

Q ss_pred             HhccCcHHHHHHHHHHHHHhcCCCCC-----hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHh
Q 048090          307 CSHTGQVKLGIEYFEWMVHDYKLEPG-----PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHD  381 (447)
Q Consensus       307 ~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~  381 (447)
                      +...|++++|..-|...+..  +++.     ...|..-..++.+.+.++.|+.-..+.++.+  |....+...-..+|.+
T Consensus       105 ~F~ngdyeeA~skY~~Ale~--cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~--pty~kAl~RRAeayek  180 (271)
T KOG4234|consen  105 LFKNGDYEEANSKYQEALES--CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELN--PTYEKALERRAEAYEK  180 (271)
T ss_pred             hhhcccHHHHHHHHHHHHHh--CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcC--chhHHHHHHHHHHHHh
Confidence            56788899999888888864  2332     2345555567788999999999999999887  7777767777788999


Q ss_pred             cCCccHHHHHHHHHhhhCCCchhHHHHHHHH
Q 048090          382 CGKFELGKLAAQKALELDPHNVGIYVMLSNL  412 (447)
Q Consensus       382 ~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  412 (447)
                      ...+++|..-|+++++.+|....+....++.
T Consensus       181 ~ek~eealeDyKki~E~dPs~~ear~~i~rl  211 (271)
T KOG4234|consen  181 MEKYEEALEDYKKILESDPSRREAREAIARL  211 (271)
T ss_pred             hhhHHHHHHHHHHHHHhCcchHHHHHHHHhc
Confidence            9999999999999999999877665555543

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=96.71  E-value=0.29  Score=40.95  Aligned_cols=86  Identities=24%  Similarity=0.221  Sum_probs=37.4

Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCC-chHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHH
Q 048090          343 LCRAGELDKAWKLINEMLDRGHGSS-SVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDE  421 (447)
Q Consensus       343 ~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  421 (447)
                      +...++.+.+...+.+.....  +. ....+..+...+...++++.+...+..+....|.....+..+...+...+.+++
T Consensus       177 ~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  254 (291)
T COG0457         177 LEALGRYEEALELLEKALKLN--PDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEE  254 (291)
T ss_pred             HHHhcCHHHHHHHHHHHHhhC--cccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHH
Confidence            334444444554444444433  22 233344444444444444555555555444444433333333333334444444


Q ss_pred             HHHHHHHHH
Q 048090          422 IGQLRELMK  430 (447)
Q Consensus       422 A~~~~~~m~  430 (447)
                      +...+.+..
T Consensus       255 ~~~~~~~~~  263 (291)
T COG0457         255 ALEALEKAL  263 (291)
T ss_pred             HHHHHHHHH
Confidence            444444433

>PRK11906 transcriptional regulator; Provisional

Probab=96.70  E-value=0.21  Score=45.32  Aligned_cols=119  Identities=11%  Similarity=0.050  Sum_probs=70.3

Q ss_pred             hHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhc---------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcc
Q 048090          240 VTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRN---------GYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHT  310 (447)
Q Consensus       240 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---------g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  310 (447)
                      .+.|..+|.+...+.. ..|.....|..+..++...         ....+|.++.++..+.+ .-|+.....+..+....
T Consensus       274 ~~~Al~lf~ra~~~~~-ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~  351 (458)
T PRK11906        274 IYRAMTIFDRLQNKSD-IQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDIT-TVDGKILAIMGLITGLS  351 (458)
T ss_pred             HHHHHHHHHHHhhccc-CCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhh
Confidence            4566667775542100 1222345555555544322         22345566666666654 33666666666666667


Q ss_pred             CcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 048090          311 GQVKLGIEYFEWMVHDYKLEPG-PEHYSCLVDLLCRAGELDKAWKLINEMLDRG  363 (447)
Q Consensus       311 ~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  363 (447)
                      ++++.|...|++..   .+.|| ..+|......+.-.|+.++|.+.+++..+..
T Consensus       352 ~~~~~a~~~f~rA~---~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLs  402 (458)
T PRK11906        352 GQAKVSHILFEQAK---IHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLE  402 (458)
T ss_pred             cchhhHHHHHHHHh---hcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC
Confidence            77888888887776   44665 4455555555666788888888888776665

>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=96.70  E-value=0.15  Score=37.42  Aligned_cols=140  Identities=15%  Similarity=0.124  Sum_probs=82.3

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHH
Q 048090          273 GRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKA  352 (447)
Q Consensus       273 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  352 (447)
                      .-.|..++..++..+....   .+..-++.+|.-....-+=+-..++++.+-+-+.+.|-. -...++.+|...|.    
T Consensus        13 ildG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDis~C~-NlKrVi~C~~~~n~----   84 (161)
T PF09205_consen   13 ILDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSIGKIFDISKCG-NLKRVIECYAKRNK----   84 (161)
T ss_dssp             HHTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-GGG-S--THHHHHHHHHTT-----
T ss_pred             HHhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhhhcCchhhc-chHHHHHHHHHhcc----
Confidence            3457778888888877663   255566666655555555555666666664433222211 11233444444332    


Q ss_pred             HHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 048090          353 WKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       353 ~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  432 (447)
                                     .......-+.+...+|+-+.-.+++....+.+.+++.+...++.+|.+.|+..++-+++.+..+.
T Consensus        85 ---------------~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACek  149 (161)
T PF09205_consen   85 ---------------LSEYVDLALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKEACEK  149 (161)
T ss_dssp             -----------------HHHHHHHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHT
T ss_pred             ---------------hHHHHHHHHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHh
Confidence                           12225556677778888888888888887766778889999999999999999999999999888


Q ss_pred             CCC
Q 048090          433 GLK  435 (447)
Q Consensus       433 ~~~  435 (447)
                      |++
T Consensus       150 G~k  152 (161)
T PF09205_consen  150 GLK  152 (161)
T ss_dssp             T-H
T ss_pred             chH
Confidence            864

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.64  E-value=0.48  Score=42.61  Aligned_cols=373  Identities=10%  Similarity=-0.034  Sum_probs=201.9

Q ss_pred             HhhccCC--CCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCC
Q 048090           41 NCLKFLN--PRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWL  118 (447)
Q Consensus        41 ~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  118 (447)
                      ++=+++.  |.|+.+|-.|+.-+...+..++..+++++|..- .+--...|..-+.+-...+++...+.+|.+.+...+ 
T Consensus        30 rLRerIkdNPtnI~S~fqLiq~~~tq~s~~~~re~yeq~~~p-fp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~l-  107 (660)
T COG5107          30 RLRERIKDNPTNILSYFQLIQYLETQESMDAEREMYEQLSSP-FPIMEHAWRLYMSGELARKDFRSVESLFGRCLKKSL-  107 (660)
T ss_pred             HHHHHhhcCchhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCC-CccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhhc-
Confidence            4444443  467889999999999999999999999999764 223345677777777777899999999999887644 


Q ss_pred             CchhhHHHHHHHHHccCC---------hhhHHHHhccC--CCC-chhhHHHHHHHHH---------hcCCHHHHHHHHHh
Q 048090          119 SSVFVGSALIDLYAKLLL---------IHDAELMFDEI--PVK-NSVCANALLSGYC---------EAKLWAGGLELVRL  177 (447)
Q Consensus       119 ~~~~~~~~l~~~~~~~g~---------~~~a~~~~~~~--~~~-~~~~~~~l~~~~~---------~~~~~~~a~~~~~~  177 (447)
                       +...|...++...+.+.         +-+|.++.-..  .+| ....|+..+..+-         .+.+.+...+.|.+
T Consensus       108 -~ldLW~lYl~YIRr~n~~~tGq~r~~i~~ayefv~~~~~~e~~s~~~W~ey~~fle~~~~~~kwEeQqrid~iR~~Y~r  186 (660)
T COG5107         108 -NLDLWMLYLEYIRRVNNLITGQKRFKIYEAYEFVLGCAIFEPQSENYWDEYGLFLEYIEELGKWEEQQRIDKIRNGYMR  186 (660)
T ss_pred             -cHhHHHHHHHHHHhhCcccccchhhhhHHHHHHHHhcccccccccchHHHHHHHHHhccccccHHHHHHHHHHHHHHHH
Confidence             45566666665444431         12232222111  122 3344554443221         22344555566666


Q ss_pred             hhhcCCCCcHhhH------HHHHHH-----Hh--cCCcHHHHHHHHHHHHHhhhcCCC----ChhHHHHHHHHHHhcCCh
Q 048090          178 MPALGLDYDHFTL------SALLRA-----CA--GLSAAEFGRQVHAYMIRKCCNLGN----DVFMQSSLIEMYGKCGLV  240 (447)
Q Consensus       178 ~~~~~~~~~~~~~------~~l~~~-----~~--~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~  240 (447)
                      +...-+..-...|      ..=++-     +.  ...-+-.|...+++....-.|+..    +..+++...+.       
T Consensus       187 al~tP~~nleklW~dy~~fE~e~N~~TarKfvge~sp~ym~ar~~yqe~~nlt~Gl~v~~~~~~Rt~nK~~r~-------  259 (660)
T COG5107         187 ALQTPMGNLEKLWKDYENFELELNKITARKFVGETSPIYMSARQRYQEIQNLTRGLSVKNPINLRTANKAART-------  259 (660)
T ss_pred             HHcCccccHHHHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhccccccCchhhhhhcccccc-------
Confidence            6543111101111      111111     10  112233555555555443222221    11122221110       


Q ss_pred             HHHHHHHHhhhhhcccCC----------------------CcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH
Q 048090          241 TKALQVFNLAGHRLEGEI----------------------NKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEV  298 (447)
Q Consensus       241 ~~A~~~~~~~~~~~~~~~----------------------~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  298 (447)
                      ... ..++.++-..+.+.                      +-....|----..+...++-+.|+...+.-..  ..|...
T Consensus       260 s~S-~WlNwIkwE~en~l~L~~~~~~qRi~y~~~q~~~y~~~~~evw~dys~Y~~~isd~q~al~tv~rg~~--~spsL~  336 (660)
T COG5107         260 SDS-NWLNWIKWEMENGLKLGGRPHEQRIHYIHNQILDYFYYAEEVWFDYSEYLIGISDKQKALKTVERGIE--MSPSLT  336 (660)
T ss_pred             ccc-hhhhHhhHhhcCCcccCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhhccHHHHHHHHHHhccc--CCCchh
Confidence            000 00111000001111                      11112222222233445666677766655433  233311


Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHHh-------------cCC---------------CCChhhHHHHHHHHHHcCCHH
Q 048090          299 AFVTVISACSHTGQVKLGIEYFEWMVHD-------------YKL---------------EPGPEHYSCLVDLLCRAGELD  350 (447)
Q Consensus       299 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~-------------~~~---------------~~~~~~~~~l~~~~~~~g~~~  350 (447)
                      .  .+-..+.-..+-+.....|++..+.             .+.               ..-...|..++..-.+..-++
T Consensus       337 ~--~lse~yel~nd~e~v~~~fdk~~q~L~r~ys~~~s~~~s~~D~N~e~~~Ell~kr~~k~t~v~C~~~N~v~r~~Gl~  414 (660)
T COG5107         337 M--FLSEYYELVNDEEAVYGCFDKCTQDLKRKYSMGESESASKVDNNFEYSKELLLKRINKLTFVFCVHLNYVLRKRGLE  414 (660)
T ss_pred             e--eHHHHHhhcccHHHHhhhHHHHHHHHHHHHhhhhhhhhccccCCccccHHHHHHHHhhhhhHHHHHHHHHHHHhhHH
Confidence            1  1111222222222222222221110             001               111334566777777778899


Q ss_pred             HHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHH
Q 048090          351 KAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELM  429 (447)
Q Consensus       351 ~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  429 (447)
                      .|..+|-++.+.++...++.++++++..++ .|+...|..+|+-.+...|+++..-.-.+..+.+.++-+.|..+|+..
T Consensus       415 aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~f~d~~~y~~kyl~fLi~inde~naraLFets  492 (660)
T COG5107         415 AARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLKFPDSTLYKEKYLLFLIRINDEENARALFETS  492 (660)
T ss_pred             HHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHhCCCchHHHHHHHHHHHHhCcHHHHHHHHHHh
Confidence            999999999999977778888888888765 478888999999999999998887778888888999988898888843

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.55  E-value=0.32  Score=45.73  Aligned_cols=80  Identities=11%  Similarity=0.115  Sum_probs=47.3

Q ss_pred             HHHHHHHHHhCCCh--hhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHH
Q 048090           54 FNVVISDFCRNGSP--LYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLY  131 (447)
Q Consensus        54 ~~~l~~~~~~~~~~--~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  131 (447)
                      ++..=.+|.+-++.  -+.+.-++++++.|-.|+....   ...|+-.|.+.+|.++|.+-   |..      +..+..|
T Consensus       601 f~~ARkAY~rVRdl~~L~li~EL~~~k~rge~P~~iLl---A~~~Ay~gKF~EAAklFk~~---G~e------nRAlEmy  668 (1081)
T KOG1538|consen  601 FETARKAYIRVRDLRYLELISELEERKKRGETPNDLLL---ADVFAYQGKFHEAAKLFKRS---GHE------NRALEMY  668 (1081)
T ss_pred             hHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCchHHHH---HHHHHhhhhHHHHHHHHHHc---Cch------hhHHHHH
Confidence            45555666665543  3445556777888877886543   34566678888888877643   221      3344555


Q ss_pred             HccCChhhHHHHhc
Q 048090          132 AKLLLIHDAELMFD  145 (447)
Q Consensus       132 ~~~g~~~~a~~~~~  145 (447)
                      ...+.++.|.+++.
T Consensus       669 TDlRMFD~aQE~~~  682 (1081)
T KOG1538|consen  669 TDLRMFDYAQEFLG  682 (1081)
T ss_pred             HHHHHHHHHHHHhh
Confidence            55555555555543

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.54  E-value=0.26  Score=46.30  Aligned_cols=88  Identities=10%  Similarity=0.024  Sum_probs=40.4

Q ss_pred             CcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHH
Q 048090          201 SAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKE  280 (447)
Q Consensus       201 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  280 (447)
                      .+.+.+.++++.+.+.   .|......-.-...+...|++++|++.|+........-.......+--+.-++.-..++++
T Consensus       247 ~~~~~a~~lL~~~~~~---yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~  323 (468)
T PF10300_consen  247 VPLEEAEELLEEMLKR---YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEE  323 (468)
T ss_pred             CCHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHH
Confidence            3455566666666554   2222222222334455556666666666643221111111222233334444555556666


Q ss_pred             HHHHHHHHHhC
Q 048090          281 VIKLYEAMLMN  291 (447)
Q Consensus       281 a~~~~~~m~~~  291 (447)
                      |.+.|..+.+.
T Consensus       324 A~~~f~~L~~~  334 (468)
T PF10300_consen  324 AAEYFLRLLKE  334 (468)
T ss_pred             HHHHHHHHHhc
Confidence            66666666553

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.

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.53  E-value=0.38  Score=40.04  Aligned_cols=176  Identities=13%  Similarity=0.074  Sum_probs=94.3

Q ss_pred             HHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc-
Q 048090          231 IEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSH-  309 (447)
Q Consensus       231 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~-  309 (447)
                      +..-.+.|++++|.+.|+.+... ....+-...+--.++-++-+.++++.|...+++...........-|...|.+++. 
T Consensus        41 g~~~L~~gn~~~A~~~fe~l~~~-~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgLs~~  119 (254)
T COG4105          41 GLTELQKGNYEEAIKYFEALDSR-HPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLSYF  119 (254)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHc-CCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHh
Confidence            33445778899999999877543 1122223444555666777888899999888888776433333445555554442 


Q ss_pred             ------cCc---HHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHH
Q 048090          310 ------TGQ---VKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACH  380 (447)
Q Consensus       310 ------~~~---~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~  380 (447)
                            ..+   ...|..-|++++.+   -||..- ..         +...-+..+...+..        -=..++..|.
T Consensus       120 ~~i~~~~rDq~~~~~A~~~f~~~i~r---yPnS~Y-a~---------dA~~~i~~~~d~LA~--------~Em~IaryY~  178 (254)
T COG4105         120 FQIDDVTRDQSAARAAFAAFKELVQR---YPNSRY-AP---------DAKARIVKLNDALAG--------HEMAIARYYL  178 (254)
T ss_pred             ccCCccccCHHHHHHHHHHHHHHHHH---CCCCcc-hh---------hHHHHHHHHHHHHHH--------HHHHHHHHHH
Confidence                  122   23344445555544   233210 00         001111111111110        0124566677


Q ss_pred             hcCCccHHHHHHHHHhhhCCC---chhHHHHHHHHHHhcCChHHHHHHHHH
Q 048090          381 DCGKFELGKLAAQKALELDPH---NVGIYVMLSNLYAKFCMWDEIGQLREL  428 (447)
Q Consensus       381 ~~g~~~~a~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~  428 (447)
                      +.|.+..|..-++++++.-|.   ....+..+..+|...|-.++|...-+-
T Consensus       179 kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~v  229 (254)
T COG4105         179 KRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKV  229 (254)
T ss_pred             HhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHH
Confidence            777777777777777765444   234455666677777777776655443

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.52  E-value=0.13  Score=43.08  Aligned_cols=104  Identities=19%  Similarity=0.264  Sum_probs=63.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHH
Q 048090          264 LWTSMLGVYGRNGYFKEVIKLYEAMLMNGTK--PDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG-PEHYSCLV  340 (447)
Q Consensus       264 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~--p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~  340 (447)
                      .|+.-+.. .+.|++..|...|...++....  -....+..|..++...|+++.|..+|..+.++++-.|. +..+..|.
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            45554443 3455677777777777665321  12334556677777777777777777777666444443 45666666


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCchH
Q 048090          341 DLLCRAGELDKAWKLINEMLDRGHGSSSVS  370 (447)
Q Consensus       341 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~  370 (447)
                      .+..+.|+.++|..+|++..+.-  |....
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~Y--P~t~a  250 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKRY--PGTDA  250 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHC--CCCHH
Confidence            66777777777777777777664  54443

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.49  E-value=0.43  Score=41.19  Aligned_cols=118  Identities=13%  Similarity=-0.059  Sum_probs=57.5

Q ss_pred             cCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHh-hhcCCCChhHHHHHHHHHHhcCChHHH
Q 048090          165 AKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRK-CCNLGNDVFMQSSLIEMYGKCGLVTKA  243 (447)
Q Consensus       165 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A  243 (447)
                      .|...+|-..++++.+. .+.|...+...-.+|.-.|+.+.....++++... .++++-...+...+.-++..+|-+++|
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 RGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDDA  194 (491)
T ss_pred             cccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchhH
Confidence            45555555555555543 2344445555555555566665555555555543 111111122223333344455666666


Q ss_pred             HHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHH
Q 048090          244 LQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEA  287 (447)
Q Consensus       244 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  287 (447)
                      ++.-++..+.    .+.|.-+..+....+...|++.++.+++.+
T Consensus       195 Ek~A~ralqi----N~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~  234 (491)
T KOG2610|consen  195 EKQADRALQI----NRFDCWASHAKAHVLEMNGRHKEGKEFMYK  234 (491)
T ss_pred             HHHHHhhccC----CCcchHHHHHHHHHHHhcchhhhHHHHHHh
Confidence            6555544333    233334444455555555666665555544

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.48  E-value=0.36  Score=40.98  Aligned_cols=150  Identities=15%  Similarity=0.083  Sum_probs=104.1

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCC
Q 048090          269 LGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGE  348 (447)
Q Consensus       269 ~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  348 (447)
                      .......|++.+|..+|+........ +......++.++...|+.+.|..++..+..+ --.........-+..+.+...
T Consensus       141 ~~~~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~-~~~~~~~~l~a~i~ll~qaa~  218 (304)
T COG3118         141 AKELIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPLQ-AQDKAAHGLQAQIELLEQAAA  218 (304)
T ss_pred             hhhhhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCccc-chhhHHHHHHHHHHHHHHHhc
Confidence            34556788999999999888775322 3456667888889999999999999887533 111111222233455556666


Q ss_pred             HHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhC--CCchhHHHHHHHHHHhcCChHHHH
Q 048090          349 LDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELD--PHNVGIYVMLSNLYAKFCMWDEIG  423 (447)
Q Consensus       349 ~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~  423 (447)
                      ..+...+-++.-..   |+|...-..+...+...|+.+.|.+.+-.+++.+  -.+...-..|+..+.-.|.-+.+.
T Consensus       219 ~~~~~~l~~~~aad---Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g~~Dp~~  292 (304)
T COG3118         219 TPEIQDLQRRLAAD---PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFGPADPLV  292 (304)
T ss_pred             CCCHHHHHHHHHhC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcCCCCHHH
Confidence            66666655555554   8888888889999999999999988887777765  446777788888887777555443

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=96.47  E-value=0.42  Score=39.94  Aligned_cols=227  Identities=19%  Similarity=0.085  Sum_probs=141.5

Q ss_pred             CCHHHHHHHHHhhhhcCCC-CcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHH
Q 048090          166 KLWAGGLELVRLMPALGLD-YDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKAL  244 (447)
Q Consensus       166 ~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  244 (447)
                      +....+...+......... .....+......+...+.+..+...+...... .........+......+...+++..+.
T Consensus        37 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (291)
T COG0457          37 GELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALEL-ELLPNLAEALLNLGLLLEALGKYEEAL  115 (291)
T ss_pred             hhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHHHhhHHHHH
Confidence            3444444444444433211 12345555556666667777777666666542 012334555666666667777777777


Q ss_pred             HHHHhhhhhcccCCCcchhhHHHHHH-HHHhcCCHHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHhccCcHHHHHHHHH
Q 048090          245 QVFNLAGHRLEGEINKDVVLWTSMLG-VYGRNGYFKEVIKLYEAMLMNGT--KPDEVAFVTVISACSHTGQVKLGIEYFE  321 (447)
Q Consensus       245 ~~~~~~~~~~~~~~~~~~~~~~~l~~-~~~~~g~~~~a~~~~~~m~~~~~--~p~~~~~~~ll~~~~~~~~~~~a~~~~~  321 (447)
                      ..+......    .+.+......... .+...|+++.+...+.+......  ......+......+...++.+.+...+.
T Consensus       116 ~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  191 (291)
T COG0457         116 ELLEKALAL----DPDPDLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLE  191 (291)
T ss_pred             HHHHHHHcC----CCCcchHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHH
Confidence            777755432    1111222233333 67788888888888888755221  1233344444444667788899998888


Q ss_pred             HHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCC
Q 048090          322 WMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDP  400 (447)
Q Consensus       322 ~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  400 (447)
                      .....  ... ....+..+...+...++++.|...+.......  |.....+..+...+...+..+.+...+.+.....|
T Consensus       192 ~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  267 (291)
T COG0457         192 KALKL--NPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELD--PDNAEALYNLALLLLELGRYEEALEALEKALELDP  267 (291)
T ss_pred             HHHhh--CcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhC--cccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhCc
Confidence            88754  233 36677788888888889999999999888775  44344456666666677778999999999888887


Q ss_pred             C
Q 048090          401 H  401 (447)
Q Consensus       401 ~  401 (447)
                      .
T Consensus       268 ~  268 (291)
T COG0457         268 D  268 (291)
T ss_pred             c
Confidence            6

>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=96.44  E-value=0.27  Score=45.53  Aligned_cols=158  Identities=11%  Similarity=-0.078  Sum_probs=108.8

Q ss_pred             HHHHhCCChhhHHHHHH--HHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCC
Q 048090           59 SDFCRNGSPLYALKTFS--FMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLL  136 (447)
Q Consensus        59 ~~~~~~~~~~~a~~~~~--~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  136 (447)
                      ....-+++++.+.+..+  ++.. .+  +....+.+++.+.+.|-.+.|+++-.+         +   ..-.+...++|+
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll~-~i--~~~~~~~i~~fL~~~G~~e~AL~~~~D---------~---~~rFeLAl~lg~  333 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLLP-NI--PKDQGQSIARFLEKKGYPELALQFVTD---------P---DHRFELALQLGN  333 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTGG-G----HHHHHHHHHHHHHTT-HHHHHHHSS----------H---HHHHHHHHHCT-
T ss_pred             HHHHHcCChhhhhhhhhhhhhcc-cC--ChhHHHHHHHHHHHCCCHHHHHhhcCC---------h---HHHhHHHHhcCC
Confidence            44566889999877775  2221 12  245578888889999999999886543         2   234566788999


Q ss_pred             hhhHHHHhccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHh
Q 048090          137 IHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRK  216 (447)
Q Consensus       137 ~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  216 (447)
                      ++.|.++.+++.  +...|..|.....+.|+++-|.+.|.+..+         +..|+-.|.-.|+.+.-.++.+.....
T Consensus       334 L~~A~~~a~~~~--~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~  402 (443)
T PF04053_consen  334 LDIALEIAKELD--DPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEER  402 (443)
T ss_dssp             HHHHHHHCCCCS--THHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhcC--cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHc
Confidence            999999998887  567999999999999999999999998764         456666677788888888887776665


Q ss_pred             hhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhh
Q 048090          217 CCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLA  250 (447)
Q Consensus       217 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  250 (447)
                        |      -++....++.-.|+.++..+++.+.
T Consensus       403 --~------~~n~af~~~~~lgd~~~cv~lL~~~  428 (443)
T PF04053_consen  403 --G------DINIAFQAALLLGDVEECVDLLIET  428 (443)
T ss_dssp             --T-------HHHHHHHHHHHT-HHHHHHHHHHT
T ss_pred             --c------CHHHHHHHHHHcCCHHHHHHHHHHc
Confidence              2      2455556667779999998888743

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.

>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=96.42  E-value=0.057  Score=40.04  Aligned_cols=57  Identities=18%  Similarity=0.167  Sum_probs=43.6

Q ss_pred             CCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCC
Q 048090          328 KLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGK  384 (447)
Q Consensus       328 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  384 (447)
                      ...|+..+..+++.+|+..|++..|+++++...+.--.|-+..+|..|+.-+...-+
T Consensus        47 pl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v~s~  103 (126)
T PF12921_consen   47 PLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAYVLSS  103 (126)
T ss_pred             CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhcC
Confidence            567888999999999999999999999998876553345556678888776655443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>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=96.42  E-value=0.55  Score=40.74  Aligned_cols=127  Identities=11%  Similarity=-0.053  Sum_probs=56.1

Q ss_pred             hcCCHHHHHHHHHhhhhcC--CCCcHh-----hHHHHHHHHhcCC-cHHHHHHHHHHHHHh----hh--cCCCC-----h
Q 048090          164 EAKLWAGGLELVRLMPALG--LDYDHF-----TLSALLRACAGLS-AAEFGRQVHAYMIRK----CC--NLGND-----V  224 (447)
Q Consensus       164 ~~~~~~~a~~~~~~~~~~~--~~~~~~-----~~~~l~~~~~~~~-~~~~a~~~~~~~~~~----~~--~~~~~-----~  224 (447)
                      +.|+.+.|...+.+.....  ..|+..     .+..+.......+ +++.|...+++..+.    +.  ...++     .
T Consensus         5 ~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr~   84 (278)
T PF08631_consen    5 KQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSELRL   84 (278)
T ss_pred             hhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHHHH
Confidence            4566666666666654422  122211     1111122223344 666666666655443    10  11112     1


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 048090          225 FMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMN  291 (447)
Q Consensus       225 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  291 (447)
                      .+...++.+|...+..+...+..+.+.... +..+.....+-.-+..+.+.++.+.+.+.+.+|...
T Consensus        85 ~iL~~La~~~l~~~~~~~~~ka~~~l~~l~-~e~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~  150 (278)
T PF08631_consen   85 SILRLLANAYLEWDTYESVEKALNALRLLE-SEYGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRS  150 (278)
T ss_pred             HHHHHHHHHHHcCCChHHHHHHHHHHHHHH-HhCCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHh
Confidence            244555556666555443333222211111 112222334444445555566666666666666654

It is also involved in sporulation [].

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=96.38  E-value=0.77  Score=42.07  Aligned_cols=103  Identities=17%  Similarity=0.187  Sum_probs=63.2

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchH-hHHHHHH
Q 048090          299 AFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVS-MWGALLS  377 (447)
Q Consensus       299 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~-~~~~l~~  377 (447)
                      +-..+..++-+.|+.++|++.++++.+.+....+......|+.++...+.+.++..++.+--+... |.+.. .|+..+-
T Consensus       261 ~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~l-pkSAti~YTaALL  339 (539)
T PF04184_consen  261 AKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISL-PKSATICYTAALL  339 (539)
T ss_pred             hHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccC-CchHHHHHHHHHH
Confidence            334555666678888888888888876533222355677888888888888888888888654332 43333 2333332


Q ss_pred             HHHhcCC---------------ccHHHHHHHHHhhhCCCc
Q 048090          378 ACHDCGK---------------FELGKLAAQKALELDPHN  402 (447)
Q Consensus       378 ~~~~~g~---------------~~~a~~~~~~~~~~~~~~  402 (447)
                      -....++               -..|.+.+.++.+.+|.-
T Consensus       340 kaRav~d~fs~e~a~rRGls~ae~~aveAi~RAvefNPHV  379 (539)
T PF04184_consen  340 KARAVGDKFSPEAASRRGLSPAEMNAVEAIHRAVEFNPHV  379 (539)
T ss_pred             HHHhhccccCchhhhhcCCChhHHHHHHHHHHHHHhCCCC
Confidence            2222222               123557777887766543

The molecular function of this protein is uncertain.

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=96.38  E-value=0.78  Score=42.04  Aligned_cols=73  Identities=15%  Similarity=0.141  Sum_probs=56.7

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhC-CCchhH
Q 048090          333 PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELD-PHNVGI  405 (447)
Q Consensus       333 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~  405 (447)
                      ..+-..|..++.+.|+.++|.+.+++|.+..-.-+...+...|+.++...+.+.++..++.+.-+.. |.+..+
T Consensus       259 ~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti  332 (539)
T PF04184_consen  259 VYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATI  332 (539)
T ss_pred             hhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHH
Confidence            3334567777889999999999999998765212355578899999999999999999999987654 554443

The molecular function of this protein is uncertain.

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.32  E-value=0.2  Score=37.71  Aligned_cols=92  Identities=17%  Similarity=0.095  Sum_probs=67.1

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhCCC-CCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchh---HHHHHHHHHHh
Q 048090          340 VDLLCRAGELDKAWKLINEMLDRGH-GSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVG---IYVMLSNLYAK  415 (447)
Q Consensus       340 ~~~~~~~g~~~~A~~~~~~~~~~~~-~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~l~~~~~~  415 (447)
                      .....+.|++++|.+.|+.+...-- .|-...+-..|+.+|.+.+++++|...+++.+++.|.++.   ++...+.++.+
T Consensus        17 a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~~~   96 (142)
T PF13512_consen   17 AQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSYYE   96 (142)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHHHH
Confidence            4456788999999999999987741 1223335678999999999999999999999999987543   34444444444


Q ss_pred             cCC---------------hHHHHHHHHHHHH
Q 048090          416 FCM---------------WDEIGQLRELMKE  431 (447)
Q Consensus       416 ~g~---------------~~~A~~~~~~m~~  431 (447)
                      ...               ...|..-|+++++
T Consensus        97 ~~~~~~~~~~~~drD~~~~~~A~~~f~~lv~  127 (142)
T PF13512_consen   97 QDEGSLQSFFRSDRDPTPARQAFRDFEQLVR  127 (142)
T ss_pred             HhhhHHhhhcccccCcHHHHHHHHHHHHHHH
Confidence            443               5667777777765

>PRK11619 lytic murein transglycosylase; Provisional

Probab=96.32  E-value=1.2  Score=43.62  Aligned_cols=315  Identities=4%  Similarity=-0.140  Sum_probs=155.2

Q ss_pred             HHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhH
Q 048090           61 FCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDA  140 (447)
Q Consensus        61 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  140 (447)
                      ..+.|++..+..+...+....+. .-..|..+...+. ....++....+++-.  +.+.....-..-+..+.+.++++..
T Consensus        43 a~~~g~~~~~~~~~~~l~d~pL~-~yl~y~~L~~~l~-~~~~~ev~~Fl~~~~--~~P~~~~Lr~~~l~~La~~~~w~~~  118 (644)
T PRK11619         43 AWDNRQMDVVEQLMPTLKDYPLY-PYLEYRQLTQDLM-NQPAVQVTNFIRANP--TLPPARSLQSRFVNELARREDWRGL  118 (644)
T ss_pred             HHHCCCHHHHHHHHHhccCCCcH-hHHHHHHHHhccc-cCCHHHHHHHHHHCC--CCchHHHHHHHHHHHHHHccCHHHH
Confidence            35677888877777766433221 1122333322211 223443333333211  1233333334455566778888888


Q ss_pred             HHHhccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcC
Q 048090          141 ELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNL  220 (447)
Q Consensus       141 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  220 (447)
                      ...+..- ..+.........+....|+.++|....+.+-..| ...+..+..++..+.+.|.+.... +++++...-  .
T Consensus       119 ~~~~~~~-p~~~~~~c~~~~A~~~~G~~~~A~~~a~~lW~~g-~~~p~~cd~l~~~~~~~g~lt~~d-~w~R~~~al--~  193 (644)
T PRK11619        119 LAFSPEK-PKPVEARCNYYYAKWATGQQQEAWQGAKELWLTG-KSLPNACDKLFSVWQQSGKQDPLA-YLERIRLAM--K  193 (644)
T ss_pred             HHhcCCC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-CCCChHHHHHHHHHHHcCCCCHHH-HHHHHHHHH--H
Confidence            8844333 4466666777888888999888877777765554 344566777777777555443322 222222210  0


Q ss_pred             CCChhHHHHHHHHH-----------H-hcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHH--hcCCHHHHHHHHH
Q 048090          221 GNDVFMQSSLIEMY-----------G-KCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYG--RNGYFKEVIKLYE  286 (447)
Q Consensus       221 ~~~~~~~~~l~~~~-----------~-~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~g~~~~a~~~~~  286 (447)
                      ..+...-..+...+           . -..++..+...+.        ..+++...-...+-++.  ...+.+.|..++.
T Consensus       194 ~~~~~lA~~l~~~l~~~~~~~a~a~~al~~~p~~~~~~~~--------~~~~~~~~~~~~~~~l~Rlar~d~~~A~~~~~  265 (644)
T PRK11619        194 AGNTGLVTYLAKQLPADYQTIASALIKLQNDPNTVETFAR--------TTGPTDFTRQMAAVAFASVARQDAENARLMIP  265 (644)
T ss_pred             CCCHHHHHHHHHhcChhHHHHHHHHHHHHHCHHHHHHHhh--------ccCCChhhHHHHHHHHHHHHHhCHHHHHHHHH
Confidence            01111111111111           0 0111222222221        01122211111122222  2345577888887


Q ss_pred             HHHhCC-CCCCH--HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 048090          287 AMLMNG-TKPDE--VAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRG  363 (447)
Q Consensus       287 ~m~~~~-~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  363 (447)
                      ...... ..+..  .+...+.......+..+++...++.....   ..+......-++...+.++++.+...+..|....
T Consensus       266 ~~~~~~~~~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~~---~~~~~~~e~r~r~Al~~~dw~~~~~~i~~L~~~~  342 (644)
T PRK11619        266 SLVRAQKLNEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIMR---SQSTSLLERRVRMALGTGDRRGLNTWLARLPMEA  342 (644)
T ss_pred             HHHHhcCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHhcccc---cCCcHHHHHHHHHHHHccCHHHHHHHHHhcCHhh
Confidence            764442 22222  22333333333332245566666654322   2344445555555667888888888887775433


Q ss_pred             CCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhh
Q 048090          364 HGSSSVSMWGALLSACHDCGKFELGKLAAQKALE  397 (447)
Q Consensus       364 ~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  397 (447)
                        .....-..=++.++...|+.++|...|+++..
T Consensus       343 --~~~~rw~YW~aRa~~~~g~~~~A~~~~~~~a~  374 (644)
T PRK11619        343 --KEKDEWRYWQADLLLEQGRKAEAEEILRQLMQ  374 (644)
T ss_pred             --ccCHhhHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence              12333344566776677888888888887643

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=96.29  E-value=0.045  Score=43.20  Aligned_cols=90  Identities=20%  Similarity=0.226  Sum_probs=76.8

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCchH-----hHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHh
Q 048090          341 DLLCRAGELDKAWKLINEMLDRGHGSSSVS-----MWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAK  415 (447)
Q Consensus       341 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~-----~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  415 (447)
                      .-+.+.|++++|..-|.+++...  |+...     .|..-..++.+.+.++.|..-..++++++|....+...-+.+|.+
T Consensus       103 N~~F~ngdyeeA~skY~~Ale~c--p~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek  180 (271)
T KOG4234|consen  103 NELFKNGDYEEANSKYQEALESC--PSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEK  180 (271)
T ss_pred             HHhhhcccHHHHHHHHHHHHHhC--ccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHh
Confidence            34678999999999999998875  54332     355566788999999999999999999999999888888999999


Q ss_pred             cCChHHHHHHHHHHHHc
Q 048090          416 FCMWDEIGQLRELMKEK  432 (447)
Q Consensus       416 ~g~~~~A~~~~~~m~~~  432 (447)
                      ..++++|++-|+++...
T Consensus       181 ~ek~eealeDyKki~E~  197 (271)
T KOG4234|consen  181 MEKYEEALEDYKKILES  197 (271)
T ss_pred             hhhHHHHHHHHHHHHHh
Confidence            99999999999988763

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=96.27  E-value=0.84  Score=41.25  Aligned_cols=150  Identities=12%  Similarity=0.064  Sum_probs=75.3

Q ss_pred             cchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC---CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC--hh
Q 048090          260 KDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKP---DEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG--PE  334 (447)
Q Consensus       260 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p---~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~  334 (447)
                      ....+|..++..+.+.|+++.|...+..+...+..+   ++.....-+...-..|+..+|...++..... .+..+  ..
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~-~~~~~~~~~  222 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKC-RLSKNIDSI  222 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHH-Hhhhccccc
Confidence            344566677777777777777777777766543111   2233333444555667777777777666652 11111  11


Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhc------CCccHHHHHHHHHhhhCCCchhHHHH
Q 048090          335 HYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDC------GKFELGKLAAQKALELDPHNVGIYVM  408 (447)
Q Consensus       335 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~------g~~~~a~~~~~~~~~~~~~~~~~~~~  408 (447)
                      ....+......  ..+.....-   ........-..++..++..+...      +..+.+...|+++.+..|.....|..
T Consensus       223 ~~~~~~~~~~~--~~~~~~~~~---~~~~~~~~~a~~~l~~a~w~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~k~~~~  297 (352)
T PF02259_consen  223 SNAELKSGLLE--SLEVISSTN---LDKESKELKAKAFLLLAKWLDELYSKLSSESSDEILKYYKEATKLDPSWEKAWHS  297 (352)
T ss_pred             cHHHHhhcccc--ccccccccc---hhhhhHHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHhChhHHHHHHH
Confidence            11111110000  000000000   00000000111244444444444      77888888999999988888888888


Q ss_pred             HHHHHHh
Q 048090          409 LSNLYAK  415 (447)
Q Consensus       409 l~~~~~~  415 (447)
                      ++..+.+
T Consensus       298 ~a~~~~~  304 (352)
T PF02259_consen  298 WALFNDK  304 (352)
T ss_pred             HHHHHHH
Confidence            7776654

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.23  E-value=0.083  Score=38.52  Aligned_cols=94  Identities=13%  Similarity=-0.041  Sum_probs=62.1

Q ss_pred             HHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhc
Q 048090          196 ACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRN  275 (447)
Q Consensus       196 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  275 (447)
                      +++..|+++.|.+.|.+.+..   .+.....||.-.+++.-.|+.++|++=+++..+........--.+|..-...|...
T Consensus        52 alaE~g~Ld~AlE~F~qal~l---~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~  128 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCL---APERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLL  128 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHh---cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHh
Confidence            456678888888888877775   44577788888888888888888887777655542221111222344444556677


Q ss_pred             CCHHHHHHHHHHHHhCC
Q 048090          276 GYFKEVIKLYEAMLMNG  292 (447)
Q Consensus       276 g~~~~a~~~~~~m~~~~  292 (447)
                      |+.+.|..-|+..-+.|
T Consensus       129 g~dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  129 GNDDAARADFEAAAQLG  145 (175)
T ss_pred             CchHHHHHhHHHHHHhC
Confidence            77777777777776655

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=96.17  E-value=0.011  Score=32.03  Aligned_cols=31  Identities=35%  Similarity=0.400  Sum_probs=20.7

Q ss_pred             hHHHHHHHHHhcCCccHHHHHHHHHhhhCCC
Q 048090          371 MWGALLSACHDCGKFELGKLAAQKALELDPH  401 (447)
Q Consensus       371 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  401 (447)
                      +|..++.++...|++++|...++++++.+|.
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            4666677777777777777777777776664

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 ....

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=96.08  E-value=0.015  Score=31.44  Aligned_cols=31  Identities=39%  Similarity=0.463  Sum_probs=19.5

Q ss_pred             hHHHHHHHHHhcCCccHHHHHHHHHhhhCCC
Q 048090          371 MWGALLSACHDCGKFELGKLAAQKALELDPH  401 (447)
Q Consensus       371 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  401 (447)
                      +|..++.++...|++++|.+.+++++++.|+
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~   33 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALELDPN   33 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHCcC
Confidence            3556666666666666666666666666664

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 ....

>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=96.03  E-value=0.9  Score=39.44  Aligned_cols=102  Identities=14%  Similarity=0.016  Sum_probs=52.5

Q ss_pred             hHHHHHHHHhcCCcHH---HHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhH
Q 048090          189 TLSALLRACAGLSAAE---FGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLW  265 (447)
Q Consensus       189 ~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  265 (447)
                      ++..++.++...+..+   +|..+++.+...   .+..+.++..-+..+.+.++.+.+.+++..|...    ..-....+
T Consensus        86 iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e---~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~----~~~~e~~~  158 (278)
T PF08631_consen   86 ILRLLANAYLEWDTYESVEKALNALRLLESE---YGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRS----VDHSESNF  158 (278)
T ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHHHHHh---CCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHh----cccccchH
Confidence            4455566666555443   455555555444   2223445555566666677777777777765442    22233445


Q ss_pred             HHHHHHHHh--cCCHHHHHHHHHHHHhCCCCCCH
Q 048090          266 TSMLGVYGR--NGYFKEVIKLYEAMLMNGTKPDE  297 (447)
Q Consensus       266 ~~l~~~~~~--~g~~~~a~~~~~~m~~~~~~p~~  297 (447)
                      ..++..+..  ......+...+..+....+.|..
T Consensus       159 ~~~l~~i~~l~~~~~~~a~~~ld~~l~~r~~~~~  192 (278)
T PF08631_consen  159 DSILHHIKQLAEKSPELAAFCLDYLLLNRFKSSE  192 (278)
T ss_pred             HHHHHHHHHHHhhCcHHHHHHHHHHHHHHhCCCh
Confidence            544444421  12234555555555544444444

It is also involved in sporulation [].

>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=95.90  E-value=0.64  Score=43.10  Aligned_cols=131  Identities=15%  Similarity=0.086  Sum_probs=61.3

Q ss_pred             hHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHH
Q 048090          189 TLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSM  268 (447)
Q Consensus       189 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l  268 (447)
                      -...++..+.+.|-.+.|.++...-..+              .....+.|+++.|.++.+         ...+...|..|
T Consensus       297 ~~~~i~~fL~~~G~~e~AL~~~~D~~~r--------------FeLAl~lg~L~~A~~~a~---------~~~~~~~W~~L  353 (443)
T PF04053_consen  297 QGQSIARFLEKKGYPELALQFVTDPDHR--------------FELALQLGNLDIALEIAK---------ELDDPEKWKQL  353 (443)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHSS-HHHH--------------HHHHHHCT-HHHHHHHCC---------CCSTHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHhhcCChHHH--------------hHHHHhcCCHHHHHHHHH---------hcCcHHHHHHH
Confidence            3455555555666666665543322111              223445566666665543         22345566666


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCC
Q 048090          269 LGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGE  348 (447)
Q Consensus       269 ~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  348 (447)
                      .....+.|+++-|++.|.+..+         |..|+-.|.-.|+.+...++.+..... |      -++....++.-.|+
T Consensus       354 g~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~-~------~~n~af~~~~~lgd  417 (443)
T PF04053_consen  354 GDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEER-G------DINIAFQAALLLGD  417 (443)
T ss_dssp             HHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHT-T-------HHHHHHHHHHHT-
T ss_pred             HHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHc-c------CHHHHHHHHHHcCC
Confidence            6666666666666666655321         233333444455555544444444332 1      13333444444555


Q ss_pred             HHHHHHHHHH
Q 048090          349 LDKAWKLINE  358 (447)
Q Consensus       349 ~~~A~~~~~~  358 (447)
                      .++..+++.+
T Consensus       418 ~~~cv~lL~~  427 (443)
T PF04053_consen  418 VEECVDLLIE  427 (443)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            5555555443

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=95.90  E-value=0.08  Score=44.25  Aligned_cols=98  Identities=11%  Similarity=0.155  Sum_probs=75.7

Q ss_pred             HHHhhccCC--CCCCccHHHHHHHHHhC-----CChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCC-----------
Q 048090           39 LTNCLKFLN--PRNPLPFNVVISDFCRN-----GSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVK-----------  100 (447)
Q Consensus        39 A~~~~~~~~--~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~-----------  100 (447)
                      ..+.|...+  .+|-.+|-..+..+...     +.++-....++.|.+.|+.-|..+|+.|++.+-+..           
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            345566665  46777788777777543     566777778899999999999999999999875542           


Q ss_pred             -----chhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCC
Q 048090          101 -----DARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLL  136 (447)
Q Consensus       101 -----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  136 (447)
                           +-+-+..++++|...|+.||.++-..|+.++.+.+-
T Consensus       133 ~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  133 LHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             hhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence                 234477888999999999999988888888887765

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=95.73  E-value=0.0097  Score=32.32  Aligned_cols=32  Identities=9%  Similarity=0.227  Sum_probs=24.7

Q ss_pred             HHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHH
Q 048090          356 INEMLDRGHGSSSVSMWGALLSACHDCGKFELGK  389 (447)
Q Consensus       356 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  389 (447)
                      |++.++.+  |++..+|+.++..+...|++++|+
T Consensus         2 y~kAie~~--P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    2 YKKAIELN--PNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             hHHHHHHC--CCCHHHHHHHHHHHHHCcCHHhhc
Confidence            45566655  888888888888888888888775

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=95.54  E-value=0.036  Score=43.11  Aligned_cols=112  Identities=18%  Similarity=0.087  Sum_probs=65.5

Q ss_pred             HHHHHHHHHHHHHhcCCCCChhhHHHHHHHHH---HcCC-------HHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhc
Q 048090          313 VKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLC---RAGE-------LDKAWKLINEMLDRGHGSSSVSMWGALLSACHDC  382 (447)
Q Consensus       313 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~---~~g~-------~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~  382 (447)
                      ++.|.+..+......  +.|...++.-..++.   ....       +++|..-|++.+..+  |+...++..++.++...
T Consensus         7 FE~ark~aea~y~~n--P~DadnL~~WG~ALLELAqfk~g~es~~miedAisK~eeAL~I~--P~~hdAlw~lGnA~ts~   82 (186)
T PF06552_consen    7 FEHARKKAEAAYAKN--PLDADNLTNWGGALLELAQFKQGPESKKMIEDAISKFEEALKIN--PNKHDALWCLGNAYTSL   82 (186)
T ss_dssp             HHHHHHHHHHHHHH---TT-HHHHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHHH---TT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC--cHhHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHHH
Confidence            556666666654441  334554444443433   3333       445555566666665  88888899999988876


Q ss_pred             CC-----------ccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC
Q 048090          383 GK-----------FELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLK  435 (447)
Q Consensus       383 g~-----------~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  435 (447)
                      +.           +++|...|+++...+|.|......|       .-.++|-++..++.+.+..
T Consensus        83 A~l~~d~~~A~~~F~kA~~~FqkAv~~~P~ne~Y~ksL-------e~~~kap~lh~e~~~~~~~  139 (186)
T PF06552_consen   83 AFLTPDTAEAEEYFEKATEYFQKAVDEDPNNELYRKSL-------EMAAKAPELHMEIHKQGLG  139 (186)
T ss_dssp             HHH---HHHHHHHHHHHHHHHHHHHHH-TT-HHHHHHH-------HHHHTHHHHHHHHHHSSS-
T ss_pred             HhhcCChHHHHHHHHHHHHHHHHHHhcCCCcHHHHHHH-------HHHHhhHHHHHHHHHHHhh
Confidence            63           5677777788888888777544333       2556677787777766543

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=95.50  E-value=0.098  Score=44.45  Aligned_cols=62  Identities=13%  Similarity=0.146  Sum_probs=34.3

Q ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhh
Q 048090          334 EHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALE  397 (447)
Q Consensus       334 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  397 (447)
                      .++..++..+...|+++.+.+.++++....  |-+...|..++.+|.+.|+...|+..|+++.+
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~d--p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~  215 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELD--PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKK  215 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcC--ccchHHHHHHHHHHHHcCCchHHHHHHHHHHH
Confidence            344455555555555555555555555554  55555555555555555555555555555544

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=95.22  E-value=0.17  Score=40.61  Aligned_cols=127  Identities=17%  Similarity=0.122  Sum_probs=86.4

Q ss_pred             CCCCCCHHHHHHHHH--HHhccCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCC
Q 048090          291 NGTKPDEVAFVTVIS--ACSHTGQVKLGIEYFEWMVHDYKLEPG-PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSS  367 (447)
Q Consensus       291 ~~~~p~~~~~~~ll~--~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~  367 (447)
                      .+..|+...-...=+  .|-..|-+..|..-|....   .+.|+ +..||.|.--+...|+++.|.+.|+...+.+  |.
T Consensus        57 ~~l~~eeRA~l~fERGvlYDSlGL~~LAR~DftQaL---ai~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELD--p~  131 (297)
T COG4785          57 RALTDEERAQLLFERGVLYDSLGLRALARNDFSQAL---AIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD--PT  131 (297)
T ss_pred             ccCChHHHHHHHHHhcchhhhhhHHHHHhhhhhhhh---hcCCCcHHHHHHHHHHHHhcccchHHHHHhhhHhccC--Cc
Confidence            345555543322222  2445666777777776666   46776 7788888888889999999999999998887  76


Q ss_pred             chHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHh--cCChHHHHHH
Q 048090          368 SVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAK--FCMWDEIGQL  425 (447)
Q Consensus       368 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~--~g~~~~A~~~  425 (447)
                      ...++..-+-++.--|++..|.+-+.+..+.+|+||.   ..++.|..  .-+..+|..-
T Consensus       132 y~Ya~lNRgi~~YY~gR~~LAq~d~~~fYQ~D~~DPf---R~LWLYl~E~k~dP~~A~tn  188 (297)
T COG4785         132 YNYAHLNRGIALYYGGRYKLAQDDLLAFYQDDPNDPF---RSLWLYLNEQKLDPKQAKTN  188 (297)
T ss_pred             chHHHhccceeeeecCchHhhHHHHHHHHhcCCCChH---HHHHHHHHHhhCCHHHHHHH
Confidence            6655555566667788999999999888888888773   22233433  3355556543

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=95.22  E-value=1.6  Score=36.63  Aligned_cols=161  Identities=16%  Similarity=0.167  Sum_probs=79.5

Q ss_pred             ChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhC---CC--CCCHHHHHHHHHHHhccCcH
Q 048090          239 LVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMN---GT--KPDEVAFVTVISACSHTGQV  313 (447)
Q Consensus       239 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~---~~--~p~~~~~~~ll~~~~~~~~~  313 (447)
                      ++++|+.-|++..++......-.-.+...++....+.+++++....+.+|...   .+  .-+....++++...+.+.+.
T Consensus        42 ~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS~~m  121 (440)
T KOG1464|consen   42 EPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTSKNM  121 (440)
T ss_pred             CHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhhhhh
Confidence            55566666655444321111222223445566666666766666666665431   01  12344556666655555555


Q ss_pred             HHHHHHHHHHHHhcCCCCCh----hhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCC----------CCchHhHHHHHHHH
Q 048090          314 KLGIEYFEWMVHDYKLEPGP----EHYSCLVDLLCRAGELDKAWKLINEMLDRGHG----------SSSVSMWGALLSAC  379 (447)
Q Consensus       314 ~~a~~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~----------p~~~~~~~~l~~~~  379 (447)
                      +.-.+.++.-.....-..+.    .|-..|...|...|.+.+...+++++......          ..-..+|..-++.|
T Consensus       122 ~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQmY  201 (440)
T KOG1464|consen  122 DLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQMY  201 (440)
T ss_pred             HHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhhhh
Confidence            54444444332211111121    22244555666666666666666665432110          11122455556666


Q ss_pred             HhcCCccHHHHHHHHHhhhC
Q 048090          380 HDCGKFELGKLAAQKALELD  399 (447)
Q Consensus       380 ~~~g~~~~a~~~~~~~~~~~  399 (447)
                      ....+-..-..++++++...
T Consensus       202 T~qKnNKkLK~lYeqalhiK  221 (440)
T KOG1464|consen  202 TEQKNNKKLKALYEQALHIK  221 (440)
T ss_pred             hhhcccHHHHHHHHHHHHhh
Confidence            66666666667777666543

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.19  E-value=1  Score=34.30  Aligned_cols=88  Identities=8%  Similarity=-0.053  Sum_probs=45.8

Q ss_pred             ccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHH
Q 048090           52 LPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLY  131 (447)
Q Consensus        52 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  131 (447)
                      .....++..+...+.+......++.+...+. .+...++.++..+++.+. ....+.+..      ..+......+++.|
T Consensus         8 ~~~~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~~-~~ll~~l~~------~~~~yd~~~~~~~c   79 (140)
T smart00299        8 IDVSEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYDP-QKEIERLDN------KSNHYDIEKVGKLC   79 (140)
T ss_pred             CCHHHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHCH-HHHHHHHHh------ccccCCHHHHHHHH
Confidence            3345566666666667777777776666552 455566666666655432 222222221      11222233455555


Q ss_pred             HccCChhhHHHHhccC
Q 048090          132 AKLLLIHDAELMFDEI  147 (447)
Q Consensus       132 ~~~g~~~~a~~~~~~~  147 (447)
                      .+.+.++++..++.++
T Consensus        80 ~~~~l~~~~~~l~~k~   95 (140)
T smart00299       80 EKAKLYEEAVELYKKD   95 (140)
T ss_pred             HHcCcHHHHHHHHHhh
Confidence            5555555555555554

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=95.19  E-value=2.6  Score=38.91  Aligned_cols=179  Identities=12%  Similarity=0.095  Sum_probs=105.4

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 048090          223 DVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVT  302 (447)
Q Consensus       223 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~  302 (447)
                      |.....+++..+..+..+.-.+.+..++..     ...+...+..++.+|..+ ..++-..+|+++.+..  .+...+..
T Consensus        65 ~d~~l~~~~~~f~~n~k~~~veh~c~~~l~-----~~e~kmal~el~q~y~en-~n~~l~~lWer~ve~d--fnDvv~~R  136 (711)
T COG1747          65 DDSCLVTLLTIFGDNHKNQIVEHLCTRVLE-----YGESKMALLELLQCYKEN-GNEQLYSLWERLVEYD--FNDVVIGR  136 (711)
T ss_pred             cchHHHHHHHHhccchHHHHHHHHHHHHHH-----hcchHHHHHHHHHHHHhc-CchhhHHHHHHHHHhc--chhHHHHH
Confidence            444555666666666666666666655544     344566677777777777 5567777777777743  33333333


Q ss_pred             HHHHHhccCcHHHHHHHHHHHHHhcCCCCC------hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHH
Q 048090          303 VISACSHTGQVKLGIEYFEWMVHDYKLEPG------PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALL  376 (447)
Q Consensus       303 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~  376 (447)
                      -+..+...++.+.+..+|.++..+  +.|.      ...|..|...  -..+.+..+.+..++....-.-.-...+.-+-
T Consensus       137 eLa~~yEkik~sk~a~~f~Ka~yr--fI~~~q~~~i~evWeKL~~~--i~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~  212 (711)
T COG1747         137 ELADKYEKIKKSKAAEFFGKALYR--FIPRRQNAAIKEVWEKLPEL--IGDDKDFFLRLQKKIQTKLGEGRGSVLMQDVY  212 (711)
T ss_pred             HHHHHHHHhchhhHHHHHHHHHHH--hcchhhhhhHHHHHHHHHHh--ccccHHHHHHHHHHHHHhhccchHHHHHHHHH
Confidence            333344447777777777777654  2331      2234444421  13456666666666654432222233355555


Q ss_pred             HHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHH
Q 048090          377 SACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLY  413 (447)
Q Consensus       377 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  413 (447)
                      .-|....++++|.+++...++.+..|.-+...++..+
T Consensus       213 ~~Ys~~eN~~eai~Ilk~il~~d~k~~~ar~~~i~~l  249 (711)
T COG1747         213 KKYSENENWTEAIRILKHILEHDEKDVWARKEIIENL  249 (711)
T ss_pred             HHhccccCHHHHHHHHHHHhhhcchhhhHHHHHHHHH
Confidence            6677777888888888877777766666666665544

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.17  E-value=1  Score=34.26  Aligned_cols=124  Identities=12%  Similarity=0.132  Sum_probs=57.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHc
Q 048090          267 SMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRA  346 (447)
Q Consensus       267 ~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  346 (447)
                      .++..+...+.......+++.+...+. .+....+.++..|++.+ .......++.       ..+.......++.|.+.
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~-~~~ll~~l~~-------~~~~yd~~~~~~~c~~~   82 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYD-PQKEIERLDN-------KSNHYDIEKVGKLCEKA   82 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHC-HHHHHHHHHh-------ccccCCHHHHHHHHHHc
Confidence            444555555556666666666655542 34455555555555432 2222233221       11222233355555555


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhc-CCccHHHHHHHHHhhhCCCchhHHHHHHHHHH
Q 048090          347 GELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDC-GKFELGKLAAQKALELDPHNVGIYVMLSNLYA  414 (447)
Q Consensus       347 g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~-g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  414 (447)
                      +.++++..++.++..          +...+..+... ++++.|.+++++     +.++..|..++..+.
T Consensus        83 ~l~~~~~~l~~k~~~----------~~~Al~~~l~~~~d~~~a~~~~~~-----~~~~~lw~~~~~~~l  136 (140)
T smart00299       83 KLYEEAVELYKKDGN----------FKDAIVTLIEHLGNYEKAIEYFVK-----QNNPELWAEVLKALL  136 (140)
T ss_pred             CcHHHHHHHHHhhcC----------HHHHHHHHHHcccCHHHHHHHHHh-----CCCHHHHHHHHHHHH
Confidence            666666665555421          11222222222 555555555553     224555555555443

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=95.15  E-value=0.13  Score=44.26  Aligned_cols=92  Identities=14%  Similarity=0.151  Sum_probs=42.4

Q ss_pred             HhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCc
Q 048090          307 CSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKF  385 (447)
Q Consensus       307 ~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  385 (447)
                      |.++|.+++|+.-|....   .+.| +..++..-..+|.+..++..|+.-...++..+  ..-..+|..-+.+-...|..
T Consensus       107 yFKQgKy~EAIDCYs~~i---a~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd--~~Y~KAYSRR~~AR~~Lg~~  181 (536)
T KOG4648|consen  107 YFKQGKYEEAIDCYSTAI---AVYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALD--KLYVKAYSRRMQARESLGNN  181 (536)
T ss_pred             hhhccchhHHHHHhhhhh---ccCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhh--HHHHHHHHHHHHHHHHHhhH
Confidence            344555555555554443   2233 44444444444555555555544444444332  11222344444444444555


Q ss_pred             cHHHHHHHHHhhhCCCch
Q 048090          386 ELGKLAAQKALELDPHNV  403 (447)
Q Consensus       386 ~~a~~~~~~~~~~~~~~~  403 (447)
                      .+|.+-++.++++.|.+.
T Consensus       182 ~EAKkD~E~vL~LEP~~~  199 (536)
T KOG4648|consen  182 MEAKKDCETVLALEPKNI  199 (536)
T ss_pred             HHHHHhHHHHHhhCcccH
Confidence            555555555555555543

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=95.14  E-value=2.9  Score=39.33  Aligned_cols=181  Identities=12%  Similarity=0.057  Sum_probs=106.2

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC--CCHHHHHH
Q 048090          225 FMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTK--PDEVAFVT  302 (447)
Q Consensus       225 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~--p~~~~~~~  302 (447)
                      .+|...+..-...|+.+.+.-.|+.....    ...-...|--.+.-....|+.+-|..++....+--++  |....+.+
T Consensus       298 ~nw~~yLdf~i~~g~~~~~~~l~ercli~----cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a  373 (577)
T KOG1258|consen  298 KNWRYYLDFEITLGDFSRVFILFERCLIP----CALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEA  373 (577)
T ss_pred             HHHHHHhhhhhhcccHHHHHHHHHHHHhH----HhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHH
Confidence            44555555556666666666666643221    2222333444444444456666666666555443222  22222222


Q ss_pred             HHHHHhccCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHH---HHHHHHHhCCCCCCchHhHHHHHH-
Q 048090          303 VISACSHTGQVKLGIEYFEWMVHDYKLEPG-PEHYSCLVDLLCRAGELDKAW---KLINEMLDRGHGSSSVSMWGALLS-  377 (447)
Q Consensus       303 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~---~~~~~~~~~~~~p~~~~~~~~l~~-  377 (447)
                      .  .+-..|++..|..+++.+..+  . |+ ...-..-+....+.|+.+.+.   +++.......   .+..+...+.- 
T Consensus       374 ~--f~e~~~n~~~A~~~lq~i~~e--~-pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~---~~~~i~~~l~~~  445 (577)
T KOG1258|consen  374 R--FEESNGNFDDAKVILQRIESE--Y-PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGK---ENNGILEKLYVK  445 (577)
T ss_pred             H--HHHhhccHHHHHHHHHHHHhh--C-CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhcccc---cCcchhHHHHHH
Confidence            2  234567999999999999876  3 65 333333445566788888877   4443333221   12222222222 


Q ss_pred             ----HHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcC
Q 048090          378 ----ACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFC  417 (447)
Q Consensus       378 ----~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  417 (447)
                          -+.-.++.+.|..++.++.+..|++...|..+++.....+
T Consensus       446 ~~r~~~~i~~d~~~a~~~l~~~~~~~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  446 FARLRYKIREDADLARIILLEANDILPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             HHHHHHHHhcCHHHHHHHHHHhhhcCCccHHHHHHHHHHHHhCC
Confidence                2334678899999999999999999999999998877665

>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=95.05  E-value=0.21  Score=39.74  Aligned_cols=65  Identities=14%  Similarity=0.070  Sum_probs=30.5

Q ss_pred             HHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhc
Q 048090          190 LSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRL  254 (447)
Q Consensus       190 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  254 (447)
                      +..+...|.+.|+.+.|.+.|.++.....+...-...+..++......+++..+...+.++....
T Consensus        39 ~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~  103 (177)
T PF10602_consen   39 LEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLI  103 (177)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHH
Confidence            44444455555555555555555444311111122334445555555555555555555444443

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.

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=95.02  E-value=0.99  Score=33.27  Aligned_cols=59  Identities=15%  Similarity=0.210  Sum_probs=24.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHH
Q 048090          266 TSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVH  325 (447)
Q Consensus       266 ~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  325 (447)
                      ...+..+...|+-+.-.+++..+.+. -.+++.....+..+|.+.|+..++.+++.++-+
T Consensus        90 D~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACe  148 (161)
T PF09205_consen   90 DLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACE  148 (161)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHH
Confidence            33444444455555555555544432 234444444444455555555555555444443

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=95.01  E-value=0.13  Score=41.96  Aligned_cols=101  Identities=12%  Similarity=0.034  Sum_probs=66.5

Q ss_pred             HhccCcHHHHHHHHHHHHHhcCCCCChhh-HHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCc
Q 048090          307 CSHTGQVKLGIEYFEWMVHDYKLEPGPEH-YSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKF  385 (447)
Q Consensus       307 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  385 (447)
                      |....+++.|+.-|.+.+   -+.|+..+ |..=+.++.+..+++.+.+=..+.++..  |+.+.....+..+......+
T Consensus        20 ~f~~k~y~~ai~~y~raI---~~nP~~~~Y~tnralchlk~~~~~~v~~dcrralql~--~N~vk~h~flg~~~l~s~~~   94 (284)
T KOG4642|consen   20 CFIPKRYDDAIDCYSRAI---CINPTVASYYTNRALCHLKLKHWEPVEEDCRRALQLD--PNLVKAHYFLGQWLLQSKGY   94 (284)
T ss_pred             ccchhhhchHHHHHHHHH---hcCCCcchhhhhHHHHHHHhhhhhhhhhhHHHHHhcC--hHHHHHHHHHHHHHHhhccc
Confidence            555566777777666665   34666533 4555666777777777777777776655  77777777777777777778


Q ss_pred             cHHHHHHHHHhhhC-----CCchhHHHHHHHH
Q 048090          386 ELGKLAAQKALELD-----PHNVGIYVMLSNL  412 (447)
Q Consensus       386 ~~a~~~~~~~~~~~-----~~~~~~~~~l~~~  412 (447)
                      ++|+..++++.++.     ++...+...|..+
T Consensus        95 ~eaI~~Lqra~sl~r~~~~~~~~di~~~L~~a  126 (284)
T KOG4642|consen   95 DEAIKVLQRAYSLLREQPFTFGDDIPKALRDA  126 (284)
T ss_pred             cHHHHHHHHHHHHHhcCCCCCcchHHHHHHHH
Confidence            88888877775532     2244556666544

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=95.00  E-value=5  Score=41.19  Aligned_cols=80  Identities=21%  Similarity=0.302  Sum_probs=39.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH--HHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHH
Q 048090          268 MLGVYGRNGYFKEVIKLYEAMLMNGTKPDEV--AFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCR  345 (447)
Q Consensus       268 l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~--~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  345 (447)
                      .+.+|...|+|.+|+.+..++...   -+..  +-..|+.-+...+++-+|-++..+...+    |     ...+..|++
T Consensus       971 Al~a~~~~~dWr~~l~~a~ql~~~---~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd----~-----~~av~ll~k 1038 (1265)
T KOG1920|consen  971 ALKAYKECGDWREALSLAAQLSEG---KDELVILAEELVSRLVEQRKHYEAAKILLEYLSD----P-----EEAVALLCK 1038 (1265)
T ss_pred             HHHHHHHhccHHHHHHHHHhhcCC---HHHHHHHHHHHHHHHHHcccchhHHHHHHHHhcC----H-----HHHHHHHhh
Confidence            344555566666666665555321   1111  1134555555666666666665555322    1     223344555


Q ss_pred             cCCHHHHHHHHHHH
Q 048090          346 AGELDKAWKLINEM  359 (447)
Q Consensus       346 ~g~~~~A~~~~~~~  359 (447)
                      ...+++|..+....
T Consensus      1039 a~~~~eAlrva~~~ 1052 (1265)
T KOG1920|consen 1039 AKEWEEALRVASKA 1052 (1265)
T ss_pred             HhHHHHHHHHHHhc
Confidence            55566666555443

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=95.00  E-value=0.087  Score=45.30  Aligned_cols=93  Identities=13%  Similarity=0.023  Sum_probs=78.6

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChH
Q 048090          341 DLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWD  420 (447)
Q Consensus       341 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  420 (447)
                      ..|.+.|.+++|+..|.+.+...  |-++.++..-..+|.+...+..|+.-...++.++..-..+|+.-+.+-...|+..
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia~~--P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~Y~KAYSRR~~AR~~Lg~~~  182 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIAVY--PHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKLYVKAYSRRMQARESLGNNM  182 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhccC--CCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHhhHH
Confidence            45889999999999999988776  8788889999999999999999999999999888767777888888777888888


Q ss_pred             HHHHHHHHHHHcCCCCC
Q 048090          421 EIGQLRELMKEKGLKKD  437 (447)
Q Consensus       421 ~A~~~~~~m~~~~~~p~  437 (447)
                      +|.+-++....  ++|+
T Consensus       183 EAKkD~E~vL~--LEP~  197 (536)
T KOG4648|consen  183 EAKKDCETVLA--LEPK  197 (536)
T ss_pred             HHHHhHHHHHh--hCcc
Confidence            88877777665  4444

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.89  E-value=0.034  Score=30.67  Aligned_cols=25  Identities=12%  Similarity=0.082  Sum_probs=14.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHH
Q 048090          406 YVMLSNLYAKFCMWDEIGQLRELMK  430 (447)
Q Consensus       406 ~~~l~~~~~~~g~~~~A~~~~~~m~  430 (447)
                      |..|+..|.+.|++++|++++++..
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4556666666666666666666643

>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=94.86  E-value=0.047  Score=29.51  Aligned_cols=30  Identities=30%  Similarity=0.336  Sum_probs=21.0

Q ss_pred             hHHHHHHHHHhcCCccHHHHHHHHHhhhCC
Q 048090          371 MWGALLSACHDCGKFELGKLAAQKALELDP  400 (447)
Q Consensus       371 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  400 (447)
                      +|..++..+...|++++|...|+++++..|
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            366667777777777777777777776666

...

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.73  E-value=0.052  Score=29.91  Aligned_cols=25  Identities=20%  Similarity=0.150  Sum_probs=14.7

Q ss_pred             HHHHHHHHHhcCCccHHHHHHHHHh
Q 048090          372 WGALLSACHDCGKFELGKLAAQKAL  396 (447)
Q Consensus       372 ~~~l~~~~~~~g~~~~a~~~~~~~~  396 (447)
                      |..|+..|.+.|++++|..++++++
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4556666666666666666666643

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=94.70  E-value=3.2  Score=37.50  Aligned_cols=153  Identities=12%  Similarity=0.017  Sum_probs=85.5

Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--HHH
Q 048090          222 NDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPD--EVA  299 (447)
Q Consensus       222 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~  299 (447)
                      ....++..++..+.+.|+++.|...+..+...........+...-.-+..+...|+..+|+..++.........+  ...
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~~~~~~~~~~~  223 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKCRLSKNIDSIS  223 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcccccc
Confidence            456688899999999999999999998765432111222445555567777889999999999999887433322  111


Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHc------CCHHHHHHHHHHHHhCCCCCCchHhHH
Q 048090          300 FVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRA------GELDKAWKLINEMLDRGHGSSSVSMWG  373 (447)
Q Consensus       300 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~------g~~~~A~~~~~~~~~~~~~p~~~~~~~  373 (447)
                      ...+......  ..+.....-  .... ....-...+..+..-....      +..+++...|.++....  |.....|.
T Consensus       224 ~~~~~~~~~~--~~~~~~~~~--~~~~-~~~~~a~~~l~~a~w~~~~~~~~~~~~~~~~~~~~~~a~~~~--~~~~k~~~  296 (352)
T PF02259_consen  224 NAELKSGLLE--SLEVISSTN--LDKE-SKELKAKAFLLLAKWLDELYSKLSSESSDEILKYYKEATKLD--PSWEKAWH  296 (352)
T ss_pred             HHHHhhcccc--ccccccccc--hhhh-hHHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHhC--hhHHHHHH
Confidence            1111111100  000000000  0000 0000112233333333333      77888888998888775  76666677


Q ss_pred             HHHHHHHh
Q 048090          374 ALLSACHD  381 (447)
Q Consensus       374 ~l~~~~~~  381 (447)
                      .+...+.+
T Consensus       297 ~~a~~~~~  304 (352)
T PF02259_consen  297 SWALFNDK  304 (352)
T ss_pred             HHHHHHHH
Confidence            66666544

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>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=94.56  E-value=0.63  Score=35.82  Aligned_cols=117  Identities=16%  Similarity=0.049  Sum_probs=68.6

Q ss_pred             HHHHHHHH---HHhccCcHHHHHHHHHHHHHhcCCCCChhhH-HHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHH
Q 048090          298 VAFVTVIS---ACSHTGQVKLGIEYFEWMVHDYKLEPGPEHY-SCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWG  373 (447)
Q Consensus       298 ~~~~~ll~---~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~  373 (447)
                      .+.+.|+.   .-...++.+.+..+++.+.   -+.|..... ..-...+...|++.+|..+|+++....  |..+. -.
T Consensus         8 ~iv~gLie~~~~al~~~~~~D~e~lL~ALr---vLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~--~~~p~-~k   81 (160)
T PF09613_consen    8 EIVGGLIEVLSVALRLGDPDDAEALLDALR---VLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERA--PGFPY-AK   81 (160)
T ss_pred             HHHHHHHHHHHHHHccCChHHHHHHHHHHH---HhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccC--CCChH-HH
Confidence            34445554   3457789999999999987   356753322 222344789999999999999988776  54444 34


Q ss_pred             HHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHH
Q 048090          374 ALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEI  422 (447)
Q Consensus       374 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  422 (447)
                      .|+..|....+-..=...-+++++.++ ++.+. .++..+........|
T Consensus        82 ALlA~CL~~~~D~~Wr~~A~evle~~~-d~~a~-~Lv~~Ll~~~~~~~a  128 (160)
T PF09613_consen   82 ALLALCLYALGDPSWRRYADEVLESGA-DPDAR-ALVRALLARADLEPA  128 (160)
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHhcCC-ChHHH-HHHHHHHHhccccch
Confidence            455444443333334444555555553 33333 333344444444444

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=94.53  E-value=2.2  Score=37.20  Aligned_cols=62  Identities=16%  Similarity=0.171  Sum_probs=33.3

Q ss_pred             HHHHHHHHHHHhCCCCCC--HHHHHHHHHHHhccCc--HHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 048090          279 KEVIKLYEAMLMNGTKPD--EVAFVTVISACSHTGQ--VKLGIEYFEWMVHDYKLEPGPEHYSCLVD  341 (447)
Q Consensus       279 ~~a~~~~~~m~~~~~~p~--~~~~~~ll~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  341 (447)
                      +.++.+|+.+.+.|...+  ......++..+.....  ...+.++++.+.+. ++++....|..+.-
T Consensus       160 ~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~-~~kik~~~yp~lGl  225 (297)
T PF13170_consen  160 ERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKN-GVKIKYMHYPTLGL  225 (297)
T ss_pred             HHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHc-CCccccccccHHHH
Confidence            455666666666665443  2333344433322222  34566677777665 77776666655543

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=94.50  E-value=0.49  Score=40.36  Aligned_cols=79  Identities=15%  Similarity=0.133  Sum_probs=57.8

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCCCHH
Q 048090          224 VFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLM-----NGTKPDEV  298 (447)
Q Consensus       224 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~-----~~~~p~~~  298 (447)
                      ..++..++..+...|+.+.+...++.+...    .+-+...|..+|.+|.+.|+...|+..|+.+.+     .|+.|...
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~----dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~  228 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIEL----DPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPE  228 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhc----CccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHH
Confidence            345666777788888888888888877665    666777888888888888888888888887755     36777666


Q ss_pred             HHHHHHHH
Q 048090          299 AFVTVISA  306 (447)
Q Consensus       299 ~~~~ll~~  306 (447)
                      +.......
T Consensus       229 ~~~~y~~~  236 (280)
T COG3629         229 LRALYEEI  236 (280)
T ss_pred             HHHHHHHH
Confidence            55544443

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.33  E-value=0.12  Score=27.84  Aligned_cols=28  Identities=21%  Similarity=0.231  Sum_probs=25.1

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          404 GIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       404 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      .+|..++.+|...|++++|+..+++..+
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            5789999999999999999999999987

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 ....

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.32  E-value=0.12  Score=27.77  Aligned_cols=28  Identities=18%  Similarity=0.191  Sum_probs=24.9

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          404 GIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       404 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      .++..++.+|...|++++|++.+++..+
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            5688999999999999999999999886

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 ....

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=94.31  E-value=0.6  Score=39.29  Aligned_cols=31  Identities=10%  Similarity=0.082  Sum_probs=15.0

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 048090          277 YFKEVIKLYEAMLMNGTKPDEVAFVTVISAC  307 (447)
Q Consensus       277 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  307 (447)
                      .++=....++.|.+.|+.-|..+|..|+..+
T Consensus        87 HveFIy~ALk~m~eyGVerDl~vYk~Llnvf  117 (406)
T KOG3941|consen   87 HVEFIYTALKYMKEYGVERDLDVYKGLLNVF  117 (406)
T ss_pred             hHHHHHHHHHHHHHhcchhhHHHHHHHHHhC
Confidence            3344444445555555555555555555443

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.18  E-value=6.3  Score=38.83  Aligned_cols=131  Identities=10%  Similarity=-0.035  Sum_probs=79.3

Q ss_pred             cchHHHhhccCCCCCCccHH----HHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHH
Q 048090           36 LGTLTNCLKFLNPRNPLPFN----VVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAH  111 (447)
Q Consensus        36 ~~~A~~~~~~~~~~~~~~~~----~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  111 (447)
                      +..|..+-+...- ++..-.    .-.+-+-+.|++++|...|-+-... +.|+     .++.-+.....+..--.+++.
T Consensus       350 y~~Ai~LAk~~~~-d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~s-----~Vi~kfLdaq~IknLt~YLe~  422 (933)
T KOG2114|consen  350 YKVAINLAKSQHL-DEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEPS-----EVIKKFLDAQRIKNLTSYLEA  422 (933)
T ss_pred             HHHHHHHHHhcCC-CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CChH-----HHHHHhcCHHHHHHHHHHHHH
Confidence            6777777665432 222222    2334456678999998888766543 3332     245556666677777778888


Q ss_pred             HHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCCCCchhh--HHHHHHHHHhcCCHHHHHHHH
Q 048090          112 VTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVC--ANALLSGYCEAKLWAGGLELV  175 (447)
Q Consensus       112 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~a~~~~  175 (447)
                      +.+.|+.-... -..|+.+|.+.++.++-.++.+..... ...  ....+..+.+.+-.++|..+-
T Consensus       423 L~~~gla~~dh-ttlLLncYiKlkd~~kL~efI~~~~~g-~~~fd~e~al~Ilr~snyl~~a~~LA  486 (933)
T KOG2114|consen  423 LHKKGLANSDH-TTLLLNCYIKLKDVEKLTEFISKCDKG-EWFFDVETALEILRKSNYLDEAELLA  486 (933)
T ss_pred             HHHcccccchh-HHHHHHHHHHhcchHHHHHHHhcCCCc-ceeeeHHHHHHHHHHhChHHHHHHHH
Confidence            88888654333 366888999988888888877776521 111  233444444455555544443

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=94.14  E-value=1.7  Score=34.21  Aligned_cols=108  Identities=17%  Similarity=0.146  Sum_probs=59.8

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc---cCc-------HHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHc
Q 048090          278 FKEVIKLYEAMLMNGTKPDEVAFVTVISACSH---TGQ-------VKLGIEYFEWMVHDYKLEPG-PEHYSCLVDLLCRA  346 (447)
Q Consensus       278 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~---~~~-------~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~  346 (447)
                      ++.|.+.++.-...+ +.|...++.-..++..   ...       +++|+.-|++.+   .+.|+ ..++..+..+|...
T Consensus         7 FE~ark~aea~y~~n-P~DadnL~~WG~ALLELAqfk~g~es~~miedAisK~eeAL---~I~P~~hdAlw~lGnA~ts~   82 (186)
T PF06552_consen    7 FEHARKKAEAAYAKN-PLDADNLTNWGGALLELAQFKQGPESKKMIEDAISKFEEAL---KINPNKHDALWCLGNAYTSL   82 (186)
T ss_dssp             HHHHHHHHHHHHHH--TT-HHHHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHH---HH-TT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-cHhHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHH---hcCCchHHHHHHHHHHHHHH
Confidence            456666666655443 3355554444444433   333       344555555555   35787 67888888888754


Q ss_pred             CC-----------HHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhh
Q 048090          347 GE-----------LDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALEL  398 (447)
Q Consensus       347 g~-----------~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  398 (447)
                      +.           +++|.+.|++.....  |++.. |+.-+....+      |-++..++.+.
T Consensus        83 A~l~~d~~~A~~~F~kA~~~FqkAv~~~--P~ne~-Y~ksLe~~~k------ap~lh~e~~~~  136 (186)
T PF06552_consen   83 AFLTPDTAEAEEYFEKATEYFQKAVDED--PNNEL-YRKSLEMAAK------APELHMEIHKQ  136 (186)
T ss_dssp             HHH---HHHHHHHHHHHHHHHHHHHHH---TT-HH-HHHHHHHHHT------HHHHHHHHHHS
T ss_pred             HhhcCChHHHHHHHHHHHHHHHHHHhcC--CCcHH-HHHHHHHHHh------hHHHHHHHHHH
Confidence            32           556666777777766  76665 7766666543      56666665553

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=94.02  E-value=2.8  Score=34.08  Aligned_cols=161  Identities=16%  Similarity=0.126  Sum_probs=78.1

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHH
Q 048090          261 DVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLV  340 (447)
Q Consensus       261 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  340 (447)
                      -+.+||-+.-.+...|+++.|.+.|+...+....-+-...|.-| ++.-.|+++.|.+-+...-+...-.|-...|.-++
T Consensus        98 m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi-~~YY~gR~~LAq~d~~~fYQ~D~~DPfR~LWLYl~  176 (297)
T COG4785          98 MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGI-ALYYGGRYKLAQDDLLAFYQDDPNDPFRSLWLYLN  176 (297)
T ss_pred             cHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccce-eeeecCchHhhHHHHHHHHhcCCCChHHHHHHHHH
Confidence            35567777777777777777777777777643221211111111 23345777777766655544322233233333333


Q ss_pred             HHHHHcCCHHHHHH-HHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCc-------hhHHHHHHHH
Q 048090          341 DLLCRAGELDKAWK-LINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHN-------VGIYVMLSNL  412 (447)
Q Consensus       341 ~~~~~~g~~~~A~~-~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-------~~~~~~l~~~  412 (447)
                      .   ..-++.+|.. +.++....     +..-|...+..+.- |++. .+.+++++.....++       ..+|..|+.-
T Consensus       177 E---~k~dP~~A~tnL~qR~~~~-----d~e~WG~~iV~~yL-gkiS-~e~l~~~~~a~a~~n~~~Ae~LTEtyFYL~K~  246 (297)
T COG4785         177 E---QKLDPKQAKTNLKQRAEKS-----DKEQWGWNIVEFYL-GKIS-EETLMERLKADATDNTSLAEHLTETYFYLGKY  246 (297)
T ss_pred             H---hhCCHHHHHHHHHHHHHhc-----cHhhhhHHHHHHHH-hhcc-HHHHHHHHHhhccchHHHHHHHHHHHHHHHHH
Confidence            2   2223444443 33333332     11123332222221 2221 122333333222222       3467777777


Q ss_pred             HHhcCChHHHHHHHHHHHHc
Q 048090          413 YAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       413 ~~~~g~~~~A~~~~~~m~~~  432 (447)
                      |...|+.++|..+|+-....
T Consensus       247 ~l~~G~~~~A~~LfKLaian  266 (297)
T COG4785         247 YLSLGDLDEATALFKLAVAN  266 (297)
T ss_pred             HhccccHHHHHHHHHHHHHH
Confidence            77888888887777766543

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=93.91  E-value=5.2  Score=36.92  Aligned_cols=246  Identities=9%  Similarity=-0.011  Sum_probs=134.9

Q ss_pred             HHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcC------CcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHH
Q 048090          169 AGGLELVRLMPALGLDYDHFTLSALLRACAGL------SAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTK  242 (447)
Q Consensus       169 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~------~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  242 (447)
                      +....+|++..+.  -|+...+...|..|...      ..+.....+++.......-.+.....|..+.-.+.......+
T Consensus       299 s~~~~v~ee~v~~--l~t~sm~e~YI~~~lE~~~~~r~~~I~h~~~~~~~~~~~~~l~~~~~~~ys~~~l~~~t~~~~r~  376 (568)
T KOG2396|consen  299 SRCCAVYEEAVKT--LPTESMWECYITFCLERFTFLRGKRILHTMCVFRKAHELKLLSECLYKQYSVLLLCLNTLNEARE  376 (568)
T ss_pred             HHHHHHHHHHHHH--hhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHhccchHhH
Confidence            3444666666553  45555565555555322      234455556665555432222334556666666666555444


Q ss_pred             HHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcC-CHHH-HHHHHHHHHhCCCCCCHHHHHHHHHHHhccCc-HHHH--H
Q 048090          243 ALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNG-YFKE-VIKLYEAMLMNGTKPDEVAFVTVISACSHTGQ-VKLG--I  317 (447)
Q Consensus       243 A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~-a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~-~~~a--~  317 (447)
                      +...+.  .+    +...+...|..-++...+.. +++- -..++......-..+-...++...     .++ +...  .
T Consensus       377 ~a~~l~--~e----~f~~s~k~~~~kl~~~~~s~sD~q~~f~~l~n~~r~~~~s~~~~~w~s~~-----~~dsl~~~~~~  445 (568)
T KOG2396|consen  377 VAVKLT--TE----LFRDSGKMWQLKLQVLIESKSDFQMLFEELFNHLRKQVCSELLISWASAS-----EGDSLQEDTLD  445 (568)
T ss_pred             HHHHhh--HH----HhcchHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHhcchhHHHHHHHh-----hccchhHHHHH
Confidence            333332  01    24455566655555444321 2221 122333333321222223333333     122 1111  1


Q ss_pred             HHHHHHHHhcCCCCChhhH-HHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHh--cCCccHHHHHHHH
Q 048090          318 EYFEWMVHDYKLEPGPEHY-SCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHD--CGKFELGKLAAQK  394 (447)
Q Consensus       318 ~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~--~g~~~~a~~~~~~  394 (447)
                      .++.....  -..|+..++ +.+++-+.+.|-..+|...+..+....  |.+...|..+++.-..  ..+...+..+|+.
T Consensus       446 ~Ii~a~~s--~~~~~~~tl~s~~l~~~~e~~~~~~ark~y~~l~~lp--p~sl~l~r~miq~e~~~~sc~l~~~r~~yd~  521 (568)
T KOG2396|consen  446 LIISALLS--VIGADSVTLKSKYLDWAYESGGYKKARKVYKSLQELP--PFSLDLFRKMIQFEKEQESCNLANIREYYDR  521 (568)
T ss_pred             HHHHHHHH--hcCCceeehhHHHHHHHHHhcchHHHHHHHHHHHhCC--CccHHHHHHHHHHHhhHhhcCchHHHHHHHH
Confidence            12222222  234554443 667777888888999999999988775  7777777777765432  2347778888888


Q ss_pred             HhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          395 ALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       395 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      ++...-.++..|......-...|..+.+-.++.+..+
T Consensus       522 a~~~fg~d~~lw~~y~~~e~~~g~~en~~~~~~ra~k  558 (568)
T KOG2396|consen  522 ALREFGADSDLWMDYMKEELPLGRPENCGQIYWRAMK  558 (568)
T ss_pred             HHHHhCCChHHHHHHHHhhccCCCcccccHHHHHHHH
Confidence            8876557888888888777788888888777666654

>PRK09687 putative lyase; Provisional

Probab=93.69  E-value=4.3  Score=35.21  Aligned_cols=244  Identities=10%  Similarity=-0.048  Sum_probs=154.0

Q ss_pred             HHHhhccCCCCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCch----hHHHHHHHHHHH
Q 048090           39 LTNCLKFLNPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDA----RFGKQVQAHVTK  114 (447)
Q Consensus        39 A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~----~~a~~~~~~~~~  114 (447)
                      ...+++.+..+|.......+.++...|. ..+...+..+...   +|...=...+.+++..|+.    .++...+..+..
T Consensus        25 ~~~L~~~L~d~d~~vR~~A~~aL~~~~~-~~~~~~l~~ll~~---~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~  100 (280)
T PRK09687         25 DDELFRLLDDHNSLKRISSIRVLQLRGG-QDVFRLAIELCSS---KNPIERDIGADILSQLGMAKRCQDNVFNILNNLAL  100 (280)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHhcCc-chHHHHHHHHHhC---CCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHh
Confidence            3445555667888888888888887775 4455555555543   3555555566667777653    457777776644


Q ss_pred             cCCCCchhhHHHHHHHHHccCCh-----hhHHHHhcc-CCCCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHh
Q 048090          115 SGWLSSVFVGSALIDLYAKLLLI-----HDAELMFDE-IPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHF  188 (447)
Q Consensus       115 ~~~~~~~~~~~~l~~~~~~~g~~-----~~a~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  188 (447)
                      .  .++..+-...+.++...+..     ..+...+.. +..++..+-...+.++.+.++ +.++..+-.+.+   .++..
T Consensus       101 ~--D~d~~VR~~A~~aLG~~~~~~~~~~~~a~~~l~~~~~D~~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~---d~~~~  174 (280)
T PRK09687        101 E--DKSACVRASAINATGHRCKKNPLYSPKIVEQSQITAFDKSTNVRFAVAFALSVIND-EAAIPLLINLLK---DPNGD  174 (280)
T ss_pred             c--CCCHHHHHHHHHHHhcccccccccchHHHHHHHHHhhCCCHHHHHHHHHHHhccCC-HHHHHHHHHHhc---CCCHH
Confidence            3  56666666677777665432     233444433 335566677777888888776 456666666665   35555


Q ss_pred             hHHHHHHHHhcCC-cHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHH
Q 048090          189 TLSALLRACAGLS-AAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTS  267 (447)
Q Consensus       189 ~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  267 (447)
                      .-...+.++.+.+ ....+...+..+...     ++..+....+.++.+.|+.. |...+-....      .++  ....
T Consensus       175 VR~~A~~aLg~~~~~~~~~~~~L~~~L~D-----~~~~VR~~A~~aLg~~~~~~-av~~Li~~L~------~~~--~~~~  240 (280)
T PRK09687        175 VRNWAAFALNSNKYDNPDIREAFVAMLQD-----KNEEIRIEAIIGLALRKDKR-VLSVLIKELK------KGT--VGDL  240 (280)
T ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHhcC-----CChHHHHHHHHHHHccCChh-HHHHHHHHHc------CCc--hHHH
Confidence            6666666666553 234566666666543     47777888888898888854 4444442211      122  3456


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc
Q 048090          268 MLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSH  309 (447)
Q Consensus       268 l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  309 (447)
                      .+.++...|.. +|...+..+.+.  .||..+-...+.+|.+
T Consensus       241 a~~ALg~ig~~-~a~p~L~~l~~~--~~d~~v~~~a~~a~~~  279 (280)
T PRK09687        241 IIEAAGELGDK-TLLPVLDTLLYK--FDDNEIITKAIDKLKR  279 (280)
T ss_pred             HHHHHHhcCCH-hHHHHHHHHHhh--CCChhHHHHHHHHHhc
Confidence            78889999995 788888888874  4577777777766643

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.58  E-value=3.1  Score=33.20  Aligned_cols=115  Identities=13%  Similarity=0.053  Sum_probs=73.3

Q ss_pred             HHHHHHHHHHhCCCCCCHHHH--HHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC----hhhHHHHHHHHHHcCCHHHHH
Q 048090          280 EVIKLYEAMLMNGTKPDEVAF--VTVISACSHTGQVKLGIEYFEWMVHDYKLEPG----PEHYSCLVDLLCRAGELDKAW  353 (447)
Q Consensus       280 ~a~~~~~~m~~~~~~p~~~~~--~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~  353 (447)
                      +.....+++...+....-.++  ..+...+...+++++|...++.....   ..|    ...-..|.+.....|.+++|+
T Consensus        70 ~~~~~~ekf~~~n~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l~~---t~De~lk~l~~lRLArvq~q~~k~D~AL  146 (207)
T COG2976          70 KSIAAAEKFVQANGKTIYAVLAALELAKAEVEANNLDKAEAQLKQALAQ---TKDENLKALAALRLARVQLQQKKADAAL  146 (207)
T ss_pred             hhHHHHHHHHhhccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHcc---chhHHHHHHHHHHHHHHHHHhhhHHHHH
Confidence            444455555543212111122  23344667888899998888877632   222    122234556677888999999


Q ss_pred             HHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCC
Q 048090          354 KLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDP  400 (447)
Q Consensus       354 ~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  400 (447)
                      ..++.....++.   ......-+.++...|+-++|+..|+++++.++
T Consensus       147 ~~L~t~~~~~w~---~~~~elrGDill~kg~k~~Ar~ay~kAl~~~~  190 (207)
T COG2976         147 KTLDTIKEESWA---AIVAELRGDILLAKGDKQEARAAYEKALESDA  190 (207)
T ss_pred             HHHhccccccHH---HHHHHHhhhHHHHcCchHHHHHHHHHHHHccC
Confidence            998887776532   22355667788889999999999999888763

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.49  E-value=2.9  Score=32.62  Aligned_cols=132  Identities=15%  Similarity=0.159  Sum_probs=80.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChh-hHHHHH
Q 048090          263 VLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDE-VAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPE-HYSCLV  340 (447)
Q Consensus       263 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~l~  340 (447)
                      ..|..-+. +.+.+..++|+.-|..+.+.|...-+ .............|+...|...|+++-.+ .-.|-.. -...|-
T Consensus        60 d~flaAL~-lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~d-t~~P~~~rd~ARlr  137 (221)
T COG4649          60 DAFLAALK-LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAAD-TSIPQIGRDLARLR  137 (221)
T ss_pred             HHHHHHHH-HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhcc-CCCcchhhHHHHHH
Confidence            33443333 35567778888888888777644211 11222333456778888888888888755 2223221 222222


Q ss_pred             H--HHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhh
Q 048090          341 D--LLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALE  397 (447)
Q Consensus       341 ~--~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  397 (447)
                      .  .+...|-++....-++.+...+- |-....-..|.-+-.+.|++..|...|+.+..
T Consensus       138 aa~lLvD~gsy~dV~srvepLa~d~n-~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         138 AAYLLVDNGSYDDVSSRVEPLAGDGN-PMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             HHHHHhccccHHHHHHHhhhccCCCC-hhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            2  24567778777777776655442 54555567777888888888888888887766

>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=93.38  E-value=2.4  Score=33.79  Aligned_cols=96  Identities=9%  Similarity=-0.076  Sum_probs=57.8

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCc--HhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHH-
Q 048090          153 VCANALLSGYCEAKLWAGGLELVRLMPALGLDYD--HFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSS-  229 (447)
Q Consensus       153 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~-  229 (447)
                      ..+..+...|.+.|+.+.|++.|.++.+....+.  ...+..+++.....+++..+.....++...... ..|....+. 
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~-~~d~~~~nrl  115 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEK-GGDWERRNRL  115 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhc-cchHHHHHHH
Confidence            4566777778888888888888888776543333  234556677777778888887777776664211 111111111 


Q ss_pred             -H--HHHHHhcCChHHHHHHHHh
Q 048090          230 -L--IEMYGKCGLVTKALQVFNL  249 (447)
Q Consensus       230 -l--~~~~~~~g~~~~A~~~~~~  249 (447)
                       .  .-.+...+++..|-+.|-.
T Consensus       116 k~~~gL~~l~~r~f~~AA~~fl~  138 (177)
T PF10602_consen  116 KVYEGLANLAQRDFKEAAELFLD  138 (177)
T ss_pred             HHHHHHHHHHhchHHHHHHHHHc
Confidence             1  1123446777777777763

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.

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=93.36  E-value=0.15  Score=27.14  Aligned_cols=28  Identities=14%  Similarity=0.107  Sum_probs=14.1

Q ss_pred             HHHHHHHHhcCCccHHHHHHHHHhhhCC
Q 048090          373 GALLSACHDCGKFELGKLAAQKALELDP  400 (447)
Q Consensus       373 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~  400 (447)
                      ..++.++.+.|++++|...++++++..|
T Consensus         4 ~~~a~~~~~~g~~~~A~~~~~~~~~~~P   31 (33)
T PF13174_consen    4 YRLARCYYKLGDYDEAIEYFQRLIKRYP   31 (33)
T ss_dssp             HHHHHHHHHHCHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHCc
Confidence            3344445555555555555555555444

>KOG1308 consensus Hsp70-interacting protein Hip/Transient component of progesterone receptor complexes and an Hsp70-binding protein [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=93.30  E-value=0.049  Score=46.82  Aligned_cols=87  Identities=16%  Similarity=0.099  Sum_probs=44.1

Q ss_pred             ccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHH
Q 048090          309 HTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELG  388 (447)
Q Consensus       309 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  388 (447)
                      ..|.++.|++.|...+..  -++....|..-..++.+.++...|++=+...+..+  |+...-|-.-..+....|++++|
T Consensus       126 n~G~~~~ai~~~t~ai~l--np~~a~l~~kr~sv~lkl~kp~~airD~d~A~ein--~Dsa~~ykfrg~A~rllg~~e~a  201 (377)
T KOG1308|consen  126 NDGEFDTAIELFTSAIEL--NPPLAILYAKRASVFLKLKKPNAAIRDCDFAIEIN--PDSAKGYKFRGYAERLLGNWEEA  201 (377)
T ss_pred             cCcchhhhhccccccccc--CCchhhhcccccceeeeccCCchhhhhhhhhhccC--cccccccchhhHHHHHhhchHHH
Confidence            345555555555555432  12234444444445555555555555555555544  44444444444455555555555


Q ss_pred             HHHHHHHhhhC
Q 048090          389 KLAAQKALELD  399 (447)
Q Consensus       389 ~~~~~~~~~~~  399 (447)
                      ...+..+.+++
T Consensus       202 a~dl~~a~kld  212 (377)
T KOG1308|consen  202 AHDLALACKLD  212 (377)
T ss_pred             HHHHHHHHhcc
Confidence            55555555554

>KOG2471 consensus TPR repeat-containing protein [General function prediction only]

Probab=93.20  E-value=6.9  Score=36.08  Aligned_cols=110  Identities=12%  Similarity=-0.025  Sum_probs=70.4

Q ss_pred             HhccCcHHHHHHHHHHHH--HhcCCCCC-----hhhHHHHHHHHHHcCCHHHHHHHHHHHHh-------CCCCCCc----
Q 048090          307 CSHTGQVKLGIEYFEWMV--HDYKLEPG-----PEHYSCLVDLLCRAGELDKAWKLINEMLD-------RGHGSSS----  368 (447)
Q Consensus       307 ~~~~~~~~~a~~~~~~~~--~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~~~~p~~----  368 (447)
                      +.-.|++..|.+++...-  +..|...+     -..||.|.-.+.+.|.+..+..+|.+.++       .|++|..    
T Consensus       250 eY~~gn~~kA~KlL~~sni~~~~g~~~T~q~~~cif~NNlGcIh~~~~~y~~~~~~F~kAL~N~c~qL~~g~~~~~~~tl  329 (696)
T KOG2471|consen  250 EYAHGNHPKAMKLLLVSNIHKEAGGTITPQLSSCIFNNNLGCIHYQLGCYQASSVLFLKALRNSCSQLRNGLKPAKTFTL  329 (696)
T ss_pred             HHHhcchHHHHHHHHhcccccccCccccchhhhheeecCcceEeeehhhHHHHHHHHHHHHHHHHHHHhccCCCCcceeh
Confidence            344678888877765431  11111111     12235555445566666666666665543       4544422    


Q ss_pred             -----hHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhc
Q 048090          369 -----VSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKF  416 (447)
Q Consensus       369 -----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  416 (447)
                           ..+.+..+-.|...|++-.|.+.|.++......+|..|..|+.+|.-.
T Consensus       330 s~nks~eilYNcG~~~Lh~grPl~AfqCf~~av~vfh~nPrlWLRlAEcCima  382 (696)
T KOG2471|consen  330 SQNKSMEILYNCGLLYLHSGRPLLAFQCFQKAVHVFHRNPRLWLRLAECCIMA  382 (696)
T ss_pred             hcccchhhHHhhhHHHHhcCCcHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence                 223455677888999999999999999999888999999999998643

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=93.08  E-value=1.7  Score=39.64  Aligned_cols=135  Identities=14%  Similarity=0.127  Sum_probs=87.1

Q ss_pred             HHHHHhcCCHHHHHH-HHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcC
Q 048090          269 LGVYGRNGYFKEVIK-LYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAG  347 (447)
Q Consensus       269 ~~~~~~~g~~~~a~~-~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  347 (447)
                      |.--...|+.-.|-+ ++..++...-.|+.....+.|  ....|+++.+.+.+......  +.....+...+++...+.|
T Consensus       296 i~k~~~~gd~~aas~~~~~~lr~~~~~p~~i~l~~~i--~~~lg~ye~~~~~~s~~~~~--~~s~~~~~~~~~r~~~~l~  371 (831)
T PRK15180        296 ITKQLADGDIIAASQQLFAALRNQQQDPVLIQLRSVI--FSHLGYYEQAYQDISDVEKI--IGTTDSTLRCRLRSLHGLA  371 (831)
T ss_pred             HHHHhhccCHHHHHHHHHHHHHhCCCCchhhHHHHHH--HHHhhhHHHHHHHhhchhhh--hcCCchHHHHHHHhhhchh
Confidence            333445677666654 444444443455554444433  46678888888887776532  3445667778888888888


Q ss_pred             CHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHH
Q 048090          348 ELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVML  409 (447)
Q Consensus       348 ~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l  409 (447)
                      ++++|..+..-|+...+..  +.+...-.......|-++++...|++.+.++|+...-|..+
T Consensus       372 r~~~a~s~a~~~l~~eie~--~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~~~~~~g~v~~  431 (831)
T PRK15180        372 RWREALSTAEMMLSNEIED--EEVLTVAAGSADALQLFDKSYHYWKRVLLLNPETQSGWVNF  431 (831)
T ss_pred             hHHHHHHHHHHHhccccCC--hhheeeecccHHHHhHHHHHHHHHHHHhccCChhcccceee
Confidence            8888888888888777543  33334444455567778888888888888887754444433

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=93.06  E-value=1.3  Score=33.47  Aligned_cols=61  Identities=16%  Similarity=0.249  Sum_probs=43.8

Q ss_pred             HHHHHHHHH---HhccCcHHHHHHHHHHHHHhcCCCCC---hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 048090          298 VAFVTVISA---CSHTGQVKLGIEYFEWMVHDYKLEPG---PEHYSCLVDLLCRAGELDKAWKLINEMLDRG  363 (447)
Q Consensus       298 ~~~~~ll~~---~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  363 (447)
                      ...+.|+..   -...++++++..+++.+.   -+.|+   ..++...  .+...|++++|..+|++..+.+
T Consensus         8 ~iv~gLi~~~~~aL~~~d~~D~e~lLdALr---vLrP~~~e~d~~dg~--l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561         8 RLLGGLIEVLMYALRSADPYDAQAMLDALR---VLRPNLKELDMFDGW--LLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHH---HhCCCccccchhHHH--HHHHcCCHHHHHHHHHhhhccC
Confidence            334444443   345889999999999887   35665   4444443  4789999999999999998886

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=92.89  E-value=10  Score=37.31  Aligned_cols=420  Identities=12%  Similarity=0.015  Sum_probs=211.3

Q ss_pred             HhhhhhhhhHHHhhhhhhhhhcccccCCcchHHHhhccCC----CCCCc-----cHHHHHHHHHhCCChhhHHHHHHHHH
Q 048090            8 ETGLLLICLIIFQSRLMLPYTTCRHKKNLGTLTNCLKFLN----PRNPL-----PFNVVISDFCRNGSPLYALKTFSFMH   78 (447)
Q Consensus         8 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~----~~~~~-----~~~~l~~~~~~~~~~~~a~~~~~~m~   78 (447)
                      +..+.+..+..++-.+...|...-.  |++.|...+.+..    +++..     +...++..+.+.+... |...+++..
T Consensus        50 ~~~l~p~~ea~~~l~la~iL~~eT~--n~~~Ae~~L~k~~~l~~~~~~~d~k~~~~~ll~~i~~~~~~~~-a~~~l~~~I  126 (608)
T PF10345_consen   50 QFKLSPRQEARVRLRLASILLEETE--NLDLAETYLEKAILLCERHRLTDLKFRCQFLLARIYFKTNPKA-ALKNLDKAI  126 (608)
T ss_pred             cCCCCHHHHHHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHhcCHHH-HHHHHHHHH
Confidence            3445555667778888888887665  7899998888642    22211     1234556666665554 888888876


Q ss_pred             hcC----CCCchhhHHHH-HHHhccCCchhHHHHHHHHHHHcC---CCCchhhHHHHHHHHH--ccCChhhHHHHhccCC
Q 048090           79 VHG----IFLDTYALCSS-LTASTSVKDARFGKQVQAHVTKSG---WLSSVFVGSALIDLYA--KLLLIHDAELMFDEIP  148 (447)
Q Consensus        79 ~~~----~~p~~~~~~~l-l~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~--~~g~~~~a~~~~~~~~  148 (447)
                      +.-    ..+-...|..+ +..+...++...|.+.++.+...-   ..|...++-.++.+..  +.+..+++.+.++++.
T Consensus       127 ~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~~~d~~~~l~~~~  206 (608)
T PF10345_consen  127 EDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGSPDDVLELLQRAI  206 (608)
T ss_pred             HHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHH
Confidence            531    12223333333 222333479999999998877643   2344444455555444  3454555655554441


Q ss_pred             -------------CCchhhHHHHHHH--HHhcCCHHHHHHHHHhhhh-------cC----------CC------------
Q 048090          149 -------------VKNSVCANALLSG--YCEAKLWAGGLELVRLMPA-------LG----------LD------------  184 (447)
Q Consensus       149 -------------~~~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~-------~~----------~~------------  184 (447)
                                   .|...+|..++..  +...|+++.+...++++.+       ..          ++            
T Consensus       207 ~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~lq~~~~~~~~~~~w~~~~~d~~i~l~~~~~~~~~~~  286 (608)
T PF10345_consen  207 AQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQLQQFLDEIKKSPSWPSWDEDGSIPLNIGEGSSNSGG  286 (608)
T ss_pred             HHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCccCCCcCCCeeEEeecccccccCCC
Confidence                         1234456666554  4567777777766655531       10          00            


Q ss_pred             -CcHh---------hHHHHHHH--HhcCCcHHHHHHHHHHHHHhhhcCC------CCh--------hHHHHHHH------
Q 048090          185 -YDHF---------TLSALLRA--CAGLSAAEFGRQVHAYMIRKCCNLG------NDV--------FMQSSLIE------  232 (447)
Q Consensus       185 -~~~~---------~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~------~~~--------~~~~~l~~------  232 (447)
                       |...         .+.-++++  ....+..+++.+++++..+.-.+..      +..        ..|...+.      
T Consensus       287 ~~~~f~wl~~~~l~~L~y~lS~l~~~~~~~~~ks~k~~~k~l~~i~~~~~~~~~~~~~sl~~~~~~~~~~~~l~~~~~~y  366 (608)
T PF10345_consen  287 TPLVFSWLPKEELYALVYFLSGLHNLYKGSMDKSEKFLEKALKQIEKLKIKSPSAPSESLSEASERIQWLRYLQCYLLFY  366 (608)
T ss_pred             ceeEEeecCHHHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHHhhccCCCCCCcCHHHHHHhHHHHHHHHHHHHHH
Confidence             1111         11112222  2234444466666666544311111      111        11211222      


Q ss_pred             ---HHHhcCChHHHHHHHHhhhhhcccCCC---cchhhH--HHHHHHHHhcCCHHHHHHHHH--------HHHhCCCCCC
Q 048090          233 ---MYGKCGLVTKALQVFNLAGHRLEGEIN---KDVVLW--TSMLGVYGRNGYFKEVIKLYE--------AMLMNGTKPD  296 (447)
Q Consensus       233 ---~~~~~g~~~~A~~~~~~~~~~~~~~~~---~~~~~~--~~l~~~~~~~g~~~~a~~~~~--------~m~~~~~~p~  296 (447)
                         ..+-.+++..|...++.+.........   .....+  ....-.+...|+.+.|...|.        .....+...+
T Consensus       367 ~~~~~~~~~~~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~yL~gl~~q~~g~l~~A~~~y~~~~~~~~~~~~~~~~~~E  446 (608)
T PF10345_consen  367 QIWCNFIRGDWSKATQELEFMRQLCQRSPSKLYESLYPLLHYLLGLYYQSTGDLEAALYQYQKPRFLLCEAANRKSKFRE  446 (608)
T ss_pred             HHHHHHHCcCHHHHHHHHHHHHHHHhcCccchhhhhhHHHHHHHHHHHHHcCCHHHHHHHHhhhHHhhhhhhccCCcchH
Confidence               224568899999999877654322221   112222  233334456799999999997        4444454444


Q ss_pred             HHHHHHH--HHHHhc--cCcHHH--HHHHHHHHHHhcCCCCC--hhhHHHH-HHHHHHcC--CHHHHHHHHHHHHhCC--
Q 048090          297 EVAFVTV--ISACSH--TGQVKL--GIEYFEWMVHDYKLEPG--PEHYSCL-VDLLCRAG--ELDKAWKLINEMLDRG--  363 (447)
Q Consensus       297 ~~~~~~l--l~~~~~--~~~~~~--a~~~~~~~~~~~~~~~~--~~~~~~l-~~~~~~~g--~~~~A~~~~~~~~~~~--  363 (447)
                      ..++..+  +-.+..  .....+  ..++++.+.....-.|+  ..++..+ +.++....  ...++...+.+..+.-  
T Consensus       447 l~ila~LNl~~I~~~~~~~~~~~~~~~~l~~~i~p~~~~~~~~~~~~a~~~~~~~~~~~~~~~~ne~k~~l~~~L~~~~~  526 (608)
T PF10345_consen  447 LYILAALNLAIILQYESSRDDSESELNELLEQIEPLCSNSPNSYNRTAYCLVLATYNTFEPFSSNEAKRHLQEALKMANN  526 (608)
T ss_pred             HHHHHHHHHHHHhHhhcccchhhhHHHHHHHhcCccccCCccHHHHHHHHHHHHHHhhCCccccHHHHHHHHHHHHHHHH
Confidence            4444321  111122  222223  67777766543222332  3333333 33332211  1224444444332211  


Q ss_pred             -CCCCchH--hHHHHHHHHHhcCCccHHHHHHHHHhhhC---CC-chhHH-----HHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          364 -HGSSSVS--MWGALLSACHDCGKFELGKLAAQKALELD---PH-NVGIY-----VMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       364 -~~p~~~~--~~~~l~~~~~~~g~~~~a~~~~~~~~~~~---~~-~~~~~-----~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                       ..-....  +++.+...+. .|+..+.......+...-   |+ ....|     ..+...|...|+.++|.....+...
T Consensus       527 ~~~n~~l~~~~L~lm~~~lf-~~~~~e~~~~s~~a~~~A~k~~d~~~~LW~~v~~~~l~~~~~~~G~~~ka~~~~~~~~~  605 (608)
T PF10345_consen  527 KLGNSQLLAILLNLMGHRLF-EGDVGEQAKKSARAFQLAKKSSDYSDQLWHLVASGMLADSYEVQGDRDKAEEARQQLDR  605 (608)
T ss_pred             hhccchHHHHHHHHHHHHHH-cCCHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHH
Confidence             0011111  2333333333 688877766666555432   22 23344     3445557788999999988877653

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 [].

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=92.49  E-value=11  Score=36.57  Aligned_cols=148  Identities=14%  Similarity=0.075  Sum_probs=66.6

Q ss_pred             HHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHH-----hcCChHHHHHHHHhhhh----hcccCCCcchhhHHHHHHHHH
Q 048090          203 AEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYG-----KCGLVTKALQVFNLAGH----RLEGEINKDVVLWTSMLGVYG  273 (447)
Q Consensus       203 ~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-----~~g~~~~A~~~~~~~~~----~~~~~~~~~~~~~~~l~~~~~  273 (447)
                      ...+.++++...+.  |   +......+..+|.     ...+.+.|..+|+.+..    ....+   ......-+..+|.
T Consensus       228 ~~~a~~~~~~~a~~--g---~~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~  299 (552)
T KOG1550|consen  228 LSEAFKYYREAAKL--G---HSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYL  299 (552)
T ss_pred             hhHHHHHHHHHHhh--c---chHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHh
Confidence            34566666666655  3   3333333333332     34566777777765433    00011   2334444555555


Q ss_pred             hcC-----CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc-cCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHH---
Q 048090          274 RNG-----YFKEVIKLYEAMLMNGTKPDEVAFVTVISACSH-TGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLC---  344 (447)
Q Consensus       274 ~~g-----~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~---  344 (447)
                      +..     +.+.|..++....+.| .|+...+...+..... ..+...|.++|....+. |..+   .+-.+..+|.   
T Consensus       300 ~g~~~~~~d~~~A~~~~~~aA~~g-~~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~-G~~~---A~~~la~~y~~G~  374 (552)
T KOG1550|consen  300 QGLGVEKIDYEKALKLYTKAAELG-NPDAQYLLGVLYETGTKERDYRRAFEYYSLAAKA-GHIL---AIYRLALCYELGL  374 (552)
T ss_pred             cCCCCccccHHHHHHHHHHHHhcC-CchHHHHHHHHHHcCCccccHHHHHHHHHHHHHc-CChH---HHHHHHHHHHhCC
Confidence            432     3455666666665554 3344333222222222 23455666666665443 3211   1111222221   


Q ss_pred             -HcCCHHHHHHHHHHHHhCC
Q 048090          345 -RAGELDKAWKLINEMLDRG  363 (447)
Q Consensus       345 -~~g~~~~A~~~~~~~~~~~  363 (447)
                       -.-+.+.|..++.+..+.|
T Consensus       375 gv~r~~~~A~~~~k~aA~~g  394 (552)
T KOG1550|consen  375 GVERNLELAFAYYKKAAEKG  394 (552)
T ss_pred             CcCCCHHHHHHHHHHHHHcc
Confidence             1224556666666666555

>PRK09687 putative lyase; Provisional

Probab=92.48  E-value=6.7  Score=34.07  Aligned_cols=232  Identities=9%  Similarity=-0.016  Sum_probs=137.7

Q ss_pred             CchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCCh----hhHHHHhccC--CCCchhhHHH
Q 048090           84 LDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLI----HDAELMFDEI--PVKNSVCANA  157 (447)
Q Consensus        84 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~----~~a~~~~~~~--~~~~~~~~~~  157 (447)
                      +|.......+.++...|..+ +...+..+.+   .+|...-...+.++...|+.    +++...+..+  ..++...-..
T Consensus        35 ~d~~vR~~A~~aL~~~~~~~-~~~~l~~ll~---~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~D~d~~VR~~  110 (280)
T PRK09687         35 HNSLKRISSIRVLQLRGGQD-VFRLAIELCS---SKNPIERDIGADILSQLGMAKRCQDNVFNILNNLALEDKSACVRAS  110 (280)
T ss_pred             CCHHHHHHHHHHHHhcCcch-HHHHHHHHHh---CCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhcCCCHHHHHH
Confidence            35555555666666665433 3333333443   34566666677777777763    4577777665  4566666666


Q ss_pred             HHHHHHhcCCH-----HHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHH
Q 048090          158 LLSGYCEAKLW-----AGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIE  232 (447)
Q Consensus       158 l~~~~~~~~~~-----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~  232 (447)
                      .+.++...+..     ..+...+.....   .++..+-...+.++.+.++ ..+...+-.+.+.     ++..+-...+.
T Consensus       111 A~~aLG~~~~~~~~~~~~a~~~l~~~~~---D~~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~d-----~~~~VR~~A~~  181 (280)
T PRK09687        111 AINATGHRCKKNPLYSPKIVEQSQITAF---DKSTNVRFAVAFALSVIND-EAAIPLLINLLKD-----PNGDVRNWAAF  181 (280)
T ss_pred             HHHHHhcccccccccchHHHHHHHHHhh---CCCHHHHHHHHHHHhccCC-HHHHHHHHHHhcC-----CCHHHHHHHHH
Confidence            66666555421     233444434333   3466666677788877776 4566666666554     34455566666


Q ss_pred             HHHhcC-ChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC
Q 048090          233 MYGKCG-LVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTG  311 (447)
Q Consensus       233 ~~~~~g-~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~  311 (447)
                      ++.+.+ ....+...+..+.      ..++..+-...+.++.+.|+ ..|...+-+..+.+   +  .....+.++...|
T Consensus       182 aLg~~~~~~~~~~~~L~~~L------~D~~~~VR~~A~~aLg~~~~-~~av~~Li~~L~~~---~--~~~~a~~ALg~ig  249 (280)
T PRK09687        182 ALNSNKYDNPDIREAFVAML------QDKNEEIRIEAIIGLALRKD-KRVLSVLIKELKKG---T--VGDLIIEAAGELG  249 (280)
T ss_pred             HHhcCCCCCHHHHHHHHHHh------cCCChHHHHHHHHHHHccCC-hhHHHHHHHHHcCC---c--hHHHHHHHHHhcC
Confidence            666543 2334555544322      34566777778888888888 45666655555543   2  2346778888888


Q ss_pred             cHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHH
Q 048090          312 QVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLC  344 (447)
Q Consensus       312 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  344 (447)
                      .. +|...+..+.+.   .||..+-...+.++.
T Consensus       250 ~~-~a~p~L~~l~~~---~~d~~v~~~a~~a~~  278 (280)
T PRK09687        250 DK-TLLPVLDTLLYK---FDDNEIITKAIDKLK  278 (280)
T ss_pred             CH-hHHHHHHHHHhh---CCChhHHHHHHHHHh
Confidence            86 688888888754   457666665565553

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=92.39  E-value=3.8  Score=33.85  Aligned_cols=118  Identities=14%  Similarity=0.048  Sum_probs=74.5

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCCh-hhHHHHHHHHHHcCC
Q 048090          271 VYGRNGYFKEVIKLYEAMLMNGTKPDEV-AFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGP-EHYSCLVDLLCRAGE  348 (447)
Q Consensus       271 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~  348 (447)
                      .|....+++.|+..|.+.+.  +.|+.. -|+.-+-++.+..+++.+..--.+.+   .+.||. .....+..++.....
T Consensus        19 k~f~~k~y~~ai~~y~raI~--~nP~~~~Y~tnralchlk~~~~~~v~~dcrral---ql~~N~vk~h~flg~~~l~s~~   93 (284)
T KOG4642|consen   19 KCFIPKRYDDAIDCYSRAIC--INPTVASYYTNRALCHLKLKHWEPVEEDCRRAL---QLDPNLVKAHYFLGQWLLQSKG   93 (284)
T ss_pred             cccchhhhchHHHHHHHHHh--cCCCcchhhhhHHHHHHHhhhhhhhhhhHHHHH---hcChHHHHHHHHHHHHHHhhcc
Confidence            35556678888888877776  566664 44556667777888888877766665   457763 333445566677788


Q ss_pred             HHHHHHHHHHHHhC----CCCCCchHhHHHHHHHHHhcCCccHHHHHHHH
Q 048090          349 LDKAWKLINEMLDR----GHGSSSVSMWGALLSACHDCGKFELGKLAAQK  394 (447)
Q Consensus       349 ~~~A~~~~~~~~~~----~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  394 (447)
                      +++|+..+++....    .+ |....++..|..+-...=...+..++.++
T Consensus        94 ~~eaI~~Lqra~sl~r~~~~-~~~~di~~~L~~ak~~~w~v~e~~Ri~Q~  142 (284)
T KOG4642|consen   94 YDEAIKVLQRAYSLLREQPF-TFGDDIPKALRDAKKKRWEVSEEKRIRQE  142 (284)
T ss_pred             ccHHHHHHHHHHHHHhcCCC-CCcchHHHHHHHHHhCccchhHHHHHHHH
Confidence            89999888887332    22 22333466666655444444555555554

>PRK10941 hypothetical protein; Provisional

Probab=92.27  E-value=1.3  Score=37.95  Aligned_cols=68  Identities=9%  Similarity=-0.084  Sum_probs=58.3

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHH
Q 048090          337 SCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIY  406 (447)
Q Consensus       337 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  406 (447)
                      +.+-.+|.+.++++.|+.+.+.++...  |+++.-+.--+..|.+.|.+..|..-++..++..|.++.+-
T Consensus       185 ~nLK~~~~~~~~~~~AL~~~e~ll~l~--P~dp~e~RDRGll~~qL~c~~~A~~DL~~fl~~~P~dp~a~  252 (269)
T PRK10941        185 DTLKAALMEEKQMELALRASEALLQFD--PEDPYEIRDRGLIYAQLDCEHVALSDLSYFVEQCPEDPISE  252 (269)
T ss_pred             HHHHHHHHHcCcHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHhCCCchhHH
Confidence            446677889999999999999999877  88888788888899999999999999999999888877543

>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=92.25  E-value=23  Score=39.74  Aligned_cols=316  Identities=10%  Similarity=-0.031  Sum_probs=162.0

Q ss_pred             HHHHHhccCCchhHHHHHHHHHHHcCC--CCchhhHHHHHHHHHccCChhhHHHHhcc-CCCCchhhHHHHHHHHHhcCC
Q 048090           91 SSLTASTSVKDARFGKQVQAHVTKSGW--LSSVFVGSALIDLYAKLLLIHDAELMFDE-IPVKNSVCANALLSGYCEAKL  167 (447)
Q Consensus        91 ~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~-~~~~~~~~~~~l~~~~~~~~~  167 (447)
                      ++..+-.+.+.+.+|...++.-.....  ......+..+...|+.-+++|...-+... ...++.   ..-|......|+
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~~~ek~~~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a~~sl---~~qil~~e~~g~ 1464 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHRSTEKEKETEEALYFLLQNLYGSIHDPDGVEGVSARRFADPSL---YQQILEHEASGN 1464 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHHhcCCcchhhhHHHHhhcCccH---HHHHHHHHhhcc
Confidence            334455566777777777776311100  11223344455588888888877766663 333322   233444567788


Q ss_pred             HHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHH-HHHHHhcCChHHHHHH
Q 048090          168 WAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSL-IEMYGKCGLVTKALQV  246 (447)
Q Consensus       168 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l-~~~~~~~g~~~~A~~~  246 (447)
                      ++.|..-|+.+.+.+ ++...+++.++......+.++.+.-..+-....   ..+....++.+ +.+-.+.++++.....
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 WADAAACYERLIQKD-PDKEKHHSGVLKSMLAIQHLSTEILHLDGLIIN---RSEEVDELNSLGVEAAWRLSQWDLLESY 1540 (2382)
T ss_pred             HHHHHHHHHHhhcCC-CccccchhhHHHhhhcccchhHHHhhhcchhhc---cCHHHHHHHHHHHHHHhhhcchhhhhhh
Confidence            888888888888764 333667777777766777777776655554443   22333333322 3344666777766655


Q ss_pred             HHhhhhhcccCCCcchhhHHHH--HHHHHhcCCHH--HHHHHHHHHHhCCCCC-C--------HHHHHHHHHHHhccCcH
Q 048090          247 FNLAGHRLEGEINKDVVLWTSM--LGVYGRNGYFK--EVIKLYEAMLMNGTKP-D--------EVAFVTVISACSHTGQV  313 (447)
Q Consensus       247 ~~~~~~~~~~~~~~~~~~~~~l--~~~~~~~g~~~--~a~~~~~~m~~~~~~p-~--------~~~~~~ll~~~~~~~~~  313 (447)
                      ..          ..+..+|...  .....+..+-+  .-.+..+.+++.-+.| .        ...|..++....-    
T Consensus      1541 l~----------~~n~e~w~~~~~g~~ll~~~~kD~~~~~~~i~~~r~~~i~~lsa~s~~~Sy~~~Y~~~~kLH~l---- 1606 (2382)
T KOG0890|consen 1541 LS----------DRNIEYWSVESIGKLLLRNKKKDEIATLDLIENSRELVIENLSACSIEGSYVRSYEILMKLHLL---- 1606 (2382)
T ss_pred             hh----------cccccchhHHHHHHHHHhhcccchhhHHHHHHHHHHHhhhhHHHhhccchHHHHHHHHHHHHHH----
Confidence            43          1223333332  22222222211  1112333333221111 0        0112222221110    


Q ss_pred             HHHHHHHHHHHHhcCCCCCh------hhHHHHHHHHHHcCCHHHHHHHHHHH-----HhCCCCCCchHhHHHHHHHHHhc
Q 048090          314 KLGIEYFEWMVHDYKLEPGP------EHYSCLVDLLCRAGELDKAWKLINEM-----LDRGHGSSSVSMWGALLSACHDC  382 (447)
Q Consensus       314 ~~a~~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~g~~~~A~~~~~~~-----~~~~~~p~~~~~~~~l~~~~~~~  382 (447)
                         .+.-.......+..++.      .-|..-+..-....+..+-+--+++.     .+.+....-...|....+.....
T Consensus      1607 ---~el~~~~~~l~~~s~~~~s~~~sd~W~~Rl~~tq~s~~~~epILa~RRs~l~~~~~~~~~~~~ge~wLqsAriaR~a 1683 (2382)
T KOG0890|consen 1607 ---LELENSIEELKKVSYDEDSANNSDNWKNRLERTQPSFRIKEPILAFRRSMLDLRMRSNLKSRLGECWLQSARIARLA 1683 (2382)
T ss_pred             ---HHHHHHHHHhhccCccccccccchhHHHHHHHhchhHHHHhHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHhc
Confidence               00001111111222321      11211111111111122211112221     12133344555789999999999


Q ss_pred             CCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 048090          383 GKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       383 g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  432 (447)
                      |.++.|...+-++.+..++  .++.-.+......|+...|+.++++....
T Consensus      1684 G~~q~A~nall~A~e~r~~--~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~ 1731 (2382)
T KOG0890|consen 1684 GHLQRAQNALLNAKESRLP--EIVLERAKLLWQTGDELNALSVLQEILSK 1731 (2382)
T ss_pred             ccHHHHHHHHHhhhhcccc--hHHHHHHHHHHhhccHHHHHHHHHHHHHh
Confidence            9999999999888887754  45777788889999999999999988754

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=92.23  E-value=6.7  Score=33.53  Aligned_cols=68  Identities=24%  Similarity=0.106  Sum_probs=57.4

Q ss_pred             hHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHH-----cCCCCCC
Q 048090          371 MWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKE-----KGLKKDV  438 (447)
Q Consensus       371 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~-----~~~~p~~  438 (447)
                      +++.....|...|.+.+|.++.++++..+|-+...+..|+..+...|+--.|.+-++++.+     .|+..|.
T Consensus       281 llgkva~~yle~g~~neAi~l~qr~ltldpL~e~~nk~lm~~la~~gD~is~~khyerya~vleaelgi~vdd  353 (361)
T COG3947         281 LLGKVARAYLEAGKPNEAIQLHQRALTLDPLSEQDNKGLMASLATLGDEISAIKHYERYAEVLEAELGIDVDD  353 (361)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHhhcChhhhHHHHHHHHHHHHhccchhhhhHHHHHHHHHHHHhCCCcch
Confidence            3556677899999999999999999999999999999999999999998888877777643     4565543

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.23  E-value=13  Score=36.83  Aligned_cols=49  Identities=12%  Similarity=0.113  Sum_probs=21.7

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHH
Q 048090          270 GVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEY  319 (447)
Q Consensus       270 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~  319 (447)
                      .-|....+...-..+++.+.+.|.. +...-..|+.+|.+.++.+.-.++
T Consensus       405 ~kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~ef  453 (933)
T KOG2114|consen  405 KKFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEF  453 (933)
T ss_pred             HHhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHH
Confidence            3334444444444445555554433 222233445555555555444443

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=92.20  E-value=12  Score=38.71  Aligned_cols=130  Identities=12%  Similarity=0.035  Sum_probs=66.3

Q ss_pred             ccCChhhHHHHhccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHH
Q 048090          133 KLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAY  212 (447)
Q Consensus       133 ~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  212 (447)
                      +.|.+.+|+.++.-=.+.-...|.+....+.....+++|.-.|+..-+.         .-.+.+|...|+|.+|..+..+
T Consensus       920 kh~Ly~~aL~ly~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gkl---------ekAl~a~~~~~dWr~~l~~a~q  990 (1265)
T KOG1920|consen  920 KHGLYDEALALYKPDSEKQKVIYEAYADHLREELMSDEAALMYERCGKL---------EKALKAYKECGDWREALSLAAQ  990 (1265)
T ss_pred             hcccchhhhheeccCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhccH---------HHHHHHHHHhccHHHHHHHHHh
Confidence            3344444444333322223344555555555666666666666554321         2345566666777777776665


Q ss_pred             HHHhhhcCCCChh--HHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHH
Q 048090          213 MIRKCCNLGNDVF--MQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEA  287 (447)
Q Consensus       213 ~~~~~~~~~~~~~--~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  287 (447)
                      +...     .+..  +-..|+.-+...+++-+|-++..+...      .     ....+..||+...+++|.++...
T Consensus       991 l~~~-----~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~s------d-----~~~av~ll~ka~~~~eAlrva~~ 1051 (1265)
T KOG1920|consen  991 LSEG-----KDELVILAEELVSRLVEQRKHYEAAKILLEYLS------D-----PEEAVALLCKAKEWEEALRVASK 1051 (1265)
T ss_pred             hcCC-----HHHHHHHHHHHHHHHHHcccchhHHHHHHHHhc------C-----HHHHHHHHhhHhHHHHHHHHHHh
Confidence            5332     1211  224556666666776666666653211      1     12334455555666666655544

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=92.10  E-value=13  Score=36.57  Aligned_cols=66  Identities=18%  Similarity=-0.026  Sum_probs=43.6

Q ss_pred             CCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCc-------hhHHHHHHHHHHHcC
Q 048090           50 NPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKD-------ARFGKQVQAHVTKSG  116 (447)
Q Consensus        50 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~-------~~~a~~~~~~~~~~~  116 (447)
                      |...--.+|-.|.|+|++++|.++....... .......+...+..+....+       -+....-|++..+..
T Consensus       110 ~~~p~Wa~Iyy~LR~G~~~~A~~~~~~~~~~-~~~~~~~f~~~l~~~~~s~~~~l~~~~~~~l~~ey~~~~r~~  182 (613)
T PF04097_consen  110 NGDPIWALIYYCLRCGDYDEALEVANENRNQ-FQKIERSFPTYLKAYASSPDRRLPPELRDKLKLEYNQRIRNS  182 (613)
T ss_dssp             TTEEHHHHHHHHHTTT-HHHHHHHHHHTGGG-S-TTTTHHHHHHHHCTTTTSS---TCCCHHHHHHHHHHTTT-
T ss_pred             CCCccHHHHHHHHhcCCHHHHHHHHHHhhhh-hcchhHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHhcCC
Confidence            4445567888999999999999999666554 45556677888888876533       234555566665543

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.

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=92.09  E-value=1.3  Score=35.84  Aligned_cols=75  Identities=21%  Similarity=0.276  Sum_probs=54.5

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCc---hHhHHH
Q 048090          299 AFVTVISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSS---VSMWGA  374 (447)
Q Consensus       299 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~---~~~~~~  374 (447)
                      |.+..++.+.+.+...+++...+.-++.   +| +..+-..+++.+|-.|++++|..-++-.....  |++   ...|..
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVka---kPtda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~--p~~t~~a~lyr~   77 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKA---KPTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLS--PQDTVGASLYRH   77 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhc---CCccccchhHHHHHHhhcchHHHHHHHHHHHhhcC--cccchHHHHHHH
Confidence            4455677788889999999998877764   55 46667788999999999999998887766543  432   234555


Q ss_pred             HHHH
Q 048090          375 LLSA  378 (447)
Q Consensus       375 l~~~  378 (447)
                      ++.+
T Consensus        78 lir~   81 (273)
T COG4455          78 LIRC   81 (273)
T ss_pred             HHHH
Confidence            5544

>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=91.88  E-value=4.8  Score=31.12  Aligned_cols=110  Identities=18%  Similarity=0.094  Sum_probs=63.2

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH-HHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcC
Q 048090          269 LGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVT-VISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAG  347 (447)
Q Consensus       269 ~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~-ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  347 (447)
                      +..-.+.++.+++..++..+.-  .+|....... -...+...|++.+|..+|+.+..+   .|....-..|+..|....
T Consensus        17 ~~~al~~~~~~D~e~lL~ALrv--LRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~---~~~~p~~kALlA~CL~~~   91 (160)
T PF09613_consen   17 LSVALRLGDPDDAEALLDALRV--LRPEFPELDLFDGWLHIVRGDWDDALRLLRELEER---APGFPYAKALLALCLYAL   91 (160)
T ss_pred             HHHHHccCChHHHHHHHHHHHH--hCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc---CCCChHHHHHHHHHHHHc
Confidence            3444567889999999998887  4554333222 122356789999999999998654   454444455555555444


Q ss_pred             CHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccH
Q 048090          348 ELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFEL  387 (447)
Q Consensus       348 ~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  387 (447)
                      +-..=..+-+++.+.+  + +.. -..++..+....+...
T Consensus        92 ~D~~Wr~~A~evle~~--~-d~~-a~~Lv~~Ll~~~~~~~  127 (160)
T PF09613_consen   92 GDPSWRRYADEVLESG--A-DPD-ARALVRALLARADLEP  127 (160)
T ss_pred             CChHHHHHHHHHHhcC--C-ChH-HHHHHHHHHHhccccc
Confidence            4344444455555554  2 232 2344454444444433

>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A

Probab=91.86  E-value=0.56  Score=28.48  Aligned_cols=36  Identities=19%  Similarity=0.201  Sum_probs=27.1

Q ss_pred             HHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHH
Q 048090          372 WGALLSACHDCGKFELGKLAAQKALELDPHNVGIYV  407 (447)
Q Consensus       372 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  407 (447)
                      ...+..++.+.|++++|.+..+.+++.+|.|..+-.
T Consensus         4 lY~lAig~ykl~~Y~~A~~~~~~lL~~eP~N~Qa~~   39 (53)
T PF14853_consen    4 LYYLAIGHYKLGEYEKARRYCDALLEIEPDNRQAQS   39 (53)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHTTS-HHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhhCCCcHHHHH
Confidence            455677888899999999999999999998876443

>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=91.83  E-value=5.2  Score=31.36  Aligned_cols=132  Identities=7%  Similarity=-0.042  Sum_probs=70.1

Q ss_pred             HHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccC--ChhhHHHHhccCCC
Q 048090           72 KTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLL--LIHDAELMFDEIPV  149 (447)
Q Consensus        72 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~a~~~~~~~~~  149 (447)
                      +.++.+.+.+++|+...+..++..+.+.|++....    ++++.++-+|.......+-.+....  -..-+..++.++. 
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~----qllq~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~-   89 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLH----QLLQYHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRLG-   89 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH----HHHhhcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHhh-
Confidence            34455556677777777888888877777755433    3444444444443333222221111  1233445555543 


Q ss_pred             CchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHH
Q 048090          150 KNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIR  215 (447)
Q Consensus       150 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  215 (447)
                         ..+..++..+...|++-+|+++.+......    ......++.+..+.+|...-..+++....
T Consensus        90 ---~~~~~iievLL~~g~vl~ALr~ar~~~~~~----~~~~~~fLeAA~~~~D~~lf~~V~~ff~~  148 (167)
T PF07035_consen   90 ---TAYEEIIEVLLSKGQVLEALRYARQYHKVD----SVPARKFLEAAANSNDDQLFYAVFRFFEE  148 (167)
T ss_pred             ---hhHHHHHHHHHhCCCHHHHHHHHHHcCCcc----cCCHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence               235566677777888888887776653221    11223445555555555544444444444

>KOG0376 consensus Serine-threonine phosphatase 2A, catalytic subunit [General function prediction only]

Probab=91.80  E-value=0.25  Score=44.75  Aligned_cols=101  Identities=11%  Similarity=0.143  Sum_probs=79.4

Q ss_pred             HHHHhccCcHHHHHHHHHHHHHhcCCCCChhhH-HHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhc
Q 048090          304 ISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHY-SCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDC  382 (447)
Q Consensus       304 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~  382 (447)
                      +......+.++.|..++.++++   +.||-..| ..=..++.+.+++..|+.=+.++++..  |.....|..-+.++...
T Consensus        11 an~~l~~~~fd~avdlysKaI~---ldpnca~~~anRa~a~lK~e~~~~Al~Da~kaie~d--P~~~K~Y~rrg~a~m~l   85 (476)
T KOG0376|consen   11 ANEALKDKVFDVAVDLYSKAIE---LDPNCAIYFANRALAHLKVESFGGALHDALKAIELD--PTYIKAYVRRGTAVMAL   85 (476)
T ss_pred             HhhhcccchHHHHHHHHHHHHh---cCCcceeeechhhhhheeechhhhHHHHHHhhhhcC--chhhheeeeccHHHHhH
Confidence            4455677889999999999884   57864444 333477889999999998888888877  77777788888888888


Q ss_pred             CCccHHHHHHHHHhhhCCCchhHHHHH
Q 048090          383 GKFELGKLAAQKALELDPHNVGIYVML  409 (447)
Q Consensus       383 g~~~~a~~~~~~~~~~~~~~~~~~~~l  409 (447)
                      +.+.+|...|+......|+++.+-..+
T Consensus        86 ~~~~~A~~~l~~~~~l~Pnd~~~~r~~  112 (476)
T KOG0376|consen   86 GEFKKALLDLEKVKKLAPNDPDATRKI  112 (476)
T ss_pred             HHHHHHHHHHHHhhhcCcCcHHHHHHH
Confidence            999999999999999889888654444

>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=91.67  E-value=0.29  Score=37.51  Aligned_cols=54  Identities=11%  Similarity=-0.076  Sum_probs=26.4

Q ss_pred             HHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHH
Q 048090           57 VISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQA  110 (447)
Q Consensus        57 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  110 (447)
                      ++..+.+.+.+......++.+...+...+....+.++..+++.++.+....+++
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~   66 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLK   66 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTT
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcc
Confidence            344444455555555555555544433444555555555555554444444444

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.

>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=91.62  E-value=1.5  Score=35.18  Aligned_cols=76  Identities=12%  Similarity=0.027  Sum_probs=39.8

Q ss_pred             HHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHH
Q 048090          204 EFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVI  282 (447)
Q Consensus       204 ~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  282 (447)
                      +.|.+.|-.+...  +.-.++.....|...|. ..+.+++..++.........+..+|+..+..|++.+.+.|+++.|.
T Consensus       123 ~~A~~~fL~~E~~--~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~AY  198 (203)
T PF11207_consen  123 QEALRRFLQLEGT--PELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQAY  198 (203)
T ss_pred             HHHHHHHHHHcCC--CCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhhh
Confidence            3455555544444  22234444444444444 4456666666655555544444556666666666666666665553

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.57  E-value=6.9  Score=32.31  Aligned_cols=29  Identities=3%  Similarity=-0.050  Sum_probs=18.1

Q ss_pred             HHHHHHHhcCCccHHHHHHHHHhhhCCCc
Q 048090          374 ALLSACHDCGKFELGKLAAQKALELDPHN  402 (447)
Q Consensus       374 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  402 (447)
                      -....-...+++.+|..+|+++.....+|
T Consensus       159 KvA~yaa~leqY~~Ai~iyeqva~~s~~n  187 (288)
T KOG1586|consen  159 KVAQYAAQLEQYSKAIDIYEQVARSSLDN  187 (288)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            33444456677777888887776655433

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=91.53  E-value=15  Score=36.18  Aligned_cols=194  Identities=12%  Similarity=0.002  Sum_probs=105.0

Q ss_pred             CCCccHHHHHHHHHhCCChhhHHHHHHHHH-hcCCCCch--hhHHHHHHHh-ccCCchhHHHHHHHHHHHcCCCCchh--
Q 048090           49 RNPLPFNVVISDFCRNGSPLYALKTFSFMH-VHGIFLDT--YALCSSLTAS-TSVKDARFGKQVQAHVTKSGWLSSVF--  122 (447)
Q Consensus        49 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~-~~~~~p~~--~~~~~ll~~~-~~~~~~~~a~~~~~~~~~~~~~~~~~--  122 (447)
                      .+...|..||.         .|+..++-.. ...+.|..  .++..+...+ ....+++.|+..+.+.....-.++..  
T Consensus        28 ~~l~~Y~kLI~---------~ai~CL~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~   98 (608)
T PF10345_consen   28 EQLKQYYKLIA---------TAIKCLEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDL   98 (608)
T ss_pred             hhHHHHHHHHH---------HHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHH
Confidence            34455666655         3455565555 33333332  3445555554 36788899998888775543222221  


Q ss_pred             ---hHHHHHHHHHccCChhhHHHHhccCCCC--------chhhHHHH-HHHHHhcCCHHHHHHHHHhhhhcC---CCCcH
Q 048090          123 ---VGSALIDLYAKLLLIHDAELMFDEIPVK--------NSVCANAL-LSGYCEAKLWAGGLELVRLMPALG---LDYDH  187 (447)
Q Consensus       123 ---~~~~l~~~~~~~g~~~~a~~~~~~~~~~--------~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~  187 (447)
                         ....++..+.+.+... |...+++..+.        -...+..+ +..+...+++..|.+.++.+...-   ..|-.
T Consensus        99 k~~~~~ll~~i~~~~~~~~-a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~  177 (608)
T PF10345_consen   99 KFRCQFLLARIYFKTNPKA-ALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAV  177 (608)
T ss_pred             HHHHHHHHHHHHHhcCHHH-HHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHH
Confidence               2234556666666555 77666664311        11222222 222333378998998888875532   23444


Q ss_pred             hhHHHHHHHH--hcCCcHHHHHHHHHHHHHhhhcC-------CCChhHHHHHHHHH--HhcCChHHHHHHHHhhhh
Q 048090          188 FTLSALLRAC--AGLSAAEFGRQVHAYMIRKCCNL-------GNDVFMQSSLIEMY--GKCGLVTKALQVFNLAGH  252 (447)
Q Consensus       188 ~~~~~l~~~~--~~~~~~~~a~~~~~~~~~~~~~~-------~~~~~~~~~l~~~~--~~~g~~~~A~~~~~~~~~  252 (447)
                      ..+..++.+.  .+.+..+.+.+..+.+.....++       .|...++..+++.+  ...|+++.+...++++..
T Consensus       178 ~v~~~l~~~~l~l~~~~~~d~~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~lq~  253 (608)
T PF10345_consen  178 FVLASLSEALLHLRRGSPDDVLELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQLQQ  253 (608)
T ss_pred             HHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4555555554  34555666777777664432222       33455666666544  456776677666654433

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 [].

>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=91.47  E-value=0.31  Score=37.32  Aligned_cols=87  Identities=10%  Similarity=-0.015  Sum_probs=66.0

Q ss_pred             HHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCCCCchhhHHHHHHHHHhcCCHHH
Q 048090           91 SSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAG  170 (447)
Q Consensus        91 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  170 (447)
                      .++..+.+.+.+.....+++.+...+...+....+.++..|++.++.++..++++....   .-...++..|.+.|.+++
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            35677778888999999999999877666788889999999999888999999885433   333566777777888888


Q ss_pred             HHHHHHhhhh
Q 048090          171 GLELVRLMPA  180 (447)
Q Consensus       171 a~~~~~~~~~  180 (447)
                      +.-++.++..
T Consensus        89 a~~Ly~~~~~   98 (143)
T PF00637_consen   89 AVYLYSKLGN   98 (143)
T ss_dssp             HHHHHHCCTT
T ss_pred             HHHHHHHccc
Confidence            8877777643

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.

>PF08311 Mad3_BUB1_I: Mad3/BUB1 homology region 1; InterPro: IPR013212 Proteins containing this domain are checkpoint proteins involved in cell division

Probab=91.35  E-value=3  Score=31.00  Aligned_cols=45  Identities=11%  Similarity=0.176  Sum_probs=32.1

Q ss_pred             HHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHH
Q 048090          351 KAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKA  395 (447)
Q Consensus       351 ~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  395 (447)
                      .+.++|..|...|+.......|......+...|++++|..+++..
T Consensus        81 ~~~~if~~l~~~~IG~~~A~fY~~wA~~le~~~~~~~A~~I~~~G  125 (126)
T PF08311_consen   81 DPREIFKFLYSKGIGTKLALFYEEWAEFLEKRGNFKKADEIYQLG  125 (126)
T ss_dssp             HHHHHHHHHHHHTTSTTBHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCccHHHHHHHHHHHHHHHHcCCHHHHHHHHHhh
Confidence            777777777777776666666777777777777777777777654

This region has been shown to be essential for the binding of BUB1 and MAD3 to CDC20p [].; PDB: 3ESL_B 4AEZ_I 4A1G_B 2LAH_A 2WVI_A 3SI5_B.

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.29  E-value=6.4  Score=37.28  Aligned_cols=80  Identities=19%  Similarity=0.136  Sum_probs=36.0

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHH
Q 048090          297 EVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALL  376 (447)
Q Consensus       297 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~  376 (447)
                      ..-|..|.++....+++..|.+-|.+...          |..|+-.+...|+.+....+-....+.|  .     .|.-.
T Consensus       666 ~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d----------~~~LlLl~t~~g~~~~l~~la~~~~~~g--~-----~N~AF  728 (794)
T KOG0276|consen  666 EVKWRQLGDAALSAGELPLASECFLRARD----------LGSLLLLYTSSGNAEGLAVLASLAKKQG--K-----NNLAF  728 (794)
T ss_pred             hHHHHHHHHHHhhcccchhHHHHHHhhcc----------hhhhhhhhhhcCChhHHHHHHHHHHhhc--c-----cchHH
Confidence            34455555555555555555555444421          3334444444555444444444444443  1     22223


Q ss_pred             HHHHhcCCccHHHHHHH
Q 048090          377 SACHDCGKFELGKLAAQ  393 (447)
Q Consensus       377 ~~~~~~g~~~~a~~~~~  393 (447)
                      .++...|++++..+++.
T Consensus       729 ~~~~l~g~~~~C~~lLi  745 (794)
T KOG0276|consen  729 LAYFLSGDYEECLELLI  745 (794)
T ss_pred             HHHHHcCCHHHHHHHHH
Confidence            34444555555444443

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=91.25  E-value=2  Score=29.66  Aligned_cols=62  Identities=13%  Similarity=0.208  Sum_probs=43.8

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 048090          278 FKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVD  341 (447)
Q Consensus       278 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  341 (447)
                      .-++.+-++.+....+.|++....+.+++|.+.+++..|.++|+-++.+.+  .+...|..+++
T Consensus        23 ~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~--~~~~~y~~~lq   84 (103)
T cd00923          23 GWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCG--AHKEIYPYILQ   84 (103)
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHcc--CchhhHHHHHH
Confidence            345566666777777888888888888888888888888888887765422  24445655553

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.

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.18  E-value=7.9  Score=32.24  Aligned_cols=207  Identities=14%  Similarity=0.049  Sum_probs=94.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHH
Q 048090          155 ANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMY  234 (447)
Q Consensus       155 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~  234 (447)
                      |..-..+|....++++|..-+.+..+. ..-+...|       -....++.|.-+.+++.+.    +.-...++.-...|
T Consensus        34 yekAAvafRnAk~feKakdcLlkA~~~-yEnnrslf-------hAAKayEqaamLake~~kl----sEvvdl~eKAs~lY  101 (308)
T KOG1585|consen   34 YEKAAVAFRNAKKFEKAKDCLLKASKG-YENNRSLF-------HAAKAYEQAAMLAKELSKL----SEVVDLYEKASELY  101 (308)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHHHH-HHhcccHH-------HHHHHHHHHHHHHHHHHHh----HHHHHHHHHHHHHH
Confidence            334445555566666665555444321 01111111       1112334444444444432    12233455555666


Q ss_pred             HhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhC---CC--CCCHHHHHHHHHHHhc
Q 048090          235 GKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMN---GT--KPDEVAFVTVISACSH  309 (447)
Q Consensus       235 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~---~~--~p~~~~~~~ll~~~~~  309 (447)
                      ..+|.++-|-..+++...+.                   ++.++++|+++|++...-   +-  +--...+..+-+.+.+
T Consensus       102 ~E~GspdtAAmaleKAak~l-------------------env~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVr  162 (308)
T KOG1585|consen  102 VECGSPDTAAMALEKAAKAL-------------------ENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVR  162 (308)
T ss_pred             HHhCCcchHHHHHHHHHHHh-------------------hcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhh
Confidence            66666666666665544432                   223344444444443221   00  0011123333344555


Q ss_pred             cCcHHHHHHHHHHHHHh---cCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCC--CCCCchHhHHHHHHHHHhcC
Q 048090          310 TGQVKLGIEYFEWMVHD---YKLEPG-PEHYSCLVDLLCRAGELDKAWKLINEMLDRG--HGSSSVSMWGALLSACHDCG  383 (447)
Q Consensus       310 ~~~~~~a~~~~~~~~~~---~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~p~~~~~~~~l~~~~~~~g  383 (447)
                      ...+++|-..+.+-..-   ..--++ -..|...|-.+.-..++..|...+++--..+  ..|.+..+...|+.+| ..|
T Consensus       163 l~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~g  241 (308)
T KOG1585|consen  163 LEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEG  241 (308)
T ss_pred             hHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccC
Confidence            55555555444332110   011122 2234445555666667777777777633221  2255666677777776 446


Q ss_pred             CccHHHHHHH
Q 048090          384 KFELGKLAAQ  393 (447)
Q Consensus       384 ~~~~a~~~~~  393 (447)
                      +.+++..++.
T Consensus       242 D~E~~~kvl~  251 (308)
T KOG1585|consen  242 DIEEIKKVLS  251 (308)
T ss_pred             CHHHHHHHHc
Confidence            6666655543

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=91.15  E-value=0.59  Score=26.38  Aligned_cols=28  Identities=25%  Similarity=0.165  Sum_probs=20.9

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          404 GIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       404 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      .+++.|+..|...|++++|..++++...
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            4677788888888888888888877754

>PRK11619 lytic murein transglycosylase; Provisional

Probab=91.13  E-value=17  Score=35.95  Aligned_cols=97  Identities=10%  Similarity=-0.109  Sum_probs=57.4

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhC-C--CchhHHHHHHHHHHhc
Q 048090          340 VDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELD-P--HNVGIYVMLSNLYAKF  416 (447)
Q Consensus       340 ~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~--~~~~~~~~l~~~~~~~  416 (447)
                      +..+...|+...|...+..+....    +......+.....+.|.++.+..........+ .  .-+..|...+..+.+.
T Consensus       414 a~~L~~~g~~~~a~~ew~~~~~~~----~~~~~~~la~~A~~~g~~~~ai~~~~~~~~~~~~~~rfp~~~~~~~~~~a~~  489 (644)
T PRK11619        414 VRELMYWNMDNTARSEWANLVASR----SKTEQAQLARYAFNQQWWDLSVQATIAGKLWDHLEERFPLAWNDEFRRYTSG  489 (644)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhcC----CHHHHHHHHHHHHHCCCHHHHHHHHhhchhHHHHHHhCCcchHHHHHHHHHH
Confidence            345667889999998888887752    22335666666777888888877665443321 0  1122355555555555


Q ss_pred             CChHHHHHHHHHHHHcCCCCCCcc
Q 048090          417 CMWDEIGQLRELMKEKGLKKDVGC  440 (447)
Q Consensus       417 g~~~~A~~~~~~m~~~~~~p~~~~  440 (447)
                      -..+.++-.----.++++.|++..
T Consensus       490 ~~v~~~lv~ai~rqES~f~p~a~S  513 (644)
T PRK11619        490 KGIPQSYAMAIARQESAWNPKARS  513 (644)
T ss_pred             cCCCHHHHHHHHHHhcCCCCCCcc
Confidence            556655432222346777777543

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.12  E-value=1.2  Score=38.13  Aligned_cols=101  Identities=15%  Similarity=0.057  Sum_probs=71.3

Q ss_pred             cCCCCchhhHHHHHHHHHccCChhhHHHHhccCCC-Cc-----hhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHh
Q 048090          115 SGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPV-KN-----SVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHF  188 (447)
Q Consensus       115 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  188 (447)
                      .|.+....+...++.......+++.++..+-++.. |+     ..+-.+.++.+ -.-++++++.++..=++-|+-||..
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irll-lky~pq~~i~~l~npIqYGiF~dqf  136 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLL-LKYDPQKAIYTLVNPIQYGIFPDQF  136 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHHH-HccChHHHHHHHhCcchhccccchh
Confidence            34455555555566555556777777777665542 11     11222333333 3347889999999989999999999


Q ss_pred             hHHHHHHHHhcCCcHHHHHHHHHHHHHh
Q 048090          189 TLSALLRACAGLSAAEFGRQVHAYMIRK  216 (447)
Q Consensus       189 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~  216 (447)
                      +++.+|+.+.+.+++..|..+...|+..
T Consensus       137 ~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  137 TFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             hHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            9999999999999999999988888776

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=91.03  E-value=5.6  Score=30.26  Aligned_cols=51  Identities=10%  Similarity=0.051  Sum_probs=36.9

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCH---HHHHHHHHHHhccCcHHHHHHHHHHHHHh
Q 048090          272 YGRNGYFKEVIKLYEAMLMNGTKPDE---VAFVTVISACSHTGQVKLGIEYFEWMVHD  326 (447)
Q Consensus       272 ~~~~g~~~~a~~~~~~m~~~~~~p~~---~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  326 (447)
                      -...++++++..++..|.-  +.|+.   .+|-..  .+...|++.+|..+|+.+..+
T Consensus        20 aL~~~d~~D~e~lLdALrv--LrP~~~e~d~~dg~--l~i~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        20 ALRSADPYDAQAMLDALRV--LRPNLKELDMFDGW--LLIARGNYDEAARILRELLSS   73 (153)
T ss_pred             HHhcCCHHHHHHHHHHHHH--hCCCccccchhHHH--HHHHcCCHHHHHHHHHhhhcc
Confidence            3457889999999999877  34543   344333  356789999999999998754

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=90.72  E-value=20  Score=35.98  Aligned_cols=200  Identities=16%  Similarity=0.138  Sum_probs=108.1

Q ss_pred             HHhcCChHHHHHHHHhhhhhccc-CCCcch---hhHHHHHH-HHHhcCCHHHHHHHHHHHHhC----CCCCCHHHHHHHH
Q 048090          234 YGKCGLVTKALQVFNLAGHRLEG-EINKDV---VLWTSMLG-VYGRNGYFKEVIKLYEAMLMN----GTKPDEVAFVTVI  304 (447)
Q Consensus       234 ~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~---~~~~~l~~-~~~~~g~~~~a~~~~~~m~~~----~~~p~~~~~~~ll  304 (447)
                      .....++++|..++.++...... +..+..   ..|+.+-. .....|+++.|.++.+.....    -..+....+..+.
T Consensus       425 ~~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~  504 (894)
T COG2909         425 LASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLG  504 (894)
T ss_pred             HHHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhh
Confidence            34577899999888876554221 111111   13444332 234568889999888887654    1223445566666


Q ss_pred             HHHhccCcHHHHHHHHHHHHHhcCCCCChhh---HHHHH--HHHHHcCCHH--HHHHHHHHHHhC--CCCCCc---hHhH
Q 048090          305 SACSHTGQVKLGIEYFEWMVHDYKLEPGPEH---YSCLV--DLLCRAGELD--KAWKLINEMLDR--GHGSSS---VSMW  372 (447)
Q Consensus       305 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~~l~--~~~~~~g~~~--~A~~~~~~~~~~--~~~p~~---~~~~  372 (447)
                      .+..-.|++++|..+.+...+. .-.-+...   |..+.  ..+...|+..  +.+..+......  .-.|..   ..++
T Consensus       505 ~a~~~~G~~~~Al~~~~~a~~~-a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r  583 (894)
T COG2909         505 EAAHIRGELTQALALMQQAEQM-ARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIR  583 (894)
T ss_pred             HHHHHhchHHHHHHHHHHHHHH-HHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHH
Confidence            6777789999998887766543 11223222   23332  2344566332  222223322211  111221   1223


Q ss_pred             HHHHHHHHhcCCccHHHHHHHHHhhhC----CCch---hHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 048090          373 GALLSACHDCGKFELGKLAAQKALELD----PHNV---GIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKD  437 (447)
Q Consensus       373 ~~l~~~~~~~g~~~~a~~~~~~~~~~~----~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~  437 (447)
                      ..+..++.+   ++.+..-.....+..    |...   ..+..|+..+...|+.++|...+.++......++
T Consensus       584 ~~ll~~~~r---~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~~  652 (894)
T COG2909         584 AQLLRAWLR---LDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNGQ  652 (894)
T ss_pred             HHHHHHHHH---HhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCC
Confidence            344444444   555554444444432    3322   2234788888999999999999888877555544

>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=90.68  E-value=0.44  Score=23.81  Aligned_cols=23  Identities=17%  Similarity=-0.013  Sum_probs=15.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHH
Q 048090          405 IYVMLSNLYAKFCMWDEIGQLRE  427 (447)
Q Consensus       405 ~~~~l~~~~~~~g~~~~A~~~~~  427 (447)
                      ....++.++...|++++|..+++
T Consensus         3 a~~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    3 ARLALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHh
Confidence            45566777777777777776654

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

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=90.63  E-value=6.9  Score=30.64  Aligned_cols=132  Identities=11%  Similarity=0.074  Sum_probs=73.0

Q ss_pred             HhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH-HHHHHH--HHHhccC
Q 048090          235 GKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEV-AFVTVI--SACSHTG  311 (447)
Q Consensus       235 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~-~~~~ll--~~~~~~~  311 (447)
                      .+.+..++|+.-|..+.+..-.+ -| +.....+.....+.|+...|...|+++-.....|-.. -...|=  -.+...|
T Consensus        69 A~~~k~d~Alaaf~~lektg~g~-Yp-vLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~g  146 (221)
T COG4649          69 AQENKTDDALAAFTDLEKTGYGS-YP-VLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNG  146 (221)
T ss_pred             HHcCCchHHHHHHHHHHhcCCCc-ch-HHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhccc
Confidence            45566677777776554421111 11 1122223344566777777888887776654344322 111111  1345677


Q ss_pred             cHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCch
Q 048090          312 QVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSV  369 (447)
Q Consensus       312 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~  369 (447)
                      .++......+-+..+ +-+.-...-..|.-+-.+.|++..|...|..+......|.+.
T Consensus       147 sy~dV~srvepLa~d-~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da~aprni  203 (221)
T COG4649         147 SYDDVSSRVEPLAGD-GNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDAQAPRNI  203 (221)
T ss_pred             cHHHHHHHhhhccCC-CChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccccCcHHH
Confidence            777777766666433 222234444566666678888888888888887765555444

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=90.50  E-value=4.6  Score=28.34  Aligned_cols=60  Identities=13%  Similarity=0.251  Sum_probs=42.2

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 048090          280 EVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVD  341 (447)
Q Consensus       280 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  341 (447)
                      +..+-++.+....+.|++....+.+++|.+.+++..|.++|+-++.+.+  +....|..+++
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            5566677777778889999999999999999999999999998876633  33336776664

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=90.47  E-value=7.2  Score=30.57  Aligned_cols=32  Identities=9%  Similarity=0.097  Sum_probs=17.1

Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHhccCcHHH
Q 048090          284 LYEAMLMNGTKPDEVAFVTVISACSHTGQVKL  315 (447)
Q Consensus       284 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  315 (447)
                      .++.+.+.++.|+...+..+++.+.+.|++..
T Consensus        16 YirSl~~~~i~~~~~L~~lli~lLi~~~~~~~   47 (167)
T PF07035_consen   16 YIRSLNQHNIPVQHELYELLIDLLIRNGQFSQ   47 (167)
T ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH
Confidence            34444445555555555555555555555433

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.39  E-value=8.7  Score=36.45  Aligned_cols=148  Identities=16%  Similarity=0.056  Sum_probs=73.4

Q ss_pred             cCChhhHHHHhccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHH
Q 048090          134 LLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYM  213 (447)
Q Consensus       134 ~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  213 (447)
                      .|+++.|..++..++++   ..+.++..+-+.|-.++|+++         .+|+..   -.....+.|+++.|.++..+.
T Consensus       599 rrd~~~a~~vLp~I~k~---~rt~va~Fle~~g~~e~AL~~---------s~D~d~---rFelal~lgrl~iA~~la~e~  663 (794)
T KOG0276|consen  599 RRDLEVADGVLPTIPKE---IRTKVAHFLESQGMKEQALEL---------STDPDQ---RFELALKLGRLDIAFDLAVEA  663 (794)
T ss_pred             hccccccccccccCchh---hhhhHHhHhhhccchHhhhhc---------CCChhh---hhhhhhhcCcHHHHHHHHHhh
Confidence            45666666655555532   233444445555555555443         122211   112223556666666554332


Q ss_pred             HHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 048090          214 IRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGT  293 (447)
Q Consensus       214 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  293 (447)
                              .+..-|..|..+....|++..|.+.|....            -|..|+-.+...|+.+....+-....+.|.
T Consensus       664 --------~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~------------d~~~LlLl~t~~g~~~~l~~la~~~~~~g~  723 (794)
T KOG0276|consen  664 --------NSEVKWRQLGDAALSAGELPLASECFLRAR------------DLGSLLLLYTSSGNAEGLAVLASLAKKQGK  723 (794)
T ss_pred             --------cchHHHHHHHHHHhhcccchhHHHHHHhhc------------chhhhhhhhhhcCChhHHHHHHHHHHhhcc
Confidence                    134456666666666666666666665321            134455555555665555555555554442


Q ss_pred             CCCHHHHHHHHHHHhccCcHHHHHHHHHH
Q 048090          294 KPDEVAFVTVISACSHTGQVKLGIEYFEW  322 (447)
Q Consensus       294 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  322 (447)
                      . |.     ..-++...|+++++.+++..
T Consensus       724 ~-N~-----AF~~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  724 N-NL-----AFLAYFLSGDYEECLELLIS  746 (794)
T ss_pred             c-ch-----HHHHHHHcCCHHHHHHHHHh
Confidence            1 21     22234455666666665543

>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=90.30  E-value=3.2  Score=33.40  Aligned_cols=75  Identities=13%  Similarity=-0.087  Sum_probs=49.5

Q ss_pred             HHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcC-CCChhHHHHHHHHHHhcCChHHHH
Q 048090          169 AGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNL-GNDVFMQSSLIEMYGKCGLVTKAL  244 (447)
Q Consensus       169 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~  244 (447)
                      +.|.+.|-.+...+.--++.....+...|. ..+.+++..++..+......- .+|+..+.+|+..|.+.|+++.|-
T Consensus       123 ~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~AY  198 (203)
T PF11207_consen  123 QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQAY  198 (203)
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhhh
Confidence            566777777766654445544444444444 567777887777777753333 667788888888888888877764

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.21  E-value=20  Score=35.30  Aligned_cols=165  Identities=10%  Similarity=-0.056  Sum_probs=77.4

Q ss_pred             HHHHHhCCChhhHHHHHHHHHhcCCCC---chhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHcc
Q 048090           58 ISDFCRNGSPLYALKTFSFMHVHGIFL---DTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKL  134 (447)
Q Consensus        58 ~~~~~~~~~~~~a~~~~~~m~~~~~~p---~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  134 (447)
                      ++.+.+.+.+++|++.-+....  ..|   -.......|..+...|+++.|-...-.|...    +..-|.--+..++..
T Consensus       363 i~Wll~~k~yeeAl~~~k~~~~--~~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn----~~~eWe~~V~~f~e~  436 (846)
T KOG2066|consen  363 IDWLLEKKKYEEALDAAKASIG--NEERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGN----NAAEWELWVFKFAEL  436 (846)
T ss_pred             HHHHHHhhHHHHHHHHHHhccC--CccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcc----hHHHHHHHHHHhccc
Confidence            5666667777777766554433  222   1233445555556666666666666655532    334444444444444


Q ss_pred             CChhhHHHHhccCCC-CchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHH
Q 048090          135 LLIHDAELMFDEIPV-KNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYM  213 (447)
Q Consensus       135 g~~~~a~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  213 (447)
                      ++......++=.-+. -+...|..++..+.. .+...    |.+..+.   -+...|..+...-+          +-.+.
T Consensus       437 ~~l~~Ia~~lPt~~~rL~p~vYemvLve~L~-~~~~~----F~e~i~~---Wp~~Lys~l~iisa----------~~~q~  498 (846)
T KOG2066|consen  437 DQLTDIAPYLPTGPPRLKPLVYEMVLVEFLA-SDVKG----FLELIKE---WPGHLYSVLTIISA----------TEPQI  498 (846)
T ss_pred             cccchhhccCCCCCcccCchHHHHHHHHHHH-HHHHH----HHHHHHh---CChhhhhhhHHHhh----------cchHH
Confidence            444333222211111 245566666666655 22222    2222211   11222222211100          11111


Q ss_pred             HHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhh
Q 048090          214 IRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLA  250 (447)
Q Consensus       214 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  250 (447)
                      .+.    ..+......|+..|...+++.+|..++-..
T Consensus       499 ~q~----Se~~~L~e~La~LYl~d~~Y~~Al~~ylkl  531 (846)
T KOG2066|consen  499 KQN----SESTALLEVLAHLYLYDNKYEKALPIYLKL  531 (846)
T ss_pred             Hhh----ccchhHHHHHHHHHHHccChHHHHHHHHhc
Confidence            111    112233344888888889999998888643

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=90.18  E-value=12  Score=32.75  Aligned_cols=16  Identities=19%  Similarity=0.262  Sum_probs=8.5

Q ss_pred             HHHHHHHHHHhCCCCC
Q 048090          351 KAWKLINEMLDRGHGS  366 (447)
Q Consensus       351 ~A~~~~~~~~~~~~~p  366 (447)
                      .+.++++.+.+.|+++
T Consensus       200 r~~~l~~~l~~~~~ki  215 (297)
T PF13170_consen  200 RVIELYNALKKNGVKI  215 (297)
T ss_pred             HHHHHHHHHHHcCCcc
Confidence            4555555555555544

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=90.05  E-value=2.5  Score=29.22  Aligned_cols=50  Identities=14%  Similarity=0.013  Sum_probs=38.0

Q ss_pred             CHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHh
Q 048090          167 LWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRK  216 (447)
Q Consensus       167 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  216 (447)
                      |.=++.+-++.+....+.|++....+.+++|.+.+++..|.++++.+...
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K   71 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDK   71 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            34455666666666777888888888888888888888888888877654

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.

>smart00028 TPR Tetratricopeptide repeats

Probab=89.96  E-value=0.57  Score=24.08  Aligned_cols=26  Identities=31%  Similarity=0.225  Sum_probs=11.4

Q ss_pred             HHHHHHHHhcCCccHHHHHHHHHhhh
Q 048090          373 GALLSACHDCGKFELGKLAAQKALEL  398 (447)
Q Consensus       373 ~~l~~~~~~~g~~~~a~~~~~~~~~~  398 (447)
                      ..++..+...|+++.|...++++++.
T Consensus         5 ~~~a~~~~~~~~~~~a~~~~~~~~~~   30 (34)
T smart00028        5 YNLGNAYLKLGDYDEALEYYEKALEL   30 (34)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHcc
Confidence            33444444444444444444444443

Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=89.88  E-value=0.6  Score=24.65  Aligned_cols=28  Identities=18%  Similarity=0.190  Sum_probs=24.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 048090          405 IYVMLSNLYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       405 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~  432 (447)
                      ++..++.++.+.|++++|.+.|+++.+.
T Consensus         2 a~~~~a~~~~~~g~~~~A~~~~~~~~~~   29 (33)
T PF13174_consen    2 ALYRLARCYYKLGDYDEAIEYFQRLIKR   29 (33)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            4667888999999999999999999874

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.80  E-value=4  Score=35.17  Aligned_cols=48  Identities=13%  Similarity=0.107  Sum_probs=26.7

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHH
Q 048090          277 YFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMV  324 (447)
Q Consensus       277 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  324 (447)
                      ++++++.++..=+..|+-||..++..+++.+.+.+++..|.++...|.
T Consensus       115 ~pq~~i~~l~npIqYGiF~dqf~~c~l~D~flk~~n~~~aa~vvt~~~  162 (418)
T KOG4570|consen  115 DPQKAIYTLVNPIQYGIFPDQFTFCLLMDSFLKKENYKDAASVVTEVM  162 (418)
T ss_pred             ChHHHHHHHhCcchhccccchhhHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            344555555555555555566666666666655555555555554444

>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=89.70  E-value=1.1  Score=23.90  Aligned_cols=28  Identities=21%  Similarity=0.278  Sum_probs=25.5

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          404 GIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       404 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      .+|..++..|...|++++|.+.|++..+
T Consensus         2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~   29 (34)
T PF13181_consen    2 EAYYNLGKIYEQLGDYEEALEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            4688999999999999999999999876

...

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=89.64  E-value=3.6  Score=28.84  Aligned_cols=60  Identities=15%  Similarity=0.120  Sum_probs=40.1

Q ss_pred             HHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHH
Q 048090          170 GGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIE  232 (447)
Q Consensus       170 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~  232 (447)
                      +..+-++.+....+.|++....+.+.+|.+.+++..|.++++.+...   ..+....|..+++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K---~~~~~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK---CGNKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH---TTT-TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH---ccChHHHHHHHHH
Confidence            45566666777778888888889999999999999999999887776   2333335655543

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 ....

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=89.59  E-value=0.72  Score=26.01  Aligned_cols=29  Identities=28%  Similarity=0.329  Sum_probs=21.0

Q ss_pred             HhHHHHHHHHHhcCCccHHHHHHHHHhhh
Q 048090          370 SMWGALLSACHDCGKFELGKLAAQKALEL  398 (447)
Q Consensus       370 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  398 (447)
                      .+++.|...|...|++++|..+++++++.
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~~   31 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALEI   31 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHHH
Confidence            35677888888888888888888877663

>KOG0545 consensus Aryl-hydrocarbon receptor-interacting protein [Posttranslational modification, protein turnover, chaperones]

Probab=89.33  E-value=7.3  Score=32.40  Aligned_cols=75  Identities=19%  Similarity=0.089  Sum_probs=61.2

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHH
Q 048090          335 HYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSN  411 (447)
Q Consensus       335 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  411 (447)
                      .+...-+++...|++-++++...+.+...  |.+..+|..-..+.+..=+.++|..-|.++++++|.-..+...=++
T Consensus       232 LllNy~QC~L~~~e~yevleh~seiL~~~--~~nvKA~frRakAhaa~Wn~~eA~~D~~~vL~ldpslasvVsrElr  306 (329)
T KOG0545|consen  232 LLLNYCQCLLKKEEYYEVLEHCSEILRHH--PGNVKAYFRRAKAHAAVWNEAEAKADLQKVLELDPSLASVVSRELR  306 (329)
T ss_pred             HHHhHHHHHhhHHHHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHhhcCHHHHHHHHHHHHhcChhhHHHHHHHHH
Confidence            34555677788899999999999999887  8899999988888888889999999999999999875544444333

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=89.26  E-value=13  Score=31.89  Aligned_cols=152  Identities=11%  Similarity=0.057  Sum_probs=0.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhhh-cCCCCcHhhHHHHHHHHhc-CCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHH
Q 048090          155 ANALLSGYCEAKLWAGGLELVRLMPA-LGLDYDHFTLSALLRACAG-LSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIE  232 (447)
Q Consensus       155 ~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~  232 (447)
                      |..|+.   ++....+|+++|+.... ..+--|..+...+++.... .+..-.|.--+-.......+-.++..+...++.
T Consensus       134 Y~~LVk---~N~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~  210 (292)
T PF13929_consen  134 YWDLVK---RNKIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILE  210 (292)
T ss_pred             HHHHHH---hhHHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHH


Q ss_pred             HHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHH-----HHhCCCCCCHHHHHHHHHHH
Q 048090          233 MYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEA-----MLMNGTKPDEVAFVTVISAC  307 (447)
Q Consensus       233 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~-----m~~~~~~p~~~~~~~ll~~~  307 (447)
                      .+++.+++.+-.++++  ......+...|...|..+|......|+..-...+.++     +.+.++..+...-..+-+.+
T Consensus       211 ~L~~~~dW~kl~~fW~--~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF  288 (292)
T PF13929_consen  211 ILAESRDWNKLFQFWE--QCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELF  288 (292)
T ss_pred             HHHhcccHHHHHHHHH--HhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHH


Q ss_pred             hccC
Q 048090          308 SHTG  311 (447)
Q Consensus       308 ~~~~  311 (447)
                      ...|
T Consensus       289 ~~vd  292 (292)
T PF13929_consen  289 KKVD  292 (292)
T ss_pred             HhcC

>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=88.80  E-value=47  Score=37.58  Aligned_cols=318  Identities=12%  Similarity=-0.021  Sum_probs=160.0

Q ss_pred             HHHHHHHhCCChhhHHHHHHHHHhcCC--CCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHc
Q 048090           56 VVISDFCRNGSPLYALKTFSFMHVHGI--FLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAK  133 (447)
Q Consensus        56 ~l~~~~~~~~~~~~a~~~~~~m~~~~~--~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  133 (447)
                      .|..+-.+.+.+.+|+..|+.-.....  ......|..+...|...++++...-+.....     .+...+. -|.....
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~~~ek~~~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~-----a~~sl~~-qil~~e~ 1461 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHRSTEKEKETEEALYFLLQNLYGSIHDPDGVEGVSARRF-----ADPSLYQ-QILEHEA 1461 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHHhcCCcchhhhHHHHhh-----cCccHHH-HHHHHHh
Confidence            455566778899999999988411111  1122334444448888899888777665411     1222333 3444567


Q ss_pred             cCChhhHHHHhccCCCC--c-hhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHH-HHHHhcCCcHHHHHHH
Q 048090          134 LLLIHDAELMFDEIPVK--N-SVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSAL-LRACAGLSAAEFGRQV  209 (447)
Q Consensus       134 ~g~~~~a~~~~~~~~~~--~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-~~~~~~~~~~~~a~~~  209 (447)
                      .|+++.|...|+.+.+.  + ..+++-++......|.++.++-..+-.... ..+....++++ +.+-=+.++++.....
T Consensus      1462 ~g~~~da~~Cye~~~q~~p~~~~~~~g~l~sml~~~~l~t~i~~~dg~~~~-~se~~~~~~s~~~eaaW~l~qwD~~e~~ 1540 (2382)
T KOG0890|consen 1462 SGNWADAAACYERLIQKDPDKEKHHSGVLKSMLAIQHLSTEILHLDGLIIN-RSEEVDELNSLGVEAAWRLSQWDLLESY 1540 (2382)
T ss_pred             hccHHHHHHHHHHhhcCCCccccchhhHHHhhhcccchhHHHhhhcchhhc-cCHHHHHHHHHHHHHHhhhcchhhhhhh
Confidence            89999999999998743  3 556777777777777887777655555433 12333333322 2233456667666665


Q ss_pred             HHHHHHhhhcCCCChhHHHH--HHHHHHhcCChH--HHHHHHHhhhhhc-----ccCCC-cchhhHHHHHHHHHhcCCHH
Q 048090          210 HAYMIRKCCNLGNDVFMQSS--LIEMYGKCGLVT--KALQVFNLAGHRL-----EGEIN-KDVVLWTSMLGVYGRNGYFK  279 (447)
Q Consensus       210 ~~~~~~~~~~~~~~~~~~~~--l~~~~~~~g~~~--~A~~~~~~~~~~~-----~~~~~-~~~~~~~~l~~~~~~~g~~~  279 (447)
                      ..   ..      +..+|..  ++....+..+-|  .-.+.++.+....     ..+.. .-...|..++..+.-..   
T Consensus      1541 l~---~~------n~e~w~~~~~g~~ll~~~~kD~~~~~~~i~~~r~~~i~~lsa~s~~~Sy~~~Y~~~~kLH~l~e--- 1608 (2382)
T KOG0890|consen 1541 LS---DR------NIEYWSVESIGKLLLRNKKKDEIATLDLIENSRELVIENLSACSIEGSYVRSYEILMKLHLLLE--- 1608 (2382)
T ss_pred             hh---cc------cccchhHHHHHHHHHhhcccchhhHHHHHHHHHHHhhhhHHHhhccchHHHHHHHHHHHHHHHH---
Confidence            44   11      1112221  222222211111  1111222111110     00000 11122333333222111   


Q ss_pred             HHHHHHHHHHhCCCCCCH------HHHHHHHHHHhccCcHHHHHHHHHHHHHhc----CCCC-ChhhHHHHHHHHHHcCC
Q 048090          280 EVIKLYEAMLMNGTKPDE------VAFVTVISACSHTGQVKLGIEYFEWMVHDY----KLEP-GPEHYSCLVDLLCRAGE  348 (447)
Q Consensus       280 ~a~~~~~~m~~~~~~p~~------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~g~  348 (447)
                       -....+...  ++.++.      .-|..-+..-....+..+-+--+++..-..    +..- -..+|....+...+.|+
T Consensus      1609 -l~~~~~~l~--~~s~~~~s~~~sd~W~~Rl~~tq~s~~~~epILa~RRs~l~~~~~~~~~~~~ge~wLqsAriaR~aG~ 1685 (2382)
T KOG0890|consen 1609 -LENSIEELK--KVSYDEDSANNSDNWKNRLERTQPSFRIKEPILAFRRSMLDLRMRSNLKSRLGECWLQSARIARLAGH 1685 (2382)
T ss_pred             -HHHHHHHhh--ccCccccccccchhHHHHHHHhchhHHHHhHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHhccc
Confidence             111111111  122221      112112221111112222221222211110    1111 25678888888888999


Q ss_pred             HHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhC
Q 048090          349 LDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELD  399 (447)
Q Consensus       349 ~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  399 (447)
                      ++.|...+-.+.+.+  ++  .++.-.+.-+...|+...|..++++.++..
T Consensus      1686 ~q~A~nall~A~e~r--~~--~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~~ 1732 (2382)
T KOG0890|consen 1686 LQRAQNALLNAKESR--LP--EIVLERAKLLWQTGDELNALSVLQEILSKN 1732 (2382)
T ss_pred             HHHHHHHHHhhhhcc--cc--hHHHHHHHHHHhhccHHHHHHHHHHHHHhh
Confidence            999998887777766  32  336778888889999999999999998754

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=88.79  E-value=6.3  Score=27.54  Aligned_cols=87  Identities=11%  Similarity=-0.117  Sum_probs=58.0

Q ss_pred             chhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHhhhh
Q 048090          101 DARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPA  180 (447)
Q Consensus       101 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  180 (447)
                      ..++|.-+-+.+...+-. ...+--+-+..+...|++++|..+.+.+..||...|-+|-..  +.|..+++..-+.+|..
T Consensus        20 cHqEA~tIAdwL~~~~~~-~E~v~lIRlsSLmNrG~Yq~Al~l~~~~~~pdlepw~ALce~--rlGl~s~l~~rl~rla~   96 (115)
T TIGR02508        20 CHQEANTIADWLHLKGES-EEAVQLIRLSSLMNRGDYQSALQLGNKLCYPDLEPWLALCEW--RLGLGSALESRLNRLAA   96 (115)
T ss_pred             HHHHHHHHHHHHhcCCch-HHHHHHHHHHHHHccchHHHHHHhcCCCCCchHHHHHHHHHH--hhccHHHHHHHHHHHHh
Confidence            456666666666654311 222223334567788999999999998888888888777654  66777777777777777


Q ss_pred             cCCCCcHhhHH
Q 048090          181 LGLDYDHFTLS  191 (447)
Q Consensus       181 ~~~~~~~~~~~  191 (447)
                      .| .|....|.
T Consensus        97 sg-~p~lq~Fa  106 (115)
T TIGR02508        97 SG-DPRLQTFV  106 (115)
T ss_pred             CC-CHHHHHHH
Confidence            66 55555554

YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.

>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B

Probab=88.53  E-value=6.3  Score=27.22  Aligned_cols=53  Identities=13%  Similarity=0.079  Sum_probs=26.6

Q ss_pred             CCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCC--chhHHHHHHHHHHhcCC
Q 048090          366 SSSVSMWGALLSACHDCGKFELGKLAAQKALELDPH--NVGIYVMLSNLYAKFCM  418 (447)
Q Consensus       366 p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~  418 (447)
                      |+|......+...+...|+++.|.+.+-++++.++.  +...-..|+..+.-.|.
T Consensus        19 P~D~~ar~~lA~~~~~~g~~e~Al~~Ll~~v~~dr~~~~~~ar~~ll~~f~~lg~   73 (90)
T PF14561_consen   19 PDDLDARYALADALLAAGDYEEALDQLLELVRRDRDYEDDAARKRLLDIFELLGP   73 (90)
T ss_dssp             TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHCC-TTCCCCHHHHHHHHHHHHH-T
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccccccHHHHHHHHHHHHcCC
Confidence            555555555555556666666665555555555433  34444555555555444

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=88.43  E-value=30  Score=34.82  Aligned_cols=226  Identities=12%  Similarity=-0.075  Sum_probs=120.8

Q ss_pred             hcCCcHHHHHHHHHHHHHhhhcCCCChh-------HHHHHH-HHHHhcCChHHHHHHHHhhhhhcccC-CCcchhhHHHH
Q 048090          198 AGLSAAEFGRQVHAYMIRKCCNLGNDVF-------MQSSLI-EMYGKCGLVTKALQVFNLAGHRLEGE-INKDVVLWTSM  268 (447)
Q Consensus       198 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~-------~~~~l~-~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~~~~l  268 (447)
                      ....++++|..+..++...-  ..|+..       .++.+- ......|++++|.++-+......... ..+.+..+..+
T Consensus       426 ~s~~r~~ea~~li~~l~~~l--~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~  503 (894)
T COG2909         426 ASQHRLAEAETLIARLEHFL--KAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVL  503 (894)
T ss_pred             HHccChHHHHHHHHHHHHHh--CcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhh
Confidence            45678899999998887762  122211       233332 23445788999999888666553222 23345566777


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHH---HHHHHH--HHHhccCc--HHHHHHHHHHHHHhcCC-CC----ChhhH
Q 048090          269 LGVYGRNGYFKEVIKLYEAMLMNGTKPDEV---AFVTVI--SACSHTGQ--VKLGIEYFEWMVHDYKL-EP----GPEHY  336 (447)
Q Consensus       269 ~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~---~~~~ll--~~~~~~~~--~~~a~~~~~~~~~~~~~-~~----~~~~~  336 (447)
                      ..+..-.|++++|..+..+..+..-.-+..   .+..+.  ..+..+|.  ..+....|......+.. +|    -..++
T Consensus       504 ~~a~~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r  583 (894)
T COG2909         504 GEAAHIRGELTQALALMQQAEQMARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIR  583 (894)
T ss_pred             hHHHHHhchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHH
Confidence            778888999999998887765542222222   222222  23455663  33333344443332111 11    12334


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHH----HHhCCCCCCchH-hHHHHHHHHHhcCCccHHHHHHHHHhhhCCCc--hhH----
Q 048090          337 SCLVDLLCRAGELDKAWKLINE----MLDRGHGSSSVS-MWGALLSACHDCGKFELGKLAAQKALELDPHN--VGI----  405 (447)
Q Consensus       337 ~~l~~~~~~~g~~~~A~~~~~~----~~~~~~~p~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~----  405 (447)
                      ..+..++.+   .+.+..-...    .......|-+.. .+..|+......|+.++|...+.++......+  ...    
T Consensus       584 ~~ll~~~~r---~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~~~~~~~~a~  660 (894)
T COG2909         584 AQLLRAWLR---LDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNGQYHVDYLAA  660 (894)
T ss_pred             HHHHHHHHH---HhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCCCchHHHH
Confidence            444555544   3333332222    222221121221 12367888889999999999998887754222  111    


Q ss_pred             -HHHHHHHHHhcCChHHHHHHHHH
Q 048090          406 -YVMLSNLYAKFCMWDEIGQLREL  428 (447)
Q Consensus       406 -~~~l~~~~~~~g~~~~A~~~~~~  428 (447)
                       +..-...-...|+.+.+.....+
T Consensus       661 ~~~v~~~lwl~qg~~~~a~~~l~~  684 (894)
T COG2909         661 AYKVKLILWLAQGDKELAAEWLLK  684 (894)
T ss_pred             HHHhhHHHhcccCCHHHHHHHHHh
Confidence             12222223457888877665544

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=88.31  E-value=4  Score=33.23  Aligned_cols=78  Identities=10%  Similarity=-0.096  Sum_probs=51.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHH
Q 048090          155 ANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEM  233 (447)
Q Consensus       155 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~  233 (447)
                      .+.-++.+.+.++..+++...+.-.+.. +.|..+-..++..++-.|+|++|..-++..-...+...+....|..++.+
T Consensus         4 l~~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           4 LRDTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             hHHHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            3445566777777888877777666552 33445555667777778888888777776666544555556666666654

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=88.14  E-value=22  Score=32.93  Aligned_cols=92  Identities=10%  Similarity=0.121  Sum_probs=62.1

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCC
Q 048090          269 LGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGE  348 (447)
Q Consensus       269 ~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  348 (447)
                      ...+...|.++.+...+...... +.....+..++++...+.|+++.|...-.-|... .+. +......-.-..-..|-
T Consensus       330 ~~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~a~s~a~~~l~~-eie-~~ei~~iaa~sa~~l~~  406 (831)
T PRK15180        330 SVIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWREALSTAEMMLSN-EIE-DEEVLTVAAGSADALQL  406 (831)
T ss_pred             HHHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHHHHHHHHHHhcc-ccC-ChhheeeecccHHHHhH
Confidence            34456778888888887765443 3445677888888888889999988888877754 222 23333222333445677


Q ss_pred             HHHHHHHHHHHHhCC
Q 048090          349 LDKAWKLINEMLDRG  363 (447)
Q Consensus       349 ~~~A~~~~~~~~~~~  363 (447)
                      ++++...+++....+
T Consensus       407 ~d~~~~~wk~~~~~~  421 (831)
T PRK15180        407 FDKSYHYWKRVLLLN  421 (831)
T ss_pred             HHHHHHHHHHHhccC
Confidence            888888888887665

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=87.34  E-value=14  Score=29.73  Aligned_cols=93  Identities=10%  Similarity=-0.013  Sum_probs=48.9

Q ss_pred             HHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHh
Q 048090          195 RACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGR  274 (447)
Q Consensus       195 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  274 (447)
                      ..+...+++++|...++........-.....+-..|.......|.+|+|+..++....     ..-.......-...+..
T Consensus        97 k~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~-----~~w~~~~~elrGDill~  171 (207)
T COG2976          97 KAEVEANNLDKAEAQLKQALAQTKDENLKALAALRLARVQLQQKKADAALKTLDTIKE-----ESWAAIVAELRGDILLA  171 (207)
T ss_pred             HHHHhhccHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhcccc-----ccHHHHHHHHhhhHHHH
Confidence            3456677777777777766643100001112223345556667777777777762211     00011112233456667


Q ss_pred             cCCHHHHHHHHHHHHhCC
Q 048090          275 NGYFKEVIKLYEAMLMNG  292 (447)
Q Consensus       275 ~g~~~~a~~~~~~m~~~~  292 (447)
                      .|+-++|..-|++....+
T Consensus       172 kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         172 KGDKQEARAAYEKALESD  189 (207)
T ss_pred             cCchHHHHHHHHHHHHcc
Confidence            777777777777776654

>smart00386 HAT HAT (Half-A-TPR) repeats

Probab=87.22  E-value=1.6  Score=22.80  Aligned_cols=29  Identities=24%  Similarity=0.419  Sum_probs=19.6

Q ss_pred             CCccHHHHHHHHHhhhCCCchhHHHHHHH
Q 048090          383 GKFELGKLAAQKALELDPHNVGIYVMLSN  411 (447)
Q Consensus       383 g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  411 (447)
                      |+.+.+..+|++++...|.++.+|...+.
T Consensus         1 ~~~~~~r~i~e~~l~~~~~~~~~W~~y~~   29 (33)
T smart00386        1 GDIERARKIYERALEKFPKSVELWLKYAE   29 (33)
T ss_pred             CcHHHHHHHHHHHHHHCCCChHHHHHHHH
Confidence            35566777777777777767777766654

Present in several RNA-binding proteins. Structurally and sequentially thought to be similar to TPRs.

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=87.08  E-value=3.7  Score=38.60  Aligned_cols=100  Identities=21%  Similarity=0.114  Sum_probs=69.5

Q ss_pred             cCcHHHHHHHHHHHHHhcCCCCC--hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccH
Q 048090          310 TGQVKLGIEYFEWMVHDYKLEPG--PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFEL  387 (447)
Q Consensus       310 ~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  387 (447)
                      .|+...|..-+.....   ..|-  ....-.|.....+.|..-.|-.++...+...  -..+.++..+++++....+++.
T Consensus       620 ~gn~~~a~~cl~~a~~---~~p~~~~v~~v~la~~~~~~~~~~da~~~l~q~l~~~--~sepl~~~~~g~~~l~l~~i~~  694 (886)
T KOG4507|consen  620 VGNSTFAIACLQRALN---LAPLQQDVPLVNLANLLIHYGLHLDATKLLLQALAIN--SSEPLTFLSLGNAYLALKNISG  694 (886)
T ss_pred             cCCcHHHHHHHHHHhc---cChhhhcccHHHHHHHHHHhhhhccHHHHHHHHHhhc--ccCchHHHhcchhHHHHhhhHH
Confidence            5677777777666653   2442  2334455666667777777888777776665  3455668888888888888888


Q ss_pred             HHHHHHHHhhhCCCchhHHHHHHHHHH
Q 048090          388 GKLAAQKALELDPHNVGIYVMLSNLYA  414 (447)
Q Consensus       388 a~~~~~~~~~~~~~~~~~~~~l~~~~~  414 (447)
                      |.+.++.+.+..|+++.+-+.|...-+
T Consensus       695 a~~~~~~a~~~~~~~~~~~~~l~~i~c  721 (886)
T KOG4507|consen  695 ALEAFRQALKLTTKCPECENSLKLIRC  721 (886)
T ss_pred             HHHHHHHHHhcCCCChhhHHHHHHHHH
Confidence            888888888888888877777654433

>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function

Probab=86.99  E-value=22  Score=31.71  Aligned_cols=78  Identities=9%  Similarity=0.055  Sum_probs=46.4

Q ss_pred             HHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHh---cCChHHHHHHH
Q 048090          350 DKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAK---FCMWDEIGQLR  426 (447)
Q Consensus       350 ~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~---~g~~~~A~~~~  426 (447)
                      +.-+.+++++++.+  |.+...+..++..+.+..+.+...+-+++++...|.+...|..++.....   .-.++....+|
T Consensus        48 E~klsilerAL~~n--p~~~~L~l~~l~~~~~~~~~~~l~~~we~~l~~~~~~~~LW~~yL~~~q~~~~~f~v~~~~~~y  125 (321)
T PF08424_consen   48 ERKLSILERALKHN--PDSERLLLGYLEEGEKVWDSEKLAKKWEELLFKNPGSPELWREYLDFRQSNFASFTVSDVRDVY  125 (321)
T ss_pred             HHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHhccCcHHHHHHHH
Confidence            44555666666664  66666666666666666666666666777766666666666666654433   12344444444


Q ss_pred             HHH
Q 048090          427 ELM  429 (447)
Q Consensus       427 ~~m  429 (447)
                      .+.
T Consensus       126 ~~~  128 (321)
T PF08424_consen  126 EKC  128 (321)
T ss_pred             HHH
Confidence            433

>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function

Probab=86.75  E-value=22  Score=31.63  Aligned_cols=120  Identities=11%  Similarity=0.056  Sum_probs=76.2

Q ss_pred             HHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhc---CCccHHHH
Q 048090          314 KLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDC---GKFELGKL  390 (447)
Q Consensus       314 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~---g~~~~a~~  390 (447)
                      +.-+.+++++++.  -+.+...+..++..+.+..+.++..+-+++++...  |.+...|...+......   -.++....
T Consensus        48 E~klsilerAL~~--np~~~~L~l~~l~~~~~~~~~~~l~~~we~~l~~~--~~~~~LW~~yL~~~q~~~~~f~v~~~~~  123 (321)
T PF08424_consen   48 ERKLSILERALKH--NPDSERLLLGYLEEGEKVWDSEKLAKKWEELLFKN--PGSPELWREYLDFRQSNFASFTVSDVRD  123 (321)
T ss_pred             HHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHC--CCChHHHHHHHHHHHHHhccCcHHHHHH
Confidence            4455666766654  12346666667777777777777777777777765  66777777776665542   24556666


Q ss_pred             HHHHHhhhC------C-----C-------chhHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CCC
Q 048090          391 AAQKALELD------P-----H-------NVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGL-KKD  437 (447)
Q Consensus       391 ~~~~~~~~~------~-----~-------~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~-~p~  437 (447)
                      +|.+.++.-      .     +       -..++..+......+|..+.|..+++.+.+.++ .|+
T Consensus       124 ~y~~~l~~L~~~~~~~~~~~~~~~~~e~~~l~v~~r~~~fl~~aG~~E~Ava~~Qa~lE~n~~~P~  189 (321)
T PF08424_consen  124 VYEKCLRALSRRRSGRMTSHPDLPELEEFMLYVFLRLCRFLRQAGYTERAVALWQALLEFNFFRPE  189 (321)
T ss_pred             HHHHHHHHHHHhhccccccccchhhHHHHHHHHHHHHHHHHHHCCchHHHHHHHHHHHHHHcCCcc
Confidence            666555421      0     0       122445555566789999999999999988765 444

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=86.75  E-value=1.1  Score=25.95  Aligned_cols=24  Identities=21%  Similarity=0.180  Sum_probs=14.8

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHH
Q 048090          408 MLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       408 ~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      .|+.+|...|+.+.|.+++++...
T Consensus         4 dLA~ayie~Gd~e~Ar~lL~evl~   27 (44)
T TIGR03504         4 DLARAYIEMGDLEGARELLEEVIE   27 (44)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHH
Confidence            355566666666666666666654

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.

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=86.66  E-value=11  Score=28.10  Aligned_cols=75  Identities=13%  Similarity=0.134  Sum_probs=43.4

Q ss_pred             CCChhhHHHHHHHHHHcCC---HHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchh
Q 048090          330 EPGPEHYSCLVDLLCRAGE---LDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVG  404 (447)
Q Consensus       330 ~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  404 (447)
                      .++..+--.+..++.+..+   ..+-+.+++++.+..-..........|.-++.+.++++++.++.+..++.+|+|..
T Consensus        29 ~~s~~s~f~lAwaLV~S~~~~dv~~GI~iLe~l~~~~~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~~e~~n~Q  106 (149)
T KOG3364|consen   29 DVSKQSQFNLAWALVRSRDTEDVQEGIVILEDLLKSAHPERRRECLYYLAVGHYRLKEYSKSLRYVDALLETEPNNRQ  106 (149)
T ss_pred             cchHHHHHHHHHHHHcccchHHHHHhHHHHHHHhhhcCcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHhhCCCcHH
Confidence            4444454555555555443   44555666666652211112223445666777777777777777777777776654

>COG5191 Uncharacterized conserved protein, contains HAT (Half-A-TPR) repeat [General function prediction only]

Probab=86.38  E-value=2.3  Score=36.51  Aligned_cols=81  Identities=12%  Similarity=0.186  Sum_probs=57.8

Q ss_pred             CCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHH-HHHHHHhcCCccHHHHHHHHHhhhCCCchhHHH
Q 048090          329 LEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGA-LLSACHDCGKFELGKLAAQKALELDPHNVGIYV  407 (447)
Q Consensus       329 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~-l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  407 (447)
                      +.-|+..|...+.-..+.|.+.+.-.++.+.....  |.++..|.. -..-+...++++.+..+|.+.++.+|.++.+|.
T Consensus       103 ff~D~k~w~~y~~Y~~k~k~y~~~~nI~~~~l~kh--P~nvdlWI~~c~~e~~~~ani~s~Ra~f~~glR~N~~~p~iw~  180 (435)
T COG5191         103 FFNDPKIWSQYAAYVIKKKMYGEMKNIFAECLTKH--PLNVDLWIYCCAFELFEIANIESSRAMFLKGLRMNSRSPRIWI  180 (435)
T ss_pred             CCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC--CCCceeeeeeccchhhhhccHHHHHHHHHhhhccCCCCchHHH
Confidence            34456666666665566677777888888888777  777776644 334455677888888888888888888888776


Q ss_pred             HHHH
Q 048090          408 MLSN  411 (447)
Q Consensus       408 ~l~~  411 (447)
                      ...+
T Consensus       181 eyfr  184 (435)
T COG5191         181 EYFR  184 (435)
T ss_pred             HHHH
Confidence            6554

>PRK10941 hypothetical protein; Provisional

Probab=86.11  E-value=4.9  Score=34.50  Aligned_cols=60  Identities=18%  Similarity=0.082  Sum_probs=55.2

Q ss_pred             HHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          372 WGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       372 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      .+.+-.+|.+.++++.|.++.+.++...|+++.-+.--+-.|.+.|.+..|..=++...+
T Consensus       184 l~nLK~~~~~~~~~~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c~~~A~~DL~~fl~  243 (269)
T PRK10941        184 LDTLKAALMEEKQMELALRASEALLQFDPEDPYEIRDRGLIYAQLDCEHVALSDLSYFVE  243 (269)
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            566777899999999999999999999999999899899999999999999998888876

>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B

Probab=85.26  E-value=5.1  Score=27.65  Aligned_cols=45  Identities=13%  Similarity=0.095  Sum_probs=37.1

Q ss_pred             HHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 048090          389 KLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKG  433 (447)
Q Consensus       389 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  433 (447)
                      ...+++.++.+|.|......++..+...|++++|++.+-++.+..
T Consensus         8 ~~al~~~~a~~P~D~~ar~~lA~~~~~~g~~e~Al~~Ll~~v~~d   52 (90)
T PF14561_consen    8 IAALEAALAANPDDLDARYALADALLAAGDYEEALDQLLELVRRD   52 (90)
T ss_dssp             HHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHCC-
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            456777888899999999999999999999999999988887653

>COG4976 Predicted methyltransferase (contains TPR repeat) [General function prediction only]

Probab=85.07  E-value=1.7  Score=35.47  Aligned_cols=55  Identities=27%  Similarity=0.423  Sum_probs=28.2

Q ss_pred             HcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCC
Q 048090          345 RAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPH  401 (447)
Q Consensus       345 ~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  401 (447)
                      +.++.+.|.+++.+....-  |.....|..+...-.+.|+++.|.+.|++.++++|+
T Consensus         7 ~~~D~~aaaely~qal~la--p~w~~gwfR~g~~~ekag~~daAa~a~~~~L~ldp~   61 (287)
T COG4976           7 ESGDAEAAAELYNQALELA--PEWAAGWFRLGEYTEKAGEFDAAAAAYEEVLELDPE   61 (287)
T ss_pred             ccCChHHHHHHHHHHhhcC--chhhhhhhhcchhhhhcccHHHHHHHHHHHHcCCcc
Confidence            4445555555555554433  444555555555555555555555555555554443

>KOG0376 consensus Serine-threonine phosphatase 2A, catalytic subunit [General function prediction only]

Probab=84.61  E-value=2.4  Score=38.80  Aligned_cols=106  Identities=11%  Similarity=0.101  Sum_probs=76.5

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHH-HHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHH
Q 048090          268 MLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAF-VTVISACSHTGQVKLGIEYFEWMVHDYKLEPG-PEHYSCLVDLLCR  345 (447)
Q Consensus       268 l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~-~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~  345 (447)
                      -+..+.+.+.++.|..++.+.++  ..||...| ..-..++.+.+++..|+.=+.++.+.   .|+ ...|-.=..++.+
T Consensus        10 ean~~l~~~~fd~avdlysKaI~--ldpnca~~~anRa~a~lK~e~~~~Al~Da~kaie~---dP~~~K~Y~rrg~a~m~   84 (476)
T KOG0376|consen   10 EANEALKDKVFDVAVDLYSKAIE--LDPNCAIYFANRALAHLKVESFGGALHDALKAIEL---DPTYIKAYVRRGTAVMA   84 (476)
T ss_pred             HHhhhcccchHHHHHHHHHHHHh--cCCcceeeechhhhhheeechhhhHHHHHHhhhhc---CchhhheeeeccHHHHh
Confidence            34566778899999999999998  46755444 33447888999999999888888754   454 5555555566777


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHh
Q 048090          346 AGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHD  381 (447)
Q Consensus       346 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~  381 (447)
                      .+.+.+|+..|+......  |++.. +...+.-|-.
T Consensus        85 l~~~~~A~~~l~~~~~l~--Pnd~~-~~r~~~Ec~~  117 (476)
T KOG0376|consen   85 LGEFKKALLDLEKVKKLA--PNDPD-ATRKIDECNK  117 (476)
T ss_pred             HHHHHHHHHHHHHhhhcC--cCcHH-HHHHHHHHHH
Confidence            788888888888887765  87776 5555555544

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=84.22  E-value=46  Score=32.99  Aligned_cols=138  Identities=8%  Similarity=-0.081  Sum_probs=79.3

Q ss_pred             CcchHHHhhccCCCCC-----CccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHH
Q 048090           35 NLGTLTNCLKFLNPRN-----PLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQ  109 (447)
Q Consensus        35 ~~~~A~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~  109 (447)
                      .+++|+...+.....-     ...+...|..+.-.|+++.|-...-.|...    +..-|...+..+...++......+ 
T Consensus       371 ~yeeAl~~~k~~~~~~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn----~~~eWe~~V~~f~e~~~l~~Ia~~-  445 (846)
T KOG2066|consen  371 KYEEALDAAKASIGNEERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGN----NAAEWELWVFKFAELDQLTDIAPY-  445 (846)
T ss_pred             HHHHHHHHHHhccCCccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcc----hHHHHHHHHHHhccccccchhhcc-
Confidence            3777777776654321     235778888888899999998888888653    445555555555555554432221 


Q ss_pred             HHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCC--------------------CCchhhHHHHHHHHHhcCCHH
Q 048090          110 AHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIP--------------------VKNSVCANALLSGYCEAKLWA  169 (447)
Q Consensus       110 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~--------------------~~~~~~~~~l~~~~~~~~~~~  169 (447)
                        +.......++..|..++..+.. .+...-.++..+-+                    ..+...-..|+..|...+++.
T Consensus       446 --lPt~~~rL~p~vYemvLve~L~-~~~~~F~e~i~~Wp~~Lys~l~iisa~~~q~~q~Se~~~L~e~La~LYl~d~~Y~  522 (846)
T KOG2066|consen  446 --LPTGPPRLKPLVYEMVLVEFLA-SDVKGFLELIKEWPGHLYSVLTIISATEPQIKQNSESTALLEVLAHLYLYDNKYE  522 (846)
T ss_pred             --CCCCCcccCchHHHHHHHHHHH-HHHHHHHHHHHhCChhhhhhhHHHhhcchHHHhhccchhHHHHHHHHHHHccChH
Confidence              1111111345566666665555 32222222222211                    012233445888888899999


Q ss_pred             HHHHHHHhhhh
Q 048090          170 GGLELVRLMPA  180 (447)
Q Consensus       170 ~a~~~~~~~~~  180 (447)
                      .|++++-..++
T Consensus       523 ~Al~~ylklk~  533 (846)
T KOG2066|consen  523 KALPIYLKLQD  533 (846)
T ss_pred             HHHHHHHhccC
Confidence            99988877764

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=84.22  E-value=43  Score=32.61  Aligned_cols=180  Identities=14%  Similarity=0.081  Sum_probs=91.2

Q ss_pred             HHHHHHHHHhhhhcCCCCcHhhHHHHHHH---HhcCCcHHHHHHHHHHHHH-------hhhcCCCChhHHHHHHHHHHhc
Q 048090          168 WAGGLELVRLMPALGLDYDHFTLSALLRA---CAGLSAAEFGRQVHAYMIR-------KCCNLGNDVFMQSSLIEMYGKC  237 (447)
Q Consensus       168 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~~~l~~~~~~~  237 (447)
                      ...|.+.++...+.|. .........+..   .....+.+.|..+++.+.+       .  +   .......+..+|.+.
T Consensus       228 ~~~a~~~~~~~a~~g~-~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~--~---~~~a~~~lg~~Y~~g  301 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGH-SEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATK--G---LPPAQYGLGRLYLQG  301 (552)
T ss_pred             hhHHHHHHHHHHhhcc-hHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhh--c---CCccccHHHHHHhcC
Confidence            4567777777766552 222112122221   3355678888888888766       3  2   333455666666664


Q ss_pred             C-----ChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHh---cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHh-
Q 048090          238 G-----LVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGR---NGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACS-  308 (447)
Q Consensus       238 g-----~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~-  308 (447)
                      .     +.+.|..++.+..+.    ..|+....  +...+..   ..+...|.++|......|.. +..-+..+..... 
T Consensus       302 ~~~~~~d~~~A~~~~~~aA~~----g~~~a~~~--lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~-~A~~~la~~y~~G~  374 (552)
T KOG1550|consen  302 LGVEKIDYEKALKLYTKAAEL----GNPDAQYL--LGVLYETGTKERDYRRAFEYYSLAAKAGHI-LAIYRLALCYELGL  374 (552)
T ss_pred             CCCccccHHHHHHHHHHHHhc----CCchHHHH--HHHHHHcCCccccHHHHHHHHHHHHHcCCh-HHHHHHHHHHHhCC
Confidence            3     566688888765443    33333322  2222222   23567888888888777633 2222211111111 


Q ss_pred             -ccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 048090          309 -HTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRG  363 (447)
Q Consensus       309 -~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  363 (447)
                       -..+.+.|..++.+.... + .|...--...+..+.. ++.+.+.-.+..+...+
T Consensus       375 gv~r~~~~A~~~~k~aA~~-g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g  427 (552)
T KOG1550|consen  375 GVERNLELAFAYYKKAAEK-G-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAELG  427 (552)
T ss_pred             CcCCCHHHHHHHHHHHHHc-c-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhh
Confidence             234677777777777665 4 2221111122222223 55555555555554444

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=84.09  E-value=40  Score=32.20  Aligned_cols=184  Identities=11%  Similarity=-0.044  Sum_probs=109.7

Q ss_pred             cHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhH
Q 048090          186 DHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLW  265 (447)
Q Consensus       186 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  265 (447)
                      +..+|..-+.--...|+.+.+.-+|+...-.   +..=...|-..+.-....|+.+.|..++....+.    ..++....
T Consensus       296 ql~nw~~yLdf~i~~g~~~~~~~l~ercli~---cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i----~~k~~~~i  368 (577)
T KOG1258|consen  296 QLKNWRYYLDFEITLGDFSRVFILFERCLIP---CALYDEFWIKYARWMESSGDVSLANNVLARACKI----HVKKTPII  368 (577)
T ss_pred             HHHHHHHHhhhhhhcccHHHHHHHHHHHHhH---HhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhh----cCCCCcHH
Confidence            3456766777777888888888888877553   2223344555555555558888888877755443    23333333


Q ss_pred             HHHHHHHH-hcCCHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHhccCcHHHHHH---HHHHHHHhcCCCCChhhHHHHH
Q 048090          266 TSMLGVYG-RNGYFKEVIKLYEAMLMNGTKPDEV-AFVTVISACSHTGQVKLGIE---YFEWMVHDYKLEPGPEHYSCLV  340 (447)
Q Consensus       266 ~~l~~~~~-~~g~~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~~~~~~a~~---~~~~~~~~~~~~~~~~~~~~l~  340 (447)
                      ..+-..+. ..|++..|..+++.+...-  |+.. .-..-+....+.|+.+.+..   ++......   .-+......+.
T Consensus       369 ~L~~a~f~e~~~n~~~A~~~lq~i~~e~--pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~---~~~~~i~~~l~  443 (577)
T KOG1258|consen  369 HLLEARFEESNGNFDDAKVILQRIESEY--PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEG---KENNGILEKLY  443 (577)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHHhhC--CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhccc---ccCcchhHHHH
Confidence            33333344 3578999999999987763  5432 22222334456677776663   33322211   22222222222


Q ss_pred             HH-----HHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcC
Q 048090          341 DL-----LCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCG  383 (447)
Q Consensus       341 ~~-----~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  383 (447)
                      --     +.-.++.+.|..++.++....  |++...|..++..+...+
T Consensus       444 ~~~~r~~~~i~~d~~~a~~~l~~~~~~~--~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  444 VKFARLRYKIREDADLARIILLEANDIL--PDCKVLYLELIRFELIQP  489 (577)
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHhhhcC--CccHHHHHHHHHHHHhCC
Confidence            21     234678889999999988765  778777888888777665

>PF07575 Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR011502 This is a family of nucleoporins conserved from yeast to human

Probab=84.01  E-value=45  Score=32.64  Aligned_cols=76  Identities=13%  Similarity=0.172  Sum_probs=29.4

Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHH
Q 048090          282 IKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEML  360 (447)
Q Consensus       282 ~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  360 (447)
                      ....+.+..+-...+......++..|.+.|-.+.|..+.+.+-.+ -  ....-|..-+..+.++|+...+..+.+.+.
T Consensus       390 ~~~i~~lL~~~p~~t~~~~~k~l~iC~~~~L~~~a~~I~~~~~~~-~--~~~~~~g~AL~~~~ra~d~~~v~~i~~~ll  465 (566)
T PF07575_consen  390 RERIEELLPRVPLDTNDDAEKLLEICAELGLEDVAREICKILGQR-L--LKEGRYGEALSWFIRAGDYSLVTRIADRLL  465 (566)
T ss_dssp             HHHHHHHGGG----SHHHHHHHHHHHHHHT-HHHHHHHHHHHHHH-H--HHHHHHHHHHHHHH----------------
T ss_pred             HHHHHHHHhhCCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHH-H--HHCCCHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            333444443323335555667777777777777777777766443 1  112223333444455555554444444433

Nup85 Nucleoporin is an essential component of the nuclear pore complex (NPC) that seems to be required for NPC assembly and maintenance. As part of the NPC Nup107-160 subcomplex plays a role in RNA export and in tethering NUP98/Nup98 and NUP153 to the nucleus. The Nup107-160 complex seems to be required for spindle assembly during mitosis. NUP85 is required for membrane clustering of CCL2-activated CCR2. Seems to be involved in CCR2-mediated chemotaxis of monocytes and may link activated CCR2 to the phosphatidyl-inositol-3-kinase-Rac-lammellipodium protrusion cascade [, , ]. ; PDB: 3F3F_D 3F3P_G 3F3G_G 3EWE_B.

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=81.99  E-value=19  Score=26.96  Aligned_cols=64  Identities=13%  Similarity=-0.008  Sum_probs=48.3

Q ss_pred             chHhHHHHHHHHHhcCC---ccHHHHHHHHHhhhC-CC-chhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          368 SVSMWGALLSACHDCGK---FELGKLAAQKALELD-PH-NVGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       368 ~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~-~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      ...+-..+..++.+..+   ..+...+++...+.. |. .......|+-++.+.|+++.+..+.+.+.+
T Consensus        31 s~~s~f~lAwaLV~S~~~~dv~~GI~iLe~l~~~~~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~   99 (149)
T KOG3364|consen   31 SKQSQFNLAWALVRSRDTEDVQEGIVILEDLLKSAHPERRRECLYYLAVGHYRLKEYSKSLRYVDALLE   99 (149)
T ss_pred             hHHHHHHHHHHHHcccchHHHHHhHHHHHHHhhhcCcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHh
Confidence            34446677888877664   556778999988744 43 455677778899999999999999988876

>PRK13800 putative oxidoreductase/HEAT repeat-containing protein; Provisional

Probab=81.85  E-value=71  Score=33.41  Aligned_cols=257  Identities=9%  Similarity=-0.015  Sum_probs=152.8

Q ss_pred             HHhhccCCCCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCC
Q 048090           40 TNCLKFLNPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLS  119 (447)
Q Consensus        40 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  119 (447)
                      ..+...+..+|+.+....+..+.+.+.. .+...+..+...   ++...-...+.++.+.+........+..+++.   +
T Consensus       624 ~~L~~~L~D~d~~VR~~Av~~L~~~~~~-~~~~~L~~aL~D---~d~~VR~~Aa~aL~~l~~~~~~~~~L~~~L~~---~  696 (897)
T PRK13800        624 AELAPYLADPDPGVRRTAVAVLTETTPP-GFGPALVAALGD---GAAAVRRAAAEGLRELVEVLPPAPALRDHLGS---P  696 (897)
T ss_pred             HHHHHHhcCCCHHHHHHHHHHHhhhcch-hHHHHHHHHHcC---CCHHHHHHHHHHHHHHHhccCchHHHHHHhcC---C
Confidence            3455556688888888888888887764 455666666643   23333334444444433221222334344432   5


Q ss_pred             chhhHHHHHHHHHccCChhhHHHHhccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhc
Q 048090          120 SVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAG  199 (447)
Q Consensus       120 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  199 (447)
                      |..+-...+..+...+.. ....+...+..+|...-...+.++.+.+..+.    +.....   .++...-.....++..
T Consensus       697 d~~VR~~A~~aL~~~~~~-~~~~l~~~L~D~d~~VR~~Av~aL~~~~~~~~----l~~~l~---D~~~~VR~~aa~aL~~  768 (897)
T PRK13800        697 DPVVRAAALDVLRALRAG-DAALFAAALGDPDHRVRIEAVRALVSVDDVES----VAGAAT---DENREVRIAVAKGLAT  768 (897)
T ss_pred             CHHHHHHHHHHHHhhccC-CHHHHHHHhcCCCHHHHHHHHHHHhcccCcHH----HHHHhc---CCCHHHHHHHHHHHHH
Confidence            666666666766654422 23345566667787777777777777665432    222222   4566666667777776


Q ss_pred             CCcHHH-HHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCH
Q 048090          200 LSAAEF-GRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYF  278 (447)
Q Consensus       200 ~~~~~~-a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  278 (447)
                      .+..+. +...+..+.+.     ++..+-...+.++...|..+.+...+..+  .    ..++...-...+.++.+.+. 
T Consensus       769 ~~~~~~~~~~~L~~ll~D-----~d~~VR~aA~~aLg~~g~~~~~~~~l~~a--L----~d~d~~VR~~Aa~aL~~l~~-  836 (897)
T PRK13800        769 LGAGGAPAGDAVRALTGD-----PDPLVRAAALAALAELGCPPDDVAAATAA--L----RASAWQVRQGAARALAGAAA-  836 (897)
T ss_pred             hccccchhHHHHHHHhcC-----CCHHHHHHHHHHHHhcCCcchhHHHHHHH--h----cCCChHHHHHHHHHHHhccc-
Confidence            665432 33444455443     46778888889999888766553333321  1    23455566667777777776 


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHh
Q 048090          279 KEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHD  326 (447)
Q Consensus       279 ~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  326 (447)
                      +++...+..+.+   .|+...-...+.++.+......+...+..+.++
T Consensus       837 ~~a~~~L~~~L~---D~~~~VR~~A~~aL~~~~~~~~a~~~L~~al~D  881 (897)
T PRK13800        837 DVAVPALVEALT---DPHLDVRKAAVLALTRWPGDPAARDALTTALTD  881 (897)
T ss_pred             cchHHHHHHHhc---CCCHHHHHHHHHHHhccCCCHHHHHHHHHHHhC
Confidence            456666666654   567777777777887764445677777777653

>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A

Probab=81.66  E-value=3.9  Score=24.83  Aligned_cols=31  Identities=13%  Similarity=0.128  Sum_probs=25.0

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 048090          405 IYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKD  437 (447)
Q Consensus       405 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~  437 (447)
                      ....++.++.+.|++++|.+..+.+.+  ++|+
T Consensus         3 ~lY~lAig~ykl~~Y~~A~~~~~~lL~--~eP~   33 (53)
T PF14853_consen    3 CLYYLAIGHYKLGEYEKARRYCDALLE--IEPD   33 (53)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH--HTTS
T ss_pred             hHHHHHHHHHHhhhHHHHHHHHHHHHh--hCCC
Confidence            456677789999999999999999987  5665

>KOG0545 consensus Aryl-hydrocarbon receptor-interacting protein [Posttranslational modification, protein turnover, chaperones]

Probab=81.55  E-value=23  Score=29.61  Aligned_cols=60  Identities=13%  Similarity=-0.056  Sum_probs=52.9

Q ss_pred             HHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          372 WGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       372 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      +..+-+++...|++-++.+-..+++...|.|..+|..-+.+....=+.++|..-|.....
T Consensus       233 llNy~QC~L~~~e~yevleh~seiL~~~~~nvKA~frRakAhaa~Wn~~eA~~D~~~vL~  292 (329)
T KOG0545|consen  233 LLNYCQCLLKKEEYYEVLEHCSEILRHHPGNVKAYFRRAKAHAAVWNEAEAKADLQKVLE  292 (329)
T ss_pred             HHhHHHHHhhHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhhcCHHHHHHHHHHHHh
Confidence            566778888999999999999999999999999999999998888888888887777765

>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=81.35  E-value=5.7  Score=26.36  Aligned_cols=47  Identities=6%  Similarity=0.094  Sum_probs=19.8

Q ss_pred             ccCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHHH
Q 048090          309 HTGQVKLGIEYFEWMVHDYKLEPG-PEHYSCLVDLLCRAGELDKAWKL  355 (447)
Q Consensus       309 ~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~  355 (447)
                      ..+..++|+..|....++..-.|+ -.++..|+.+|+..|++.+++++
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            334444455555544443111111 22334444455555555444443

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

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=81.24  E-value=11  Score=35.59  Aligned_cols=136  Identities=13%  Similarity=-0.006  Sum_probs=92.2

Q ss_pred             CCCHHHHHHHHHHHhcc--CcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHh
Q 048090          294 KPDEVAFVTVISACSHT--GQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSM  371 (447)
Q Consensus       294 ~p~~~~~~~ll~~~~~~--~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~  371 (447)
                      .|+..+...++.-....  ...+-+..++..|.+  .+.|--...|.-.-.+...|+...|...+..+....-...++ .
T Consensus       568 ~~~~~~~k~~~~r~~~~~i~e~e~~~~~~~~~~~--~~~p~w~~ln~aglywr~~gn~~~a~~cl~~a~~~~p~~~~v-~  644 (886)
T KOG4507|consen  568 MPDDHARKILLSRINNYTIPEEEIGSFLFHAINK--PNAPIWLILNEAGLYWRAVGNSTFAIACLQRALNLAPLQQDV-P  644 (886)
T ss_pred             CchHHHHHHHHHHHhcccCcHHHHHHHHHHHhcC--CCCCeEEEeecccceeeecCCcHHHHHHHHHHhccChhhhcc-c
Confidence            45555555554433322  223334445554432  233332222322222345799999999998887654222233 3


Q ss_pred             HHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 048090          372 WGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       372 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  432 (447)
                      ...|.+...+.|.+..|..++.+.+.+....+-++..++++|.-..+.+.|++.|++..+.
T Consensus       645 ~v~la~~~~~~~~~~da~~~l~q~l~~~~sepl~~~~~g~~~l~l~~i~~a~~~~~~a~~~  705 (886)
T KOG4507|consen  645 LVNLANLLIHYGLHLDATKLLLQALAINSSEPLTFLSLGNAYLALKNISGALEAFRQALKL  705 (886)
T ss_pred             HHHHHHHHHHhhhhccHHHHHHHHHhhcccCchHHHhcchhHHHHhhhHHHHHHHHHHHhc
Confidence            6778888999999999999999999998888899999999999999999999999988763

>PRK13800 putative oxidoreductase/HEAT repeat-containing protein; Provisional

Probab=80.81  E-value=77  Score=33.15  Aligned_cols=258  Identities=8%  Similarity=-0.076  Sum_probs=141.7

Q ss_pred             hHHHHhccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhh
Q 048090          139 DAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCC  218 (447)
Q Consensus       139 ~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  218 (447)
                      ....+...+..+|+..-...+..+.+.+..+ +...+....+   .++...-...+.++.+.+........+..++..  
T Consensus       622 ~~~~L~~~L~D~d~~VR~~Av~~L~~~~~~~-~~~~L~~aL~---D~d~~VR~~Aa~aL~~l~~~~~~~~~L~~~L~~--  695 (897)
T PRK13800        622 SVAELAPYLADPDPGVRRTAVAVLTETTPPG-FGPALVAALG---DGAAAVRRAAAEGLRELVEVLPPAPALRDHLGS--  695 (897)
T ss_pred             hHHHHHHHhcCCCHHHHHHHHHHHhhhcchh-HHHHHHHHHc---CCCHHHHHHHHHHHHHHHhccCchHHHHHHhcC--
Confidence            3345566666788888888888887777644 5455555553   345444445555554433221222333333332  


Q ss_pred             cCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH
Q 048090          219 NLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEV  298 (447)
Q Consensus       219 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  298 (447)
                         ++..+-...+.++...+..+ ...+...+       ..+|...-...+.++.+.+..+.    +..+.   -.++..
T Consensus       696 ---~d~~VR~~A~~aL~~~~~~~-~~~l~~~L-------~D~d~~VR~~Av~aL~~~~~~~~----l~~~l---~D~~~~  757 (897)
T PRK13800        696 ---PDPVVRAAALDVLRALRAGD-AALFAAAL-------GDPDHRVRIEAVRALVSVDDVES----VAGAA---TDENRE  757 (897)
T ss_pred             ---CCHHHHHHHHHHHHhhccCC-HHHHHHHh-------cCCCHHHHHHHHHHHhcccCcHH----HHHHh---cCCCHH
Confidence               45566666666665443211 12222211       24455555666667666654432    22222   245566


Q ss_pred             HHHHHHHHHhccCcHHH-HHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHH
Q 048090          299 AFVTVISACSHTGQVKL-GIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLS  377 (447)
Q Consensus       299 ~~~~ll~~~~~~~~~~~-a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~  377 (447)
                      .-...+.++...+..+. +...+..+.+    .++...-...+.++.+.|..+.+...+..+++.   + +..+-...+.
T Consensus       758 VR~~aa~aL~~~~~~~~~~~~~L~~ll~----D~d~~VR~aA~~aLg~~g~~~~~~~~l~~aL~d---~-d~~VR~~Aa~  829 (897)
T PRK13800        758 VRIAVAKGLATLGAGGAPAGDAVRALTG----DPDPLVRAAALAALAELGCPPDDVAAATAALRA---S-AWQVRQGAAR  829 (897)
T ss_pred             HHHHHHHHHHHhccccchhHHHHHHHhc----CCCHHHHHHHHHHHHhcCCcchhHHHHHHHhcC---C-ChHHHHHHHH
Confidence            66666677776665433 3444555543    456777778888888888766655555556554   2 3444566677


Q ss_pred             HHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          378 ACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       378 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      ++...+.. ++...+..+++  -++..+-...+.++.+.+....+...+....+
T Consensus       830 aL~~l~~~-~a~~~L~~~L~--D~~~~VR~~A~~aL~~~~~~~~a~~~L~~al~  880 (897)
T PRK13800        830 ALAGAAAD-VAVPALVEALT--DPHLDVRKAAVLALTRWPGDPAARDALTTALT  880 (897)
T ss_pred             HHHhcccc-chHHHHHHHhc--CCCHHHHHHHHHHHhccCCCHHHHHHHHHHHh
Confidence            77777653 45555555553  22455666666666665334456666665554

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=80.19  E-value=4.8  Score=23.30  Aligned_cols=25  Identities=12%  Similarity=0.050  Sum_probs=15.6

Q ss_pred             HHHHHHhCCChhhHHHHHHHHHhcC
Q 048090           57 VISDFCRNGSPLYALKTFSFMHVHG   81 (447)
Q Consensus        57 l~~~~~~~~~~~~a~~~~~~m~~~~   81 (447)
                      |..+|...|+.+.|.+++++....|
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~~~   29 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIEEG   29 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHcC
Confidence            4556666666666666666666543

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.

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=80.09  E-value=54  Score=30.89  Aligned_cols=63  Identities=14%  Similarity=0.104  Sum_probs=30.6

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHh
Q 048090          151 NSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRK  216 (447)
Q Consensus       151 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  216 (447)
                      |....-+++..+..+..+.-...+..+|...|  .+...|..++.+|... .-++-..+++++++.
T Consensus        65 ~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~  127 (711)
T COG1747          65 DDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEY  127 (711)
T ss_pred             cchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHh
Confidence            33344445555555555555555555555432  3444455555555444 334444555555444

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=80.05  E-value=19  Score=27.42  Aligned_cols=81  Identities=10%  Similarity=0.049  Sum_probs=47.1

Q ss_pred             HHHHHHHHHhCCChhhHHHHHHHHHhcCC-----CCchhhHHHHHHHhccCCc-hhHHHHHHHHHHHcCCCCchhhHHHH
Q 048090           54 FNVVISDFCRNGSPLYALKTFSFMHVHGI-----FLDTYALCSSLTASTSVKD-ARFGKQVQAHVTKSGWLSSVFVGSAL  127 (447)
Q Consensus        54 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~-----~p~~~~~~~ll~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l  127 (447)
                      .|+++.-.+..+++...+.+++.+..-..     ..+..+|..++++.+...- --.+..+|..+.+.+.++++.-|..+
T Consensus        42 iN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~l  121 (145)
T PF13762_consen   42 INCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSCL  121 (145)
T ss_pred             HHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence            45666666666666666666666632110     2244556777776655544 33455566666666666666667666


Q ss_pred             HHHHHcc
Q 048090          128 IDLYAKL  134 (447)
Q Consensus       128 ~~~~~~~  134 (447)
                      +.++.+-
T Consensus       122 i~~~l~g  128 (145)
T PF13762_consen  122 IKAALRG  128 (145)
T ss_pred             HHHHHcC
Confidence            6665544

>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=80.02  E-value=3.1  Score=27.57  Aligned_cols=45  Identities=13%  Similarity=0.048  Sum_probs=29.7

Q ss_pred             hcCCccHHHHHHHHHhhhCCCc---hhHHHHHHHHHHhcCChHHHHHH
Q 048090          381 DCGKFELGKLAAQKALELDPHN---VGIYVMLSNLYAKFCMWDEIGQL  425 (447)
Q Consensus       381 ~~g~~~~a~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~  425 (447)
                      ...+.+.|...|+++++..++.   ..++-.|+.+|+..|++.+++++
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            5556677777777777765443   33555666777777887777654

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

---

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	447
3tax_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	3e-06
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-04
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-04
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	1e-04
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	2e-04
4g1t_A	472	Interferon-induced protein with tetratricopeptide	2e-04
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	3e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-04

>3tax_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; thiocarbamate crosslink, covalent inhibitor, gylcosyltransfe inhibitor, O-GLCNAC transferase; HET: UDP; 1.88A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* Length = 723

 Score = 48.7 bits (115), Expect = 3e-06
 Identities = 26/163 (15%), Positives = 57/163 (34%), Gaps = 9/163 (5%)

Query: 260 KDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPD-EVAFVTVISACSHTGQVKLGIE 318
                  ++  +    G  +E ++LY   L     P+   A   + S     G+++  + 
Sbjct: 7   THADSLNNLANIKREQGNIEEAVRLYRKALE--VFPEFAAAHSNLASVLQQQGKLQEALM 64

Query: 319 YFEWMVHDYKLEPG-PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLS 377
           +++  +   ++ P   + YS + + L    ++  A +     +      +       L S
Sbjct: 65  HYKEAI---RISPTFADAYSNMGNTLKEMQDVQGALQCYTRAIQINPAFAD--AHSNLAS 119

Query: 378 ACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWD 420
              D G       + + AL+L P     Y  L++     C W 
Sbjct: 120 IHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWT 162

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 43.7 bits (101), Expect = 1e-04
 Identities = 23/174 (13%), Positives = 54/174 (31%), Gaps = 9/174 (5%)

Query: 176 RLMPALGLDYDHFTLSALLRACAGLSAAEFGR---QVHAYMIRKCCNLGNDVFMQSSLIE 232
                  L      L A  + C  L   +       +  +  ++       + M ++++ 
Sbjct: 116 GQHSQAQLSGQQQRLLAFFKCC--LLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVML 173

Query: 233 MYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVI-KLYEAMLMN 291
            + + G   + + V  +     +  +  D++ + + L   GR       I +  E M   
Sbjct: 174 GWARQGAFKELVYVLFM---VKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQE 230

Query: 292 GTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCR 345
           G K   +    ++S       +K   +         +L P       L D+  +
Sbjct: 231 GLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAK 284

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 43.7 bits (101), Expect = 1e-04
 Identities = 15/149 (10%), Positives = 42/149 (28%), Gaps = 7/149 (4%)

Query: 286 EAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGP--EHYSCLVDLL 343
                      +   +     C  T Q+ L            +       + Y+ ++   
Sbjct: 116 GQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGW 175

Query: 344 CRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKAL-ELDPHN 402
            R G   +   ++  + D G     +S   A    C   G+ +      ++ L ++    
Sbjct: 176 ARQGAFKELVYVLFMVKDAGLTPDLLSY--AAALQC--MGRQDQDAGTIERCLEQMSQEG 231

Query: 403 VGIYVMLSNLYAKFCMWDEIGQLRELMKE 431
           + +  + + +         + +    +K 
Sbjct: 232 LKLQALFTAVLLSEEDRATVLKAVHKVKP 260

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus} Length = 208

 Score = 42.0 bits (99), Expect = 1e-04
 Identities = 20/98 (20%), Positives = 36/98 (36%), Gaps = 2/98 (2%)

Query: 318 EYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLS 377
           E + W   D   E   +  + L     +    DKA+    E+L +    ++V    A   
Sbjct: 39  EMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKA--PNNVDCLEACAE 96

Query: 378 ACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAK 415
                G+ +      +K L+L+  N+   + L N Y  
Sbjct: 97  MQVCRGQEKDALRMYEKILQLEADNLAANIFLGNYYYL 134

>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* Length = 568

 Score = 42.9 bits (101), Expect = 2e-04
 Identities = 30/153 (19%), Positives = 50/153 (32%), Gaps = 9/153 (5%)

Query: 275 NGYFKEVIKLYEAMLMNGTKPDEV-AFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG- 332
                  +    A +    +P +  A++ +  A    G    G    +  +    L PG 
Sbjct: 2   TADGPRELLQLRAAV--RHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGL---ALHPGH 56

Query: 333 PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAA 392
           PE  + L  +        +A  L+ +  D         +   L  A  D G+ E    A 
Sbjct: 57  PEAVARLGRVRWTQQRHAEAAVLLQQASDAA--PEHPGIALWLGHALEDAGQAEAAAAAY 114

Query: 393 QKALELDPHNVGIYVMLSNLYAKFCMWDEIGQL 425
            +A +L P    I   L N   + C W  +  L
Sbjct: 115 TRAHQLLPEEPYITAQLLNWRRRLCDWRALDVL 147

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens} Length = 472

 Score = 42.2 bits (99), Expect = 2e-04
 Identities = 33/201 (16%), Positives = 62/201 (30%), Gaps = 17/201 (8%)

Query: 238 GLVTKALQVFNLAGHRLEGEIN-----KDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNG 292
           G    AL+    A   ++ E       + +V W +   VY   G   +V    + +    
Sbjct: 65  GQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVC 124

Query: 293 TKPDEVAFVTVISACSHTGQ--VKLGIEYFEWMVHDYK----LEPG-PEHYSCLVDLLCR 345
            K      +         G   +K G    E     ++     +P  PE  S L     R
Sbjct: 125 EKFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNPEFTSGLAIASYR 184

Query: 346 AGELDKAWKLINEM-----LDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDP 400
                 +   I+ +     L+  +    V +   L     +  +   G+   ++ALE  P
Sbjct: 185 LDNWPPSQNAIDPLRQAIRLNPDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAP 244

Query: 401 HNVGIYVMLSNLYAKFCMWDE 421
               +    +  Y +    D+
Sbjct: 245 GVTDVLRSAAKFYRRKDEPDK 265

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus} Length = 291

 Score = 41.6 bits (97), Expect = 3e-04
 Identities = 21/186 (11%), Positives = 54/186 (29%), Gaps = 12/186 (6%)

Query: 230 LIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLG-VYGRNGYFKEVIKLYEAM 288
             E           +   +     +   ++     +  M   +Y  +      ++     
Sbjct: 71  FAEYLASHSRRDAIVAELDRE---MSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQG 127

Query: 289 LMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGE 348
                          +       ++ L  +  + M    +     +  +  V L     +
Sbjct: 128 D------SLECMAMTVQILLKLDRLDLARKELKKMQDQDEDATLTQLATAWVSLAAGGEK 181

Query: 349 LDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVM 408
           L  A+ +  EM D+   S ++ +     +     G++E  +   Q+AL+ D  +    + 
Sbjct: 182 LQDAYYIFQEMADKC--SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPETLIN 239

Query: 409 LSNLYA 414
           L  L  
Sbjct: 240 LVVLSQ 245

>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 = 41.4 bits (96), Expect = 5e-04
 Identities = 30/208 (14%), Positives = 50/208 (24%), Gaps = 79/208 (37%)

Query: 293 TKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEP-GP----EHYSCLVDLLCRAG 347
           +K +E+    V           L I Y ++++   K E   P      Y    D L    
Sbjct: 73  SKQEEMVQKFVEEV--------LRINY-KFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDN 123

Query: 348 EL---------DKAWKLINEM--LDRG-----HGSSSVSMWGALLSACHDCGKFELGKLA 391
           ++             KL   +  L         G     + G         GK  +    
Sbjct: 124 QVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDG-----VLG--------SGKTWVALDV 170

Query: 392 AQKALELDPHNVGIY--------------VMLSNLYAKF-CMW---------------DE 421
                     +  I+               ML  L  +    W                 
Sbjct: 171 CLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSI 230

Query: 422 IGQLRELMKEKGLKK------DVGCSWI 443
             +LR L+K K  +       +V  +  
Sbjct: 231 QAELRRLLKSKPYENCLLVLLNVQNAKA 258

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	447
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	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.98
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.97
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.96
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.96
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.96
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.96
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.94
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.93
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.93
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.92
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.92
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.9
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.9
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.89
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.89
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.88
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.87
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.87
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.87
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.87
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.86
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.86
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.86
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.85
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.85
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.83
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.82
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.82
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.81
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.8
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.8
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.78
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.78
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.76
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.76
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.76
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.76
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.75
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.75
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.75
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.74
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.74
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.74
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.74
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.74
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.73
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.71
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.7
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.7
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.7
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.7
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.7
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.69
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.69
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.69
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.68
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.67
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.67
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.66
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.66
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.64
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.64
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.62
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.61
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.61
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.6
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.6
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.59
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.58
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.57
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.57
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.57
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.56
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.56
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.55
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.53
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.52
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.51
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.5
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.45
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.42
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.41
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.4
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.4
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.38
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.38
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.38
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.37
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.36
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.36
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.35
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.34
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.31
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.3
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.3
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.28
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.28
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.26
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.25
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.25
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.22
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.21
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.2
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.2
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.2
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.19
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.19
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.19
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.19
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.18
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.16
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	99.16
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.15
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.14
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.14
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.13
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.11
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.1
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	99.09
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	99.09
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.09
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	99.08
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	99.07
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	99.07
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	99.06
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	99.06
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	99.04
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.04
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.03
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.03
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	99.02
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	99.02
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	99.0
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	99.0
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	99.0
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	99.0
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.99
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.98
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.98
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.97
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.95
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.95
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.94
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.93
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.93
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.92
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.92
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.91
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.91
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.91
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.89
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.86
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.85
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.84
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.83
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.83
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.83
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.83
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.82
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.82
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.81
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.81
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.8
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.79
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.79
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.77
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.76
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.75
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.75
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.75
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.74
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.74
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.73
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.72
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.72
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.71
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.71
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.7
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.67
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.66
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.64
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.64
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.61
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.6
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.59
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.55
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.54
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.53
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.49
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.47
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.46
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.46
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.45
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.43
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.41
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.4
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.29
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.26
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.24
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	98.22
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.19
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	98.19
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.09
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.04
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.03
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.98
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.8
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.77
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.76
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.74
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.64
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.6
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.6
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.59
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.53
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.53
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.28
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.26
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.23
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	97.23
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	97.21
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	97.13
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	97.12
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	97.09
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.99
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.99
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	96.95
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.88
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.87
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.74
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.39
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	96.28
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.0
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	95.9
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	95.88
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	95.5
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	95.32
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	95.16
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	95.12
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	95.11
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	94.87
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	94.83
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	94.67
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	93.69
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	93.48
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	93.28
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	93.24
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	93.07
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	91.92
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	91.1
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	91.03
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	90.84
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	90.83
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	90.72
2p58_C	116	Putative type III secretion protein YSCG; type III	90.59
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	89.62
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	89.08
3ltm_A	211	Alpha-REP4; protein engineering, heat-like repeat,	88.92
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	88.29
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	88.06
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	87.94
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	87.49
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	87.0
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	84.63
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	83.85
3ltj_A	201	Alpharep-4; protein engineering, heat-like repeat,	83.72
4a1g_A	152	Mitotic checkpoint serine/threonine-protein kinas;	83.02
1n11_A	437	Ankyrin; clathrin, BAND 3, anion exchanger, struct	82.67
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	81.36
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	81.13

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=5.2e-40  Score=317.80  Aligned_cols=410  Identities=10%  Similarity=-0.007  Sum_probs=353.6

Q ss_pred             hhHHHhhhhhhhhhcccccCCcchHHHhhccC--CCCCCccHHHHHHHHHhCCChhhHHHHHHHHHhc------------
Q 048090           15 CLIIFQSRLMLPYTTCRHKKNLGTLTNCLKFL--NPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVH------------   80 (447)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~------------   80 (447)
                      ||..++..+...|.+.|   ++++|..+|+.+  .++++.+|+.++.+|.+.|++++|.++|+++...            
T Consensus       115 p~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  191 (597)
T 2xpi_A          115 GNPNDAFWLAQVYCCTG---DYARAKCLLTKEDLYNRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLM  191 (597)
T ss_dssp             CCHHHHHHHHHHHHHTT---CHHHHHHHHHHTCGGGTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------C
T ss_pred             CCchHHHHHHHHHHHcC---cHHHHHHHHHHHhccccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccc
Confidence            45677888888888888   588999999887  4678889999999999999999999999853221            


Q ss_pred             ---CCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHH------------------------------
Q 048090           81 ---GIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSAL------------------------------  127 (447)
Q Consensus        81 ---~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l------------------------------  127 (447)
                         +..++..+|+.++.++.+.|++++|.++|+++.+.+ +.+...+..+                              
T Consensus       192 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  270 (597)
T 2xpi_A          192 QDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVD-AKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAF  270 (597)
T ss_dssp             CCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHH
T ss_pred             cccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-chhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHH
Confidence               234467889999999999999999999999998865 2233333322                              


Q ss_pred             --------HHHHHccCChhhHHHHhccCCC--CchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHH
Q 048090          128 --------IDLYAKLLLIHDAELMFDEIPV--KNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRAC  197 (447)
Q Consensus       128 --------~~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  197 (447)
                              +..|.+.|++++|.++|+++..  ++..+|+.++.+|.+.|++++|.++|+++.+.+ +.+..++..++.++
T Consensus       271 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~  349 (597)
T 2xpi_A          271 LRSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASL  349 (597)
T ss_dssp             HHHHHHTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHH
Confidence                    4556678899999999999886  789999999999999999999999999998875 44778899999999


Q ss_pred             hcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCC
Q 048090          198 AGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGY  277 (447)
Q Consensus       198 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  277 (447)
                      .+.|++++|..+++.+.+.   .+.+..++..++.+|.+.|++++|.++|+++...    .+.+..+|+.++.+|.+.|+
T Consensus       350 ~~~g~~~~A~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~~~~l~~~~~~~g~  422 (597)
T 2xpi_A          350 HESGEKNKLYLISNDLVDR---HPEKAVTWLAVGIYYLCVNKISEARRYFSKSSTM----DPQFGPAWIGFAHSFAIEGE  422 (597)
T ss_dssp             HHHTCHHHHHHHHHHHHHH---CTTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----CTTCHHHHHHHHHHHHHHTC
T ss_pred             HHhCCHHHHHHHHHHHHhh---CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh----CCCCHHHHHHHHHHHHHcCC
Confidence            9999999999999999976   4567889999999999999999999999987665    55678899999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHH
Q 048090          278 FKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLIN  357 (447)
Q Consensus       278 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  357 (447)
                      +++|.++|+++.+.+ +.+..++..++.+|.+.|++++|.++|+++.+.  .+.+..+|+.++.+|.+.|++++|.++|+
T Consensus       423 ~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  499 (597)
T 2xpi_A          423 HDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYAL--FQYDPLLLNELGVVAFNKSDMQTAINHFQ  499 (597)
T ss_dssp             HHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhCCHHHHHHHHH
Confidence            999999999999864 347889999999999999999999999999875  24468899999999999999999999999


Q ss_pred             HHHhC----CCCCCc-hHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 048090          358 EMLDR----GHGSSS-VSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       358 ~~~~~----~~~p~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  432 (447)
                      ++.+.    +..|++ ..+|..++.+|.+.|++++|...++++++.+|+++.+|..++.+|.+.|++++|.+.++++.+ 
T Consensus       500 ~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~-  578 (597)
T 2xpi_A          500 NALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLSTNDANVHTAIALVYLHKKIPGLAITHLHESLA-  578 (597)
T ss_dssp             HHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-
T ss_pred             HHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHh-
Confidence            99876    555754 678999999999999999999999999999999999999999999999999999999999987 


Q ss_pred             CCCCCCccc
Q 048090          433 GLKKDVGCS  441 (447)
Q Consensus       433 ~~~p~~~~~  441 (447)
                       +.|+....
T Consensus       579 -~~p~~~~~  586 (597)
T 2xpi_A          579 -ISPNEIMA  586 (597)
T ss_dssp             -HCTTCHHH
T ss_pred             -cCCCChHH
Confidence             45554433

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=4.5e-37  Score=297.21  Aligned_cols=381  Identities=10%  Similarity=-0.075  Sum_probs=207.2

Q ss_pred             CcchHHHhhccCCCCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHH
Q 048090           35 NLGTLTNCLKFLNPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTK  114 (447)
Q Consensus        35 ~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  114 (447)
                      ....+...+..++.+++..|+.++..+.+.|++++|..+|++|..  ..|+..++..++.++.+.|++++|.++++.+..
T Consensus        68 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  145 (597)
T 2xpi_A           68 SFLKERNAQNTDSLSREDYLRLWRHDALMQQQYKCAAFVGEKVLD--ITGNPNDAFWLAQVYCCTGDYARAKCLLTKEDL  145 (597)
T ss_dssp             --------------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HHCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCG
T ss_pred             ccCCCCCccccchHHHHHHHHHHHHHHHHccCchHHHHHHHHHHh--hCCCchHHHHHHHHHHHcCcHHHHHHHHHHHhc
Confidence            355566666666666777778888888888888888888877774  356667777777777778888888877777654


Q ss_pred             cCCCCchhhHHHHHHHHHccCChhhHHHHhccCCCC-------------------chhhHHHHHHHHHhcCCHHHHHHHH
Q 048090          115 SGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVK-------------------NSVCANALLSGYCEAKLWAGGLELV  175 (447)
Q Consensus       115 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-------------------~~~~~~~l~~~~~~~~~~~~a~~~~  175 (447)
                      .  +++..+++.++.+|.+.|++++|.++|+++...                   +..+|+.++.+|.+.|++++|.++|
T Consensus       146 ~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  223 (597)
T 2xpi_A          146 Y--NRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECY  223 (597)
T ss_dssp             G--GTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             c--ccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            2  567777777778888888888888888754332                   3667777778888888888887777


Q ss_pred             HhhhhcCC----------------------------------------------------------------------CC
Q 048090          176 RLMPALGL----------------------------------------------------------------------DY  185 (447)
Q Consensus       176 ~~~~~~~~----------------------------------------------------------------------~~  185 (447)
                      ++|.+.+.                                                                      ++
T Consensus       224 ~~~~~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~  303 (597)
T 2xpi_A          224 KEALMVDAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGLEK  303 (597)
T ss_dssp             HHHHHHCTTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTGGG
T ss_pred             HHHHHhCchhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcCCc
Confidence            77765431                                                                      13


Q ss_pred             cHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhH
Q 048090          186 DHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLW  265 (447)
Q Consensus       186 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  265 (447)
                      +..++..++.++.+.|++++|.++|+++.+.+   +.+..++..++.++.+.|++++|..+|+.+...    .+.+..+|
T Consensus       304 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~~  376 (597)
T 2xpi_A          304 SSDLLLCKADTLFVRSRFIDVLAITTKILEID---PYNLDVYPLHLASLHESGEKNKLYLISNDLVDR----HPEKAVTW  376 (597)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHH----CTTSHHHH
T ss_pred             hHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC---cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhh----CcccHHHH
Confidence            33344444444444444444444444444431   123344444444444444444444444433322    23344445


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHH
Q 048090          266 TSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCR  345 (447)
Q Consensus       266 ~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  345 (447)
                      +.++..|.+.|++++|.++|+++.+.. +.+..+|..++.++.+.|++++|.++|+++.+.  .+.+..+|..++.+|.+
T Consensus       377 ~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~  453 (597)
T 2xpi_A          377 LAVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARL--FQGTHLPYLFLGMQHMQ  453 (597)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHT--TTTCSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHH
Confidence            555555555555555555555554431 123444555555555555555555555555432  12234445555555555


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhh------CCCc-hhHHHHHHHHHHhcCC
Q 048090          346 AGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALEL------DPHN-VGIYVMLSNLYAKFCM  418 (447)
Q Consensus       346 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~------~~~~-~~~~~~l~~~~~~~g~  418 (447)
                      .|++++|.++|+++.+..  |++..+|..++.+|.+.|++++|...++++.+.      .|.+ ..+|..++.+|.+.|+
T Consensus       454 ~g~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~  531 (597)
T 2xpi_A          454 LGNILLANEYLQSSYALF--QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKM  531 (597)
T ss_dssp             HTCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTC
T ss_pred             cCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcC
Confidence            555555555555554443  444444555555555555555555555555444      2222 3445555555555555


Q ss_pred             hHHHHHHHHHHHH
Q 048090          419 WDEIGQLRELMKE  431 (447)
Q Consensus       419 ~~~A~~~~~~m~~  431 (447)
                      +++|.+.++++.+
T Consensus       532 ~~~A~~~~~~~~~  544 (597)
T 2xpi_A          532 YDAAIDALNQGLL  544 (597)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            5555555555544

>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=100.00  E-value=1.5e-30  Score=237.68  Aligned_cols=368  Identities=11%  Similarity=-0.010  Sum_probs=205.2

Q ss_pred             CcchHHHhhccC---CCCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHH
Q 048090           35 NLGTLTNCLKFL---NPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAH  111 (447)
Q Consensus        35 ~~~~A~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  111 (447)
                      ++++|...+..+   .|.++..+..+...+...|++++|...++...+.. +.+..+|..+...+.+.|++++|...|++
T Consensus        14 ~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~   92 (388)
T 1w3b_A           14 DFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEAIEHYRH   92 (388)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            456666555543   23334445555555556666666666665555542 33455566666666666666666666666


Q ss_pred             HHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCC--CC-chhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHh
Q 048090          112 VTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIP--VK-NSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHF  188 (447)
Q Consensus       112 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~--~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  188 (447)
                      +++.. |.+..+|..+..++.+.|++++|.+.|+++.  .| +...+..+...+...|++++|.+.|+++.+.. +.+..
T Consensus        93 al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~  170 (388)
T 1w3b_A           93 ALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAV  170 (388)
T ss_dssp             HHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHH
T ss_pred             HHHcC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHH
Confidence            65542 2334455556666666666666666665543  12 33445555555555666666666666655542 22344


Q ss_pred             hHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHH
Q 048090          189 TLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSM  268 (447)
Q Consensus       189 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l  268 (447)
                      ++..+...+...|++++|...|+++.+..   +.+...+..+...+...|++++|...|+++...    .+.+..++..+
T Consensus       171 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~----~p~~~~~~~~l  243 (388)
T 1w3b_A          171 AWSNLGCVFNAQGEIWLAIHHFEKAVTLD---PNFLDAYINLGNVLKEARIFDRAVAAYLRALSL----SPNHAVVHGNL  243 (388)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHH----CTTCHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcC---CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh----CcCCHHHHHHH
Confidence            55555556666666666666666665552   224455555566666666666666666544443    23345555556


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCC
Q 048090          269 LGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGE  348 (447)
Q Consensus       269 ~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  348 (447)
                      ..++.+.|++++|...|+++.+.+ +.+..++..+..++.+.|++++|...|+++.+.  .+.+..++..+...+.+.|+
T Consensus       244 ~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~  320 (388)
T 1w3b_A          244 ACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRL--CPTHADSLNNLANIKREQGN  320 (388)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcccHHHHHHHHHHHHHcCC
Confidence            666666666666666666665532 113445555556666666666666666665543  23345555566666666666


Q ss_pred             HHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcC
Q 048090          349 LDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFC  417 (447)
Q Consensus       349 ~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  417 (447)
                      +++|...++++.+..  |++..++..++.++.+.|++++|...++++++..|.++.+|..++..+...|
T Consensus       321 ~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~~~~a~~~lg~~~~~~~  387 (388)
T 1w3b_A          321 IEEAVRLYRKALEVF--PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQ  387 (388)
T ss_dssp             HHHHHHHHHHHTTSC--TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHhcC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHhHHHHHHHcc
Confidence            666666666665543  5555556666666666666666666666666666666666666655554444

>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=100.00  E-value=9e-31  Score=239.19  Aligned_cols=366  Identities=14%  Similarity=0.026  Sum_probs=321.7

Q ss_pred             HHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCC
Q 048090           57 VISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLL  136 (447)
Q Consensus        57 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  136 (447)
                      +...+.+.|++++|.+.++.+.+.. +.+...+..+...+...|++++|...++..++.. +.+..+|..+..++.+.|+
T Consensus         5 ~a~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~   82 (388)
T 1w3b_A            5 LAHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCC
Confidence            4566788999999999999998863 2345566777778889999999999999998864 6678899999999999999


Q ss_pred             hhhHHHHhccCC---CCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHH
Q 048090          137 IHDAELMFDEIP---VKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYM  213 (447)
Q Consensus       137 ~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  213 (447)
                      +++|+..|+++.   +.+..+|..+..++...|++++|.+.|+++.+.. +.+...+..+...+...|++++|.+.|+++
T Consensus        83 ~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  161 (388)
T 1w3b_A           83 LQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKA  161 (388)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            999999999875   3356689999999999999999999999998864 234456777888899999999999999999


Q ss_pred             HHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 048090          214 IRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGT  293 (447)
Q Consensus       214 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  293 (447)
                      .+..   +.+..++..+...+...|++++|...|+++...    .+.+...|..+...+...|++++|...+++..... 
T Consensus       162 l~~~---p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~----~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-  233 (388)
T 1w3b_A          162 IETQ---PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTL----DPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-  233 (388)
T ss_dssp             HHHC---TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH----CTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-
T ss_pred             HHhC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc----CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-
Confidence            9873   346789999999999999999999999988775    55667889999999999999999999999998853 


Q ss_pred             CCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhH
Q 048090          294 KPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMW  372 (447)
Q Consensus       294 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~  372 (447)
                      +.+..++..+..++...|++++|...|+++.+.   .| +..+|..+..++.+.|++++|.+.++++.+..  |++..++
T Consensus       234 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~  308 (388)
T 1w3b_A          234 PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIEL---QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC--PTHADSL  308 (388)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC--TTCHHHH
T ss_pred             cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--cccHHHH
Confidence            225788999999999999999999999999864   45 47889999999999999999999999999886  8899999


Q ss_pred             HHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCCcc
Q 048090          373 GALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDVGC  440 (447)
Q Consensus       373 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~  440 (447)
                      ..++..+...|++++|...++++++..|++..++..++.+|.+.|++++|.+.++++.+  ..|+...
T Consensus       309 ~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~--~~p~~~~  374 (388)
T 1w3b_A          309 NNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPTFAD  374 (388)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT--TCTTCHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--hCCCCHH
Confidence            99999999999999999999999999999999999999999999999999999999986  5666443

>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=99.98  E-value=2.5e-30  Score=240.17  Aligned_cols=187  Identities=10%  Similarity=0.056  Sum_probs=154.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCC---------cHHHHHHHHHHHHHhhhcCCCC
Q 048090          153 VCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLS---------AAEFGRQVHAYMIRKCCNLGND  223 (447)
Q Consensus       153 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---------~~~~a~~~~~~~~~~~~~~~~~  223 (447)
                      ..++.+|.+|++.|++++|+++|++|.+.|+.||..||+.+|.+|++.+         .++.|.++|++|...  |+.||
T Consensus        27 ~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~--G~~Pd  104 (501)
T 4g26_A           27 ALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVD--KVVPN  104 (501)
T ss_dssp             HHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHT--TCCCC
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHh--CCCCC
Confidence            3567778888888888888888888888888888888888888887554         367788888888887  78888


Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 048090          224 VFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTV  303 (447)
Q Consensus       224 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  303 (447)
                      ..+|+++|.+|++.|++++|.++|++|..   .|..||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..||+.|
T Consensus       105 ~~tyn~lI~~~~~~g~~~~A~~l~~~M~~---~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~L  181 (501)
T 4g26_A          105 EATFTNGARLAVAKDDPEMAFDMVKQMKA---FGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAAL  181 (501)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHH---TTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHH---cCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHH
Confidence            88888888888888888888888885544   478888888888888888888888888888888888888888888888


Q ss_pred             HHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHH
Q 048090          304 ISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCR  345 (447)
Q Consensus       304 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  345 (447)
                      |.+|++.|++++|.++|++|.+. +..|+..||+.++..|+.
T Consensus       182 i~~~~~~g~~d~A~~ll~~Mr~~-g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          182 LKVSMDTKNADKVYKTLQRLRDL-VRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH-TSSBCHHHHHHHHHHHHS
T ss_pred             HHHHhhCCCHHHHHHHHHHHHHh-CCCcCHHHHHHHHHHHhc
Confidence            88888888888888888888776 888888888888887765

>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=3.2e-31  Score=246.21  Aligned_cols=216  Identities=11%  Similarity=-0.009  Sum_probs=180.7

Q ss_pred             hhHHHHHHHHHhcCCCCch-hhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhcc
Q 048090           68 LYALKTFSFMHVHGIFLDT-YALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDE  146 (447)
Q Consensus        68 ~~a~~~~~~m~~~~~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  146 (447)
                      ..+..+.+++.+.++.+.+ ..++.+|.+|++.|++++|.++|++|.+.|+.||..+|++||.+|++.+...++      
T Consensus         7 s~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~------   80 (501)
T 4g26_A            7 SPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATES------   80 (501)
T ss_dssp             -----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSS------
T ss_pred             chHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhh------
Confidence            3455566777777766554 357888999999999999999999999999999999999999999887764432      


Q ss_pred             CCCCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhH
Q 048090          147 IPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFM  226 (447)
Q Consensus       147 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  226 (447)
                                      .+.+..++|.++|++|.+.|+.||..||+.+|.+|++.|++++|.++|++|.+.  |+.||..+
T Consensus        81 ----------------~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~--g~~Pd~~t  142 (501)
T 4g26_A           81 ----------------SPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAF--GIQPRLRS  142 (501)
T ss_dssp             ----------------SCCHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHT--TCCCCHHH
T ss_pred             ----------------hhcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCCccce
Confidence                            234567889999999999999999999999999999999999999999999998  89999999


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 048090          227 QSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISA  306 (447)
Q Consensus       227 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~  306 (447)
                      |+.+|.+|++.|++++|.++|++|..   .|..||..+|++||.+|++.|+.++|.+++++|.+.|..|+..||+.++..
T Consensus       143 yn~lI~~~~~~g~~~~A~~l~~~M~~---~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~  219 (501)
T 4g26_A          143 YGPALFGFCRKGDADKAYEVDAHMVE---SEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEW  219 (501)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH---TTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHH
T ss_pred             ehHHHHHHHHCCCHHHHHHHHHHHHh---cCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHH
Confidence            99999999999999999999996554   589999999999999999999999999999999999999999999999998


Q ss_pred             Hhcc
Q 048090          307 CSHT  310 (447)
Q Consensus       307 ~~~~  310 (447)
                      ++..
T Consensus       220 F~s~  223 (501)
T 4g26_A          220 FKSE  223 (501)
T ss_dssp             HHSH
T ss_pred             HhcC
Confidence            8764

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.96  E-value=1.2e-26  Score=219.98  Aligned_cols=398  Identities=9%  Similarity=-0.058  Sum_probs=319.4

Q ss_pred             HHHhhhhhhhhhcccccCCcchHHHhhccCC--CCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHH
Q 048090           17 IIFQSRLMLPYTTCRHKKNLGTLTNCLKFLN--PRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLT   94 (447)
Q Consensus        17 ~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~   94 (447)
                      ...+-.....+.+.|   ++++|...|+++.  .|++.+|..+..++.+.|++++|.+.|+++.+.+ +.+..++..+..
T Consensus         6 a~~~~~~g~~~~~~g---~~~~A~~~~~~al~~~p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~   81 (514)
T 2gw1_A            6 ALALKDKGNQFFRNK---KYDDAIKYYNWALELKEDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRAS   81 (514)
T ss_dssp             HHHHHHHHHHHHHTS---CHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhc---cHHHHHHHHHHHHhcCccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHH
Confidence            455666677777777   6999999999874  4788899999999999999999999999998875 335678899999


Q ss_pred             HhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHh------------------------------
Q 048090           95 ASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMF------------------------------  144 (447)
Q Consensus        95 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~------------------------------  144 (447)
                      ++...|++++|...|+.+.+.+ +++......++..+........+.+.+                              
T Consensus        82 ~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (514)
T 2gw1_A           82 ANEGLGKFADAMFDLSVLSLNG-DFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPS  160 (514)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHSS-SCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCC
T ss_pred             HHHHHhhHHHHHHHHHHHHhcC-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCch
Confidence            9999999999999999999876 344444444444433322222222211                              


Q ss_pred             --------ccCC---------CC-chhhHHHHHHHHHh---cCCHHHHHHHHHhhhh-----cCC--------CCcHhhH
Q 048090          145 --------DEIP---------VK-NSVCANALLSGYCE---AKLWAGGLELVRLMPA-----LGL--------DYDHFTL  190 (447)
Q Consensus       145 --------~~~~---------~~-~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~-----~~~--------~~~~~~~  190 (447)
                              ....         .| +...+......+..   .|++++|...++++.+     ...        +.+..++
T Consensus       161 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  240 (514)
T 2gw1_A          161 VTSMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISL  240 (514)
T ss_dssp             HHHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHH
Confidence                    1110         11 24444555555554   8999999999999887     311        2234577


Q ss_pred             HHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHH
Q 048090          191 SALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLG  270 (447)
Q Consensus       191 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~  270 (447)
                      ..+...+...|++++|...++.+.+..    |+...+..+..++...|++++|...++++...    .+.+..++..+..
T Consensus       241 ~~~~~~~~~~~~~~~A~~~~~~~l~~~----~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~~~~~~~~~l~~  312 (514)
T 2gw1_A          241 EHTGIFKFLKNDPLGAHEDIKKAIELF----PRVNSYIYMALIMADRNDSTEYYNYFDKALKL----DSNNSSVYYHRGQ  312 (514)
T ss_dssp             HHHHHHHHHSSCHHHHHHHHHHHHHHC----CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTT----CTTCTHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhhC----ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhc----CcCCHHHHHHHHH
Confidence            788888999999999999999999873    22788899999999999999999999977664    4557788999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHH
Q 048090          271 VYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELD  350 (447)
Q Consensus       271 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  350 (447)
                      .+...|++++|...++++.+... .+..++..+...+...|++++|...++++.+.  .+.+...+..+...+.+.|+++
T Consensus       313 ~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~  389 (514)
T 2gw1_A          313 MNFILQNYDQAGKDFDKAKELDP-ENIFPYIQLACLAYRENKFDDCETLFSEAKRK--FPEAPEVPNFFAEILTDKNDFD  389 (514)
T ss_dssp             HHHHTTCTTHHHHHHHHHHHTCS-SCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHhCh-hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--cccCHHHHHHHHHHHHHCCCHH
Confidence            99999999999999999988642 35678888999999999999999999999875  2335778889999999999999


Q ss_pred             HHHHHHHHHHhCCCCCCch------HhHHHHHHHHHh---cCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHH
Q 048090          351 KAWKLINEMLDRGHGSSSV------SMWGALLSACHD---CGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDE  421 (447)
Q Consensus       351 ~A~~~~~~~~~~~~~p~~~------~~~~~l~~~~~~---~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  421 (447)
                      +|...++++....  |.+.      .++..++.++..   .|++++|...++++++..|.+..++..++.+|.+.|++++
T Consensus       390 ~A~~~~~~a~~~~--~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~  467 (514)
T 2gw1_A          390 KALKQYDLAIELE--NKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDE  467 (514)
T ss_dssp             HHHHHHHHHHHHH--HTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHhh--hccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHH
Confidence            9999999998765  4443      279999999999   9999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHc
Q 048090          422 IGQLRELMKEK  432 (447)
Q Consensus       422 A~~~~~~m~~~  432 (447)
                      |.+.+++..+.
T Consensus       468 A~~~~~~a~~~  478 (514)
T 2gw1_A          468 AITLFEESADL  478 (514)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999999874

>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=99.96  E-value=7.7e-26  Score=210.76  Aligned_cols=368  Identities=10%  Similarity=-0.018  Sum_probs=268.3

Q ss_pred             hHHHhhccCC---CCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHH
Q 048090           38 TLTNCLKFLN---PRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTK  114 (447)
Q Consensus        38 ~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  114 (447)
                      .+...+.+..   +.++..|..+...+.+.|++++|+.+|+++.+.. +.+..++..+..++...|++++|...++++++
T Consensus        10 ~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~   88 (450)
T 2y4t_A           10 GVDLGTENLYFQSMADVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQ   88 (450)
T ss_dssp             -------------CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cccccccccccccHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            3444444433   3455678888999999999999999999998763 34678888889999999999999999999998


Q ss_pred             cCCCCchhhHHHHHHHHHccCChhhHHHHhccCCCC---ch---hhHHHH------------HHHHHhcCCHHHHHHHHH
Q 048090          115 SGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVK---NS---VCANAL------------LSGYCEAKLWAGGLELVR  176 (447)
Q Consensus       115 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~---~~~~~l------------~~~~~~~~~~~~a~~~~~  176 (447)
                      .+ +.+..++..+..+|.+.|++++|.+.|+++...   +.   ..+..+            ...+...|++++|+..|+
T Consensus        89 ~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~  167 (450)
T 2y4t_A           89 LK-MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLD  167 (450)
T ss_dssp             HC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             cC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            75 556778888899999999999999999887632   33   555555            344788889999999988


Q ss_pred             hhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhccc
Q 048090          177 LMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEG  256 (447)
Q Consensus       177 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  256 (447)
                      ++.+.. +.+...+..+..++.+.|++++|...++.+.+..   +.+..++..++.+|...|++++|...|+++...   
T Consensus       168 ~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---  240 (450)
T 2y4t_A          168 KILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK---NDNTEAFYKISTLYYQLGDHELSLSEVRECLKL---  240 (450)
T ss_dssp             HHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH---CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---
T ss_pred             HHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---
Confidence            888764 4567778888888888899999999998888873   346778888888888889999999888877654   


Q ss_pred             CCCcchhhHHHH------------HHHHHhcCCHHHHHHHHHHHHhCCCCCC-----HHHHHHHHHHHhccCcHHHHHHH
Q 048090          257 EINKDVVLWTSM------------LGVYGRNGYFKEVIKLYEAMLMNGTKPD-----EVAFVTVISACSHTGQVKLGIEY  319 (447)
Q Consensus       257 ~~~~~~~~~~~l------------~~~~~~~g~~~~a~~~~~~m~~~~~~p~-----~~~~~~ll~~~~~~~~~~~a~~~  319 (447)
                       .+.+...+..+            ...+.+.|++++|...|+++.+.  .|+     ...+..+..++.+.|++++|...
T Consensus       241 -~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  317 (450)
T 2y4t_A          241 -DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKERICHCFSKDEKPVEAIRV  317 (450)
T ss_dssp             -CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHH
T ss_pred             -CCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHHHCCCHHHHHHH
Confidence             34444455444            67788888888888888888774  343     34677777888888888888888


Q ss_pred             HHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHH------------HHhcC----
Q 048090          320 FEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSA------------CHDCG----  383 (447)
Q Consensus       320 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~------------~~~~g----  383 (447)
                      ++++.+.  .+.+...|..+..+|...|++++|...++++++..  |++..++..+..+            |...|    
T Consensus       318 ~~~a~~~--~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~~~~~~~~~y~~lg~~~~  393 (450)
T 2y4t_A          318 CSEVLQM--EPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHN--ENDQQIREGLEKAQRLLKQSQKRDYYKILGVKRN  393 (450)
T ss_dssp             HHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS--SSCHHHHHHHHHHHHHHHHHHSCCSGGGSCSSTT
T ss_pred             HHHHHHh--CcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--cchHHHHHHHHHHHHHhhcccchhHHHHhCCCcc
Confidence            8887754  13357778888888888888888888888888765  7777777777633            44444    


Q ss_pred             -CccHHHHHHHH-HhhhCCCch----------hHHHHHHHHHHhcCChHH
Q 048090          384 -KFELGKLAAQK-ALELDPHNV----------GIYVMLSNLYAKFCMWDE  421 (447)
Q Consensus       384 -~~~~a~~~~~~-~~~~~~~~~----------~~~~~l~~~~~~~g~~~~  421 (447)
                       +.+++.+.+++ +++..|++.          ..+..+..+|...++.++
T Consensus       394 ~~~~~~~~~y~~~~l~~~pd~~~~~~~~~~a~~~~~~i~~ay~~L~d~~~  443 (450)
T 2y4t_A          394 AKKQEIIKAYRKLALQWHPDNFQNEEEKKKAEKKFIDIAAAKEVLSDPEM  443 (450)
T ss_dssp             CCTTHHHHHHHHHHHHSCGGGCCSHHHHHHHHHHHHHHHHHHHHSSGGGG
T ss_pred             CCHHHHHHHHHHHHHHhCCCCCCCchHHHHHHHHHHHHHHHHHHhCCHHH
Confidence             45666777775 555555421          245555555555555443

>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=99.96  E-value=9.1e-26  Score=210.26  Aligned_cols=352  Identities=10%  Similarity=-0.027  Sum_probs=285.4

Q ss_pred             hHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCC
Q 048090           69 YALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIP  148 (447)
Q Consensus        69 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  148 (447)
                      .+...+....... +.+...+..+...+.+.|++++|..+|+.+++.. +.+..++..+..++...|++++|...|+++.
T Consensus        10 ~~~~~~~~~~~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al   87 (450)
T 2y4t_A           10 GVDLGTENLYFQS-MADVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVI   87 (450)
T ss_dssp             --------------CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             ccccccccccccc-HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            3444454554432 3467788999999999999999999999999864 5678889999999999999999999999876


Q ss_pred             ---CCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcH---hhHHHH------------HHHHhcCCcHHHHHHHH
Q 048090          149 ---VKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDH---FTLSAL------------LRACAGLSAAEFGRQVH  210 (447)
Q Consensus       149 ---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l------------~~~~~~~~~~~~a~~~~  210 (447)
                         +.+..++..+...|.+.|++++|.+.|+++.+.. +.+.   ..+..+            ...+...|++++|...+
T Consensus        88 ~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~  166 (450)
T 2y4t_A           88 QLKMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFL  166 (450)
T ss_dssp             HHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             hcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence               3467889999999999999999999999998863 2233   455444            44478899999999999


Q ss_pred             HHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 048090          211 AYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLM  290 (447)
Q Consensus       211 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  290 (447)
                      +.+.+.   .+.+..++..++.+|...|++++|...|+++...    .+.+..+|..+..+|...|++++|...|+++..
T Consensus       167 ~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  239 (450)
T 2y4t_A          167 DKILEV---CVWDAELRELRAECFIKEGEPRKAISDLKAASKL----KNDNTEAFYKISTLYYQLGDHELSLSEVRECLK  239 (450)
T ss_dssp             HHHHHH---CTTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHH----HCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHh---CCCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHh----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999987   3457889999999999999999999999987665    456788999999999999999999999999987


Q ss_pred             CCCCCCHHHHHHH------------HHHHhccCcHHHHHHHHHHHHHhcCCCCC-----hhhHHHHHHHHHHcCCHHHHH
Q 048090          291 NGTKPDEVAFVTV------------ISACSHTGQVKLGIEYFEWMVHDYKLEPG-----PEHYSCLVDLLCRAGELDKAW  353 (447)
Q Consensus       291 ~~~~p~~~~~~~l------------l~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~  353 (447)
                      .. +.+...+..+            ...+...|++++|...|+++.+.   .|+     ...|..+..++.+.|++++|.
T Consensus       240 ~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~---~p~~~~~~~~~~~~l~~~~~~~g~~~~A~  315 (450)
T 2y4t_A          240 LD-QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT---EPSIAEYTVRSKERICHCFSKDEKPVEAI  315 (450)
T ss_dssp             HC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CCSSHHHHHHHHHHHHHHHHTTTCHHHHH
T ss_pred             hC-CChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCcchHHHHHHHHHHHHHHHHCCCHHHHH
Confidence            53 2234444444            78899999999999999999875   454     457888999999999999999


Q ss_pred             HHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHH------------HHhcC----
Q 048090          354 KLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNL------------YAKFC----  417 (447)
Q Consensus       354 ~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~------------~~~~g----  417 (447)
                      ..++++....  |++..+|..++.+|...|++++|...++++++..|.++.++..+..+            |...|    
T Consensus       316 ~~~~~a~~~~--p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~~~y~~lg~~~~  393 (450)
T 2y4t_A          316 RVCSEVLQME--PDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRLLKQSQKRDYYKILGVKRN  393 (450)
T ss_dssp             HHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHHHSCCSGGGSCSSTT
T ss_pred             HHHHHHHHhC--cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHhhcccchhHHHHhCCCcc
Confidence            9999999876  88899999999999999999999999999999999999999999844            44445    


Q ss_pred             -ChHHHHHHHHHHHHcCCCCC
Q 048090          418 -MWDEIGQLRELMKEKGLKKD  437 (447)
Q Consensus       418 -~~~~A~~~~~~m~~~~~~p~  437 (447)
                       +.+++.+.++++.. ...||
T Consensus       394 ~~~~~~~~~y~~~~l-~~~pd  413 (450)
T 2y4t_A          394 AKKQEIIKAYRKLAL-QWHPD  413 (450)
T ss_dssp             CCTTHHHHHHHHHHH-HSCGG
T ss_pred             CCHHHHHHHHHHHHH-HhCCC
Confidence             56677777776432 24455

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.96  E-value=8e-26  Score=214.30  Aligned_cols=381  Identities=9%  Similarity=-0.077  Sum_probs=302.1

Q ss_pred             hhhHHHhhhhhhhhhcccccCCcchHHHhhccC---CCCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHH
Q 048090           14 ICLIIFQSRLMLPYTTCRHKKNLGTLTNCLKFL---NPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALC   90 (447)
Q Consensus        14 ~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~   90 (447)
                      +||+.++..+...|.+.|   ++++|...|++.   .+.++.+|..+..++.+.|++++|...|+++.+.+. ++.....
T Consensus        36 ~p~~~~~~~la~~~~~~g---~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~  111 (514)
T 2gw1_A           36 KEDPVFYSNLSACYVSVG---DLKKVVEMSTKALELKPDYSKVLLRRASANEGLGKFADAMFDLSVLSLNGD-FNDASIE  111 (514)
T ss_dssp             CCCHHHHHHHHHHHHHHT---CHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSS-CCGGGTH
T ss_pred             CccHHHHHhHHHHHHHHh---hHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CccchHH
Confidence            356889999999999988   599999999875   456677899999999999999999999999988753 3444444


Q ss_pred             HHHHHhccCCchhHHHHHHHHHH-----------------------------------HcCC---------CCchhhHHH
Q 048090           91 SSLTASTSVKDARFGKQVQAHVT-----------------------------------KSGW---------LSSVFVGSA  126 (447)
Q Consensus        91 ~ll~~~~~~~~~~~a~~~~~~~~-----------------------------------~~~~---------~~~~~~~~~  126 (447)
                      .++..+........+.+.+..+.                                   ....         +.+...+..
T Consensus       112 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  191 (514)
T 2gw1_A          112 PMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKPELTFANYDESNEADKELM  191 (514)
T ss_dssp             HHHHHHHHHHHHHHHTTC---------------------------CCCCHHHHHHHHTTSCCCCCCSSCCSSCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHHhhcCHHHHHHHhcCCcHHHHHHH
Confidence            44443333222222222221110                                   0000         112334444


Q ss_pred             HHHHHHc---cCChhhHHHHhccCCC----------------C-chhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCc
Q 048090          127 LIDLYAK---LLLIHDAELMFDEIPV----------------K-NSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYD  186 (447)
Q Consensus       127 l~~~~~~---~g~~~~a~~~~~~~~~----------------~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  186 (447)
                      ....+..   .|++++|...|+++..                | +..++..+...+...|++++|...++++.+..  |+
T Consensus       192 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--~~  269 (514)
T 2gw1_A          192 NGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELF--PR  269 (514)
T ss_dssp             HHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHC--CC
T ss_pred             HHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cc
Confidence            4444444   8999999999987644                2 45678889999999999999999999998875  44


Q ss_pred             HhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHH
Q 048090          187 HFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWT  266 (447)
Q Consensus       187 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  266 (447)
                      ...+..+..++...|++++|...++.+.+.   .+.+..++..+...+...|++++|...|+++...    .+.+...+.
T Consensus       270 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~~~~~~~~  342 (514)
T 2gw1_A          270 VNSYIYMALIMADRNDSTEYYNYFDKALKL---DSNNSSVYYHRGQMNFILQNYDQAGKDFDKAKEL----DPENIFPYI  342 (514)
T ss_dssp             HHHHHHHHHHHHTSSCCTTGGGHHHHHHTT---CTTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHT----CSSCSHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHhhc---CcCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh----ChhhHHHHH
Confidence            778888999999999999999999999886   3446788999999999999999999999987664    455678899


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC----hhhHHHHHHH
Q 048090          267 SMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG----PEHYSCLVDL  342 (447)
Q Consensus       267 ~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~  342 (447)
                      .+...+...|++++|...++++.+.. +.+..++..+...+...|++++|...++++.....-.++    ...+..+...
T Consensus       343 ~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~  421 (514)
T 2gw1_A          343 QLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATL  421 (514)
T ss_dssp             HHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHH
Confidence            99999999999999999999998863 335678888999999999999999999999865222222    3388899999


Q ss_pred             HHH---cCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHH
Q 048090          343 LCR---AGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLS  410 (447)
Q Consensus       343 ~~~---~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~  410 (447)
                      +..   .|++++|...++++....  |++..++..++.++...|++++|...++++++..|.+...+..+.
T Consensus       422 ~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~  490 (514)
T 2gw1_A          422 LTRNPTVENFIEATNLLEKASKLD--PRSEQAKIGLAQMKLQQEDIDEAITLFEESADLARTMEEKLQAIT  490 (514)
T ss_dssp             HHTSCCTTHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSHHHHHHHHH
T ss_pred             HhhhhhcCCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhccccHHHHHHHH
Confidence            999   999999999999999876  888899999999999999999999999999999999888877663

>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=1.8e-24  Score=206.28  Aligned_cols=392  Identities=13%  Similarity=0.009  Sum_probs=294.1

Q ss_pred             HHHhhhhhhhhhcccccCCcchHHHhhccC---CCCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHH
Q 048090           17 IIFQSRLMLPYTTCRHKKNLGTLTNCLKFL---NPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSL   93 (447)
Q Consensus        17 ~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll   93 (447)
                      ...+..+...+.+.|   ++++|...|++.   .+.++.+|..+..++.+.|++++|++.|+++.+.+ +.+..++..+.
T Consensus        25 a~~~~~~g~~~~~~g---~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la  100 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAK---NFNEAIKYYQYAIELDPNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRA  100 (537)
T ss_dssp             HHHHHHHHHHHHHTT---CCC-CHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhc---cHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHH
Confidence            456666777777777   589999988875   35677888999999999999999999999998864 33677888888


Q ss_pred             HHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCC-------------------------
Q 048090           94 TASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIP-------------------------  148 (447)
Q Consensus        94 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-------------------------  148 (447)
                      .++...|++++|...++ ....  .|+..  ...+..+...+....|...++++.                         
T Consensus       101 ~~~~~~g~~~~A~~~~~-~~~~--~~~~~--~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~  175 (537)
T 3fp2_A          101 SANESLGNFTDAMFDLS-VLSL--NGDFD--GASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFD  175 (537)
T ss_dssp             HHHHHHTCHHHHHHHHH-HHC---------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSC
T ss_pred             HHHHHcCCHHHHHHHHH-HHhc--CCCCC--hHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcC
Confidence            88999999999999986 4332  22211  111222233333344444443332                         


Q ss_pred             ------------CCchh---hHHHHHHHHH--------hcCCHHHHHHHHHhhhhcCCCCc--------HhhHHHHHHHH
Q 048090          149 ------------VKNSV---CANALLSGYC--------EAKLWAGGLELVRLMPALGLDYD--------HFTLSALLRAC  197 (447)
Q Consensus       149 ------------~~~~~---~~~~l~~~~~--------~~~~~~~a~~~~~~~~~~~~~~~--------~~~~~~l~~~~  197 (447)
                                  ..+..   ....+...+.        ..|++++|..+++++.+..  |+        ..++..+...+
T Consensus       176 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~~~~~g~~~  253 (537)
T 3fp2_A          176 SHLEVSSVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSAN--TVDDPLRENAALALCYTGIFH  253 (537)
T ss_dssp             HHHHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC----CCCHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHC--CCcchhhHHHHHHHHHHHHHH
Confidence                        21111   2222222222        1247899999999988763  33        23466667778


Q ss_pred             hcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCC
Q 048090          198 AGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGY  277 (447)
Q Consensus       198 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  277 (447)
                      ...|++++|...++.+.+.    .|+...+..+...+...|++++|...|+++...    .+.+..++..+...+...|+
T Consensus       254 ~~~~~~~~A~~~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~~~~~~~~~l~~~~~~~~~  325 (537)
T 3fp2_A          254 FLKNNLLDAQVLLQESINL----HPTPNSYIFLALTLADKENSQEFFKFFQKAVDL----NPEYPPTYYHRGQMYFILQD  325 (537)
T ss_dssp             HHTTCHHHHHHHHHHHHHH----CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHH----CTTCHHHHHHHHHHHHHTTC
T ss_pred             HhcccHHHHHHHHHHHHhc----CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhcc----CCCCHHHHHHHHHHHHhcCC
Confidence            8899999999999999987    244778888999999999999999999987665    45677889999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHH
Q 048090          278 FKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLIN  357 (447)
Q Consensus       278 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  357 (447)
                      +++|...++++.+... .+...+..+..++...|++++|...++++.+.  .+.+...+..+...+...|++++|...++
T Consensus       326 ~~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  402 (537)
T 3fp2_A          326 YKNAKEDFQKAQSLNP-ENVYPYIQLACLLYKQGKFTESEAFFNETKLK--FPTLPEVPTFFAEILTDRGDFDTAIKQYD  402 (537)
T ss_dssp             HHHHHHHHHHHHHHCT-TCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhCCHHHHHHHHH
Confidence            9999999999988642 24677888999999999999999999999875  23457788899999999999999999999


Q ss_pred             HHHhCCCCCCchH------hHHHHHHHHHhc----------CCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHH
Q 048090          358 EMLDRGHGSSSVS------MWGALLSACHDC----------GKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDE  421 (447)
Q Consensus       358 ~~~~~~~~p~~~~------~~~~l~~~~~~~----------g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  421 (447)
                      ++.+..  |.+..      .+..+..++...          |++++|...++++++..|.+..++..++.+|.+.|++++
T Consensus       403 ~a~~~~--~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~~~~  480 (537)
T 3fp2_A          403 IAKRLE--EVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKIDE  480 (537)
T ss_dssp             HHHHHH--HHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcC--CcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHH
Confidence            987654  32222      244556777777          999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHc
Q 048090          422 IGQLRELMKEK  432 (447)
Q Consensus       422 A~~~~~~m~~~  432 (447)
                      |.+.+++..+.
T Consensus       481 A~~~~~~al~~  491 (537)
T 3fp2_A          481 AIELFEDSAIL  491 (537)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999998874

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.93  E-value=1.2e-22  Score=183.04  Aligned_cols=327  Identities=12%  Similarity=0.013  Sum_probs=220.4

Q ss_pred             ccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHH
Q 048090           52 LPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLY  131 (447)
Q Consensus        52 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  131 (447)
                      ..|..+...+...|++++|+..|+++.+.. +.+...+..+...+...|++++|...++.+++.. +.+...+..+..++
T Consensus         4 ~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~   81 (359)
T 3ieg_A            4 EKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGHLL   81 (359)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHHHH
Confidence            345556666666666666666666666543 2245556666666666666666666666666542 22344445555555


Q ss_pred             HccCChhhHHHHhccCCCCc------hhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHH
Q 048090          132 AKLLLIHDAELMFDEIPVKN------SVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEF  205 (447)
Q Consensus       132 ~~~g~~~~a~~~~~~~~~~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  205 (447)
                      ...|++++|...|++....+      ...+..+...+.                       ...+..+...+...|++++
T Consensus        82 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-----------------------~~~~~~~a~~~~~~~~~~~  138 (359)
T 3ieg_A           82 LKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADE-----------------------MQRLRSQALDAFDGADYTA  138 (359)
T ss_dssp             HHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHTTCHHH
T ss_pred             HHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHccCHHH
Confidence            55555555555554443211      111111111000                       0011223466778888888


Q ss_pred             HHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHH
Q 048090          206 GRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLY  285 (447)
Q Consensus       206 a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  285 (447)
                      |...++.+.+.   .+.+...+..+...+...|++++|...++++...    .+.+..++..+...+...|++++|...+
T Consensus       139 A~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~----~~~~~~~~~~la~~~~~~~~~~~A~~~~  211 (359)
T 3ieg_A          139 AITFLDKILEV---CVWDAELRELRAECFIKEGEPRKAISDLKAASKL----KSDNTEAFYKISTLYYQLGDHELSLSEV  211 (359)
T ss_dssp             HHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT----CSCCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHh---CCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh----CCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            88888888876   3346777888888888888888888888876654    4556778888888888888888888888


Q ss_pred             HHHHhCCCCCCHHHHH------------HHHHHHhccCcHHHHHHHHHHHHHhcCCCCC-h----hhHHHHHHHHHHcCC
Q 048090          286 EAMLMNGTKPDEVAFV------------TVISACSHTGQVKLGIEYFEWMVHDYKLEPG-P----EHYSCLVDLLCRAGE  348 (447)
Q Consensus       286 ~~m~~~~~~p~~~~~~------------~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~----~~~~~l~~~~~~~g~  348 (447)
                      ++..+.... +...+.            .+...+...|++++|...++++.+.   .|+ .    ..+..+..++...|+
T Consensus       212 ~~a~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~~~~~la~~~~~~~~  287 (359)
T 3ieg_A          212 RECLKLDQD-HKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT---EPSVAEYTVRSKERICHCFSKDEK  287 (359)
T ss_dssp             HHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCSSHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHhhCcc-chHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCCchHHHHHHHHHHHHHHHHccC
Confidence            888775322 233222            2355678889999999999988865   333 2    234557788889999


Q ss_pred             HHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhc
Q 048090          349 LDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKF  416 (447)
Q Consensus       349 ~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  416 (447)
                      +++|...++++.+..  |++..++..++.++...|++++|...++++++..|.+..++..+..++...
T Consensus       288 ~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~  353 (359)
T 3ieg_A          288 PVEAIRICSEVLQME--PDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNENDQQIREGLEKAQRLL  353 (359)
T ss_dssp             HHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHH
Confidence            999999999988875  888888999999999999999999999999999998888888887765443

>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=99.93  E-value=3.3e-23  Score=197.43  Aligned_cols=372  Identities=12%  Similarity=-0.020  Sum_probs=285.5

Q ss_pred             hHHHhhhhhhhhhcccccCCcchHHHhhccC---CCCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHH
Q 048090           16 LIIFQSRLMLPYTTCRHKKNLGTLTNCLKFL---NPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSS   92 (447)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l   92 (447)
                      ++.++..+...|.+.|   ++++|...|++.   .+.++.+|..+..++...|++++|...|+.+ ..  .|+..  ...
T Consensus        58 ~~~~~~~la~~~~~~g---~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~-~~--~~~~~--~~~  129 (537)
T 3fp2_A           58 EPVFYSNISACYISTG---DLEKVIEFTTKALEIKPDHSKALLRRASANESLGNFTDAMFDLSVL-SL--NGDFD--GAS  129 (537)
T ss_dssp             CHHHHHHHHHHHHHHT---CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHH-C-------------
T ss_pred             CcHHHHHHHHHHHHcC---CHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHcCCHHHHHHHHHHH-hc--CCCCC--hHH
Confidence            4788888999999888   599999999875   4567788999999999999999999999743 32  22221  122


Q ss_pred             HHHhccCCchhHHHHHHHHHHHcC------CCCchh------------------------------hHHHHHHHHHc---
Q 048090           93 LTASTSVKDARFGKQVQAHVTKSG------WLSSVF------------------------------VGSALIDLYAK---  133 (447)
Q Consensus        93 l~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~------------------------------~~~~l~~~~~~---  133 (447)
                      +..+...+....|...++.+....      ..|+..                              ....+...+..   
T Consensus       130 ~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  209 (537)
T 3fp2_A          130 IEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNYDTAYALLSDALQRLYSATDE  209 (537)
T ss_dssp             --CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhccccccHHHHHHHHHHHHHHhhhh
Confidence            334444555667777777775431      111111                              12222222222   


Q ss_pred             -----cCChhhHHHHhccCCCC---c-------hhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHh
Q 048090          134 -----LLLIHDAELMFDEIPVK---N-------SVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACA  198 (447)
Q Consensus       134 -----~g~~~~a~~~~~~~~~~---~-------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  198 (447)
                           .|++++|..+|+++...   +       ..++..+...+...|++++|...+++..+.  .|+...+..+...+.
T Consensus       210 ~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~  287 (537)
T 3fp2_A          210 GYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLA  287 (537)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTC
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHH
Confidence                 24788999999887632   2       235777778889999999999999999986  466788889999999


Q ss_pred             cCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCH
Q 048090          199 GLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYF  278 (447)
Q Consensus       199 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  278 (447)
                      ..|++++|...++.+.+..   +.+..++..+...+...|++++|...|+++...    .+.+...+..+..++...|++
T Consensus       288 ~~~~~~~A~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~----~~~~~~~~~~la~~~~~~g~~  360 (537)
T 3fp2_A          288 DKENSQEFFKFFQKAVDLN---PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSL----NPENVYPYIQLACLLYKQGKF  360 (537)
T ss_dssp             CSSCCHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----CTTCSHHHHHHHHHHHHTTCH
T ss_pred             HhcCHHHHHHHHHHHhccC---CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh----CCCCHHHHHHHHHHHHHcCCH
Confidence            9999999999999999973   447888999999999999999999999987765    455678899999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC----hhhHHHHHHHHHHc--------
Q 048090          279 KEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG----PEHYSCLVDLLCRA--------  346 (447)
Q Consensus       279 ~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~--------  346 (447)
                      ++|...++++.+.. +.+...+..+...+...|++++|...|+++.+...-.+.    ...+..+...+...        
T Consensus       361 ~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~  439 (537)
T 3fp2_A          361 TESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQL  439 (537)
T ss_dssp             HHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----C
T ss_pred             HHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhh
Confidence            99999999998864 335678888999999999999999999998764211111    22244555677777        


Q ss_pred             --CCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHH
Q 048090          347 --GELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYV  407 (447)
Q Consensus       347 --g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  407 (447)
                        |++++|...++++.+..  |++..++..++.++...|++++|...++++++..|.+.....
T Consensus       440 ~~~~~~~A~~~~~~a~~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  500 (537)
T 3fp2_A          440 DEEKFNAAIKLLTKACELD--PRSEQAKIGLAQLKLQMEKIDEAIELFEDSAILARTMDEKLQ  500 (537)
T ss_dssp             CHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CHHHHH
T ss_pred             hHhHHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHH
Confidence              99999999999999886  888999999999999999999999999999999998776544

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.92  E-value=4.2e-22  Score=179.46  Aligned_cols=315  Identities=11%  Similarity=-0.030  Sum_probs=240.6

Q ss_pred             chhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCC---CCchhhHHHHHHH
Q 048090           85 DTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIP---VKNSVCANALLSG  161 (447)
Q Consensus        85 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~l~~~  161 (447)
                      +...+..+...+...|++++|...++.+++.. +.+..++..+..++...|++++|...|++..   +.+...+..+...
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~   80 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHL   80 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHH
Confidence            34566667777777788888888888777753 4456666667777777777777777776654   2245666667777


Q ss_pred             HHhcCCHHHHHHHHHhhhhcCCCC----cHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhc
Q 048090          162 YCEAKLWAGGLELVRLMPALGLDY----DHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKC  237 (447)
Q Consensus       162 ~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  237 (447)
                      +...|++++|...+++..+.  .|    +...+..+....                         ....+..+...+...
T Consensus        81 ~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~-------------------------~~~~~~~~a~~~~~~  133 (359)
T 3ieg_A           81 LLKQGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKAD-------------------------EMQRLRSQALDAFDG  133 (359)
T ss_dssp             HHHHTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHH-------------------------HHHHHHHHHHHHHHT
T ss_pred             HHHcCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHHH-------------------------HHHHHHHHHHHHHHc
Confidence            77777777777777776654  23    111221111110                         011223456788999


Q ss_pred             CChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHH
Q 048090          238 GLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGI  317 (447)
Q Consensus       238 g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~  317 (447)
                      |++++|...++++...    .+.+...+..+..++...|++++|...++++.+.. +.+..++..+...+...|++++|.
T Consensus       134 ~~~~~A~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~  208 (359)
T 3ieg_A          134 ADYTAAITFLDKILEV----CVWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSL  208 (359)
T ss_dssp             TCHHHHHHHHHHHHHH----CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             cCHHHHHHHHHHHHHh----CCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHH
Confidence            9999999999987765    56678889999999999999999999999999864 446788999999999999999999


Q ss_pred             HHHHHHHHhcCCCCC-hhhHH------------HHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchH----hHHHHHHHHH
Q 048090          318 EYFEWMVHDYKLEPG-PEHYS------------CLVDLLCRAGELDKAWKLINEMLDRGHGSSSVS----MWGALLSACH  380 (447)
Q Consensus       318 ~~~~~~~~~~~~~~~-~~~~~------------~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~----~~~~l~~~~~  380 (447)
                      ..++++.+.   .|+ ...+.            .+...+.+.|++++|...++++.+..  |++..    .+..++.++.
T Consensus       209 ~~~~~a~~~---~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~la~~~~  283 (359)
T 3ieg_A          209 SEVRECLKL---DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--PSVAEYTVRSKERICHCFS  283 (359)
T ss_dssp             HHHHHHHHH---CTTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhh---CccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHHHHH
Confidence            999999875   343 33333            23667899999999999999999876  66653    3556889999


Q ss_pred             hcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCCc
Q 048090          381 DCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDVG  439 (447)
Q Consensus       381 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~  439 (447)
                      ..|++++|...++++++..|.++.++..++.+|...|++++|.+.+++..+  +.|+..
T Consensus       284 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~--~~p~~~  340 (359)
T 3ieg_A          284 KDEKPVEAIRICSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQE--HNENDQ  340 (359)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TCTTCH
T ss_pred             HccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCCCh
Confidence            999999999999999999999999999999999999999999999999986  456543

>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=99.92  E-value=7.4e-22  Score=175.75  Aligned_cols=292  Identities=12%  Similarity=-0.032  Sum_probs=228.7

Q ss_pred             CCchhhHHHHHHHHHccCChhhHHHHhccCC---CCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHH
Q 048090          118 LSSVFVGSALIDLYAKLLLIHDAELMFDEIP---VKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALL  194 (447)
Q Consensus       118 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  194 (447)
                      +.+...+..+...+...|++++|.++|+++.   ..+...+..++..+...|++++|...++++.+.. +.+...+..+.
T Consensus        19 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~   97 (330)
T 3hym_B           19 QENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVG   97 (330)
T ss_dssp             -CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHH
Confidence            4455566666666777777777777776654   2245556667777778888888888888887753 34566777777


Q ss_pred             HHHhcCC-cHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHH
Q 048090          195 RACAGLS-AAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYG  273 (447)
Q Consensus       195 ~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  273 (447)
                      ..+...| ++++|...++++.+..   +.+...+..+...+...|++++|...|+++...    .+.+...+..+...+.
T Consensus        98 ~~~~~~~~~~~~A~~~~~~a~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~----~~~~~~~~~~l~~~~~  170 (330)
T 3hym_B           98 CYYLMVGHKNEHARRYLSKATTLE---KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQL----MKGCHLPMLYIGLEYG  170 (330)
T ss_dssp             HHHHHSCSCHHHHHHHHHHHHTTC---TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHH----TTTCSHHHHHHHHHHH
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHhC---CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh----ccccHHHHHHHHHHHH
Confidence            8888888 8888888888887762   335677888888888888999988888877665    4445667777888888


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcC-------CCCChhhHHHHHHHHHHc
Q 048090          274 RNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYK-------LEPGPEHYSCLVDLLCRA  346 (447)
Q Consensus       274 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-------~~~~~~~~~~l~~~~~~~  346 (447)
                      ..|++++|...+++..+.. +.+..++..+...+...|++++|...++++.+...       .+....++..+..++...
T Consensus       171 ~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~  249 (330)
T 3hym_B          171 LTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKL  249 (330)
T ss_dssp             HTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHT
T ss_pred             HHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHh
Confidence            8999999999999888764 33577888888888999999999999988876421       133467888999999999


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHH-HhcCChH
Q 048090          347 GELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLY-AKFCMWD  420 (447)
Q Consensus       347 g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~~~  420 (447)
                      |++++|...++++.+..  |++..++..++.++...|++++|...++++++..|.++.++..++.++ ...|+.+
T Consensus       250 g~~~~A~~~~~~a~~~~--~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          250 KKYAEALDYHRQALVLI--PQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTFSVTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             TCHHHHHHHHHHHHHHS--TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSCCHHHHHHHHHHHHTTTTC--
T ss_pred             cCHHHHHHHHHHHHhhC--ccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCCchHHHHHHHHHHHHHhCchh
Confidence            99999999999999876  888888999999999999999999999999999999999999999988 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=99.90  E-value=3.8e-21  Score=173.98  Aligned_cols=286  Identities=12%  Similarity=-0.005  Sum_probs=230.3

Q ss_pred             HccCChhhHHH-HhccCC---CC----chhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcH
Q 048090          132 AKLLLIHDAEL-MFDEIP---VK----NSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAA  203 (447)
Q Consensus       132 ~~~g~~~~a~~-~~~~~~---~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  203 (447)
                      ...|++++|.+ .|++..   +.    +...+..+...+.+.|++++|...|+++.+.. +.+...+..+..++...|++
T Consensus        36 ~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~  114 (368)
T 1fch_A           36 PWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQE  114 (368)
T ss_dssp             ----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCH
Confidence            34577888887 776543   11    34568888899999999999999999998864 45677888888999999999


Q ss_pred             HHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHH---------------H
Q 048090          204 EFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTS---------------M  268 (447)
Q Consensus       204 ~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~---------------l  268 (447)
                      ++|...++.+.+..   +.+..++..+..+|...|++++|...|+++...    .+.+...+..               .
T Consensus       115 ~~A~~~~~~al~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~  187 (368)
T 1fch_A          115 LLAISALRRCLELK---PDNQTALMALAVSFTNESLQRQACEILRDWLRY----TPAYAHLVTPAEEGAGGAGLGPSKRI  187 (368)
T ss_dssp             HHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT----STTTGGGCC---------------CT
T ss_pred             HHHHHHHHHHHhcC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh----CcCcHHHHHHHHHHhhhhcccHHHHH
Confidence            99999999999873   447788899999999999999999999977654    2223333221               1


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcC
Q 048090          269 LGVYGRNGYFKEVIKLYEAMLMNGTKP-DEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAG  347 (447)
Q Consensus       269 ~~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  347 (447)
                      +..+...|++++|...++++.+..... +..++..+...+...|++++|...|+++...  .+.+...+..+...+...|
T Consensus       188 ~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g  265 (368)
T 1fch_A          188 LGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGN  265 (368)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHcC
Confidence            333448999999999999998864221 4788999999999999999999999999875  2345788999999999999


Q ss_pred             CHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCc-----------hhHHHHHHHHHHhc
Q 048090          348 ELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHN-----------VGIYVMLSNLYAKF  416 (447)
Q Consensus       348 ~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-----------~~~~~~l~~~~~~~  416 (447)
                      ++++|...++++++..  |++..++..++.++...|++++|...++++++..|.+           ..+|..++.+|...
T Consensus       266 ~~~~A~~~~~~al~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  343 (368)
T 1fch_A          266 QSEEAVAAYRRALELQ--PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSML  343 (368)
T ss_dssp             CHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHh
Confidence            9999999999999876  8889999999999999999999999999999988877           88999999999999


Q ss_pred             CChHHHHHHHHHH
Q 048090          417 CMWDEIGQLRELM  429 (447)
Q Consensus       417 g~~~~A~~~~~~m  429 (447)
                      |++++|..++++.
T Consensus       344 g~~~~A~~~~~~~  356 (368)
T 1fch_A          344 GQSDAYGAADARD  356 (368)
T ss_dssp             TCGGGHHHHHTTC
T ss_pred             CChHhHHHhHHHH
Confidence            9999999887643

>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=99.90  E-value=6.4e-21  Score=169.69  Aligned_cols=277  Identities=12%  Similarity=0.040  Sum_probs=238.9

Q ss_pred             CchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHH
Q 048090          150 KNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSS  229 (447)
Q Consensus       150 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  229 (447)
                      .+...+..+...+...|++++|.++++++.+.. +.+...+..++.++...|++++|...++++.+.   .+.+...+..
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~   95 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDL---YPSNPVSWFA   95 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHH---CTTSTHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHh---CcCCHHHHHH
Confidence            466778888999999999999999999998864 445567777888889999999999999999997   3447788999


Q ss_pred             HHHHHHhcC-ChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHh
Q 048090          230 LIEMYGKCG-LVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACS  308 (447)
Q Consensus       230 l~~~~~~~g-~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  308 (447)
                      +...+...| ++++|...|+++...    .+.+...|..+...+...|++++|...++++.+.... +...+..+...+.
T Consensus        96 l~~~~~~~~~~~~~A~~~~~~a~~~----~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~  170 (330)
T 3hym_B           96 VGCYYLMVGHKNEHARRYLSKATTL----EKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKG-CHLPMLYIGLEYG  170 (330)
T ss_dssp             HHHHHHHSCSCHHHHHHHHHHHHTT----CTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTT-CSHHHHHHHHHHH
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHh----CCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccc-cHHHHHHHHHHHH
Confidence            999999999 999999999987664    4556788999999999999999999999999886422 4566777889999


Q ss_pred             ccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCC-------CCCchHhHHHHHHHHHh
Q 048090          309 HTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGH-------GSSSVSMWGALLSACHD  381 (447)
Q Consensus       309 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-------~p~~~~~~~~l~~~~~~  381 (447)
                      ..|++++|...++++.+.  .+.+...+..+...+...|++++|...++++.+...       .|....++..++.++..
T Consensus       171 ~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~  248 (330)
T 3hym_B          171 LTNNSKLAERFFSQALSI--APEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRK  248 (330)
T ss_dssp             HTTCHHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHH
Confidence            999999999999999854  234578899999999999999999999999876421       14456679999999999


Q ss_pred             cCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCCc
Q 048090          382 CGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDVG  439 (447)
Q Consensus       382 ~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~  439 (447)
                      .|++++|...++++++..|.+..++..++.+|.+.|++++|.+.+++..+  +.|+..
T Consensus       249 ~g~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--~~p~~~  304 (330)
T 3hym_B          249 LKKYAEALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALG--LRRDDT  304 (330)
T ss_dssp             TTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTT--TCSCCH
T ss_pred             hcCHHHHHHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHc--cCCCch
Confidence            99999999999999999999999999999999999999999999998875  456543

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.89  E-value=3.9e-21  Score=173.80  Aligned_cols=266  Identities=11%  Similarity=-0.053  Sum_probs=223.8

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHH
Q 048090          151 NSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSL  230 (447)
Q Consensus       151 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l  230 (447)
                      +...+..+...+.+.|++++|.+.|+++.+.. +.+..++..+..++...|++++|...|+++.+..   +.+..++..+
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~~l  139 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ---PNNLKALMAL  139 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC---CCCHHHHHHH
Confidence            55668899999999999999999999998874 4577889999999999999999999999999973   4468899999


Q ss_pred             HHHHHhcCChHHHHHHHHhhhhhcccCCCcchhh----------HHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CCHHH
Q 048090          231 IEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVL----------WTSMLGVYGRNGYFKEVIKLYEAMLMNGTK-PDEVA  299 (447)
Q Consensus       231 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~----------~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~-p~~~~  299 (447)
                      ..+|...|++++|...|+++...    .+.+...          +..+...+...|++++|...++++.+.... ++..+
T Consensus       140 ~~~~~~~g~~~~A~~~~~~al~~----~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~  215 (365)
T 4eqf_A          140 AVSYTNTSHQQDACEALKNWIKQ----NPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDL  215 (365)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH----CHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHH
T ss_pred             HHHHHccccHHHHHHHHHHHHHh----CccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHH
Confidence            99999999999999999987664    2222222          334578899999999999999999986432 15788


Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHH
Q 048090          300 FVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSAC  379 (447)
Q Consensus       300 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~  379 (447)
                      +..+...+...|++++|...|+++.+.  .+.+..+|..+..+|...|++++|...++++++..  |++..++..++.+|
T Consensus       216 ~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~  291 (365)
T 4eqf_A          216 QTGLGVLFHLSGEFNRAIDAFNAALTV--RPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ--PGFIRSRYNLGISC  291 (365)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCchHHHHHHHHHH
Confidence            999999999999999999999999875  24458899999999999999999999999999886  88899999999999


Q ss_pred             HhcCCccHHHHHHHHHhhhCCC------------chhHHHHHHHHHHhcCChHHHHHHHHH
Q 048090          380 HDCGKFELGKLAAQKALELDPH------------NVGIYVMLSNLYAKFCMWDEIGQLREL  428 (447)
Q Consensus       380 ~~~g~~~~a~~~~~~~~~~~~~------------~~~~~~~l~~~~~~~g~~~~A~~~~~~  428 (447)
                      ...|++++|...++++++..|.            +..+|..+..++...|+.+.+..+.++
T Consensus       292 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          292 INLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHTCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            9999999999999999998765            367899999999999999998776654

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.89  E-value=4.1e-19  Score=168.61  Aligned_cols=398  Identities=9%  Similarity=-0.008  Sum_probs=294.4

Q ss_pred             hHHHhhhhhhhhhcccccCCcchHHHhhccCC---CCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHH
Q 048090           16 LIIFQSRLMLPYTTCRHKKNLGTLTNCLKFLN---PRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSS   92 (447)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l   92 (447)
                      |..+|..++.. .+.|   +++.|..+|+++.   |.++..|..++..+.+.|++++|..+|+++...  .|+...|...
T Consensus        12 ~~~~w~~l~~~-~~~~---~~~~a~~~~e~al~~~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~--~p~~~lw~~~   85 (530)
T 2ooe_A           12 DLDAWSILIRE-AQNQ---PIDKARKTYERLVAQFPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMK--VLHIDLWKCY   85 (530)
T ss_dssp             CHHHHHHHHHH-HHSS---CHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTT--CCCHHHHHHH
T ss_pred             CHHHHHHHHHH-HHhC---CHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--CCChHHHHHH
Confidence            46788888884 5555   6999999999864   456667999999999999999999999999986  4677777777


Q ss_pred             HHHh-ccCCchhHHHH----HHHHHHHc-CCCC-chhhHHHHHHHHHc---------cCChhhHHHHhccCCC-Cc---h
Q 048090           93 LTAS-TSVKDARFGKQ----VQAHVTKS-GWLS-SVFVGSALIDLYAK---------LLLIHDAELMFDEIPV-KN---S  152 (447)
Q Consensus        93 l~~~-~~~~~~~~a~~----~~~~~~~~-~~~~-~~~~~~~l~~~~~~---------~g~~~~a~~~~~~~~~-~~---~  152 (447)
                      +... ...|+.+.|.+    +|+..+.. |..| +...|...+....+         .|+++.|..+|++... |.   .
T Consensus        86 ~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~  165 (530)
T 2ooe_A           86 LSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIE  165 (530)
T ss_dssp             HHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHH
T ss_pred             HHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHH
Confidence            6533 34577777665    67766653 5443 45677777776654         6889999999988653 32   1


Q ss_pred             hhHHHHHHHH-------------HhcCCHHHHHHHHHhh------hhcC---CCCcH--------hhHHHHHHHHhc---
Q 048090          153 VCANALLSGY-------------CEAKLWAGGLELVRLM------PALG---LDYDH--------FTLSALLRACAG---  199 (447)
Q Consensus       153 ~~~~~l~~~~-------------~~~~~~~~a~~~~~~~------~~~~---~~~~~--------~~~~~l~~~~~~---  199 (447)
                      ..|.......             .+.+++..|..++.++      .+..   ++|+.        ..|...+.....   
T Consensus       166 ~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~  245 (530)
T 2ooe_A          166 QLWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPL  245 (530)
T ss_dssp             HHHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSS
T ss_pred             HHHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCc
Confidence            2333222211             1345677777776652      2221   24431        344444333221   


Q ss_pred             -CCcH----HHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHh-------cCChH-------HHHHHHHhhhhhcccCCCc
Q 048090          200 -LSAA----EFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGK-------CGLVT-------KALQVFNLAGHRLEGEINK  260 (447)
Q Consensus       200 -~~~~----~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~g~~~-------~A~~~~~~~~~~~~~~~~~  260 (447)
                       .++.    +.+..+|++.+...   +.+...|..++..+.+       .|+++       +|..+|++....   -.+.
T Consensus       246 ~~~~~~~~~~~a~~~y~~al~~~---p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~---~~p~  319 (530)
T 2ooe_A          246 RTEDQTLITKRVMFAYEQCLLVL---GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAIST---LLKK  319 (530)
T ss_dssp             CCSCSHHHHHHHHHHHHHHHHHH---TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTT---TCSS
T ss_pred             cCCcchhHHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHH---hCcc
Confidence             1222    47778999999873   3478888888888876       79987       899999976541   1355


Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC-hhhHH
Q 048090          261 DVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPD--EVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG-PEHYS  337 (447)
Q Consensus       261 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~  337 (447)
                      +...|..++..+.+.|++++|..+|+++.+.  .|+  ...|..++..+.+.|++++|..+|++..+.   .|+ ...|.
T Consensus       320 ~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~---~~~~~~~~~  394 (530)
T 2ooe_A          320 NMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED---ARTRHHVYV  394 (530)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC---TTCCTHHHH
T ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhc---cCCchHHHH
Confidence            6888999999999999999999999999984  454  357888888888999999999999999854   343 33333


Q ss_pred             HHHHH-HHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchh----HHHHHHHH
Q 048090          338 CLVDL-LCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVG----IYVMLSNL  412 (447)
Q Consensus       338 ~l~~~-~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~l~~~  412 (447)
                      ..... +...|+.++|..+|++.++..  |++..+|..++..+.+.|+.++|..+|++++...|.++.    +|..++..
T Consensus       395 ~~a~~~~~~~~~~~~A~~~~e~al~~~--p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~  472 (530)
T 2ooe_A          395 TAALMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAF  472 (530)
T ss_dssp             HHHHHHHHHTCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHH
T ss_pred             HHHHHHHHHcCChhHHHHHHHHHHHHC--CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHH
Confidence            32222 346899999999999999876  888999999999999999999999999999998765544    88888988


Q ss_pred             HHhcCChHHHHHHHHHHHHc
Q 048090          413 YAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       413 ~~~~g~~~~A~~~~~~m~~~  432 (447)
                      ....|+.+.+..+.+++.+.
T Consensus       473 e~~~G~~~~~~~~~~r~~~~  492 (530)
T 2ooe_A          473 ESNIGDLASILKVEKRRFTA  492 (530)
T ss_dssp             HHHSSCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHH
Confidence            89999999999999998763

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.88  E-value=2.1e-18  Score=162.14  Aligned_cols=365  Identities=12%  Similarity=0.009  Sum_probs=297.3

Q ss_pred             chHHHhhccC-CCCCCccHHHHHHHHHh----CCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhcc----CCchhHHHH
Q 048090           37 GTLTNCLKFL-NPRNPLPFNVVISDFCR----NGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTS----VKDARFGKQ  107 (447)
Q Consensus        37 ~~A~~~~~~~-~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~  107 (447)
                      ..+...+... .+.++.++..+...|..    .+++++|+..|++..+.|   +...+..+...+..    .++.++|.+
T Consensus        24 ~~~~~~~~~~a~~g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~  100 (490)
T 2xm6_A           24 NVNLEQLKQKAESGEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVI  100 (490)
T ss_dssp             -CCHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHH
T ss_pred             hHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHH
Confidence            3344444443 45678888888888888    899999999999998865   56677777777777    889999999


Q ss_pred             HHHHHHHcCCCCchhhHHHHHHHHHc----cCChhhHHHHhccCCCC-chhhHHHHHHHHHh----cCCHHHHHHHHHhh
Q 048090          108 VQAHVTKSGWLSSVFVGSALIDLYAK----LLLIHDAELMFDEIPVK-NSVCANALLSGYCE----AKLWAGGLELVRLM  178 (447)
Q Consensus       108 ~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~-~~~~~~~l~~~~~~----~~~~~~a~~~~~~~  178 (447)
                      .|++..+.|   ++..+..|...|..    .+++++|...|++.... +...+..+...|..    .+++++|++.|++.
T Consensus       101 ~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a  177 (490)
T 2xm6_A          101 WYKKAALKG---LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKA  177 (490)
T ss_dssp             HHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHH
T ss_pred             HHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHH
Confidence            999999876   56677778888887    78999999999887643 67778888888887    78999999999999


Q ss_pred             hhcCCCCcHhhHHHHHHHHhc----CCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHh----cCChHHHHHHHHhh
Q 048090          179 PALGLDYDHFTLSALLRACAG----LSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGK----CGLVTKALQVFNLA  250 (447)
Q Consensus       179 ~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~  250 (447)
                      .+.|   +...+..+...+..    .++.++|.+.|++..+.  +   +...+..+...|..    .+++++|...|++.
T Consensus       178 ~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~--~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a  249 (490)
T 2xm6_A          178 AEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATS--G---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQS  249 (490)
T ss_dssp             HHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT--T---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHH
T ss_pred             HHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHC--C---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHH
Confidence            8864   56677778888776    89999999999998876  3   56678888888886    78999999999966


Q ss_pred             hhhcccCCCcchhhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcc-----CcHHHHHHHHH
Q 048090          251 GHRLEGEINKDVVLWTSMLGVYGR----NGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHT-----GQVKLGIEYFE  321 (447)
Q Consensus       251 ~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~-----~~~~~a~~~~~  321 (447)
                      ...      .+...+..+...|..    .+++++|..+|++..+.|   +...+..+...+...     +++++|..+|+
T Consensus       250 ~~~------~~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~  320 (490)
T 2xm6_A          250 AEQ------GNSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYT  320 (490)
T ss_dssp             HTT------TCHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHH
T ss_pred             HHC------CCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHH
Confidence            442      345667777777877    899999999999998764   455666777777766     89999999999


Q ss_pred             HHHHhcCCCCChhhHHHHHHHHHHcC---CHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHh----cCCccHHHHHHHH
Q 048090          322 WMVHDYKLEPGPEHYSCLVDLLCRAG---ELDKAWKLINEMLDRGHGSSSVSMWGALLSACHD----CGKFELGKLAAQK  394 (447)
Q Consensus       322 ~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~  394 (447)
                      +..+. +   +...+..+...|...|   ++++|.++|++..+.+    +..++..|...|..    .+++++|...+++
T Consensus       321 ~a~~~-~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~----~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~  392 (490)
T 2xm6_A          321 KSAEQ-G---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAKG----EKAAQFNLGNALLQGKGVKKDEQQAAIWMRK  392 (490)
T ss_dssp             HHHHT-T---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTT----CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHH
T ss_pred             HHHhc-C---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHCC----CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence            98764 2   4567777888888766   7899999999999875    56778999999998    8999999999999


Q ss_pred             HhhhCCCchhHHHHHHHHHHh----cCChHHHHHHHHHHHHcCC
Q 048090          395 ALELDPHNVGIYVMLSNLYAK----FCMWDEIGQLRELMKEKGL  434 (447)
Q Consensus       395 ~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~~~~  434 (447)
                      +.+.+  ++.++..|+..|.+    .+++++|...|++..+.+.
T Consensus       393 A~~~~--~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~  434 (490)
T 2xm6_A          393 AAEQG--LSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTNDM  434 (490)
T ss_dssp             HHHTT--CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHHC
T ss_pred             HHhCC--CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCC
Confidence            98865  57788999999998    8999999999999988764

>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=99.87  E-value=8.7e-20  Score=162.10  Aligned_cols=267  Identities=9%  Similarity=-0.048  Sum_probs=220.1

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHH
Q 048090          151 NSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSL  230 (447)
Q Consensus       151 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l  230 (447)
                      +...+..+...+...|++++|..+++++.+.. +.+...+..+..++...|++++|...++++.+.   .+.+..++..+
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~---~~~~~~~~~~l   95 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARML---DPKDIAVHAAL   95 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CcCCHHHHHHH
Confidence            44556777788888888888888888887764 346667778888888889999999999888887   23467788888


Q ss_pred             HHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHH--------------HH-HHHhcCCHHHHHHHHHHHHhCCCCC
Q 048090          231 IEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSM--------------LG-VYGRNGYFKEVIKLYEAMLMNGTKP  295 (447)
Q Consensus       231 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l--------------~~-~~~~~g~~~~a~~~~~~m~~~~~~p  295 (447)
                      ...+...|++++|.+.++++...    .+.+...+..+              .. .+...|++++|...++++.+.. +.
T Consensus        96 a~~~~~~~~~~~A~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~  170 (327)
T 3cv0_A           96 AVSHTNEHNANAALASLRAWLLS----QPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PN  170 (327)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHT----STTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh----CCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CC
Confidence            88888999999999988876654    23333334333              33 3778899999999999998864 33


Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHH
Q 048090          296 DEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGAL  375 (447)
Q Consensus       296 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l  375 (447)
                      +..++..+...+...|++++|...++++.+.  .+.+...+..+...+...|++++|...++++.+..  |++..++..+
T Consensus       171 ~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~l  246 (327)
T 3cv0_A          171 DAQLHASLGVLYNLSNNYDSAAANLRRAVEL--RPDDAQLWNKLGATLANGNRPQEALDAYNRALDIN--PGYVRVMYNM  246 (327)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHH
Confidence            6788999999999999999999999999875  23457889999999999999999999999999876  8888899999


Q ss_pred             HHHHHhcCCccHHHHHHHHHhhhCCC------------chhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 048090          376 LSACHDCGKFELGKLAAQKALELDPH------------NVGIYVMLSNLYAKFCMWDEIGQLRELMK  430 (447)
Q Consensus       376 ~~~~~~~g~~~~a~~~~~~~~~~~~~------------~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  430 (447)
                      +.++...|++++|...++++++..|.            +..++..++.++.+.|++++|..++++..
T Consensus       247 ~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l  313 (327)
T 3cv0_A          247 AVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNV  313 (327)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCS
T ss_pred             HHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            99999999999999999999999998            78999999999999999999998887543

>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=99.87  E-value=5.7e-20  Score=166.26  Aligned_cols=281  Identities=10%  Similarity=-0.040  Sum_probs=212.1

Q ss_pred             CChhhHHHHhccCCCCchhhHHHHHHHHHhcCCHHHHHH-HHHhhhhcCC-CC--cHhhHHHHHHHHhcCCcHHHHHHHH
Q 048090          135 LLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLE-LVRLMPALGL-DY--DHFTLSALLRACAGLSAAEFGRQVH  210 (447)
Q Consensus       135 g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~-~~~~~~~~~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~  210 (447)
                      +.++.+...|+.+...+..       .+...|++++|+. .+++...... .|  +...+..+...+.+.|++++|...+
T Consensus        15 ~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~   87 (368)
T 1fch_A           15 DFWDKLQAELEEMAKRDAE-------AHPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLF   87 (368)
T ss_dssp             --------------------------------------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHcCCch-------hhHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHH
Confidence            3344445555555433322       3344588999998 8887665421 11  3456888889999999999999999


Q ss_pred             HHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 048090          211 AYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLM  290 (447)
Q Consensus       211 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  290 (447)
                      +++.+.   .+.+..++..+..++...|++++|...|+++...    .+.+..++..+..++...|++++|...++++..
T Consensus        88 ~~al~~---~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  160 (368)
T 1fch_A           88 EAAVQQ---DPKHMEAWQYLGTTQAENEQELLAISALRRCLEL----KPDNQTALMALAVSFTNESLQRQACEILRDWLR  160 (368)
T ss_dssp             HHHHHS---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHh---CCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999987   3457888999999999999999999999988775    566788999999999999999999999999998


Q ss_pred             CCCCCCHHHHHH---------------HHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHH
Q 048090          291 NGTKPDEVAFVT---------------VISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKL  355 (447)
Q Consensus       291 ~~~~p~~~~~~~---------------ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  355 (447)
                      .... +...+..               .+..+...|++++|...|+++.+...-.++..++..+...+.+.|++++|...
T Consensus       161 ~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~  239 (368)
T 1fch_A          161 YTPA-YAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDC  239 (368)
T ss_dssp             TSTT-TGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hCcC-cHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHH
Confidence            6422 2222211               23344489999999999999987632222578899999999999999999999


Q ss_pred             HHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 048090          356 INEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       356 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  432 (447)
                      +++++...  |++..++..++.++...|++++|...++++++..|.+..++..++.+|.+.|++++|...++++.+.
T Consensus       240 ~~~al~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  314 (368)
T 1fch_A          240 FTAALSVR--PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNM  314 (368)
T ss_dssp             HHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhC--cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            99999876  8888899999999999999999999999999999999999999999999999999999999999863

>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=99.87  E-value=1.5e-20  Score=166.70  Aligned_cols=280  Identities=14%  Similarity=0.070  Sum_probs=135.8

Q ss_pred             CcchHHHhhccCCCCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHH
Q 048090           35 NLGTLTNCLKFLNPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTK  114 (447)
Q Consensus        35 ~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  114 (447)
                      ++++|..++++++.|  .+|..|..++.+.|++++|++.|.+.      +|..+|..++.++...|++++|..+++...+
T Consensus        18 ~ld~A~~fae~~~~~--~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark   89 (449)
T 1b89_A           18 NLDRAYEFAERCNEP--AVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARK   89 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CHHHHHHHHHhCCCh--HHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence            699999999999555  59999999999999999999999653      5778999999999999999999998877766


Q ss_pred             cCCCCchhhHHHHHHHHHccCChhhHHHHhccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHH
Q 048090          115 SGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALL  194 (447)
Q Consensus       115 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  194 (447)
                      .  .+++.+.+.++.+|.+.|+++++.++++.   |+..+|+.+...|...|.+++|...|..+         ..|..++
T Consensus        90 ~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~---pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA  155 (449)
T 1b89_A           90 K--ARESYVETELIFALAKTNRLAELEEFING---PNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLA  155 (449)
T ss_dssp             ---------------------CHHHHTTTTTC---C----------------CTTTHHHHHHHT---------TCHHHHH
T ss_pred             h--CccchhHHHHHHHHHHhCCHHHHHHHHcC---CcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHH
Confidence            3  45578889999999999999999988864   67789999999999999999999999987         3799999


Q ss_pred             HHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHh
Q 048090          195 RACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGR  274 (447)
Q Consensus       195 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  274 (447)
                      .++.+.|++++|.+.+.++     +   ++.+|..++.+|...|+++.|......+        ..++.....++..|.+
T Consensus       156 ~~L~~Lg~yq~AVea~~KA-----~---~~~~Wk~v~~aCv~~~ef~lA~~~~l~L--------~~~ad~l~~lv~~Yek  219 (449)
T 1b89_A          156 STLVHLGEYQAAVDGARKA-----N---STRTWKEVCFACVDGKEFRLAQMCGLHI--------VVHADELEELINYYQD  219 (449)
T ss_dssp             HHHHTTTCHHHHHHHHHHH-----T---CHHHHHHHHHHHHHTTCHHHHHHTTTTT--------TTCHHHHHHHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHc-----C---CchhHHHHHHHHHHcCcHHHHHHHHHHH--------HhCHhhHHHHHHHHHH
Confidence            9999999999999999977     2   7889999999999999999997665532        2333335568899999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc--cCcHHHHHHHHHHHHHhcCCCC------ChhhHHHHHHHHHHc
Q 048090          275 NGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSH--TGQVKLGIEYFEWMVHDYKLEP------GPEHYSCLVDLLCRA  346 (447)
Q Consensus       275 ~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~--~~~~~~a~~~~~~~~~~~~~~~------~~~~~~~l~~~~~~~  346 (447)
                      .|++++|..+++...... +-....|+.+.-++++  .++..+.++.|.   .+-+++|      +...|..++-.|...
T Consensus       220 ~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~---~~ini~k~~~~~~~~~~w~e~~~ly~~~  295 (449)
T 1b89_A          220 RGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFW---SRVNIPKVLRAAEQAHLWAELVFLYDKY  295 (449)
T ss_dssp             TTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHS---TTSCHHHHHHHHHTTTCHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHH---HHhcCcHHHHHHHHHHHHHHHHHHHHhh
Confidence            999999999999988654 4456666666666654  444555555443   3224455      477899999999999


Q ss_pred             CCHHHHHHHH
Q 048090          347 GELDKAWKLI  356 (447)
Q Consensus       347 g~~~~A~~~~  356 (447)
                      ++++.|....
T Consensus       296 ~e~d~A~~tm  305 (449)
T 1b89_A          296 EEYDNAIITM  305 (449)
T ss_dssp             TCHHHHHHHH
T ss_pred             chHHHHHHHH
Confidence            9999988754

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.87  E-value=4.8e-20  Score=166.58  Aligned_cols=236  Identities=12%  Similarity=-0.017  Sum_probs=202.5

Q ss_pred             cHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhH
Q 048090          186 DHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLW  265 (447)
Q Consensus       186 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  265 (447)
                      +...+..+...+.+.|++++|...|+++++..   +.+..++..+..+|...|++++|...|+++...    .+.+..+|
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~----~p~~~~~~  136 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD---PGDAEAWQFLGITQAENENEQAAIVALQRCLEL----QPNNLKAL  136 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----CTTCHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC---cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc----CCCCHHHH
Confidence            44568888899999999999999999999973   457889999999999999999999999988775    55678899


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-----------HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChh
Q 048090          266 TSMLGVYGRNGYFKEVIKLYEAMLMNGTKPD-----------EVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPE  334 (447)
Q Consensus       266 ~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~-----------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  334 (447)
                      ..+..+|...|++++|...++++.+.  .|+           ...+..+...+...|++++|...++++.+...-.++..
T Consensus       137 ~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  214 (365)
T 4eqf_A          137 MALAVSYTNTSHQQDACEALKNWIKQ--NPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPD  214 (365)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHH
T ss_pred             HHHHHHHHccccHHHHHHHHHHHHHh--CccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHH
Confidence            99999999999999999999999874  333           22333457788999999999999999997632222688


Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHH
Q 048090          335 HYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYA  414 (447)
Q Consensus       335 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  414 (447)
                      ++..+...|...|++++|...++++++..  |++..+|..++.+|...|++++|...++++++..|.+..++..++.+|.
T Consensus       215 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~  292 (365)
T 4eqf_A          215 LQTGLGVLFHLSGEFNRAIDAFNAALTVR--PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCI  292 (365)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHH
Confidence            99999999999999999999999999886  8889999999999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHHHHHHHHHc
Q 048090          415 KFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       415 ~~g~~~~A~~~~~~m~~~  432 (447)
                      +.|++++|...++++.+.
T Consensus       293 ~~g~~~~A~~~~~~al~~  310 (365)
T 4eqf_A          293 NLGAYREAVSNFLTALSL  310 (365)
T ss_dssp             HHTCCHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHh
Confidence            999999999999999873

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.86  E-value=4.1e-18  Score=160.08  Aligned_cols=368  Identities=13%  Similarity=-0.003  Sum_probs=298.5

Q ss_pred             HHHhhhhhhhhhc-ccccCCcchHHHhhccCC-CCCCccHHHHHHHHHh----CCChhhHHHHHHHHHhcCCCCchhhHH
Q 048090           17 IIFQSRLMLPYTT-CRHKKNLGTLTNCLKFLN-PRNPLPFNVVISDFCR----NGSPLYALKTFSFMHVHGIFLDTYALC   90 (447)
Q Consensus        17 ~~~~~~l~~~~~~-~~~~~~~~~A~~~~~~~~-~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~   90 (447)
                      +..+..|-..|.. .+..++.++|...|++.. ..++.++..|...|..    .+++++|.+.|++..+.|   +...+.
T Consensus        39 ~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~  115 (490)
T 2xm6_A           39 AKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQGYTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQQ  115 (490)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            4555566666654 122457999999998753 3577788899999998    899999999999998875   556677


Q ss_pred             HHHHHhcc----CCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHc----cCChhhHHHHhccCCC-CchhhHHHHHHH
Q 048090           91 SSLTASTS----VKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAK----LLLIHDAELMFDEIPV-KNSVCANALLSG  161 (447)
Q Consensus        91 ~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~-~~~~~~~~l~~~  161 (447)
                      .+...+..    .+++++|...|++..+.|   ++..+..+...|..    .++.++|.+.|++..+ .+...+..+...
T Consensus       116 ~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~  192 (490)
T 2xm6_A          116 NLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQGNVWSCNQLGYM  192 (490)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            77777776    789999999999999876   56677778888887    7899999999987653 477888889998


Q ss_pred             HHh----cCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhc----CCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHH
Q 048090          162 YCE----AKLWAGGLELVRLMPALGLDYDHFTLSALLRACAG----LSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEM  233 (447)
Q Consensus       162 ~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~  233 (447)
                      |..    .+++++|.+.|++..+.|   +...+..+...+..    .+++++|..+|++..+.  +   +...+..+...
T Consensus       193 y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~--~---~~~a~~~lg~~  264 (490)
T 2xm6_A          193 YSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQ--G---NSIAQFRLGYI  264 (490)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTT--T---CHHHHHHHHHH
T ss_pred             HhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC--C---CHHHHHHHHHH
Confidence            988    899999999999998865   45667777777765    78999999999998876  3   56677788888


Q ss_pred             HHh----cCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhc-----CCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 048090          234 YGK----CGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRN-----GYFKEVIKLYEAMLMNGTKPDEVAFVTVI  304 (447)
Q Consensus       234 ~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----g~~~~a~~~~~~m~~~~~~p~~~~~~~ll  304 (447)
                      |..    .+++++|...|++....      .+...+..+...|...     +++++|...|++..+.|   +...+..+.
T Consensus       265 y~~g~~~~~d~~~A~~~~~~a~~~------~~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg  335 (490)
T 2xm6_A          265 LEQGLAGAKEPLKALEWYRKSAEQ------GNSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQANLG  335 (490)
T ss_dssp             HHHTTTSSCCHHHHHHHHHHHHTT------TCHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             HHCCCCCCCCHHHHHHHHHHHHHc------CCHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHH
Confidence            888    89999999999976442      3556777888888887     89999999999999865   445667777


Q ss_pred             HHHhccC---cHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHH----cCCHHHHHHHHHHHHhCCCCCCchHhHHHHHH
Q 048090          305 SACSHTG---QVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCR----AGELDKAWKLINEMLDRGHGSSSVSMWGALLS  377 (447)
Q Consensus       305 ~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~  377 (447)
                      ..+...|   ++++|..+|++..+.    .+...+..|...|..    .+++++|...|++..+.+    +..++..|..
T Consensus       336 ~~y~~~g~~~~~~~A~~~~~~a~~~----~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~----~~~a~~~Lg~  407 (490)
T 2xm6_A          336 AIYFRLGSEEEHKKAVEWFRKAAAK----GEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG----LSAAQVQLGE  407 (490)
T ss_dssp             HHHHHSCCHHHHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT----CHHHHHHHHH
T ss_pred             HHHHhCCCcccHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC----CHHHHHHHHH
Confidence            7776655   899999999999764    367788889999998    899999999999999876    4667899999


Q ss_pred             HHHh----cCCccHHHHHHHHHhhhCCC---chhHHHHHHHHHHh
Q 048090          378 ACHD----CGKFELGKLAAQKALELDPH---NVGIYVMLSNLYAK  415 (447)
Q Consensus       378 ~~~~----~g~~~~a~~~~~~~~~~~~~---~~~~~~~l~~~~~~  415 (447)
                      .|..    .+++++|...|+++.+.+|+   ++.....+...+..
T Consensus       408 ~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~~a~~~l~~~~~~  452 (490)
T 2xm6_A          408 IYYYGLGVERDYVQAWAWFDTASTNDMNLFGTENRNITEKKLTAK  452 (490)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHHHCCHHHHHHHHHHHTTSCHH
T ss_pred             HHHcCCCCCCCHHHHHHHHHHHHHCCCCCcCCHHHHHHHHhcCHh
Confidence            9998    89999999999999999854   77777777665543

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.86  E-value=4.4e-18  Score=161.53  Aligned_cols=374  Identities=8%  Similarity=-0.048  Sum_probs=276.1

Q ss_pred             CCCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHH
Q 048090           47 NPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSA  126 (447)
Q Consensus        47 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  126 (447)
                      .|.|...|..++. +.+.|++++|..+|+++.+.. +-+...|...+..+.+.|+++.|..+|+++++..  |+...|..
T Consensus         9 ~P~~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~~-P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~--p~~~lw~~   84 (530)
T 2ooe_A            9 NPYDLDAWSILIR-EAQNQPIDKARKTYERLVAQF-PSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV--LHIDLWKC   84 (530)
T ss_dssp             CTTCHHHHHHHHH-HHHSSCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC--CCHHHHHH
T ss_pred             CCCCHHHHHHHHH-HHHhCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CChHHHHH
Confidence            3557788999998 478999999999999999863 4466789999999999999999999999999863  67777877


Q ss_pred             HHHHH-HccCChhhHHH----HhccCC------CCchhhHHHHHHHHHh---------cCCHHHHHHHHHhhhhcCCCCc
Q 048090          127 LIDLY-AKLLLIHDAEL----MFDEIP------VKNSVCANALLSGYCE---------AKLWAGGLELVRLMPALGLDYD  186 (447)
Q Consensus       127 l~~~~-~~~g~~~~a~~----~~~~~~------~~~~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~  186 (447)
                      .+... ...|+.+.|.+    +|++..      .++...|...+.....         .|+++.|..+|++..+....+.
T Consensus        85 ~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~  164 (530)
T 2ooe_A           85 YLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINI  164 (530)
T ss_dssp             HHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTH
T ss_pred             HHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhH
Confidence            77533 45677777665    665432      2356678877776654         6899999999999987311111


Q ss_pred             HhhHHHHHHH---H----------hcCCcHHHHHHHHHHHHHhhhc-------CCCC--------hhHHHHHHHHHHhc-
Q 048090          187 HFTLSALLRA---C----------AGLSAAEFGRQVHAYMIRKCCN-------LGND--------VFMQSSLIEMYGKC-  237 (447)
Q Consensus       187 ~~~~~~l~~~---~----------~~~~~~~~a~~~~~~~~~~~~~-------~~~~--------~~~~~~l~~~~~~~-  237 (447)
                      ...|......   +          ...+++..|..++........+       ++|+        ...|...+...... 
T Consensus       165 ~~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~  244 (530)
T 2ooe_A          165 EQLWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNP  244 (530)
T ss_dssp             HHHHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCS
T ss_pred             HHHHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCC
Confidence            2233322211   1          1345667777776664322111       2333        23455544333222 


Q ss_pred             ---CCh----HHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHh-------cCCHH-------HHHHHHHHHHhCCCCCC
Q 048090          238 ---GLV----TKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGR-------NGYFK-------EVIKLYEAMLMNGTKPD  296 (447)
Q Consensus       238 ---g~~----~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~g~~~-------~a~~~~~~m~~~~~~p~  296 (447)
                         ++.    +.+..+|+++...    .+.+...|...+..+.+       .|+++       +|..+|++..+.-.+-+
T Consensus       245 ~~~~~~~~~~~~a~~~y~~al~~----~p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~  320 (530)
T 2ooe_A          245 LRTEDQTLITKRVMFAYEQCLLV----LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKN  320 (530)
T ss_dssp             SCCSCSHHHHHHHHHHHHHHHHH----HTTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSC
T ss_pred             ccCCcchhHHHHHHHHHHHHHHh----CCCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCccc
Confidence               232    3677788876664    55678889888888875       68887       89999999986312335


Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC-h-hhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHH
Q 048090          297 EVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG-P-EHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGA  374 (447)
Q Consensus       297 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~  374 (447)
                      ...+..++..+.+.|++++|..+|+++.+.   .|+ . ..|..++..+.+.|++++|..+|++..+..  |.....|..
T Consensus       321 ~~l~~~~~~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~--~~~~~~~~~  395 (530)
T 2ooe_A          321 MLLYFAYADYEESRMKYEKVHSIYNRLLAI---EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA--RTRHHVYVT  395 (530)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHS---SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT--TCCTHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhCc---cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc--CCchHHHHH
Confidence            788889999999999999999999999864   564 3 589999999999999999999999999875  554444444


Q ss_pred             HHHH-HHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 048090          375 LLSA-CHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKG  433 (447)
Q Consensus       375 l~~~-~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  433 (447)
                      .+.. +...|++++|..+|+++++..|+++.+|..++..+.+.|+.++|..+|++....+
T Consensus       396 ~a~~~~~~~~~~~~A~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~  455 (530)
T 2ooe_A          396 AALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSG  455 (530)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHcCChhHHHHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhcc
Confidence            3333 3468999999999999999999999999999999999999999999999999863

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.86  E-value=1.7e-18  Score=150.32  Aligned_cols=271  Identities=10%  Similarity=-0.025  Sum_probs=218.4

Q ss_pred             HHHHccCChhhHHHHhccCCCCc----hhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHH
Q 048090          129 DLYAKLLLIHDAELMFDEIPVKN----SVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAE  204 (447)
Q Consensus       129 ~~~~~~g~~~~a~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  204 (447)
                      +-....|++..|+..++.....+    ......+.++|...|+++.|+..++..    -+|+..++..+...+...++.+
T Consensus         7 ~~~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~~----~~~~~~a~~~la~~~~~~~~~~   82 (291)
T 3mkr_A            7 KNAFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKPS----SAPELQAVRMFAEYLASHSRRD   82 (291)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCTT----SCHHHHHHHHHHHHHHCSTTHH
T ss_pred             HHHHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhccc----CChhHHHHHHHHHHHcCCCcHH
Confidence            34456789999999888766433    234566788999999999999876552    3667788888889999999999


Q ss_pred             HHHHHHHHHHHhhhcC-CCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHH
Q 048090          205 FGRQVHAYMIRKCCNL-GNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIK  283 (447)
Q Consensus       205 ~a~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  283 (447)
                      +|.+.++++...  +. +.+...+..+..++...|++++|++.+++         +.+...+..++..+.+.|++++|..
T Consensus        83 ~A~~~l~~ll~~--~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~---------~~~~~~~~~l~~~~~~~g~~~~A~~  151 (291)
T 3mkr_A           83 AIVAELDREMSR--SVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ---------GDSLECMAMTVQILLKLDRLDLARK  151 (291)
T ss_dssp             HHHHHHHHHHHS--CCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT---------CCSHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhc--ccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC---------CCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            999999999876  33 33566778888999999999999999983         5677889999999999999999999


Q ss_pred             HHHHHHhCCCCCCHHHH---HHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHH
Q 048090          284 LYEAMLMNGTKPDEVAF---VTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEML  360 (447)
Q Consensus       284 ~~~~m~~~~~~p~~~~~---~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  360 (447)
                      .++++.+..  |+....   ...+..+...|++++|..+|+++.+.  .+.+...++.+..++.+.|++++|...+++++
T Consensus       152 ~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al  227 (291)
T 3mkr_A          152 ELKKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK--CSPTLLLLNGQAACHMAQGRWEAAEGVLQEAL  227 (291)
T ss_dssp             HHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            999998864  543211   22334445669999999999999876  35678899999999999999999999999999


Q ss_pred             hCCCCCCchHhHHHHHHHHHhcCCccH-HHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHH
Q 048090          361 DRGHGSSSVSMWGALLSACHDCGKFEL-GKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQ  424 (447)
Q Consensus       361 ~~~~~p~~~~~~~~l~~~~~~~g~~~~-a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  424 (447)
                      ...  |++..++..++..+...|+.++ +.++++++++.+|+++.+..    ...+.+.++++..
T Consensus       228 ~~~--p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P~~~~~~d----~~~~~~~fd~~~~  286 (291)
T 3mkr_A          228 DKD--SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAHRSHPFIKE----YRAKENDFDRLVL  286 (291)
T ss_dssp             HHC--TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHH----HHHHHHHHHHHHH
T ss_pred             HhC--CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCCChHHHH----HHHHHHHHHHHHH
Confidence            887  9999999999999999999976 67899999999999986554    3445555555543

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.85  E-value=3e-18  Score=160.48  Aligned_cols=365  Identities=12%  Similarity=-0.039  Sum_probs=249.2

Q ss_pred             CCccHHHHHHHHHhCCChhhHHHHHHHHHhc-----C--CCC-chhhHHHHHHHhccCCchhHHHHHHHHHHHcC-----
Q 048090           50 NPLPFNVVISDFCRNGSPLYALKTFSFMHVH-----G--IFL-DTYALCSSLTASTSVKDARFGKQVQAHVTKSG-----  116 (447)
Q Consensus        50 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-----~--~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----  116 (447)
                      ....||.|...+...|++++|++.|++..+.     +  ..| ...+|+.+..++...|++++|...+++..+..     
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            3456999999999999999999999987542     1  122 34678899999999999999999999887531     


Q ss_pred             -C-CCchhhHHHHHHHHHcc--CChhhHHHHhccCC--CC-chhhHHHHHHH---HHhcCCHHHHHHHHHhhhhcCCCCc
Q 048090          117 -W-LSSVFVGSALIDLYAKL--LLIHDAELMFDEIP--VK-NSVCANALLSG---YCEAKLWAGGLELVRLMPALGLDYD  186 (447)
Q Consensus       117 -~-~~~~~~~~~l~~~~~~~--g~~~~a~~~~~~~~--~~-~~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~~~~~  186 (447)
                       . .....++..+..++...  +++++|+..|++..  .| ++..+..+..+   +...++.++|++.+++..+.. +.+
T Consensus       130 ~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~~  208 (472)
T 4g1t_A          130 PYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PDN  208 (472)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SSC
T ss_pred             ccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-Ccc
Confidence             1 11234555555555544  56899999998865  33 45555555554   345577788999998887764 335


Q ss_pred             HhhHHHHHHHHh----cCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcch
Q 048090          187 HFTLSALLRACA----GLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDV  262 (447)
Q Consensus       187 ~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  262 (447)
                      ...+..+...+.    ..+++++|.+.+++....   .+.+..++..+...|...|++++|...|+++...    .|.+.
T Consensus       209 ~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~---~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~----~p~~~  281 (472)
T 4g1t_A          209 QYLKVLLALKLHKMREEGEEEGEGEKLVEEALEK---APGVTDVLRSAAKFYRRKDEPDKAIELLKKALEY----IPNNA  281 (472)
T ss_dssp             HHHHHHHHHHHHHCC------CHHHHHHHHHHHH---CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----STTCH
T ss_pred             hHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHh---CccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHh----CCChH
Confidence            555655554443    346788999999999887   3457788899999999999999999999987765    45566


Q ss_pred             hhHHHHHHHHHhc-------------------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHH
Q 048090          263 VLWTSMLGVYGRN-------------------GYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWM  323 (447)
Q Consensus       263 ~~~~~l~~~~~~~-------------------g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  323 (447)
                      .++..+..+|...                   +..+.|...+++..+.. +.+..++..+...+...|++++|...|++.
T Consensus       282 ~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~ka  360 (472)
T 4g1t_A          282 YLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKE  360 (472)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHH
Confidence            7777776665432                   23567778888877653 234567788888999999999999999998


Q ss_pred             HHhcCCCCChh----hHHHHHH-HHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhh
Q 048090          324 VHDYKLEPGPE----HYSCLVD-LLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALEL  398 (447)
Q Consensus       324 ~~~~~~~~~~~----~~~~l~~-~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  398 (447)
                      ...   .|+..    .+..+.. .+...|++++|+..|++.++..  |.+.. ..         +....+..++++.++.
T Consensus       361 L~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~--~~~~~-~~---------~~~~~l~~~~~~~l~~  425 (472)
T 4g1t_A          361 FSK---ELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKIN--QKSRE-KE---------KMKDKLQKIAKMRLSK  425 (472)
T ss_dssp             HHS---CCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSC--CCCHH-HH---------HHHHHHHHHHHHHHHH
T ss_pred             Hhc---CCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--cccHH-HH---------HHHHHHHHHHHHHHHh
Confidence            864   33322    2333332 2346789999999999998876  65543 22         2233456778888889


Q ss_pred             CCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCCC
Q 048090          399 DPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKG-LKKDV  438 (447)
Q Consensus       399 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~-~~p~~  438 (447)
                      +|.++.+|..++.+|...|++++|++.|++..+.+ ..|++
T Consensus       426 ~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a  466 (472)
T 4g1t_A          426 NGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSA  466 (472)
T ss_dssp             CC-CTTHHHHHHHHHHHHHHCC-------------------
T ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcH
Confidence            99999999999999999999999999999998854 34443

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.85  E-value=5.5e-19  Score=153.47  Aligned_cols=251  Identities=10%  Similarity=0.063  Sum_probs=207.5

Q ss_pred             HHHHHhcCCHHHHHHHHHhhhhcCCCCcH--hhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHh
Q 048090          159 LSGYCEAKLWAGGLELVRLMPALGLDYDH--FTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGK  236 (447)
Q Consensus       159 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  236 (447)
                      ++-....|++..|+..+++....  .|+.  .....+.+++...|+++.|...++.      ..+|+..++..+...+..
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~~--~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~------~~~~~~~a~~~la~~~~~   77 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKPS--SPERDVERDVFLYRAYLAQRKYGVVLDEIKP------SSAPELQAVRMFAEYLAS   77 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCCC--SHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT------TSCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHhcccC--CchhhHHHHHHHHHHHHHCCCHHHHHHHhcc------cCChhHHHHHHHHHHHcC
Confidence            34556789999999999887654  3443  3556678899999999999986643      235677888999999999


Q ss_pred             cCChHHHHHHHHhhhhhcccCC-CcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHH
Q 048090          237 CGLVTKALQVFNLAGHRLEGEI-NKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKL  315 (447)
Q Consensus       237 ~g~~~~A~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  315 (447)
                      .++.++|.+.++++...   +. |.+...+..+...+...|++++|++.+++      ..+...+..++..+.+.|++++
T Consensus        78 ~~~~~~A~~~l~~ll~~---~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~  148 (291)
T 3mkr_A           78 HSRRDAIVAELDREMSR---SVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDL  148 (291)
T ss_dssp             STTHHHHHHHHHHHHHS---CCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHH
T ss_pred             CCcHHHHHHHHHHHHhc---ccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHH
Confidence            99999999999965432   22 44566778888999999999999999987      4577889999999999999999


Q ss_pred             HHHHHHHHHHhcCCCCChhhH---HHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHH
Q 048090          316 GIEYFEWMVHDYKLEPGPEHY---SCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAA  392 (447)
Q Consensus       316 a~~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~  392 (447)
                      |.+.|+++.+.   .|+....   ..++..+...|++++|..+|+++.+..  |++..+++.++.++...|++++|...+
T Consensus       149 A~~~l~~~~~~---~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~--p~~~~~~~~la~~~~~~g~~~eA~~~l  223 (291)
T 3mkr_A          149 ARKELKKMQDQ---DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKC--SPTLLLLNGQAACHMAQGRWEAAEGVL  223 (291)
T ss_dssp             HHHHHHHHHHH---CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS--CCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHhh---CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            99999999876   4653211   223344445689999999999999986  889999999999999999999999999


Q ss_pred             HHHhhhCCCchhHHHHHHHHHHhcCChHH-HHHHHHHHHH
Q 048090          393 QKALELDPHNVGIYVMLSNLYAKFCMWDE-IGQLRELMKE  431 (447)
Q Consensus       393 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-A~~~~~~m~~  431 (447)
                      +++++.+|.++.++..++.++...|+.++ +.++++++.+
T Consensus       224 ~~al~~~p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~  263 (291)
T 3mkr_A          224 QEALDKDSGHPETLINLVVLSQHLGKPPEVTNRYLSQLKD  263 (291)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence            99999999999999999999999999976 5788998876

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.83  E-value=3.4e-18  Score=160.11  Aligned_cols=368  Identities=9%  Similarity=-0.038  Sum_probs=246.0

Q ss_pred             HHHhhhhhhhhhcccccCCcchHHHhhccC------------CCCCCccHHHHHHHHHhCCChhhHHHHHHHHHhc----
Q 048090           17 IIFQSRLMLPYTTCRHKKNLGTLTNCLKFL------------NPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVH----   80 (447)
Q Consensus        17 ~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~----   80 (447)
                      ..+||.|-..|.+.|   +.++|++.|++.            .+....+|+.+..+|...|++++|...+++..+.    
T Consensus        51 a~~yn~Lg~~~~~~G---~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~  127 (472)
T 4g1t_A           51 ATMCNLLAYLKHLKG---QNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKF  127 (472)
T ss_dssp             CHHHHHHHHHHHHTT---CHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHCC---CHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhc
Confidence            467888888888887   599998888753            1223467999999999999999999999988652    


Q ss_pred             -C-CCC-chhhHHHHHHHhc--cCCchhHHHHHHHHHHHcCCCCchhhHHHHHHH---HHccCChhhHHHHhccCC---C
Q 048090           81 -G-IFL-DTYALCSSLTAST--SVKDARFGKQVQAHVTKSGWLSSVFVGSALIDL---YAKLLLIHDAELMFDEIP---V  149 (447)
Q Consensus        81 -~-~~p-~~~~~~~ll~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~---~~~~g~~~~a~~~~~~~~---~  149 (447)
                       + ..+ ...++.....++.  ..+++++|...|++.++.. |.++..+..+..+   +...++.++|++.+++..   +
T Consensus       128 ~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~-p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p  206 (472)
T 4g1t_A          128 SSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK-PKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNP  206 (472)
T ss_dssp             CCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCS
T ss_pred             ccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCC
Confidence             1 111 2345555544443  3468999999999999864 3345555555444   345677788888887654   3


Q ss_pred             CchhhHHHHHHHHHh----cCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChh
Q 048090          150 KNSVCANALLSGYCE----AKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVF  225 (447)
Q Consensus       150 ~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  225 (447)
                      .+...+..+...+..    .+++++|.+.+++..... +.+...+..+...+...|++++|...+++..+..   +.+..
T Consensus       207 ~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---p~~~~  282 (472)
T 4g1t_A          207 DNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI---PNNAY  282 (472)
T ss_dssp             SCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS---TTCHH
T ss_pred             cchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC---CChHH
Confidence            456666666555544    467889999999988764 4567788889999999999999999999999873   34667


Q ss_pred             HHHHHHHHHHhc-------------------CChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHH
Q 048090          226 MQSSLIEMYGKC-------------------GLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYE  286 (447)
Q Consensus       226 ~~~~l~~~~~~~-------------------g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  286 (447)
                      ++..+..+|...                   +.++.|...|+++...    .+.+..++..+...+...|++++|+..|+
T Consensus       283 ~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~----~~~~~~~~~~lg~~~~~~~~~~~A~~~~~  358 (472)
T 4g1t_A          283 LHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEA----NDNLFRVCSILASLHALADQYEEAEYYFQ  358 (472)
T ss_dssp             HHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHH----CTTTCCCHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhc----CCchhhhhhhHHHHHHHhccHHHHHHHHH
Confidence            777777666432                   2356777888766554    55667789999999999999999999999


Q ss_pred             HHHhCCCCCCHH--HHHHHHH-HHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 048090          287 AMLMNGTKPDEV--AFVTVIS-ACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRG  363 (447)
Q Consensus       287 ~m~~~~~~p~~~--~~~~ll~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  363 (447)
                      +..+....|...  .+..+.. .....|++++|+..|++..+   +.|+......         ....+..++++.+..+
T Consensus       359 kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~---i~~~~~~~~~---------~~~~l~~~~~~~l~~~  426 (472)
T 4g1t_A          359 KEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVK---INQKSREKEK---------MKDKLQKIAKMRLSKN  426 (472)
T ss_dssp             HHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHH---SCCCCHHHHH---------HHHHHHHHHHHHHHHC
T ss_pred             HHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCcccHHHHH---------HHHHHHHHHHHHHHhC
Confidence            998865443321  2223322 23578999999999999885   4665433222         2344566677777766


Q ss_pred             CCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHH
Q 048090          364 HGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLS  410 (447)
Q Consensus       364 ~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~  410 (447)
                        |++..+|..++.+|...|++++|...|+++++.+|.++.+..-++
T Consensus       427 --p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~~G  471 (472)
T 4g1t_A          427 --GADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSWNG  471 (472)
T ss_dssp             --C-CTTHHHHHHHHHHHHHHCC------------------------
T ss_pred             --CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhcCC
Confidence              889999999999999999999999999999999988777665443

>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=99.82  E-value=8e-19  Score=155.86  Aligned_cols=235  Identities=10%  Similarity=-0.031  Sum_probs=158.5

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHH-
Q 048090          152 SVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSL-  230 (447)
Q Consensus       152 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l-  230 (447)
                      ...+..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|.+.++.+.+..+.   +...+..+ 
T Consensus        55 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~---~~~~~~~~~  130 (327)
T 3cv0_A           55 EEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNANAALASLRAWLLSQPQ---YEQLGSVNL  130 (327)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT---TTTC-----
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc---cHHHHHHHh
Confidence            3344444455555555555555555554432 223444555555555555555555555555554211   12222221 


Q ss_pred             -------------HH-HHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC
Q 048090          231 -------------IE-MYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPD  296 (447)
Q Consensus       231 -------------~~-~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~  296 (447)
                                   .. .+...|++++|...++++...    .+.+...+..+...+...|++++|...++++.+.. +.+
T Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~----~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~  205 (327)
T 3cv0_A          131 QADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEM----NPNDAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDD  205 (327)
T ss_dssp             ---------------CCTTSHHHHHHHHHHHHHHHHH----STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTC
T ss_pred             HHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhh----CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCc
Confidence                         22 366777888888888876554    44567778888888888888888888888887753 335


Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCC---------
Q 048090          297 EVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSS---------  367 (447)
Q Consensus       297 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~---------  367 (447)
                      ..++..+...+...|++++|...++++.+.  .+.+...+..+..++...|++++|...++++....  |.         
T Consensus       206 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~  281 (327)
T 3cv0_A          206 AQLWNKLGATLANGNRPQEALDAYNRALDI--NPGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQ--VGGTTPTGEAS  281 (327)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--TTSCC-----C
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--Cccccccccch
Confidence            677888888888888999999988888765  13357778888888999999999999998887765  65         


Q ss_pred             ---chHhHHHHHHHHHhcCCccHHHHHHHHHhhhC
Q 048090          368 ---SVSMWGALLSACHDCGKFELGKLAAQKALELD  399 (447)
Q Consensus       368 ---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  399 (447)
                         +..++..+..++...|++++|..+++++++..
T Consensus       282 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~  316 (327)
T 3cv0_A          282 REATRSMWDFFRMLLNVMNRPDLVELTYAQNVEPF  316 (327)
T ss_dssp             CTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCSHHH
T ss_pred             hhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhc
Confidence               57778889999999999999988888766543

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.82  E-value=7.8e-20  Score=162.22  Aligned_cols=282  Identities=10%  Similarity=0.066  Sum_probs=122.5

Q ss_pred             cCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHh
Q 048090           98 SVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRL  177 (447)
Q Consensus        98 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  177 (447)
                      +.|++++|.++++++      +++.+|..+..++.+.|++++|++.|.+.  +|..+|..++..+...|++++|++.++.
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            456677777777776      22347788888888888888888888653  5666788888888888888888887666


Q ss_pred             hhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccC
Q 048090          178 MPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGE  257 (447)
Q Consensus       178 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  257 (447)
                      ..+.  .+++.+.+.++.+|.+.|+++++.++++         .|+..+|..++..|...|++++|..+|..+       
T Consensus        87 ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~---------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a-------  148 (449)
T 1b89_A           87 ARKK--ARESYVETELIFALAKTNRLAELEEFIN---------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV-------  148 (449)
T ss_dssp             ------------------------CHHHHTTTTT---------CC----------------CTTTHHHHHHHT-------
T ss_pred             HHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc---------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh-------
Confidence            6653  4556677788888888888888777764         245568888888888888888888888733       


Q ss_pred             CCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHH
Q 048090          258 INKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYS  337 (447)
Q Consensus       258 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  337 (447)
                           ..|..++.++.+.|++++|.+.++++      .++.+|..++.+|...|+++.|......      +...+....
T Consensus       149 -----~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~------L~~~ad~l~  211 (449)
T 1b89_A          149 -----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH------IVVHADELE  211 (449)
T ss_dssp             -----TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTT------TTTCHHHHH
T ss_pred             -----hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHH------HHhCHhhHH
Confidence                 36888888888888888888888877      2677888888888888888888544332      223334455


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhc--CCccHHHHHHHHHhhhCC-----CchhHHHHHH
Q 048090          338 CLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDC--GKFELGKLAAQKALELDP-----HNVGIYVMLS  410 (447)
Q Consensus       338 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~--g~~~~a~~~~~~~~~~~~-----~~~~~~~~l~  410 (447)
                      .++..|.+.|++++|..+++..+...  +....+|.-|..+|++-  ++..+..+.|...+...|     .+...|..+.
T Consensus       212 ~lv~~Yek~G~~eEai~lLe~aL~le--~ah~~~ftel~il~~ky~p~k~~ehl~~~~~~ini~k~~~~~~~~~~w~e~~  289 (449)
T 1b89_A          212 ELINYYQDRGYFEELITMLEAALGLE--RAHMGMFTELAILYSKFKPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELV  289 (449)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHTTST--TCCHHHHHHHHHHHHTTCHHHHHHHHHHHSTTSCHHHHHHHHHTTTCHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHhCCc--HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHH
Confidence            67788888888888888888887665  66777777777777664  344444444443333334     4677788888


Q ss_pred             HHHHhcCChHHHHH
Q 048090          411 NLYAKFCMWDEIGQ  424 (447)
Q Consensus       411 ~~~~~~g~~~~A~~  424 (447)
                      -.|...++++.|..
T Consensus       290 ~ly~~~~e~d~A~~  303 (449)
T 1b89_A          290 FLYDKYEEYDNAII  303 (449)
T ss_dssp             HHHHHTTCHHHHHH
T ss_pred             HHHHhhchHHHHHH
Confidence            88888888888754

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.81  E-value=1.8e-17  Score=141.76  Aligned_cols=228  Identities=11%  Similarity=0.012  Sum_probs=112.7

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCC----hhHHH
Q 048090          153 VCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGND----VFMQS  228 (447)
Q Consensus       153 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~~  228 (447)
                      ..+..+...+...|++++|+..|++..+..  .+...+..+..++...|++++|...++.+.+..+...++    ..++.
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~   83 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFA   83 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHH
Confidence            345556666666666666666666666554  455556666666666666666666666666654332222    34455


Q ss_pred             HHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHh
Q 048090          229 SLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACS  308 (447)
Q Consensus       229 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  308 (447)
                      .+...+...|++++|...|+++...     .|+       ...+...|++++|...++++.... +.+...+..+...+.
T Consensus        84 ~l~~~~~~~~~~~~A~~~~~~a~~~-----~~~-------~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~  150 (258)
T 3uq3_A           84 RIGNAYHKLGDLKKTIEYYQKSLTE-----HRT-------ADILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYF  150 (258)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH-----CCC-------HHHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhc-----Cch-------hHHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHH
Confidence            5555555555555555555544332     122       122333444455555555544421 112333444444444


Q ss_pred             ccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHH
Q 048090          309 HTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELG  388 (447)
Q Consensus       309 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  388 (447)
                      ..|++++|...++++.+.  .+.+...+..+..++...|++++|...++++++..  |++..++..++.++...|++++|
T Consensus       151 ~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~l~~~~~~~g~~~~A  226 (258)
T 3uq3_A          151 TKSDWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD--PNFVRAYIRKATAQIAVKEYASA  226 (258)
T ss_dssp             HTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HhcCHHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC--HHHHHHHHHHHHHHHHHhhHHHH
Confidence            444444444444444432  12224444444444444444444444444444443  44444444444444444444444


Q ss_pred             HHHHHHHhhhC
Q 048090          389 KLAAQKALELD  399 (447)
Q Consensus       389 ~~~~~~~~~~~  399 (447)
                      ...++++++..
T Consensus       227 ~~~~~~a~~~~  237 (258)
T 3uq3_A          227 LETLDAARTKD  237 (258)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhC
Confidence            44444444444

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.80  E-value=2.6e-17  Score=140.77  Aligned_cols=227  Identities=14%  Similarity=0.051  Sum_probs=199.4

Q ss_pred             HhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcc----h
Q 048090          187 HFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKD----V  262 (447)
Q Consensus       187 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~----~  262 (447)
                      ...+..+...+...|++++|...++++.+.  .  .+...+..+..++...|++++|...++++....... .++    .
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~--~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~-~~~~~~~~   79 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWEL--H--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREM-RADYKVIS   79 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--S--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT-TCCHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHh--h--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCccc-ccchHHHH
Confidence            456778888999999999999999999998  3  678899999999999999999999999876652211 111    5


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHH
Q 048090          263 VLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVD  341 (447)
Q Consensus       263 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~  341 (447)
                      .++..+..++...|++++|...|++..+.  .|+.       ..+...|++++|...++++...   .| +...+..+..
T Consensus        80 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~-------~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~~~  147 (258)
T 3uq3_A           80 KSFARIGNAYHKLGDLKKTIEYYQKSLTE--HRTA-------DILTKLRNAEKELKKAEAEAYV---NPEKAEEARLEGK  147 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCH-------HHHHHHHHHHHHHHHHHHHHHC---CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHhc--Cchh-------HHHHHHhHHHHHHHHHHHHHHc---CcchHHHHHHHHH
Confidence            78899999999999999999999999985  4553       3456678999999999999853   44 4778889999


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHH
Q 048090          342 LLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDE  421 (447)
Q Consensus       342 ~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  421 (447)
                      .+...|++++|...++++....  |.+..++..++.++...|++++|...++++++..|.++.++..++.+|...|++++
T Consensus       148 ~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~  225 (258)
T 3uq3_A          148 EYFTKSDWPNAVKAYTEMIKRA--PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVKEYAS  225 (258)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHhhHHH
Confidence            9999999999999999999887  88889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHc
Q 048090          422 IGQLRELMKEK  432 (447)
Q Consensus       422 A~~~~~~m~~~  432 (447)
                      |.+.+++..+.
T Consensus       226 A~~~~~~a~~~  236 (258)
T 3uq3_A          226 ALETLDAARTK  236 (258)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999998764

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.80  E-value=1.5e-17  Score=138.03  Aligned_cols=199  Identities=14%  Similarity=0.039  Sum_probs=159.9

Q ss_pred             CCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHH
Q 048090          221 GNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAF  300 (447)
Q Consensus       221 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~  300 (447)
                      +++...+..+...+.+.|++++|...|+++...    .|.+...+..+..++.+.|++++|+..+++..+.. +.+...+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~----~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~   76 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKE----NPQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGY   76 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTT----SSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHH
Confidence            456777888888888999999999999877664    56677888888889999999999999999988854 2256778


Q ss_pred             HHHHHHHhcc-----------CcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCc
Q 048090          301 VTVISACSHT-----------GQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSS  368 (447)
Q Consensus       301 ~~ll~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~  368 (447)
                      ..+..++...           |++++|...|++..+.   .| +...+..+..++...|++++|+..|+++++.+   ++
T Consensus        77 ~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~---~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~---~~  150 (217)
T 2pl2_A           77 MVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERV---NPRYAPLHLQRGLVYALLGERDKAEASLKQALALE---DT  150 (217)
T ss_dssp             HHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---CC
T ss_pred             HHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHh---CcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc---cc
Confidence            8888888888           9999999999999865   55 47888999999999999999999999999887   47


Q ss_pred             hHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 048090          369 VSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMK  430 (447)
Q Consensus       369 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  430 (447)
                      ..++..++.++...|++++|...++++++..|.++.++..++.++.+.|++++|++.+++..
T Consensus       151 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          151 PEIRSALAELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC---------------
T ss_pred             hHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            77899999999999999999999999999999999999999999999999999999988764

>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=99.78  E-value=1e-15  Score=151.57  Aligned_cols=358  Identities=10%  Similarity=0.033  Sum_probs=203.7

Q ss_pred             hHHHhhhhhhhhhcccccCCcchHHHhhccCC-CCC-----CccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhH
Q 048090           16 LIIFQSRLMLPYTTCRHKKNLGTLTNCLKFLN-PRN-----PLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYAL   89 (447)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~-~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~   89 (447)
                      |+.--+..+.+|...|   +..+|+.+++++. .|+     ...-+.|+.+..+. +..+..+..++....    +   .
T Consensus       984 ~PeeVs~~vKaf~~ag---lp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~----d---~ 1052 (1630)
T 1xi4_A          984 DPEEVSVTVKAFMTAD---LPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNY----D---A 1052 (1630)
T ss_pred             CHHHhHHHHHHHHhCC---CHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhc----c---H
Confidence            3444466677777555   5888888888764 222     23344455444443 333333333333211    0   1


Q ss_pred             HHHHHHhccCCchhHHHHHHHHHHHcC---------------------CCCchhhHHHHHHHHHccCChhhHHHHhccCC
Q 048090           90 CSSLTASTSVKDARFGKQVQAHVTKSG---------------------WLSSVFVGSALIDLYAKLLLIHDAELMFDEIP  148 (447)
Q Consensus        90 ~~ll~~~~~~~~~~~a~~~~~~~~~~~---------------------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  148 (447)
                      ..+...+...|.+++|..+|++.....                     -.-++.+|..+..++...|++++|+..|.+. 
T Consensus      1053 ~eIA~Iai~lglyEEAf~IYkKa~~~~~A~~VLie~i~nldrAiE~Aervn~p~vWsqLAKAql~~G~~kEAIdsYiKA- 1131 (1630)
T 1xi4_A         1053 PDIANIAISNELFEEAFAIFRKFDVNTSAVQVLIEHIGNLDRAYEFAERCNEPAVWSQLAKAQLQKGMVKEAIDSYIKA- 1131 (1630)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHcCCHHHHHHHHHHHHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCHHHHHHHHHhc-
Confidence            113333444444444444444321000                     0023445555556666666666666665443 


Q ss_pred             CCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHH
Q 048090          149 VKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQS  228 (447)
Q Consensus       149 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  228 (447)
                       .|...|..++..+.+.|++++|.+.|....+..  +++...+.++.+|++.++++....+    ++     .++...+.
T Consensus      1132 -dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~f----I~-----~~n~ad~~ 1199 (1630)
T 1xi4_A         1132 -DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEF----IN-----GPNNAHIQ 1199 (1630)
T ss_pred             -CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHH----Hh-----CCCHHHHH
Confidence             344555556666666666666666665544432  2222222355555555555532222    11     12334445


Q ss_pred             HHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHh
Q 048090          229 SLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACS  308 (447)
Q Consensus       229 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  308 (447)
                      .+...|...|++++|..+|..+            ..|..+..+|++.|++++|.+.+++.      .+..+|..+-.+|.
T Consensus      1200 ~iGd~le~eg~YeeA~~~Y~kA------------~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acv 1261 (1630)
T 1xi4_A         1200 QVGDRCYDEKMYDAAKLLYNNV------------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACV 1261 (1630)
T ss_pred             HHHHHHHhcCCHHHHHHHHHhh------------hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHh
Confidence            5666666666666666666521            35666666666666666666666654      23456666666666


Q ss_pred             ccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhc--CCcc
Q 048090          309 HTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDC--GKFE  386 (447)
Q Consensus       309 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~--g~~~  386 (447)
                      ..|++..|......      +..+...+..++..|.+.|.+++|+.+++..+..+  |.....|.-|...+.+.  ++..
T Consensus      1262 e~~Ef~LA~~cgl~------Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~Le--raH~gmftELaiLyaKy~peklm 1333 (1630)
T 1xi4_A         1262 DGKEFRLAQMCGLH------IVVHADELEELINYYQDRGYFEELITMLEAALGLE--RAHMGMFTELAILYSKFKPQKMR 1333 (1630)
T ss_pred             hhhHHHHHHHHHHh------hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC--hhHhHHHHHHHHHHHhCCHHHHH
Confidence            66666666654432      23455667788888999999999999998887665  66777777777766653  4556


Q ss_pred             HHHHHHHHHhhhCC-----CchhHHHHHHHHHHhcCChHHHH
Q 048090          387 LGKLAAQKALELDP-----HNVGIYVMLSNLYAKFCMWDEIG  423 (447)
Q Consensus       387 ~a~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~g~~~~A~  423 (447)
                      ++.+.|..-....|     .+...|..+...|.+.|+++.|.
T Consensus      1334 Ehlk~f~~rini~k~~r~~e~~~lW~elv~LY~~~~e~dnA~ 1375 (1630)
T 1xi4_A         1334 EHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI 1375 (1630)
T ss_pred             HHHHHHHHhcccchHhHHHHHHHHHHHHHHHHHhcccHHHHH
Confidence            66666665554444     46778999999999999999887

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.78  E-value=9e-20  Score=174.62  Aligned_cols=156  Identities=13%  Similarity=0.107  Sum_probs=126.7

Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH
Q 048090          222 NDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFV  301 (447)
Q Consensus       222 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~  301 (447)
                      ....+|+++|++|++.|++++|.++|++|..+...|..||+.|||+||.+||+.|++++|.++|++|.+.|+.||..||+
T Consensus       125 ~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYn  204 (1134)
T 3spa_A          125 GQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYA  204 (1134)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHH
Confidence            34568999999999999999999999988777677899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhccCcH-HHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCC-----chHhHHHH
Q 048090          302 TVISACSHTGQV-KLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSS-----SVSMWGAL  375 (447)
Q Consensus       302 ~ll~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-----~~~~~~~l  375 (447)
                      ++|.++++.|+. +.|.++|++|... |+.||..+|+.++....+.    .+++.++++ ..++.|+     ...+...|
T Consensus       205 tLI~glcK~G~~~e~A~~Ll~EM~~k-G~~PD~vtY~~ll~~~eR~----~vL~~Vrkv-~P~f~p~~~~~~~~~t~~LL  278 (1134)
T 3spa_A          205 AALQCMGRQDQDAGTIERCLEQMSQE-GLKLQALFTAVLLSEEDRA----TVLKAVHKV-KPTFSLPPQLPPPVNTSKLL  278 (1134)
T ss_dssp             HHHHHHHHHTCCHHHHHHHHHHHHHH-TCCSHHHHHHSCCCHHHHH----HHHHHHGGG-CCCCCCCCCCCCCCCCCTTT
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHHc-CCCCChhhcccccChhhHH----HHHHHHHHh-CcccCCCCCCcccccchHHH
Confidence            999999999984 7889999999888 9999999999988766555    344444444 3344442     23334455


Q ss_pred             HHHHHhcC
Q 048090          376 LSACHDCG  383 (447)
Q Consensus       376 ~~~~~~~g  383 (447)
                      ...|.+.+
T Consensus       279 ~dl~s~d~  286 (1134)
T 3spa_A          279 RDVYAKDG  286 (1134)
T ss_dssp             HHHHCCCS
T ss_pred             HHHHccCC
Confidence            66666555

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.76  E-value=9e-17  Score=138.82  Aligned_cols=248  Identities=8%  Similarity=-0.118  Sum_probs=195.7

Q ss_pred             hcCCHHHHHHHHHhhhhcCCC---CcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCCh
Q 048090          164 EAKLWAGGLELVRLMPALGLD---YDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLV  240 (447)
Q Consensus       164 ~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  240 (447)
                      ..|++++|+..++++.+....   .+..++..+...+...|++++|...++++.+.   .+.+..++..+..+|...|++
T Consensus        17 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~---~~~~~~~~~~la~~~~~~~~~   93 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAI---RPDMPEVFNYLGIYLTQAGNF   93 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHTTCH
T ss_pred             ccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHc---CCCcHHHHHHHHHHHHHccCH
Confidence            457899999999998876321   24567888888899999999999999999987   344788899999999999999


Q ss_pred             HHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHH
Q 048090          241 TKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYF  320 (447)
Q Consensus       241 ~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~  320 (447)
                      ++|...|+++...    .+.+..++..+..+|.+.|++++|...++++.+.  .|+.......+..+...|++++|...+
T Consensus        94 ~~A~~~~~~al~~----~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~  167 (275)
T 1xnf_A           94 DAAYEAFDSVLEL----DPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVL  167 (275)
T ss_dssp             HHHHHHHHHHHHH----CTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             HHHHHHHHHHHhc----CccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHH
Confidence            9999999987775    4556788999999999999999999999999885  454444445555667779999999999


Q ss_pred             HHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCC--CCchHhHHHHHHHHHhcCCccHHHHHHHHHhhh
Q 048090          321 EWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHG--SSSVSMWGALLSACHDCGKFELGKLAAQKALEL  398 (447)
Q Consensus       321 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~--p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  398 (447)
                      ++....  .+++...+ .++..+...++.++|...++++......  |.+..++..++.++...|++++|...++++++.
T Consensus       168 ~~~~~~--~~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  244 (275)
T 1xnf_A          168 KQHFEK--SDKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN  244 (275)
T ss_dssp             HHHHHH--SCCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHhc--CCcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Confidence            888765  23444444 4677788888899999999998766410  122567899999999999999999999999999


Q ss_pred             CCCchhHHHHHHHHHHhcCChHHHHHHH
Q 048090          399 DPHNVGIYVMLSNLYAKFCMWDEIGQLR  426 (447)
Q Consensus       399 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~  426 (447)
                      .|.+...+   ..++...|++++|++.+
T Consensus       245 ~p~~~~~~---~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          245 NVHNFVEH---RYALLELSLLGQDQDDL  269 (275)
T ss_dssp             CCTTCHHH---HHHHHHHHHHHHC----
T ss_pred             CchhHHHH---HHHHHHHHHHHhhHHHH
Confidence            98776544   55778889999988766

>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=99.76  E-value=6.4e-15  Score=145.98  Aligned_cols=352  Identities=13%  Similarity=0.112  Sum_probs=204.4

Q ss_pred             hhhHHHhhhhhhhhhcccc-cCCcchHHHhhccCCCCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCC--CCchhhHH
Q 048090           14 ICLIIFQSRLMLPYTTCRH-KKNLGTLTNCLKFLNPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGI--FLDTYALC   90 (447)
Q Consensus        14 ~~~~~~~~~l~~~~~~~~~-~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~--~p~~~~~~   90 (447)
                      ..|+.+|+.++.-=-..++ .=++..|..+=+   ..+|.--...+++|...|.+.+|+++|++....+-  .-+...-+
T Consensus       950 r~d~~lW~~vl~~~n~~RR~Lidqv~a~aL~e---~~~PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~Lqn 1026 (1630)
T 1xi4_A          950 RKDPELWGSVLLESNPYRRPLIDQVVQTALSE---TQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQN 1026 (1630)
T ss_pred             hcCHHHHHHHhcCCcHHHHHHHHHHHHhhccc---ccCHHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHH
Confidence            3567899988843221111 012222333222   23455556788999999999999999999984421  11234445


Q ss_pred             HHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCCCCchhhHHHHHHHHHhcCCHHH
Q 048090           91 SSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAG  170 (447)
Q Consensus        91 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  170 (447)
                      .++....+. +..+..++.......    +   ...+...+...|.+++|..+|++.... ....+.++.   ..+++++
T Consensus      1027 lLi~tAIka-D~~Rv~eyI~kLd~~----d---~~eIA~Iai~lglyEEAf~IYkKa~~~-~~A~~VLie---~i~nldr 1094 (1630)
T 1xi4_A         1027 LLILTAIKA-DRTRVMEYINRLDNY----D---APDIANIAISNELFEEAFAIFRKFDVN-TSAVQVLIE---HIGNLDR 1094 (1630)
T ss_pred             HHHHHHHHh-ChhhHHHHHHHhhhc----c---HHHHHHHHHhCCCHHHHHHHHHHcCCH-HHHHHHHHH---HHhhHHH
Confidence            566655555 556666666655421    1   233667777888888888888886421 111222222   5566777


Q ss_pred             HHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhh
Q 048090          171 GLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLA  250 (447)
Q Consensus       171 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  250 (447)
                      |.++.++..      ++.+|..+..++.+.|++++|.+.|.+.        .+...|..++.++.+.|++++|.+++...
T Consensus      1095 AiE~Aervn------~p~vWsqLAKAql~~G~~kEAIdsYiKA--------dD~say~eVa~~~~~lGkyEEAIeyL~mA 1160 (1630)
T 1xi4_A         1095 AYEFAERCN------EPAVWSQLAKAQLQKGMVKEAIDSYIKA--------DDPSSYMEVVQAANTSGNWEELVKYLQMA 1160 (1630)
T ss_pred             HHHHHHhcC------CHHHHHHHHHHHHhCCCHHHHHHHHHhc--------CChHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            777766542      3456667777777777777777776432        25556666777777777777777777654


Q ss_pred             hhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCC
Q 048090          251 GHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLE  330 (447)
Q Consensus       251 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  330 (447)
                      ...     .++....+.++.+|++.+++++...+.    .   .|+...|..+...|...|++++|..+|..+       
T Consensus      1161 rk~-----~~e~~Idt~LafaYAKl~rleele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA------- 1221 (1630)
T 1xi4_A         1161 RKK-----ARESYVETELIFALAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV------- 1221 (1630)
T ss_pred             Hhh-----cccccccHHHHHHHHhhcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh-------
Confidence            432     122222334666666666666433332    1   334455556666666777777777776664       


Q ss_pred             CChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCC-----------------------CCCchHhHHHHHHHHHhcCCccH
Q 048090          331 PGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGH-----------------------GSSSVSMWGALLSACHDCGKFEL  387 (447)
Q Consensus       331 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-----------------------~p~~~~~~~~l~~~~~~~g~~~~  387 (447)
                         ..|..+..+|.+.|++++|.+.+++......                       ...++..+..++..|.+.|.+++
T Consensus      1222 ---~ny~rLA~tLvkLge~q~AIEaarKA~n~~aWkev~~acve~~Ef~LA~~cgl~Iiv~~deLeeli~yYe~~G~feE 1298 (1630)
T 1xi4_A         1222 ---SNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFEE 1298 (1630)
T ss_pred             ---hHHHHHHHHHHHhCCHHHHHHHHHHhCCHHHHHHHHHHHhhhhHHHHHHHHHHhhhcCHHHHHHHHHHHHHcCCHHH
Confidence               1466666666666667666666665522110                       00122224455666666666666


Q ss_pred             HHHHHHHHhhhCCCchhHHHHHHHHHHhc
Q 048090          388 GKLAAQKALELDPHNVGIYVMLSNLYAKF  416 (447)
Q Consensus       388 a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  416 (447)
                      |..+++.++.+++....+|.-|+.+|.+.
T Consensus      1299 AI~LlE~aL~LeraH~gmftELaiLyaKy 1327 (1630)
T 1xi4_A         1299 LITMLEAALGLERAHMGMFTELAILYSKF 1327 (1630)
T ss_pred             HHHHHHHHhccChhHhHHHHHHHHHHHhC
Confidence            66666666666666666666666655543

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.76  E-value=2.8e-16  Score=135.54  Aligned_cols=251  Identities=12%  Similarity=-0.002  Sum_probs=133.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHH
Q 048090          155 ANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMY  234 (447)
Q Consensus       155 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~  234 (447)
                      +......+...|++++|+..+++..+.. +.+...+..+..++...|++++|...++.+.+...........+..+...+
T Consensus         6 ~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~   84 (272)
T 3u4t_A            6 EFRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKIL   84 (272)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHH
Confidence            3444555556666666666666665542 223335555555666666666666666666553101111122355566666


Q ss_pred             HhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHH
Q 048090          235 GKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVK  314 (447)
Q Consensus       235 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~  314 (447)
                      ...|++++|...|+++...    .+.+..++..+...|...|++++|...+++..+.. +.+...+..+...+...++++
T Consensus        85 ~~~~~~~~A~~~~~~a~~~----~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~  159 (272)
T 3u4t_A           85 MKKGQDSLAIQQYQAAVDR----DTTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYV  159 (272)
T ss_dssp             HHTTCHHHHHHHHHHHHHH----STTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHcccHHHHHHHHHHHHhc----CcccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHH
Confidence            6666666666666655443    33344556666666666666666666666655542 223444444442233334666


Q ss_pred             HHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCC---HHHHHHHHHHHHhCCCC-CC-----chHhHHHHHHHHHhcCC
Q 048090          315 LGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGE---LDKAWKLINEMLDRGHG-SS-----SVSMWGALLSACHDCGK  384 (447)
Q Consensus       315 ~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~-p~-----~~~~~~~l~~~~~~~g~  384 (447)
                      +|...|+++.+.   .| +...+..+..++...|+   +++|...++++.+.... |+     ...+|..++..|...|+
T Consensus       160 ~A~~~~~~a~~~---~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  236 (272)
T 3u4t_A          160 KADSSFVKVLEL---KPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRD  236 (272)
T ss_dssp             HHHHHHHHHHHH---STTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHh---CccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCC
Confidence            666666666543   23 24555555555655555   55566666555433110 11     11345666666666666


Q ss_pred             ccHHHHHHHHHhhhCCCchhHHHHHHHHHH
Q 048090          385 FELGKLAAQKALELDPHNVGIYVMLSNLYA  414 (447)
Q Consensus       385 ~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  414 (447)
                      +++|...++++++.+|.++.++..+.....
T Consensus       237 ~~~A~~~~~~al~~~p~~~~a~~~l~~~~~  266 (272)
T 3u4t_A          237 KVKADAAWKNILALDPTNKKAIDGLKMKLE  266 (272)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHC----
T ss_pred             HHHHHHHHHHHHhcCccHHHHHHHhhhhhc
Confidence            666666666666666666666655554433

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.76  E-value=2.9e-16  Score=131.12  Aligned_cols=201  Identities=9%  Similarity=-0.047  Sum_probs=148.6

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 048090          223 DVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVT  302 (447)
Q Consensus       223 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~  302 (447)
                      +...+..+...+...|++++|...|+++...    .+.+...+..+..++...|++++|...++++.+.. +.+..++..
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~----~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~   81 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKS----DPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNN   81 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh----CccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHH
Confidence            4556667777777777777777777766554    34456677777777777788888888777777653 235667777


Q ss_pred             HHHHHhcc-CcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHH
Q 048090          303 VISACSHT-GQVKLGIEYFEWMVHDYKLEPG-PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACH  380 (447)
Q Consensus       303 ll~~~~~~-~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~  380 (447)
                      +...+... |++++|...++++.+. +..|+ ...+..+..++...|++++|...++++.+..  |.+..++..++.++.
T Consensus        82 l~~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~  158 (225)
T 2vq2_A           82 YGWFLCGRLNRPAESMAYFDKALAD-PTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ--PQFPPAFKELARTKM  158 (225)
T ss_dssp             HHHHHHTTTCCHHHHHHHHHHHHTS-TTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCcHHHHHHHHHHHHcC-cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCchHHHHHHHHHH
Confidence            77777777 8888888888877752 23343 5667777777888888888888888877765  667777888888888


Q ss_pred             hcCCccHHHHHHHHHhhhCC-CchhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          381 DCGKFELGKLAAQKALELDP-HNVGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       381 ~~g~~~~a~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      ..|++++|...++++++..| .+...+..+...+...|+.++|..+++.+.+
T Consensus       159 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  210 (225)
T 2vq2_A          159 LAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQA  210 (225)
T ss_dssp             HHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            88888888888888888877 7777777777777888888888888877765

>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=99.75  E-value=4.1e-16  Score=132.83  Aligned_cols=200  Identities=11%  Similarity=-0.066  Sum_probs=133.3

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 048090          224 VFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTV  303 (447)
Q Consensus       224 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  303 (447)
                      ...+..+...+...|++++|...|+++...    .+.+...+..+...+...|++++|...++++.+.. +.+...+..+
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~----~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l  111 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEI----DPSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNY  111 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHH----CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhc----CCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHH
Confidence            345566666666667777777777655443    34455666666667777777777777777766643 2245566666


Q ss_pred             HHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhc
Q 048090          304 ISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDC  382 (447)
Q Consensus       304 l~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~  382 (447)
                      ...+...|++++|..+++++... +..| +...+..+...+...|++++|...++++.+..  |.+..++..++..+...
T Consensus       112 a~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~  188 (252)
T 2ho1_A          112 GGFLYEQKRYEEAYQRLLEASQD-TLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN--RNQPSVALEMADLLYKE  188 (252)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHTTC-TTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhHHHHHHHHHHHHHhC-ccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHc
Confidence            66677777777777777766541 2334 35556666667777777777777777776655  66666677777777777


Q ss_pred             CCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          383 GKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       383 g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      |++++|...++++++..|.+...+..++..+...|++++|.+.++++.+
T Consensus       189 g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~  237 (252)
T 2ho1_A          189 REYVPARQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKR  237 (252)
T ss_dssp             TCHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            7777777777777777777777777777777777777777777777765

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.75  E-value=2.2e-16  Score=133.62  Aligned_cols=213  Identities=15%  Similarity=0.114  Sum_probs=120.3

Q ss_pred             hhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHH
Q 048090          188 FTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTS  267 (447)
Q Consensus       188 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  267 (447)
                      ..+..+...+...|++++|...++++.+.   .+.+...+..+...+...|++++|...|+++...    .+.+...+..
T Consensus        24 ~~~~~~a~~~~~~~~~~~A~~~~~~~l~~---~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~----~~~~~~~~~~   96 (243)
T 2q7f_A           24 MTGGQQMGRGSEFGDYEKAAEAFTKAIEE---NKEDAIPYINFANLLSSVNELERALAFYDKALEL----DSSAATAYYG   96 (243)
T ss_dssp             ------------------CCTTHHHHHTT---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----CTTCHHHHHH
T ss_pred             HHHHHHHHHHHHhhCHHHHHHHHHHHHHh---CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc----CCcchHHHHH
Confidence            34445555555666666666666666554   2234555666666666666666666666655443    3334555666


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcC
Q 048090          268 MLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAG  347 (447)
Q Consensus       268 l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  347 (447)
                      +...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.+.  .+.+...+..+...+.+.|
T Consensus        97 la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~  173 (243)
T 2q7f_A           97 AGNVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVEL--NENDTEARFQFGMCLANEG  173 (243)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHcC
Confidence            6666666666666666666666543 224555666666666666666666666666543  1234556666666666777


Q ss_pred             CHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHH
Q 048090          348 ELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNL  412 (447)
Q Consensus       348 ~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  412 (447)
                      ++++|...++++....  |.+..++..++.++...|++++|...++++++..|.+..++..+...
T Consensus       174 ~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l  236 (243)
T 2q7f_A          174 MLDEALSQFAAVTEQD--PGHADAFYNAGVTYAYKENREKALEMLDKAIDIQPDHMLALHAKKLL  236 (243)
T ss_dssp             CCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCTTCHHHHHHHTC-
T ss_pred             CHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHccCHHHHHHHHHHHHccCcchHHHHHHHHHH
Confidence            7777777777666654  55666666677777777777777777777777776666666555443

>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=99.75  E-value=3.3e-16  Score=140.54  Aligned_cols=239  Identities=10%  Similarity=0.062  Sum_probs=155.9

Q ss_pred             hHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCC-hHHHHHHHHhhhhhcccCCCcchhhHHH
Q 048090          189 TLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGL-VTKALQVFNLAGHRLEGEINKDVVLWTS  267 (447)
Q Consensus       189 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-~~~A~~~~~~~~~~~~~~~~~~~~~~~~  267 (447)
                      .|..+...+.+.|++++|...++++++..   +.+..+|..+..++...|+ +++|+..|+++...    .+.+...|..
T Consensus        99 a~~~lg~~~~~~g~~~~Al~~~~~al~l~---P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l----~P~~~~a~~~  171 (382)
T 2h6f_A           99 VYDYFRAVLQRDERSERAFKLTRDAIELN---AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEE----QPKNYQVWHH  171 (382)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH----CTTCHHHHHH
T ss_pred             HHHHHHHHHHHCCChHHHHHHHHHHHHhC---ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHH----CCCCHHHHHH
Confidence            45555555566666666666666666652   2355666666666666665 77777666665554    4445666666


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHH-
Q 048090          268 MLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCR-  345 (447)
Q Consensus       268 l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~-  345 (447)
                      +..++...|++++|+..|+++++... -+...|..+..++...|++++|+..++++++.   .| +...|+.+..++.+ 
T Consensus       172 ~g~~~~~~g~~~eAl~~~~kal~ldP-~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l---~P~~~~a~~~lg~~l~~l  247 (382)
T 2h6f_A          172 RRVLVEWLRDPSQELEFIADILNQDA-KNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE---DVRNNSVWNQRYFVISNT  247 (382)
T ss_dssp             HHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH---CTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHhCc-cCHHHHHHHHHHHHHcCChHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHh
Confidence            77777777777777777777766432 25566666666777777777777777777654   33 46666777777766 


Q ss_pred             cCCHHHH-----HHHHHHHHhCCCCCCchHhHHHHHHHHHhcC--CccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcC-
Q 048090          346 AGELDKA-----WKLINEMLDRGHGSSSVSMWGALLSACHDCG--KFELGKLAAQKALELDPHNVGIYVMLSNLYAKFC-  417 (447)
Q Consensus       346 ~g~~~~A-----~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g--~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-  417 (447)
                      .|..++|     +..+++.+...  |++..+|..+..++...|  ++++|...++++ +.+|++..++..++.+|.+.| 
T Consensus       248 ~~~~~eA~~~~el~~~~~Al~l~--P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~p~~~~al~~La~~~~~~~~  324 (382)
T 2h6f_A          248 TGYNDRAVLEREVQYTLEMIKLV--PHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPSHSSPYLIAFLVDIYEDMLE  324 (382)
T ss_dssp             TCSCSHHHHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTTCCCHHHHHHHHHHHHHHHH
T ss_pred             cCcchHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccCCCCHHHHHHHHHHHHHHhc
Confidence            4444666     46677777665  777777777777777766  577777777776 666777777777777777763 


Q ss_pred             --------ChHHHHHHHHHH-HHcCCCCCCccccc
Q 048090          418 --------MWDEIGQLRELM-KEKGLKKDVGCSWI  443 (447)
Q Consensus       418 --------~~~~A~~~~~~m-~~~~~~p~~~~~~~  443 (447)
                              .+++|+++++++ .+  +.|+...+|.
T Consensus       325 ~~~~~~~~~~~~A~~~~~~l~~~--~DP~r~~~w~  357 (382)
T 2h6f_A          325 NQCDNKEDILNKALELCEILAKE--KDTIRKEYWR  357 (382)
T ss_dssp             TTCSSHHHHHHHHHHHHHHHHHT--TCGGGHHHHH
T ss_pred             ccccchHHHHHHHHHHHHHHHHH--hCchhHHHHH
Confidence                    246777777776 33  5565555554

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.74  E-value=9e-16  Score=132.33  Aligned_cols=239  Identities=12%  Similarity=-0.030  Sum_probs=196.9

Q ss_pred             hhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHH
Q 048090          188 FTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTS  267 (447)
Q Consensus       188 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  267 (447)
                      ..+......+...|++++|...++++.+..   +.+...+..+..+|...|++++|...++++... .........+|..
T Consensus         4 ~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~---p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~-~~~~~~~~~~~~~   79 (272)
T 3u4t_A            4 DVEFRYADFLFKNNNYAEAIEVFNKLEAKK---YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSK-VNATKAKSADFEY   79 (272)
T ss_dssp             -CHHHHHHHHHTTTCHHHHHHHHHHHHHTT---CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTT-SCTTTCCHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC---CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc-cCchhHHHHHHHH
Confidence            445667778889999999999999999873   345668889999999999999999999977652 1111222345889


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHc
Q 048090          268 MLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRA  346 (447)
Q Consensus       268 l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~  346 (447)
                      +..++...|++++|...|++..+.. +.+..++..+...+...|++++|...|++..+.   .| +...+..+...+...
T Consensus        80 lg~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~---~~~~~~~~~~l~~~~~~~  155 (272)
T 3u4t_A           80 YGKILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRP---TTTDPKVFYELGQAYYYN  155 (272)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCS---SCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhc---CCCcHHHHHHHHHHHHHH
Confidence            9999999999999999999999864 235678999999999999999999999999743   45 467777777345556


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCC---ccHHHHHHHHHhhhC---CCc-----hhHHHHHHHHHHh
Q 048090          347 GELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGK---FELGKLAAQKALELD---PHN-----VGIYVMLSNLYAK  415 (447)
Q Consensus       347 g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~---~~~-----~~~~~~l~~~~~~  415 (447)
                      +++++|...++++++..  |++...+..++.++...|+   +++|...++++++..   |+.     ..+|..++..|..
T Consensus       156 ~~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  233 (272)
T 3u4t_A          156 KEYVKADSSFVKVLELK--PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTI  233 (272)
T ss_dssp             TCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhC--ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHH
Confidence            69999999999999887  8888889999999999998   999999999999875   432     2688899999999


Q ss_pred             cCChHHHHHHHHHHHHcCCCCCC
Q 048090          416 FCMWDEIGQLRELMKEKGLKKDV  438 (447)
Q Consensus       416 ~g~~~~A~~~~~~m~~~~~~p~~  438 (447)
                      .|++++|.+.+++..+  +.|+.
T Consensus       234 ~~~~~~A~~~~~~al~--~~p~~  254 (272)
T 3u4t_A          234 NRDKVKADAAWKNILA--LDPTN  254 (272)
T ss_dssp             TTCHHHHHHHHHHHHH--HCTTC
T ss_pred             cCCHHHHHHHHHHHHh--cCccH
Confidence            9999999999999987  34554

>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=99.74  E-value=2.4e-15  Score=128.06  Aligned_cols=211  Identities=10%  Similarity=-0.012  Sum_probs=165.3

Q ss_pred             HhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHH
Q 048090          187 HFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWT  266 (447)
Q Consensus       187 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  266 (447)
                      ...+..+...+...|++++|...++++.+.   .+.+...+..+...|...|++++|.+.|+++...    .+.+...+.
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~---~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~----~~~~~~~~~  109 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEI---DPSSADAHAALAVVFQTEMEPKLADEEYRKALAS----DSRNARVLN  109 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----CTTCHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhc---CCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH----CcCcHHHHH
Confidence            345666667777778888888888887776   2335677777888888888888888888876554    344667778


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHH
Q 048090          267 SMLGVYGRNGYFKEVIKLYEAMLMNGTKP-DEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCR  345 (447)
Q Consensus       267 ~l~~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  345 (447)
                      .+...+...|++++|...++++.+.+..| +...+..+...+...|++++|...++++.+.  .+.+...+..+...+..
T Consensus       110 ~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~  187 (252)
T 2ho1_A          110 NYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRL--NRNQPSVALEMADLLYK  187 (252)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CcccHHHHHHHHHHHHH
Confidence            88888888888888888888887733344 4567777888888889999999999888765  13357788888889999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHH
Q 048090          346 AGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVM  408 (447)
Q Consensus       346 ~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  408 (447)
                      .|++++|...++++.+..  |++...+..+...+...|++++|...++++.+..|.++.....
T Consensus       188 ~g~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~  248 (252)
T 2ho1_A          188 EREYVPARQYYDLFAQGG--GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLYPGSLEYQEF  248 (252)
T ss_dssp             TTCHHHHHHHHHHHHTTS--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC--cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCCHHHHHH
Confidence            999999999999988765  7788888889999999999999999999999999888766543

>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=99.74  E-value=8.2e-16  Score=137.96  Aligned_cols=250  Identities=10%  Similarity=0.016  Sum_probs=214.1

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCc-HHHHHHHHHHHHHhhhcCCCChhHHHH
Q 048090          151 NSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSA-AEFGRQVHAYMIRKCCNLGNDVFMQSS  229 (447)
Q Consensus       151 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~~~  229 (447)
                      +...|+.+...+...|++++|++.+++..+.. +-+...|..+..++...|+ +++|...++++++..   +.+...|..
T Consensus        96 ~~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~---P~~~~a~~~  171 (382)
T 2h6f_A           96 FRDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ---PKNYQVWHH  171 (382)
T ss_dssp             HHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC---TTCHHHHHH
T ss_pred             hHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC---CCCHHHHHH
Confidence            45678888899999999999999999998874 4467788889999999996 999999999999983   347889999


Q ss_pred             HHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc
Q 048090          230 LIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSH  309 (447)
Q Consensus       230 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  309 (447)
                      +..++...|++++|+..|+++...    .+.+...|..+..++.+.|++++|+..++++++.... +...|+.+..++..
T Consensus       172 ~g~~~~~~g~~~eAl~~~~kal~l----dP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~-~~~a~~~lg~~l~~  246 (382)
T 2h6f_A          172 RRVLVEWLRDPSQELEFIADILNQ----DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISN  246 (382)
T ss_dssp             HHHHHHHHTCCTTHHHHHHHHHHH----CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHh----CccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHH
Confidence            999999999999999999988776    6778899999999999999999999999999996533 67888888888888


Q ss_pred             -cCcHHHH-----HHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcC--CHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHH
Q 048090          310 -TGQVKLG-----IEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAG--ELDKAWKLINEMLDRGHGSSSVSMWGALLSACH  380 (447)
Q Consensus       310 -~~~~~~a-----~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~  380 (447)
                       .|..++|     +..+++.+..   .| +...|..+..++...|  ++++|++.+.++ +.  .|++..++..++.+|.
T Consensus       247 l~~~~~eA~~~~el~~~~~Al~l---~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~--~p~~~~al~~La~~~~  320 (382)
T 2h6f_A          247 TTGYNDRAVLEREVQYTLEMIKL---VPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QP--SHSSPYLIAFLVDIYE  320 (382)
T ss_dssp             TTCSCSHHHHHHHHHHHHHHHHH---STTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TT--TCCCHHHHHHHHHHHH
T ss_pred             hcCcchHHHHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-cc--CCCCHHHHHHHHHHHH
Confidence             6665777     5888888865   55 4778888888888888  689999999988 44  3888889999999999


Q ss_pred             hcC---------CccHHHHHHHHH-hhhCCCchhHHHHHHHHHHh
Q 048090          381 DCG---------KFELGKLAAQKA-LELDPHNVGIYVMLSNLYAK  415 (447)
Q Consensus       381 ~~g---------~~~~a~~~~~~~-~~~~~~~~~~~~~l~~~~~~  415 (447)
                      +.|         .+++|..+++++ .+.+|.....|..++..+..
T Consensus       321 ~~~~~~~~~~~~~~~~A~~~~~~l~~~~DP~r~~~w~~~~~~l~~  365 (382)
T 2h6f_A          321 DMLENQCDNKEDILNKALELCEILAKEKDTIRKEYWRYIGRSLQS  365 (382)
T ss_dssp             HHHHTTCSSHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHH
T ss_pred             HHhcccccchHHHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHH
Confidence            874         258999999999 89999999999998887654

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.74  E-value=3.7e-16  Score=129.68  Aligned_cols=199  Identities=16%  Similarity=0.054  Sum_probs=136.1

Q ss_pred             CcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhh
Q 048090          185 YDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVL  264 (447)
Q Consensus       185 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  264 (447)
                      ++...+..+...+.+.|++++|...|++.++..   +.+...+..+..++.+.|++++|...|+++...    .|.+...
T Consensus         3 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~---p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~----~P~~~~a   75 (217)
T 2pl2_A            3 TAEQNPLRLGVQLYALGRYDAALTLFERALKEN---PQDPEALYWLARTQLKLGLVNPALENGKTLVAR----TPRYLGG   75 (217)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS---SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----CTTCHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh----CCCcHHH
Confidence            344455556666666666666666666666542   235556666666666666666666666655544    3445556


Q ss_pred             HHHHHHHHHhc-----------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCCh
Q 048090          265 WTSMLGVYGRN-----------GYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGP  333 (447)
Q Consensus       265 ~~~l~~~~~~~-----------g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  333 (447)
                      +..+..++...           |++++|+..+++..+... -+...+..+..++...|++++|+..|+++.+. .  .+.
T Consensus        76 ~~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~-~--~~~  151 (217)
T 2pl2_A           76 YMVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNP-RYAPLHLQRGLVYALLGERDKAEASLKQALAL-E--DTP  151 (217)
T ss_dssp             HHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C--CCH
T ss_pred             HHHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcCChHHHHHHHHHHHhc-c--cch
Confidence            66666666666           889999999998888532 25677888888889999999999999999876 4  678


Q ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHh
Q 048090          334 EHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKAL  396 (447)
Q Consensus       334 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  396 (447)
                      ..+..+..+|...|++++|...++++++..  |++..++..++.++...|++++|...++++.
T Consensus       152 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~--P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          152 EIRSALAELYLSMGRLDEALAQYAKALEQA--PKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            888889999999999999999999998876  8888889999999999999999998888764

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.74  E-value=2.5e-16  Score=133.35  Aligned_cols=202  Identities=10%  Similarity=0.062  Sum_probs=164.2

Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH
Q 048090          222 NDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFV  301 (447)
Q Consensus       222 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~  301 (447)
                      .....+..+...+...|++++|...|+++...    .+.+...+..+..++...|++++|...++++.+.. +.+..++.
T Consensus        21 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~----~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~   95 (243)
T 2q7f_A           21 MASMTGGQQMGRGSEFGDYEKAAEAFTKAIEE----NKEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYY   95 (243)
T ss_dssp             ---------------------CCTTHHHHHTT----CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHh----CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHH
Confidence            35567788888999999999999999977664    55678889999999999999999999999998864 33678888


Q ss_pred             HHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHh
Q 048090          302 TVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHD  381 (447)
Q Consensus       302 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~  381 (447)
                      .+...+...|++++|...++++.+.  .+.+...+..+...+...|++++|...++++.+..  |.+..++..++..+..
T Consensus        96 ~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~  171 (243)
T 2q7f_A           96 GAGNVYVVKEMYKEAKDMFEKALRA--GMENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN--ENDTEARFQFGMCLAN  171 (243)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--TCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHH
Confidence            9999999999999999999999875  24467888999999999999999999999999876  7888889999999999


Q ss_pred             cCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 048090          382 CGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       382 ~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  432 (447)
                      .|++++|...++++++..|.+..++..++.+|...|++++|.+.++++.+.
T Consensus       172 ~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          172 EGMLDEALSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            999999999999999999999999999999999999999999999999874

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.73  E-value=5.3e-15  Score=123.44  Aligned_cols=213  Identities=12%  Similarity=-0.003  Sum_probs=165.4

Q ss_pred             cHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhH
Q 048090          186 DHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLW  265 (447)
Q Consensus       186 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  265 (447)
                      +...+..+...+...|++++|.+.++.+.+.   .+.+...+..+...+...|++++|...++++...    .+.+..++
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~----~~~~~~~~   79 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKS---DPKNELAWLVRAEIYQYLKVNDKAQESFRQALSI----KPDSAEIN   79 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----CTTCHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh---CccchHHHHHHHHHHHHcCChHHHHHHHHHHHHh----CCCChHHH
Confidence            4456667777777788888888888887776   2345667777888888888888888888876554    44566778


Q ss_pred             HHHHHHHHhc-CCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 048090          266 TSMLGVYGRN-GYFKEVIKLYEAMLMNGTKPD-EVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLL  343 (447)
Q Consensus       266 ~~l~~~~~~~-g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  343 (447)
                      ..+...+... |++++|...++++.+.+..|+ ...+..+..++...|++++|...++++.+.  .+.+...+..+..++
T Consensus        80 ~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~  157 (225)
T 2vq2_A           80 NNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAA--QPQFPPAFKELARTK  157 (225)
T ss_dssp             HHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCchHHHHHHHHH
Confidence            8888888888 888888888888887322333 567777888888889999999998888765  133477788888889


Q ss_pred             HHcCCHHHHHHHHHHHHhCCCCC-CchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHH
Q 048090          344 CRAGELDKAWKLINEMLDRGHGS-SSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVML  409 (447)
Q Consensus       344 ~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l  409 (447)
                      ...|++++|...++++.+..  | .+...+..+...+...|+.+.+..+++.+.+..|.++.....+
T Consensus       158 ~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  222 (225)
T 2vq2_A          158 MLAGQLGDADYYFKKYQSRV--EVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANFPYSEELQTVL  222 (225)
T ss_dssp             HHHTCHHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhC--CCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHh
Confidence            99999999999999988765  6 6777788888888889999999999998888888887765544

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.71  E-value=1.5e-17  Score=159.41  Aligned_cols=122  Identities=11%  Similarity=0.030  Sum_probs=109.8

Q ss_pred             CcchhhHHHHHHHHHhcCCHHHHHHHHHHHHh---CCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhh
Q 048090          259 NKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLM---NGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEH  335 (447)
Q Consensus       259 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~---~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  335 (447)
                      ..-..+|+++|.+||+.|++++|.++|++|.+   .|+.||..||++||.+|++.|++++|.++|++|... |+.||..|
T Consensus       124 ~~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~-G~~PDvvT  202 (1134)
T 3spa_A          124 SGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDA-GLTPDLLS  202 (1134)
T ss_dssp             CHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHT-TCCCCHHH
T ss_pred             HhHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHc-CCCCcHHH
Confidence            34456899999999999999999999988764   589999999999999999999999999999999888 99999999


Q ss_pred             HHHHHHHHHHcCC-HHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhc
Q 048090          336 YSCLVDLLCRAGE-LDKAWKLINEMLDRGHGSSSVSMWGALLSACHDC  382 (447)
Q Consensus       336 ~~~l~~~~~~~g~-~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~  382 (447)
                      |+++|.++++.|+ .++|.++|++|.+.|+.| |..+|+.++.++.+.
T Consensus       203 YntLI~glcK~G~~~e~A~~Ll~EM~~kG~~P-D~vtY~~ll~~~eR~  249 (1134)
T 3spa_A          203 YAAALQCMGRQDQDAGTIERCLEQMSQEGLKL-QALFTAVLLSEEDRA  249 (1134)
T ss_dssp             HHHHHHHHHHHTCCHHHHHHHHHHHHHHTCCS-HHHHHHSCCCHHHHH
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHHcCCCC-ChhhcccccChhhHH
Confidence            9999999999998 478999999999999988 555699888665553

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.70  E-value=2e-15  Score=139.74  Aligned_cols=376  Identities=12%  Similarity=-0.052  Sum_probs=251.2

Q ss_pred             hhhhhhcccccCCcchHHHhhccCC-CCCCccHHHHHHHHHhCCCh---hhHHHHHHHHHhcCCCCchhhHHHHHHHhcc
Q 048090           23 LMLPYTTCRHKKNLGTLTNCLKFLN-PRNPLPFNVVISDFCRNGSP---LYALKTFSFMHVHGIFLDTYALCSSLTASTS   98 (447)
Q Consensus        23 l~~~~~~~~~~~~~~~A~~~~~~~~-~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~   98 (447)
                      +...+.+.|   ++++|...|.+.. ..++.++..|...|...|++   ++|.+.|++..+.    ++..+..+...+..
T Consensus         9 la~~~~~~g---~~~~A~~~~~~aa~~g~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~~   81 (452)
T 3e4b_A            9 LANEALKRG---DTVTAQQNYQQLAELGYSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLAA   81 (452)
T ss_dssp             HHHHHHHHH---HHHHHHHHHHHHHHHTCCTGGGTCC--------------------------------CHHHHHHHHHT
T ss_pred             HHHHHHhCC---CHHHHHHHHHHHHHCCCHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHHh
Confidence            444555555   6999999998764 35677788888888888888   8999999988764    45555566654444


Q ss_pred             CC-----chhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhh---HHHHhccCC-CCchhhHHHHHHHHHhcCCHH
Q 048090           99 VK-----DARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHD---AELMFDEIP-VKNSVCANALLSGYCEAKLWA  169 (447)
Q Consensus        99 ~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~---a~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  169 (447)
                      .+     +.++|...|++..+.|.   ...+..|...|...+..++   +.+.+.... ..++..+..+...|...+.++
T Consensus        82 ~~~~~~~~~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~Lg~~y~~~~~~~  158 (452)
T 3e4b_A           82 KPGATEAEHHEAESLLKKAFANGE---GNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGYPEAGLAQVLLYRTQGTYD  158 (452)
T ss_dssp             C--CCHHHHHHHHHHHHHHHHTTC---SSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTCTTHHHHHHHHHHHHTCGG
T ss_pred             CCCCCCcCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcc
Confidence            43     78899999999999763   3366777777777665444   344444333 235677888888888888555


Q ss_pred             HHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCC---cHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhc----CChHH
Q 048090          170 GGLELVRLMPALGLDYDHFTLSALLRACAGLS---AAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKC----GLVTK  242 (447)
Q Consensus       170 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----g~~~~  242 (447)
                      ++......+.+.-...++..+..+...+...|   +.++|.+.|+...+.  + +++...+..+...|...    +++++
T Consensus       159 ~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~--g-~~~a~~~~~Lg~~y~~g~~~~~d~~~  235 (452)
T 3e4b_A          159 QHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSR--G-TVTAQRVDSVARVLGDATLGTPDEKT  235 (452)
T ss_dssp             GGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHT--T-CSCHHHHHHHHHHHTCGGGSSCCHHH
T ss_pred             cCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHC--C-CHHHHHHHHHHHHHhCCCCCCCCHHH
Confidence            54444333322222233447788888888899   999999999999887  3 45666667788888766    79999


Q ss_pred             HHHHHHhhhhhcccCCCcchhhHHHHHHH-H--HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC-----cHH
Q 048090          243 ALQVFNLAGHRLEGEINKDVVLWTSMLGV-Y--GRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTG-----QVK  314 (447)
Q Consensus       243 A~~~~~~~~~~~~~~~~~~~~~~~~l~~~-~--~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~-----~~~  314 (447)
                      |...|++..       +.+...+..+... +  ...+++++|...|++..+.|   +...+..+...|. .|     +++
T Consensus       236 A~~~~~~aa-------~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~  304 (452)
T 3e4b_A          236 AQALLEKIA-------PGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAK  304 (452)
T ss_dssp             HHHHHHHHG-------GGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHH
T ss_pred             HHHHHHHHc-------CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHH
Confidence            999999653       3456667777776 4  56899999999999999876   5666777777776 55     999


Q ss_pred             HHHHHHHHHHHhcCCCCChhhHHHHHHHHHH----cCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHh----cCCcc
Q 048090          315 LGIEYFEWMVHDYKLEPGPEHYSCLVDLLCR----AGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHD----CGKFE  386 (447)
Q Consensus       315 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~  386 (447)
                      +|..+|++..     .-+...+..|...|..    ..++++|..+|++..+.|    +..+...|...|..    ..+.+
T Consensus       305 ~A~~~~~~Aa-----~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g----~~~A~~~Lg~~y~~G~g~~~d~~  375 (452)
T 3e4b_A          305 AAEAHFEKAV-----GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNG----QNSADFAIAQLFSQGKGTKPDPL  375 (452)
T ss_dssp             HHHHHHHTTT-----TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTT----CTTHHHHHHHHHHSCTTBCCCHH
T ss_pred             HHHHHHHHHh-----CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhC----hHHHHHHHHHHHHhCCCCCCCHH
Confidence            9999999875     3356777778877776    349999999999999877    34457788888764    45899


Q ss_pred             HHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          387 LGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       387 ~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      +|..+++++.+.+++........+......++.++|..+.++-++
T Consensus       376 ~A~~~~~~A~~~g~~~a~~~l~~l~~~~~~~~~~~a~~~~~~~~~  420 (452)
T 3e4b_A          376 NAYVFSQLAKAQDTPEANDLATQLEAPLTPAQRAEGQRLVQQELA  420 (452)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHH
Confidence            999999999998876554444444333445567778887776655

>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=99.70  E-value=4.7e-14  Score=121.64  Aligned_cols=228  Identities=11%  Similarity=-0.036  Sum_probs=147.7

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhc----CCcHHHHHHHHHHHHHhhhcCCCChhH
Q 048090          151 NSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAG----LSAAEFGRQVHAYMIRKCCNLGNDVFM  226 (447)
Q Consensus       151 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  226 (447)
                      +..++..+...+...|++++|++.|++..+.   .+...+..+...+..    .+++++|...|++..+.  +   +...
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~--~---~~~a   76 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDL--N---YSNG   76 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT--T---CHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHC--C---CHHH
Confidence            4556666677777777777777777777662   244556666666666    77777777777777665  2   5566


Q ss_pred             HHHHHHHHHh----cCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHH
Q 048090          227 QSSLIEMYGK----CGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGR----NGYFKEVIKLYEAMLMNGTKPDEV  298 (447)
Q Consensus       227 ~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~  298 (447)
                      +..+...|..    .+++++|...|++....      .+..++..+...|..    .+++++|...|++..+.+   +..
T Consensus        77 ~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~------~~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~  147 (273)
T 1ouv_A           77 CHLLGNLYYSGQGVSQNTNKALQYYSKACDL------KYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGD  147 (273)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT------TCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHH
T ss_pred             HHHHHHHHhCCCCcccCHHHHHHHHHHHHHc------CCccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHH
Confidence            6667777777    77777777777755432      255566666666666    677777777777776654   344


Q ss_pred             HHHHHHHHHhc----cCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHH----cCCHHHHHHHHHHHHhCCCCCCchH
Q 048090          299 AFVTVISACSH----TGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCR----AGELDKAWKLINEMLDRGHGSSSVS  370 (447)
Q Consensus       299 ~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~p~~~~  370 (447)
                      .+..+...+..    .+++++|...|++..+.    .+...+..+...|..    .+++++|...+++..+.+  |  ..
T Consensus       148 a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~----~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~--~--~~  219 (273)
T 1ouv_A          148 GCTILGSLYDAGRGTPKDLKKALASYDKACDL----KDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE--N--GG  219 (273)
T ss_dssp             HHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT--C--HH
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC--C--HH
Confidence            55555556655    66777777777766543    234556666666666    677777777777766654  2  44


Q ss_pred             hHHHHHHHHHh----cCCccHHHHHHHHHhhhCCCch
Q 048090          371 MWGALLSACHD----CGKFELGKLAAQKALELDPHNV  403 (447)
Q Consensus       371 ~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~  403 (447)
                      ++..+...|..    .+++++|...++++.+.+|++.
T Consensus       220 a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a  256 (273)
T 1ouv_A          220 GCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAKGA  256 (273)
T ss_dssp             HHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCHHH
T ss_pred             HHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcCCHHH
Confidence            46666666666    6677777777777776666543

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.70  E-value=3.1e-15  Score=136.85  Aligned_cols=278  Identities=15%  Similarity=0.065  Sum_probs=159.8

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCc----HhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCC---CChh
Q 048090          153 VCANALLSGYCEAKLWAGGLELVRLMPALGLDYD----HFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLG---NDVF  225 (447)
Q Consensus       153 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~  225 (447)
                      ..+......+...|++++|...|++..+.+ +.+    ...+..+...+...|++++|...+++.........   ....
T Consensus        10 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~   88 (406)
T 3sf4_A           10 LELALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAK   88 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHH
Confidence            334455556666666666666666666542 112    23455566666666777777766666554321111   1134


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCC--cchhhHHHHHHHHHhcCC--------------------HHHHHH
Q 048090          226 MQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEIN--KDVVLWTSMLGVYGRNGY--------------------FKEVIK  283 (447)
Q Consensus       226 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~--------------------~~~a~~  283 (447)
                      ++..+...|...|++++|...++++.........  ....++..+...|...|+                    +++|..
T Consensus        89 ~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~  168 (406)
T 3sf4_A           89 ASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVD  168 (406)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHH
Confidence            5566666667777777777766655443211111  113356666666667777                    677776


Q ss_pred             HHHHHHhC----CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC----hhhHHHHHHHHHHcCCHHHHHH
Q 048090          284 LYEAMLMN----GTKP-DEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG----PEHYSCLVDLLCRAGELDKAWK  354 (447)
Q Consensus       284 ~~~~m~~~----~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~  354 (447)
                      .+++..+.    +..| ...++..+...+...|++++|...+++..+...-.++    ..++..+...|...|++++|..
T Consensus       169 ~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  248 (406)
T 3sf4_A          169 FYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASE  248 (406)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHH
Confidence            66665432    1111 1235566666677777777777777766543111111    2356666667777777777777


Q ss_pred             HHHHHHhCC----CCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCC------chhHHHHHHHHHHhcCChHHHHH
Q 048090          355 LINEMLDRG----HGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPH------NVGIYVMLSNLYAKFCMWDEIGQ  424 (447)
Q Consensus       355 ~~~~~~~~~----~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~------~~~~~~~l~~~~~~~g~~~~A~~  424 (447)
                      .+++.....    ..+....++..++..+...|++++|...++++++..+.      ...++..++.+|...|++++|.+
T Consensus       249 ~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  328 (406)
T 3sf4_A          249 YYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMH  328 (406)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            777665432    10111345666777777777777777777777665322      24566677777777777777777


Q ss_pred             HHHHHHH
Q 048090          425 LRELMKE  431 (447)
Q Consensus       425 ~~~~m~~  431 (447)
                      .+++..+
T Consensus       329 ~~~~al~  335 (406)
T 3sf4_A          329 FAEKHLE  335 (406)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7766554

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.70  E-value=3.5e-15  Score=138.09  Aligned_cols=344  Identities=13%  Similarity=0.021  Sum_probs=132.5

Q ss_pred             HHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCch---hHHHHHHHHHHHcCCCCchhhHHHHHHHHHcc
Q 048090           58 ISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDA---RFGKQVQAHVTKSGWLSSVFVGSALIDLYAKL  134 (447)
Q Consensus        58 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  134 (447)
                      ...+.+.|++++|.++|++..+.|   +...+..+...+...|+.   ++|...|++..+.    ++..+..+...+...
T Consensus        10 a~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~~~   82 (452)
T 3e4b_A           10 ANEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLAAK   82 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC--------------------------------CHHHHHHHHHTC
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHHhC
Confidence            344444555555555555554443   122222223333333444   5555555555432    233333333323333


Q ss_pred             C-----ChhhHHHHhccCCCC-chhhHHHHHHHHHhcCCHHH---HHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHH
Q 048090          135 L-----LIHDAELMFDEIPVK-NSVCANALLSGYCEAKLWAG---GLELVRLMPALGLDYDHFTLSALLRACAGLSAAEF  205 (447)
Q Consensus       135 g-----~~~~a~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  205 (447)
                      +     +.++|...|++...+ +...+..|...|...+..++   +.+.+.+....|   +......+...+...+.+++
T Consensus        83 ~~~~~~~~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y~~~~~~~~  159 (452)
T 3e4b_A           83 PGATEAEHHEAESLLKKAFANGEGNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG---YPEAGLAQVLLYRTQGTYDQ  159 (452)
T ss_dssp             --CCHHHHHHHHHHHHHHHHTTCSSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHHHHHTCGGG
T ss_pred             CCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCccc
Confidence            2     444555555444322 23344444444444333222   222233222222   12233333444444343333


Q ss_pred             HHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcC---ChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhc----CCH
Q 048090          206 GRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCG---LVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRN----GYF  278 (447)
Q Consensus       206 a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----g~~  278 (447)
                      +........+..  ...++..+..|...|...|   +.++|++.|++....    .+++...+..+...|...    +++
T Consensus       160 ~~~~a~~~~~~a--~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~----g~~~a~~~~~Lg~~y~~g~~~~~d~  233 (452)
T 3e4b_A          160 HLDDVERICKAA--LNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSR----GTVTAQRVDSVARVLGDATLGTPDE  233 (452)
T ss_dssp             GHHHHHHHHHHH--TTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHT----TCSCHHHHHHHHHHHTCGGGSSCCH
T ss_pred             CHHHHHHHHHHH--HcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHC----CCHHHHHHHHHHHHHhCCCCCCCCH
Confidence            333322222221  1112224445555555555   555555555544332    233333334444444332    455


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHH-H--hccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcC-----CHH
Q 048090          279 KEVIKLYEAMLMNGTKPDEVAFVTVISA-C--SHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAG-----ELD  350 (447)
Q Consensus       279 ~~a~~~~~~m~~~~~~p~~~~~~~ll~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-----~~~  350 (447)
                      ++|..+|++.. .|   +...+..+... +  ...+++++|..+|++..+. |   +...+..|...|. .|     +++
T Consensus       234 ~~A~~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~-g---~~~A~~~Lg~~y~-~G~g~~~d~~  304 (452)
T 3e4b_A          234 KTAQALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAA-D---QPRAELLLGKLYY-EGKWVPADAK  304 (452)
T ss_dssp             HHHHHHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHH-HCSSSCCCHH
T ss_pred             HHHHHHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHC-C---CHHHHHHHHHHHH-cCCCCCCCHH
Confidence            55555555544 22   22233333332 2  2345555555555555432 2   3344444444444 33     555


Q ss_pred             HHHHHHHHHHhCCCCCCchHhHHHHHHHHHh----cCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHh----cCChHHH
Q 048090          351 KAWKLINEMLDRGHGSSSVSMWGALLSACHD----CGKFELGKLAAQKALELDPHNVGIYVMLSNLYAK----FCMWDEI  422 (447)
Q Consensus       351 ~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A  422 (447)
                      +|..+|++.. .    .+..++..|...|..    ..++++|...|+++.+.+  ++.....|+.+|..    ..+.++|
T Consensus       305 ~A~~~~~~Aa-~----g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g--~~~A~~~Lg~~y~~G~g~~~d~~~A  377 (452)
T 3e4b_A          305 AAEAHFEKAV-G----REVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNG--QNSADFAIAQLFSQGKGTKPDPLNA  377 (452)
T ss_dssp             HHHHHHHTTT-T----TCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTT--CTTHHHHHHHHHHSCTTBCCCHHHH
T ss_pred             HHHHHHHHHh-C----CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhC--hHHHHHHHHHHHHhCCCCCCCHHHH
Confidence            5555555544 2    234444455544444    225555555555554432  23334444444442    2345555


Q ss_pred             HHHHHHHHHcC
Q 048090          423 GQLRELMKEKG  433 (447)
Q Consensus       423 ~~~~~~m~~~~  433 (447)
                      ...++...+.|
T Consensus       378 ~~~~~~A~~~g  388 (452)
T 3e4b_A          378 YVFSQLAKAQD  388 (452)
T ss_dssp             HHHHHHHHTTC
T ss_pred             HHHHHHHHHCC
Confidence            55555554443

>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=99.70  E-value=9.1e-14  Score=119.81  Aligned_cols=225  Identities=13%  Similarity=-0.022  Sum_probs=192.7

Q ss_pred             cHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHh----cCChHHHHHHHHhhhhhcccCCCcc
Q 048090          186 DHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGK----CGLVTKALQVFNLAGHRLEGEINKD  261 (447)
Q Consensus       186 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~  261 (447)
                      +..++..+...+...|++++|...|++..+.  +   +...+..+...|..    .+++++|...|++....      .+
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~--~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~------~~   73 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL--K---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDL------NY   73 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--T---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT------TC
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC--C---CHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHC------CC
Confidence            5567777888888999999999999998884  3   56778889999999    99999999999976553      26


Q ss_pred             hhhHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc----cCcHHHHHHHHHHHHHhcCCCCCh
Q 048090          262 VVLWTSMLGVYGR----NGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSH----TGQVKLGIEYFEWMVHDYKLEPGP  333 (447)
Q Consensus       262 ~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~  333 (447)
                      ...+..+...|..    .+++++|...|++..+.+   +...+..+...|..    .+++++|...|++..+. +   +.
T Consensus        74 ~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~-~---~~  146 (273)
T 1ouv_A           74 SNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL-N---DG  146 (273)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT-T---CH
T ss_pred             HHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhc-C---cH
Confidence            7788889999999    999999999999998865   67788888888888    99999999999999865 3   56


Q ss_pred             hhHHHHHHHHHH----cCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHh----cCCccHHHHHHHHHhhhCCCchhH
Q 048090          334 EHYSCLVDLLCR----AGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHD----CGKFELGKLAAQKALELDPHNVGI  405 (447)
Q Consensus       334 ~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~  405 (447)
                      ..+..+...|..    .+++++|...+++..+.+    +..++..+...|..    .+++++|...++++.+.+|  +..
T Consensus       147 ~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~----~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~--~~a  220 (273)
T 1ouv_A          147 DGCTILGSLYDAGRGTPKDLKKALASYDKACDLK----DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELEN--GGG  220 (273)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT----CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC--HHH
T ss_pred             HHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC----CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCC--HHH
Confidence            677888888888    899999999999998875    45668889999999    9999999999999998876  677


Q ss_pred             HHHHHHHHHh----cCChHHHHHHHHHHHHcCC
Q 048090          406 YVMLSNLYAK----FCMWDEIGQLRELMKEKGL  434 (447)
Q Consensus       406 ~~~l~~~~~~----~g~~~~A~~~~~~m~~~~~  434 (447)
                      +..++.+|.+    .+++++|.+.+++..+.|.
T Consensus       221 ~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~~  253 (273)
T 1ouv_A          221 CFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGA  253 (273)
T ss_dssp             HHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHcCCCcccCHHHHHHHHHHHHHcCC
Confidence            8889999998    9999999999999988653

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.69  E-value=4e-15  Score=120.07  Aligned_cols=166  Identities=14%  Similarity=0.124  Sum_probs=125.3

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHH
Q 048090          261 DVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLV  340 (447)
Q Consensus       261 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  340 (447)
                      +...|..+...|.+.|++++|+..|++..+... -+..++..+..++...|++++|...+......  .+.+...+..+.
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~   80 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADP-NNVETLLKLGKTYMDIGLPNDAIESLKKFVVL--DTTSAEAYYILG   80 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CchhHHHHHHHH
Confidence            455677777777777777777777777776532 25666777777777777888887777777654  133456666677


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChH
Q 048090          341 DLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWD  420 (447)
Q Consensus       341 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  420 (447)
                      ..+...++++.|...+.+.....  |.+..++..++.++...|++++|...++++++.+|.++.+|..++.+|.+.|+++
T Consensus        81 ~~~~~~~~~~~a~~~~~~a~~~~--~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~  158 (184)
T 3vtx_A           81 SANFMIDEKQAAIDALQRAIALN--TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRD  158 (184)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC--ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHH
Confidence            77778888888888888877765  7777778888888888888888888888888888888888888888888888888


Q ss_pred             HHHHHHHHHHH
Q 048090          421 EIGQLRELMKE  431 (447)
Q Consensus       421 ~A~~~~~~m~~  431 (447)
                      +|++.|++..+
T Consensus       159 ~A~~~~~~al~  169 (184)
T 3vtx_A          159 EAVKYFKKALE  169 (184)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            88888888776

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.69  E-value=1.8e-15  Score=140.83  Aligned_cols=213  Identities=10%  Similarity=-0.045  Sum_probs=179.9

Q ss_pred             HHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCCh-HHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHH
Q 048090          203 AEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLV-TKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEV  281 (447)
Q Consensus       203 ~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  281 (447)
                      ++.+...++.....   .+.+...+..+...+...|++ ++|++.|+++...    .+.+...|..+..+|.+.|++++|
T Consensus        84 ~~~al~~l~~~~~~---~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~----~p~~~~a~~~lg~~~~~~g~~~~A  156 (474)
T 4abn_A           84 MEKTLQQMEEVLGS---AQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKL----EPELVEAWNQLGEVYWKKGDVTSA  156 (474)
T ss_dssp             HHHHHHHHHHHHTT---CCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHH----CTTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHhcc---CchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhh----CCCCHHHHHHHHHHHHHcCCHHHH
Confidence            45566666655443   334677888888888889999 9999999877665    455678889999999999999999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHhcc---------CcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHc------
Q 048090          282 IKLYEAMLMNGTKPDEVAFVTVISACSHT---------GQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRA------  346 (447)
Q Consensus       282 ~~~~~~m~~~~~~p~~~~~~~ll~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~------  346 (447)
                      ...|++..+.  .|+...+..+..++...         |++++|...|+++.+.  .+.+...|..+..+|...      
T Consensus       157 ~~~~~~al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~~  232 (474)
T 4abn_A          157 HTCFSGALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQM--DVLDGRSWYILGNAYLSLYFNTGQ  232 (474)
T ss_dssp             HHHHHHHHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHhhcc
Confidence            9999999885  56678888888888888         9999999999999865  133588889999999988      


Q ss_pred             --CCHHHHHHHHHHHHhCCCCC---CchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHH
Q 048090          347 --GELDKAWKLINEMLDRGHGS---SSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDE  421 (447)
Q Consensus       347 --g~~~~A~~~~~~~~~~~~~p---~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  421 (447)
                        |++++|+..|++.++..  |   .+..+|..++.+|...|++++|...++++++.+|.+..++..+..++...|++++
T Consensus       233 ~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~e  310 (474)
T 4abn_A          233 NPKISQQALSAYAQAEKVD--RKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTS  310 (474)
T ss_dssp             CHHHHHHHHHHHHHHHHHC--GGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHhC--CCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHH
Confidence              99999999999999876  7   7888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHH
Q 048090          422 IGQLREL  428 (447)
Q Consensus       422 A~~~~~~  428 (447)
                      |++.+++
T Consensus       311 Ai~~~~~  317 (474)
T 4abn_A          311 LLESKGK  317 (474)
T ss_dssp             HHHHTTT
T ss_pred             HHHHhcc
Confidence            9875543

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.69  E-value=3.3e-15  Score=132.81  Aligned_cols=278  Identities=15%  Similarity=0.054  Sum_probs=206.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCc----HhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcC---CCChhH
Q 048090          154 CANALLSGYCEAKLWAGGLELVRLMPALGLDYD----HFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNL---GNDVFM  226 (447)
Q Consensus       154 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~  226 (447)
                      .+......+...|++++|...|++..+.. +.+    ...+..+...+...|++++|...+++........   +....+
T Consensus         7 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~   85 (338)
T 3ro2_A            7 ELALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKA   85 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHH
Confidence            34455667788899999999998888763 222    3567777888888999999999988876642111   112456


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCc--chhhHHHHHHHHHhcCC--------------------HHHHHHH
Q 048090          227 QSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINK--DVVLWTSMLGVYGRNGY--------------------FKEVIKL  284 (447)
Q Consensus       227 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~--------------------~~~a~~~  284 (447)
                      +..+...+...|++++|...+++..........+  ...++..+...+...|+                    +++|...
T Consensus        86 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~  165 (338)
T 3ro2_A           86 SGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDL  165 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHH
Confidence            7888888999999999999998765543221111  13467788888888999                    8999988


Q ss_pred             HHHHHhC----CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC----hhhHHHHHHHHHHcCCHHHHHHH
Q 048090          285 YEAMLMN----GTKP-DEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG----PEHYSCLVDLLCRAGELDKAWKL  355 (447)
Q Consensus       285 ~~~m~~~----~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~  355 (447)
                      +++....    +..| ...++..+...+...|++++|...+++..+...-.++    ..++..+...+...|++++|...
T Consensus       166 ~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  245 (338)
T 3ro2_A          166 YEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEY  245 (338)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            8876542    1111 2346778888899999999999999988653111111    33778888999999999999999


Q ss_pred             HHHHHhCC----CCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCC------chhHHHHHHHHHHhcCChHHHHHH
Q 048090          356 INEMLDRG----HGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPH------NVGIYVMLSNLYAKFCMWDEIGQL  425 (447)
Q Consensus       356 ~~~~~~~~----~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~------~~~~~~~l~~~~~~~g~~~~A~~~  425 (447)
                      +++.....    ..+....++..++..+...|++++|...++++++..+.      ...++..++.+|.+.|++++|...
T Consensus       246 ~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  325 (338)
T 3ro2_A          246 YKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHF  325 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHH
Confidence            99886542    11112556888999999999999999999999886532      255788999999999999999999


Q ss_pred             HHHHHHc
Q 048090          426 RELMKEK  432 (447)
Q Consensus       426 ~~~m~~~  432 (447)
                      +++..+.
T Consensus       326 ~~~a~~~  332 (338)
T 3ro2_A          326 AEKHLEI  332 (338)
T ss_dssp             HHHHHHC
T ss_pred             HHHHHHH
Confidence            9998863

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.68  E-value=2.3e-15  Score=138.13  Aligned_cols=277  Identities=13%  Similarity=-0.001  Sum_probs=189.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcH----hhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcC---CCChhHH
Q 048090          155 ANALLSGYCEAKLWAGGLELVRLMPALGLDYDH----FTLSALLRACAGLSAAEFGRQVHAYMIRKCCNL---GNDVFMQ  227 (447)
Q Consensus       155 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~  227 (447)
                      +..+...+...|++++|+..|++..+.+ +.+.    ..+..+...+...|++++|...+++..+.....   +....++
T Consensus        51 l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  129 (411)
T 4a1s_A           51 LALEGERLCNAGDCRAGVAFFQAAIQAG-TEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSS  129 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHhCcHHHHHHHHHHHHHhc-ccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHH
Confidence            4455566777777777777777777653 1222    356666677777778888887777776542111   1234566


Q ss_pred             HHHHHHHHhcCChHHHHHHHHhhhhhcccC--CCcchhhHHHHHHHHHhcCC-----------------HHHHHHHHHHH
Q 048090          228 SSLIEMYGKCGLVTKALQVFNLAGHRLEGE--INKDVVLWTSMLGVYGRNGY-----------------FKEVIKLYEAM  288 (447)
Q Consensus       228 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~-----------------~~~a~~~~~~m  288 (447)
                      ..+...|...|++++|...++++.......  .+....++..+...|...|+                 +++|...+++.
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            777777888888888888887654432111  12234467777778888888                 88888877776


Q ss_pred             HhC----CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC----hhhHHHHHHHHHHcCCHHHHHHHHHHH
Q 048090          289 LMN----GTKP-DEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG----PEHYSCLVDLLCRAGELDKAWKLINEM  359 (447)
Q Consensus       289 ~~~----~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~  359 (447)
                      .+.    +..+ ...++..+...+...|++++|...+++..+...-.++    ...+..+...|...|++++|...+++.
T Consensus       210 l~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  289 (411)
T 4a1s_A          210 LKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRT  289 (411)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            542    1111 2346777778888888999888888887653111111    236777888888999999999998887


Q ss_pred             HhCCC----CCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCC------chhHHHHHHHHHHhcCChHHHHHHHHHH
Q 048090          360 LDRGH----GSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPH------NVGIYVMLSNLYAKFCMWDEIGQLRELM  429 (447)
Q Consensus       360 ~~~~~----~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~------~~~~~~~l~~~~~~~g~~~~A~~~~~~m  429 (447)
                      .....    .+....++..++.++...|++++|...++++++..+.      ...++..++.+|...|++++|.+.+++.
T Consensus       290 l~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  369 (411)
T 4a1s_A          290 LALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQH  369 (411)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence            65431    0112456788888999999999999999988876432      3457888899999999999999988887


Q ss_pred             HHc
Q 048090          430 KEK  432 (447)
Q Consensus       430 ~~~  432 (447)
                      .+.
T Consensus       370 l~~  372 (411)
T 4a1s_A          370 LQL  372 (411)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            653

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.67  E-value=9.3e-15  Score=126.09  Aligned_cols=224  Identities=12%  Similarity=0.019  Sum_probs=186.2

Q ss_pred             hcCCcHHHHHHHHHHHHHhhhcC-CCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcC
Q 048090          198 AGLSAAEFGRQVHAYMIRKCCNL-GNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNG  276 (447)
Q Consensus       198 ~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  276 (447)
                      ...+++++|...++++.+..+.. +.+..++..+...+...|++++|...|+++...    .+.+..+|..+..++...|
T Consensus        16 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~----~~~~~~~~~~la~~~~~~~   91 (275)
T 1xnf_A           16 QPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAI----RPDMPEVFNYLGIYLTQAG   91 (275)
T ss_dssp             CCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----CCCCHHHHHHHHHHHHHTT
T ss_pred             CccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHc----CCCcHHHHHHHHHHHHHcc
Confidence            45689999999999998862111 124678899999999999999999999987775    5567889999999999999


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHH
Q 048090          277 YFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLI  356 (447)
Q Consensus       277 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  356 (447)
                      ++++|...|+++.+.. +.+..++..+..++...|++++|...|+++.+.   .|+..........+...|++++|...+
T Consensus        92 ~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~---~~~~~~~~~~~~~~~~~~~~~~A~~~~  167 (275)
T 1xnf_A           92 NFDAAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD---DPNDPFRSLWLYLAEQKLDEKQAKEVL  167 (275)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHhcCHHHHHHHH
Confidence            9999999999999864 235778899999999999999999999999865   565444455555667789999999999


Q ss_pred             HHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCC----chhHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 048090          357 NEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPH----NVGIYVMLSNLYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       357 ~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  432 (447)
                      ++.....  |++...+ .++..+...++.++|...++++++..|.    +..++..++.+|.+.|++++|...+++..+.
T Consensus       168 ~~~~~~~--~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  244 (275)
T 1xnf_A          168 KQHFEKS--DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN  244 (275)
T ss_dssp             HHHHHHS--CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHhcC--CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Confidence            9888775  5565544 4777888888889999999999887653    3788999999999999999999999999874

>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=99.67  E-value=9.2e-13  Score=126.06  Aligned_cols=405  Identities=10%  Similarity=-0.024  Sum_probs=249.6

Q ss_pred             hHHHhhhhhhhhhcccccCCcchHHHhhccCC---CCCCccHHHHHHHHHhCCC---hhhHHHHHHHHHhcC-CCCchhh
Q 048090           16 LIIFQSRLMLPYTTCRHKKNLGTLTNCLKFLN---PRNPLPFNVVISDFCRNGS---PLYALKTFSFMHVHG-IFLDTYA   88 (447)
Q Consensus        16 ~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~m~~~~-~~p~~~~   88 (447)
                      |..+|..++....+.+   +++.|..+|+++.   |.....|..-+..-.+.++   ++.+..+|++.+... ..|+...
T Consensus        65 d~~~W~~yi~~~~~~~---~~~~aR~vyEraL~~fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~L  141 (679)
T 4e6h_A           65 DIFLYVKLLKHHVSLK---QWKQVYETFDKLHDRFPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLSL  141 (679)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHHH
T ss_pred             CHHHHHHHHHHHHhcC---cHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHHH
Confidence            4566666666665554   4666666666543   3344456666666666666   666667776666542 1256666


Q ss_pred             HHHHHHHhccCCch--------hHHHHHHHHHHH-cCC-CCc-hhhHHHHHHHHHc---------cCChhhHHHHhccCC
Q 048090           89 LCSSLTASTSVKDA--------RFGKQVQAHVTK-SGW-LSS-VFVGSALIDLYAK---------LLLIHDAELMFDEIP  148 (447)
Q Consensus        89 ~~~ll~~~~~~~~~--------~~a~~~~~~~~~-~~~-~~~-~~~~~~l~~~~~~---------~g~~~~a~~~~~~~~  148 (447)
                      |...+....+.++.        +...++|+..+. .|. .++ ...|...+.....         .++++.+..+|++..
T Consensus       142 W~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~raL  221 (679)
T 4e6h_A          142 WLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTLL  221 (679)
T ss_dssp             HHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHHH
Confidence            65555544443332        223355554443 243 333 3455555544332         234555666666554


Q ss_pred             C-C--c-hhhHHHHHHHHHhcC-------------CHHHHHHHHHhhhh--cCC----C-----------C-----c---
Q 048090          149 V-K--N-SVCANALLSGYCEAK-------------LWAGGLELVRLMPA--LGL----D-----------Y-----D---  186 (447)
Q Consensus       149 ~-~--~-~~~~~~l~~~~~~~~-------------~~~~a~~~~~~~~~--~~~----~-----------~-----~---  186 (447)
                      . |  + ..+|.....--...+             +++.|...+.++..  .++    +           |     +   
T Consensus       222 ~iP~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~~q  301 (679)
T 4e6h_A          222 CQPMDCLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQATESNLPKPNEYDVQQ  301 (679)
T ss_dssp             TSCCSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCCHHH
T ss_pred             hCccHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccccccchhccCCCCchhHHHH
Confidence            2 2  1 122222211111101             12223333333211  011    0           1     0   


Q ss_pred             HhhHHHHHHHHhcCC-------cHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHH-HHHHhhhhhcccCC
Q 048090          187 HFTLSALLRACAGLS-------AAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKAL-QVFNLAGHRLEGEI  258 (447)
Q Consensus       187 ~~~~~~l~~~~~~~~-------~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~-~~~~~~~~~~~~~~  258 (447)
                      ...|...+..--..+       ..+.+..+|++.+..   ++.....|...+..+...|+.++|. ++|++....    .
T Consensus       302 l~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~---~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~----~  374 (679)
T 4e6h_A          302 LLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH---VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC----I  374 (679)
T ss_dssp             HHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH---TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH----C
T ss_pred             HHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH---cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh----C
Confidence            012222222211111       123455678887776   4457778888888888889999996 999877654    5


Q ss_pred             CcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC---------CCC------------HHHHHHHHHHHhccCcHHHHH
Q 048090          259 NKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGT---------KPD------------EVAFVTVISACSHTGQVKLGI  317 (447)
Q Consensus       259 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~---------~p~------------~~~~~~ll~~~~~~~~~~~a~  317 (447)
                      |.+...|...+....+.|++++|..+|+++.....         .|+            ..+|...+....+.|..+.|.
T Consensus       375 P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR  454 (679)
T 4e6h_A          375 PNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASR  454 (679)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHH
Confidence            66777788888888899999999999999876410         132            235777777777889999999


Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHHHHHcC-CHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHh
Q 048090          318 EYFEWMVHDYKLEPGPEHYSCLVDLLCRAG-ELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKAL  396 (447)
Q Consensus       318 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  396 (447)
                      .+|.++.+.. ..+....|...+..-.+.+ +.+.|..+|+..++.-  |++...|...+......|+.+.|..+|++++
T Consensus       455 ~vf~~A~~~~-~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~--p~~~~~w~~y~~fe~~~~~~~~AR~lferal  531 (679)
T 4e6h_A          455 KIFGKCRRLK-KLVTPDIYLENAYIEYHISKDTKTACKVLELGLKYF--ATDGEYINKYLDFLIYVNEESQVKSLFESSI  531 (679)
T ss_dssp             HHHHHHHHTG-GGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHhc-CCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHC--CCchHHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            9999998641 1223344544443344444 5899999999998874  8788888889998889999999999999999


Q ss_pred             hhCCC---chhHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 048090          397 ELDPH---NVGIYVMLSNLYAKFCMWDEIGQLRELMKEKG  433 (447)
Q Consensus       397 ~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  433 (447)
                      ...|+   ....|..++..-.+.|+.+.+.++.+++.+.-
T Consensus       532 ~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~  571 (679)
T 4e6h_A          532 DKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKF  571 (679)
T ss_dssp             TTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHS
T ss_pred             HhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            98873   66789999998899999999999999998753

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.66  E-value=5e-15  Score=135.50  Aligned_cols=308  Identities=14%  Similarity=0.057  Sum_probs=187.7

Q ss_pred             chhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCCCCchhhHHHHHHHHHh
Q 048090           85 DTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCE  164 (447)
Q Consensus        85 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~  164 (447)
                      ....+......+...|++++|...++++++.+ +.+...                           -...+..+...+..
T Consensus         8 ~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~---------------------------~~~~~~~l~~~~~~   59 (406)
T 3sf4_A            8 SCLELALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKT---------------------------LSAIYSQLGNAYFY   59 (406)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHH---------------------------HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-cccHHH---------------------------HHHHHHHHHHHHHH
Confidence            34444555556666667777777666666653 112100                           01233444444444


Q ss_pred             cCCHHHHHHHHHhhhhc----CCCC-cHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCC---ChhHHHHHHHHHHh
Q 048090          165 AKLWAGGLELVRLMPAL----GLDY-DHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGN---DVFMQSSLIEMYGK  236 (447)
Q Consensus       165 ~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~~l~~~~~~  236 (447)
                      .|++++|...+++..+.    +-.| ...++..+...+...|++++|...+++..+..+....   ...++..+...|..
T Consensus        60 ~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~  139 (406)
T 3sf4_A           60 LHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHA  139 (406)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHH
Confidence            55555555544443221    1111 1334555555666666666666666666554222111   13356666677777


Q ss_pred             cCC--------------------hHHHHHHHHhhhhhcccC--CCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-
Q 048090          237 CGL--------------------VTKALQVFNLAGHRLEGE--INKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGT-  293 (447)
Q Consensus       237 ~g~--------------------~~~A~~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~-  293 (447)
                      .|+                    +++|...+++........  .+....++..+...+...|++++|...+++..+... 
T Consensus       140 ~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~  219 (406)
T 3sf4_A          140 KGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKE  219 (406)
T ss_dssp             HHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHH
T ss_pred             cCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHh
Confidence            777                    777777776554432211  111234577777888888888888888887765310 


Q ss_pred             CCC----HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC----hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCC--
Q 048090          294 KPD----EVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG----PEHYSCLVDLLCRAGELDKAWKLINEMLDRG--  363 (447)
Q Consensus       294 ~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--  363 (447)
                      .++    ..++..+...+...|++++|...+++......-.++    ..++..+...|...|++++|...+++.....  
T Consensus       220 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~  299 (406)
T 3sf4_A          220 FGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQE  299 (406)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             cCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHh
Confidence            111    236777788888889999998888887643111111    4567788888899999999999988876542  


Q ss_pred             --CCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhC------CCchhHHHHHHHHHHhcCChH
Q 048090          364 --HGSSSVSMWGALLSACHDCGKFELGKLAAQKALELD------PHNVGIYVMLSNLYAKFCMWD  420 (447)
Q Consensus       364 --~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~------~~~~~~~~~l~~~~~~~g~~~  420 (447)
                        ..+....++..++.++...|++++|...++++++..      +....++..++..+...|+..
T Consensus       300 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  364 (406)
T 3sf4_A          300 LNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLSY  364 (406)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTS
T ss_pred             cCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHhH
Confidence              112225568888999999999999999999888763      234667888888888887663

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.66  E-value=2.2e-14  Score=115.76  Aligned_cols=173  Identities=13%  Similarity=0.058  Sum_probs=152.4

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 048090          223 DVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVT  302 (447)
Q Consensus       223 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~  302 (447)
                      ++.+|..+...|...|++++|++.|+++.+.    .|.+..++..+..+|.+.|++++|...+....... +.+...+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~----~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~   78 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKA----DPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYI   78 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH----CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh----CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHH
Confidence            6778899999999999999999999987775    56678889999999999999999999999998864 335677777


Q ss_pred             HHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhc
Q 048090          303 VISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDC  382 (447)
Q Consensus       303 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~  382 (447)
                      +...+...++++.+...+.+....  .+.+...+..+..+|.+.|++++|++.|++.++.+  |.+..+|..++.++.+.
T Consensus        79 ~~~~~~~~~~~~~a~~~~~~a~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~lg~~~~~~  154 (184)
T 3vtx_A           79 LGSANFMIDEKQAAIDALQRAIAL--NTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK--PGFIRAYQSIGLAYEGK  154 (184)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc--chhhhHHHHHHHHHHHC
Confidence            888889999999999999999865  23457888999999999999999999999999887  99999999999999999


Q ss_pred             CCccHHHHHHHHHhhhCCCchh
Q 048090          383 GKFELGKLAAQKALELDPHNVG  404 (447)
Q Consensus       383 g~~~~a~~~~~~~~~~~~~~~~  404 (447)
                      |++++|...|+++++.+|.++.
T Consensus       155 g~~~~A~~~~~~al~~~p~~a~  176 (184)
T 3vtx_A          155 GLRDEAVKYFKKALEKEEKKAK  176 (184)
T ss_dssp             TCHHHHHHHHHHHHHTTHHHHH
T ss_pred             CCHHHHHHHHHHHHhCCccCHH
Confidence            9999999999999999987653

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.64  E-value=3.2e-13  Score=118.54  Aligned_cols=216  Identities=10%  Similarity=0.059  Sum_probs=133.3

Q ss_pred             HHHHHHHHHHHHhhhcCCCChhHHHHHHHHHH-------hcCCh-------HHHHHHHHhhhhhcccCCCcchhhHHHHH
Q 048090          204 EFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYG-------KCGLV-------TKALQVFNLAGHRLEGEINKDVVLWTSML  269 (447)
Q Consensus       204 ~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-------~~g~~-------~~A~~~~~~~~~~~~~~~~~~~~~~~~l~  269 (447)
                      +.|..+|++++...   +.++..|..++..+.       +.|++       ++|..+|++....   -.+.+...|..++
T Consensus        33 ~~a~~~~~~al~~~---p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~---~~p~~~~~~~~~~  106 (308)
T 2ond_A           33 KRVMFAYEQCLLVL---GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAIST---LLKKNMLLYFAYA  106 (308)
T ss_dssp             HHHHHHHHHHHHHH---TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTT---TTTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc---CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHH---hCcccHHHHHHHH
Confidence            45666666666652   235556666665554       24664       6777777755441   0233445677777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCC-HH-HHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHH-Hc
Q 048090          270 GVYGRNGYFKEVIKLYEAMLMNGTKPD-EV-AFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLC-RA  346 (447)
Q Consensus       270 ~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~  346 (447)
                      ..+.+.|++++|..+|+++.+.  .|+ .. .|..+...+.+.|++++|..+|++..+.  .+++...|........ ..
T Consensus       107 ~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~a~~~~~~~  182 (308)
T 2ond_A          107 DYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAALMEYYCS  182 (308)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTS--TTCCTHHHHHHHHHHHHTS
T ss_pred             HHHHhcCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHHc
Confidence            7777777777777777777663  343 22 5666666666777777777777777643  1223334433322221 25


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhh---CCC-chhHHHHHHHHHHhcCChHHH
Q 048090          347 GELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALEL---DPH-NVGIYVMLSNLYAKFCMWDEI  422 (447)
Q Consensus       347 g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~-~~~~~~~l~~~~~~~g~~~~A  422 (447)
                      |++++|..+|+++++..  |++...|..++..+.+.|++++|..+|+++++.   .|. ...+|..++..+.+.|+.++|
T Consensus       183 ~~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a  260 (308)
T 2ond_A          183 KDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASI  260 (308)
T ss_dssp             CCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHH
T ss_pred             CCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            77777777777776654  666667777777777777777777777777764   232 455677777777777777777


Q ss_pred             HHHHHHHHH
Q 048090          423 GQLRELMKE  431 (447)
Q Consensus       423 ~~~~~~m~~  431 (447)
                      ..+++++.+
T Consensus       261 ~~~~~~a~~  269 (308)
T 2ond_A          261 LKVEKRRFT  269 (308)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            777777665

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.64  E-value=1.9e-14  Score=130.67  Aligned_cols=238  Identities=9%  Similarity=-0.031  Sum_probs=163.0

Q ss_pred             HHHHHhcCCcHHHHHHHHHHHHHhhhcCCC---ChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCC---CcchhhHH
Q 048090          193 LLRACAGLSAAEFGRQVHAYMIRKCCNLGN---DVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEI---NKDVVLWT  266 (447)
Q Consensus       193 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~~~  266 (447)
                      ....+...|++++|...+++..+.....+.   ...++..+...|...|++++|...+++.........   +....+++
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  188 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHS  188 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHH
Confidence            344456677777777777777664222221   235667777777788888888877776655433221   11234677


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHh---cCCCC-ChhhHH
Q 048090          267 SMLGVYGRNGYFKEVIKLYEAMLMN----GTKP-DEVAFVTVISACSHTGQVKLGIEYFEWMVHD---YKLEP-GPEHYS  337 (447)
Q Consensus       267 ~l~~~~~~~g~~~~a~~~~~~m~~~----~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~~~-~~~~~~  337 (447)
                      .+..+|...|++++|...+++..+.    +-.+ ...++..+..+|...|++++|...+++..+.   .+..| ...++.
T Consensus       189 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  268 (383)
T 3ulq_A          189 LFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYF  268 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHH
Confidence            7788888888888888888877653    1111 1246777888888899999999888887651   11213 366788


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhCCC---CCCchHhHHHHHHHHHhcCC---ccHHHHHHHHHhhhCCCchhHHHHHHH
Q 048090          338 CLVDLLCRAGELDKAWKLINEMLDRGH---GSSSVSMWGALLSACHDCGK---FELGKLAAQKALELDPHNVGIYVMLSN  411 (447)
Q Consensus       338 ~l~~~~~~~g~~~~A~~~~~~~~~~~~---~p~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~~~~~~~~l~~  411 (447)
                      .+...|.+.|++++|...+++......   .|.....+..+...+...|+   +++|..++++. ...|....++..++.
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~la~  347 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK-MLYADLEDFAIDVAK  347 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC-cCHHHHHHHHHHHHH
Confidence            888889999999999999988765421   12233345678888888888   67777777665 222445667888999


Q ss_pred             HHHhcCChHHHHHHHHHHHH
Q 048090          412 LYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       412 ~~~~~g~~~~A~~~~~~m~~  431 (447)
                      .|...|++++|.+.+++..+
T Consensus       348 ~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          348 YYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHH
Confidence            99999999999999998876

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.62  E-value=2.9e-14  Score=130.76  Aligned_cols=247  Identities=13%  Similarity=0.005  Sum_probs=157.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhhhc----CC-CCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcC---CCChhH
Q 048090          155 ANALLSGYCEAKLWAGGLELVRLMPAL----GL-DYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNL---GNDVFM  226 (447)
Q Consensus       155 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~  226 (447)
                      +..+...|...|++++|...+++..+.    +- +.....+..+...+...|++++|...+++..+.....   +....+
T Consensus        89 ~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  168 (411)
T 4a1s_A           89 YSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRA  168 (411)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHH
Confidence            444444455555555555555444321    10 1123345555666666667776666666665542111   112345


Q ss_pred             HHHHHHHHHhcCC-----------------hHHHHHHHHhhhhhcccC--CCcchhhHHHHHHHHHhcCCHHHHHHHHHH
Q 048090          227 QSSLIEMYGKCGL-----------------VTKALQVFNLAGHRLEGE--INKDVVLWTSMLGVYGRNGYFKEVIKLYEA  287 (447)
Q Consensus       227 ~~~l~~~~~~~g~-----------------~~~A~~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  287 (447)
                      +..+...|...|+                 +++|...+++........  .+....++..+...+...|++++|...+++
T Consensus       169 ~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  248 (411)
T 4a1s_A          169 LYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQE  248 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            6667777777777                 777777776554332111  112234677788888888898888888888


Q ss_pred             HHhCCCC-CC----HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC----ChhhHHHHHHHHHHcCCHHHHHHHHHH
Q 048090          288 MLMNGTK-PD----EVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEP----GPEHYSCLVDLLCRAGELDKAWKLINE  358 (447)
Q Consensus       288 m~~~~~~-p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~  358 (447)
                      ..+.... ++    ..++..+...+...|++++|...+++......-..    ...++..+...|...|++++|...+++
T Consensus       249 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  328 (411)
T 4a1s_A          249 RLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNR  328 (411)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            7653110 11    23677888888899999999999988765311111    146677888889999999999999998


Q ss_pred             HHhCC----CCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCC
Q 048090          359 MLDRG----HGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPH  401 (447)
Q Consensus       359 ~~~~~----~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  401 (447)
                      .+...    ..+....++..++.+|...|++++|...++++++..+.
T Consensus       329 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~  375 (411)
T 4a1s_A          329 HLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQLAXX  375 (411)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCH
T ss_pred             HHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHhh
Confidence            76542    11223446888999999999999999999999887653

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.61  E-value=7.5e-15  Score=129.08  Aligned_cols=243  Identities=16%  Similarity=0.132  Sum_probs=130.5

Q ss_pred             hHHHHHHHHhcCCcHHHHHHHHHHHHHhhh-----cCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhccc----CCC
Q 048090          189 TLSALLRACAGLSAAEFGRQVHAYMIRKCC-----NLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEG----EIN  259 (447)
Q Consensus       189 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~----~~~  259 (447)
                      ++..+...+...|++++|..+++++.+...     ..+....++..+...|...|++++|...++++......    ..+
T Consensus        29 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  108 (311)
T 3nf1_A           29 TLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHP  108 (311)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCCh
Confidence            344444444444444444444444443200     01112334455555555555555555555544332111    112


Q ss_pred             cchhhHHHHHHHHHhcCCHHHHHHHHHHHHhC------CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhc-----
Q 048090          260 KDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMN------GTKP-DEVAFVTVISACSHTGQVKLGIEYFEWMVHDY-----  327 (447)
Q Consensus       260 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~------~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----  327 (447)
                      ....++..+...|...|++++|...++++.+.      +..| ....+..+...+...|++++|..+++++....     
T Consensus       109 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~  188 (311)
T 3nf1_A          109 AVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLG  188 (311)
T ss_dssp             HHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhC
Confidence            23445566666666666666666666666543      1112 23456666667777777777777777765421     


Q ss_pred             CCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCC-------CCCCchH------hHHHHHHHHHhcCCccHHHHHHH
Q 048090          328 KLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRG-------HGSSSVS------MWGALLSACHDCGKFELGKLAAQ  393 (447)
Q Consensus       328 ~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-------~~p~~~~------~~~~l~~~~~~~g~~~~a~~~~~  393 (447)
                      +..| ...++..+..+|...|++++|...++++.+..       ..+....      .+..+...+...+.+.++...++
T Consensus       189 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  268 (311)
T 3nf1_A          189 PDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYK  268 (311)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC----
T ss_pred             CCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHh
Confidence            0122 24556777777788888888888887776531       1121211      23334444555667777888888


Q ss_pred             HHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          394 KALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       394 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      ++....|....++..++.+|.+.|++++|.+.+++..+
T Consensus       269 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          269 ACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             -----CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             hcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            88888888889999999999999999999999998875

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.61  E-value=1.1e-12  Score=115.16  Aligned_cols=225  Identities=11%  Similarity=0.055  Sum_probs=166.7

Q ss_pred             HHHHHHHHhhhhcCCCCcHhhHHHHHHHHh-------cCCcH-------HHHHHHHHHHHHhhhcCCCChhHHHHHHHHH
Q 048090          169 AGGLELVRLMPALGLDYDHFTLSALLRACA-------GLSAA-------EFGRQVHAYMIRKCCNLGNDVFMQSSLIEMY  234 (447)
Q Consensus       169 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-------~~~~~-------~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~  234 (447)
                      ++|..+|++..... +.+...|..++..+.       +.|++       ++|..+|++.++.  -.+.+...|..++..+
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~--~~p~~~~~~~~~~~~~  109 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAIST--LLKKNMLLYFAYADYE  109 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTT--TTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHH--hCcccHHHHHHHHHHH
Confidence            57777777777652 345556666666554       34665       8899999888873  0123556888888889


Q ss_pred             HhcCChHHHHHHHHhhhhhcccCCCcchh-hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH-hccCc
Q 048090          235 GKCGLVTKALQVFNLAGHRLEGEINKDVV-LWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISAC-SHTGQ  312 (447)
Q Consensus       235 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~-~~~~~  312 (447)
                      .+.|++++|..+|+++...    .+.+.. .|..++..+.+.|++++|..+|++..+... ++...|....... ...|+
T Consensus       110 ~~~~~~~~A~~~~~~al~~----~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~a~~~~~~~~~  184 (308)
T 2ond_A          110 ESRMKYEKVHSIYNRLLAI----EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKD  184 (308)
T ss_dssp             HHTTCHHHHHHHHHHHHTS----SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT-CCTHHHHHHHHHHHHTSCC
T ss_pred             HhcCCHHHHHHHHHHHHhc----cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHcCC
Confidence            9999999999999877653    222343 788888888889999999999999887642 3344444333332 23689


Q ss_pred             HHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCC-chHhHHHHHHHHHhcCCccHHHH
Q 048090          313 VKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRG-HGSS-SVSMWGALLSACHDCGKFELGKL  390 (447)
Q Consensus       313 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~p~-~~~~~~~l~~~~~~~g~~~~a~~  390 (447)
                      +++|..+|++..+..  +.+...|..++..+.+.|++++|..+|++.+... ..|+ ....|..++..+...|+.+.|..
T Consensus       185 ~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~  262 (308)
T 2ond_A          185 KSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILK  262 (308)
T ss_dssp             HHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHH
T ss_pred             HHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            999999999988752  3357888888888899999999999999998863 3343 56678888888999999999999


Q ss_pred             HHHHHhhhCCCch
Q 048090          391 AAQKALELDPHNV  403 (447)
Q Consensus       391 ~~~~~~~~~~~~~  403 (447)
                      +++++.+..|++.
T Consensus       263 ~~~~a~~~~p~~~  275 (308)
T 2ond_A          263 VEKRRFTAFREEY  275 (308)
T ss_dssp             HHHHHHHHTTTTT
T ss_pred             HHHHHHHHccccc
Confidence            9999999888754

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.60  E-value=4.5e-14  Score=125.44  Aligned_cols=285  Identities=14%  Similarity=0.063  Sum_probs=172.9

Q ss_pred             hHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCCCCchhhHHHHHHHHHhcCC
Q 048090           88 ALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKL  167 (447)
Q Consensus        88 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~  167 (447)
                      .+......+...|++++|...++++++.. +.+...                           -...+..+...+...|+
T Consensus         7 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~---------------------------~~~~~~~l~~~~~~~g~   58 (338)
T 3ro2_A            7 ELALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKT---------------------------LSAIYSQLGNAYFYLHD   58 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHH---------------------------HHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhhC-cccHHH---------------------------HHHHHHHHHHHHHHcCC
Confidence            33444455666677777777777666653 112100                           01233344444444445


Q ss_pred             HHHHHHHHHhhhhc----CCCC-cHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCC---ChhHHHHHHHHHHhcCC
Q 048090          168 WAGGLELVRLMPAL----GLDY-DHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGN---DVFMQSSLIEMYGKCGL  239 (447)
Q Consensus       168 ~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~  239 (447)
                      +++|.+.+++..+.    +..| ....+..+...+...|++++|...+++..+..+....   ...++..+...+...|+
T Consensus        59 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~  138 (338)
T 3ro2_A           59 YAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGK  138 (338)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCc
Confidence            55444444443221    1111 1334555556666666666666666666554222111   12356666677777777


Q ss_pred             --------------------hHHHHHHHHhhhhhcccC--CCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC---C
Q 048090          240 --------------------VTKALQVFNLAGHRLEGE--INKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGT---K  294 (447)
Q Consensus       240 --------------------~~~A~~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~---~  294 (447)
                                          +++|...+++........  .+....++..+...+...|++++|...+++..+...   .
T Consensus       139 ~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~  218 (338)
T 3ro2_A          139 SFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGD  218 (338)
T ss_dssp             TSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             ccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCC
Confidence                                777777776543321111  111234677778888888999998888888765310   1


Q ss_pred             C--CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC----hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCC----C
Q 048090          295 P--DEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG----PEHYSCLVDLLCRAGELDKAWKLINEMLDRG----H  364 (447)
Q Consensus       295 p--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~----~  364 (447)
                      +  ...++..+...+...|++++|...+++......-.++    ..++..+...+...|++++|...++++....    .
T Consensus       219 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~  298 (338)
T 3ro2_A          219 KAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKD  298 (338)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             hHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCC
Confidence            1  1236777888888999999999999887643111111    5567788888999999999999998876542    1


Q ss_pred             CCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCC
Q 048090          365 GSSSVSMWGALLSACHDCGKFELGKLAAQKALELDP  400 (447)
Q Consensus       365 ~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  400 (447)
                      .+....++..+..++...|++++|...++++++..+
T Consensus       299 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~  334 (338)
T 3ro2_A          299 RIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISR  334 (338)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC--
T ss_pred             cHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHH
Confidence            122244688899999999999999999999988664

>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=99.60  E-value=6.7e-14  Score=135.50  Aligned_cols=168  Identities=15%  Similarity=0.217  Sum_probs=141.6

Q ss_pred             CCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC-hhhH
Q 048090          258 INKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG-PEHY  336 (447)
Q Consensus       258 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~  336 (447)
                      .|.+..+|+.+...|.+.|++++|+..|++..+... -+..++..+..++.+.|++++|+..|++..+.   .|+ ...|
T Consensus         5 ~P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P-~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l---~P~~~~a~   80 (723)
T 4gyw_A            5 CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFP-EFAAAHSNLASVLQQQGKLQEALMHYKEAIRI---SPTFADAY   80 (723)
T ss_dssp             -CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHH
Confidence            344567788888888888888888888888887532 24677888888888889999999998888864   554 7788


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhc
Q 048090          337 SCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKF  416 (447)
Q Consensus       337 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  416 (447)
                      ..+..+|.+.|++++|++.|++.++.+  |++..+|..++.++...|++++|...|+++++.+|++..++..++.+|...
T Consensus        81 ~nLg~~l~~~g~~~~A~~~~~kAl~l~--P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~  158 (723)
T 4gyw_A           81 SNMGNTLKEMQDVQGALQCYTRAIQIN--PAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIV  158 (723)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhc
Confidence            888899999999999999999988876  888888999999999999999999999999999999999999999999999


Q ss_pred             CChHHHHHHHHHHHH
Q 048090          417 CMWDEIGQLRELMKE  431 (447)
Q Consensus       417 g~~~~A~~~~~~m~~  431 (447)
                      |++++|.+.+++..+
T Consensus       159 g~~~~A~~~~~kal~  173 (723)
T 4gyw_A          159 CDWTDYDERMKKLVS  173 (723)
T ss_dssp             TCCTTHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHH
Confidence            999999888887764

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.59  E-value=2.2e-13  Score=123.66  Aligned_cols=239  Identities=7%  Similarity=-0.028  Sum_probs=176.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHhhhhc----CCCC-cHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCC----ChhHHH
Q 048090          158 LLSGYCEAKLWAGGLELVRLMPAL----GLDY-DHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGN----DVFMQS  228 (447)
Q Consensus       158 l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~  228 (447)
                      ....+...|++++|+..+++..+.    +-.+ ...++..+...+...|+++.|...+++..+..+....    ...++.
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  188 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHS  188 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHH
Confidence            556677889999999988887653    1111 2356777888888899999999999988876433221    135678


Q ss_pred             HHHHHHHhcCChHHHHHHHHhhhhhcccCC--CcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CC-CCCHHHHH
Q 048090          229 SLIEMYGKCGLVTKALQVFNLAGHRLEGEI--NKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMN----GT-KPDEVAFV  301 (447)
Q Consensus       229 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~----~~-~p~~~~~~  301 (447)
                      .+..+|...|++++|...|+++........  +....++..+..+|...|++++|...+++..+.    +. +....++.
T Consensus       189 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  268 (383)
T 3ulq_A          189 LFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYF  268 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHH
Confidence            888899999999999999987765432211  112246888899999999999999999988762    22 33466788


Q ss_pred             HHHHHHhccCcHHHHHHHHHHHHHhcCC--CC-ChhhHHHHHHHHHHcCC---HHHHHHHHHHHHhCCCCCCchHhHHHH
Q 048090          302 TVISACSHTGQVKLGIEYFEWMVHDYKL--EP-GPEHYSCLVDLLCRAGE---LDKAWKLINEMLDRGHGSSSVSMWGAL  375 (447)
Q Consensus       302 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~-~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~p~~~~~~~~l  375 (447)
                      .+...+...|++++|...+++......-  .| ....+..+...+...|+   +++|+.++++.   +..|....++..+
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~l  345 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDV  345 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHH
Confidence            8889999999999999999887653111  12 23335667778888888   77788877776   3335556678889


Q ss_pred             HHHHHhcCCccHHHHHHHHHhhhC
Q 048090          376 LSACHDCGKFELGKLAAQKALELD  399 (447)
Q Consensus       376 ~~~~~~~g~~~~a~~~~~~~~~~~  399 (447)
                      +..|...|++++|...++++++..
T Consensus       346 a~~y~~~g~~~~A~~~~~~al~~~  369 (383)
T 3ulq_A          346 AKYYHERKNFQKASAYFLKVEQVR  369 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHH
Confidence            999999999999999999988754

>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=99.58  E-value=2.2e-13  Score=109.74  Aligned_cols=166  Identities=17%  Similarity=0.114  Sum_probs=129.9

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 048090          262 VVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVD  341 (447)
Q Consensus       262 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  341 (447)
                      ...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.+.  .+.+...+..+..
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~   84 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLAD--APDNVKVATVLGL   84 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHH
Confidence            3445566667777777777777777766542 235666777777777888888888888887754  2335677777888


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHH
Q 048090          342 LLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDE  421 (447)
Q Consensus       342 ~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  421 (447)
                      .+...|++++|.+.++++....  |.+..++..++.++...|++++|...++++++..|.++.++..++.++...|++++
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~  162 (186)
T 3as5_A           85 TYVQVQKYDLAVPLLIKVAEAN--PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEE  162 (186)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHhcC--cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHH
Confidence            8888888888888888888775  77778888888888899999999999999988888888888899999999999999


Q ss_pred             HHHHHHHHHHc
Q 048090          422 IGQLRELMKEK  432 (447)
Q Consensus       422 A~~~~~~m~~~  432 (447)
                      |...+++..+.
T Consensus       163 A~~~~~~~~~~  173 (186)
T 3as5_A          163 ALPHFKKANEL  173 (186)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHc
Confidence            99988888763

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.57  E-value=5.7e-12  Score=113.84  Aligned_cols=88  Identities=13%  Similarity=0.097  Sum_probs=37.7

Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCc--hHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCC-----c-hhHHHHHHHHHH
Q 048090          343 LCRAGELDKAWKLINEMLDRGHGSSS--VSMWGALLSACHDCGKFELGKLAAQKALELDPH-----N-VGIYVMLSNLYA  414 (447)
Q Consensus       343 ~~~~g~~~~A~~~~~~~~~~~~~p~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-----~-~~~~~~l~~~~~  414 (447)
                      +...|++++|...+++.......++.  ...+..+...+...|++++|...++++....+.     . ..++..++.++.
T Consensus       225 ~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~  304 (373)
T 1hz4_A          225 WQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYW  304 (373)
T ss_dssp             HHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHH
Confidence            44455555555555554433211000  112334444555555555555555544432210     1 123444444555


Q ss_pred             hcCChHHHHHHHHHHH
Q 048090          415 KFCMWDEIGQLRELMK  430 (447)
Q Consensus       415 ~~g~~~~A~~~~~~m~  430 (447)
                      ..|++++|...+++..
T Consensus       305 ~~g~~~~A~~~l~~al  320 (373)
T 1hz4_A          305 QAGRKSDAQRVLLDAL  320 (373)
T ss_dssp             HHTCHHHHHHHHHHHH
T ss_pred             HhCCHHHHHHHHHHHH
Confidence            5555555555544443

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.57  E-value=2.4e-14  Score=125.78  Aligned_cols=249  Identities=11%  Similarity=0.024  Sum_probs=166.7

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHhhhhc-------CCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhh-----
Q 048090          151 NSVCANALLSGYCEAKLWAGGLELVRLMPAL-------GLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCC-----  218 (447)
Q Consensus       151 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----  218 (447)
                      +..++..+...+...|++++|..+++++.+.       ..+.....+..+...+...|++++|...++++.....     
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            3456777778888888888888888877652       2233445677777888888888888888888876521     


Q ss_pred             cCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhccc----CCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhC---
Q 048090          219 NLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEG----EINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMN---  291 (447)
Q Consensus       219 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~---  291 (447)
                      ..+....++..+...|...|++++|...|+++......    ..+.....+..+...+...|++++|...++++.+.   
T Consensus       106 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~  185 (311)
T 3nf1_A          106 DHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQT  185 (311)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence            12234567788888888899999999888876554211    12334556788888899999999999999888764   


Q ss_pred             ---CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhc------CCCCChh-------hHHHHHHHHHHcCCHHHHHH
Q 048090          292 ---GTKP-DEVAFVTVISACSHTGQVKLGIEYFEWMVHDY------KLEPGPE-------HYSCLVDLLCRAGELDKAWK  354 (447)
Q Consensus       292 ---~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~-------~~~~l~~~~~~~g~~~~A~~  354 (447)
                         +..| ...++..+..++...|++++|...++++.+..      ...+...       .+..+...+...+.+.++..
T Consensus       186 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  265 (311)
T 3nf1_A          186 KLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGG  265 (311)
T ss_dssp             TSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC-
T ss_pred             HhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHH
Confidence               2133 34567788888899999999999998887531      1122211       12222333445566677777


Q ss_pred             HHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCC
Q 048090          355 LINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPH  401 (447)
Q Consensus       355 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  401 (447)
                      .++......  |....++..++.+|...|++++|...++++++..|.
T Consensus       266 ~~~~~~~~~--~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~~~  310 (311)
T 3nf1_A          266 WYKACKVDS--PTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSRKQ  310 (311)
T ss_dssp             --------C--HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-
T ss_pred             HHhhcCCCC--chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhc
Confidence            777777655  777888999999999999999999999999987664

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.57  E-value=3.6e-13  Score=125.42  Aligned_cols=214  Identities=11%  Similarity=-0.065  Sum_probs=183.8

Q ss_pred             CHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcH-HHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHH
Q 048090          167 LWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAA-EFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQ  245 (447)
Q Consensus       167 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  245 (447)
                      .++++++.+++..... +.+...+..+..++...|++ ++|.+.|++.++..   +.+...+..+..+|...|++++|..
T Consensus        83 ~~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~---p~~~~a~~~lg~~~~~~g~~~~A~~  158 (474)
T 4abn_A           83 EMEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE---PELVEAWNQLGEVYWKKGDVTSAHT  158 (474)
T ss_dssp             HHHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC---CCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            4667777777766542 34677888889999999999 99999999999973   3468899999999999999999999


Q ss_pred             HHHhhhhhcccCCCcchhhHHHHHHHHHhc---------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcc------
Q 048090          246 VFNLAGHRLEGEINKDVVLWTSMLGVYGRN---------GYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHT------  310 (447)
Q Consensus       246 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---------g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~------  310 (447)
                      .|+++...     .|+...+..+..++...         |++++|...+++..+.. +-+...+..+..++...      
T Consensus       159 ~~~~al~~-----~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~  232 (474)
T 4abn_A          159 CFSGALTH-----CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQ  232 (474)
T ss_dssp             HHHHHHTT-----CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhh-----CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhcc
Confidence            99987663     56678899999999999         99999999999999864 33678888999999888      


Q ss_pred             --CcHHHHHHHHHHHHHhcCCCC----ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCC
Q 048090          311 --GQVKLGIEYFEWMVHDYKLEP----GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGK  384 (447)
Q Consensus       311 --~~~~~a~~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  384 (447)
                        |++++|...|++..+.   .|    +...|..+..+|...|++++|.+.|++..+..  |++..++..+..++...|+
T Consensus       233 ~~g~~~~A~~~~~~al~~---~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~--p~~~~a~~~l~~~~~~lg~  307 (474)
T 4abn_A          233 NPKISQQALSAYAQAEKV---DRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD--PAWPEPQQREQQLLEFLSR  307 (474)
T ss_dssp             CHHHHHHHHHHHHHHHHH---CGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHh---CCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHH
Confidence              9999999999999875   45    68889999999999999999999999999887  8899899999999999999


Q ss_pred             ccHHHHHHHHH
Q 048090          385 FELGKLAAQKA  395 (447)
Q Consensus       385 ~~~a~~~~~~~  395 (447)
                      +++|...+.++
T Consensus       308 ~~eAi~~~~~~  318 (474)
T 4abn_A          308 LTSLLESKGKT  318 (474)
T ss_dssp             HHHHHHHTTTC
T ss_pred             HHHHHHHhccc
Confidence            99888766543

>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=99.56  E-value=7.4e-13  Score=110.75  Aligned_cols=206  Identities=10%  Similarity=0.043  Sum_probs=91.9

Q ss_pred             HhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHH
Q 048090          187 HFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWT  266 (447)
Q Consensus       187 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  266 (447)
                      +..+......+...|++++|...|+..++.  ..+++...+..+..++...|++++|+..|++....    .+.+...|.
T Consensus         7 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~----~p~~~~~~~   80 (228)
T 4i17_A            7 PNQLKNEGNDALNAKNYAVAFEKYSEYLKL--TNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKK----NYNLANAYI   80 (228)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT----TCSHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhc--cCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHh----CcchHHHHH
Confidence            344444445555555555555555555554  21144444444555555555555555555544332    222344445


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-------HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC---hhhH
Q 048090          267 SMLGVYGRNGYFKEVIKLYEAMLMNGTKPDE-------VAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG---PEHY  336 (447)
Q Consensus       267 ~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~-------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~  336 (447)
                      .+..+|...|++++|...+++..+.... +.       ..|..+...+...|++++|...|+++.+   ..|+   ...|
T Consensus        81 ~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~  156 (228)
T 4i17_A           81 GKSAAYRDMKNNQEYIATLTEGIKAVPG-NATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATD---VTSKKWKTDAL  156 (228)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTT---SSCHHHHHHHH
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHh---cCCCcccHHHH
Confidence            5555555555555555555555443211 12       2233444444444455555555544442   2332   2333


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHH
Q 048090          337 SCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSN  411 (447)
Q Consensus       337 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  411 (447)
                      ..+..+|...|     ...++++...+  +.+...+...  .....+.+++|...++++++..|.+..+...+..
T Consensus       157 ~~l~~~~~~~~-----~~~~~~a~~~~--~~~~~~~~~~--~~~~~~~~~~A~~~~~~a~~l~p~~~~~~~~l~~  222 (228)
T 4i17_A          157 YSLGVLFYNNG-----ADVLRKATPLA--SSNKEKYASE--KAKADAAFKKAVDYLGEAVTLSPNRTEIKQMQDQ  222 (228)
T ss_dssp             HHHHHHHHHHH-----HHHHHHHGGGT--TTCHHHHHHH--HHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHH-----HHHHHHHHhcc--cCCHHHHHHH--HHHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHH
Confidence            33443333222     22233333322  2222212211  1222334466667777777766666665555543

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.56  E-value=5.7e-13  Score=120.62  Aligned_cols=236  Identities=11%  Similarity=0.058  Sum_probs=155.2

Q ss_pred             HHHhcCCcHHHHHHHHHHHHHhhhcCCC---ChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCC---cchhhHHHH
Q 048090          195 RACAGLSAAEFGRQVHAYMIRKCCNLGN---DVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEIN---KDVVLWTSM  268 (447)
Q Consensus       195 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~---~~~~~~~~l  268 (447)
                      ..+...|++++|...+++..+.......   ...++..+..+|...|+++.|...+++..........   ....+++.+
T Consensus       109 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~l  188 (378)
T 3q15_A          109 MYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVI  188 (378)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHH
T ss_pred             HHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHH
Confidence            3455677777777777777654222111   2345667777777888888887777766554332211   124466777


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhc---CCCCChhhHHHHH
Q 048090          269 LGVYGRNGYFKEVIKLYEAMLMN----GTKP-DEVAFVTVISACSHTGQVKLGIEYFEWMVHDY---KLEPGPEHYSCLV  340 (447)
Q Consensus       269 ~~~~~~~g~~~~a~~~~~~m~~~----~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~~l~  340 (447)
                      ..+|...|++++|...+++..+.    +..+ ...++..+..++...|++++|...+++.....   +.+....++..+.
T Consensus       189 g~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la  268 (378)
T 3q15_A          189 AGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLS  268 (378)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHH
Confidence            77888888888888888776552    1111 23466777778888888888888888876510   1122256677788


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCC---CCchHhHHHHHHHHHhcCC---ccHHHHHHHHHhhhCCCchhHHHHHHHHHH
Q 048090          341 DLLCRAGELDKAWKLINEMLDRGHG---SSSVSMWGALLSACHDCGK---FELGKLAAQKALELDPHNVGIYVMLSNLYA  414 (447)
Q Consensus       341 ~~~~~~g~~~~A~~~~~~~~~~~~~---p~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  414 (447)
                      ..+.+.|++++|...+++..+....   |.....+..+...+...++   +.+|...+++. ...|.....+..++..|.
T Consensus       269 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~la~~y~  347 (378)
T 3q15_A          269 WTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK-NLHAYIEACARSAAAVFE  347 (378)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC-CChhHHHHHHHHHHHHHH
Confidence            8888888888888888887764321   3333445666667777777   66666666652 122445567778888899


Q ss_pred             hcCChHHHHHHHHHHHH
Q 048090          415 KFCMWDEIGQLRELMKE  431 (447)
Q Consensus       415 ~~g~~~~A~~~~~~m~~  431 (447)
                      ..|++++|...+++..+
T Consensus       348 ~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          348 SSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHH
Confidence            99999999888887764

>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=99.55  E-value=5.1e-13  Score=111.73  Aligned_cols=199  Identities=13%  Similarity=-0.019  Sum_probs=148.6

Q ss_pred             CCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCC-cchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHH
Q 048090          221 GNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEIN-KDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVA  299 (447)
Q Consensus       221 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~  299 (447)
                      +.++..+......+...|++++|...|+++...    .+ ++...+..+..++...|++++|+..+++..+... -+...
T Consensus         4 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~----~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~   78 (228)
T 4i17_A            4 TTDPNQLKNEGNDALNAKNYAVAFEKYSEYLKL----TNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNY-NLANA   78 (228)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----TTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC-SHHHH
T ss_pred             ccCHHHHHHHHHHHHHccCHHHHHHHHHHHHhc----cCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCc-chHHH
Confidence            345677888888888888899998888877665    33 6667777788888888888888888888887532 24567


Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC-h-------hhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCC--ch
Q 048090          300 FVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG-P-------EHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSS--SV  369 (447)
Q Consensus       300 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~-------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~--~~  369 (447)
                      +..+..++...|++++|...+++..+.   .|+ .       ..|..+...+...|++++|.+.++++++.+  |+  +.
T Consensus        79 ~~~l~~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--p~~~~~  153 (228)
T 4i17_A           79 YIGKSAAYRDMKNNQEYIATLTEGIKA---VPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVT--SKKWKT  153 (228)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSS--CHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHH---CCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcC--CCcccH
Confidence            778888888888888888888888765   333 4       457777778888888888888888888775  77  67


Q ss_pred             HhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCC
Q 048090          370 SMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDV  438 (447)
Q Consensus       370 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~  438 (447)
                      .++..++.++...|     ...++++....+.+...|....  ....+.+++|+..+++..+.  .|+.
T Consensus       154 ~~~~~l~~~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l--~p~~  213 (228)
T 4i17_A          154 DALYSLGVLFYNNG-----ADVLRKATPLASSNKEKYASEK--AKADAAFKKAVDYLGEAVTL--SPNR  213 (228)
T ss_dssp             HHHHHHHHHHHHHH-----HHHHHHHGGGTTTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHH--CTTC
T ss_pred             HHHHHHHHHHHHHH-----HHHHHHHHhcccCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhc--CCCC
Confidence            77888888876543     4556777777766655554443  34566789999999999873  4543

>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=2.5e-11  Score=116.25  Aligned_cols=382  Identities=8%  Similarity=-0.045  Sum_probs=251.5

Q ss_pred             HHHhhhhhhhhhcccccCCcchHHHhhccCC-----CCCCccHHHHHHHHHhCCCh--------hhHHHHHHHHHh-cCC
Q 048090           17 IIFQSRLMLPYTTCRHKKNLGTLTNCLKFLN-----PRNPLPFNVVISDFCRNGSP--------LYALKTFSFMHV-HGI   82 (447)
Q Consensus        17 ~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~-----~~~~~~~~~l~~~~~~~~~~--------~~a~~~~~~m~~-~~~   82 (447)
                      ...|...+..-.+.+...+.+.+..+|++..     +|++..|..-+....+.++.        +...++|+..+. .|.
T Consensus       100 ~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~  179 (679)
T 4e6h_A          100 ANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAI  179 (679)
T ss_dssp             HHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCc
Confidence            4556666666555552223889999999753     27777888888776666554        334578887655 355


Q ss_pred             -CCc-hhhHHHHHHHhcc---------CCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHc-------------cCChh
Q 048090           83 -FLD-TYALCSSLTASTS---------VKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAK-------------LLLIH  138 (447)
Q Consensus        83 -~p~-~~~~~~ll~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------------~g~~~  138 (447)
                       .|+ ...|...+.....         .++++.+..+|+.++......-..+|......-..             ..+++
T Consensus       180 ~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~raL~iP~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~  259 (679)
T 4e6h_A          180 FEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTLLCQPMDCLESMWQRYTQWEQDVNQLTARRHIGELSAQYM  259 (679)
T ss_dssp             TCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHHTTSCCSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHH
T ss_pred             ccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHH
Confidence             454 4567776665432         34577889999998853211122333322211111             11223


Q ss_pred             hHHHHhcc-------CCC--------------C--c------hhhHHHHHHHHHhcC-------CHHHHHHHHHhhhhcC
Q 048090          139 DAELMFDE-------IPV--------------K--N------SVCANALLSGYCEAK-------LWAGGLELVRLMPALG  182 (447)
Q Consensus       139 ~a~~~~~~-------~~~--------------~--~------~~~~~~l~~~~~~~~-------~~~~a~~~~~~~~~~~  182 (447)
                      .|...+.+       +..              |  +      ...|...+.---..+       ..+.+..+|++.... 
T Consensus       260 ~Ar~~~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~-  338 (679)
T 4e6h_A          260 NARSLYQDWLNITKGLKRNLPITLNQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH-  338 (679)
T ss_dssp             HHHHHHHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHHHHHhHhhccccccccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH-
Confidence            33343322       110              1  0      133555554332222       134456778887765 


Q ss_pred             CCCcHhhHHHHHHHHhcCCcHHHHH-HHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcc------
Q 048090          183 LDYDHFTLSALLRACAGLSAAEFGR-QVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLE------  255 (447)
Q Consensus       183 ~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~------  255 (447)
                      ++-....|...+..+...|+.+.|. ++++.....   ++.+...+...+....+.|++++|.++|+.+.....      
T Consensus       339 ~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~---~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~  415 (679)
T 4e6h_A          339 VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC---IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAAL  415 (679)
T ss_dssp             TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhh
Confidence            3446667777777777778888996 999999876   556777788889999999999999999997765311      


Q ss_pred             -cCCCc-----------chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc-cCcHHHHHHHHHH
Q 048090          256 -GEINK-----------DVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSH-TGQVKLGIEYFEW  322 (447)
Q Consensus       256 -~~~~~-----------~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~-~~~~~~a~~~~~~  322 (447)
                       ...+.           ....|...+....+.|+.+.|..+|.+..+.-..+....|...+..-.+ .++++.|..+|+.
T Consensus       416 ~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~  495 (679)
T 4e6h_A          416 MEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLEL  495 (679)
T ss_dssp             HHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHH
T ss_pred             hhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence             01111           2346888888888899999999999999875111123334333322233 3559999999999


Q ss_pred             HHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCC-CchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCC
Q 048090          323 MVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGS-SSVSMWGALLSACHDCGKFELGKLAAQKALELDPH  401 (447)
Q Consensus       323 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  401 (447)
                      ..+.+  +-+...|...++.....|+.+.|..+|++.+.....+ .....|...+..-.+.|+.+.+..+.+++.+..|+
T Consensus       496 ~Lk~~--p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~  573 (679)
T 4e6h_A          496 GLKYF--ATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPE  573 (679)
T ss_dssp             HHHHH--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTT
T ss_pred             HHHHC--CCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            99863  4456777888888889999999999999999876211 35567999999999999999999999999999988


Q ss_pred             chh
Q 048090          402 NVG  404 (447)
Q Consensus       402 ~~~  404 (447)
                      +..
T Consensus       574 ~~~  576 (679)
T 4e6h_A          574 VNK  576 (679)
T ss_dssp             CCH
T ss_pred             CcH
Confidence            653

>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=99.52  E-value=1.5e-12  Score=104.78  Aligned_cols=172  Identities=15%  Similarity=0.018  Sum_probs=149.0

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 048090          224 VFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTV  303 (447)
Q Consensus       224 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  303 (447)
                      ...+..+...+...|++++|...|+++...    .+.+...+..+...+...|++++|...++++.+.. +.+...+..+
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~   82 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDA----DAFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVL   82 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCT----TSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHh----CccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHH
Confidence            456777888899999999999999876553    45567888999999999999999999999998863 3467788888


Q ss_pred             HHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcC
Q 048090          304 ISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCG  383 (447)
Q Consensus       304 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  383 (447)
                      ...+...|++++|...++++.+.  .+.+...+..+...+...|++++|...++++.+..  |.+..++..++.++...|
T Consensus        83 a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~  158 (186)
T 3as5_A           83 GLTYVQVQKYDLAVPLLIKVAEA--NPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR--PNEGKVHRAIAFSYEQMG  158 (186)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHhcCHHHHHHHHHHHHhc--CcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC--ccchHHHHHHHHHHHHcC
Confidence            99999999999999999999875  24467888899999999999999999999999886  888888999999999999


Q ss_pred             CccHHHHHHHHHhhhCCCchh
Q 048090          384 KFELGKLAAQKALELDPHNVG  404 (447)
Q Consensus       384 ~~~~a~~~~~~~~~~~~~~~~  404 (447)
                      ++++|...++++++..|.+..
T Consensus       159 ~~~~A~~~~~~~~~~~~~~~~  179 (186)
T 3as5_A          159 RHEEALPHFKKANELDEGASV  179 (186)
T ss_dssp             CHHHHHHHHHHHHHHHHCCCG
T ss_pred             CHHHHHHHHHHHHHcCCCchh
Confidence            999999999999998876553

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.51  E-value=1.9e-11  Score=110.65  Aligned_cols=238  Identities=9%  Similarity=-0.041  Sum_probs=173.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHhhhhcCC-CC----cHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCC----ChhHH
Q 048090          157 ALLSGYCEAKLWAGGLELVRLMPALGL-DY----DHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGN----DVFMQ  227 (447)
Q Consensus       157 ~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~  227 (447)
                      .....+...|++++|+..+++..+... .+    ...++..+...+...|+++.|...+++..+..+....    ...++
T Consensus       106 ~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  185 (378)
T 3q15_A          106 FRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSL  185 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHH
T ss_pred             HHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHH
Confidence            345556788999999999888765310 12    2346777888888999999999999988876433221    24567


Q ss_pred             HHHHHHHHhcCChHHHHHHHHhhhhhcccCCC--cchhhHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCCCHHHH
Q 048090          228 SSLIEMYGKCGLVTKALQVFNLAGHRLEGEIN--KDVVLWTSMLGVYGRNGYFKEVIKLYEAMLM-----NGTKPDEVAF  300 (447)
Q Consensus       228 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~-----~~~~p~~~~~  300 (447)
                      +.+..+|...|++++|.+.|+++.........  ....++..+..+|...|++++|...+++..+     .. +....++
T Consensus       186 ~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~  264 (378)
T 3q15_A          186 FVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVL  264 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHH
Confidence            78888999999999999999877654322111  1234677888899999999999999998876     33 2236778


Q ss_pred             HHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC---hhhHHHHHHHHHHcCC---HHHHHHHHHHHHhCCCCCCchHhHHH
Q 048090          301 VTVISACSHTGQVKLGIEYFEWMVHDYKLEPG---PEHYSCLVDLLCRAGE---LDKAWKLINEMLDRGHGSSSVSMWGA  374 (447)
Q Consensus       301 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~p~~~~~~~~  374 (447)
                      ..+...+.+.|++++|...+++..+...-..+   ...+..+...+...|+   +.+|+..+++.   +..|.....+..
T Consensus       265 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~  341 (378)
T 3q15_A          265 FGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK---NLHAYIEACARS  341 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC---CChhHHHHHHHH
Confidence            88888999999999999999998865322112   3345566666777788   77787777763   222445556788


Q ss_pred             HHHHHHhcCCccHHHHHHHHHhhh
Q 048090          375 LLSACHDCGKFELGKLAAQKALEL  398 (447)
Q Consensus       375 l~~~~~~~g~~~~a~~~~~~~~~~  398 (447)
                      ++..|...|++++|...++++++.
T Consensus       342 la~~y~~~g~~~~A~~~~~~al~~  365 (378)
T 3q15_A          342 AAAVFESSCHFEQAAAFYRKVLKA  365 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHH
Confidence            999999999999999999988764

>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=99.50  E-value=1.2e-12  Score=126.76  Aligned_cols=168  Identities=11%  Similarity=0.097  Sum_probs=148.1

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 048090          223 DVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVT  302 (447)
Q Consensus       223 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~  302 (447)
                      +...++.|..+|.+.|++++|++.|+++.+.    .+.+..+|..+..+|.+.|++++|+..|++..+.. +-+...|..
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l----~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~n   82 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEV----FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSN   82 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHH
Confidence            4678899999999999999999999987775    55567889999999999999999999999998853 225788999


Q ss_pred             HHHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHh
Q 048090          303 VISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHD  381 (447)
Q Consensus       303 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~  381 (447)
                      +..++...|++++|++.|++..+.   .| +...|..+..+|.+.|++++|++.|++.++..  |++..++..++.++..
T Consensus        83 Lg~~l~~~g~~~~A~~~~~kAl~l---~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~--P~~~~a~~~L~~~l~~  157 (723)
T 4gyw_A           83 MGNTLKEMQDVQGALQCYTRAIQI---NPAFADAHSNLASIHKDSGNIPEAIASYRTALKLK--PDFPDAYCNLAHCLQI  157 (723)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCChHHHhhhhhHHHh
Confidence            999999999999999999999865   55 47889999999999999999999999999987  9999999999999999


Q ss_pred             cCCccHHHHHHHHHhhhCC
Q 048090          382 CGKFELGKLAAQKALELDP  400 (447)
Q Consensus       382 ~g~~~~a~~~~~~~~~~~~  400 (447)
                      .|++++|.+.++++++..|
T Consensus       158 ~g~~~~A~~~~~kal~l~~  176 (723)
T 4gyw_A          158 VCDWTDYDERMKKLVSIVA  176 (723)
T ss_dssp             TTCCTTHHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHhCh
Confidence            9999999999999887543

>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=99.45  E-value=1.4e-12  Score=112.78  Aligned_cols=234  Identities=15%  Similarity=0.134  Sum_probs=157.8

Q ss_pred             hcCCcHHHHHHHHHHHHHhhh-----cCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhccc----CCCcchhhHHHH
Q 048090          198 AGLSAAEFGRQVHAYMIRKCC-----NLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEG----EINKDVVLWTSM  268 (447)
Q Consensus       198 ~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~----~~~~~~~~~~~l  268 (447)
                      ...|++++|...+++.++...     ..+....++..+...|...|++++|...++++......    ..+....++..+
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l   91 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNL   91 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHH
Confidence            355667777777776665311     11223556777888888888888888888866554211    123345678888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhC------CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhc-----CCCC-Chhh
Q 048090          269 LGVYGRNGYFKEVIKLYEAMLMN------GTKP-DEVAFVTVISACSHTGQVKLGIEYFEWMVHDY-----KLEP-GPEH  335 (447)
Q Consensus       269 ~~~~~~~g~~~~a~~~~~~m~~~------~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----~~~~-~~~~  335 (447)
                      ..+|...|++++|...+++..+.      ...| ...++..+...+...|++++|...++++.+..     +..| ...+
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  171 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKT  171 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            88888889999998888887664      1112 35677788888889999999999988887531     1122 3567


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhC-------CCCCCchHhHHHHHHHHHhcCCccHHHH------HHHHHhhhCCCc
Q 048090          336 YSCLVDLLCRAGELDKAWKLINEMLDR-------GHGSSSVSMWGALLSACHDCGKFELGKL------AAQKALELDPHN  402 (447)
Q Consensus       336 ~~~l~~~~~~~g~~~~A~~~~~~~~~~-------~~~p~~~~~~~~l~~~~~~~g~~~~a~~------~~~~~~~~~~~~  402 (447)
                      +..+..+|...|++++|..+++++.+.       ...+.....+..+...+...+....+..      .++......|..
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  251 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTV  251 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHH
Confidence            788888999999999999999988764       2234445556655555555444433332      222222233556


Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          403 VGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       403 ~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      ..++..++.+|...|++++|..++++..+
T Consensus       252 ~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          252 NTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            77899999999999999999999998875

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.42  E-value=1.4e-10  Score=104.71  Aligned_cols=205  Identities=11%  Similarity=-0.003  Sum_probs=96.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhhhc----CCC--C-cHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCC--Chh
Q 048090          155 ANALLSGYCEAKLWAGGLELVRLMPAL----GLD--Y-DHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGN--DVF  225 (447)
Q Consensus       155 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~  225 (447)
                      +..+...+...|++++|...+++..+.    +..  | ....+..+...+...|++++|...+++.....+...+  ...
T Consensus        96 ~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  175 (373)
T 1hz4_A           96 LIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQ  175 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHH
Confidence            344555566666666666666555432    111  1 1233444555566666666666666666654222111  123


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHH-----HHHHHHHhcCCHHHHHHHHHHHHhCCCCC---CH
Q 048090          226 MQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWT-----SMLGVYGRNGYFKEVIKLYEAMLMNGTKP---DE  297 (447)
Q Consensus       226 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~-----~l~~~~~~~g~~~~a~~~~~~m~~~~~~p---~~  297 (447)
                      .+..+...+...|++++|...+++..........+  ..+.     ..+..+...|++++|...+++.......+   ..
T Consensus       176 ~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~  253 (373)
T 1hz4_A          176 CLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYH--SDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQ  253 (373)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCC--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcc--hhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhH
Confidence            44555556666666666666666543331111111  1111     12223455666666666665554322111   11


Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHHhc---CCCCCh-hhHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 048090          298 VAFVTVISACSHTGQVKLGIEYFEWMVHDY---KLEPGP-EHYSCLVDLLCRAGELDKAWKLINEMLD  361 (447)
Q Consensus       298 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~  361 (447)
                      ..+..+...+...|++++|...++......   +..++. ..+..+..++...|+.++|...+++...
T Consensus       254 ~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          254 GQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            233444455555566666655555543220   111111 2334444455555555555555555443

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.41  E-value=3.2e-11  Score=102.99  Aligned_cols=189  Identities=11%  Similarity=0.008  Sum_probs=123.8

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcc---hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CC-CH
Q 048090          223 DVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKD---VVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGT-KP-DE  297 (447)
Q Consensus       223 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~-~p-~~  297 (447)
                      +...+..+...+.+.|++++|...|+++...    .+.+   ...+..+..+|.+.|++++|...|++..+... .| ..
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~----~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~   89 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTY----GRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVP   89 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGG----CSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh----CCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhH
Confidence            3455555666666677777777777655443    2222   45566666667777777777777777666422 11 13


Q ss_pred             HHHHHHHHHHhc--------cCcHHHHHHHHHHHHHhcCCCCC-hhhH-----------------HHHHHHHHHcCCHHH
Q 048090          298 VAFVTVISACSH--------TGQVKLGIEYFEWMVHDYKLEPG-PEHY-----------------SCLVDLLCRAGELDK  351 (447)
Q Consensus       298 ~~~~~ll~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~-~~~~-----------------~~l~~~~~~~g~~~~  351 (447)
                      ..+..+..++..        .|++++|...|+++.+.   .|+ ....                 ..+...|.+.|++++
T Consensus        90 ~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~---~p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  166 (261)
T 3qky_A           90 QAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR---YPNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEA  166 (261)
T ss_dssp             HHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH---CTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHH---CcCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHH
Confidence            445555556655        67777777777777654   232 2222                 556788899999999


Q ss_pred             HHHHHHHHHhCCCCCC---chHhHHHHHHHHHhc----------CCccHHHHHHHHHhhhCCCchh---HHHHHHHHHHh
Q 048090          352 AWKLINEMLDRGHGSS---SVSMWGALLSACHDC----------GKFELGKLAAQKALELDPHNVG---IYVMLSNLYAK  415 (447)
Q Consensus       352 A~~~~~~~~~~~~~p~---~~~~~~~l~~~~~~~----------g~~~~a~~~~~~~~~~~~~~~~---~~~~l~~~~~~  415 (447)
                      |...|+++++..  |+   ...++..++.++...          |++++|...++++++..|+++.   +...+...+.+
T Consensus       167 A~~~~~~~l~~~--p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~l~~~~~~  244 (261)
T 3qky_A          167 AAVTYEAVFDAY--PDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDSPLLRTAEELYTRARQR  244 (261)
T ss_dssp             HHHHHHHHHHHC--TTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHC--CCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHH
Confidence            999999998876  55   445688888888876          8889999999999999998754   34444444444


Q ss_pred             cCChH
Q 048090          416 FCMWD  420 (447)
Q Consensus       416 ~g~~~  420 (447)
                      .++++
T Consensus       245 ~~~~~  249 (261)
T 3qky_A          245 LTELE  249 (261)
T ss_dssp             HHHHH
T ss_pred             HHHhh
Confidence            44433

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.40  E-value=2.7e-11  Score=105.25  Aligned_cols=177  Identities=10%  Similarity=0.015  Sum_probs=89.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCc--chhhHHHHHHHHHhc-CCHHHHHHHHHHHHhCCC---CC--CH
Q 048090          226 MQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINK--DVVLWTSMLGVYGRN-GYFKEVIKLYEAMLMNGT---KP--DE  297 (447)
Q Consensus       226 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~-g~~~~a~~~~~~m~~~~~---~p--~~  297 (447)
                      +++.+..+|...|++++|+..|++..........+  ...+++.+...|... |++++|+..|++..+...   .+  ..
T Consensus        79 ~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~  158 (292)
T 1qqe_A           79 TYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSN  158 (292)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHH
Confidence            44455555555555555555555443321111111  123455566666664 666666666666554210   00  02


Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCCh-----hhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchH--
Q 048090          298 VAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGP-----EHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVS--  370 (447)
Q Consensus       298 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~--  370 (447)
                      .++..+...+...|++++|+..|+++.+...-.+..     ..|..+..++...|++++|...+++.+...  |....  
T Consensus       159 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~--p~~~~~~  236 (292)
T 1qqe_A          159 KCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSED--PNFADSR  236 (292)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC----------
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCCCCcH
Confidence            345666666667777777777777666431111111     134556666667777777777777766543  32222  


Q ss_pred             ---hHHHHHHHHH--hcCCccHHHHHHHHHhhhCCCchh
Q 048090          371 ---MWGALLSACH--DCGKFELGKLAAQKALELDPHNVG  404 (447)
Q Consensus       371 ---~~~~l~~~~~--~~g~~~~a~~~~~~~~~~~~~~~~  404 (447)
                         .+..++.++.  ..+++++|...|+++...+|....
T Consensus       237 ~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~l~~~~~~  275 (292)
T 1qqe_A          237 ESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDKWKIT  275 (292)
T ss_dssp             -HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHhccCCccHHHHHH
Confidence               2333444443  344566666666666655554433

>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=99.40  E-value=3.1e-12  Score=99.00  Aligned_cols=143  Identities=10%  Similarity=-0.003  Sum_probs=114.2

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHc
Q 048090          269 LGVYGRNGYFKEVIKLYEAMLMNGTKP-DEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRA  346 (447)
Q Consensus       269 ~~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~  346 (447)
                      ...+...|++++|+..++.....  .| +...+..+...|.+.|++++|+..|++..+.   .| +...|..+..+|.+.
T Consensus         4 G~~~~~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~---~p~~~~a~~~lg~~~~~~   78 (150)
T 4ga2_A            4 GSMRRSKADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINV---QERDPKAHRFLGLLYELE   78 (150)
T ss_dssp             ---CCCHHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHcChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHc
Confidence            34455667888888888877553  33 3445667788888899999999999988865   45 578888899999999


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHH-HHHHhhhCCCchhHHHHHHHHHHhcCC
Q 048090          347 GELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLA-AQKALELDPHNVGIYVMLSNLYAKFCM  418 (447)
Q Consensus       347 g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~-~~~~~~~~~~~~~~~~~l~~~~~~~g~  418 (447)
                      |++++|+..|++.++.+  |++..++..++..+.+.|++++|... ++++++.+|.++.+|......+...|+
T Consensus        79 ~~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           79 ENTDKAVECYRRSVELN--PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             TCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCHHHHHHHHHHHHTCCC
T ss_pred             CchHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCc
Confidence            99999999999998877  88888899999999999998776654 589999999999999888888877775

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.38  E-value=1.4e-10  Score=96.54  Aligned_cols=191  Identities=7%  Similarity=-0.037  Sum_probs=118.4

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH--HHH
Q 048090          223 DVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDE--VAF  300 (447)
Q Consensus       223 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~--~~~  300 (447)
                      +...+..+...+...|++++|...|+++..... ..+.....+..+..+|.+.|++++|+..|+++.+.......  ..+
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~   81 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYP-FGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVM   81 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHH
Confidence            445566677778888888888888887655310 01111346777778888888888888888888775322111  233


Q ss_pred             HHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHh---------
Q 048090          301 VTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSM---------  371 (447)
Q Consensus       301 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~---------  371 (447)
                      ..+..++...+..     .+             ..|..+...+...|++++|...|+++++..  |++..+         
T Consensus        82 ~~~g~~~~~~~~~-----~~-------------~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--P~~~~a~~a~~~l~~  141 (225)
T 2yhc_A           82 YMRGLTNMALDDS-----AL-------------QGFFGVDRSDRDPQQARAAFSDFSKLVRGY--PNSQYTTDATKRLVF  141 (225)
T ss_dssp             HHHHHHHHHHHC--------------------------------CCHHHHHHHHHHHHHHTTC--TTCTTHHHHHHHHHH
T ss_pred             HHHHHHHHhhhhh-----hh-------------hhhhccchhhcCcHHHHHHHHHHHHHHHHC--cCChhHHHHHHHHHH
Confidence            3344444331100     00             000011111122334444444444444433  333322         


Q ss_pred             --------HHHHHHHHHhcCCccHHHHHHHHHhhhCCCch---hHHHHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 048090          372 --------WGALLSACHDCGKFELGKLAAQKALELDPHNV---GIYVMLSNLYAKFCMWDEIGQLRELMKEKGL  434 (447)
Q Consensus       372 --------~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  434 (447)
                              ...++..+.+.|++++|...++++++..|+++   .++..++.+|.+.|++++|.+.++.+...+.
T Consensus       142 ~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~  215 (225)
T 2yhc_A          142 LKDRLAKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSS  215 (225)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCS
T ss_pred             HHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCC
Confidence                    24567889999999999999999999998875   6799999999999999999999998887543

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.38  E-value=3.9e-11  Score=102.45  Aligned_cols=171  Identities=12%  Similarity=0.111  Sum_probs=144.4

Q ss_pred             CcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC-hh
Q 048090          259 NKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPD---EVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG-PE  334 (447)
Q Consensus       259 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~  334 (447)
                      +.+...+..+...+.+.|++++|...|+++.+.... +   ...+..+..++...|++++|...|+++.+...-.|. ..
T Consensus        12 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~   90 (261)
T 3qky_A           12 HSSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRT-HEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQ   90 (261)
T ss_dssp             CSSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSC-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHH
T ss_pred             CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCC-CcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHH
Confidence            445677778888999999999999999999886422 3   567888899999999999999999999976322233 45


Q ss_pred             hHHHHHHHHHH--------cCCHHHHHHHHHHHHhCCCCCCchHhH-----------------HHHHHHHHhcCCccHHH
Q 048090          335 HYSCLVDLLCR--------AGELDKAWKLINEMLDRGHGSSSVSMW-----------------GALLSACHDCGKFELGK  389 (447)
Q Consensus       335 ~~~~l~~~~~~--------~g~~~~A~~~~~~~~~~~~~p~~~~~~-----------------~~l~~~~~~~g~~~~a~  389 (447)
                      .+..+..++..        .|++++|...|+++++..  |++....                 ..++.++...|++++|.
T Consensus        91 a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  168 (261)
T 3qky_A           91 AEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAA  168 (261)
T ss_dssp             HHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHH
Confidence            67778888888        999999999999999886  7766655                 66799999999999999


Q ss_pred             HHHHHHhhhCCC---chhHHHHHHHHHHhc----------CChHHHHHHHHHHHHc
Q 048090          390 LAAQKALELDPH---NVGIYVMLSNLYAKF----------CMWDEIGQLRELMKEK  432 (447)
Q Consensus       390 ~~~~~~~~~~~~---~~~~~~~l~~~~~~~----------g~~~~A~~~~~~m~~~  432 (447)
                      ..++++++..|.   .+..+..++.+|...          |++++|...++++.+.
T Consensus       169 ~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~  224 (261)
T 3qky_A          169 VTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI  224 (261)
T ss_dssp             HHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH
Confidence            999999999987   456899999999877          8999999999999874

>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=99.38  E-value=1.5e-11  Score=106.14  Aligned_cols=210  Identities=11%  Similarity=-0.015  Sum_probs=124.8

Q ss_pred             HhhHHHHHHHHhcCCcHHHHHHHHHHHHHhh-----hcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccC----
Q 048090          187 HFTLSALLRACAGLSAAEFGRQVHAYMIRKC-----CNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGE----  257 (447)
Q Consensus       187 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~----  257 (447)
                      ..++..+...+...|++++|...++++.+..     +..+....++..+...|...|++++|...|+++.......    
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            4456666666667777777777777666542     1112234566677777777777777777777654432111    


Q ss_pred             CCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhC------CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhc---
Q 048090          258 INKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMN------GTKP-DEVAFVTVISACSHTGQVKLGIEYFEWMVHDY---  327 (447)
Q Consensus       258 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~------~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---  327 (447)
                      .+....++..+...|...|++++|...+++..+.      +..| ...++..+...+...|++++|...++++.+..   
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            1233556777777788888888888888777654      1122 34567777778888888888888887776431   


Q ss_pred             ---CCCCC-hhhHHHHHHHHHHcCC------HHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhh
Q 048090          328 ---KLEPG-PEHYSCLVDLLCRAGE------LDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALE  397 (447)
Q Consensus       328 ---~~~~~-~~~~~~l~~~~~~~g~------~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  397 (447)
                         ...+. ...|..+...+...+.      +..+...++......  |....++..++.+|...|++++|...++++++
T Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          203 EFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDS--PTVNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCC--HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             cCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCC--HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence               11222 2333333333333222      333333333322222  55566788889999999999999999998876


Q ss_pred             h
Q 048090          398 L  398 (447)
Q Consensus       398 ~  398 (447)
                      .
T Consensus       281 ~  281 (283)
T 3edt_B          281 N  281 (283)
T ss_dssp             T
T ss_pred             h
Confidence            4

>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=99.37  E-value=6e-11  Score=89.68  Aligned_cols=130  Identities=25%  Similarity=0.282  Sum_probs=105.0

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHH
Q 048090          299 AFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSA  378 (447)
Q Consensus       299 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~  378 (447)
                      .+..+...+...|++++|..+++++.+.  .+.+...+..+...+...|++++|..+++++...+  |.+...+..++..
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~   78 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD--PRSAEAWYNLGNA   78 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHc--CCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC--CCchHHHHHHHHH
Confidence            4556667777788888888888887754  13356677778888888888888888888888766  6677778888888


Q ss_pred             HHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 048090          379 CHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       379 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  432 (447)
                      +...|++++|...++++.+..|.+..++..++.++.+.|++++|...++++...
T Consensus        79 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           79 YYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            888899999999998888888888888888888888999999998888888763

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.36  E-value=3.4e-11  Score=104.58  Aligned_cols=212  Identities=10%  Similarity=-0.011  Sum_probs=155.1

Q ss_pred             cHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhccc-CCCc-chhhHHHHHHHHHhcCCHH
Q 048090          202 AAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEG-EINK-DVVLWTSMLGVYGRNGYFK  279 (447)
Q Consensus       202 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~-~~~~~~~l~~~~~~~g~~~  279 (447)
                      ++++|...|.+.                 +..|...|++++|...|++....... +.++ ...+|+.+..+|.+.|+++
T Consensus        32 ~~~~A~~~~~~a-----------------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~   94 (292)
T 1qqe_A           32 KFEEAADLCVQA-----------------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSV   94 (292)
T ss_dssp             HHHHHHHHHHHH-----------------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             cHHHHHHHHHHH-----------------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHH
Confidence            488888887765                 34577889999999999877654322 2222 2568899999999999999


Q ss_pred             HHHHHHHHHHhCCC---CC--CHHHHHHHHHHHhcc-CcHHHHHHHHHHHHHhcCCCCC----hhhHHHHHHHHHHcCCH
Q 048090          280 EVIKLYEAMLMNGT---KP--DEVAFVTVISACSHT-GQVKLGIEYFEWMVHDYKLEPG----PEHYSCLVDLLCRAGEL  349 (447)
Q Consensus       280 ~a~~~~~~m~~~~~---~p--~~~~~~~ll~~~~~~-~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~  349 (447)
                      +|+..+++..+...   .+  -..++..+...|... |++++|+..|++..+...-..+    ..++..+...+.+.|++
T Consensus        95 ~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~  174 (292)
T 1qqe_A           95 NAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQY  174 (292)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCH
Confidence            99999998876311   11  145788888899996 9999999999998764211111    35688899999999999


Q ss_pred             HHHHHHHHHHHhCCCCCCch-----HhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchh-----HHHHHHHHHH--hcC
Q 048090          350 DKAWKLINEMLDRGHGSSSV-----SMWGALLSACHDCGKFELGKLAAQKALELDPHNVG-----IYVMLSNLYA--KFC  417 (447)
Q Consensus       350 ~~A~~~~~~~~~~~~~p~~~-----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-----~~~~l~~~~~--~~g  417 (447)
                      ++|+..+++........+..     .+|..++.++...|++++|...++++++..|....     .+..++.+|.  ..+
T Consensus       175 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~  254 (292)
T 1qqe_A          175 IEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSE  254 (292)
T ss_dssp             HHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTT
T ss_pred             HHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHH
Confidence            99999999999876322221     14788899999999999999999999998887443     3455666664  456


Q ss_pred             ChHHHHHHHHHHH
Q 048090          418 MWDEIGQLRELMK  430 (447)
Q Consensus       418 ~~~~A~~~~~~m~  430 (447)
                      ++++|+..|+++.
T Consensus       255 ~~~~A~~~~~~~~  267 (292)
T 1qqe_A          255 QLSEHCKEFDNFM  267 (292)
T ss_dssp             THHHHHHHHTTSS
T ss_pred             HHHHHHHHhccCC
Confidence            7888888776653

>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=99.36  E-value=9.9e-12  Score=120.93  Aligned_cols=177  Identities=12%  Similarity=-0.057  Sum_probs=149.4

Q ss_pred             HhcCChHHHHHHHHhhhhh----cccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcc
Q 048090          235 GKCGLVTKALQVFNLAGHR----LEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHT  310 (447)
Q Consensus       235 ~~~g~~~~A~~~~~~~~~~----~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  310 (447)
                      ...|++++|++.++++...    .....+.+...+..+..++.+.|++++|...|++..+.. +-+...+..+..++...
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHHc
Confidence            7789999999999976510    001145567788999999999999999999999998864 23677888888999999


Q ss_pred             CcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHH
Q 048090          311 GQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGK  389 (447)
Q Consensus       311 ~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  389 (447)
                      |++++|...|+++.+.   .| +...|..+..++.+.|++++ ++.|+++++.+  |++..+|..++.++...|++++|.
T Consensus       481 g~~~~A~~~~~~al~l---~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~--P~~~~a~~~lg~~~~~~g~~~~A~  554 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDT---FPGELAPKLALAATAELAGNTDE-HKFYQTVWSTN--DGVISAAFGLARARSAEGDRVGAV  554 (681)
T ss_dssp             TCHHHHHHHHHHHHHH---STTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             CCHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC--CchHHHHHHHHHHHHHcCCHHHHH
Confidence            9999999999999865   45 47788899999999999999 99999999887  889999999999999999999999


Q ss_pred             HHHHHHhhhCCCchhHHHHHHHHHHhcCC
Q 048090          390 LAAQKALELDPHNVGIYVMLSNLYAKFCM  418 (447)
Q Consensus       390 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  418 (447)
                      ..++++++.+|.+..++..++.++...|+
T Consensus       555 ~~~~~al~l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          555 RTLDEVPPTSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHHHTSCTTSTTHHHHHHHHHHHTC----
T ss_pred             HHHHhhcccCcccHHHHHHHHHHHHccCC
Confidence            99999999999999999999999877665

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.35  E-value=4.5e-10  Score=95.72  Aligned_cols=249  Identities=9%  Similarity=-0.017  Sum_probs=163.9

Q ss_pred             HHccCChhhHHHHhccCCCCch-hhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHH
Q 048090          131 YAKLLLIHDAELMFDEIPVKNS-VCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQV  209 (447)
Q Consensus       131 ~~~~g~~~~a~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  209 (447)
                      ..-.|.+..++.-..++...+. ..---+.++|...|++...      +   .-.|....+..+...+ ..+    +...
T Consensus        23 ~fy~G~yq~~i~e~~~~~~~~~~~~~~~~~Rs~iAlg~~~~~------~---~~~~~~~a~~~la~~~-~~~----a~~~   88 (310)
T 3mv2_B           23 NYYTGNFVQCLQEIEKFSKVTDNTLLFYKAKTLLALGQYQSQ------D---PTSKLGKVLDLYVQFL-DTK----NIEE   88 (310)
T ss_dssp             HHTTTCHHHHTHHHHTSSCCCCHHHHHHHHHHHHHTTCCCCC------C---SSSTTHHHHHHHHHHH-TTT----CCHH
T ss_pred             HHHhhHHHHHHHHHHhcCccchHHHHHHHHHHHHHcCCCccC------C---CCCHHHHHHHHHHHHh-ccc----HHHH
Confidence            3345666666665555442222 2223344667666665531      1   1133333443333333 222    6677


Q ss_pred             HHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCC-CcchhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 048090          210 HAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEI-NKDVVLWTSMLGVYGRNGYFKEVIKLYEAM  288 (447)
Q Consensus       210 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  288 (447)
                      +++....  + .++......+..++...|++++|++++.+....   +. .-+...+..++..+.+.|+.+.|.+.+++|
T Consensus        89 l~~l~~~--~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~---~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~  162 (310)
T 3mv2_B           89 LENLLKD--K-QNSPYELYLLATAQAILGDLDKSLETCVEGIDN---DEAEGTTELLLLAIEVALLNNNVSTASTIFDNY  162 (310)
T ss_dssp             HHHTTTT--S-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTS---SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhc--C-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhcc---CCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            7766654  2 345555667888888999999999999854221   11 246677888899999999999999999999


Q ss_pred             HhCCCCC-----CHHHHHHHHHHH--hccC--cHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHH
Q 048090          289 LMNGTKP-----DEVAFVTVISAC--SHTG--QVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEM  359 (447)
Q Consensus       289 ~~~~~~p-----~~~~~~~ll~~~--~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  359 (447)
                      .+.  .|     +..+...++.++  ...|  ++..|..+|+++...   .|+..+-..++.++.+.|++++|.+.++.+
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     356666666663  3334  899999999998754   455333344444888999999999999877


Q ss_pred             HhCC-----C---CCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHH
Q 048090          360 LDRG-----H---GSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIY  406 (447)
Q Consensus       360 ~~~~-----~---~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  406 (447)
                      .+..     .   .|+++.+...++......|+  +|.++++++.+..|+++.+.
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            6541     0   27788888677777777786  78999999999999888543

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.34  E-value=6.3e-10  Score=94.82  Aligned_cols=242  Identities=7%  Similarity=-0.062  Sum_probs=170.1

Q ss_pred             HHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCC
Q 048090          160 SGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGL  239 (447)
Q Consensus       160 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  239 (447)
                      +-..-.|++..++.-..++...  .++ .....+.+++...|++....           ...|....+..+.. |...+ 
T Consensus        21 kn~fy~G~yq~~i~e~~~~~~~--~~~-~~~~~~~Rs~iAlg~~~~~~-----------~~~~~~~a~~~la~-~~~~~-   84 (310)
T 3mv2_B           21 KQNYYTGNFVQCLQEIEKFSKV--TDN-TLLFYKAKTLLALGQYQSQD-----------PTSKLGKVLDLYVQ-FLDTK-   84 (310)
T ss_dssp             HHHHTTTCHHHHTHHHHTSSCC--CCH-HHHHHHHHHHHHTTCCCCCC-----------SSSTTHHHHHHHHH-HHTTT-
T ss_pred             HHHHHhhHHHHHHHHHHhcCcc--chH-HHHHHHHHHHHHcCCCccCC-----------CCCHHHHHHHHHHH-Hhccc-
Confidence            4445678999888755444321  222 23334557777777765321           12233334443333 33322 


Q ss_pred             hHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHhccCcHHHHHH
Q 048090          240 VTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTK-PDEVAFVTVISACSHTGQVKLGIE  318 (447)
Q Consensus       240 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~-p~~~~~~~ll~~~~~~~~~~~a~~  318 (447)
                         |+..|++....    .+++..++..+..++...|++++|++++.+.+..+.. -+...+..++..+.+.|+++.|.+
T Consensus        85 ---a~~~l~~l~~~----~~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k  157 (310)
T 3mv2_B           85 ---NIEELENLLKD----KQNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTAST  157 (310)
T ss_dssp             ---CCHHHHHTTTT----SCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             ---HHHHHHHHHhc----CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHH
Confidence               67777744332    2455666678889999999999999999998876542 356778888999999999999999


Q ss_pred             HHHHHHHhcCCCC-----ChhhHHHHHHHHH--HcC--CHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHH
Q 048090          319 YFEWMVHDYKLEP-----GPEHYSCLVDLLC--RAG--ELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGK  389 (447)
Q Consensus       319 ~~~~~~~~~~~~~-----~~~~~~~l~~~~~--~~g--~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  389 (447)
                      .+++|.+.   .|     +..+...|..++.  ..|  ++.+|..+|+++....  |+ ...-..+..++...|++++|.
T Consensus       158 ~l~~~~~~---~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~--p~-~~~~~lLln~~~~~g~~~eAe  231 (310)
T 3mv2_B          158 IFDNYTNA---IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTF--PT-WKTQLGLLNLHLQQRNIAEAQ  231 (310)
T ss_dssp             HHHHHHHH---SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTS--CS-HHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHhc---CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhC--CC-cccHHHHHHHHHHcCCHHHHH
Confidence            99999754   66     3555566666633  334  8999999999998764  53 222334444899999999999


Q ss_pred             HHHHHHhhh----------CCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 048090          390 LAAQKALEL----------DPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       390 ~~~~~~~~~----------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  432 (447)
                      ..++.+.+.          +|.++.++..++......|+  +|.++++++.+.
T Consensus       232 ~~L~~l~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~  282 (310)
T 3mv2_B          232 GIVELLLSDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKL  282 (310)
T ss_dssp             HHHHHHHSHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHT
T ss_pred             HHHHHHHHhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHh
Confidence            999988776          48899999888877888887  889999999873

>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=99.31  E-value=1.1e-11  Score=95.92  Aligned_cols=129  Identities=15%  Similarity=0.023  Sum_probs=110.1

Q ss_pred             HHHHHhccCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHh
Q 048090          303 VISACSHTGQVKLGIEYFEWMVHDYKLEPG-PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHD  381 (447)
Q Consensus       303 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~  381 (447)
                      |...+...|++++|+..++....   ..|+ ...+..+...|.+.|++++|++.|++.++.+  |++..+|..++.++..
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~---~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~   77 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTP---SPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ--ERDPKAHRFLGLLYEL   77 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSC---SHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHH
T ss_pred             hHHHHHHcChHHHHHHHHHHhcc---cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHH
Confidence            44556778999999999998863   3454 6667788999999999999999999999987  9999999999999999


Q ss_pred             cCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHH-HHHHHHcCCCCCC
Q 048090          382 CGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQL-RELMKEKGLKKDV  438 (447)
Q Consensus       382 ~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~-~~~m~~~~~~p~~  438 (447)
                      .|++++|...|+++++.+|.++.++..++.+|.+.|++++|.+. +++..+  +.|+-
T Consensus        78 ~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~--l~P~~  133 (150)
T 4ga2_A           78 EENTDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAK--LFPGS  133 (150)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHH--HSTTC
T ss_pred             cCchHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHH--hCcCC
Confidence            99999999999999999999999999999999999999877665 577776  45553

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.30  E-value=1.4e-10  Score=100.41  Aligned_cols=167  Identities=7%  Similarity=-0.031  Sum_probs=133.5

Q ss_pred             CcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHH-
Q 048090          259 NKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYS-  337 (447)
Q Consensus       259 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-  337 (447)
                      +.+...+..+...+.+.|++++|...|++..+.. +-+...+..+...+...|++++|...++++...   .|+..... 
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~---~p~~~~~~~  189 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ---DQDTRYQGL  189 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG---GCSHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh---hcchHHHHH
Confidence            4455667777788888899999999998888753 225677888888888899999999998888644   45543332 


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCc--hhHHHHHHHHHHh
Q 048090          338 CLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHN--VGIYVMLSNLYAK  415 (447)
Q Consensus       338 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~l~~~~~~  415 (447)
                      .....+...++.++|...+++.....  |++..++..++.++...|++++|...++++++.+|.+  ...+..++..|..
T Consensus       190 ~~~~~l~~~~~~~~a~~~l~~al~~~--P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~  267 (287)
T 3qou_A          190 VAQIELLXQAADTPEIQQLQQQVAEN--PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAA  267 (287)
T ss_dssp             HHHHHHHHHHTSCHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcccCccHHHHHHHHhcC--CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHH
Confidence            22334667788888899999988877  8888899999999999999999999999999999887  8889999999999


Q ss_pred             cCChHHHHHHHHHHHH
Q 048090          416 FCMWDEIGQLRELMKE  431 (447)
Q Consensus       416 ~g~~~~A~~~~~~m~~  431 (447)
                      .|+.++|...+++...
T Consensus       268 ~g~~~~a~~~~r~al~  283 (287)
T 3qou_A          268 LGTGDALASXYRRQLY  283 (287)
T ss_dssp             HCTTCHHHHHHHHHHH
T ss_pred             cCCCCcHHHHHHHHHH
Confidence            9999999888877653

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.30  E-value=3.4e-09  Score=91.29  Aligned_cols=226  Identities=12%  Similarity=0.090  Sum_probs=152.1

Q ss_pred             HHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcC--ChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHH----Hhc--
Q 048090          204 EFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCG--LVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVY----GRN--  275 (447)
Q Consensus       204 ~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~--  275 (447)
                      ++|.++++.++...   +.+..+|+.-..++...|  ++++++++++.+...    .|.+..+|+.-...+    ...  
T Consensus        50 ~~aL~~t~~~L~~n---P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~----nPk~y~aW~~R~~iL~~~~~~l~~  122 (306)
T 3dra_A           50 ERALHITELGINEL---ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALD----NEKNYQIWNYRQLIIGQIMELNNN  122 (306)
T ss_dssp             HHHHHHHHHHHHHC---TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHH----CTTCCHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHC---cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHH----CcccHHHHHHHHHHHHHHHHhccc
Confidence            46666666666652   224555666666666666  677777777665554    444555565544444    333  


Q ss_pred             -CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHH--HHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCC----
Q 048090          276 -GYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVK--LGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGE----  348 (447)
Q Consensus       276 -g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----  348 (447)
                       +++++++.+++++.+...+ +..+|+.-.-.+...|.++  ++++.++++.+..  +-|...|+.-...+.+.|+    
T Consensus       123 ~~~~~~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d--~~N~sAW~~R~~ll~~l~~~~~~  199 (306)
T 3dra_A          123 DFDPYREFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD--LKNNSAWSHRFFLLFSKKHLATD  199 (306)
T ss_dssp             CCCTHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHSSGGGCCH
T ss_pred             cCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhccccchh
Confidence             5677777777777765422 5666666655666666666  7777777777651  3356666665555656665    


Q ss_pred             --HHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccH-HHHHHHHHhhhC---CCchhHHHHHHHHHHhcCChHHH
Q 048090          349 --LDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFEL-GKLAAQKALELD---PHNVGIYVMLSNLYAKFCMWDEI  422 (447)
Q Consensus       349 --~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~-a~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A  422 (447)
                        ++++++.+++++..+  |.+..+|+.+...+.+.|+... +..+..++.+.+   |.++.++..++.+|.+.|+.++|
T Consensus       200 ~~~~eEl~~~~~aI~~~--p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A  277 (306)
T 3dra_A          200 NTIDEELNYVKDKIVKC--PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNES  277 (306)
T ss_dssp             HHHHHHHHHHHHHHHHC--SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHH
T ss_pred             hhHHHHHHHHHHHHHhC--CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHH
Confidence              788888888888877  8888888888888888887444 556777777665   77888888888888888888889


Q ss_pred             HHHHHHHHHcCCCCCCcccc
Q 048090          423 GQLRELMKEKGLKKDVGCSW  442 (447)
Q Consensus       423 ~~~~~~m~~~~~~p~~~~~~  442 (447)
                      .++++.+.+ .+.|-...||
T Consensus       278 ~~~~~~l~~-~~Dpir~~yW  296 (306)
T 3dra_A          278 RTVYDLLKS-KYNPIRSNFW  296 (306)
T ss_dssp             HHHHHHHHH-TTCGGGHHHH
T ss_pred             HHHHHHHHh-ccChHHHHHH
Confidence            888888764 3555555554

>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=99.28  E-value=3.2e-10  Score=85.53  Aligned_cols=133  Identities=24%  Similarity=0.344  Sum_probs=97.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 048090          264 LWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLL  343 (447)
Q Consensus       264 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  343 (447)
                      .|..+...+...|++++|..+++++.+.+ +.+...+..+...+...|++++|...++++...  .+.+...+..+...+
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~   79 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHH--CCCchHHHHHHHHHH
Confidence            45566667777777777777777776653 235566667777777777888888888777654  133466677777778


Q ss_pred             HHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCC
Q 048090          344 CRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPH  401 (447)
Q Consensus       344 ~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  401 (447)
                      ...|++++|...++++....  |.+..++..++.++...|++++|...++++++..|.
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~  135 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELD--PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPR  135 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSTT
T ss_pred             HHhcCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHHccHHHHHHHHHHHHccCCC
Confidence            88888888888888887765  666777788888888888888888888888877764

>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=99.28  E-value=4.3e-11  Score=95.42  Aligned_cols=160  Identities=9%  Similarity=0.024  Sum_probs=91.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHH-HH
Q 048090          266 TSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDL-LC  344 (447)
Q Consensus       266 ~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~  344 (447)
                      ......+.+.|++++|...|++..+.. +.+...+..+..++...|++++|...++++...   .|+...+..+... +.
T Consensus        10 ~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~---~p~~~~~~~~~~~~~~   85 (176)
T 2r5s_A           10 LKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLE---YQDNSYKSLIAKLELH   85 (176)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG---GCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc---cCChHHHHHHHHHHHH
Confidence            334444455555555555555544321 113344445555555555555555555554432   2222222111111 11


Q ss_pred             HcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCc--hhHHHHHHHHHHhcCChHHH
Q 048090          345 RAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHN--VGIYVMLSNLYAKFCMWDEI  422 (447)
Q Consensus       345 ~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A  422 (447)
                      ..+...+|...+++.++..  |++..++..++.++...|++++|...++++++.+|..  ...+..++.++...|+.++|
T Consensus        86 ~~~~~~~a~~~~~~al~~~--P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A  163 (176)
T 2r5s_A           86 QQAAESPELKRLEQELAAN--PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAI  163 (176)
T ss_dssp             HHHTSCHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHH
T ss_pred             hhcccchHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcH
Confidence            2222234667777777665  7777777777778888888888888888877777653  55777777777778888877


Q ss_pred             HHHHHHHHH
Q 048090          423 GQLRELMKE  431 (447)
Q Consensus       423 ~~~~~~m~~  431 (447)
                      ...|++...
T Consensus       164 ~~~y~~al~  172 (176)
T 2r5s_A          164 ASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            777776654

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.26  E-value=7.3e-11  Score=90.75  Aligned_cols=103  Identities=9%  Similarity=-0.034  Sum_probs=82.8

Q ss_pred             CCCC-hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHH
Q 048090          329 LEPG-PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYV  407 (447)
Q Consensus       329 ~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  407 (447)
                      +.|+ ...+..+...+.+.|++++|...|++++..+  |.+..+|..++.++...|++++|...|+++++.+|+++.+|.
T Consensus        31 l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~--P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~  108 (151)
T 3gyz_A           31 IPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD--FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVF  108 (151)
T ss_dssp             SCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHH
Confidence            3443 5566777777888888888888888888776  888888888888888888888888888888888888888888


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcC
Q 048090          408 MLSNLYAKFCMWDEIGQLRELMKEKG  433 (447)
Q Consensus       408 ~l~~~~~~~g~~~~A~~~~~~m~~~~  433 (447)
                      .++.+|...|++++|+..|++..+..
T Consensus       109 ~lg~~~~~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          109 HTGQCQLRLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            88888888888888888888887643

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.25  E-value=9.6e-11  Score=87.39  Aligned_cols=110  Identities=14%  Similarity=0.054  Sum_probs=66.8

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHH
Q 048090          298 VAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLS  377 (447)
Q Consensus       298 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~  377 (447)
                      ..+......+.+.|++++|+..|++.++.  -+.+...|..+..+|.+.|++++|+..+++.++.+  |++..+|..++.
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~--p~~~~a~~~lg~   89 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKR--DPENAILYSNRAACLTKLMEFQRALDDCDTCIRLD--SKFIKGYIRKAA   89 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh--hhhhHHHHHHHH
Confidence            34555555666666666666666666543  12235556666666666666666666666666654  556666666666


Q ss_pred             HHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHH
Q 048090          378 ACHDCGKFELGKLAAQKALELDPHNVGIYVMLSN  411 (447)
Q Consensus       378 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  411 (447)
                      ++...|++++|...|+++++.+|.+..++..+..
T Consensus        90 ~~~~~~~~~~A~~~~~~al~l~P~~~~a~~~l~~  123 (126)
T 4gco_A           90 CLVAMREWSKAQRAYEDALQVDPSNEEAREGVRN  123 (126)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHCcCCHHHHHHHHH
Confidence            6666666666666666666666666665555543

>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=99.25  E-value=1.7e-10  Score=110.23  Aligned_cols=165  Identities=12%  Similarity=-0.028  Sum_probs=125.4

Q ss_pred             cCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHH
Q 048090          237 CGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLG  316 (447)
Q Consensus       237 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a  316 (447)
                      .|++++|.+.|+++...    .+.+...|..+...+.+.|++++|...+++..+.. +.+...+..+..++...|++++|
T Consensus         2 ~g~~~~A~~~~~~al~~----~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A   76 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRH----RPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEA   76 (568)
T ss_dssp             -----------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             CccHHHHHHHHHHHHHh----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHH
Confidence            47889999999876554    45567888899999999999999999999998864 23577888888899999999999


Q ss_pred             HHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhc---CCccHHHHHHH
Q 048090          317 IEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDC---GKFELGKLAAQ  393 (447)
Q Consensus       317 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~---g~~~~a~~~~~  393 (447)
                      .+.+++..+.  .+.+...+..+..+|.+.|++++|.+.+++..+..  |++..++..++.++...   |++++|...++
T Consensus        77 ~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~  152 (568)
T 2vsy_A           77 AVLLQQASDA--APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL--PEEPYITAQLLNWRRRLCDWRALDVLSAQVR  152 (568)
T ss_dssp             HHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHH
T ss_pred             HHHHHHHHhc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhhccccHHHHHHHHH
Confidence            9999999865  13357788889999999999999999999998876  88888899999999999   99999999999


Q ss_pred             HHhhhCCCchhHHHHHH
Q 048090          394 KALELDPHNVGIYVMLS  410 (447)
Q Consensus       394 ~~~~~~~~~~~~~~~l~  410 (447)
                      ++++.+|.+...+..+.
T Consensus       153 ~al~~~p~~~~~~~~l~  169 (568)
T 2vsy_A          153 AAVAQGVGAVEPFAFLS  169 (568)
T ss_dssp             HHHHHTCCCSCHHHHTT
T ss_pred             HHHhcCCcccChHHHhC
Confidence            99999998887777665

>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=99.22  E-value=1.1e-09  Score=106.51  Aligned_cols=173  Identities=10%  Similarity=-0.035  Sum_probs=145.1

Q ss_pred             hcCCcHHHHHHHHHHHH--------HhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHH
Q 048090          198 AGLSAAEFGRQVHAYMI--------RKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSML  269 (447)
Q Consensus       198 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~  269 (447)
                      ...|++++|.+.+++..        +.   .+.+...+..+..++...|++++|...|+++...    .+.+...|..+.
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~---~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~----~p~~~~a~~~lg  474 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVD---FSESVELPLMEVRALLDLGDVAKATRKLDDLAER----VGWRWRLVWYRA  474 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------C---CTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHH----HCCCHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccc---cccchhHHHHHHHHHHhcCCHHHHHHHHHHHhcc----CcchHHHHHHHH
Confidence            67899999999999988        43   3446778889999999999999999999987765    556778899999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCC
Q 048090          270 GVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGE  348 (447)
Q Consensus       270 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~  348 (447)
                      .++...|++++|...|++..+... -+...+..+..++...|++++ ...|+++.+.   .| +...|..+..++.+.|+
T Consensus       475 ~~~~~~g~~~~A~~~~~~al~l~P-~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~---~P~~~~a~~~lg~~~~~~g~  549 (681)
T 2pzi_A          475 VAELLTGDYDSATKHFTEVLDTFP-GELAPKLALAATAELAGNTDE-HKFYQTVWST---NDGVISAAFGLARARSAEGD  549 (681)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHST-TCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHH---CTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcCChHH-HHHHHHHHHh---CCchHHHHHHHHHHHHHcCC
Confidence            999999999999999999988642 256778888899999999999 9999999865   44 57888999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCC
Q 048090          349 LDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGK  384 (447)
Q Consensus       349 ~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  384 (447)
                      +++|.+.|+++++.+  |.+..++..++.++...++
T Consensus       550 ~~~A~~~~~~al~l~--P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          550 RVGAVRTLDEVPPTS--RHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHHHHHHHHTSCTTS--TTHHHHHHHHHHHTC----
T ss_pred             HHHHHHHHHhhcccC--cccHHHHHHHHHHHHccCC
Confidence            999999999998877  8888889999999877665

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.21  E-value=3.9e-08  Score=84.71  Aligned_cols=238  Identities=7%  Similarity=-0.024  Sum_probs=185.4

Q ss_pred             HhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCC--cHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHH----Hh
Q 048090          163 CEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLS--AAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMY----GK  236 (447)
Q Consensus       163 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~----~~  236 (447)
                      ......++|+++++++...+ +-....++.--.++...+  +++++.+.++.++...   +.+..+|+.-...+    ..
T Consensus        44 ~~~e~s~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n---Pk~y~aW~~R~~iL~~~~~~  119 (306)
T 3dra_A           44 KAEEYSERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN---EKNYQIWNYRQLIIGQIMEL  119 (306)
T ss_dssp             HTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC---TTCCHHHHHHHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC---cccHHHHHHHHHHHHHHHHh
Confidence            34445578999999988864 334455676667777777  9999999999999873   34566666655555    45


Q ss_pred             c---CChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHH--HHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC
Q 048090          237 C---GLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFK--EVIKLYEAMLMNGTKPDEVAFVTVISACSHTG  311 (447)
Q Consensus       237 ~---g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~--~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~  311 (447)
                      .   +++++++.+++++...    .+.+..+|+.-.-.+.+.|.++  ++++.++++.+..+. |...|+.-...+...+
T Consensus       120 l~~~~~~~~EL~~~~~~l~~----~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~  194 (306)
T 3dra_A          120 NNNDFDPYREFDILEAMLSS----DPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKK  194 (306)
T ss_dssp             TTTCCCTHHHHHHHHHHHHH----CTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSG
T ss_pred             ccccCCHHHHHHHHHHHHHh----CCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcc
Confidence            5   7899999999988776    6778889998888888889888  999999999987644 7777777666666767


Q ss_pred             c------HHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCH-HHHHHHHHHHHhCC-CCCCchHhHHHHHHHHHhcC
Q 048090          312 Q------VKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGEL-DKAWKLINEMLDRG-HGSSSVSMWGALLSACHDCG  383 (447)
Q Consensus       312 ~------~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~~-~~p~~~~~~~~l~~~~~~~g  383 (447)
                      .      ++++++.+++++..  -+-|...|+.+...+.+.|+. +++..+..++...+ ..|.+..++..++.++.+.|
T Consensus       195 ~~~~~~~~~eEl~~~~~aI~~--~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~  272 (306)
T 3dra_A          195 HLATDNTIDEELNYVKDKIVK--CPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQK  272 (306)
T ss_dssp             GGCCHHHHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTT
T ss_pred             ccchhhhHHHHHHHHHHHHHh--CCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccC
Confidence            6      89999999999865  244688888888888888884 44666777766543 23667888999999999999


Q ss_pred             CccHHHHHHHHHhh-hCCCchhHHHHHHH
Q 048090          384 KFELGKLAAQKALE-LDPHNVGIYVMLSN  411 (447)
Q Consensus       384 ~~~~a~~~~~~~~~-~~~~~~~~~~~l~~  411 (447)
                      +.++|.++++.+.+ .+|.....|...+.
T Consensus       273 ~~~~A~~~~~~l~~~~Dpir~~yW~~~~~  301 (306)
T 3dra_A          273 KYNESRTVYDLLKSKYNPIRSNFWDYQIS  301 (306)
T ss_dssp             CHHHHHHHHHHHHHTTCGGGHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhccChHHHHHHHHHHh
Confidence            99999999999997 78998888887654

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.20  E-value=6.1e-10  Score=82.98  Aligned_cols=106  Identities=11%  Similarity=0.167  Sum_probs=94.3

Q ss_pred             CCCC-hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHH
Q 048090          329 LEPG-PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYV  407 (447)
Q Consensus       329 ~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  407 (447)
                      +.|+ ...+......|.+.|++++|++.|++.++.+  |.+..+|..++.++...|++++|...++++++.+|.++.+|.
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~   85 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRD--PENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYI   85 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHH
Confidence            4554 5667778889999999999999999999887  889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCCC
Q 048090          408 MLSNLYAKFCMWDEIGQLRELMKEKGLKKDV  438 (447)
Q Consensus       408 ~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~  438 (447)
                      .++.+|...|++++|++.|++..+  +.|+-
T Consensus        86 ~lg~~~~~~~~~~~A~~~~~~al~--l~P~~  114 (126)
T 4gco_A           86 RKAACLVAMREWSKAQRAYEDALQ--VDPSN  114 (126)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH--HCTTC
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHH--HCcCC
Confidence            999999999999999999999887  45553

>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=99.20  E-value=6.1e-10  Score=106.44  Aligned_cols=165  Identities=12%  Similarity=-0.038  Sum_probs=118.6

Q ss_pred             CCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHH
Q 048090          200 LSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFK  279 (447)
Q Consensus       200 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  279 (447)
                      .|++++|.+.+++..+.   .+.+...+..+...+...|++++|.+.|++....    .+.+...+..+..+|...|+++
T Consensus         2 ~g~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~----~p~~~~~~~~lg~~~~~~g~~~   74 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRH---RPQDFVAWLMLADAELGMGDTTAGEMAVQRGLAL----HPGHPEAVARLGRVRWTQQRHA   74 (568)
T ss_dssp             ----------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT----STTCHHHHHHHHHHHHHTTCHH
T ss_pred             CccHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh----CCCCHHHHHHHHHHHHHCCCHH
Confidence            46788899999988875   4556788888999999999999999999877664    4556778888999999999999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHc---CCHHHHHHHH
Q 048090          280 EVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRA---GELDKAWKLI  356 (447)
Q Consensus       280 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~~~A~~~~  356 (447)
                      +|...+++..+.. +.+...+..+..++...|++++|.+.|++..+.  .+.+...+..+..++...   |+.++|.+.+
T Consensus        75 ~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~  151 (568)
T 2vsy_A           75 EAAVLLQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQL--LPEEPYITAQLLNWRRRLCDWRALDVLSAQV  151 (568)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCTTHHHHHHHH
T ss_pred             HHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhhccccHHHHHHHH
Confidence            9999999988864 235778888888999999999999999998865  133477788888888888   9999999999


Q ss_pred             HHHHhCCCCCCchHhHHHHH
Q 048090          357 NEMLDRGHGSSSVSMWGALL  376 (447)
Q Consensus       357 ~~~~~~~~~p~~~~~~~~l~  376 (447)
                      ++.++.+  |.+...|..+.
T Consensus       152 ~~al~~~--p~~~~~~~~l~  169 (568)
T 2vsy_A          152 RAAVAQG--VGAVEPFAFLS  169 (568)
T ss_dssp             HHHHHHT--CCCSCHHHHTT
T ss_pred             HHHHhcC--CcccChHHHhC
Confidence            9998887  66665555444

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.20  E-value=2.2e-09  Score=89.18  Aligned_cols=208  Identities=6%  Similarity=-0.086  Sum_probs=117.7

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCC-C-cHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHH
Q 048090          153 VCANALLSGYCEAKLWAGGLELVRLMPALGLD-Y-DHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSL  230 (447)
Q Consensus       153 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l  230 (447)
                      ..+..+...+...|++++|+..|+++.+.... | ....+..+..++.+.|++++|...|+++++..|+.+.-...+..+
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            34445556666777777777777776654211 1 123455566666777777777777777776633211111233333


Q ss_pred             HHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHhc
Q 048090          231 IEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEV-AFVTVISACSH  309 (447)
Q Consensus       231 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~  309 (447)
                      ..++...|..     .+               ..|..+...+...|++++|...|+++.+.  .|+.. .......    
T Consensus        85 g~~~~~~~~~-----~~---------------~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~----  138 (225)
T 2yhc_A           85 GLTNMALDDS-----AL---------------QGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKR----  138 (225)
T ss_dssp             HHHHHHHHC----------------------------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHH----
T ss_pred             HHHHHhhhhh-----hh---------------hhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHH----
Confidence            3343332210     00               11222233344567778888888887774  33321 1111100    


Q ss_pred             cCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCch---HhHHHHHHHHHhcCCcc
Q 048090          310 TGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSV---SMWGALLSACHDCGKFE  386 (447)
Q Consensus       310 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~  386 (447)
                            ...+...+.         .....+...|.+.|++++|...|+++++..  |++.   .++..++.++.+.|+++
T Consensus       139 ------l~~~~~~~~---------~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~l~~~~~~~g~~~  201 (225)
T 2yhc_A          139 ------LVFLKDRLA---------KYEYSVAEYYTERGAWVAVVNRVEGMLRDY--PDTQATRDALPLMENAYRQMQMNA  201 (225)
T ss_dssp             ------HHHHHHHHH---------HHHHHHHHHHHHHTCHHHHHHHHHHHHHHS--TTSHHHHHHHHHHHHHHHHTTCHH
T ss_pred             ------HHHHHHHHH---------HHHHHHHHHHHHcCcHHHHHHHHHHHHHHC--cCCCccHHHHHHHHHHHHHcCCcH
Confidence                  000011110         112345677889999999999999998876  6554   46888999999999999


Q ss_pred             HHHHHHHHHhhhCCCch
Q 048090          387 LGKLAAQKALELDPHNV  403 (447)
Q Consensus       387 ~a~~~~~~~~~~~~~~~  403 (447)
                      +|...++.+....|.+.
T Consensus       202 ~A~~~~~~l~~~~~~~~  218 (225)
T 2yhc_A          202 QAEKVAKIIAANSSNTL  218 (225)
T ss_dssp             HHHHHHHHHHHCCSCCC
T ss_pred             HHHHHHHHHHhhCCCch
Confidence            99999998888777654

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.19  E-value=1.6e-09  Score=93.71  Aligned_cols=168  Identities=10%  Similarity=-0.045  Sum_probs=132.2

Q ss_pred             CCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHH
Q 048090          220 LGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVA  299 (447)
Q Consensus       220 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~  299 (447)
                      .+.+...+..+...+...|++++|...|+++...    .|.+...+..+...+.+.|++++|...++++...  .|+...
T Consensus       113 lp~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~----~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~  186 (287)
T 3qou_A          113 LPREEELXAQQAMQLMQESNYTDALPLLXDAWQL----SNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRY  186 (287)
T ss_dssp             SCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----TTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHH
T ss_pred             cCCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHh----CCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHH
Confidence            3445666777888888899999999999877665    5556778888888999999999999999888764  344433


Q ss_pred             HHH-HHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCc--hHhHHHHH
Q 048090          300 FVT-VISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSS--VSMWGALL  376 (447)
Q Consensus       300 ~~~-ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~--~~~~~~l~  376 (447)
                      ... ....+...++.+.|...+++....  -+.+...+..+...+...|++++|...++++++..  |++  ..++..++
T Consensus       187 ~~~~~~~~l~~~~~~~~a~~~l~~al~~--~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~--p~~~~~~a~~~l~  262 (287)
T 3qou_A          187 QGLVAQIELLXQAADTPEIQQLQQQVAE--NPEDAALATQLALQLHQVGRNEEALELLFGHLRXD--LTAADGQTRXTFQ  262 (287)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTGGGGHHHHHHH
T ss_pred             HHHHHHHHHHhhcccCccHHHHHHHHhc--CCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcc--cccccchHHHHHH
Confidence            222 222356777788888889888865  13457888899999999999999999999999887  665  77899999


Q ss_pred             HHHHhcCCccHHHHHHHHHhh
Q 048090          377 SACHDCGKFELGKLAAQKALE  397 (447)
Q Consensus       377 ~~~~~~g~~~~a~~~~~~~~~  397 (447)
                      ..+...|+.++|...+++.+.
T Consensus       263 ~~~~~~g~~~~a~~~~r~al~  283 (287)
T 3qou_A          263 EILAALGTGDALASXYRRQLY  283 (287)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHcCCCCcHHHHHHHHHH
Confidence            999999999999999988764

>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=99.19  E-value=3.7e-09  Score=86.84  Aligned_cols=176  Identities=9%  Similarity=-0.031  Sum_probs=129.5

Q ss_pred             HHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC----cHHHHH
Q 048090          242 KALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTG----QVKLGI  317 (447)
Q Consensus       242 ~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~----~~~~a~  317 (447)
                      +|.+.|++..+      ..+...+..+...|...+++++|+.+|++..+.|   +...+..+...|.. +    ++++|.
T Consensus         4 eA~~~~~~aa~------~g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~   73 (212)
T 3rjv_A            4 EPGSQYQQQAE------AGDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQAR   73 (212)
T ss_dssp             CTTHHHHHHHH------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHH
T ss_pred             hHHHHHHHHHH------CCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHH
Confidence            34555554433      2456677777778888888888888888887765   45666667777776 6    788888


Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHHHHH----cCCHHHHHHHHHHHHhCCCCC--CchHhHHHHHHHHHh----cCCccH
Q 048090          318 EYFEWMVHDYKLEPGPEHYSCLVDLLCR----AGELDKAWKLINEMLDRGHGS--SSVSMWGALLSACHD----CGKFEL  387 (447)
Q Consensus       318 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~p--~~~~~~~~l~~~~~~----~g~~~~  387 (447)
                      .+|++..+.    -+...+..|...|..    .+++++|..+|++..+.+  |  ..+.++..|...|..    .+++++
T Consensus        74 ~~~~~A~~~----g~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~--~~~~~~~a~~~Lg~~y~~g~g~~~d~~~  147 (212)
T 3rjv_A           74 QLAEKAVEA----GSKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDS--ESDAAVDAQMLLGLIYASGVHGPEDDVK  147 (212)
T ss_dssp             HHHHHHHHT----TCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSST--TSHHHHHHHHHHHHHHHHTSSSSCCHHH
T ss_pred             HHHHHHHHC----CCHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcC--CCcchHHHHHHHHHHHHcCCCCCCCHHH
Confidence            888888643    356667777777776    778888888888888876  4  226668888888887    778888


Q ss_pred             HHHHHHHHhhhCCCchhHHHHHHHHHHhc-C-----ChHHHHHHHHHHHHcCC
Q 048090          388 GKLAAQKALELDPHNVGIYVMLSNLYAKF-C-----MWDEIGQLRELMKEKGL  434 (447)
Q Consensus       388 a~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g-----~~~~A~~~~~~m~~~~~  434 (447)
                      |...++++.+. |.++..+..|+.+|... |     ++++|...+++..+.|.
T Consensus       148 A~~~~~~A~~~-~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          148 ASEYFKGSSSL-SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHHHHHHHT-SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHc-CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            88888888877 55666788888887654 3     78888888888887764

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.19  E-value=9.7e-10  Score=90.11  Aligned_cols=167  Identities=12%  Similarity=0.020  Sum_probs=94.0

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHH----------------HHHHHHhcCCHHHHHHHHHH
Q 048090          224 VFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTS----------------MLGVYGRNGYFKEVIKLYEA  287 (447)
Q Consensus       224 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~----------------l~~~~~~~g~~~~a~~~~~~  287 (447)
                      ...+......+...|++++|...|+++...    .|.+...|..                +..+|.+.|++++|...|++
T Consensus         4 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~----~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~   79 (208)
T 3urz_A            4 VDEMLQKVSAAIEAGQNGQAVSYFRQTIAL----NIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKE   79 (208)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----CHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHh----CCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            334455566777888888888888876554    3334455555                56666666666666666666


Q ss_pred             HHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCC--HHHHHHHHHHHHhCCC
Q 048090          288 MLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGE--LDKAWKLINEMLDRGH  364 (447)
Q Consensus       288 m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~--~~~A~~~~~~~~~~~~  364 (447)
                      ..+.. +-+...+..+..++...|++++|...|+++.+.   .| +...|..+..+|...|+  .+.+...++.....  
T Consensus        80 al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~---~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~~--  153 (208)
T 3urz_A           80 LLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQL---EADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSSP--  153 (208)
T ss_dssp             HHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---CC--
T ss_pred             HHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhCC--
Confidence            66543 124555666666666666666666666666643   33 35555556555544432  23344444444321  


Q ss_pred             CCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCC
Q 048090          365 GSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPH  401 (447)
Q Consensus       365 ~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  401 (447)
                       ++....+..++.++...|++++|...|+++++..|.
T Consensus       154 -~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P~  189 (208)
T 3urz_A          154 -TKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFPS  189 (208)
T ss_dssp             -CHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSCC
T ss_pred             -CchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC
Confidence             112223444555555666666666666666666664

>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=99.19  E-value=9.8e-10  Score=87.45  Aligned_cols=163  Identities=11%  Similarity=0.038  Sum_probs=122.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 048090          226 MQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVIS  305 (447)
Q Consensus       226 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  305 (447)
                      ....+...+...|++++|...|+++...    .|.+...+..+..++...|++++|...+++.....  |+...+..+..
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~----~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~   81 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDE----LQSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAK   81 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHH----HHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH----CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHH
Confidence            4556677788889999999999876654    45567788888888999999999999998876643  34433322221


Q ss_pred             H-HhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcC
Q 048090          306 A-CSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCG  383 (447)
Q Consensus       306 ~-~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  383 (447)
                      . +...+....|...+++..+.   .| +...+..+..++...|++++|...++++++..-.+.+..++..++.++...|
T Consensus        82 ~~~~~~~~~~~a~~~~~~al~~---~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g  158 (176)
T 2r5s_A           82 LELHQQAAESPELKRLEQELAA---NPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALG  158 (176)
T ss_dssp             HHHHHHHTSCHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHC
T ss_pred             HHHHhhcccchHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhC
Confidence            1 12222334578888888865   45 5888899999999999999999999999988722223557899999999999


Q ss_pred             CccHHHHHHHHHhh
Q 048090          384 KFELGKLAAQKALE  397 (447)
Q Consensus       384 ~~~~a~~~~~~~~~  397 (447)
                      +.++|...|++++.
T Consensus       159 ~~~~A~~~y~~al~  172 (176)
T 2r5s_A          159 QGNAIASKYRRQLY  172 (176)
T ss_dssp             SSCHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHH
Confidence            99999999998764

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.18  E-value=3.2e-08  Score=92.02  Aligned_cols=368  Identities=9%  Similarity=-0.016  Sum_probs=206.5

Q ss_pred             HHhhhhhhhhhcccccCCcchHHHhhccCC--CCCCccHHHHHHHHHhCCC-hhhHHHHHHHHHhc-CCC-CchhhHHHH
Q 048090           18 IFQSRLMLPYTTCRHKKNLGTLTNCLKFLN--PRNPLPFNVVISDFCRNGS-PLYALKTFSFMHVH-GIF-LDTYALCSS   92 (447)
Q Consensus        18 ~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~m~~~-~~~-p~~~~~~~l   92 (447)
                      .+|...+..|-.    ++.+.+..+|++..  .|++..|...+....+.++ .+....+|+..+.. |.. ++...|...
T Consensus        16 ~vyer~l~~~P~----~~~e~~~~iferal~~~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Y   91 (493)
T 2uy1_A           16 AIMEHARRLYMS----KDYRSLESLFGRCLKKSYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEY   91 (493)
T ss_dssp             HHHHHHHHHHHT----TCHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHH
T ss_pred             HHHHHHHHHCCC----CCHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHH
Confidence            455555555543    35667777776643  2566666666666555542 34555666665543 322 244555555


Q ss_pred             HHHhcc----CCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCCCCchhhHHHHHHHHHhcCCH
Q 048090           93 LTASTS----VKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLW  168 (447)
Q Consensus        93 l~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~  168 (447)
                      +..+..    .++++.+..+|+..++.....-...|...... ........+..++               ...  .+.+
T Consensus        92 i~f~~~~~~~~~~~~~vR~iy~rAL~~P~~~~~~lw~~Y~~f-E~~~~~~~~~~~~---------------~~~--~~~y  153 (493)
T 2uy1_A           92 IEEEGKIEDEQTRIEKIRNGYMRALQTPMGSLSELWKDFENF-ELELNKITGKKIV---------------GDT--LPIF  153 (493)
T ss_dssp             HHHTSSCSSHHHHHHHHHHHHHHHHTSCCTTHHHHHHHHHHH-HHHHCHHHHHHHH---------------HHH--HHHH
T ss_pred             HHHHHhchhhhHHHHHHHHHHHHHHhChhhhHHHHHHHHHHH-HHHhccccHHHHH---------------HHH--hHHH
Confidence            554432    34566666777776652111111122211111 1111111111111               111  1223


Q ss_pred             HHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcC----Cc---HHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChH
Q 048090          169 AGGLELVRLMPALGLDYDHFTLSALLRACAGL----SA---AEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVT  241 (447)
Q Consensus       169 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~---~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  241 (447)
                      ..|..+++++...--..+...|...+.--...    .+   .+.+..+|++++..   .+.+...|...+..+.+.|+++
T Consensus       154 ~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~---~p~~~~lW~~ya~~~~~~~~~~  230 (493)
T 2uy1_A          154 QSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDS---FYYAEEVYFFYSEYLIGIGQKE  230 (493)
T ss_dssp             HHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH---TTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHc---CCCCHHHHHHHHHHHHHcCCHH
Confidence            33444444333210001222344333332211    11   34567889988886   4456788888888889999999


Q ss_pred             HHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC---------CCC---CHHHHHHHHHHHhc
Q 048090          242 KALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNG---------TKP---DEVAFVTVISACSH  309 (447)
Q Consensus       242 ~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~---------~~p---~~~~~~~ll~~~~~  309 (447)
                      +|..+|++....     |.+...|..    |....+.++.   ++.+.+.-         ..+   ....|...+....+
T Consensus       231 ~ar~i~erAi~~-----P~~~~l~~~----y~~~~e~~~~---~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r  298 (493)
T 2uy1_A          231 KAKKVVERGIEM-----SDGMFLSLY----YGLVMDEEAV---YGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLK  298 (493)
T ss_dssp             HHHHHHHHHHHH-----CCSSHHHHH----HHHHTTCTHH---HHHHHHHTC----------CHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-----CCcHHHHHH----HHhhcchhHH---HHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHH
Confidence            999999976553     233333322    2222111222   22222210         011   12456666776667


Q ss_pred             cCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcC-CHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHH
Q 048090          310 TGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAG-ELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELG  388 (447)
Q Consensus       310 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  388 (447)
                      .+..+.|..+|+++ .. . ..+...|......-...+ +.+.|..+|+..++..  |+++..+...+......|+.+.|
T Consensus       299 ~~~~~~AR~i~~~A-~~-~-~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~--~~~~~~~~~yid~e~~~~~~~~a  373 (493)
T 2uy1_A          299 KRGLELFRKLFIEL-GN-E-GVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKH--PDSTLLKEEFFLFLLRIGDEENA  373 (493)
T ss_dssp             HHCHHHHHHHHHHH-TT-S-CCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             cCCHHHHHHHHHHh-hC-C-CCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHH
Confidence            88899999999998 32 1 234445543333333333 6999999999998865  66666677788888889999999


Q ss_pred             HHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          389 KLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       389 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      ..+|+++    +.....|...+..-...|+.+.+.++++++.+
T Consensus       374 R~l~er~----~k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          374 RALFKRL----EKTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHHS----CCBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHH----HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            9999987    34678899999888888999999998888875

>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=99.16  E-value=3.2e-09  Score=92.80  Aligned_cols=230  Identities=9%  Similarity=-0.025  Sum_probs=150.9

Q ss_pred             hcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhc-CCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHH
Q 048090          164 EAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAG-LSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTK  242 (447)
Q Consensus       164 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  242 (447)
                      ..|++++|.+++++..+.. +..          +.+ .++++.|...|...                 ...|...|++++
T Consensus         3 ~~~~~~eA~~~~~~a~k~~-~~~----------~~~~~~~~~~A~~~~~~a-----------------~~~~~~~g~~~~   54 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYL-KTS----------FMKWKPDYDSAASEYAKA-----------------AVAFKNAKQLEQ   54 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHH-CCC----------SSSCSCCHHHHHHHHHHH-----------------HHHHHHTTCHHH
T ss_pred             ccchHHHHHHHHHHHHHHc-ccc----------ccCCCCCHHHHHHHHHHH-----------------HHHHHHcCCHHH
Confidence            3567788888888776531 110          112 46666666666554                 345667788888


Q ss_pred             HHHHHHhhhhhcccCCCc--chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC---CCCC--HHHHHHHHHHHhccCcHHH
Q 048090          243 ALQVFNLAGHRLEGEINK--DVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNG---TKPD--EVAFVTVISACSHTGQVKL  315 (447)
Q Consensus       243 A~~~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~---~~p~--~~~~~~ll~~~~~~~~~~~  315 (447)
                      |...|.++.........+  -..+|+.+..+|.+.|++++|+..|++..+.-   -.|.  ..++..+...|.. |++++
T Consensus        55 A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~  133 (307)
T 2ifu_A           55 AKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSK  133 (307)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHH
Confidence            888887665542221111  13467778888888888888888888765431   1121  3567777788877 99999


Q ss_pred             HHHHHHHHHHhcCCCC----ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCC----CCCCchHhHHHHHHHHHhcCCccH
Q 048090          316 GIEYFEWMVHDYKLEP----GPEHYSCLVDLLCRAGELDKAWKLINEMLDRG----HGSSSVSMWGALLSACHDCGKFEL  387 (447)
Q Consensus       316 a~~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~----~~p~~~~~~~~l~~~~~~~g~~~~  387 (447)
                      |+..|++......-..    ...++..+...|.+.|++++|+..+++.+...    ..+....++..++.++...|++++
T Consensus       134 A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~  213 (307)
T 2ifu_A          134 AVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVA  213 (307)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHH
Confidence            9999888765321111    14567788888999999999999998887642    111112356777778888899999


Q ss_pred             HHHHHHHHhhhCCCch-----hHHHHHHHHHHhcCChHHHHH
Q 048090          388 GKLAAQKALELDPHNV-----GIYVMLSNLYAKFCMWDEIGQ  424 (447)
Q Consensus       388 a~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~g~~~~A~~  424 (447)
                      |...+++++ ..|...     .....++.++ ..|+.+.+.+
T Consensus       214 A~~~~~~al-~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          214 AQKCVRESY-SIPGFSGSEDCAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHHHHHHT-TSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HHHHHHHHh-CCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHH
Confidence            999999998 777532     2344555555 5677666655

>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=99.16  E-value=2.2e-10  Score=88.13  Aligned_cols=101  Identities=10%  Similarity=-0.078  Sum_probs=48.2

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHH
Q 048090          299 AFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSA  378 (447)
Q Consensus       299 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~  378 (447)
                      .+..+...+...|++++|...|+++...  -+.+...|..+..+|...|++++|...|++++..+  |++..++..++.+
T Consensus        23 ~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~lg~~   98 (148)
T 2vgx_A           23 QLYSLAFNQYQSGXYEDAHXVFQALCVL--DHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD--IXEPRFPFHAAEC   98 (148)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHc--CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC--CCCchHHHHHHHH
Confidence            3334444444555555555555554432  11234444444445555555555555555554443  4444445555555


Q ss_pred             HHhcCCccHHHHHHHHHhhhCCCch
Q 048090          379 CHDCGKFELGKLAAQKALELDPHNV  403 (447)
Q Consensus       379 ~~~~g~~~~a~~~~~~~~~~~~~~~  403 (447)
                      +...|++++|...|+++++..|.++
T Consensus        99 ~~~~g~~~~A~~~~~~al~~~p~~~  123 (148)
T 2vgx_A           99 LLQXGELAEAESGLFLAQELIANXP  123 (148)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHTTCG
T ss_pred             HHHcCCHHHHHHHHHHHHHHCcCCC
Confidence            5555555555555555555444443

>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=99.15  E-value=1.5e-09  Score=89.36  Aligned_cols=134  Identities=9%  Similarity=-0.012  Sum_probs=108.5

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 048090          262 VVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVD  341 (447)
Q Consensus       262 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  341 (447)
                      ...+..+...+...|++++|...|++.    +.|+...+..+..++...|++++|...|++....  .+.+...+..+..
T Consensus         6 ~~~~~~~g~~~~~~~~~~~A~~~~~~a----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~lg~   79 (213)
T 1hh8_A            6 AISLWNEGVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINR--DKHLAVAYFQRGM   79 (213)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHH----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHH
Confidence            344566777888889999999988877    3567788888888888999999999999888765  1345778888888


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCch----------------HhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCch
Q 048090          342 LLCRAGELDKAWKLINEMLDRGHGSSSV----------------SMWGALLSACHDCGKFELGKLAAQKALELDPHNV  403 (447)
Q Consensus       342 ~~~~~g~~~~A~~~~~~~~~~~~~p~~~----------------~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  403 (447)
                      +|...|++++|...+++..+..  |.+.                .++..++.++...|++++|...++++++..|.+.
T Consensus        80 ~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~  155 (213)
T 1hh8_A           80 LYYQTEKYDLAIKDLKEALIQL--RGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEPR  155 (213)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTT--TTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSGG
T ss_pred             HHHHcccHHHHHHHHHHHHHhC--CCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCcccc
Confidence            8999999999999999888765  5444                6788888899999999999999999998888763

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.14  E-value=5e-08  Score=90.71  Aligned_cols=326  Identities=8%  Similarity=-0.114  Sum_probs=190.7

Q ss_pred             CChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCc-hhHHHHHHHHHHHc-CC-CCchhhHHHHHHHHH----ccCCh
Q 048090           65 GSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKD-ARFGKQVQAHVTKS-GW-LSSVFVGSALIDLYA----KLLLI  137 (447)
Q Consensus        65 ~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~-~~~a~~~~~~~~~~-~~-~~~~~~~~~l~~~~~----~~g~~  137 (447)
                      |+++.+..+|++.+..  .|+...|...+....+.++ .+....+|+..+.. |. +.+...|...+..+.    ..+++
T Consensus        28 ~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~  105 (493)
T 2uy1_A           28 KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRI  105 (493)
T ss_dssp             TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHH
T ss_pred             CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHH
Confidence            7888888888888774  4688888777776655553 35566677776653 42 235566666665543    23456


Q ss_pred             hhHHHHhccCCC-CchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHh
Q 048090          138 HDAELMFDEIPV-KNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRK  216 (447)
Q Consensus       138 ~~a~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  216 (447)
                      +.+.++|++... |. ..+..+-.             .|..+...   .+..+...++....  +.+..|..+++.+...
T Consensus       106 ~~vR~iy~rAL~~P~-~~~~~lw~-------------~Y~~fE~~---~~~~~~~~~~~~~~--~~y~~ar~~y~~~~~~  166 (493)
T 2uy1_A          106 EKIRNGYMRALQTPM-GSLSELWK-------------DFENFELE---LNKITGKKIVGDTL--PIFQSSFQRYQQIQPL  166 (493)
T ss_dssp             HHHHHHHHHHHTSCC-TTHHHHHH-------------HHHHHHHH---HCHHHHHHHHHHHH--HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhChh-hhHHHHHH-------------HHHHHHHH---hccccHHHHHHHHh--HHHHHHHHHHHHHHHH
Confidence            667777766542 21 11111111             11111111   01111111111111  2344555555555543


Q ss_pred             hhcCCCChhHHHHHHHHHHhcC--C-----hHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 048090          217 CCNLGNDVFMQSSLIEMYGKCG--L-----VTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAML  289 (447)
Q Consensus       217 ~~~~~~~~~~~~~l~~~~~~~g--~-----~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  289 (447)
                      -++  .+...|...+..-...+  -     .+.+..+|+++...    .+.+...|...+..+.+.|+.++|..++++..
T Consensus       167 ~~~--~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~----~p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi  240 (493)
T 2uy1_A          167 IRG--WSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDS----FYYAEEVYFFYSEYLIGIGQKEKAKKVVERGI  240 (493)
T ss_dssp             HHT--CSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH----TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             Hhh--ccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHc----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            111  13345555554432221  1     34567788876554    55667889888888899999999999999999


Q ss_pred             hCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcC--------CCC---ChhhHHHHHHHHHHcCCHHHHHHHHHH
Q 048090          290 MNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYK--------LEP---GPEHYSCLVDLLCRAGELDKAWKLINE  358 (447)
Q Consensus       290 ~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--------~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~  358 (447)
                      ..   |....+......+...+   +   +++.+.+..-        ..+   ....|...+..+.+.+..+.|..+|++
T Consensus       241 ~~---P~~~~l~~~y~~~~e~~---~---~~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~  311 (493)
T 2uy1_A          241 EM---SDGMFLSLYYGLVMDEE---A---VYGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIE  311 (493)
T ss_dssp             HH---CCSSHHHHHHHHHTTCT---H---HHHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHH
T ss_pred             hC---CCcHHHHHHHHhhcchh---H---HHHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            87   44332222111111212   1   1333322210        011   135577777777788899999999999


Q ss_pred             HHhCCCCCCchHhHHHHHHHHHhcC-CccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHH
Q 048090          359 MLDRGHGSSSVSMWGALLSACHDCG-KFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELM  429 (447)
Q Consensus       359 ~~~~~~~p~~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  429 (447)
                      + ...  +.....|...+..-...+ +.+.|..+|+.+++..|.++..+...++...+.|+.+.|..+|+++
T Consensus       312 A-~~~--~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~~~~~~~~~~yid~e~~~~~~~~aR~l~er~  380 (493)
T 2uy1_A          312 L-GNE--GVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKHPDSTLLKEEFFLFLLRIGDEENARALFKRL  380 (493)
T ss_dssp             H-TTS--CCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHS
T ss_pred             h-hCC--CCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9 322  223344544333333334 6999999999999998988888888899889999999999999886

>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=99.14  E-value=2.4e-09  Score=84.07  Aligned_cols=130  Identities=9%  Similarity=0.028  Sum_probs=109.5

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHH
Q 048090          298 VAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLS  377 (447)
Q Consensus       298 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~  377 (447)
                      ..+..+...+...|++++|...|++....  .+.+...+..+..++...|++++|...+++.....  |.+..++..++.
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~a~   89 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD--KKYIKGYYRRAA   89 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cccHHHHHHHHH
Confidence            45666777788888999999998888765  23357788888899999999999999999998876  888888999999


Q ss_pred             HHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHH--HHhcCChHHHHHHHHHHHH
Q 048090          378 ACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNL--YAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       378 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~A~~~~~~m~~  431 (447)
                      ++...|++++|...++++++..|.+...+..+..+  +...|++++|++.+++...
T Consensus        90 ~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           90 SNMALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            99999999999999999999999988887555554  7888999999999887754

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.13  E-value=3.8e-09  Score=86.54  Aligned_cols=126  Identities=13%  Similarity=-0.020  Sum_probs=70.5

Q ss_pred             HHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc
Q 048090          230 LIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSH  309 (447)
Q Consensus       230 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  309 (447)
                      +..+|.+.|++++|...|++....    .|.+...+..+..++...|++++|...|++..+.. +-+..++..+..++..
T Consensus        60 lg~~~~~~g~~~~A~~~~~~al~~----~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~  134 (208)
T 3urz_A           60 LALAYKKNRNYDKAYLFYKELLQK----APNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYL  134 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH----CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHH----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHH
Confidence            666666667777777666665554    44456666666666677777777777777666643 1245556566555544


Q ss_pred             cCc--HHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 048090          310 TGQ--VKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRG  363 (447)
Q Consensus       310 ~~~--~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  363 (447)
                      .|.  .+.+...++...   ...|....+..+..++...|++++|...|++.++..
T Consensus       135 ~~~~~~~~~~~~~~~~~---~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~  187 (208)
T 3urz_A          135 TAEQEKKKLETDYKKLS---SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRF  187 (208)
T ss_dssp             HHHHHHHHHHHHHC------CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTS
T ss_pred             HhHHHHHHHHHHHHHHh---CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            433  333444444432   112222233334445556677777777777776654

>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=99.11  E-value=2.8e-08  Score=81.52  Aligned_cols=176  Identities=11%  Similarity=-0.087  Sum_probs=134.8

Q ss_pred             HHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcC----CHHH
Q 048090          205 FGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNG----YFKE  280 (447)
Q Consensus       205 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g----~~~~  280 (447)
                      +|.+.|++..+.  +   ++..+..+...|...+++++|...|++....      .+...+..+...|.. +    ++++
T Consensus         4 eA~~~~~~aa~~--g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~------g~~~a~~~lg~~y~~-~g~~~~~~~   71 (212)
T 3rjv_A            4 EPGSQYQQQAEA--G---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQ------GDGDALALLAQLKIR-NPQQADYPQ   71 (212)
T ss_dssp             CTTHHHHHHHHT--T---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHT------TCHHHHHHHHHHTTS-STTSCCHHH
T ss_pred             hHHHHHHHHHHC--C---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHc------CCHHHHHHHHHHHHc-CCCCCCHHH
Confidence            466677777665  3   6777788888888888899998888866442      356677777777777 6    8899


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHhc----cCcHHHHHHHHHHHHHhcCCCCC---hhhHHHHHHHHHH----cCCH
Q 048090          281 VIKLYEAMLMNGTKPDEVAFVTVISACSH----TGQVKLGIEYFEWMVHDYKLEPG---PEHYSCLVDLLCR----AGEL  349 (447)
Q Consensus       281 a~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~----~g~~  349 (447)
                      |..+|++..+.|   +...+..|...|..    .+++++|..+|++..+.   .|+   ...+..|...|..    .+++
T Consensus        72 A~~~~~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~---~~~~~~~~a~~~Lg~~y~~g~g~~~d~  145 (212)
T 3rjv_A           72 ARQLAEKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARD---SESDAAVDAQMLLGLIYASGVHGPEDD  145 (212)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSS---TTSHHHHHHHHHHHHHHHHTSSSSCCH
T ss_pred             HHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHc---CCCcchHHHHHHHHHHHHcCCCCCCCH
Confidence            999999987765   55677777777776    78899999999988643   443   6778888888888    7889


Q ss_pred             HHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhc-C-----CccHHHHHHHHHhhhCCC
Q 048090          350 DKAWKLINEMLDRGHGSSSVSMWGALLSACHDC-G-----KFELGKLAAQKALELDPH  401 (447)
Q Consensus       350 ~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~-g-----~~~~a~~~~~~~~~~~~~  401 (447)
                      ++|..+|++..+.   |.+..++..|...|... |     ++++|...++++.+.+.+
T Consensus       146 ~~A~~~~~~A~~~---~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~~  200 (212)
T 3rjv_A          146 VKASEYFKGSSSL---SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGFD  200 (212)
T ss_dssp             HHHHHHHHHHHHT---SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHHc---CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCCH
Confidence            9999999999887   22445678888888653 3     889999999999887754

>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=99.10  E-value=8.5e-09  Score=90.12  Aligned_cols=231  Identities=10%  Similarity=-0.075  Sum_probs=156.1

Q ss_pred             ccCChhhHHHHhccCCCCchhhHHHHHHHHHh-cCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHH
Q 048090          133 KLLLIHDAELMFDEIPVKNSVCANALLSGYCE-AKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHA  211 (447)
Q Consensus       133 ~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  211 (447)
                      ..|++++|.+++++..+.....       +.+ .++++.|...|.+.               ...+...|++++|...+.
T Consensus         3 ~~~~~~eA~~~~~~a~k~~~~~-------~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~~   60 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYLKTS-------FMKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKDAYL   60 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCCC-------SSSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHcccc-------ccCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHH
Confidence            3567778888877654211111       112 47788887777664               345667889999999988


Q ss_pred             HHHHhhhcCCC---ChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCc--chhhHHHHHHHHHhcCCHHHHHHHHH
Q 048090          212 YMIRKCCNLGN---DVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINK--DVVLWTSMLGVYGRNGYFKEVIKLYE  286 (447)
Q Consensus       212 ~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~  286 (447)
                      +.....+....   -..+++.+..+|...|++++|...|++..........+  ...++..+...|.. |++++|+..|+
T Consensus        61 ~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~  139 (307)
T 2ifu_A           61 QEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQ  139 (307)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHH
Confidence            88776332221   13477888889999999999999998776553222222  24567788888888 99999999999


Q ss_pred             HHHhCCC---CC--CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhc---CCCCC-hhhHHHHHHHHHHcCCHHHHHHHHH
Q 048090          287 AMLMNGT---KP--DEVAFVTVISACSHTGQVKLGIEYFEWMVHDY---KLEPG-PEHYSCLVDLLCRAGELDKAWKLIN  357 (447)
Q Consensus       287 ~m~~~~~---~p--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~  357 (447)
                      +..+...   .+  ...++..+...+...|++++|+..|++.....   +..+. ...+..+..++...|++++|...|+
T Consensus       140 ~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~  219 (307)
T 2ifu_A          140 QAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVR  219 (307)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            8875311   11  14578888889999999999999999987531   11111 2356667777888899999999999


Q ss_pred             HHHhCCCCCCchH-----hHHHHHHHHHhcCCccHHHH
Q 048090          358 EMLDRGHGSSSVS-----MWGALLSACHDCGKFELGKL  390 (447)
Q Consensus       358 ~~~~~~~~p~~~~-----~~~~l~~~~~~~g~~~~a~~  390 (447)
                      +.+ ..  |....     ....++.++ ..|+.+.+..
T Consensus       220 ~al-~~--p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          220 ESY-SI--PGFSGSEDCAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHT-TS--TTSTTSHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HHh-CC--CCCCCCHHHHHHHHHHHHH-HhcCHHHHHH
Confidence            998 53  43222     234455555 5667655555

>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=99.09  E-value=1.8e-09  Score=95.56  Aligned_cols=97  Identities=20%  Similarity=0.063  Sum_probs=86.8

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHH
Q 048090          333 PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNL  412 (447)
Q Consensus       333 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  412 (447)
                      ...|..+..+|.+.|++++|+..++++++..  |++..++..++.++...|++++|...|+++++..|.+..++..+..+
T Consensus       196 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~  273 (336)
T 1p5q_A          196 LASHLNLAMCHLKLQAFSAAIESCNKALELD--SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVC  273 (336)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            4678888999999999999999999999887  88999999999999999999999999999999999999999999999


Q ss_pred             HHhcCChHHH-HHHHHHHHH
Q 048090          413 YAKFCMWDEI-GQLRELMKE  431 (447)
Q Consensus       413 ~~~~g~~~~A-~~~~~~m~~  431 (447)
                      +.+.|++++| ...+++|..
T Consensus       274 ~~~~~~~~~a~~~~~~~~~~  293 (336)
T 1p5q_A          274 QQRIRRQLAREKKLYANMFE  293 (336)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            9999999988 456666643

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=99.09  E-value=1.6e-08  Score=87.83  Aligned_cols=166  Identities=11%  Similarity=0.024  Sum_probs=111.7

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-----HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCC--CCC--h
Q 048090          263 VLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDE-----VAFVTVISACSHTGQVKLGIEYFEWMVHDYKL--EPG--P  333 (447)
Q Consensus       263 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~-----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~--~  333 (447)
                      ..+...+..+...|++++|.+.+.+..+.....+.     ..+..+...+...|++++|...+++......-  .+.  .
T Consensus        76 ~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~  155 (293)
T 2qfc_A           76 KQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNL  155 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHH
Confidence            34455566777778888888877777664322111     22334455566777888888888877643111  111  3


Q ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHH---hCCCCCCc----hHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCC-----
Q 048090          334 EHYSCLVDLLCRAGELDKAWKLINEML---DRGHGSSS----VSMWGALLSACHDCGKFELGKLAAQKALELDPH-----  401 (447)
Q Consensus       334 ~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~p~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-----  401 (447)
                      .+|+.+...|...|++++|...++++.   +..  |++    ..++..++.+|...|++++|...++++++..+.     
T Consensus       156 ~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~--~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~  233 (293)
T 2qfc_A          156 YIENAIANIYAENGYLKKGIDLFEQILKQLEAL--HDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMA  233 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhc--CccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHH
Confidence            467778888888888888888888876   222  221    146788888888888888888888888775421     


Q ss_pred             -chhHHHHHHHHHHhcCChHHH-HHHHHHHH
Q 048090          402 -NVGIYVMLSNLYAKFCMWDEI-GQLRELMK  430 (447)
Q Consensus       402 -~~~~~~~l~~~~~~~g~~~~A-~~~~~~m~  430 (447)
                       -..+|..++.+|.+.|++++| ...+++..
T Consensus       234 ~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          234 LIGQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             SHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence             256788888888888888888 66676654

>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=99.09  E-value=9.9e-09  Score=89.06  Aligned_cols=166  Identities=13%  Similarity=0.040  Sum_probs=126.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCCH----HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC----hhhH
Q 048090          266 TSMLGVYGRNGYFKEVIKLYEAMLMNGT-KPDE----VAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG----PEHY  336 (447)
Q Consensus       266 ~~l~~~~~~~g~~~~a~~~~~~m~~~~~-~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~  336 (447)
                      ...+..+...|++++|..++++..+... .|+.    ..+..+...+...+++++|...|+++.....-.++    ..++
T Consensus        79 ~~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~  158 (293)
T 3u3w_A           79 KDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIE  158 (293)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHH
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHH
Confidence            3346778888999999999999877432 2232    13334666777888999999999999864211223    2368


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHh----C-CCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCC------chhH
Q 048090          337 SCLVDLLCRAGELDKAWKLINEMLD----R-GHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPH------NVGI  405 (447)
Q Consensus       337 ~~l~~~~~~~g~~~~A~~~~~~~~~----~-~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~------~~~~  405 (447)
                      +.+...|...|++++|...++++++    . +..+....++..++.+|...|++++|...++++++..+.      -..+
T Consensus       159 ~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~  238 (293)
T 3u3w_A          159 NAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQL  238 (293)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHH
Confidence            8899999999999999999999873    1 222334457899999999999999999999999886532      2678


Q ss_pred             HHHHHHHHHhcCC-hHHHHHHHHHHHH
Q 048090          406 YVMLSNLYAKFCM-WDEIGQLRELMKE  431 (447)
Q Consensus       406 ~~~l~~~~~~~g~-~~~A~~~~~~m~~  431 (447)
                      |..++.+|.+.|+ +++|.+.+++...
T Consensus       239 ~~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          239 YYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            9999999999995 6999999988765

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=99.08  E-value=4.6e-09  Score=78.62  Aligned_cols=120  Identities=13%  Similarity=0.041  Sum_probs=96.9

Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHH
Q 048090          296 DEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGAL  375 (447)
Q Consensus       296 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l  375 (447)
                      +...+..+...+...|+++.|...++++...  .+.+...+..+..++...|++++|...+++.....  |++..++..+
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~   86 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIEL--NPANAVYFCNRAAAYSKLGNYAGAVQDCERAICID--PAYSKAYGRM   86 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC--ccCHHHHHHH
Confidence            3456666777777888888888888887764  13356777888888888889999998888888775  7778888888


Q ss_pred             HHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCCh
Q 048090          376 LSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMW  419 (447)
Q Consensus       376 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  419 (447)
                      +.++...|++++|...++++++..|.+...+..++.++.+.|++
T Consensus        87 ~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           87 GLALSSLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhcC
Confidence            88999999999999999999998888888888888888887765

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=99.07  E-value=6.7e-09  Score=76.96  Aligned_cols=117  Identities=24%  Similarity=0.269  Sum_probs=87.4

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHH
Q 048090          297 EVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALL  376 (447)
Q Consensus       297 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~  376 (447)
                      ...+..+...+...|++++|...++++.+.  .+.+...+..+...+.+.|++++|..+++++....  |.+..++..++
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la   84 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD--PNNAEAWYNLG   84 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC--CccHHHHHHHH
Confidence            455666667777777777777777777654  13346667777778888888888888888887765  66777788888


Q ss_pred             HHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcC
Q 048090          377 SACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFC  417 (447)
Q Consensus       377 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  417 (447)
                      .++...|++++|...++++++..|.++..+..+..++.+.|
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  125 (125)
T 1na0_A           85 NAYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQKQG  125 (125)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhcc
Confidence            88888888888888888888888888877777777665543

>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=99.07  E-value=1.5e-09  Score=86.51  Aligned_cols=127  Identities=9%  Similarity=0.097  Sum_probs=71.3

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHH-HHHcCCH--
Q 048090          273 GRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDL-LCRAGEL--  349 (447)
Q Consensus       273 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~--  349 (447)
                      ...|++++|...+++..+.. +.+...+..+...+...|++++|...|+++.+..  +.+...+..+..+ +...|++  
T Consensus        21 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR--GENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--CSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhcCCcch
Confidence            34556666666666655542 2244555666666666666666666666665431  2234555555555 5556665  


Q ss_pred             HHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchh
Q 048090          350 DKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVG  404 (447)
Q Consensus       350 ~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  404 (447)
                      ++|...+++++..+  |.+..++..++.++...|++++|...++++++..|++..
T Consensus        98 ~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~  150 (177)
T 2e2e_A           98 AQTRAMIDKALALD--SNEITALMLLASDAFMQANYAQAIELWQKVMDLNSPRIN  150 (177)
T ss_dssp             HHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTSC
T ss_pred             HHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCCcc
Confidence            66666666666554  555555666666666666666666666666666665543

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=99.06  E-value=2.8e-09  Score=81.43  Aligned_cols=101  Identities=8%  Similarity=-0.103  Sum_probs=50.0

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHH
Q 048090          300 FVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSAC  379 (447)
Q Consensus       300 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~  379 (447)
                      +..+...+...|++++|...|+++...  -+.+...|..+..+|.+.|++++|...|++.+..+  |++..++..++.++
T Consensus        21 ~~~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~   96 (142)
T 2xcb_A           21 LYALGFNQYQAGKWDDAQKIFQALCML--DHYDARYFLGLGACRQSLGLYEQALQSYSYGALMD--INEPRFPFHAAECH   96 (142)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC--CCCcHHHHHHHHHH
Confidence            333444444555555555555555433  11234444455555555555555555555555444  44445555555555


Q ss_pred             HhcCCccHHHHHHHHHhhhCCCchh
Q 048090          380 HDCGKFELGKLAAQKALELDPHNVG  404 (447)
Q Consensus       380 ~~~g~~~~a~~~~~~~~~~~~~~~~  404 (447)
                      ...|++++|...++++++..|.++.
T Consensus        97 ~~~g~~~~A~~~~~~al~~~p~~~~  121 (142)
T 2xcb_A           97 LQLGDLDGAESGFYSARALAAAQPA  121 (142)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHTCGG
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCCcc
Confidence            5555555555555555555544443

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=99.06  E-value=4.3e-09  Score=79.13  Aligned_cols=118  Identities=13%  Similarity=0.043  Sum_probs=80.8

Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHH
Q 048090          296 DEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGAL  375 (447)
Q Consensus       296 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l  375 (447)
                      +...+..+...+...|++++|...|++..+.  .+.+...+..+..++...|++++|...++++.+..  |.+..++..+
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~l   90 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKR--NPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE--PTFIKGYTRK   90 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTT--CTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC--TTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCchHHHHHH
Confidence            3455556666666666666666666666532  12245666666677777777777777777777655  6666677777


Q ss_pred             HHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcC
Q 048090          376 LSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFC  417 (447)
Q Consensus       376 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  417 (447)
                      +.++...|++++|...++++++..|.+...+..+..++...|
T Consensus        91 a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           91 AAALEAMKDYTKAMDVYQKALDLDSSCKEAADGYQRCMMAQY  132 (133)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCGGGTHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhc
Confidence            777777777777777777777777777777777777766655

>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=99.04  E-value=3.5e-09  Score=78.96  Aligned_cols=109  Identities=10%  Similarity=0.005  Sum_probs=56.6

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHH
Q 048090          299 AFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSA  378 (447)
Q Consensus       299 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~  378 (447)
                      .+..+...+...|++++|...|++..+.  .+.+...|..+..++.+.|++++|+..+++.++.+  |++..+|..++.+
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~   81 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD--PNFVRAYIRKATA   81 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCcHHHHHHHHHH
Confidence            3444444555555555555555555543  12234455555555555555555555555555544  5555555555555


Q ss_pred             HHhcCCccHHHHHHHHHhhhC------CCchhHHHHHHH
Q 048090          379 CHDCGKFELGKLAAQKALELD------PHNVGIYVMLSN  411 (447)
Q Consensus       379 ~~~~g~~~~a~~~~~~~~~~~------~~~~~~~~~l~~  411 (447)
                      +...|++++|...++++++..      |.+..++..+..
T Consensus        82 ~~~~~~~~~A~~~~~~al~~~p~~~~~p~~~~~~~~l~~  120 (126)
T 3upv_A           82 QIAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYK  120 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHH
T ss_pred             HHHHhCHHHHHHHHHHHHHhCcccCCchhHHHHHHHHHH
Confidence            555555555555555555555      444444444443

>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=99.04  E-value=2.7e-08  Score=81.73  Aligned_cols=133  Identities=13%  Similarity=0.011  Sum_probs=106.7

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 048090          224 VFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTV  303 (447)
Q Consensus       224 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  303 (447)
                      ...+..+...+...|++++|...|+++       ..|+...|..+..++...|++++|...+++..+.. +.+...+..+
T Consensus         6 ~~~~~~~g~~~~~~~~~~~A~~~~~~a-------~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l   77 (213)
T 1hh8_A            6 AISLWNEGVLAADKKDWKGALDAFSAV-------QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQR   77 (213)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHTS-------SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHH-------cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHH
Confidence            345566778888899999999999833       46678888889999999999999999999988764 3367788888


Q ss_pred             HHHHhccCcHHHHHHHHHHHHHhcCCCCCh----------------hhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCC
Q 048090          304 ISACSHTGQVKLGIEYFEWMVHDYKLEPGP----------------EHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSS  367 (447)
Q Consensus       304 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----------------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~  367 (447)
                      ..++...|++++|...|+++.+..  +.+.                ..+..+..+|...|++++|...++++.+..  |.
T Consensus        78 g~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~  153 (213)
T 1hh8_A           78 GMLYYQTEKYDLAIKDLKEALIQL--RGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK--SE  153 (213)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTT--TTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CS
T ss_pred             HHHHHHcccHHHHHHHHHHHHHhC--CCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcC--cc
Confidence            888999999999999999988642  2223                677888888999999999999999988876  54


Q ss_pred             c
Q 048090          368 S  368 (447)
Q Consensus       368 ~  368 (447)
                      +
T Consensus       154 ~  154 (213)
T 1hh8_A          154 P  154 (213)
T ss_dssp             G
T ss_pred             c
Confidence            4

>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=99.03  E-value=3e-09  Score=91.57  Aligned_cols=195  Identities=11%  Similarity=-0.058  Sum_probs=127.3

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 048090          223 DVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVT  302 (447)
Q Consensus       223 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~  302 (447)
                      +...+..+...+...|++++|...|+++...    .+.+...|..+..+|.+.|++++|...+++..+.. +.+...+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~----~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~   77 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITR----NPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFF   77 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh----CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHH
Confidence            4456667777788888888888888866654    44467777788888888888888888888877753 225667777


Q ss_pred             HHHHHhccCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHh
Q 048090          303 VISACSHTGQVKLGIEYFEWMVHDYKLEPG-PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHD  381 (447)
Q Consensus       303 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~  381 (447)
                      +..++...|++++|...|++..+.   .|+ ...+...+....+.   .++..... .... ..|.+..+...+...  .
T Consensus        78 lg~~~~~~g~~~~A~~~~~~al~l---~p~~~~~~~~~~~~~~~~---~~~~~~~~-~~~~-~~~~~~~i~~~l~~l--~  147 (281)
T 2c2l_A           78 LGQCQLEMESYDEAIANLQRAYSL---AKEQRLNFGDDIPSALRI---AKKKRWNS-IEER-RIHQESELHSYLTRL--I  147 (281)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH---HHHTTCCCCSHHHHHHHH---HHHHHHHH-HHHT-CCCCCCHHHHHHHHH--H
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh---CccchhhHHHHHHHHHHH---HHHHHHHH-HHHH-HHhhhHHHHHHHHHH--H
Confidence            778888888888888888877653   221 11111112111111   11112111 2222 225555544444333  2


Q ss_pred             cCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhc-CChHHHHHHHHHHHHc
Q 048090          382 CGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKF-CMWDEIGQLRELMKEK  432 (447)
Q Consensus       382 ~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~m~~~  432 (447)
                      .|++++|.+.++++++.+|++......+...+.+. +.+++|.++|+++.+.
T Consensus       148 ~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          148 AAERERELEECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             HHHHHHHHTTTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHHHHHHHHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            68888999999999998898887777777767666 6788898888877653

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.03  E-value=9.9e-09  Score=78.78  Aligned_cols=106  Identities=7%  Similarity=-0.055  Sum_probs=95.1

Q ss_pred             CCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchH
Q 048090          293 TKP-DEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVS  370 (447)
Q Consensus       293 ~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~  370 (447)
                      +.| +...+..+...+...|++++|...|+++...   .| +...|..+..+|...|++++|+..|+++++..  |+++.
T Consensus        31 l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~---~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~--P~~~~  105 (151)
T 3gyz_A           31 IPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIY---DFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG--KNDYT  105 (151)
T ss_dssp             SCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--SSCCH
T ss_pred             CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC--CCCcH
Confidence            344 3456778888899999999999999999875   45 58889999999999999999999999999987  99999


Q ss_pred             hHHHHHHHHHhcCCccHHHHHHHHHhhhCCCch
Q 048090          371 MWGALLSACHDCGKFELGKLAAQKALELDPHNV  403 (447)
Q Consensus       371 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  403 (447)
                      +|..++.+|...|++++|...|+++++..|+++
T Consensus       106 ~~~~lg~~~~~lg~~~eA~~~~~~al~l~~~~~  138 (151)
T 3gyz_A          106 PVFHTGQCQLRLKAPLKAKECFELVIQHSNDEK  138 (151)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHH
Confidence            999999999999999999999999999998765

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=99.02  E-value=2.5e-09  Score=79.03  Aligned_cols=95  Identities=13%  Similarity=0.002  Sum_probs=88.0

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHH
Q 048090          335 HYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYA  414 (447)
Q Consensus       335 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  414 (447)
                      .+..+...+.+.|++++|...+++.++..  |++..+|..++.++...|++++|...++++++.+|.+..++..++.+|.
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~   96 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKE--PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHT   96 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            45667778899999999999999999887  8899999999999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHHHHHHHHH
Q 048090          415 KFCMWDEIGQLRELMKE  431 (447)
Q Consensus       415 ~~g~~~~A~~~~~~m~~  431 (447)
                      ..|++++|+..+++..+
T Consensus        97 ~~g~~~~A~~~~~~al~  113 (121)
T 1hxi_A           97 NEHNANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHHHHHC
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            99999999999999876

>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=99.02  E-value=3.9e-10  Score=91.76  Aligned_cols=99  Identities=20%  Similarity=0.059  Sum_probs=80.4

Q ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHH
Q 048090          334 EHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLY  413 (447)
Q Consensus       334 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  413 (447)
                      ..|..+..+|.+.|++++|+..+++.+...  |.+..++..++.++...|++++|...++++++..|.+..++..+..++
T Consensus        89 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~  166 (198)
T 2fbn_A           89 SCNLNLATCYNKNKDYPKAIDHASKVLKID--KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCV  166 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHH
Confidence            677888899999999999999999999876  888999999999999999999999999999999999999999999999


Q ss_pred             HhcCChHHHH-HHHHHHHHcCC
Q 048090          414 AKFCMWDEIG-QLRELMKEKGL  434 (447)
Q Consensus       414 ~~~g~~~~A~-~~~~~m~~~~~  434 (447)
                      ...++.+++. ..+..|...|.
T Consensus       167 ~~~~~~~~~~~~~~~~~f~~~~  188 (198)
T 2fbn_A          167 NKLKEARKKDKLTFGGMFDKGP  188 (198)
T ss_dssp             HHHHHHHC--------------
T ss_pred             HHHHHHHHHHHHHHHHHhcccc
Confidence            9998888877 56666665443

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=99.00  E-value=1.4e-08  Score=85.31  Aligned_cols=205  Identities=7%  Similarity=-0.079  Sum_probs=140.0

Q ss_pred             cCCcHHHHHHHHHHHHHhhhcCCCChhHHHHH-------HHHHHhcCChHHHHHHHHhhhhhc--------c-cC----C
Q 048090          199 GLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSL-------IEMYGKCGLVTKALQVFNLAGHRL--------E-GE----I  258 (447)
Q Consensus       199 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~g~~~~A~~~~~~~~~~~--------~-~~----~  258 (447)
                      ..++...|.+.|.++....|   .....|..+       ...+...++..++...+.......        . .|    +
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP---~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l~p~~l~a~~~~~g~y~~~   94 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDE---SACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQISMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCT---TCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTCCGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhCh---hhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCccccc
Confidence            46777888888888877633   245566666       445555555555555554322210        0 01    0


Q ss_pred             Cc----chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC--
Q 048090          259 NK----DVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG--  332 (447)
Q Consensus       259 ~~----~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--  332 (447)
                      ..    -...+......+...|++++|.++|+.+...  .|+......+...+.+.+++++|+..|+..... . .|.  
T Consensus        95 ~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~--~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~-~-d~~~~  170 (282)
T 4f3v_A           95 TYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVA--GSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKW-P-DKFLA  170 (282)
T ss_dssp             EEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCT--TCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGC-S-CHHHH
T ss_pred             ccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHcCCHHHHHHHHHHhhcc-C-CcccH
Confidence            00    0123345667788899999999999988764  354445555666788999999999999866431 1 121  


Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCC-chHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHH
Q 048090          333 PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSS-SVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSN  411 (447)
Q Consensus       333 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  411 (447)
                      ...+..+..++.+.|++++|+..|++.......|. ........+.++.+.|+.++|...|+++...+|. ..++..|..
T Consensus       171 ~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~-~~~~~aL~~  249 (282)
T 4f3v_A          171 GAAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE-PKVAAALKD  249 (282)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC-HHHHHHHHC
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-HHHHHHHhC
Confidence            33677788899999999999999999885433244 4456888999999999999999999999999998 766666643

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=99.00  E-value=3.7e-09  Score=83.00  Aligned_cols=111  Identities=14%  Similarity=0.052  Sum_probs=96.0

Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHH
Q 048090          296 DEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGAL  375 (447)
Q Consensus       296 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l  375 (447)
                      +...+..+...+...|++++|+..|++..+..  +.+...|..+..+|.+.|++++|+..+++.++.+  |.+..+|..+
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l   85 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA--PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD--PKYSKAWSRL   85 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--CCCHHHHHHH
Confidence            45678888888999999999999999998651  3367888899999999999999999999999887  8888899999


Q ss_pred             HHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHH
Q 048090          376 LSACHDCGKFELGKLAAQKALELDPHNVGIYVMLS  410 (447)
Q Consensus       376 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~  410 (447)
                      +.++...|++++|...++++++..|.+...+....
T Consensus        86 g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~  120 (164)
T 3sz7_A           86 GLARFDMADYKGAKEAYEKGIEAEGNGGSDAMKRG  120 (164)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHSSSCCHHHHHH
T ss_pred             HHHHHHccCHHHHHHHHHHHHHhCCCchHHHHHHH
Confidence            99999999999999999999999998887655444

>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=99.00  E-value=2.6e-09  Score=79.73  Aligned_cols=98  Identities=12%  Similarity=0.033  Sum_probs=77.9

Q ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCch-------hHH
Q 048090          334 EHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNV-------GIY  406 (447)
Q Consensus       334 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-------~~~  406 (447)
                      ..+..+...+.+.|++++|++.|++.++..  |++..+|..++.+|...|++++|...++++++..|.+.       .+|
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~--p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~   86 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELD--PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAM   86 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHH
Confidence            345667778888888888888888888776  88888888888888888888888888888888776542       367


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcC
Q 048090          407 VMLSNLYAKFCMWDEIGQLRELMKEKG  433 (447)
Q Consensus       407 ~~l~~~~~~~g~~~~A~~~~~~m~~~~  433 (447)
                      ..++.++...|++++|++.|++.....
T Consensus        87 ~~lg~~~~~~~~~~~A~~~~~kal~~~  113 (127)
T 4gcn_A           87 SRAGNAFQKQNDLSLAVQWFHRSLSEF  113 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            777888888888888888888877643

>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=99.00  E-value=2.4e-07  Score=80.61  Aligned_cols=226  Identities=12%  Similarity=0.035  Sum_probs=126.8

Q ss_pred             HHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcC-ChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhc-C-CHHH
Q 048090          204 EFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCG-LVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRN-G-YFKE  280 (447)
Q Consensus       204 ~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g-~~~~  280 (447)
                      ++|.++++.++...   +.+..+|+.-..++...| .+++++++++.+...    .+.+..+|+.-..++.+. + ++++
T Consensus        71 e~AL~lt~~~L~~n---P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~----nPKny~aW~hR~wlL~~l~~~~~~~  143 (349)
T 3q7a_A           71 ERALELTEIIVRMN---PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQ----NLKSYQVWHHRLLLLDRISPQDPVS  143 (349)
T ss_dssp             HHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHT----TCCCHHHHHHHHHHHHHHCCSCCHH
T ss_pred             HHHHHHHHHHHHhC---chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHh----CCCcHHHHHHHHHHHHHhcCCChHH
Confidence            34555555555441   223344444444444444 355555555544432    344444555444444443 4 4555


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHH--------HHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCC----
Q 048090          281 VIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVK--------LGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGE----  348 (447)
Q Consensus       281 a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----  348 (447)
                      ++.+++++.+...+ +..+|+.-.-.+.+.+.++        ++++.++++.+.  -+-|...|+.....+.+.++    
T Consensus       144 EL~~~~k~L~~dpk-Ny~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~--dp~N~SAW~~R~~lL~~l~~~~~~  220 (349)
T 3q7a_A          144 EIEYIHGSLLPDPK-NYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRV--DGRNNSAWGWRWYLRVSRPGAETS  220 (349)
T ss_dssp             HHHHHHHHTSSCTT-CHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHTTSTTCCCC
T ss_pred             HHHHHHHHHHhCCC-CHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccccccc
Confidence            55555555554322 4444444333333333333        677777777654  13356666666666666655    


Q ss_pred             ---HHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCc--------------------cHHHHHHHHHhhhC------
Q 048090          349 ---LDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKF--------------------ELGKLAAQKALELD------  399 (447)
Q Consensus       349 ---~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~--------------------~~a~~~~~~~~~~~------  399 (447)
                         ++++++.+++++...  |.+..+|+.+...+.+.|+.                    ........++....      
T Consensus       221 ~~~~~eELe~~~~aI~~~--P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  298 (349)
T 3q7a_A          221 SRSLQDELIYILKSIHLI--PHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTP  298 (349)
T ss_dssp             HHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCC
T ss_pred             hHHHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccC
Confidence               678888888888776  88888888777777776654                    12222222222222      


Q ss_pred             CCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCCcccc
Q 048090          400 PHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDVGCSW  442 (447)
Q Consensus       400 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~  442 (447)
                      ++++.++..|+..|...|+.++|.++++.+.+ .+.|-...||
T Consensus       299 ~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~-~~dpir~~yw  340 (349)
T 3q7a_A          299 LPVPLALEYLADSFIEQNRVDDAAKVFEKLSS-EYDQMRAGYW  340 (349)
T ss_dssp             SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-TTCGGGHHHH
T ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-hhChHHHHHH
Confidence            46778888899999999999999999998754 4566555555

>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=98.99  E-value=2.2e-09  Score=82.49  Aligned_cols=108  Identities=10%  Similarity=0.042  Sum_probs=94.8

Q ss_pred             HHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhh
Q 048090          320 FEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALEL  398 (447)
Q Consensus       320 ~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  398 (447)
                      |+++.   .+.| +...+..+...+.+.|++++|...|++++..+  |.+..+|..++.++...|++++|...++++++.
T Consensus        10 ~~~al---~~~p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l   84 (148)
T 2vgx_A           10 IAMLN---EISSDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD--HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVM   84 (148)
T ss_dssp             HHHHT---TCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHH---cCCHhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC--cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            44444   3455 36667778888999999999999999999887  889999999999999999999999999999999


Q ss_pred             CCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 048090          399 DPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       399 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  432 (447)
                      +|.++.++..++.+|...|++++|.+.|++..+.
T Consensus        85 ~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           85 DIXEPRFPFHAAECLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             STTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999998763

>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=98.98  E-value=1.2e-08  Score=77.27  Aligned_cols=97  Identities=13%  Similarity=0.038  Sum_probs=49.7

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHH
Q 048090          333 PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNL  412 (447)
Q Consensus       333 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  412 (447)
                      ...+..+...+...|++++|...|++.+...  |.+..++..++.++...|++++|...++++++..|.++.++..++.+
T Consensus         9 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~   86 (137)
T 3q49_B            9 AQELKEQGNRLFVGRKYPEAAACYGRAITRN--PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQC   86 (137)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHHH
Confidence            4444444455555555555555555554443  44444455555555555555555555555555555555555555555


Q ss_pred             HHhcCChHHHHHHHHHHHH
Q 048090          413 YAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       413 ~~~~g~~~~A~~~~~~m~~  431 (447)
                      |...|++++|+..+++..+
T Consensus        87 ~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           87 QLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHH
Confidence            5555555555555554443

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.98  E-value=6.7e-09  Score=75.33  Aligned_cols=100  Identities=13%  Similarity=0.082  Sum_probs=84.5

Q ss_pred             ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCC--chhHHHHH
Q 048090          332 GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPH--NVGIYVML  409 (447)
Q Consensus       332 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~l  409 (447)
                      +...+..+...+...|++++|...++++.+..  |.+..++..++.++...|++++|...++++++..|.  +..++..+
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l   82 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLD--PEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAK   82 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC--cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHH
Confidence            35667777888888889999999888888776  777778888888888999999999999999888888  88888889


Q ss_pred             HHHHHhc-CChHHHHHHHHHHHHcC
Q 048090          410 SNLYAKF-CMWDEIGQLRELMKEKG  433 (447)
Q Consensus       410 ~~~~~~~-g~~~~A~~~~~~m~~~~  433 (447)
                      +.++... |++++|.+.+++..+..
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~~~  107 (112)
T 2kck_A           83 ADALRYIEGKEVEAEIAEARAKLEH  107 (112)
T ss_dssp             HHHHTTCSSCSHHHHHHHHHHGGGC
T ss_pred             HHHHHHHhCCHHHHHHHHHHHhhcc
Confidence            8888899 99999998888887643

>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=98.97  E-value=2.1e-08  Score=74.66  Aligned_cols=98  Identities=16%  Similarity=0.116  Sum_probs=89.9

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHH
Q 048090          333 PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNL  412 (447)
Q Consensus       333 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  412 (447)
                      ...+..+...+.+.|++++|...|++.++..  |.+..+|..++.++...|++++|...++++++.+|.++..|..++.+
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~   81 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRA--PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATA   81 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHH
Confidence            4457777888999999999999999999887  88899999999999999999999999999999999999999999999


Q ss_pred             HHhcCChHHHHHHHHHHHHc
Q 048090          413 YAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       413 ~~~~g~~~~A~~~~~~m~~~  432 (447)
                      +...|++++|...+++..+.
T Consensus        82 ~~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           82 QIAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhCHHHHHHHHHHHHHh
Confidence            99999999999999988764

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.95  E-value=2.9e-07  Score=79.77  Aligned_cols=173  Identities=10%  Similarity=-0.036  Sum_probs=126.7

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcc----hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC---CCC
Q 048090          224 VFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKD----VVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGT---KPD  296 (447)
Q Consensus       224 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~---~p~  296 (447)
                      ...+...+..+...|++++|.+.+++......  ..++    ...+..+...+...|++++|...+++..+...   .+.
T Consensus        75 ~~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~  152 (293)
T 2qfc_A           75 KKQFKDQVIMLCKQKRYKEIYNKVWNELKKEE--YHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVY  152 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCC--CCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTT
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhcccc--CChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchH
Confidence            34455667788899999999999986544311  1111    12344466677888999999999999876421   122


Q ss_pred             --HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC-----hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCC----CC
Q 048090          297 --EVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG-----PEHYSCLVDLLCRAGELDKAWKLINEMLDRG----HG  365 (447)
Q Consensus       297 --~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~----~~  365 (447)
                        ..+++.+...|...|++++|...|+++.+.....|+     ..++..+..+|...|++++|+..+++.++..    ..
T Consensus       153 ~~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~  232 (293)
T 2qfc_A          153 QNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSM  232 (293)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBC
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcH
Confidence              457888999999999999999999998732111222     2578889999999999999999999986542    11


Q ss_pred             CCchHhHHHHHHHHHhcCCccHH-HHHHHHHhhh
Q 048090          366 SSSVSMWGALLSACHDCGKFELG-KLAAQKALEL  398 (447)
Q Consensus       366 p~~~~~~~~l~~~~~~~g~~~~a-~~~~~~~~~~  398 (447)
                      ..-..+|..++.++...|++++| ...+++++..
T Consensus       233 ~~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~~  266 (293)
T 2qfc_A          233 ALIGQLYYQRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             SSHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHH
Confidence            11256789999999999999999 8889888764

>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=98.95  E-value=4e-08  Score=71.81  Aligned_cols=111  Identities=14%  Similarity=0.091  Sum_probs=66.3

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHH
Q 048090          298 VAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLS  377 (447)
Q Consensus       298 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~  377 (447)
                      ..+..+...+...|++++|...|++....  .+.+...+..+..++...|++++|...+++.....  |++...+..++.
T Consensus         5 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~   80 (118)
T 1elw_A            5 NELKEKGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK--PDWGKGYSRKAA   80 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC--cccHHHHHHHHH
Confidence            34455555555666666666666666543  12245555566666666666666666666666554  555556666666


Q ss_pred             HHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHH
Q 048090          378 ACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNL  412 (447)
Q Consensus       378 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  412 (447)
                      ++...|++++|...++++++..|.++..+..+..+
T Consensus        81 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  115 (118)
T 1elw_A           81 ALEFLNRFEEAKRTYEEGLKHEANNPQLKEGLQNM  115 (118)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHh
Confidence            66666666666666666666666666555555443

>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=98.94  E-value=1e-08  Score=75.08  Aligned_cols=102  Identities=12%  Similarity=0.080  Sum_probs=93.1

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHH
Q 048090          333 PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNL  412 (447)
Q Consensus       333 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  412 (447)
                      ...+..+...+...|++++|...+++.....  |.+...+..++.++...|++++|...++++++..|.+...+..++.+
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~   81 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLD--PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAA   81 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHH
Confidence            4567778889999999999999999999876  88888999999999999999999999999999999999999999999


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCC
Q 048090          413 YAKFCMWDEIGQLRELMKEKGLKKDV  438 (447)
Q Consensus       413 ~~~~g~~~~A~~~~~~m~~~~~~p~~  438 (447)
                      +...|++++|.+.+++..+  ..|+.
T Consensus        82 ~~~~~~~~~A~~~~~~~~~--~~~~~  105 (118)
T 1elw_A           82 LEFLNRFEEAKRTYEEGLK--HEANN  105 (118)
T ss_dssp             HHHTTCHHHHHHHHHHHHT--TCTTC
T ss_pred             HHHHhhHHHHHHHHHHHHH--cCCCC
Confidence            9999999999999999886  34443

>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=98.93  E-value=1.1e-07  Score=82.36  Aligned_cols=168  Identities=11%  Similarity=-0.030  Sum_probs=124.9

Q ss_pred             HHHHHHHhcCChHHHHHHHHhhhhhcccCCCcch----hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CC----HHH
Q 048090          229 SLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDV----VLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTK-PD----EVA  299 (447)
Q Consensus       229 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~-p~----~~~  299 (447)
                      ..+..+...|++++|...++++....  ...|+.    ..+..+...+...|++++|...+++..+.... ++    ..+
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~--~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~  157 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKE--EYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYI  157 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTC--CCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccc--cCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHH
Confidence            34667888999999999999765531  122221    23345677777888999999999999874222 22    336


Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHHhc----CCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHHHHhC----CCCCCchH
Q 048090          300 FVTVISACSHTGQVKLGIEYFEWMVHDY----KLEPG-PEHYSCLVDLLCRAGELDKAWKLINEMLDR----GHGSSSVS  370 (447)
Q Consensus       300 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~p~~~~  370 (447)
                      ++.+..+|...|++++|...|+++.+..    +..+. ..++..+...|.+.|++++|...+++.++.    +..+.-..
T Consensus       158 ~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~  237 (293)
T 3u3w_A          158 ENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQ  237 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHH
Confidence            8889999999999999999999987421    11122 347788999999999999999999987643    22233356


Q ss_pred             hHHHHHHHHHhcCC-ccHHHHHHHHHhhh
Q 048090          371 MWGALLSACHDCGK-FELGKLAAQKALEL  398 (447)
Q Consensus       371 ~~~~l~~~~~~~g~-~~~a~~~~~~~~~~  398 (447)
                      +|..++.++...|+ +++|...+++++..
T Consensus       238 ~~~~lg~~~~~~g~~~~~A~~~~~~Al~i  266 (293)
T 3u3w_A          238 LYYQRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCcHHHHHHHHHHHHHH
Confidence            79999999999995 59999999998874

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.93  E-value=1.6e-08  Score=77.12  Aligned_cols=102  Identities=13%  Similarity=0.000  Sum_probs=89.1

Q ss_pred             CCCC-hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHH
Q 048090          329 LEPG-PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYV  407 (447)
Q Consensus       329 ~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  407 (447)
                      +.|+ ...+..+...+.+.|++++|...|++++..+  |.+...|..++.++...|++++|...++++++.+|.++..+.
T Consensus        13 ~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~   90 (142)
T 2xcb_A           13 LSEDTLEQLYALGFNQYQAGKWDDAQKIFQALCMLD--HYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPF   90 (142)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHH
Confidence            3443 5556677788889999999999999998877  888888999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHc
Q 048090          408 MLSNLYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       408 ~l~~~~~~~g~~~~A~~~~~~m~~~  432 (447)
                      .++.+|...|++++|...+++..+.
T Consensus        91 ~lg~~~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           91 HAAECHLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            9999999999999999999988763

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.92  E-value=5.6e-08  Score=81.75  Aligned_cols=186  Identities=9%  Similarity=-0.095  Sum_probs=143.4

Q ss_pred             hcCChHHHHHHHHhhhhhcccCCCcchhhHHHH-------HHHHHhcCCHHHHHHHHHHHHhCCCCCC------------
Q 048090          236 KCGLVTKALQVFNLAGHRLEGEINKDVVLWTSM-------LGVYGRNGYFKEVIKLYEAMLMNGTKPD------------  296 (447)
Q Consensus       236 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~g~~~~a~~~~~~m~~~~~~p~------------  296 (447)
                      ..++...|.+.|.++...    .|.....|..+       ...+.+.++..+++..+..-..  +.|+            
T Consensus        18 ~~~d~~~A~~~F~~a~~~----dP~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~~~~g~y   91 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNY----DESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLY   91 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHH----CTTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTT
T ss_pred             cCCCHHHHHHHHHHHHHh----ChhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCcc
Confidence            579999999999988776    66677888887       4666666666666666665544  2221            


Q ss_pred             ----------HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCC
Q 048090          297 ----------EVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGS  366 (447)
Q Consensus       297 ----------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p  366 (447)
                                ......+...+...|++++|.+.|+.+...   .|+......+...+.+.+++++|+..|+......  +
T Consensus        92 ~~~~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~---~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~--d  166 (282)
T 4f3v_A           92 GDITYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVA---GSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP--D  166 (282)
T ss_dssp             CCCEEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCT---TCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS--C
T ss_pred             cccccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC--C
Confidence                      123345667788899999999999988643   4654366666678899999999999998765542  1


Q ss_pred             Cc--hHhHHHHHHHHHhcCCccHHHHHHHHHhhhC--CC-chhHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 048090          367 SS--VSMWGALLSACHDCGKFELGKLAAQKALELD--PH-NVGIYVMLSNLYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       367 ~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  432 (447)
                      +.  ..++..++.++...|++++|+..|+++....  |. .+......+.++.+.|+.++|...|+++...
T Consensus       167 ~~~~~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          167 KFLAGAAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            11  3368899999999999999999999998543  44 5668889999999999999999999999874

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.92  E-value=2.1e-08  Score=75.27  Aligned_cols=99  Identities=10%  Similarity=0.106  Sum_probs=92.9

Q ss_pred             ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHH
Q 048090          332 GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSN  411 (447)
Q Consensus       332 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  411 (447)
                      +...+..+...+...|++++|...+++..+..  |.+..++..++.++...|++++|...++++++..|.+..++..++.
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~   92 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKRN--PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAA   92 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC--TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHH
Confidence            46778888999999999999999999999876  8888899999999999999999999999999999999999999999


Q ss_pred             HHHhcCChHHHHHHHHHHHHc
Q 048090          412 LYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       412 ~~~~~g~~~~A~~~~~~m~~~  432 (447)
                      +|.+.|++++|.+.+++..+.
T Consensus        93 ~~~~~~~~~~A~~~~~~~~~~  113 (133)
T 2lni_A           93 ALEAMKDYTKAMDVYQKALDL  113 (133)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHh
Confidence            999999999999999998874

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.91  E-value=5.5e-08  Score=74.52  Aligned_cols=113  Identities=13%  Similarity=0.099  Sum_probs=82.1

Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC----hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHh
Q 048090          296 DEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG----PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSM  371 (447)
Q Consensus       296 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~  371 (447)
                      +...+..+...+...|++++|...|++..+   ..|+    ...+..+..+|...|++++|...+++.....  |.+..+
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~---~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~  101 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALG---LDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD--GGDVKA  101 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHT---SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT--SCCHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHH---HcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC--ccCHHH
Confidence            445556666666667777777777776653   3444    4666777777788888888888888877765  767777


Q ss_pred             HHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHH
Q 048090          372 WGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLY  413 (447)
Q Consensus       372 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  413 (447)
                      +..++.++...|++++|...++++++..|.+..++..+....
T Consensus       102 ~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~  143 (148)
T 2dba_A          102 LYRRSQALEKLGRLDQAVLDLQRCVSLEPKNKVFQEALRNIS  143 (148)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHH
Confidence            888888888888888888888888888888777776666543

>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=98.91  E-value=1.6e-08  Score=80.48  Aligned_cols=122  Identities=10%  Similarity=0.130  Sum_probs=94.1

Q ss_pred             HhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHH-HHhcCCc
Q 048090          307 CSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSA-CHDCGKF  385 (447)
Q Consensus       307 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~-~~~~g~~  385 (447)
                      +...|++++|...+++..+.  .+.+...|..+..+|...|++++|...++++....  |.+..++..++.+ +...|++
T Consensus        20 ~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~l~~~~~~~   95 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR--GENAELYAALATVLYYQASQH   95 (177)
T ss_dssp             CC-----CCCCHHHHHHHHH--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--CSCHHHHHHHHHHHHHHTTTC
T ss_pred             hhhccCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhcCCc
Confidence            34567788888888887765  13356778888888888888888888888888776  7777778888888 7788887


Q ss_pred             --cHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 048090          386 --ELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       386 --~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  432 (447)
                        ++|...++++++..|.+..++..++.+|...|++++|...+++..+.
T Consensus        96 ~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A           96 MTAQTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             CCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             chHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence              88888888888888888888888888888888888888888888763

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.91  E-value=3.2e-08  Score=73.19  Aligned_cols=98  Identities=27%  Similarity=0.316  Sum_probs=91.8

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHH
Q 048090          333 PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNL  412 (447)
Q Consensus       333 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  412 (447)
                      ...+..+...+...|++++|.+.++++....  |.+..++..++.++...|++++|...++++.+..|.+..++..++.+
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD--PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHH
Confidence            5678888899999999999999999999876  77888899999999999999999999999999999999999999999


Q ss_pred             HHhcCChHHHHHHHHHHHHc
Q 048090          413 YAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       413 ~~~~g~~~~A~~~~~~m~~~  432 (447)
                      |...|++++|...++++.+.
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHh
Confidence            99999999999999999874

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.89  E-value=3.7e-08  Score=77.17  Aligned_cols=99  Identities=15%  Similarity=0.069  Sum_probs=53.1

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHH
Q 048090          261 DVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCL  339 (447)
Q Consensus       261 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l  339 (447)
                      +...+..+...+.+.|++++|+..|++..+.. +-+...+..+..++...|++++|+..|++..+.   .| +...|..+
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~l   85 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVV---DPKYSKAWSRL   85 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHh---CCCCHHHHHHH
Confidence            34445555555555555555555555555532 114445555555555555555555555555543   22 34555555


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhCC
Q 048090          340 VDLLCRAGELDKAWKLINEMLDRG  363 (447)
Q Consensus       340 ~~~~~~~g~~~~A~~~~~~~~~~~  363 (447)
                      ..+|...|++++|...|++.++..
T Consensus        86 g~~~~~~g~~~~A~~~~~~al~~~  109 (164)
T 3sz7_A           86 GLARFDMADYKGAKEAYEKGIEAE  109 (164)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHccCHHHHHHHHHHHHHhC
Confidence            555555555555555555555544

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.86  E-value=4.8e-08  Score=79.47  Aligned_cols=134  Identities=10%  Similarity=-0.034  Sum_probs=63.1

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHHhc---CCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhC---C-CCC-Cc
Q 048090          298 VAFVTVISACSHTGQVKLGIEYFEWMVHDY---KLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDR---G-HGS-SS  368 (447)
Q Consensus       298 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~-~~p-~~  368 (447)
                      .++..+...+...|++++|...+++.....   +..| ...++..+...+...|++++|...+++....   . -.| ..
T Consensus        27 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  106 (203)
T 3gw4_A           27 GARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWDAARRCFLEERELLASLPEDPLAA  106 (203)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHHH
Confidence            344444444445555555555554443310   1111 1334444555555555555555555554332   1 001 11


Q ss_pred             hHhHHHHHHHHHhcCCccHHHHHHHHHhhhC--CCc----hhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          369 VSMWGALLSACHDCGKFELGKLAAQKALELD--PHN----VGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       369 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      ..++..++..+...|++++|...++++++..  ..+    ..++..++.++...|++++|.+.+++..+
T Consensus       107 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  175 (203)
T 3gw4_A          107 SANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNLLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            2335555555556666666666665555432  111    22345555566666666666665555543

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.85  E-value=2.6e-08  Score=74.39  Aligned_cols=99  Identities=10%  Similarity=0.083  Sum_probs=92.2

Q ss_pred             ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHH
Q 048090          332 GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSN  411 (447)
Q Consensus       332 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  411 (447)
                      +...+..+...+...|++++|...+++.....  |++..++..++.++...|++++|...++++++..|.+...+..++.
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~   88 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELN--PANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGL   88 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHH
Confidence            45677888889999999999999999999876  8888889999999999999999999999999999999999999999


Q ss_pred             HHHhcCChHHHHHHHHHHHHc
Q 048090          412 LYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       412 ~~~~~g~~~~A~~~~~~m~~~  432 (447)
                      +|...|++++|...+++..+.
T Consensus        89 ~~~~~~~~~~A~~~~~~~~~~  109 (131)
T 2vyi_A           89 ALSSLNKHVEAVAYYKKALEL  109 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHhc
Confidence            999999999999999999874

>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=98.84  E-value=5.8e-08  Score=73.36  Aligned_cols=115  Identities=10%  Similarity=-0.040  Sum_probs=93.3

Q ss_pred             CCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHH
Q 048090          295 PDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGA  374 (447)
Q Consensus       295 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~  374 (447)
                      .+...+..+...+...|++++|...|++....  .+.+...|..+..++...|++++|...+++.++.+  |.+..++..
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~   82 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELD--GQSVKAHFF   82 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhh--CcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--chhHHHHHH
Confidence            35677788888888888999999888888765  13347788888888999999999999999998876  888888999


Q ss_pred             HHHHHHhcCCccHHHHHHHHHhhhCCC-----chhHHHHHHHHH
Q 048090          375 LLSACHDCGKFELGKLAAQKALELDPH-----NVGIYVMLSNLY  413 (447)
Q Consensus       375 l~~~~~~~g~~~~a~~~~~~~~~~~~~-----~~~~~~~l~~~~  413 (447)
                      ++.++...|++++|...++++++..|.     +..+...+..+.
T Consensus        83 l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~l~~~~  126 (137)
T 3q49_B           83 LGQCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALRIAK  126 (137)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCTTHHHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHHChhHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999988776     555555555443

>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=98.83  E-value=2.6e-08  Score=85.66  Aligned_cols=194  Identities=10%  Similarity=-0.080  Sum_probs=117.7

Q ss_pred             cHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhH
Q 048090          186 DHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLW  265 (447)
Q Consensus       186 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  265 (447)
                      +...+..+...+.+.|++++|...|+..++..   +.+...+..+..+|...|++++|...++++...    .+.+...+
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~----~p~~~~~~   75 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN---PLVAVYYTNRALCYLKMQQPEQALADCRRALEL----DGQSVKAH   75 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS----CTTCHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh----CCCCHHHH
Confidence            34456666677777788888888888777762   336677777788888888888888888766553    44556677


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHH
Q 048090          266 TSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDE-VAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLC  344 (447)
Q Consensus       266 ~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  344 (447)
                      ..+..++...|++++|...|++..+.+  |+. ..+...+....+   ...+.. +...... ....+......+...  
T Consensus        76 ~~lg~~~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~~~~~~~---~~~~~~-~~~~~~~-~~~~~~~i~~~l~~l--  146 (281)
T 2c2l_A           76 FFLGQCQLEMESYDEAIANLQRAYSLA--KEQRLNFGDDIPSALR---IAKKKR-WNSIEER-RIHQESELHSYLTRL--  146 (281)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHH--HHTTCCCCSHHHHHHH---HHHHHH-HHHHHHT-CCCCCCHHHHHHHHH--
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHHH---HHHHHH-HHHHHHH-HHhhhHHHHHHHHHH--
Confidence            777888888888888888887776532  211 011111111111   111111 1112222 334444444444322  


Q ss_pred             HcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhc-CCccHHHHHHHHHhh
Q 048090          345 RAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDC-GKFELGKLAAQKALE  397 (447)
Q Consensus       345 ~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~-g~~~~a~~~~~~~~~  397 (447)
                      ..|+.++|.+.+++..+..  |++......+...+.+. +.+++|..+|+++.+
T Consensus       147 ~~~~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          147 IAAERERELEECQRNHEGH--EDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HHHHHHHHHTTTSGGGTTT--SCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHHHHHHHHhhhccc--cchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            3678888888888877765  76666555565555554 567778888887765

>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=98.83  E-value=1.9e-07  Score=73.09  Aligned_cols=131  Identities=8%  Similarity=-0.025  Sum_probs=98.1

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 048090          262 VVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVD  341 (447)
Q Consensus       262 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  341 (447)
                      ...+..+...+...|++++|...|++..+.. +.+..++..+..++...|++++|...+++..+.  .+.+...+..+..
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~   89 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAA   89 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHHHHH
Confidence            3456667777778888888888888877753 235677777888888888888888888888765  1335777888888


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHH--HHhcCCccHHHHHHHHHhh
Q 048090          342 LLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSA--CHDCGKFELGKLAAQKALE  397 (447)
Q Consensus       342 ~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~--~~~~g~~~~a~~~~~~~~~  397 (447)
                      ++...|++++|...++++....  |.+..++..+..+  +...|++++|...+++...
T Consensus        90 ~~~~~~~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           90 SNMALGKFRAALRDYETVVKVK--PHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            8888899999999998888776  6666666444444  7778888888888877654

>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=98.83  E-value=1.5e-06  Score=75.32  Aligned_cols=182  Identities=12%  Similarity=0.034  Sum_probs=87.1

Q ss_pred             HHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCC--HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCc-HHHHH
Q 048090          241 TKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGY--FKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQ-VKLGI  317 (447)
Q Consensus       241 ~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~--~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~-~~~a~  317 (447)
                      ++++.+++.+...    .|.+..+|+.-.-.+...++  +++++.+++++.+.... |...|+.-.-.+...|. +++++
T Consensus        91 ~~EL~~~~~~L~~----~PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dpr-Ny~AW~~R~~vl~~l~~~~~eel  165 (331)
T 3dss_A           91 KAELGFLESCLRV----NPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEEL  165 (331)
T ss_dssp             HHHHHHHHHHHHH----CTTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHHHHHHHHHHHh----CCCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhCcCHHHHH
Confidence            3444444443332    33444455444444444442  45555555555554322 44444444334444444 35555


Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHHHHHc--------------CCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhc-
Q 048090          318 EYFEWMVHDYKLEPGPEHYSCLVDLLCRA--------------GELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDC-  382 (447)
Q Consensus       318 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------------g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~-  382 (447)
                      +.++++....  +-|...|+.....+.+.              +.++++++.+.+.+...  |.+..+|+.+-..+.+. 
T Consensus       166 ~~~~~~I~~~--p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~--P~d~SaW~Y~r~ll~~~~  241 (331)
T 3dss_A          166 AFTDSLITRN--FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD--PNDQSAWFYHRWLLGAGS  241 (331)
T ss_dssp             HHHHHHHHHC--SCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHSSS
T ss_pred             HHHHHHHHHC--CCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhcc
Confidence            5555555431  22344444443333332              33556666666666555  66666665544444443 


Q ss_pred             ----------CCccHHHHHHHHHhhhCCCchhHHHHHHHHH---HhcCChHHHHHHHHHHHH
Q 048090          383 ----------GKFELGKLAAQKALELDPHNVGIYVMLSNLY---AKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       383 ----------g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~---~~~g~~~~A~~~~~~m~~  431 (447)
                                +.++++.+.++++++..|++.-++..++...   ...|..+++...+.++++
T Consensus       242 ~~~~~~~~~~~~l~~el~~~~elle~~pd~~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~  303 (331)
T 3dss_A          242 GRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKA  303 (331)
T ss_dssp             CGGGCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHH
T ss_pred             CccccchHHHHHHHHHHHHHHHHHhhCcccchHHHHHHHHHHhhcccccHHHHHHHHHHHHH
Confidence                      2355666666666666666543333332211   124555566666666654

>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=98.83  E-value=1.3e-08  Score=90.07  Aligned_cols=133  Identities=10%  Similarity=-0.002  Sum_probs=106.9

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--------------HHHHHHHHHHHhccCcHHHHHHHHHHHHHh
Q 048090          261 DVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPD--------------EVAFVTVISACSHTGQVKLGIEYFEWMVHD  326 (447)
Q Consensus       261 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~--------------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  326 (447)
                      +...+..+...+.+.|++++|...|++..+......              ...|..+..++.+.|++++|+..++++.+.
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  225 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL  225 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            445666677777777777777777777776432211              478888889999999999999999999875


Q ss_pred             cCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHH-HHHHHHHhh
Q 048090          327 YKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELG-KLAAQKALE  397 (447)
Q Consensus       327 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a-~~~~~~~~~  397 (447)
                        -+.+...|..+..+|...|++++|...|+++++..  |.+..++..+..++...|++++| ...+++++.
T Consensus       226 --~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~--P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~~  293 (336)
T 1p5q_A          226 --DSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY--PNNKAAKTQLAVCQQRIRRQLAREKKLYANMFE  293 (336)
T ss_dssp             --CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             --CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence              13358888999999999999999999999999887  88888999999999999999988 456777665

>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=98.82  E-value=4.5e-06  Score=72.64  Aligned_cols=246  Identities=9%  Similarity=-0.017  Sum_probs=175.7

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCC-cHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHH
Q 048090          156 NALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLS-AAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMY  234 (447)
Q Consensus       156 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~  234 (447)
                      +.+-......+..++|+++++++...+ +-+...|+.--.++...+ .++++.++++.++..   .+.+..+|+.-..++
T Consensus        58 ~~~r~~~~~~e~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~---nPKny~aW~hR~wlL  133 (349)
T 3q7a_A           58 DYFRAIAAKEEKSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQ---NLKSYQVWHHRLLLL  133 (349)
T ss_dssp             HHHHHHHHTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHT---TCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHh---CCCcHHHHHHHHHHH
Confidence            333334445566788999999998864 334455666666666677 599999999999987   345777888777777


Q ss_pred             Hhc-C-ChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHH--------HHHHHHHHHHhCCCCCCHHHHHHHH
Q 048090          235 GKC-G-LVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFK--------EVIKLYEAMLMNGTKPDEVAFVTVI  304 (447)
Q Consensus       235 ~~~-g-~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~--------~a~~~~~~m~~~~~~p~~~~~~~ll  304 (447)
                      ... + ++++++++++++...    .+.+..+|+.-.-.+.+.|.++        ++++.++++.+..+. |...|+...
T Consensus       134 ~~l~~~~~~~EL~~~~k~L~~----dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~-N~SAW~~R~  208 (349)
T 3q7a_A          134 DRISPQDPVSEIEYIHGSLLP----DPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR-NNSAWGWRW  208 (349)
T ss_dssp             HHHCCSCCHHHHHHHHHHTSS----CTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             HHhcCCChHHHHHHHHHHHHh----CCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC-CHHHHHHHH
Confidence            776 6 889999999977664    6667888887666666666666        899999999987544 777888877


Q ss_pred             HHHhccCc-------HHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCH--------------------HHHHHHHH
Q 048090          305 SACSHTGQ-------VKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGEL--------------------DKAWKLIN  357 (447)
Q Consensus       305 ~~~~~~~~-------~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~--------------------~~A~~~~~  357 (447)
                      ..+.+.++       ++++++.++++...  -+-|...|+.+-..+.+.|+.                    ....++..
T Consensus       209 ~lL~~l~~~~~~~~~~~eELe~~~~aI~~--~P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  286 (349)
T 3q7a_A          209 YLRVSRPGAETSSRSLQDELIYILKSIHL--IPHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGF  286 (349)
T ss_dssp             HHHTTSTTCCCCHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------C
T ss_pred             HHHHhccccccchHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHH
Confidence            77777765       68888998888865  133577787777777776653                    34444444


Q ss_pred             HHHhCC----CCCCchHhHHHHHHHHHhcCCccHHHHHHHHHh-hhCCCchhHHHHHHHH
Q 048090          358 EMLDRG----HGSSSVSMWGALLSACHDCGKFELGKLAAQKAL-ELDPHNVGIYVMLSNL  412 (447)
Q Consensus       358 ~~~~~~----~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-~~~~~~~~~~~~l~~~  412 (447)
                      ++....    ..+.+..++..|+..|...|+.++|.++++.+. +.+|-....|...+..
T Consensus       287 ~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~~dpir~~yw~~~~~~  346 (349)
T 3q7a_A          287 PMPSDPLPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSEYDQMRAGYWEFRRRE  346 (349)
T ss_dssp             CCCC-CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCGGGHHHHHHHHHH
T ss_pred             HHHhcccccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhhChHHHHHHHHHHHh
Confidence            444332    224677789999999999999999999999987 5678777777766543

>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=98.82  E-value=5.4e-08  Score=89.91  Aligned_cols=97  Identities=20%  Similarity=0.070  Sum_probs=80.6

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHH
Q 048090          333 PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNL  412 (447)
Q Consensus       333 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  412 (447)
                      ...|..+..+|.+.|++++|+..+++++...  |++..+|..++.+|...|++++|...|+++++.+|.+..++..+..+
T Consensus       317 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~  394 (457)
T 1kt0_A          317 LAAFLNLAMCYLKLREYTKAVECCDKALGLD--SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMC  394 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            4678888899999999999999999999887  88899999999999999999999999999999999999999999999


Q ss_pred             HHhcCChHHHHH-HHHHHHH
Q 048090          413 YAKFCMWDEIGQ-LRELMKE  431 (447)
Q Consensus       413 ~~~~g~~~~A~~-~~~~m~~  431 (447)
                      +.+.|+++++.. .+++|..
T Consensus       395 ~~~~~~~~~a~~~~~~~~f~  414 (457)
T 1kt0_A          395 QKKAKEHNERDRRIYANMFK  414 (457)
T ss_dssp             HHHHHHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHHHHHHHHHHh
Confidence            999999888763 4555543

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.81  E-value=8.1e-08  Score=71.67  Aligned_cols=104  Identities=13%  Similarity=0.009  Sum_probs=66.2

Q ss_pred             HHHHHHhccCcHHHHHHHHHHHHHhcCCCCC-h---hhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCc---hHhHHH
Q 048090          302 TVISACSHTGQVKLGIEYFEWMVHDYKLEPG-P---EHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSS---VSMWGA  374 (447)
Q Consensus       302 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~---~~~~~~  374 (447)
                      .+...+...|++++|...|+++.+.   .|+ .   ..+..+..++.+.|++++|...++++....  |++   ..++..
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~   81 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLEL---YPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY--PTHDKAAGGLLK   81 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH---CSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTSTTHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHH---CCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC--CCCcccHHHHHH
Confidence            3445566667777777777776654   232 2   355666666777777777777777766655  555   555666


Q ss_pred             HHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHH
Q 048090          375 LLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLS  410 (447)
Q Consensus       375 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~  410 (447)
                      ++.++...|++++|...++++++..|++........
T Consensus        82 la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~  117 (129)
T 2xev_A           82 LGLSQYGEGKNTEAQQTLQQVATQYPGSDAARVAQE  117 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTTSHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCChHHHHHHH
Confidence            677777777777777777777776666655444433

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.81  E-value=5.6e-08  Score=74.45  Aligned_cols=99  Identities=14%  Similarity=0.066  Sum_probs=91.7

Q ss_pred             ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCc---hHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHH
Q 048090          332 GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSS---VSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVM  408 (447)
Q Consensus       332 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  408 (447)
                      +...+..+...+...|++++|...|++..+..  |++   ..++..+..++...|++++|...++++++..|.+...+..
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  104 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLD--ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYR  104 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHc--ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHH
Confidence            46778888899999999999999999999876  766   7789999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHc
Q 048090          409 LSNLYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       409 l~~~~~~~g~~~~A~~~~~~m~~~  432 (447)
                      ++.+|...|++++|...+++..+.
T Consensus       105 ~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          105 RSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHc
Confidence            999999999999999999999874

>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=98.80  E-value=7.4e-08  Score=73.12  Aligned_cols=92  Identities=15%  Similarity=0.029  Sum_probs=57.7

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhCCCCCC-------ch-----HhHHHHHHHHHhcCCccHHHHHHHHHhhh-------
Q 048090          338 CLVDLLCRAGELDKAWKLINEMLDRGHGSS-------SV-----SMWGALLSACHDCGKFELGKLAAQKALEL-------  398 (447)
Q Consensus       338 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~-------~~-----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-------  398 (447)
                      .....+.+.|++++|+..|++.++..  |+       +.     .+|..+..++.+.|++++|...++++++.       
T Consensus        16 ~~G~~l~~~g~~eeAi~~Y~kAL~l~--p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~   93 (159)
T 2hr2_A           16 SDAQRQLVAGEYDEAAANCRRAMEIS--HTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGEL   93 (159)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHH--TTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhC--CCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccC
Confidence            33444555555555555555555543  33       22     25666677777777777777777777766       


Q ss_pred             CCCchhHH----HHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          399 DPHNVGIY----VMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       399 ~~~~~~~~----~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      +|++...|    +..+.++...|++++|+..|++..+
T Consensus        94 ~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           94 NQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             TSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence            67766666    7777777777777777777776654

>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=98.79  E-value=4.3e-08  Score=73.22  Aligned_cols=111  Identities=6%  Similarity=0.032  Sum_probs=70.3

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCc-------hH
Q 048090          298 VAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSS-------VS  370 (447)
Q Consensus       298 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~-------~~  370 (447)
                      ..+..+...+...|+++.|...|++....  .+.+...+..+..++...|++++|...++++....  |.+       ..
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~   80 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVG--RENREDYRQIAK   80 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH--HHSTTCHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhc--cccchhHHHHHH
Confidence            44556666666777777777777776654  13345666666667777777777777777766554  333       55


Q ss_pred             hHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHH
Q 048090          371 MWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLY  413 (447)
Q Consensus       371 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  413 (447)
                      ++..++.++...|++++|...++++++..| ++.....+..+.
T Consensus        81 ~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~  122 (131)
T 1elr_A           81 AYARIGNSYFKEEKYKDAIHFYNKSLAEHR-TPDVLKKCQQAE  122 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CHHHHHHHHHHH
Confidence            566677777777777777777777777666 455555554443

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.79  E-value=4.6e-08  Score=76.48  Aligned_cols=115  Identities=12%  Similarity=0.010  Sum_probs=91.3

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcC----------------CCCChhhHHHHHHHHHHcCCHHHHHHHHHHHH
Q 048090          297 EVAFVTVISACSHTGQVKLGIEYFEWMVHDYK----------------LEPGPEHYSCLVDLLCRAGELDKAWKLINEML  360 (447)
Q Consensus       297 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~----------------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  360 (447)
                      ...+......+.+.|++++|+..|.+......                -+.+...|..+..+|.+.|++++|+..+++.+
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al   90 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVL   90 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            45677778888899999999999998875300                01124677888888899999999999999988


Q ss_pred             hCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCch-hHHHHHHHHH
Q 048090          361 DRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNV-GIYVMLSNLY  413 (447)
Q Consensus       361 ~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~l~~~~  413 (447)
                      ..+  |.+..+|..++.++...|++++|...++++++.+|.+. .+...+..+.
T Consensus        91 ~~~--p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~l~~~~  142 (162)
T 3rkv_A           91 KRE--ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAAASVVAREMKIVT  142 (162)
T ss_dssp             HHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHH
T ss_pred             hcC--CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            876  88888899999999999999999999999999999887 5555554443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.77  E-value=3e-07  Score=68.47  Aligned_cols=95  Identities=15%  Similarity=0.023  Sum_probs=71.6

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCch---HhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCc---hhHHHHH
Q 048090          336 YSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSV---SMWGALLSACHDCGKFELGKLAAQKALELDPHN---VGIYVML  409 (447)
Q Consensus       336 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~~~~l  409 (447)
                      +..+...+...|++++|...++++.+..  |++.   .++..++.++...|++++|...++++++..|.+   +.++..+
T Consensus         5 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l   82 (129)
T 2xev_A            5 AYNVAFDALKNGKYDDASQLFLSFLELY--PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKL   82 (129)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHH
Confidence            3445566777888888888888877765  5555   467777888888888888888888888877777   6667778


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHc
Q 048090          410 SNLYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       410 ~~~~~~~g~~~~A~~~~~~m~~~  432 (447)
                      +.+|...|++++|...++++.+.
T Consensus        83 a~~~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           83 GLSQYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHH
Confidence            88888888888888888877764

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.76  E-value=7.9e-08  Score=70.83  Aligned_cols=99  Identities=12%  Similarity=0.000  Sum_probs=76.6

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHH
Q 048090          300 FVTVISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSA  378 (447)
Q Consensus       300 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~  378 (447)
                      +..+...+.+.|++++|...|+++.+.   .| +...|..+..++...|++++|+..+++.++.+  |++..++..++.+
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~---~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~--P~~~~~~~~la~~   94 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQK---EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD--PKDIAVHAALAVS   94 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHH
Confidence            445566677888888888888888765   44 57778888888888899999999988888877  8888888888888


Q ss_pred             HHhcCCccHHHHHHHHHhhhCCCch
Q 048090          379 CHDCGKFELGKLAAQKALELDPHNV  403 (447)
Q Consensus       379 ~~~~g~~~~a~~~~~~~~~~~~~~~  403 (447)
                      +...|++++|...++++++..|.+.
T Consensus        95 ~~~~g~~~~A~~~~~~al~~~P~~~  119 (121)
T 1hxi_A           95 HTNEHNANAALASLRAWLLSQPQYE  119 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHC------
T ss_pred             HHHcCCHHHHHHHHHHHHHhCcCCC
Confidence            8889999999999998888887654

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.75  E-value=1.4e-08  Score=74.52  Aligned_cols=94  Identities=17%  Similarity=0.147  Sum_probs=64.7

Q ss_pred             cCcHHHHHHHHHHHHHhcCC-CC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccH
Q 048090          310 TGQVKLGIEYFEWMVHDYKL-EP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFEL  387 (447)
Q Consensus       310 ~~~~~~a~~~~~~~~~~~~~-~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  387 (447)
                      .|++++|+..|++..+. +. .| +...+..+..+|...|++++|...+++.++..  |++..++..++.++...|++++
T Consensus         3 ~g~~~~A~~~~~~al~~-~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~   79 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIAS-GLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF--PNHQALRVFYAMVLYNLGRYEQ   79 (117)
T ss_dssp             ----CCCHHHHHHHHSS-CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             CCcHHHHHHHHHHHHHc-CCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCchHHHHHHHHHHHHcCCHHH
Confidence            56777777777777642 10 23 35667777777777888888888888777766  7777777777778888888888


Q ss_pred             HHHHHHHHhhhCCCchhHH
Q 048090          388 GKLAAQKALELDPHNVGIY  406 (447)
Q Consensus       388 a~~~~~~~~~~~~~~~~~~  406 (447)
                      |...++++++..|.++...
T Consensus        80 A~~~~~~al~~~p~~~~~~   98 (117)
T 3k9i_A           80 GVELLLKIIAETSDDETIQ   98 (117)
T ss_dssp             HHHHHHHHHHHHCCCHHHH
T ss_pred             HHHHHHHHHHhCCCcHHHH
Confidence            8888888777777766543

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.75  E-value=3.1e-07  Score=74.53  Aligned_cols=99  Identities=12%  Similarity=-0.034  Sum_probs=43.2

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHhhhhc----CCCC-cHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCC---
Q 048090          152 SVCANALLSGYCEAKLWAGGLELVRLMPAL----GLDY-DHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGND---  223 (447)
Q Consensus       152 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---  223 (447)
                      ..++..+...+...|++++|...+++..+.    +..| ....+..+...+...|++++|...+++..........+   
T Consensus        26 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  105 (203)
T 3gw4_A           26 SGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWDAARRCFLEERELLASLPEDPLA  105 (203)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHH
Confidence            344444555555555555555555444331    1111 12234444444555555555555555544431111101   


Q ss_pred             -hhHHHHHHHHHHhcCChHHHHHHHHhh
Q 048090          224 -VFMQSSLIEMYGKCGLVTKALQVFNLA  250 (447)
Q Consensus       224 -~~~~~~l~~~~~~~g~~~~A~~~~~~~  250 (447)
                       ...+..+...+...|++++|...+++.
T Consensus       106 ~~~~~~~lg~~~~~~g~~~~A~~~~~~a  133 (203)
T 3gw4_A          106 ASANAYEVATVALHFGDLAGARQEYEKS  133 (203)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence             223444444455555555555555443

>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=98.75  E-value=2.4e-05  Score=67.80  Aligned_cols=198  Identities=7%  Similarity=-0.048  Sum_probs=134.0

Q ss_pred             HHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcC--ChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCC-HH
Q 048090          203 AEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCG--LVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGY-FK  279 (447)
Q Consensus       203 ~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-~~  279 (447)
                      ++++..+++.+...   .+.+..+|+.-.-++...|  .+++++.+++++...    .+.+..+|+.-.-.+...|. ++
T Consensus        90 l~~EL~~~~~~L~~---~PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~----dprNy~AW~~R~~vl~~l~~~~~  162 (331)
T 3dss_A           90 VKAELGFLESCLRV---NPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEA----DERNFHCWDYRRFVAAQAAVAPA  162 (331)
T ss_dssp             HHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHH----CTTCHHHHHHHHHHHHHTTCCHH
T ss_pred             HHHHHHHHHHHHHh---CCCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHh----CCCCHHHHHHHHHHHHHhCcCHH
Confidence            56677777777776   2346667766666666666  367788777776665    56677777776666667776 47


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHhcc--------------CcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHH
Q 048090          280 EVIKLYEAMLMNGTKPDEVAFVTVISACSHT--------------GQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLC  344 (447)
Q Consensus       280 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~--------------~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~  344 (447)
                      ++++.++++.+..+. |...|+.....+...              +.++++++.+......   .| |...|+.+-..+.
T Consensus       163 eel~~~~~~I~~~p~-N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~---~P~d~SaW~Y~r~ll~  238 (331)
T 3dss_A          163 EELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFT---DPNDQSAWFYHRWLLG  238 (331)
T ss_dssp             HHHHHHHHHHHHCSC-CHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHH---STTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHH
Confidence            788888887776533 555665554444333              4577888888888765   44 5666665554454


Q ss_pred             Hc-----------CCHHHHHHHHHHHHhCCCCCCchHhHHHHHHH---HHhcCCccHHHHHHHHHhhhCCCchhHHHHHH
Q 048090          345 RA-----------GELDKAWKLINEMLDRGHGSSSVSMWGALLSA---CHDCGKFELGKLAAQKALELDPHNVGIYVMLS  410 (447)
Q Consensus       345 ~~-----------g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~---~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~  410 (447)
                      +.           +.++++++.++++.+..  |++.-.+..++..   ....|..++....+.++.+++|-...-|..+.
T Consensus       239 ~~~~~~~~~~~~~~~l~~el~~~~elle~~--pd~~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~Dp~r~~~y~d~~  316 (331)
T 3dss_A          239 AGSGRCELSVEKSTVLQSELESCKELQELE--PENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLR  316 (331)
T ss_dssp             SSSCGGGCCHHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHCGGGHHHHHHHH
T ss_pred             hccCccccchHHHHHHHHHHHHHHHHHhhC--cccchHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCcchhhHHHHHH
Confidence            44           45789999999999887  8764433333221   12356777899999999999998888887776


Q ss_pred             HHH
Q 048090          411 NLY  413 (447)
Q Consensus       411 ~~~  413 (447)
                      ..+
T Consensus       317 ~~~  319 (331)
T 3dss_A          317 SKF  319 (331)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            544

>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=98.74  E-value=4e-08  Score=91.21  Aligned_cols=120  Identities=10%  Similarity=0.061  Sum_probs=102.0

Q ss_pred             HHHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHh
Q 048090          303 VISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHD  381 (447)
Q Consensus       303 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~  381 (447)
                      +...+.+.|++++|.+.|++..+.   .| +...|..+..+|.+.|++++|++.+++.++..  |.+..++..++.+|..
T Consensus        12 lg~~~~~~g~~~~A~~~~~~Al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~lg~~~~~   86 (477)
T 1wao_1           12 QANDYFKAKDYENAIKFYSQAIEL---NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD--KKYIKGYYRRAASNMA   86 (477)
T ss_dssp             SSSSTTTTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC--TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHh---CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHH
Confidence            344566789999999999999865   44 48888999999999999999999999999886  8889999999999999


Q ss_pred             cCCccHHHHHHHHHhhhCCCchhHHHHHHHH--HHhcCChHHHHHHHH
Q 048090          382 CGKFELGKLAAQKALELDPHNVGIYVMLSNL--YAKFCMWDEIGQLRE  427 (447)
Q Consensus       382 ~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~A~~~~~  427 (447)
                      .|++++|...++++++..|.+..++..+..+  +.+.|++++|++.++
T Consensus        87 ~g~~~eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           87 LGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HTCHHHHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             cCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            9999999999999999999998888888887  888899999999887

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.74  E-value=1.7e-07  Score=67.63  Aligned_cols=103  Identities=15%  Similarity=0.078  Sum_probs=83.5

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCC--chHhHHH
Q 048090          297 EVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSS--SVSMWGA  374 (447)
Q Consensus       297 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~--~~~~~~~  374 (447)
                      ...+..+...+...|++++|...++++.+.  .+.+...+..+..++...|++++|...+++..+..  |.  +..++..
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~   81 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAIQL--DPEESKYWLMKGKALYNLERYEEAVDCYNYVINVI--EDEYNKDVWAA   81 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS--CCTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--cccchHHHHHH
Confidence            445666777778888888888888888765  13356778888888889999999999999988876  77  7788889


Q ss_pred             HHHHHHhc-CCccHHHHHHHHHhhhCCCch
Q 048090          375 LLSACHDC-GKFELGKLAAQKALELDPHNV  403 (447)
Q Consensus       375 l~~~~~~~-g~~~~a~~~~~~~~~~~~~~~  403 (447)
                      ++.++... |++++|.+.++++++..|+++
T Consensus        82 l~~~~~~~~~~~~~A~~~~~~~~~~~p~~~  111 (112)
T 2kck_A           82 KADALRYIEGKEVEAEIAEARAKLEHHHHH  111 (112)
T ss_dssp             HHHHHTTCSSCSHHHHHHHHHHGGGCCCCC
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHhhcccCCC
Confidence            99999999 999999999999998887654

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.73  E-value=1e-07  Score=74.43  Aligned_cols=103  Identities=14%  Similarity=0.055  Sum_probs=62.0

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhC--------CC--------CC-CHHHHHHHHHHHhccCcHHHHHHHHHHHH
Q 048090          262 VVLWTSMLGVYGRNGYFKEVIKLYEAMLMN--------GT--------KP-DEVAFVTVISACSHTGQVKLGIEYFEWMV  324 (447)
Q Consensus       262 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~--------~~--------~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  324 (447)
                      ...+......+.+.|++++|+..|.+....        ..        .| +...|..+..++.+.|++++|+..+++++
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al   90 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVL   90 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            445556666666666777776666666553        00        11 22455566666666666777766666666


Q ss_pred             HhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCch
Q 048090          325 HDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSV  369 (447)
Q Consensus       325 ~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~  369 (447)
                      ..   .| +...|..+..+|...|++++|...|++.+...  |++.
T Consensus        91 ~~---~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~--p~~~  131 (162)
T 3rkv_A           91 KR---EETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNH--PAAA  131 (162)
T ss_dssp             HH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--GGGH
T ss_pred             hc---CCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcC--CCCH
Confidence            43   33 35666666666666677777776666666655  5554

>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=98.72  E-value=1.6e-07  Score=84.00  Aligned_cols=92  Identities=12%  Similarity=0.036  Sum_probs=84.4

Q ss_pred             ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHH
Q 048090          332 GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSN  411 (447)
Q Consensus       332 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  411 (447)
                      +...|..+..+|.+.|++++|+..++++++..  |++..++..++.+|...|++++|...++++++..|.+..++..+..
T Consensus       272 ~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~  349 (370)
T 1ihg_A          272 ALSCVLNIGACKLKMSDWQGAVDSCLEALEID--PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLK  349 (370)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC--chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            36778889999999999999999999999876  8899999999999999999999999999999999999999999999


Q ss_pred             HHHhcCChHHHHHH
Q 048090          412 LYAKFCMWDEIGQL  425 (447)
Q Consensus       412 ~~~~~g~~~~A~~~  425 (447)
                      ++...++.+++.+.
T Consensus       350 ~~~~~~~~~~a~k~  363 (370)
T 1ihg_A          350 VKQKIKAQKDKEKA  363 (370)
T ss_dssp             HHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHH
Confidence            99988888877543

>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=98.72  E-value=5.7e-08  Score=78.79  Aligned_cols=157  Identities=6%  Similarity=-0.045  Sum_probs=103.3

Q ss_pred             HHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---------------H
Q 048090          233 MYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPD---------------E  297 (447)
Q Consensus       233 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~---------------~  297 (447)
                      .....|+++++.+.++.....    .......+..+...+...|++++|...|++..+......               .
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~   88 (198)
T 2fbn_A           13 GRENLYFQGAKKSIYDYTDEE----KVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEI   88 (198)
T ss_dssp             ---------CCCSGGGCCHHH----HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHH
T ss_pred             hhhhhhhccccCchhhCCHHH----HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHH
Confidence            344445666665555421111    122344566677777888888888888888776421111               2


Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHH
Q 048090          298 VAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLS  377 (447)
Q Consensus       298 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~  377 (447)
                      ..+..+..++...|++++|...+++..+.  .+.+...+..+..+|...|++++|...|++.++..  |.+..++..+..
T Consensus        89 ~~~~~la~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~l~~  164 (198)
T 2fbn_A           89 SCNLNLATCYNKNKDYPKAIDHASKVLKI--DKNNVKALYKLGVANMYFGFLEEAKENLYKAASLN--PNNLDIRNSYEL  164 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS--TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC--CCcHHHHHHHHH
Confidence            67788888899999999999999999875  23457888889999999999999999999998876  888888888888


Q ss_pred             HHHhcCCccHHH-HHHHHHhh
Q 048090          378 ACHDCGKFELGK-LAAQKALE  397 (447)
Q Consensus       378 ~~~~~g~~~~a~-~~~~~~~~  397 (447)
                      ++...++.+++. ..+..+..
T Consensus       165 ~~~~~~~~~~~~~~~~~~~f~  185 (198)
T 2fbn_A          165 CVNKLKEARKKDKLTFGGMFD  185 (198)
T ss_dssp             HHHHHHHHHC-----------
T ss_pred             HHHHHHHHHHHHHHHHHHHhc
Confidence            888877776665 44444443

>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=98.71  E-value=1.7e-07  Score=69.82  Aligned_cols=96  Identities=14%  Similarity=0.152  Sum_probs=58.0

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCc-------hhHHH
Q 048090          335 HYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHN-------VGIYV  407 (447)
Q Consensus       335 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-------~~~~~  407 (447)
                      .+..+...+...|++++|...+++.....  |.+..++..++.++...|++++|...++++++..|.+       ..++.
T Consensus         6 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            6 KEKELGNDAYKKKDFDTALKHYDKAKELD--PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHH
Confidence            44555555666666666666666665554  5555556666666666666666666666666655443       55566


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHc
Q 048090          408 MLSNLYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       408 ~l~~~~~~~g~~~~A~~~~~~m~~~  432 (447)
                      .++.+|...|++++|.+.+++..+.
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHh
Confidence            6666666666666666666666553

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.71  E-value=5.2e-08  Score=86.21  Aligned_cols=149  Identities=12%  Similarity=0.036  Sum_probs=88.3

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 048090          262 VVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVD  341 (447)
Q Consensus       262 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  341 (447)
                      ...+..+...+.+.|++++|...|++....  .|+...       +...++.+++...+.           ...|..+..
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l~-----------~~~~~nla~  238 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAVK-----------NPCHLNIAA  238 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHHH-----------THHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHHH-----------HHHHHHHHH
Confidence            445666777777888888888888887763  444331       233444444432221           136788899


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHH-HhcCChH
Q 048090          342 LLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLY-AKFCMWD  420 (447)
Q Consensus       342 ~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~~~  420 (447)
                      +|.+.|++++|+..+++.++..  |++..+|..++.+|...|++++|...|+++++..|.+..++..+.... ...+..+
T Consensus       239 ~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~  316 (338)
T 2if4_A          239 CLIKLKRYDEAIGHCNIVLTEE--EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQ  316 (338)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC------------------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999887  889999999999999999999999999999999999999999888773 4566778


Q ss_pred             HHHHHHHHHHHc
Q 048090          421 EIGQLRELMKEK  432 (447)
Q Consensus       421 ~A~~~~~~m~~~  432 (447)
                      ++...|++|...
T Consensus       317 ~a~~~~~~~l~~  328 (338)
T 2if4_A          317 KQKEMYKGIFKG  328 (338)
T ss_dssp             ------------
T ss_pred             HHHHHHHHhhCC
Confidence            888899988753

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.70  E-value=3.8e-08  Score=72.13  Aligned_cols=88  Identities=11%  Similarity=0.129  Sum_probs=66.4

Q ss_pred             HcCCHHHHHHHHHHHHhCCC-CCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHH
Q 048090          345 RAGELDKAWKLINEMLDRGH-GSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIG  423 (447)
Q Consensus       345 ~~g~~~~A~~~~~~~~~~~~-~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  423 (447)
                      ..|++++|+..|++.++.+. .|.+..++..++.++...|++++|...++++++..|.++.++..++.++...|++++|+
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHH
Confidence            35778888888888887631 15666778888888888888888888888888888888888888888888888888888


Q ss_pred             HHHHHHHHc
Q 048090          424 QLRELMKEK  432 (447)
Q Consensus       424 ~~~~~m~~~  432 (447)
                      ..+++....
T Consensus        82 ~~~~~al~~   90 (117)
T 3k9i_A           82 ELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            888877653

>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=98.67  E-value=4e-07  Score=67.68  Aligned_cols=99  Identities=8%  Similarity=0.068  Sum_probs=70.0

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCc-------h
Q 048090          298 VAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSS-------V  369 (447)
Q Consensus       298 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~-------~  369 (447)
                      .++..+...+.+.|++++|+..|++.++.   .| +...|..+..+|.+.|++++|++.+++.++.+  |+.       .
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~---~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~~a   83 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIEL---DPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVG--RETRADYKLIA   83 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--HHTTCCHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhC--cccchhhHHHH
Confidence            34556667777777777777777777654   34 46667777777778888888888777776543  322       1


Q ss_pred             HhHHHHHHHHHhcCCccHHHHHHHHHhhhCCC
Q 048090          370 SMWGALLSACHDCGKFELGKLAAQKALELDPH  401 (447)
Q Consensus       370 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  401 (447)
                      .+|..++.++...|++++|...|+++++..|+
T Consensus        84 ~~~~~lg~~~~~~~~~~~A~~~~~kal~~~~~  115 (127)
T 4gcn_A           84 KAMSRAGNAFQKQNDLSLAVQWFHRSLSEFRD  115 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcC
Confidence            25677778888888888888888888877663

>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=98.66  E-value=3.3e-08  Score=74.84  Aligned_cols=89  Identities=15%  Similarity=0.092  Sum_probs=52.6

Q ss_pred             ccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCH----------HHHHHHHHHHHhCCCCCCchHhHHHHHH
Q 048090          309 HTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGEL----------DKAWKLINEMLDRGHGSSSVSMWGALLS  377 (447)
Q Consensus       309 ~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~----------~~A~~~~~~~~~~~~~p~~~~~~~~l~~  377 (447)
                      +.+.+++|.+.++...+.   .| +...|..+..++...+++          ++|+..|++.++.+  |+...+|..++.
T Consensus        14 r~~~feeA~~~~~~Ai~l---~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld--P~~~~A~~~LG~   88 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKS---NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID--PKKDEAVWCIGN   88 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC--cCcHHHHHHHHH
Confidence            344566666666666543   33 455566566666655543          36666666666655  666666666666


Q ss_pred             HHHhcC-----------CccHHHHHHHHHhhhCCCc
Q 048090          378 ACHDCG-----------KFELGKLAAQKALELDPHN  402 (447)
Q Consensus       378 ~~~~~g-----------~~~~a~~~~~~~~~~~~~~  402 (447)
                      +|...|           ++++|...|+++++++|.+
T Consensus        89 ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~P~~  124 (158)
T 1zu2_A           89 AYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPDN  124 (158)
T ss_dssp             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHhcccCcchhhhhccHHHHHHHHHHHHHhCCCC
Confidence            666553           5666666666666666654

>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=98.64  E-value=2.3e-06  Score=80.86  Aligned_cols=174  Identities=13%  Similarity=0.041  Sum_probs=143.2

Q ss_pred             ChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCC----------HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHh
Q 048090          239 LVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGY----------FKEVIKLYEAMLMNGTKPDEVAFVTVISACS  308 (447)
Q Consensus       239 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----------~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  308 (447)
                      ..++|++.++++...    .+.+..+|+.--.++...|+          +++++..++++.+...+ +..+|..-..++.
T Consensus        44 ~~eeal~~~~~~l~~----nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK-~y~aW~hR~w~l~  118 (567)
T 1dce_A           44 LDESVLELTSQILGA----NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLS  118 (567)
T ss_dssp             CSHHHHHHHHHHHHH----CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHH----CchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence            446778888877665    55566778777777766666          89999999999986533 6778888777888


Q ss_pred             ccC--cHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcC-CHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhc---
Q 048090          309 HTG--QVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAG-ELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDC---  382 (447)
Q Consensus       309 ~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~---  382 (447)
                      +.+  +++++++.++++.+..  +-+...|+.-...+.+.| .++++++.++++++.+  |.+..+|+.....+...   
T Consensus       119 ~l~~~~~~~el~~~~k~l~~d--~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~--p~n~saW~~r~~ll~~l~~~  194 (567)
T 1dce_A          119 RLPEPNWARELELCARFLEAD--ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN--FSNYSSWHYRSCLLPQLHPQ  194 (567)
T ss_dssp             TCSSCCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT--CCCHHHHHHHHHHHHHHSCC
T ss_pred             HcccccHHHHHHHHHHHHhhc--cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC--CCCccHHHHHHHHHHhhccc
Confidence            888  6799999999999761  446888888887888888 8999999999999887  88999999999888774   


Q ss_pred             -----------CCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHH
Q 048090          383 -----------GKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDE  421 (447)
Q Consensus       383 -----------g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  421 (447)
                                 +.++++.+.+++++..+|.+..+|..+...+.+.++.++
T Consensus       195 ~~~~~~~~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          195 PDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             CCSSSCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCCSC
T ss_pred             ccccccccccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhcCCCccc
Confidence                       557899999999999999999999999999988887554

>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=98.64  E-value=1.3e-07  Score=71.85  Aligned_cols=104  Identities=12%  Similarity=0.018  Sum_probs=80.3

Q ss_pred             HHHHHHhccCcHHHHHHHHHHHHHhcCCCCC-------------hhhHHHHHHHHHHcCCHHHHHHHHHHHHhC------
Q 048090          302 TVISACSHTGQVKLGIEYFEWMVHDYKLEPG-------------PEHYSCLVDLLCRAGELDKAWKLINEMLDR------  362 (447)
Q Consensus       302 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~------  362 (447)
                      .....+.+.|++++|+..|++.++-   .|+             ...|..+..++.+.|++++|+..+++.++.      
T Consensus        16 ~~G~~l~~~g~~eeAi~~Y~kAL~l---~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e   92 (159)
T 2hr2_A           16 SDAQRQLVAGEYDEAAANCRRAMEI---SHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGE   92 (159)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHH---HTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhh---CCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhcccc
Confidence            3344445555556665555555533   222             237888899999999999999999999887      


Q ss_pred             -CCCCCchHhH----HHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHH
Q 048090          363 -GHGSSSVSMW----GALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLS  410 (447)
Q Consensus       363 -~~~p~~~~~~----~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~  410 (447)
                       +  |++..+|    ...+.++...|++++|...|++++++.|.+..+..-+-
T Consensus        93 ~~--pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~~~~~~  143 (159)
T 2hr2_A           93 LN--QDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKE  143 (159)
T ss_dssp             TT--STHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCCTTHH
T ss_pred             CC--CchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHH
Confidence             6  9999999    99999999999999999999999999988766544443

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.61  E-value=2.4e-08  Score=72.33  Aligned_cols=94  Identities=10%  Similarity=-0.022  Sum_probs=80.1

Q ss_pred             ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCc------hhH
Q 048090          332 GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHN------VGI  405 (447)
Q Consensus       332 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~------~~~  405 (447)
                      +...+..+...+...|++++|...+++.++..  |.+..++..++.++...|++++|...++++++..|.+      ...
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~   80 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ--PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEHVAIRSKL   80 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTSHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccHHHHHHHH
Confidence            45667778888999999999999999998876  8888889999999999999999999999999999988      778


Q ss_pred             HHHHHHHHHhcCChHHHHHHHH
Q 048090          406 YVMLSNLYAKFCMWDEIGQLRE  427 (447)
Q Consensus       406 ~~~l~~~~~~~g~~~~A~~~~~  427 (447)
                      +..++.++...|++++|.+.++
T Consensus        81 ~~~~~~~~~~~~~~~~a~~~~~  102 (111)
T 2l6j_A           81 QYRLELAQGAVGSVQIPVVEVD  102 (111)
T ss_dssp             HHHHHHHHHHHHCCCCCSSSSS
T ss_pred             HHHHHHHHHHHHhHhhhHhHHH
Confidence            8888888888887777755444

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.60  E-value=5.1e-07  Score=70.05  Aligned_cols=133  Identities=17%  Similarity=0.024  Sum_probs=88.4

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC----hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCC----CCCCchH
Q 048090          299 AFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG----PEHYSCLVDLLCRAGELDKAWKLINEMLDRG----HGSSSVS  370 (447)
Q Consensus       299 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~----~~p~~~~  370 (447)
                      ++..+...+...|++++|...+++..+...-.++    ..++..+...+...|++++|...+++.....    ..+....
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~   90 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ   90 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHH
Confidence            4455555555666666666666655432100111    2356667777778888888888887765432    1111244


Q ss_pred             hHHHHHHHHHhcCCccHHHHHHHHHhhhCC------CchhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          371 MWGALLSACHDCGKFELGKLAAQKALELDP------HNVGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       371 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~------~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      ++..++.++...|++++|...++++++..+      ....++..++..|...|++++|.+.+++..+
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            577788888888899888888888876531      1355788888899999999999999888765

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.59  E-value=3.3e-06  Score=77.51  Aligned_cols=167  Identities=12%  Similarity=-0.080  Sum_probs=105.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCCH----HHHHHHHHHHhccCcHHHHHHHHHHHHHh---cCCCCC-hhh
Q 048090          265 WTSMLGVYGRNGYFKEVIKLYEAMLMNG-TKPDE----VAFVTVISACSHTGQVKLGIEYFEWMVHD---YKLEPG-PEH  335 (447)
Q Consensus       265 ~~~l~~~~~~~g~~~~a~~~~~~m~~~~-~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~~~~-~~~  335 (447)
                      +..+...|...|++++|.+.+..+...- ..++.    .+.+.+-..+...|+++.+..+++.....   .+..+. ..+
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 11111    12223333444567777887777766432   122222 456


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhC----CCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhC---CCc----hh
Q 048090          336 YSCLVDLLCRAGELDKAWKLINEMLDR----GHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELD---PHN----VG  404 (447)
Q Consensus       336 ~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~---~~~----~~  404 (447)
                      +..+...|...|++++|..+++++...    +-.+....++..++..|...|++++|..++++++...   +.+    ..
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            677778888888888888887776432    2223345567778888888888888888888777642   211    34


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          405 IYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       405 ~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      ++..++..+...|++++|...+.+...
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            566677777788888888777666643

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.55  E-value=4e-07  Score=66.32  Aligned_cols=82  Identities=16%  Similarity=0.061  Sum_probs=59.1

Q ss_pred             HHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHH
Q 048090          315 LGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQ  393 (447)
Q Consensus       315 ~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~  393 (447)
                      .|...|++..+.   .| +...+..+...|...|++++|...+++.+...  |.+..+|..++.++...|++++|...++
T Consensus         3 ~a~~~~~~al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~   77 (115)
T 2kat_A            3 AITERLEAMLAQ---GTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD--PTYSVAWKWLGKTLQGQGDRAGARQAWE   77 (115)
T ss_dssp             CHHHHHHHHHTT---TCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHh---CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            456666666643   33 46677777777777888888888887777765  6677777777778888888888888888


Q ss_pred             HHhhhCCC
Q 048090          394 KALELDPH  401 (447)
Q Consensus       394 ~~~~~~~~  401 (447)
                      ++++..|.
T Consensus        78 ~al~~~~~   85 (115)
T 2kat_A           78 SGLAAAQS   85 (115)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHhccc
Confidence            77776653

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.54  E-value=7.8e-07  Score=61.44  Aligned_cols=83  Identities=27%  Similarity=0.306  Sum_probs=72.6

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHH
Q 048090          333 PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNL  412 (447)
Q Consensus       333 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  412 (447)
                      ...+..+...+...|++++|...+++.++..  |.+..++..++.++...|++++|...++++++..|.+..++..++.+
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~   86 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD--PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNA   86 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            5667778888899999999999999998876  77888899999999999999999999999999999999999988888


Q ss_pred             HHhcC
Q 048090          413 YAKFC  417 (447)
Q Consensus       413 ~~~~g  417 (447)
                      +.+.|
T Consensus        87 ~~~~g   91 (91)
T 1na3_A           87 KQKQG   91 (91)
T ss_dssp             HHHHC
T ss_pred             HHhcC
Confidence            76654

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.53  E-value=3.1e-06  Score=77.68  Aligned_cols=171  Identities=9%  Similarity=-0.046  Sum_probs=96.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCc--chhhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCC-HHH
Q 048090          227 QSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINK--DVVLWTSMLGVYGRNGYFKEVIKLYEAMLMN----GTKPD-EVA  299 (447)
Q Consensus       227 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~----~~~p~-~~~  299 (447)
                      +..++..|...|++++|.+.+..+......-...  ...+.+.+...+...|+++.|..+++.....    +..+. ..+
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            3456666777777777777766554432211100  0112233333444556777777776665432    22222 345


Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHHhcCC---CC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCC--C-CCCc--hH
Q 048090          300 FVTVISACSHTGQVKLGIEYFEWMVHDYKL---EP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRG--H-GSSS--VS  370 (447)
Q Consensus       300 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~---~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~-~p~~--~~  370 (447)
                      +..+...+...|++++|..+++++.....-   .+ ....+..++..|...|++++|..++++.....  + .|+.  ..
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            666777777777777777777776543111   11 14466777777777778777777777664321  1 1111  23


Q ss_pred             hHHHHHHHHHhcCCccHHHHHHHHHhh
Q 048090          371 MWGALLSACHDCGKFELGKLAAQKALE  397 (447)
Q Consensus       371 ~~~~l~~~~~~~g~~~~a~~~~~~~~~  397 (447)
                      .+..++..+...|++++|...+.++.+
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            455666667777777777777776655

>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=98.49  E-value=1.4e-06  Score=80.73  Aligned_cols=116  Identities=9%  Similarity=0.017  Sum_probs=59.9

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHH
Q 048090          272 YGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELD  350 (447)
Q Consensus       272 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~  350 (447)
                      +.+.|++++|.+.+++..+.. +.+..++..+..++.+.|++++|...+++..+.   .| +...|..+..+|...|+++
T Consensus        16 ~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l---~p~~~~~~~~lg~~~~~~g~~~   91 (477)
T 1wao_1           16 YFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIEL---DKKYIKGYYRRAASNMALGKFR   91 (477)
T ss_dssp             TTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS---CTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHH
Confidence            344555555555555555532 113455555555555556666666665555532   23 3455555555566666666


Q ss_pred             HHHHHHHHHHhCCCCCCchHhHHHHHHH--HHhcCCccHHHHHHH
Q 048090          351 KAWKLINEMLDRGHGSSSVSMWGALLSA--CHDCGKFELGKLAAQ  393 (447)
Q Consensus       351 ~A~~~~~~~~~~~~~p~~~~~~~~l~~~--~~~~g~~~~a~~~~~  393 (447)
                      +|.+.++++++..  |++..++..+..+  +.+.|++++|...++
T Consensus        92 eA~~~~~~al~~~--p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           92 AALRDYETVVKVK--PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHS--TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            6666666655544  4444445555444  555566666666655

>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=98.47  E-value=4.6e-06  Score=78.87  Aligned_cols=163  Identities=11%  Similarity=0.044  Sum_probs=134.2

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCc----------HHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHH
Q 048090          276 GYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQ----------VKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCR  345 (447)
Q Consensus       276 g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  345 (447)
                      ...++|++.++++...+.. +...|+.--.++...|+          ++++++.++.+.+.  -+-+..+|..-..++.+
T Consensus        43 ~~~eeal~~~~~~l~~nP~-~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~--~pK~y~aW~hR~w~l~~  119 (567)
T 1dce_A           43 ELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV--NPKSYGTWHHRCWLLSR  119 (567)
T ss_dssp             CCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHH
Confidence            3456889999999986422 45566665556666666          89999999999976  24468888888888889


Q ss_pred             cC--CHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcC-CccHHHHHHHHHhhhCCCchhHHHHHHHHHHhc------
Q 048090          346 AG--ELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCG-KFELGKLAAQKALELDPHNVGIYVMLSNLYAKF------  416 (447)
Q Consensus       346 ~g--~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~------  416 (447)
                      .|  +++++++.++++.+.+  |.+..+|+.-..++...| .++++.+.++++++.+|.|..+|+....++.+.      
T Consensus       120 l~~~~~~~el~~~~k~l~~d--~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~  197 (567)
T 1dce_A          120 LPEPNWARELELCARFLEAD--ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDS  197 (567)
T ss_dssp             CSSCCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCS
T ss_pred             cccccHHHHHHHHHHHHhhc--cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhcccccc
Confidence            99  7799999999999988  889999999999999999 899999999999999999999999999988774      


Q ss_pred             --------CChHHHHHHHHHHHHcCCCCCCccccccc
Q 048090          417 --------CMWDEIGQLRELMKEKGLKKDVGCSWIEV  445 (447)
Q Consensus       417 --------g~~~~A~~~~~~m~~~~~~p~~~~~~~~~  445 (447)
                              +.++++++.+++...  +.|+....|...
T Consensus       198 ~~~~~~~~~~~~eel~~~~~ai~--~~P~~~saW~y~  232 (567)
T 1dce_A          198 GPQGRLPENVLLKELELVQNAFF--TDPNDQSAWFYH  232 (567)
T ss_dssp             SSCCSSCHHHHHHHHHHHHHHHH--HCSSCSHHHHHH
T ss_pred             cccccccHHHHHHHHHHHHHHHh--hCCCCccHHHHH
Confidence                    567889999988886  567777666543

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.46  E-value=6.9e-07  Score=78.98  Aligned_cols=155  Identities=9%  Similarity=0.027  Sum_probs=88.2

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 048090          223 DVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVT  302 (447)
Q Consensus       223 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~  302 (447)
                      ....+..+...+.+.|++++|...|+++...     .|+...       +...++.+++...+.          ...|..
T Consensus       178 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~-----~p~~~~-------~~~~~~~~~~~~~l~----------~~~~~n  235 (338)
T 2if4_A          178 AADRRKMDGNSLFKEEKLEEAMQQYEMAIAY-----MGDDFM-------FQLYGKYQDMALAVK----------NPCHLN  235 (338)
T ss_dssp             HHHHHHHHHHHTCSSSCCHHHHHHHHHHHHH-----SCHHHH-------HTCCHHHHHHHHHHH----------THHHHH
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH-----hccchh-------hhhcccHHHHHHHHH----------HHHHHH
Confidence            4667888889999999999999999977664     333221       233444444433221          136788


Q ss_pred             HHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHH-HHh
Q 048090          303 VISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSA-CHD  381 (447)
Q Consensus       303 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~-~~~  381 (447)
                      +..++.+.|++++|+..+++.++.  -+.+...|..+..+|...|++++|...|+++++..  |++..++..+... ...
T Consensus       236 la~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~--p~~~~a~~~L~~l~~~~  311 (338)
T 2if4_A          236 IAACLIKLKRYDEAIGHCNIVLTE--EEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYA--PDDKAIRRELRALAEQE  311 (338)
T ss_dssp             HHHHHHTTTCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC---------------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHH
Confidence            888999999999999999999865  13358889999999999999999999999998876  8888877777776 344


Q ss_pred             cCCccHHHHHHHHHhhhCCCch
Q 048090          382 CGKFELGKLAAQKALELDPHNV  403 (447)
Q Consensus       382 ~g~~~~a~~~~~~~~~~~~~~~  403 (447)
                      .+..+.+...|+++++..|.++
T Consensus       312 ~~~~~~a~~~~~~~l~~~p~~~  333 (338)
T 2if4_A          312 KALYQKQKEMYKGIFKGKDEGG  333 (338)
T ss_dssp             ----------------------
T ss_pred             HHHHHHHHHHHHHhhCCCCCCC
Confidence            5677888899999998887654

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.46  E-value=1.8e-06  Score=66.85  Aligned_cols=136  Identities=15%  Similarity=0.117  Sum_probs=77.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CC----HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC----hh
Q 048090          264 LWTSMLGVYGRNGYFKEVIKLYEAMLMNGTK-PD----EVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG----PE  334 (447)
Q Consensus       264 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~-p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~  334 (447)
                      ++..+...+...|++++|...+++..+.... ++    ..++..+...+...|++++|...+++......-.++    ..
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~   90 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ   90 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHH
Confidence            3444445555555555555555554432100 01    134555555666666666666666665432110111    34


Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHhC----CCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhC
Q 048090          335 HYSCLVDLLCRAGELDKAWKLINEMLDR----GHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELD  399 (447)
Q Consensus       335 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  399 (447)
                      .+..+...+...|++++|...+++....    +..+....++..+...+...|++++|...++++++..
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  159 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEIS  159 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHH
Confidence            5566667777777777777777776533    2112223456777888888888888888888877643

>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=98.45  E-value=1.1e-06  Score=81.20  Aligned_cols=103  Identities=11%  Similarity=-0.009  Sum_probs=85.1

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCc---------------hHhHHHHHHHHHhcCCccHHHHHHHHHhh
Q 048090          333 PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSS---------------VSMWGALLSACHDCGKFELGKLAAQKALE  397 (447)
Q Consensus       333 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~---------------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  397 (447)
                      ...|..+...+.+.|++++|...|++++...  |.+               ..+|..+..+|.+.|++++|...++++++
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~--p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~  345 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSWL--EMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALG  345 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--TTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHh
Confidence            4456666777777777777777777777654  544               57799999999999999999999999999


Q ss_pred             hCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCCc
Q 048090          398 LDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDVG  439 (447)
Q Consensus       398 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~  439 (447)
                      .+|.+..+|..++.+|...|++++|+..|++..+  +.|+..
T Consensus       346 ~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~--l~P~~~  385 (457)
T 1kt0_A          346 LDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLE--VNPQNK  385 (457)
T ss_dssp             HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TC----
T ss_pred             cCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHH--hCCCCH
Confidence            9999999999999999999999999999999986  455543

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.43  E-value=1.2e-06  Score=61.96  Aligned_cols=66  Identities=12%  Similarity=0.113  Sum_probs=40.5

Q ss_pred             ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhC
Q 048090          332 GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELD  399 (447)
Q Consensus       332 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  399 (447)
                      +...+..+..+|...|++++|+..|+++++.+  |++..+|..++.+|...|++++|...++++++..
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~   71 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD--PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEVA   71 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhh
Confidence            34555566666666666666666666666555  5555566666666666666666666666665544

>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=98.41  E-value=1.7e-06  Score=77.37  Aligned_cols=96  Identities=13%  Similarity=0.054  Sum_probs=76.6

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhC--------------CCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCc
Q 048090          337 SCLVDLLCRAGELDKAWKLINEMLDR--------------GHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHN  402 (447)
Q Consensus       337 ~~l~~~~~~~g~~~~A~~~~~~~~~~--------------~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  402 (447)
                      ..+...+.+.|++++|+..|+++++.              ...|.+..+|..+..++.+.|++++|...++++++.+|.+
T Consensus       227 ~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~  306 (370)
T 1ihg_A          227 KNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSN  306 (370)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTC
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCchh
Confidence            33444455555555555555554430              0226677889999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 048090          403 VGIYVMLSNLYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       403 ~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  432 (447)
                      ..++..++.+|...|++++|++.+++..+.
T Consensus       307 ~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l  336 (370)
T 1ihg_A          307 TKALYRRAQGWQGLKEYDQALADLKKAQEI  336 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            999999999999999999999999999874

>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=98.40  E-value=1e-06  Score=66.67  Aligned_cols=96  Identities=13%  Similarity=0.077  Sum_probs=82.1

Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCcc----------HHHHHHHHHhhhCCCchhHHHHHHHH
Q 048090          343 LCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFE----------LGKLAAQKALELDPHNVGIYVMLSNL  412 (447)
Q Consensus       343 ~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~----------~a~~~~~~~~~~~~~~~~~~~~l~~~  412 (447)
                      ..+.+.+++|.+.+++.++.+  |++...|..++.++...++++          +|+..|+++++++|++..+|..++.+
T Consensus        12 ~~r~~~feeA~~~~~~Ai~l~--P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~a   89 (158)
T 1zu2_A           12 FDRILLFEQIRQDAENTYKSN--PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNA   89 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHH
Confidence            346678899999999999887  999999999999999888754          99999999999999999999999999


Q ss_pred             HHhcC-----------ChHHHHHHHHHHHHcCCCCCCcccc
Q 048090          413 YAKFC-----------MWDEIGQLRELMKEKGLKKDVGCSW  442 (447)
Q Consensus       413 ~~~~g-----------~~~~A~~~~~~m~~~~~~p~~~~~~  442 (447)
                      |...|           ++++|++.|++..+  +.|+-..|+
T Consensus        90 y~~lg~l~P~~~~a~g~~~eA~~~~~kAl~--l~P~~~~y~  128 (158)
T 1zu2_A           90 YTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYL  128 (158)
T ss_dssp             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHH
T ss_pred             HHHhcccCcchhhhhccHHHHHHHHHHHHH--hCCCCHHHH
Confidence            98874           89999999999987  566655443

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.29  E-value=4.2e-06  Score=60.74  Aligned_cols=79  Identities=15%  Similarity=0.096  Sum_probs=63.2

Q ss_pred             HHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 048090          351 KAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMK  430 (447)
Q Consensus       351 ~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  430 (447)
                      +|+..+++.++..  |++...+..++.++...|++++|...++++++..|.+...|..++.+|...|++++|...+++..
T Consensus         3 ~a~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLAQG--TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHTTT--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC--CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4667777777765  77777788888888888888888888888888888888888888888888888888888888776


Q ss_pred             H
Q 048090          431 E  431 (447)
Q Consensus       431 ~  431 (447)
                      +
T Consensus        81 ~   81 (115)
T 2kat_A           81 A   81 (115)
T ss_dssp             H
T ss_pred             H
Confidence            5

>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=98.26  E-value=2.9e-05  Score=58.38  Aligned_cols=110  Identities=13%  Similarity=-0.043  Sum_probs=55.4

Q ss_pred             cHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHh----cCCccH
Q 048090          312 QVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHD----CGKFEL  387 (447)
Q Consensus       312 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~  387 (447)
                      ++++|..+|++..+. + .|...    |...|...+.+++|.++|++..+.|    +..++..|...|..    .+++++
T Consensus        10 d~~~A~~~~~~aa~~-g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g----~~~a~~~Lg~~y~~G~g~~~d~~~   79 (138)
T 1klx_A           10 DLKKAIQYYVKACEL-N-EMFGC----LSLVSNSQINKQKLFQYLSKACELN----SGNGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHT-T-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT----CHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             CHHHHHHHHHHHHcC-C-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC----CHHHHHHHHHHHHcCCCCCccHHH
Confidence            445555555555443 2 12211    4444444445555555555555543    34445555555554    455555


Q ss_pred             HHHHHHHHhhhCCCchhHHHHHHHHHHh----cCChHHHHHHHHHHHHcC
Q 048090          388 GKLAAQKALELDPHNVGIYVMLSNLYAK----FCMWDEIGQLRELMKEKG  433 (447)
Q Consensus       388 a~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~~~  433 (447)
                      |...++++.+.  .++..+..|...|..    .+++++|.+.+++..+.|
T Consensus        80 A~~~~~~Aa~~--g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           80 AAQYYSKACGL--NDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHHHT--TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcC--CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            55555555544  234445555555555    555555555555555544

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.24  E-value=1.2e-05  Score=74.16  Aligned_cols=127  Identities=13%  Similarity=0.069  Sum_probs=99.1

Q ss_pred             HHhccCcHHHHHHHHHHHHHhcC--CCC---C-hhhHHHHHHHHHHcCCHHHHHHHHHHHHhC-----C-CCCCchHhHH
Q 048090          306 ACSHTGQVKLGIEYFEWMVHDYK--LEP---G-PEHYSCLVDLLCRAGELDKAWKLINEMLDR-----G-HGSSSVSMWG  373 (447)
Q Consensus       306 ~~~~~~~~~~a~~~~~~~~~~~~--~~~---~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~-~~p~~~~~~~  373 (447)
                      .+...|++++|..++++..+...  +.|   + ..+++.|..+|...|++++|+.++++.+..     | --|+-..+++
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            35578999999999988775421  222   2 567889999999999999999999887533     2 1133445688


Q ss_pred             HHHHHHHhcCCccHHHHHHHHHhhh-----CCC---chhHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 048090          374 ALLSACHDCGKFELGKLAAQKALEL-----DPH---NVGIYVMLSNLYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       374 ~l~~~~~~~g~~~~a~~~~~~~~~~-----~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  432 (447)
                      .|+..|...|++++|..+++++++.     +|+   ...+...+..++...|++++|+.++.++++.
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999873     455   3455678888999999999999999999863

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=98.22  E-value=1.3e-05  Score=55.33  Aligned_cols=68  Identities=16%  Similarity=0.093  Sum_probs=53.2

Q ss_pred             CCchHhHHHHHHHHHhcCC---ccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 048090          366 SSSVSMWGALLSACHDCGK---FELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKG  433 (447)
Q Consensus       366 p~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  433 (447)
                      |+++..+..++.++...++   .++|...++++++.+|.++.....++..+.+.|++++|+..|+++.+..
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~   73 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSN   73 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            6677777777777765544   6788888888888888888888888888888888888888888887643

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.19  E-value=6.8e-06  Score=57.90  Aligned_cols=66  Identities=20%  Similarity=0.121  Sum_probs=58.4

Q ss_pred             CCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          366 SSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       366 p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      |++..++..++.++...|++++|...++++++.+|.++.+|..++.+|...|++++|++.+++..+
T Consensus         4 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            4 PEDPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             -CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            778888899999999999999999999999999999999999999999999999999998888765

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=98.19  E-value=3.4e-06  Score=59.34  Aligned_cols=82  Identities=17%  Similarity=0.214  Sum_probs=66.4

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhCCCCCCchH-hHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcC
Q 048090          339 LVDLLCRAGELDKAWKLINEMLDRGHGSSSVS-MWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFC  417 (447)
Q Consensus       339 l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  417 (447)
                      ....+.+.|++++|...++++++..  |.+.. ++..++.++...|++++|...++++++.+|.+..++..        +
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~--------~   75 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTE--PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPALQAR--------K   75 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC--SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHH--------H
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHH--------H
Confidence            4566788999999999999998876  88888 89999999999999999999999999999988877633        4


Q ss_pred             ChHHHHHHHHHHH
Q 048090          418 MWDEIGQLRELMK  430 (447)
Q Consensus       418 ~~~~A~~~~~~m~  430 (447)
                      .+.++...+++..
T Consensus        76 ~~~~a~~~~~~~~   88 (99)
T 2kc7_A           76 MVMDILNFYNKDM   88 (99)
T ss_dssp             HHHHHHHHHCCTT
T ss_pred             HHHHHHHHHHHHh
Confidence            4455555555443

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.09  E-value=6.7e-06  Score=59.07  Aligned_cols=94  Identities=14%  Similarity=0.115  Sum_probs=69.9

Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCc------h
Q 048090          296 DEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSS------V  369 (447)
Q Consensus       296 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~------~  369 (447)
                      +...+..+...+...|++++|...|++..+.  .+.+...+..+..++.+.|++++|+..+++.++..  |++      .
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~   78 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITA--QPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYT--STAEHVAIRS   78 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC--SSTTSHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCccHHHHHH
Confidence            4556677777888888888888888888765  13357778888888888888888888888888776  666      5


Q ss_pred             HhHHHHHHHHHhcCCccHHHHHHH
Q 048090          370 SMWGALLSACHDCGKFELGKLAAQ  393 (447)
Q Consensus       370 ~~~~~l~~~~~~~g~~~~a~~~~~  393 (447)
                      .++..+..++...|+++.|...++
T Consensus        79 ~~~~~~~~~~~~~~~~~~a~~~~~  102 (111)
T 2l6j_A           79 KLQYRLELAQGAVGSVQIPVVEVD  102 (111)
T ss_dssp             HHHHHHHHHHHHHHCCCCCSSSSS
T ss_pred             HHHHHHHHHHHHHHhHhhhHhHHH
Confidence            667777777777777766655444

>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=98.04  E-value=0.00015  Score=54.36  Aligned_cols=112  Identities=12%  Similarity=-0.047  Sum_probs=86.7

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHH----cCCHHH
Q 048090          276 GYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCR----AGELDK  351 (447)
Q Consensus       276 g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~  351 (447)
                      +++++|..+|++..+.| .|+..    +...|...+.+++|.++|++..+.    -+...+..|...|..    .+++++
T Consensus         9 ~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~----g~~~a~~~Lg~~y~~G~g~~~d~~~   79 (138)
T 1klx_A            9 KDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACEL----NSGNGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             cCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcC----CCHHHHHHHHHHHHcCCCCCccHHH
Confidence            45778888888888876 34443    666667777788888888888654    356677778888877    788999


Q ss_pred             HHHHHHHHHhCCCCCCchHhHHHHHHHHHh----cCCccHHHHHHHHHhhhCC
Q 048090          352 AWKLINEMLDRGHGSSSVSMWGALLSACHD----CGKFELGKLAAQKALELDP  400 (447)
Q Consensus       352 A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~  400 (447)
                      |.++|++..+.|    ++.++..|...|..    .+++++|...++++.+.+.
T Consensus        80 A~~~~~~Aa~~g----~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           80 AAQYYSKACGLN----DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHHHTT----CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHcCC----CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            999999988876    56668888888888    7889999999998888764

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.03  E-value=2.7e-05  Score=71.82  Aligned_cols=128  Identities=13%  Similarity=-0.086  Sum_probs=61.9

Q ss_pred             HHhcCCHHHHHHHHHhhhhcC---CCC----cHhhHHHHHHHHhcCCcHHHHHHHHHHHHHh-----hhcCCCChhHHHH
Q 048090          162 YCEAKLWAGGLELVRLMPALG---LDY----DHFTLSALLRACAGLSAAEFGRQVHAYMIRK-----CCNLGNDVFMQSS  229 (447)
Q Consensus       162 ~~~~~~~~~a~~~~~~~~~~~---~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~~~  229 (447)
                      +...|++++|+.++++..+..   +.|    ...+++.+..+|...|++++|..++++.+..     |+..+....+++.
T Consensus       319 ~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~n  398 (490)
T 3n71_A          319 ARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMR  398 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            445666666666666554320   111    2235566666666666666666666665543     1111112334555


Q ss_pred             HHHHHHhcCChHHHHHHHHhhhhhcccCCCcc----hhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 048090          230 LIEMYGKCGLVTKALQVFNLAGHRLEGEINKD----VVLWTSMLGVYGRNGYFKEVIKLYEAML  289 (447)
Q Consensus       230 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~m~  289 (447)
                      |...|...|++++|+.+++++.........|+    ..+.+.+..++...+.+++|+.+|..++
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~  462 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMR  462 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55566666666666655554443322222221    1122333344444445555555554443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.98  E-value=3.5e-05  Score=52.82  Aligned_cols=66  Identities=32%  Similarity=0.326  Sum_probs=61.5

Q ss_pred             CchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 048090          367 SSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       367 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  432 (447)
                      .+...+..+...+...|++++|...++++++..|.+..++..++.++.+.|++++|...+++..+.
T Consensus         7 ~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~   72 (91)
T 1na3_A            7 NSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL   72 (91)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            356678899999999999999999999999999999999999999999999999999999999874

>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=97.80  E-value=0.00024  Score=61.78  Aligned_cols=141  Identities=16%  Similarity=0.044  Sum_probs=73.6

Q ss_pred             CCcchhhHHHHHHHHHh--cC---CHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHhc---cC-----cHHHHHHHHHHH
Q 048090          258 INKDVVLWTSMLGVYGR--NG---YFKEVIKLYEAMLMNGTKPD-EVAFVTVISACSH---TG-----QVKLGIEYFEWM  323 (447)
Q Consensus       258 ~~~~~~~~~~l~~~~~~--~g---~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~---~~-----~~~~a~~~~~~~  323 (447)
                      .+.+...|...+.+...  .+   ...+|..+|++..+.  .|+ ...+..+.-++.-   .+     ........++..
T Consensus       190 ~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l--DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~  267 (372)
T 3ly7_A          190 LPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS--SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNI  267 (372)
T ss_dssp             SCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHH
Confidence            55566677776655432  22   246677777777764  443 3444444433321   00     111111111111


Q ss_pred             HHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCch
Q 048090          324 VHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNV  403 (447)
Q Consensus       324 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  403 (447)
                      ......+.+..+|..+...+...|++++|...+++++..+  | +...|..++..+.-.|++++|.+.+++++.++|..+
T Consensus       268 ~a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~-s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P~~~  344 (372)
T 3ly7_A          268 VTLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--M-SWLNYVLLGKVYEMKGMNREAADAYLTAFNLRPGAN  344 (372)
T ss_dssp             HTCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--C-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCSHH
T ss_pred             HhcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--C-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcC
Confidence            1111123345566665555555666666666666666665  4 344456666666666666666666666666666543

>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=97.77  E-value=0.0025  Score=55.49  Aligned_cols=65  Identities=15%  Similarity=0.084  Sum_probs=43.5

Q ss_pred             CCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          366 SSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       366 p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      |.+..+|..+...+...|++++|...+++++.++| +...|..++..+.-.|++++|.+.+++...
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~-s~~a~~llG~~~~~~G~~~eA~e~~~~Alr  338 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEM-SWLNYVLLGKVYEMKGMNREAADAYLTAFN  338 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            55666666666666666777777777777777764 455566666667777777777777766655

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.76  E-value=0.00027  Score=48.57  Aligned_cols=70  Identities=9%  Similarity=-0.019  Sum_probs=60.4

Q ss_pred             CCChhhHHHHHHHHHHcCC---HHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCC
Q 048090          330 EPGPEHYSCLVDLLCRAGE---LDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPH  401 (447)
Q Consensus       330 ~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  401 (447)
                      +.+...+..+..++...++   .++|..++++.++.+  |+++.+...++..+...|++++|...|+++++..|+
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d--p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~   75 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE--PYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP   75 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC--cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            4567777788887765554   799999999999987  999999999999999999999999999999999887

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.74  E-value=0.00017  Score=53.89  Aligned_cols=96  Identities=14%  Similarity=0.049  Sum_probs=76.4

Q ss_pred             cCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcC---CHHHHHHHHHHHHhCCCCC-CchHhHHHHHHHHHhcCCc
Q 048090          310 TGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAG---ELDKAWKLINEMLDRGHGS-SSVSMWGALLSACHDCGKF  385 (447)
Q Consensus       310 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~~~p-~~~~~~~~l~~~~~~~g~~  385 (447)
                      ......+.+.|.+..+. + .++..+...+..++++.+   +.+++..++++..+.+ .| .....+..|.-++.+.|++
T Consensus        11 ~~~l~~~~~~y~~e~~~-~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y   87 (152)
T 1pc2_A           11 VEDLLKFEKKFQSEKAA-G-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEY   87 (152)
T ss_dssp             HHHHHHHHHHHHHHHHT-T-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCH
T ss_pred             HHHHHHHHHHHHHHHcc-C-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCH
Confidence            34566777777777654 3 478888888888999988   6679999999998875 24 3466788899999999999


Q ss_pred             cHHHHHHHHHhhhCCCchhHHHH
Q 048090          386 ELGKLAAQKALELDPHNVGIYVM  408 (447)
Q Consensus       386 ~~a~~~~~~~~~~~~~~~~~~~~  408 (447)
                      ++|.+.++.+++.+|.+..+...
T Consensus        88 ~~A~~y~~~lL~ieP~n~QA~~L  110 (152)
T 1pc2_A           88 EKALKYVRGLLQTEPQNNQAKEL  110 (152)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCCHHHHHH
Confidence            99999999999999988765544

>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=97.64  E-value=0.0001  Score=66.87  Aligned_cols=86  Identities=10%  Similarity=0.030  Sum_probs=51.2

Q ss_pred             cCCHHHHHHHHHHHHhC---CCCCCc---hHhHHHHHHHHHhcCCccHHHHHHHHHhhh-----CCC---chhHHHHHHH
Q 048090          346 AGELDKAWKLINEMLDR---GHGSSS---VSMWGALLSACHDCGKFELGKLAAQKALEL-----DPH---NVGIYVMLSN  411 (447)
Q Consensus       346 ~g~~~~A~~~~~~~~~~---~~~p~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~~~---~~~~~~~l~~  411 (447)
                      .|++++|+.++++.++.   -+.|++   ..+++.|+.+|...|++++|..+++++++.     +|+   ....++.|+.
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            45666666666665432   111332   234666677777777777777777766652     222   3445666777


Q ss_pred             HHHhcCChHHHHHHHHHHHH
Q 048090          412 LYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       412 ~~~~~g~~~~A~~~~~~m~~  431 (447)
                      .|...|++++|+.++++..+
T Consensus       391 ~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHHH
Confidence            77777777777777666543

>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=97.60  E-value=0.00025  Score=64.41  Aligned_cols=63  Identities=13%  Similarity=0.041  Sum_probs=27.7

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHhC-----C-CCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhh
Q 048090          335 HYSCLVDLLCRAGELDKAWKLINEMLDR-----G-HGSSSVSMWGALLSACHDCGKFELGKLAAQKALE  397 (447)
Q Consensus       335 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~-~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  397 (447)
                      +++.|..+|...|++++|+.++++++..     | .-|.-..+++.|+..|...|++++|..+++++++
T Consensus       331 ~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          331 VLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            3444444455555555555555444321     1 0011222344444455555555555555555544

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.60  E-value=0.00019  Score=50.02  Aligned_cols=59  Identities=19%  Similarity=0.246  Sum_probs=55.2

Q ss_pred             HHHHHHHhcCCccHHHHHHHHHhhhCCCchh-HHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 048090          374 ALLSACHDCGKFELGKLAAQKALELDPHNVG-IYVMLSNLYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       374 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~m~~~  432 (447)
                      ..+..+...|++++|...++++++..|.+.. .+..++.+|...|++++|++.+++..+.
T Consensus         5 ~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            5 KTIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            4677888999999999999999999999999 9999999999999999999999999874

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.59  E-value=0.00056  Score=48.23  Aligned_cols=79  Identities=20%  Similarity=0.140  Sum_probs=60.5

Q ss_pred             ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCC-----CCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHH
Q 048090          332 GPEHYSCLVDLLCRAGELDKAWKLINEMLDRG-----HGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIY  406 (447)
Q Consensus       332 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-----~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  406 (447)
                      +..-+..+...+.+.|++..|...++.+++..     ..++...++..|+.++.+.|+++.|...++++++..|.+..+.
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~~~~~~   83 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRAN   83 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHH
Confidence            44455677777888888888888888876531     1244667788999999999999999999999999999887775


Q ss_pred             HHHH
Q 048090          407 VMLS  410 (447)
Q Consensus       407 ~~l~  410 (447)
                      ..+.
T Consensus        84 ~n~~   87 (104)
T 2v5f_A           84 GNLK   87 (104)
T ss_dssp             HHHH
T ss_pred             hhHH
Confidence            5553

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.53  E-value=0.00074  Score=50.49  Aligned_cols=88  Identities=14%  Similarity=0.121  Sum_probs=48.7

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHHhcCCCC--ChhhHHHHHHHHHHcCCHHHH
Q 048090          278 FKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTG---QVKLGIEYFEWMVHDYKLEP--GPEHYSCLVDLLCRAGELDKA  352 (447)
Q Consensus       278 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~---~~~~a~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A  352 (447)
                      ...+.+.|.+..+.|. ++..+...+..++++++   +.++++.+|+.+.+. . .|  ....+-.|.-++.+.|++++|
T Consensus        14 l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~-~-~p~~~rd~lY~LAv~~~kl~~Y~~A   90 (152)
T 1pc2_A           14 LLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPK-G-SKEEQRDYVFYLAVGNYRLKEYEKA   90 (152)
T ss_dssp             HHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHH-S-CHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhc-C-CccchHHHHHHHHHHHHHccCHHHH
Confidence            3445555555555443 45555555555666655   455666666666654 2 23  234444455556666666666


Q ss_pred             HHHHHHHHhCCCCCCchH
Q 048090          353 WKLINEMLDRGHGSSSVS  370 (447)
Q Consensus       353 ~~~~~~~~~~~~~p~~~~  370 (447)
                      .++++.+++..  |++..
T Consensus        91 ~~y~~~lL~ie--P~n~Q  106 (152)
T 1pc2_A           91 LKYVRGLLQTE--PQNNQ  106 (152)
T ss_dssp             HHHHHHHHHHC--TTCHH
T ss_pred             HHHHHHHHhcC--CCCHH
Confidence            66666666654  55444

>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=97.53  E-value=0.00059  Score=56.91  Aligned_cols=84  Identities=10%  Similarity=0.015  Sum_probs=47.4

Q ss_pred             HHHHHHHHHHHhCCCCCC--chHhHHHHHHHHHh-----cCCccHHHHHHHHHhhhCCC-chhHHHHHHHHHHhc-CChH
Q 048090          350 DKAWKLINEMLDRGHGSS--SVSMWGALLSACHD-----CGKFELGKLAAQKALELDPH-NVGIYVMLSNLYAKF-CMWD  420 (447)
Q Consensus       350 ~~A~~~~~~~~~~~~~p~--~~~~~~~l~~~~~~-----~g~~~~a~~~~~~~~~~~~~-~~~~~~~l~~~~~~~-g~~~  420 (447)
                      ..|...+++.++.+  |.  +..+|..++..|..     -|+.++|.+.|+++++++|+ +..++..+++.+++. |+.+
T Consensus       180 ~~A~a~lerAleLD--P~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~  257 (301)
T 3u64_A          180 HAAVMMLERACDLW--PSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRA  257 (301)
T ss_dssp             HHHHHHHHHHHHHC--TTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHH
T ss_pred             HHHHHHHHHHHHhC--CCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHH
Confidence            44555555555554  44  34455556655555     25666666666666666664 356666666655553 5666


Q ss_pred             HHHHHHHHHHHcCCC
Q 048090          421 EIGQLRELMKEKGLK  435 (447)
Q Consensus       421 ~A~~~~~~m~~~~~~  435 (447)
                      +|.+.+++.......
T Consensus       258 ~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          258 GFDEALDRALAIDPE  272 (301)
T ss_dssp             HHHHHHHHHHHCCGG
T ss_pred             HHHHHHHHHHcCCCC
Confidence            666666666554444

>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=97.28  E-value=0.0038  Score=56.63  Aligned_cols=92  Identities=10%  Similarity=0.114  Sum_probs=69.0

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhCC---CCCCc---hHhHHHHHHHHHhcCCccHHHHHHHHHhhh-----CCC---chhH
Q 048090          340 VDLLCRAGELDKAWKLINEMLDRG---HGSSS---VSMWGALLSACHDCGKFELGKLAAQKALEL-----DPH---NVGI  405 (447)
Q Consensus       340 ~~~~~~~g~~~~A~~~~~~~~~~~---~~p~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~~~---~~~~  405 (447)
                      +..+.+.|++++|+.++++.++..   ..|++   ..+++.|+.+|...|++++|..+++++++.     +|.   ....
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            444667788889988888886531   22333   346788888999999999999999888763     233   4556


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          406 YVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       406 ~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      ++.|+..|...|++++|+.++++..+
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            88888899999999999988887754

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.26  E-value=0.032  Score=55.48  Aligned_cols=153  Identities=10%  Similarity=-0.024  Sum_probs=93.5

Q ss_pred             HHHHhCCChhhHHH-HHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCCh
Q 048090           59 SDFCRNGSPLYALK-TFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLI  137 (447)
Q Consensus        59 ~~~~~~~~~~~a~~-~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  137 (447)
                      ......+++++|.+ ++..     + |+......++..+.+.|..+.|.++.+.       |     ..-.......|++
T Consensus       607 ~~~~~~~~~~~a~~~~l~~-----i-~~~~~~~~~~~~l~~~~~~~~a~~~~~~-------~-----~~~f~~~l~~~~~  668 (814)
T 3mkq_A          607 QTLTLRGEIEEAIENVLPN-----V-EGKDSLTKIARFLEGQEYYEEALNISPD-------Q-----DQKFELALKVGQL  668 (814)
T ss_dssp             HHHHHTTCHHHHHHHTGGG-----C-CCHHHHHHHHHHHHHTTCHHHHHHHCCC-------H-----HHHHHHHHHHTCH
T ss_pred             hHHHHhCCHHHHHHHHHhc-----C-CchHHHHHHHHHHHhCCChHHheecCCC-------c-----chheehhhhcCCH
Confidence            44455778877766 4421     1 1122336666777777888877765531       1     1123445678888


Q ss_pred             hhHHHHhccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhh
Q 048090          138 HDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKC  217 (447)
Q Consensus       138 ~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  217 (447)
                      ++|.++.+.+.  +...|..+...+.+.++++.|.+.|.++.+         |..+...+...++.+...++-+..... 
T Consensus       669 ~~A~~~~~~~~--~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~-  736 (814)
T 3mkq_A          669 TLARDLLTDES--AEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETT-  736 (814)
T ss_dssp             HHHHHHHTTCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHT-
T ss_pred             HHHHHHHHhhC--cHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHc-
Confidence            98888887764  457788888888888999998888888753         334444444466666655554444443 


Q ss_pred             hcCCCChhHHHHHHHHHHhcCChHHHHHHHH
Q 048090          218 CNLGNDVFMQSSLIEMYGKCGLVTKALQVFN  248 (447)
Q Consensus       218 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  248 (447)
                       +      -++....+|.+.|++++|.+++.
T Consensus       737 -~------~~~~A~~~~~~~g~~~~a~~~~~  760 (814)
T 3mkq_A          737 -G------KFNLAFNAYWIAGDIQGAKDLLI  760 (814)
T ss_dssp             -T------CHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             -C------chHHHHHHHHHcCCHHHHHHHHH
Confidence             1      12333344555666666666655

>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=97.23  E-value=0.0012  Score=59.81  Aligned_cols=89  Identities=8%  Similarity=-0.121  Sum_probs=37.8

Q ss_pred             CCcHHHHHHHHHHHHHhh-----hcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCC---cc-hhhHHHHHH
Q 048090          200 LSAAEFGRQVHAYMIRKC-----CNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEIN---KD-VVLWTSMLG  270 (447)
Q Consensus       200 ~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~---~~-~~~~~~l~~  270 (447)
                      .|++++|..++++.++..     +..+....+++.|..+|...|++++|+.+++++......-..   |+ ..+++.|..
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            345555555555554431     111111234445555555555555555555443332221111   11 223444444


Q ss_pred             HHHhcCCHHHHHHHHHHH
Q 048090          271 VYGRNGYFKEVIKLYEAM  288 (447)
Q Consensus       271 ~~~~~g~~~~a~~~~~~m  288 (447)
                      .|...|++++|+.++++.
T Consensus       391 ~~~~qg~~~eA~~~~~~A  408 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKA  408 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHH
Confidence            455555555555444443

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=97.23  E-value=1.8e-06  Score=76.48  Aligned_cols=352  Identities=12%  Similarity=0.092  Sum_probs=175.2

Q ss_pred             CcchHHHhhccCCCCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHH
Q 048090           35 NLGTLTNCLKFLNPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTK  114 (447)
Q Consensus        35 ~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  114 (447)
                      +++.|...-++..  .+..|..|..+....+.+.+|++.|-+.      -|+..|..++.++.+.|.++.-..++....+
T Consensus        40 ~ldRa~eyA~~~n--~p~VWs~LgkAqL~~~~v~eAIdsyIkA------~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk  111 (624)
T 3lvg_A           40 NLDRAYEFAERCN--EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARK  111 (624)
T ss_dssp             CSTTTTTSSSSCC--CCCCSSSHHHHTTTSSSCTTTTTSSCCC------SCCCSSSHHHHHTTTSSCCTTHHHHHHTTST
T ss_pred             ccHHHHHHHHHhC--CccHHHHHHHHHHccCchHHHHHHHHhC------CChHHHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence            4555555444443  3445666777777777777766654211      2455666777777777777776666665544


Q ss_pred             cCCCCchhhHHHHHHHHHccCChhhHHHHhccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcC------------
Q 048090          115 SGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALG------------  182 (447)
Q Consensus       115 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------------  182 (447)
                      ..  .++.+=+.|+-+|++.++..+.++++..   ||..-...+..-|...|.++.|.-+|..+....            
T Consensus       112 ~~--ke~~IDteLi~ayAk~~rL~elEefl~~---~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~y  186 (624)
T 3lvg_A          112 KA--RESYVETELIFALAKTNRLAELEEFING---PNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEY  186 (624)
T ss_dssp             TC--CSTTTTHHHHHHHHTSCSSSTTTSTTSC---CSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGG
T ss_pred             Hh--cccccHHHHHHHHHhhCcHHHHHHHHcC---CCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHH
Confidence            32  2333335667777777776655544332   344444555555555555555554444432110            


Q ss_pred             --------CCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhc
Q 048090          183 --------LDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRL  254 (447)
Q Consensus       183 --------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  254 (447)
                              -.-++.||..+..+|...+.+..|.-.--.++-.       +.-...++..|-..|.+++-+.+++.-... 
T Consensus       187 q~AVdaArKAns~ktWKeV~~ACvd~~EfrLAqicGLniIvh-------adeL~elv~~YE~~G~f~ELIsLlEaglgl-  258 (624)
T 3lvg_A          187 QAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVH-------ADELEELINYYQDRGYFEELITMLEAALGL-  258 (624)
T ss_dssp             GSSTTTTTTCCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHCC-------SSCCSGGGSSSSTTCCCTTSTTTHHHHTTS-
T ss_pred             HHHHHHHHhcCChhHHHHHHHHHhCchHHHHHHHhcchhccc-------HHHHHHHHHHHHhCCCHHHHHHHHHHHhCC-
Confidence                    0234556766667777666666655444333322       112233555566667777666666633221 


Q ss_pred             ccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHH------h-c
Q 048090          255 EGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVH------D-Y  327 (447)
Q Consensus       255 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~------~-~  327 (447)
                         .......|+-|.-.|++- ++++..+.++..-.   +.|.   -.+|++|.+..-|.++.-++..-.+      . -
T Consensus       259 ---ErAHmGmFTELaILYsKY-~PeKlmEHlklf~s---riNi---pKviracE~ahLW~ElvfLY~~ydE~DnA~ltMi  328 (624)
T 3lvg_A          259 ---ERAHMGMFTELAILYSKF-KPQKMREHLELFWS---RVNI---PKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMM  328 (624)
T ss_dssp             ---TTCCHHHHHHHHHHHHSS-CTTHHHHHHTTSSS---SSCC---TTTHHHHTTTTCHHHHHHHHHHHTCHHHHHHTTT
T ss_pred             ---CchhHHHHHHHHHHHHhc-CHHHHHHHHHHHHH---hccH---HHHHHHHHHHhhHHHHHHHHhcchhHHHHHHHHH
Confidence               334555666666666665 33443333332111   1111   1234444444444444433332100      0 0


Q ss_pred             CCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhh---------
Q 048090          328 KLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALEL---------  398 (447)
Q Consensus       328 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---------  398 (447)
                      .-+|+..--..+-+...+..+.+--.+.+.--++..  |   ...+-|+.++...=|+.++.+++++.-.+         
T Consensus       329 ~h~~~Aw~h~~Fkdii~KVaN~EiyYKAi~FYL~e~--P---~lL~DLL~vL~prlDh~RvV~~~~k~~~LpLIkpYL~~  403 (624)
T 3lvg_A          329 NHPTDAWKEGQFKDIITKVANVELYYRAIQFYLEFK--P---LLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRS  403 (624)
T ss_dssp             SCHHHHCCGGGGTTTGGGCSCSHHHHHHHHHHTTSC--C---TTSHHHHHHHCTTCCSTTTHHHHHTTTCGGGGTGGGTS
T ss_pred             hCChhhccHHHHHHHHHHcchHHHHHHHHHHHHHhC--h---HHHHHHHHhccccCChHHHHHHHHhcCCchhhHHHHHH
Confidence            000010001111222233344333333333333322  3   22556666766666777777777764331         


Q ss_pred             --CCCchhHHHHHHHHHHhcCChHHH
Q 048090          399 --DPHNVGIYVMLSNLYAKFCMWDEI  422 (447)
Q Consensus       399 --~~~~~~~~~~l~~~~~~~g~~~~A  422 (447)
                        ..++..+-.++-..|....+++.-
T Consensus       404 Vq~~N~~aVNeAln~L~IEEEDy~~L  429 (624)
T 3lvg_A          404 VQNHNNKSVNESLNNLFITEEDYQAL  429 (624)
T ss_dssp             CCCSCCHHHHHHHHHHHHHTTCCHHH
T ss_pred             HHHhhHHHHHHHHHHHHhhhhhHHHH
Confidence              234556667777778888887644

>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=97.21  E-value=0.0052  Score=45.24  Aligned_cols=113  Identities=11%  Similarity=0.044  Sum_probs=79.6

Q ss_pred             CHHHHHHHHHHHhccCcH------HHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHH------HcCCHHHHHHHHHHHHhC
Q 048090          296 DEVAFVTVISACSHTGQV------KLGIEYFEWMVHDYKLEPG-PEHYSCLVDLLC------RAGELDKAWKLINEMLDR  362 (447)
Q Consensus       296 ~~~~~~~ll~~~~~~~~~------~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~------~~g~~~~A~~~~~~~~~~  362 (447)
                      |..+|-..+....+.|++      +...++|++....  ++|+ ...|...|..+.      ..++.++|.++|+.+++.
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 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA--LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARAN   89 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH--SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc--CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            667777777777777888      7888888888764  5665 334455554432      457788888888888765


Q ss_pred             CCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHH
Q 048090          363 GHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNL  412 (447)
Q Consensus       363 ~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  412 (447)
                      +  ..-..+|......-.++|++..|.+++.+++.+.|.....+...++-
T Consensus        90 h--KkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~~le~a~~n  137 (161)
T 4h7y_A           90 C--KKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPLEMLEIALRN  137 (161)
T ss_dssp             C--TTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHHHHHHHHHH
T ss_pred             h--HHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcHHHHHHHHHh
Confidence            3  22366677777888888888888888888888887776666655543

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=97.13  E-value=0.039  Score=39.74  Aligned_cols=141  Identities=13%  Similarity=0.062  Sum_probs=99.2

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHH
Q 048090          272 YGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDK  351 (447)
Q Consensus       272 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  351 (447)
                      +.-.|..++..++..+....   .+..-|+.+|.-....-+=+-..++++.+-+-+.+.              .+|++..
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            34467888888888887763   356667777766666666666777777775443322              3444444


Q ss_pred             HHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          352 AWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       352 A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      ....+-.+-     . +...+..-+..+...|+-+.-.+++...+...++++.+...++.+|.+.|+..+|.+++.+..+
T Consensus        80 Vi~C~~~~n-----~-~se~vd~ALd~lv~~~KkDqLdki~~~~l~n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~  153 (172)
T 1wy6_A           80 VVECGVINN-----T-LNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACK  153 (172)
T ss_dssp             HHHHHHHTT-----C-CCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhc-----c-hHHHHHHHHHHHHHhccHhHHHHHHHHHhccCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHH
Confidence            444443321     1 2233666777888889988888888888777788999999999999999999999999999999


Q ss_pred             cCCC
Q 048090          432 KGLK  435 (447)
Q Consensus       432 ~~~~  435 (447)
                      .|++
T Consensus       154 kG~k  157 (172)
T 1wy6_A          154 KGEK  157 (172)
T ss_dssp             TTCH
T ss_pred             hhhH
Confidence            8874

>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=97.12  E-value=0.0087  Score=44.08  Aligned_cols=103  Identities=15%  Similarity=0.186  Sum_probs=62.6

Q ss_pred             CCcchhhHHHHHHHHHhcCCH------HHHHHHHHHHHhCCCCCCH-HHHHHHHHH---H---hccCcHHHHHHHHHHHH
Q 048090          258 INKDVVLWTSMLGVYGRNGYF------KEVIKLYEAMLMNGTKPDE-VAFVTVISA---C---SHTGQVKLGIEYFEWMV  324 (447)
Q Consensus       258 ~~~~~~~~~~l~~~~~~~g~~------~~a~~~~~~m~~~~~~p~~-~~~~~ll~~---~---~~~~~~~~a~~~~~~~~  324 (447)
                      .+.|..+|-..+...-+.|++      ++..++|++.... ++|+. ..+...+..   |   ...+++++|.++|+.++
T Consensus         9 ~p~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~   87 (161)
T 4h7y_A            9 MANNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMAR   87 (161)
T ss_dssp             -CCSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            355667777777777777777      6777777777664 45542 112222221   1   23467777777777776


Q ss_pred             HhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 048090          325 HDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRG  363 (447)
Q Consensus       325 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  363 (447)
                      +. .-+- ...|....+--.+.|++..|.+++.+.+..+
T Consensus        88 ~~-hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~  124 (161)
T 4h7y_A           88 AN-CKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERG  124 (161)
T ss_dssp             HH-CTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HH-hHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccC
Confidence            54 2222 5556555665667777777777777777766

>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=97.09  E-value=0.21  Score=47.42  Aligned_cols=255  Identities=6%  Similarity=-0.064  Sum_probs=134.1

Q ss_pred             hHHHHHHHHHccCChhhHHHHhccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCc
Q 048090          123 VGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSA  202 (447)
Q Consensus       123 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  202 (447)
                      .-+.-+..+.+.+++.....++.. ...+...-.....+....|+..+|....+.+-..| ...+..+..++..+.+.|.
T Consensus        74 Lr~~~l~~l~~~~~w~~~l~~~~~-~p~~~~~~c~~~~A~~~~G~~~~a~~~~~~lW~~~-~~~p~~c~~l~~~~~~~g~  151 (618)
T 1qsa_A           74 LQSRFVNELARREDWRGLLAFSPE-KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTG-KSQPNACDKLFSVWRASGK  151 (618)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHCCS-CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCS-SCCCTHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhCCCHHHHHHhccC-CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHhCC-CCCcHHHHHHHHHHHHCCC
Confidence            334455667778888888887776 44455556667777778888777777666665444 3344566667777665544


Q ss_pred             HHH--HHHHHHHHHHhh---------hcCCCChh-HHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchh---hHHH
Q 048090          203 AEF--GRQVHAYMIRKC---------CNLGNDVF-MQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVV---LWTS  267 (447)
Q Consensus       203 ~~~--a~~~~~~~~~~~---------~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~---~~~~  267 (447)
                      +..  ...-++.+...+         ..++++.. ....++..+   .++..+.....   .     ..++..   .+..
T Consensus       152 lt~~~~~~R~~~al~~~~~~~a~~l~~~l~~~~~~~a~~~~al~---~~p~~~~~~~~---~-----~~~~~~~~~~~~~  220 (618)
T 1qsa_A          152 QDPLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLA---NNPNTVLTFAR---T-----TGATDFTRQMAAV  220 (618)
T ss_dssp             SCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHH---HCGGGHHHHHH---H-----SCCCHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHhCCHHHHHHHHHHHHHH---hChHhHHHHHh---c-----cCCChhhHHHHHH
Confidence            322  222222222220         01111111 111111111   11222222221   0     122211   1112


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHH----HHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHH
Q 048090          268 MLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVA----FVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLL  343 (447)
Q Consensus       268 l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~----~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  343 (447)
                      .+.-+.+ .+.+.|...+....... ..+...    ...+.......+...++...+......   .++.....-.+...
T Consensus       221 ~~~rlar-~d~~~A~~~~~~~~~~~-~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~e~~~r~A  295 (618)
T 1qsa_A          221 AFASVAR-QDAENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMR---SQSTSLIERRVRMA  295 (618)
T ss_dssp             HHHHHHH-HCHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHT---CCCHHHHHHHHHHH
T ss_pred             HHHHHHh-cCHHHHHHHHHhhhhcc-CCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhcccc---CCChHHHHHHHHHH
Confidence            2233333 36788888888876543 223222    223333344445355666666665433   34443444455555


Q ss_pred             HHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhh
Q 048090          344 CRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALE  397 (447)
Q Consensus       344 ~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  397 (447)
                      .+.|+++.|...|+.|....  +.......=+..++...|+.++|..+|+++.+
T Consensus       296 lr~~d~~~a~~~~~~l~~~~--~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          296 LGTGDRRGLNTWLARLPMEA--KEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHTCHHHHHHHHHHSCTTG--GGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHCCCHHHHHHHHHHccccc--cccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            67788999988888886543  22333344566677788888888888888865

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.99  E-value=0.0055  Score=44.02  Aligned_cols=103  Identities=14%  Similarity=0.028  Sum_probs=72.2

Q ss_pred             HHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHH---HHHHHHHHHhCCCCC-CchHhHHHHHHH
Q 048090          303 VISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDK---AWKLINEMLDRGHGS-SSVSMWGALLSA  378 (447)
Q Consensus       303 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~---A~~~~~~~~~~~~~p-~~~~~~~~l~~~  378 (447)
                      ++...........+.+.|...... + .++..+--.+..++.+..+...   ++.+++++.+.+- | ........|.-+
T Consensus         7 ~l~~~~~~~~l~~~~~~y~~e~~~-~-~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~-p~~~Rd~lY~LAvg   83 (126)
T 1nzn_A            7 VLNELVSVEDLLKFEKKFQSEKAA-G-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGS-KEEQRDYVFYLAVG   83 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH-S-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSC-HHHHHHHHHHHHHH
T ss_pred             HHhccCCHHHHHHHHHHHHHHhcc-C-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCC-cchHHHHHHHHHHH
Confidence            334444455566666777666554 3 3777777777778888776655   8888888877641 2 344556778888


Q ss_pred             HHhcCCccHHHHHHHHHhhhCCCchhHHHH
Q 048090          379 CHDCGKFELGKLAAQKALELDPHNVGIYVM  408 (447)
Q Consensus       379 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  408 (447)
                      +.+.|++++|.+.++.+++..|.|..+...
T Consensus        84 ~yklg~Y~~A~~~~~~lL~~eP~n~QA~~L  113 (126)
T 1nzn_A           84 NYRLKEYEKALKYVRGLLQTEPQNNQAKEL  113 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHHHhCCCCHHHHHH
Confidence            889999999999999999999887765443

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.99  E-value=0.0095  Score=42.79  Aligned_cols=82  Identities=16%  Similarity=0.080  Sum_probs=35.3

Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHH---HHHHHHHHHHhcCCCC--ChhhHHHHHHHHHHcCCHHHHH
Q 048090          279 KEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKL---GIEYFEWMVHDYKLEP--GPEHYSCLVDLLCRAGELDKAW  353 (447)
Q Consensus       279 ~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~---a~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~  353 (447)
                      ..+.+-|.+....|. |+..+-..+..++.++.+...   ++.+++.+.+. + .|  .....-.|.-++.+.|++++|.
T Consensus        18 ~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~-~-~p~~~Rd~lY~LAvg~yklg~Y~~A~   94 (126)
T 1nzn_A           18 LKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPK-G-SKEEQRDYVFYLAVGNYRLKEYEKAL   94 (126)
T ss_dssp             HHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTT-S-CHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhc-C-CcchHHHHHHHHHHHHHHhhhHHHHH
Confidence            334444444333332 344444444444444443333   45555554432 1 12  1222233334455555555555


Q ss_pred             HHHHHHHhCC
Q 048090          354 KLINEMLDRG  363 (447)
Q Consensus       354 ~~~~~~~~~~  363 (447)
                      +.++.+++..
T Consensus        95 ~~~~~lL~~e  104 (126)
T 1nzn_A           95 KYVRGLLQTE  104 (126)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHHhC
Confidence            5555555544

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=96.95  E-value=0.0084  Score=53.73  Aligned_cols=341  Identities=10%  Similarity=0.028  Sum_probs=182.6

Q ss_pred             hhHHHhhhhhhhhhcccccCCcchH-------------HHhhcc------------CC----------------------
Q 048090           15 CLIIFQSRLMLPYTTCRHKKNLGTL-------------TNCLKF------------LN----------------------   47 (447)
Q Consensus        15 ~~~~~~~~l~~~~~~~~~~~~~~~A-------------~~~~~~------------~~----------------------   47 (447)
                      .++.+.+.|+-+|++.++.+++++-             .++|++            +.                      
T Consensus       114 ke~~IDteLi~ayAk~~rL~elEefl~~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaA  193 (624)
T 3lvg_A          114 RESYVETELIFALAKTNRLAELEEFINGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGA  193 (624)
T ss_dssp             CSTTTTHHHHHHHHTSCSSSTTTSTTSCCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTT
T ss_pred             cccccHHHHHHHHHhhCcHHHHHHHHcCCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHH
Confidence            3468899999999999986666542             123322            10                      


Q ss_pred             --CCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHH
Q 048090           48 --PRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGS  125 (447)
Q Consensus        48 --~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  125 (447)
                        ..++.+|.-+-.+|...+++..|.-.--.+.-+     ......++..|-..|-+++-..+++..+.. -......|+
T Consensus       194 rKAns~ktWKeV~~ACvd~~EfrLAqicGLniIvh-----adeL~elv~~YE~~G~f~ELIsLlEaglgl-ErAHmGmFT  267 (624)
T 3lvg_A          194 RKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVH-----ADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFT  267 (624)
T ss_dssp             TTCCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHCC-----SSCCSGGGSSSSTTCCCTTSTTTHHHHTTS-TTCCHHHHH
T ss_pred             HhcCChhHHHHHHHHHhCchHHHHHHHhcchhccc-----HHHHHHHHHHHHhCCCHHHHHHHHHHHhCC-CchhHHHHH
Confidence              135667777777777777777666655444322     122334555667777777777777766532 134566777


Q ss_pred             HHHHHHHccCChhhHHHHhccC----CCC-------chhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHH
Q 048090          126 ALIDLYAKLLLIHDAELMFDEI----PVK-------NSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALL  194 (447)
Q Consensus       126 ~l~~~~~~~g~~~~a~~~~~~~----~~~-------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  194 (447)
                      -|.-.|++- ++++..+-++..    .-|       ....|..++-.|.+-.+++.|...   |.+.  +|+......+-
T Consensus       268 ELaILYsKY-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~lt---Mi~h--~~~Aw~h~~Fk  341 (624)
T 3lvg_A          268 ELAILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIIT---MMNH--PTDAWKEGQFK  341 (624)
T ss_dssp             HHHHHHHSS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHHT---TTSC--HHHHCCGGGGT
T ss_pred             HHHHHHHhc-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHHH---HHhC--ChhhccHHHHH
Confidence            777777765 444444444332    222       455688888888888888877532   3332  22222222233


Q ss_pred             HHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhc------cc-CCCcchhhHHH
Q 048090          195 RACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRL------EG-EINKDVVLWTS  267 (447)
Q Consensus       195 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~------~~-~~~~~~~~~~~  267 (447)
                      ....+..+.+---+.....++.      .+...+-|+.++...=+...+.++|.+.....      .. ....+...-.+
T Consensus       342 dii~KVaN~EiyYKAi~FYL~e------~P~lL~DLL~vL~prlDh~RvV~~~~k~~~LpLIkpYL~~Vq~~N~~aVNeA  415 (624)
T 3lvg_A          342 DIITKVANVELYYRAIQFYLEF------KPLLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHNNKSVNES  415 (624)
T ss_dssp             TTGGGCSCSHHHHHHHHHHTTS------CCTTSHHHHHHHCTTCCSTTTHHHHHTTTCGGGGTGGGTSCCCSCCHHHHHH
T ss_pred             HHHHHcchHHHHHHHHHHHHHh------ChHHHHHHHHhccccCChHHHHHHHHhcCCchhhHHHHHHHHHhhHHHHHHH
Confidence            3333444443333333322222      23334556666655556666666666432210      00 01112233344


Q ss_pred             HHHHHHhcCCHHHHH------------HHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhh
Q 048090          268 MLGVYGRNGYFKEVI------------KLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEH  335 (447)
Q Consensus       268 l~~~~~~~g~~~~a~------------~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  335 (447)
                      +-..|....+++.-.            .+-+++.++   +-...-......|.+.++|++++.+.+          ....
T Consensus       416 ln~L~IEEEDy~~LR~SId~ydNFD~i~LA~rLEkH---eL~eFRrIAA~LYkkn~rw~qsi~l~K----------kDkl  482 (624)
T 3lvg_A          416 LNNLFITEEDYQALRTSIDAYDNFDNISLAQRLEKH---ELIEFRRIAAYLFKGNNRWKQSVELCK----------KDSL  482 (624)
T ss_dssp             HHHHHHHTTCCHHHHHTTSSCCCSCTTHHHHHHHTC---SSHHHHHHHHHHHHTTCHHHHHSSCSS----------TTCC
T ss_pred             HHHHHhhhhhHHHHHHHHHHhccccHHHHHHHHhhC---chHHHHHHHHHHHHhcccHHHHHHHHH----------hccc
Confidence            555666666655332            222233221   111222223334556677766665432          1122


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHH
Q 048090          336 YSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKL  390 (447)
Q Consensus       336 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  390 (447)
                      |.-.|.....+|+.+-|.++++-.++.|    +...|.+.+..|...=+++-+.+
T Consensus       483 ykDAietAa~S~~~elaeeLL~yFv~~g----~~EcF~a~LytCYdLlrpDvVlE  533 (624)
T 3lvg_A          483 YKDAMQYASESKDTELAEELLQWFLQEE----KRECFGACLFTCYDLLRPDVVLE  533 (624)
T ss_dssp             TTGGGTTTTTCCCTTHHHHHHHHHHHHC----STHHHHHHHHHTSSSSSCHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcC----chHHHHHHHHHHhhccChHHHHH
Confidence            3334555667778888888887777766    34446677777766666665544

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.88  E-value=0.011  Score=41.34  Aligned_cols=77  Identities=13%  Similarity=0.083  Sum_probs=51.1

Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcC-----CCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchH
Q 048090          296 DEVAFVTVISACSHTGQVKLGIEYFEWMVHDYK-----LEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVS  370 (447)
Q Consensus       296 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~  370 (447)
                      +..-+..+...+...+++..|...|+.+.+...     -.+....+..|..++.+.|+++.|..+++++.+..  |++..
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~--P~~~~   81 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD--PEHQR   81 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC--CCCHH
Confidence            334445666666777777777777777665321     12335667778888888888888888888887765  77766


Q ss_pred             hHHH
Q 048090          371 MWGA  374 (447)
Q Consensus       371 ~~~~  374 (447)
                      +...
T Consensus        82 ~~~n   85 (104)
T 2v5f_A           82 ANGN   85 (104)
T ss_dssp             HHHH
T ss_pred             HHhh
Confidence            4433

>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=96.87  E-value=0.0059  Score=50.96  Aligned_cols=109  Identities=17%  Similarity=0.121  Sum_probs=78.1

Q ss_pred             cHHHHHHHHHHHHHhcCCCCC---hhhHHHHHHHHHHc-----CCHHHHHHHHHHHHhCCCCCCc-hHhHHHHHHHHHhc
Q 048090          312 QVKLGIEYFEWMVHDYKLEPG---PEHYSCLVDLLCRA-----GELDKAWKLINEMLDRGHGSSS-VSMWGALLSACHDC  382 (447)
Q Consensus       312 ~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~-----g~~~~A~~~~~~~~~~~~~p~~-~~~~~~l~~~~~~~  382 (447)
                      ....|...+++..+   +.|+   ...|..|...|.+.     |+.++|.+.|++.++.+  |+. ..++..+...++..
T Consensus       178 ~l~~A~a~lerAle---LDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~Ln--P~~~id~~v~YA~~l~~~  252 (301)
T 3u64_A          178 TVHAAVMMLERACD---LWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYC--SAHDPDHHITYADALCIP  252 (301)
T ss_dssp             HHHHHHHHHHHHHH---HCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHC--CTTCSHHHHHHHHHTTTT
T ss_pred             hHHHHHHHHHHHHH---hCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhC--CCCCchHHHHHHHHHHHh
Confidence            35667777777774   3666   56788888888884     89999999999999887  764 77888889988884


Q ss_pred             -CCccHHHHHHHHHhhhCCCc-hhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          383 -GKFELGKLAAQKALELDPHN-VGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       383 -g~~~~a~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                       |+.+++.+.+++++...|.. +.  ..+    ...+.-++|..++.++.+
T Consensus       253 ~gd~~~a~~~L~kAL~a~p~~~P~--~~l----an~~~q~eA~~LL~~~~d  297 (301)
T 3u64_A          253 LNNRAGFDEALDRALAIDPESVPH--NKL----LVILSQKRARWLKAHVQD  297 (301)
T ss_dssp             TTCHHHHHHHHHHHHHCCGGGCSS--CHH----HHHHHHHHHHHHHHTHHH
T ss_pred             cCCHHHHHHHHHHHHcCCCCCCCC--hhH----HHHHHHHHHHHHHHHhHH
Confidence             89999999999999877542 21  122    222234566666665543

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.74  E-value=0.079  Score=52.63  Aligned_cols=99  Identities=14%  Similarity=0.084  Sum_probs=54.4

Q ss_pred             HHhcCCHHHHHH-HHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCCh
Q 048090          162 YCEAKLWAGGLE-LVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLV  240 (447)
Q Consensus       162 ~~~~~~~~~a~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  240 (447)
                      ....+++++|.+ ++..+.      +......++..+.+.|.++.|.++.+.-..              -.......|++
T Consensus       609 ~~~~~~~~~a~~~~l~~i~------~~~~~~~~~~~l~~~~~~~~a~~~~~~~~~--------------~f~~~l~~~~~  668 (814)
T 3mkq_A          609 LTLRGEIEEAIENVLPNVE------GKDSLTKIARFLEGQEYYEEALNISPDQDQ--------------KFELALKVGQL  668 (814)
T ss_dssp             HHHTTCHHHHHHHTGGGCC------CHHHHHHHHHHHHHTTCHHHHHHHCCCHHH--------------HHHHHHHHTCH
T ss_pred             HHHhCCHHHHHHHHHhcCC------chHHHHHHHHHHHhCCChHHheecCCCcch--------------heehhhhcCCH
Confidence            345566666655 332211      011224555556666666666654421111              12234556777


Q ss_pred             HHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 048090          241 TKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAML  289 (447)
Q Consensus       241 ~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  289 (447)
                      +.|.++.+         ...+...|..+...+.+.++++.|++.|.++.
T Consensus       669 ~~A~~~~~---------~~~~~~~W~~la~~al~~~~~~~A~~~y~~~~  708 (814)
T 3mkq_A          669 TLARDLLT---------DESAEMKWRALGDASLQRFNFKLAIEAFTNAH  708 (814)
T ss_dssp             HHHHHHHT---------TCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHH---------hhCcHhHHHHHHHHHHHcCCHHHHHHHHHHcc
Confidence            77777655         22345667777777777777777777777653

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.39  E-value=0.18  Score=38.71  Aligned_cols=103  Identities=8%  Similarity=-0.086  Sum_probs=59.6

Q ss_pred             HHHHHccCChhhHHHHhccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHH
Q 048090          128 IDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGR  207 (447)
Q Consensus       128 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  207 (447)
                      .......|+++.|.++.+++  .+...|..|.......|+++-|.+.|.+..+         +..+.-.|.-.|+.++..
T Consensus        12 F~LAL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~   80 (177)
T 3mkq_B           12 FDLALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLS   80 (177)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHH
Confidence            34445667777777766655  3456677777777777777777777776653         223333333445555555


Q ss_pred             HHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHh
Q 048090          208 QVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNL  249 (447)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  249 (447)
                      ++-+.....  |      -++.....+...|+++++.++|.+
T Consensus        81 kla~iA~~~--g------~~n~af~~~l~lGdv~~~i~lL~~  114 (177)
T 3mkq_B           81 KMQNIAQTR--E------DFGSMLLNTFYNNSTKERSSIFAE  114 (177)
T ss_dssp             HHHHHHHHT--T------CHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHC--c------cHHHHHHHHHHcCCHHHHHHHHHH
Confidence            444444333  1      133444455566777777777763

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=96.28  E-value=1  Score=44.63  Aligned_cols=258  Identities=7%  Similarity=-0.128  Sum_probs=120.0

Q ss_pred             HHHhcCCHHHHHHHHHhhhhcCCCCcH--hhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcC-----CCChhHHHHH--H
Q 048090          161 GYCEAKLWAGGLELVRLMPALGLDYDH--FTLSALLRACAGLSAAEFGRQVHAYMIRKCCNL-----GNDVFMQSSL--I  231 (447)
Q Consensus       161 ~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~~~l--~  231 (447)
                      +....|+.++++.++......+-..+.  ..-..+.-+....|..+.+..++...+......     .+....-.++  .
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            455667777777777766542101122  222222233344454456677666666542100     0111222222  2


Q ss_pred             HHHHhcCChHHHHHHHHhhhhhcccCCCcchh--hHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH--H
Q 048090          232 EMYGKCGLVTKALQVFNLAGHRLEGEINKDVV--LWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISA--C  307 (447)
Q Consensus       232 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~--~  307 (447)
                      .+|.-.++. ++.+.+..+...    ..+...  .--.+...++..|+.+....++..+.+..   +......+.-+  +
T Consensus       463 la~~GS~~e-ev~e~L~~~L~d----d~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~---~e~vrR~aalgLGl  534 (963)
T 4ady_A          463 LAAMGSANI-EVYEALKEVLYN----DSATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ---HGNITRGLAVGLAL  534 (963)
T ss_dssp             HHSTTCCCH-HHHHHHHHHHHT----CCHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS---CHHHHHHHHHHHHH
T ss_pred             HHhcCCCCH-HHHHHHHHHHhc----CCHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHh
Confidence            233333443 333333322111    111111  11223344556677777777777666531   33333333333  3


Q ss_pred             hccCcHHHHHHHHHHHHHhcCCCCChhhHH--HHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCc
Q 048090          308 SHTGQVKLGIEYFEWMVHDYKLEPGPEHYS--CLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKF  385 (447)
Q Consensus       308 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  385 (447)
                      ...|+.+.+..+.+.+...  ..|....-.  ++.-+|+..|+.....+++..+....  -+++...-.+.-++...|+.
T Consensus       535 l~~g~~e~~~~li~~L~~~--~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~--~d~VRraAViaLGlI~~g~~  610 (963)
T 4ady_A          535 INYGRQELADDLITKMLAS--DESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS--NDDVRRAAVIALGFVLLRDY  610 (963)
T ss_dssp             HTTTCGGGGHHHHHHHHHC--SCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS--CHHHHHHHHHHHHHHTSSSC
T ss_pred             hhCCChHHHHHHHHHHHhC--CCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC--cHHHHHHHHHHHHhhccCCH
Confidence            3567777777777776542  123222222  23345566777766666777776652  12333233333344456666


Q ss_pred             cHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCCh-HHHHHHHHHHH
Q 048090          386 ELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMW-DEIGQLRELMK  430 (447)
Q Consensus       386 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~m~  430 (447)
                      +.+.++++...+..-+..+.-..++.+....|.. .+|+.++..+.
T Consensus       611 e~v~rlv~~L~~~~d~~VR~gAalALGli~aGn~~~~aid~L~~L~  656 (963)
T 4ady_A          611 TTVPRIVQLLSKSHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLT  656 (963)
T ss_dssp             SSHHHHTTTGGGCSCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHc
Confidence            6566666544443333333334444444444443 45666666664

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.00  E-value=0.37  Score=37.00  Aligned_cols=128  Identities=12%  Similarity=0.074  Sum_probs=84.6

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHH
Q 048090          271 VYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELD  350 (447)
Q Consensus       271 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  350 (447)
                      ...+.|+++.|.++.+++      .+...|..|.......|+++-|...|.+...          +..+.-.|.-.|+.+
T Consensus        14 LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D----------~~~L~~Ly~~tg~~e   77 (177)
T 3mkq_B           14 LALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS----------FDKLSFLYLVTGDVN   77 (177)
T ss_dssp             HHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC----------HHHHHHHHHHHTCHH
T ss_pred             HHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC----------HHHHHHHHHHhCCHH
Confidence            345678888888887765      2567888888888888888888888887731          445555677778877


Q ss_pred             HHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHH
Q 048090          351 KAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELM  429 (447)
Q Consensus       351 ~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  429 (447)
                      ....+-+.....|-       ++.-...+.-.|+++++.+++.+.-+        +..-.......|-.+.|.++.+++
T Consensus        78 ~L~kla~iA~~~g~-------~n~af~~~l~lGdv~~~i~lL~~~~r--------~~eA~~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           78 KLSKMQNIAQTRED-------FGSMLLNTFYNNSTKERSSIFAEGGS--------LPLAYAVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHHHHHTTC-------HHHHHHHHHHHTCHHHHHHHHHHTTC--------HHHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHCcc-------HHHHHHHHHHcCCHHHHHHHHHHCCC--------hHHHHHHHHHcCcHHHHHHHHHHh
Confidence            77776666665551       55666677778888888888865432        111111222355666677776655

>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=95.90  E-value=0.11  Score=46.49  Aligned_cols=69  Identities=13%  Similarity=-0.002  Sum_probs=61.0

Q ss_pred             HHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHH-----cCCCCCCcc
Q 048090          372 WGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKE-----KGLKKDVGC  440 (447)
Q Consensus       372 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~-----~~~~p~~~~  440 (447)
                      ...++.++...|+++++...++.++..+|-+...|..++.+|.+.|+..+|++.|++..+     .|+.|.+.+
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l  247 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  247 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            556778888999999999999999999999999999999999999999999999988754     588888654

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=95.88  E-value=0.29  Score=47.41  Aligned_cols=54  Identities=15%  Similarity=0.062  Sum_probs=43.9

Q ss_pred             HHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHH
Q 048090          376 LSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELM  429 (447)
Q Consensus       376 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  429 (447)
                      ...|...|+++.|..+.+++...-|.+..+|..|+.+|...|+++.|+-.++.+
T Consensus       344 a~FLl~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          344 TNFLLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHHHhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            445667788888888888888888888888888888888888888888777766

>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=95.50  E-value=0.22  Score=35.92  Aligned_cols=75  Identities=11%  Similarity=0.095  Sum_probs=51.1

Q ss_pred             CCChhhHHHHHHHHHHcCC---HHHHHHHHHHHHhCCCCC-CchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhH
Q 048090          330 EPGPEHYSCLVDLLCRAGE---LDKAWKLINEMLDRGHGS-SSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGI  405 (447)
Q Consensus       330 ~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~p-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  405 (447)
                      .|+..+--.+..++.+..+   ..+++.+++++.+.+  | .....+..|.-++.+.|++++|.+..+.+++..|.|..+
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~--~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~eP~N~QA  114 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA--ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQV  114 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCTTCHHH
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC--cchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCCHHH
Confidence            4555555555666666654   345777777777655  4 234456777778888888888888888888888877654


Q ss_pred             H
Q 048090          406 Y  406 (447)
Q Consensus       406 ~  406 (447)
                      .
T Consensus       115 ~  115 (134)
T 3o48_A          115 G  115 (134)
T ss_dssp             H
T ss_pred             H
Confidence            3

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.32  E-value=1.2  Score=40.51  Aligned_cols=195  Identities=10%  Similarity=0.073  Sum_probs=112.1

Q ss_pred             cCCHHHHHHHHHhhhhc-----CCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHH----H
Q 048090          165 AKLWAGGLELVRLMPAL-----GLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMY----G  235 (447)
Q Consensus       165 ~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~----~  235 (447)
                      .++++.|++.+..+.+.     +..........++..|...++++...+.+..+.+.. |..  ......+++.+    .
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr-~ql--k~ai~~~V~~~~~~l~  105 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKH-GQL--KLSIQYMIQKVMEYLK  105 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTT-TTS--HHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHh-hhh--HHHHHHHHHHHHHHHh
Confidence            36788888877665432     234456667778888888899988888777665542 221  22223333322    2


Q ss_pred             hcCChH--HHHHHHHhhhhhcccCCCcc---hhhHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCCC---HHHHHHHHH
Q 048090          236 KCGLVT--KALQVFNLAGHRLEGEINKD---VVLWTSMLGVYGRNGYFKEVIKLYEAMLMN--GTKPD---EVAFVTVIS  305 (447)
Q Consensus       236 ~~g~~~--~A~~~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~--~~~p~---~~~~~~ll~  305 (447)
                      .....+  .-..+.+.+....++.+-..   ......|...+...|++.+|.+++..+...  |..+.   ...+...++
T Consensus       106 ~~~~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~r  185 (445)
T 4b4t_P          106 SSKSLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQME  185 (445)
T ss_dssp             HHCTTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHH
T ss_pred             cCCchhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            233322  22233332222111111111   112345677788888888888888887543  22221   235666677


Q ss_pred             HHhccCcHHHHHHHHHHHHHh-cCC--CCC--hhhHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 048090          306 ACSHTGQVKLGIEYFEWMVHD-YKL--EPG--PEHYSCLVDLLCRAGELDKAWKLINEMLDR  362 (447)
Q Consensus       306 ~~~~~~~~~~a~~~~~~~~~~-~~~--~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  362 (447)
                      .|...+++..|..++.++... ...  .|+  ...+...+..+...+++.+|-..|.++...
T Consensus       186 l~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~~  247 (445)
T 4b4t_P          186 LSILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQT  247 (445)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            788888888888888876431 111  222  234566667777788888888777776554

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=95.16  E-value=0.18  Score=48.74  Aligned_cols=52  Identities=17%  Similarity=0.210  Sum_probs=40.2

Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHH
Q 048090          342 LLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKA  395 (447)
Q Consensus       342 ~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  395 (447)
                      -+...|+++.|+++.++....-  |.+..+|..|..+|...|+++.|+-.+..+
T Consensus       346 FLl~K~~~elAL~~Ak~AV~~a--PseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          346 FLLNRGDYELALGVSNTSTELA--LDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--SSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHhccCcHHHHHHHHHHHHhcC--chhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            3556788888888888887765  888888888888888888888888777654

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=95.12  E-value=0.078  Score=39.99  Aligned_cols=28  Identities=7%  Similarity=0.062  Sum_probs=23.6

Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHHHHH
Q 048090          402 NVGIYVMLSNLYAKFCMWDEIGQLRELM  429 (447)
Q Consensus       402 ~~~~~~~l~~~~~~~g~~~~A~~~~~~m  429 (447)
                      +...-..+..+|.+.|++++|+.+++.+
T Consensus       121 e~Elkykia~C~~~l~~~~~Ai~~Le~I  148 (167)
T 3ffl_A          121 EIEVKYKLAECYTVLKQDKDAIAILDGI  148 (167)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHTS
T ss_pred             hHHHHHHHHHHHHHHCCHHHHHHHHhcC
Confidence            4466778999999999999999988865

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=95.11  E-value=0.66  Score=33.96  Aligned_cols=75  Identities=11%  Similarity=0.095  Sum_probs=55.4

Q ss_pred             CCChhhHHHHHHHHHHcCC---HHHHHHHHHHHHhCCCCC-CchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhH
Q 048090          330 EPGPEHYSCLVDLLCRAGE---LDKAWKLINEMLDRGHGS-SSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGI  405 (447)
Q Consensus       330 ~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~p-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  405 (447)
                      .|+..+--.+..++.+..+   ..+++.+++++.+.+  | ........|.-++.+.|++++|.+..+.+++..|.|..+
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~--~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP~n~QA  113 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA--ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQV  113 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHC--CSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCCCCHHH
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC--ccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHH
Confidence            5666666666677777665   446777888877755  4 344456778888999999999999999999999988754


Q ss_pred             H
Q 048090          406 Y  406 (447)
Q Consensus       406 ~  406 (447)
                      .
T Consensus       114 ~  114 (144)
T 1y8m_A          114 G  114 (144)
T ss_dssp             H
T ss_pred             H
Confidence            3

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.87  E-value=2.2  Score=38.76  Aligned_cols=188  Identities=9%  Similarity=0.043  Sum_probs=116.0

Q ss_pred             cCChhhHHHHhccCC---------CCchhhHHHHHHHHHhcCCHHHHHHHHHhhhh-cCCCCcHhhHHHHHHHHh----c
Q 048090          134 LLLIHDAELMFDEIP---------VKNSVCANALLSGYCEAKLWAGGLELVRLMPA-LGLDYDHFTLSALLRACA----G  199 (447)
Q Consensus       134 ~g~~~~a~~~~~~~~---------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~----~  199 (447)
                      .|+++.|++.+-.+.         .........++..|...++++...+.+..+.+ .|..+..  ...+++.+.    .
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~a--i~~~V~~~~~~l~~  106 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKLS--IQYMIQKVMEYLKS  106 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHHH--HHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHHH--HHHHHHHHHHHHhc
Confidence            367888877764443         11345577888999999999999887766643 3333222  334444332    2


Q ss_pred             CCcHHHHHHHHHHHHHhhhcCCC--------ChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcc---hhhHHHH
Q 048090          200 LSAAEFGRQVHAYMIRKCCNLGN--------DVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKD---VVLWTSM  268 (447)
Q Consensus       200 ~~~~~~a~~~~~~~~~~~~~~~~--------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~---~~~~~~l  268 (447)
                      ....+..  ........-.....        .......|...|...|++.+|.+++..+..... +....   +..+...
T Consensus       107 ~~~~d~~--~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~-~~~~~~~kve~~l~q  183 (445)
T 4b4t_P          107 SKSLDLN--TRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETY-GSMEMSEKIQFILEQ  183 (445)
T ss_dssp             HCTTHHH--HHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-SSSCHHHHHHHHHHH
T ss_pred             CCchhHH--HHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHH-hcccHHHHHHHHHHH
Confidence            2221211  11112221001111        122346788999999999999999997654322 11111   3456777


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHh----CCCCCC--HHHHHHHHHHHhccCcHHHHHHHHHHHHHh
Q 048090          269 LGVYGRNGYFKEVIKLYEAMLM----NGTKPD--EVAFVTVISACSHTGQVKLGIEYFEWMVHD  326 (447)
Q Consensus       269 ~~~~~~~g~~~~a~~~~~~m~~----~~~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  326 (447)
                      +..|...+++.+|..+++++..    ....|+  ...+...+..+...+++.+|...|.++...
T Consensus       184 ~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~~  247 (445)
T 4b4t_P          184 MELSILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQT  247 (445)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            8889999999999999998743    222333  234566677778889999999888888654

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=94.83  E-value=3.5  Score=40.94  Aligned_cols=125  Identities=10%  Similarity=-0.041  Sum_probs=56.8

Q ss_pred             HHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHH--HHHHHHHHh
Q 048090          231 IEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVA--FVTVISACS  308 (447)
Q Consensus       231 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~--~~~ll~~~~  308 (447)
                      ...+.-.|+.+....++..+...    ...++.-...+.-++...|+.+.+..+.+.+... ..|....  -..+.-+|+
T Consensus       497 Gli~vGTgn~~ai~~LL~~~~e~----~~e~vrR~aalgLGll~~g~~e~~~~li~~L~~~-~dp~vRygaa~alglAya  571 (963)
T 4ady_A          497 GLCMLGTGKPEAIHDMFTYSQET----QHGNITRGLAVGLALINYGRQELADDLITKMLAS-DESLLRYGGAFTIALAYA  571 (963)
T ss_dssp             HHHHTTCCCHHHHHHHHHHHHHC----SCHHHHHHHHHHHHHHTTTCGGGGHHHHHHHHHC-SCHHHHHHHHHHHHHHTT
T ss_pred             hhhhcccCCHHHHHHHHHHHhcc----CcHHHHHHHHHHHHhhhCCChHHHHHHHHHHHhC-CCHHHHHHHHHHHHHHhc
Confidence            33444556665555555533221    1112222333333444566666666666666542 1221111  112233555


Q ss_pred             ccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 048090          309 HTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDR  362 (447)
Q Consensus       309 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  362 (447)
                      ..|+.....+++..+..+  ...++.....+.-++...|+.+.+.++++.+...
T Consensus       572 GTGn~~aIq~LL~~~~~d--~~d~VRraAViaLGlI~~g~~e~v~rlv~~L~~~  623 (963)
T 4ady_A          572 GTGNNSAVKRLLHVAVSD--SNDDVRRAAVIALGFVLLRDYTTVPRIVQLLSKS  623 (963)
T ss_dssp             TSCCHHHHHHHHHHHHHC--SCHHHHHHHHHHHHHHTSSSCSSHHHHTTTGGGC
T ss_pred             CCCCHHHHHHHHHHhccC--CcHHHHHHHHHHHHhhccCCHHHHHHHHHHHHhc
Confidence            666666555566666542  1222332333333344455555555555544443

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=94.67  E-value=0.76  Score=33.61  Aligned_cols=69  Identities=7%  Similarity=-0.032  Sum_probs=56.5

Q ss_pred             CchHhHHHHHHHHHhcCCc---cHHHHHHHHHhhhCCC-chhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 048090          367 SSVSMWGALLSACHDCGKF---ELGKLAAQKALELDPH-NVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKD  437 (447)
Q Consensus       367 ~~~~~~~~l~~~~~~~g~~---~~a~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~  437 (447)
                      ++..+-..+..++.+..+.   .++..+++...+..|. .......|+.++.+.|++++|.++.+.+.+  ++|+
T Consensus        37 vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~--~eP~  109 (144)
T 1y8m_A           37 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERN  109 (144)
T ss_dssp             SCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH--TCCC
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHh--cCCC
Confidence            3555677788888887754   5788899999988874 667888889999999999999999999987  5665

>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=93.69  E-value=0.41  Score=34.54  Aligned_cols=68  Identities=7%  Similarity=-0.038  Sum_probs=55.7

Q ss_pred             chHhHHHHHHHHHhcCCc---cHHHHHHHHHhhhCCC-chhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 048090          368 SVSMWGALLSACHDCGKF---ELGKLAAQKALELDPH-NVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKD  437 (447)
Q Consensus       368 ~~~~~~~l~~~~~~~g~~---~~a~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~  437 (447)
                      +..+-..+..++.+..+.   .+++.+++...+.+|. ....+..|+.++.+.|++++|.+..+.+.+  +.|+
T Consensus        39 s~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~--~eP~  110 (134)
T 3o48_A           39 TIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERN  110 (134)
T ss_dssp             CHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT--TCTT
T ss_pred             ChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh--hCCC
Confidence            555567788888887754   5688899999988874 577889999999999999999999999886  5665

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=93.48  E-value=1.5  Score=31.70  Aligned_cols=64  Identities=16%  Similarity=0.111  Sum_probs=38.9

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCC
Q 048090          299 AFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGH  364 (447)
Q Consensus       299 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  364 (447)
                      .+...+..+...|+-++-.+++..+..  +.+|++...-.+..+|.+.|+..+|.+++.++-+.|+
T Consensus        93 ~vd~ALd~lv~~~KkDqLdki~~~~l~--n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A           93 HVNKALDILVIQGKRDKLEEIGREILK--NNEVSASILVAIANALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHC----CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhccHhHHHHHHHHHhc--cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhh
Confidence            344455555666666666666666432  3456666666666677777777777777777666664

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=93.28  E-value=3.3  Score=42.86  Aligned_cols=175  Identities=11%  Similarity=0.044  Sum_probs=109.1

Q ss_pred             CCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCC-------------------CcchhhHHHHHHHHHhcCCHHHH
Q 048090          221 GNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEI-------------------NKDVVLWTSMLGVYGRNGYFKEV  281 (447)
Q Consensus       221 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-------------------~~~~~~~~~l~~~~~~~g~~~~a  281 (447)
                      +.++...-.+..++...|++++|.++|++.........                   ..-..-|..++..+.+.+.++.+
T Consensus       839 ~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~YY~hv~~LFe~~~~~~~v  918 (1139)
T 4fhn_B          839 NSDPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAEKYHHQNLLSCYYLHLSKKLFEESAYIDA  918 (1139)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHHTTTSCCSSHHHHHHHHHHHHHTSCCHHH
T ss_pred             cCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhcccccccccccccccHHHHHHHHHHHHHHcCCHHHH
Confidence            34555556678889999999999999986533211110                   00113467788888899999999


Q ss_pred             HHHHHHHHhCCCCCCH----HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHH------
Q 048090          282 IKLYEAMLMNGTKPDE----VAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDK------  351 (447)
Q Consensus       282 ~~~~~~m~~~~~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~------  351 (447)
                      .++-+...+....-+.    ..|..+..++...|++++|...+-.+...   .--......|+..+|..|..+.      
T Consensus       919 i~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~---~~r~~cLr~LV~~lce~~~~~~L~~lpf  995 (1139)
T 4fhn_B          919 LEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTT---PLKKSCLLDFVNQLTKQGKINQLLNYSM  995 (1139)
T ss_dssp             HHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHS---SSCHHHHHHHHHHHHHHCCHHHHHHHTT
T ss_pred             HHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCH---HHHHHHHHHHHHHHHhCCChhhhhCCCC
Confidence            9888777664222121    25778889999999999999998877543   3345667778777776665543      


Q ss_pred             ------HHHHHHHHHh-CCCCCCchHhHHHHHHHHHhcCCccHHH-HHHHHHhhh
Q 048090          352 ------AWKLINEMLD-RGHGSSSVSMWGALLSACHDCGKFELGK-LAAQKALEL  398 (447)
Q Consensus       352 ------A~~~~~~~~~-~~~~p~~~~~~~~l~~~~~~~g~~~~a~-~~~~~~~~~  398 (447)
                            ..+++..-.+ .......+..|..|-.-+..+|++..|. .+|+.+.++
T Consensus       996 ~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR~AA~vmYe~~~RL 1050 (1139)
T 4fhn_B          996 PTLRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQNYRDAAAIIYEKLSRY 1050 (1139)
T ss_dssp             TSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCChHHHHHHHHHHHHHh
Confidence                  3334332211 1000111233555566666788877654 556666554

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=93.24  E-value=0.53  Score=35.53  Aligned_cols=134  Identities=11%  Similarity=0.052  Sum_probs=72.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCC-------HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCCh-hh
Q 048090          265 WTSMLGVYGRNGYFKEVIKLYEAMLMNG-TKPD-------EVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGP-EH  335 (447)
Q Consensus       265 ~~~l~~~~~~~g~~~~a~~~~~~m~~~~-~~p~-------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~  335 (447)
                      +..-+..+...|.++.|+-+.+.+.... ..|+       ..++..+.+++...+++..|...|++.++....-+.. ..
T Consensus        23 l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~  102 (167)
T 3ffl_A           23 VIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKV  102 (167)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC------
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCc
Confidence            3445667778888888888777754431 2233       1356677778888899999999888876543322221 11


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHH
Q 048090          336 YSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLY  413 (447)
Q Consensus       336 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  413 (447)
                      +..+.    .......         .... +.+...-..+..+|.+.+++++|+.+++.+-... .++.+-..|++.|
T Consensus       103 ~~~~~----~~ss~p~---------s~~~-~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k~-Rt~kvnm~LakLy  165 (167)
T 3ffl_A          103 RPSTG----NSASTPQ---------SQCL-PSEIEVKYKLAECYTVLKQDKDAIAILDGIPSRQ-RTPKINMLLANLY  165 (167)
T ss_dssp             ---------------------------CC-CCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCGGG-CCHHHHHHHHHHC
T ss_pred             ccccc----ccCCCcc---------cccc-cchHHHHHHHHHHHHHHCCHHHHHHHHhcCCchh-cCHHHHHHHHHHh
Confidence            11110    0000000         0011 3344455667888888888888888776542211 1444444555443

>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=93.07  E-value=1.7  Score=38.60  Aligned_cols=55  Identities=11%  Similarity=0.036  Sum_probs=25.6

Q ss_pred             HHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHH
Q 048090          303 VISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEM  359 (447)
Q Consensus       303 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  359 (447)
                      ++.++...|+++++...+..+...  -+.+...|..+|.++.+.|+..+|++.|++.
T Consensus       177 ~~~~~l~~g~~~~a~~~l~~~~~~--~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~  231 (388)
T 2ff4_A          177 KAEAEIACGRASAVIAELEALTFE--HPYREPLWTQLITAYYLSDRQSDALGAYRRV  231 (388)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            333444445555555544444432  1223444555555555555555555555443

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=91.92  E-value=0.76  Score=37.85  Aligned_cols=117  Identities=13%  Similarity=0.129  Sum_probs=77.1

Q ss_pred             HHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCC
Q 048090          305 SACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGK  384 (447)
Q Consensus       305 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  384 (447)
                      ....+.|+++++++....-++.  -+-|...-..|++.+|-.|+++.|.+-++-..+..  |....    ....|..   
T Consensus         5 ~~ll~~g~L~~al~~~~~~VR~--~P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l~--p~~~~----~a~~yr~---   73 (273)
T 1zbp_A            5 KNALSEGQLQQALELLIEAIKA--SPKDASLRSSFIELLCIDGDFERADEQLMQSIKLF--PEYLP----GASQLRH---   73 (273)
T ss_dssp             HHHTTTTCHHHHHHHHHHHHHT--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--GGGHH----HHHHHHH---
T ss_pred             HHHHhCCCHHHHHHHHHHHHHh--CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC--chhhH----HHHHHHH---
Confidence            4567889999999998888775  24568888899999999999999999999988876  53332    1112211   


Q ss_pred             ccHHHHHHHHHhhhC--C---C-chhHHHHHHHHH--HhcCChHHHHHHHHHHHHc
Q 048090          385 FELGKLAAQKALELD--P---H-NVGIYVMLSNLY--AKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       385 ~~~a~~~~~~~~~~~--~---~-~~~~~~~l~~~~--~~~g~~~~A~~~~~~m~~~  432 (447)
                      .-.|+..-+++..-+  |   . .......++.+.  ...|+.++|.++-.++.+.
T Consensus        74 lI~aE~~R~~vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e~  129 (273)
T 1zbp_A           74 LVKAAQARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  129 (273)
T ss_dssp             HHHHHHHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHhc
Confidence            111333334444422  2   1 233444455544  4569999999998888653

>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=91.10  E-value=2.5  Score=28.67  Aligned_cols=63  Identities=16%  Similarity=0.054  Sum_probs=47.4

Q ss_pred             CHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHH
Q 048090          167 LWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIE  232 (447)
Q Consensus       167 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~  232 (447)
                      |.=+..+-++.+....+.|++......+++|.+.+++..|.++++.+...   ......+|..+++
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K---~~~~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK---AGPHKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---TTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH---hcCchhhHHHHHH
Confidence            45566677777777778899999999999999999999999999888776   3334455665554

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=91.03  E-value=11  Score=39.14  Aligned_cols=133  Identities=14%  Similarity=0.109  Sum_probs=74.8

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcc--hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 048090          225 FMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKD--VVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVT  302 (447)
Q Consensus       225 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~  302 (447)
                      .-|..++..+.+.+.++.+.++-..+......+ .++  ...|..+..++...|++++|...+-.+.....+  ...+..
T Consensus       900 ~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~-~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r--~~cLr~  976 (1139)
T 4fhn_B          900 CYYLHLSKKLFEESAYIDALEFSLLADASKETD-DEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLK--KSCLLD  976 (1139)
T ss_dssp             HHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSC-CHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSC--HHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCC-ChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHH--HHHHHH
Confidence            346667777777888888777766544432211 111  225777888888888888888888777664433  344555


Q ss_pred             HHHHHhccC------------cHHHHHHHHHHHHHhc-CCCCChhhHHHHHHHHHHcCCHHHHHH-HHHHHH
Q 048090          303 VISACSHTG------------QVKLGIEYFEWMVHDY-KLEPGPEHYSCLVDLLCRAGELDKAWK-LINEML  360 (447)
Q Consensus       303 ll~~~~~~~------------~~~~a~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~-~~~~~~  360 (447)
                      |+...|..|            ..++..+++..-.+.. .....+.-|..|-.-+...|++..|-. +|+.+.
T Consensus       977 LV~~lce~~~~~~L~~lpf~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR~AA~vmYe~~~ 1048 (1139)
T 4fhn_B          977 FVNQLTKQGKINQLLNYSMPTLRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQNYRDAAAIIYEKLS 1048 (1139)
T ss_dssp             HHHHHHHHCCHHHHHHHTTTSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             HHHHHHhCCChhhhhCCCCccHHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCChHHHHHHHHHHHH
Confidence            665555444            3444455554332210 112223345555555566777665544 455544

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=90.84  E-value=2.6  Score=28.40  Aligned_cols=89  Identities=12%  Similarity=-0.136  Sum_probs=64.5

Q ss_pred             CCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHhh
Q 048090           99 VKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLM  178 (447)
Q Consensus        99 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  178 (447)
                      ....++|.-+-+.+...+-  ...+--+-+..+...|++++|..+.+.+.-||...|-+|...  +.|..+++..-+.++
T Consensus        19 ~H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce~--rlGl~s~le~rL~~l   94 (115)
T 2uwj_G           19 QHCHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALCEW--HLGLGAALDRRLAGL   94 (115)
T ss_dssp             TTCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHHH--HTTCHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHHH--hcccHHHHHHHHHHH
Confidence            3456778888887777552  222223334567788999999999999999999998887664  788888888888788


Q ss_pred             hhcCCCCcHhhHHH
Q 048090          179 PALGLDYDHFTLSA  192 (447)
Q Consensus       179 ~~~~~~~~~~~~~~  192 (447)
                      ...| .|....|..
T Consensus        95 a~sg-~p~~q~Fa~  107 (115)
T 2uwj_G           95 GGSS-DPALADFAA  107 (115)
T ss_dssp             HTCS-SHHHHHHHH
T ss_pred             HhCC-CHHHHHHHH
Confidence            7776 555555543

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=90.83  E-value=2.6  Score=38.05  Aligned_cols=103  Identities=11%  Similarity=-0.073  Sum_probs=69.4

Q ss_pred             hHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHH--
Q 048090          189 TLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWT--  266 (447)
Q Consensus       189 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~--  266 (447)
                      +...+...+.+.|+++.|.+.+.++.....+...-...+...+..+...+++..+...++++......+..++....-  
T Consensus       133 ~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk~  212 (429)
T 4b4t_R          133 AWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYKT  212 (429)
T ss_dssp             CCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHHH
Confidence            455677777788888888888888877643444445677778888888888888888888877665555444433211  


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhC
Q 048090          267 SMLGVYGRNGYFKEVIKLYEAMLMN  291 (447)
Q Consensus       267 ~l~~~~~~~g~~~~a~~~~~~m~~~  291 (447)
                      .-...+...+++..|...|-+....
T Consensus       213 ~~gl~~l~~r~f~~Aa~~f~e~~~t  237 (429)
T 4b4t_R          213 YYGIHCLAVRNFKEAAKLLVDSLAT  237 (429)
T ss_dssp             HHHHGGGGTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhChHHHHHHHHHHHhcc
Confidence            1122334578888888888776554

>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=90.72  E-value=2.8  Score=28.48  Aligned_cols=63  Identities=14%  Similarity=0.195  Sum_probs=48.5

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 048090          277 YFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVD  341 (447)
Q Consensus       277 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  341 (447)
                      +.-++.+-++.+....+.|++....+.+++|.+.+++..|.++|+-++.+.  .+...+|..+++
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~--~~~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA--GPHKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT--TTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh--cCchhhHHHHHH
Confidence            445666777777777888999999999999999999999999999887653  333556776664

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=90.59  E-value=2.8  Score=28.32  Aligned_cols=89  Identities=9%  Similarity=-0.174  Sum_probs=64.4

Q ss_pred             CCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHhh
Q 048090           99 VKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLM  178 (447)
Q Consensus        99 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  178 (447)
                      ....++|.-+-+.+...+-  ...+--+-+..+...|++++|..+.+.+.-||...|-+|...  +.|..+++..-+.++
T Consensus        20 ~H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce~--rlGl~s~le~rL~~l   95 (116)
T 2p58_C           20 NHYHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLAYPDLEPWLALCEY--RLGLGSALESRLNRL   95 (116)
T ss_dssp             TTCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHHH--HHTCHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHHH--hcccHHHHHHHHHHH
Confidence            3466788888887777552  222223334567788999999999999999999998887664  778888888888788


Q ss_pred             hhcCCCCcHhhHHH
Q 048090          179 PALGLDYDHFTLSA  192 (447)
Q Consensus       179 ~~~~~~~~~~~~~~  192 (447)
                      ...| .|....|..
T Consensus        96 a~sg-~p~~q~Fa~  108 (116)
T 2p58_C           96 ARSQ-DPRIQTFVN  108 (116)
T ss_dssp             TTCC-CHHHHHHHH
T ss_pred             HhCC-CHHHHHHHH
Confidence            7776 555555543

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=89.62  E-value=6.1  Score=32.79  Aligned_cols=93  Identities=14%  Similarity=0.129  Sum_probs=42.7

Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCchHh-HHHHHHHHHhcCCccHHHHHHH-HHhhhCCCchhHHHHHHHHHHhcCChH
Q 048090          343 LCRAGELDKAWKLINEMLDRGHGSSSVSM-WGALLSACHDCGKFELGKLAAQ-KALELDPHNVGIYVMLSNLYAKFCMWD  420 (447)
Q Consensus       343 ~~~~g~~~~A~~~~~~~~~~~~~p~~~~~-~~~l~~~~~~~g~~~~a~~~~~-~~~~~~~~~~~~~~~l~~~~~~~g~~~  420 (447)
                      .+..|+.....++++.+.+.|..++.... -.+.+...+..|+.+-+..+++ .....+..+..-...+- ...+.|+. 
T Consensus       189 a~~~~~~~~~~~i~~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~~v~~Ll~~~g~~~~~~~~~g~t~l~-~A~~~~~~-  266 (285)
T 1wdy_A          189 ALLSSDDSDVEAITHLLLDHGADVNVRGERGKTPLILAVEKKHLGLVQRLLEQEHIEINDTDSDGKTALL-LAVELKLK-  266 (285)
T ss_dssp             HHHCSCTTTHHHHHHHHHHTTCCSSCCCTTSCCHHHHHHHTTCHHHHHHHHHSSSCCTTCCCTTSCCHHH-HHHHTTCH-
T ss_pred             HHHccccchHHHHHHHHHHcCCCCCCcCCCCCcHHHHHHHcCCHHHHHHHHhccCCCccccCCCCCcHHH-HHHHcCcH-
Confidence            34455544445566666666544321110 1122333445666665555554 22222212222222222 23345554 


Q ss_pred             HHHHHHHHHHHcCCCCCCcc
Q 048090          421 EIGQLRELMKEKGLKKDVGC  440 (447)
Q Consensus       421 ~A~~~~~~m~~~~~~p~~~~  440 (447)
                         ++.+-+.+.|..|+...
T Consensus       267 ---~i~~~Ll~~Ga~~~~~d  283 (285)
T 1wdy_A          267 ---KIAELLCKRGASTDCGD  283 (285)
T ss_dssp             ---HHHHHHHHHSSCSCCSS
T ss_pred             ---HHHHHHHHcCCCCCccc
Confidence               44566677788887654

>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=89.08  E-value=16  Score=34.74  Aligned_cols=382  Identities=10%  Similarity=-0.054  Sum_probs=178.8

Q ss_pred             hhhhhhhhcccccCCcchHHHhhccCCCCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCC
Q 048090           21 SRLMLPYTTCRHKKNLGTLTNCLKFLNPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVK  100 (447)
Q Consensus        21 ~~l~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~  100 (447)
                      +..+..+++.+   ++.....++.. ++.+...-.....+....|+..+|......+-..|. ..+.....++..+.+.|
T Consensus        76 ~~~l~~l~~~~---~w~~~l~~~~~-~p~~~~~~c~~~~A~~~~G~~~~a~~~~~~lW~~~~-~~p~~c~~l~~~~~~~g  150 (618)
T 1qsa_A           76 SRFVNELARRE---DWRGLLAFSPE-KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGK-SQPNACDKLFSVWRASG  150 (618)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHCCS-CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSS-CCCTHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhCC---CHHHHHHhccC-CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHhCCC-CCcHHHHHHHHHHHHCC
Confidence            34444445433   46666665555 334444444456666667776666666666655442 23344555555555444


Q ss_pred             chhHH--HHHHHHHHHcC-----------CCCchhhH-HHHHHHHHccCChhhHHHHhccCCCC--chhhHHHHHHHHHh
Q 048090          101 DARFG--KQVQAHVTKSG-----------WLSSVFVG-SALIDLYAKLLLIHDAELMFDEIPVK--NSVCANALLSGYCE  164 (447)
Q Consensus       101 ~~~~a--~~~~~~~~~~~-----------~~~~~~~~-~~l~~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~l~~~~~~  164 (447)
                      .+...  .+=++.+...|           ++++.... ..++..+   .+...+..........  +...+...+.-+.+
T Consensus       151 ~lt~~~~~~R~~~al~~~~~~~a~~l~~~l~~~~~~~a~~~~al~---~~p~~~~~~~~~~~~~~~~~~~~~~~~~rlar  227 (618)
T 1qsa_A          151 KQDPLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLA---NNPNTVLTFARTTGATDFTRQMAAVAFASVAR  227 (618)
T ss_dssp             CSCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHH---HCGGGHHHHHHHSCCCHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHhCCHHHHHHHHHHHHHH---hChHhHHHHHhccCCChhhHHHHHHHHHHHHh
Confidence            33221  11111222111           11221111 1111111   1222222222222111  11111222333333


Q ss_pred             cCCHHHHHHHHHhhhhcCCCCcHhhHH----HHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCCh
Q 048090          165 AKLWAGGLELVRLMPALGLDYDHFTLS----ALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLV  240 (447)
Q Consensus       165 ~~~~~~a~~~~~~~~~~~~~~~~~~~~----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  240 (447)
                       .+.+.|...+....+.. ..+.....    .+.......+...++...+......    ..+.....-.+....+.|++
T Consensus       228 -~d~~~A~~~~~~~~~~~-~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~e~~~r~Alr~~d~  301 (618)
T 1qsa_A          228 -QDAENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMR----SQSTSLIERRVRMALGTGDR  301 (618)
T ss_dssp             -HCHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHT----CCCHHHHHHHHHHHHHHTCH
T ss_pred             -cCHHHHHHHHHhhhhcc-CCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhcccc----CCChHHHHHHHHHHHHCCCH
Confidence             37788888888776543 22322222    2222333444345566666654432    23333333444445567889


Q ss_pred             HHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHH
Q 048090          241 TKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYF  320 (447)
Q Consensus       241 ~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~  320 (447)
                      +.|...|+.+...    ........--+..++...|+.++|..+|+.+...    .  +|..++.+ .+.|..-..    
T Consensus       302 ~~a~~~~~~l~~~----~~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~~----~--~fYg~lAa-~~Lg~~~~~----  366 (618)
T 1qsa_A          302 RGLNTWLARLPME----AKEKDEWRYWQADLLLERGREAEAKEILHQLMQQ----R--GFYPMVAA-QRIGEEYEL----  366 (618)
T ss_dssp             HHHHHHHHHSCTT----GGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS----C--SHHHHHHH-HHTTCCCCC----
T ss_pred             HHHHHHHHHcccc----ccccHhHHHHHHHHHHHcCCHHHHHHHHHHHhcC----C--ChHHHHHH-HHcCCCCCC----
Confidence            9998888865432    1112232334556777788888888888888642    1  33333321 222221000    


Q ss_pred             HHHHHhcCCCCC-hh-----hHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHH
Q 048090          321 EWMVHDYKLEPG-PE-----HYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQK  394 (447)
Q Consensus       321 ~~~~~~~~~~~~-~~-----~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  394 (447)
                          ......+. ..     .-..-+..+...|....|...+..+....  +  ..-...+.......|.++.+.....+
T Consensus       367 ----~~~~~~~~~~~~~~~~~~~~r~~~L~~~g~~~~a~~ew~~~~~~~--~--~~~~~~la~~a~~~~~~~~~v~~~~~  438 (618)
T 1qsa_A          367 ----KIDKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKSK--S--KTEQAQLARYAFNNQWWDLSVQATIA  438 (618)
T ss_dssp             ----CCCCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--C--HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ----CCCCCChhHHhhhccChHHHHHHHHHHCCChhhHHHHHHHHHhcC--C--HHHHHHHHHHHHHCCChHHHHHHHHH
Confidence                00000110 00     11223455778899999999888877642  2  22234555556677777777655543


Q ss_pred             HhhhCCC---chhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCCc
Q 048090          395 ALELDPH---NVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDVG  439 (447)
Q Consensus       395 ~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~  439 (447)
                      ....+..   -+..|...+..+.+.-.++.++-.---..++++.|+..
T Consensus       439 ~~~~~~~~~~~P~~y~~~i~~~a~~~gv~~~ll~Ai~~~ES~f~p~a~  486 (618)
T 1qsa_A          439 GKLWDHLEERFPLAYNDLFKRYTSGKEIPQSYAMAIARQESAWNPKVK  486 (618)
T ss_dssp             TTCTTCHHHHSCCTTHHHHHHHHTTSSSCHHHHHHHHHHHHTTCTTCB
T ss_pred             HHhhcchhhhCCcchHHHHHHHHHHcCCCHHHHHHHHHHhCCCCCCCc
Confidence            3222200   01234555555555555554433222334567777653

>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic}

Probab=88.92  E-value=7.3  Score=30.73  Aligned_cols=165  Identities=12%  Similarity=-0.005  Sum_probs=91.5

Q ss_pred             HHHhhccCCCCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCC
Q 048090           39 LTNCLKFLNPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWL  118 (447)
Q Consensus        39 A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  118 (447)
                      ...+...+..+++..-...+..+.+.|.. .+...+..+...   ++...-...+.++...++.+. ...+..+..   .
T Consensus        21 ~~~L~~~L~~~~~~vR~~A~~~L~~~~~~-~~~~~L~~~l~~---~~~~vr~~a~~aL~~~~~~~~-~~~L~~~l~---~   92 (211)
T 3ltm_A           21 VEMYIKNLQDDSYYVRRAAAYALGKIGDE-RAVEPLIKALKD---EDAWVRRAAADALGQIGDERA-VEPLIKALK---D   92 (211)
T ss_dssp             HHHHHHHTTCSSHHHHHHHHHHHHHHCCG-GGHHHHHHHTTC---SCHHHHHHHHHHHHHHCCGGG-HHHHHHHTT---C
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHcC---CCHHHHHHHHHHHHhhCCHHH-HHHHHHHHc---C
Confidence            33444445566766666677777777663 344444444442   355555555556665555333 333333332   4


Q ss_pred             CchhhHHHHHHHHHccCChhhHHHHhccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHh
Q 048090          119 SSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACA  198 (447)
Q Consensus       119 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  198 (447)
                      ++..+-...+.++.+.++.+....+.+.+..++...-...+.++.+.++.+ +...+..+.+   .++...-...+.++.
T Consensus        93 ~~~~vr~~a~~aL~~~~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~~~~~~-~~~~L~~~l~---d~~~~vr~~a~~aL~  168 (211)
T 3ltm_A           93 EDGWVRQSAAVALGQIGDERAVEPLIKALKDEDWFVRIAAAFALGEIGDER-AVEPLIKALK---DEDGWVRQSAADALG  168 (211)
T ss_dssp             SSHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHCCGG-GHHHHHHHTT---CSSHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCcHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCHH-HHHHHHHHHc---CCCHHHHHHHHHHHH
Confidence            566666667777777777655555555566667666666677776666543 3344444443   355555555566665


Q ss_pred             cCCcHHHHHHHHHHHHHh
Q 048090          199 GLSAAEFGRQVHAYMIRK  216 (447)
Q Consensus       199 ~~~~~~~a~~~~~~~~~~  216 (447)
                      +.+. ..+...+..+.+.
T Consensus       169 ~~~~-~~~~~~L~~~l~d  185 (211)
T 3ltm_A          169 EIGG-ERVRAAMEKLAET  185 (211)
T ss_dssp             HHCS-HHHHHHHHHHHHH
T ss_pred             HhCc-hhHHHHHHHHHhC
Confidence            5554 3444445555443

>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=88.29  E-value=5.7  Score=28.66  Aligned_cols=63  Identities=16%  Similarity=0.054  Sum_probs=48.7

Q ss_pred             CHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHH
Q 048090          167 LWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIE  232 (447)
Q Consensus       167 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~  232 (447)
                      |.=+..+-++.+...++.|++......+++|.+.+++..|.++++-+..+   ..+...+|..+++
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K---~~~~~~iY~y~lq  130 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK---AGPHKEIYPYVIQ  130 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---TTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh---cCCchhhHHHHHH
Confidence            44456666777777788899999999999999999999999999988776   3444556666554

>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=88.06  E-value=5.9  Score=28.59  Aligned_cols=63  Identities=14%  Similarity=0.200  Sum_probs=49.3

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 048090          277 YFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVD  341 (447)
Q Consensus       277 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  341 (447)
                      +.-+..+-++.+....+.|++......+++|.+.+++..|..+|+-++.+  +.+...+|..+++
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K--~~~~~~iY~y~lq  130 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK--AGPHKEIYPYVIQ  130 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh--cCCchhhHHHHHH
Confidence            34456667777777788999999999999999999999999999988765  3444556777664

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=87.94  E-value=12  Score=31.90  Aligned_cols=170  Identities=14%  Similarity=0.096  Sum_probs=96.1

Q ss_pred             HHHHHHHHHccCChhhHHHHhccCCCCchhhHHHHHHHHHhcCCHHHHHHH----HHhhhhcCCCCcHhhHHHHHHHHhc
Q 048090          124 GSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLEL----VRLMPALGLDYDHFTLSALLRACAG  199 (447)
Q Consensus       124 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~----~~~~~~~~~~~~~~~~~~l~~~~~~  199 (447)
                      |.++..=|.+.+++++|++++..           -...+.+.|+...|-.+    ++...+.+++++......++..+..
T Consensus        36 ~Rtl~~Ry~~~~~~~eAidlL~~-----------ga~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~l~~~  104 (312)
T 2wpv_A           36 LRTIANRYVRSKSYEHAIELISQ-----------GALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRLIAE  104 (312)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            44455557777888888766543           23345556766655543    4555566778888877777777655


Q ss_pred             CCcHH-HHHHHHHHHHHh----hhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHh
Q 048090          200 LSAAE-FGRQVHAYMIRK----CCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGR  274 (447)
Q Consensus       200 ~~~~~-~a~~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  274 (447)
                      ...-+ .-.++++.+++.    +....-++.....+...|.+.|++.+|+..|-.       +...+...+..++--+..
T Consensus       105 ~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~-------~~~~s~~~~a~~l~~w~~  177 (312)
T 2wpv_A          105 LDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFML-------GTHDSMIKYVDLLWDWLC  177 (312)
T ss_dssp             CCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHT-------SCHHHHHHHHHHHHHHHH
T ss_pred             CCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHh-------CCCccHHHHHHHHHHHHH
Confidence            32111 123344444432    111223677888999999999999999988851       111134455444443333


Q ss_pred             c---CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHh
Q 048090          275 N---GYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHD  326 (447)
Q Consensus       275 ~---g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  326 (447)
                      .   |...++              +...-..++ -|...++...|...|+...+.
T Consensus       178 ~~~~~~~~e~--------------dlf~~RaVL-~yL~l~n~~~A~~~~~~f~~~  217 (312)
T 2wpv_A          178 QVDDIEDSTV--------------AEFFSRLVF-NYLFISNISFAHESKDIFLER  217 (312)
T ss_dssp             HTTCCCHHHH--------------HHHHHHHHH-HHHHTTBHHHHHHHHHHHHHH
T ss_pred             hcCCCCcchH--------------HHHHHHHHH-HHHHhcCHHHHHHHHHHHHHH
Confidence            3   332221              111122222 344568888888888876543

>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=87.49  E-value=4  Score=31.92  Aligned_cols=53  Identities=11%  Similarity=0.166  Sum_probs=35.7

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhC
Q 048090          347 GELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELD  399 (447)
Q Consensus       347 g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  399 (447)
                      +...++.++|..|...|+...-...|......+...|++.+|..+|+..++.+
T Consensus        93 ~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~  145 (202)
T 3esl_A           93 NNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENN  145 (202)
T ss_dssp             TCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             cccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            33556667777776666666666666666777777777777777777766655

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=87.00  E-value=6.2  Score=32.53  Aligned_cols=52  Identities=12%  Similarity=0.084  Sum_probs=27.8

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHH
Q 048090          272 YGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMV  324 (447)
Q Consensus       272 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  324 (447)
                      ..+.|.+++++.....-++.. +-|...-..++..+|-.|+++.|.+-++...
T Consensus         7 ll~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a   58 (273)
T 1zbp_A            7 ALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSI   58 (273)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            345555555555555555442 2244444555555556666666665555554

>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=84.63  E-value=6.4  Score=30.80  Aligned_cols=55  Identities=16%  Similarity=0.088  Sum_probs=47.1

Q ss_pred             CCccHHHHHHHHHhhhC--CCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 048090          383 GKFELGKLAAQKALELD--PHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKD  437 (447)
Q Consensus       383 g~~~~a~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~  437 (447)
                      +....+..+|..+...+  ..-+..|...+..+...|++++|.++|+.-++.+-.|-
T Consensus        93 ~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A~P~  149 (202)
T 3esl_A           93 NNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENNCRPY  149 (202)
T ss_dssp             TCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBSH
T ss_pred             cccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCccH
Confidence            33668999999888765  66788999999999999999999999999998887773

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=83.85  E-value=14  Score=33.24  Aligned_cols=101  Identities=11%  Similarity=-0.079  Sum_probs=58.5

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCCCHHH--
Q 048090          225 FMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMN---GTKPDEVA--  299 (447)
Q Consensus       225 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~---~~~p~~~~--  299 (447)
                      .+...+...|.+.|+++.|.+.|.++.... .+...-...+-..+..+...+++..+...+.+....   +..|+...  
T Consensus       132 ~~~~~la~~~~~~Gd~~~A~~~~~~~~~~~-~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~l  210 (429)
T 4b4t_R          132 QAWINLGEYYAQIGDKDNAEKTLGKSLSKA-ISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRY  210 (429)
T ss_dssp             SCCHHHHHHHHHHCCCTTHHHHHHHHHHHH-TCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhc-CChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHH
Confidence            356677777888888888888887665432 122333455666677777777777777777776432   22222221  


Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHHh
Q 048090          300 FVTVISACSHTGQVKLGIEYFEWMVHD  326 (447)
Q Consensus       300 ~~~ll~~~~~~~~~~~a~~~~~~~~~~  326 (447)
                      ...-...+...+++..|...|-+....
T Consensus       211 k~~~gl~~l~~r~f~~Aa~~f~e~~~t  237 (429)
T 4b4t_R          211 KTYYGIHCLAVRNFKEAAKLLVDSLAT  237 (429)
T ss_dssp             HHHHHHGGGGTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhChHHHHHHHHHHHhcc
Confidence            111122233556677776666666554

>3ltj_A Alpharep-4; protein engineering, heat-like repeat, protein binding; 1.80A {Synthetic}

Probab=83.72  E-value=14  Score=28.80  Aligned_cols=162  Identities=12%  Similarity=-0.020  Sum_probs=80.5

Q ss_pred             HhhccCCCCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCc
Q 048090           41 NCLKFLNPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSS  120 (447)
Q Consensus        41 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  120 (447)
                      .+++.+..+|+......+.++.+.+..+ +...+..+..   .++...-...+.++...++.+. ...+..+..   .++
T Consensus        18 ~~i~~L~~~~~~vr~~A~~~L~~~~~~~-~~~~L~~~l~---~~~~~vr~~a~~~L~~~~~~~~-~~~L~~~l~---d~~   89 (201)
T 3ltj_A           18 MYIKNLQDDSYYVRRAAAYALGKIGDER-AVEPLIKALK---DEDAWVRRAAADALGQIGDERA-VEPLIKALK---DED   89 (201)
T ss_dssp             HHHHHTTCSCHHHHHHHHHHHHHHCCGG-GHHHHHHHTT---CSSHHHHHHHHHHHHHHCCGGG-HHHHHHHTT---CSS
T ss_pred             HHHHHhcCCCHHHHHHHHHHHHhcCChh-HHHHHHHHHc---CCCHHHHHHHHHHHHhhCCHHH-HHHHHHHHc---CCC
Confidence            3444445556555555666666655533 3333333333   2344444444455555554332 233333332   355


Q ss_pred             hhhHHHHHHHHHccCChhhHHHHhccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcC
Q 048090          121 VFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGL  200 (447)
Q Consensus       121 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  200 (447)
                      ..+-...+.++.+.++.+....+.+.+..++...-...+.++.+.++.+ +...+..+.+   .++...-...+.++.+.
T Consensus        90 ~~vr~~a~~aL~~~~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~~~~~~-~~~~L~~~l~---d~~~~vr~~A~~aL~~~  165 (201)
T 3ltj_A           90 GWVRQSAAVALGQIGDERAVEPLIKALKDEDWFVRIAAAFALGEIGDER-AVEPLIKALK---DEDGWVRQSAADALGEI  165 (201)
T ss_dssp             HHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHTCGG-GHHHHHHHTT---CSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCHH-HHHHHHHHHc---CCCHHHHHHHHHHHHHh
Confidence            5666666666776666555555555555666666566666666665533 3333333333   24555555555555555


Q ss_pred             CcHHHHHHHHHHHHH
Q 048090          201 SAAEFGRQVHAYMIR  215 (447)
Q Consensus       201 ~~~~~a~~~~~~~~~  215 (447)
                      +. ..+...+..+..
T Consensus       166 ~~-~~~~~~L~~~l~  179 (201)
T 3ltj_A          166 GG-ERVRAAMEKLAE  179 (201)
T ss_dssp             CS-HHHHHHHHHHHH
T ss_pred             Cc-hhHHHHHHHHHh
Confidence            44 334444444444

>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=83.02  E-value=7.5  Score=28.88  Aligned_cols=50  Identities=12%  Similarity=0.222  Sum_probs=40.1

Q ss_pred             HHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhC
Q 048090          350 DKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELD  399 (447)
Q Consensus       350 ~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  399 (447)
                      +++.++|..|...|+.......|......+...|++.+|..+|+..++.+
T Consensus        82 ~dp~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~Gi~~~  131 (152)
T 4a1g_A           82 SDLHQFFEFLYNHGIGTLSSPLYIAWAGHLEAQGELQHASAVLQRGIQNQ  131 (152)
T ss_dssp             SCHHHHHHHHHTTTTTTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            34778888888888877777778888888888888888888888888765

>1n11_A Ankyrin; clathrin, BAND 3, anion exchanger, structural protein; 2.70A {Homo sapiens} SCOP: d.211.1.1

Probab=82.67  E-value=26  Score=31.31  Aligned_cols=203  Identities=8%  Similarity=-0.007  Sum_probs=93.4

Q ss_pred             hhhhhhhcccccCCcchHHHhhccCCCCCC---ccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchh--hHHHHHHHh
Q 048090           22 RLMLPYTTCRHKKNLGTLTNCLKFLNPRNP---LPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTY--ALCSSLTAS   96 (447)
Q Consensus        22 ~l~~~~~~~~~~~~~~~A~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~--~~~~ll~~~   96 (447)
                      +.+..-++.|   +++....+++.-..++.   ...+ .+...++.|+.+-+.    .+.+.|..++..  .-.+.+...
T Consensus        16 t~L~~Aa~~g---~~~~v~~Ll~~g~~~~~~~~~~~t-~L~~A~~~g~~~~v~----~Ll~~g~~~~~~~~~g~t~L~~A   87 (437)
T 1n11_A           16 TPLHVASFMG---HLPIVKNLLQRGASPNVSNVKVET-PLHMAARAGHTEVAK----YLLQNKAKVNAKAKDDQTPLHCA   87 (437)
T ss_dssp             CHHHHHHHHT---CHHHHHHHHHTTCCSCCSSSCCCC-HHHHHHHHTCHHHHH----HHHHHTCCSSCCCTTSCCHHHHH
T ss_pred             CHHHHHHHCC---CHHHHHHHHHcCCCCCCCCCCCCC-HHHHHHHcCCHHHHH----HHHhCCCCCCCCCCCCCCHHHHH
Confidence            3444445556   47666667665433332   2233 344445667655444    344444443321  112234444


Q ss_pred             ccCCchhHHHHHHHHHHHcCCCCchhh--HHHHHHHHHccCChhhHHHHhccCCCC---chhhHHHHHHHHHhcCCHHHH
Q 048090           97 TSVKDARFGKQVQAHVTKSGWLSSVFV--GSALIDLYAKLLLIHDAELMFDEIPVK---NSVCANALLSGYCEAKLWAGG  171 (447)
Q Consensus        97 ~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a  171 (447)
                      +..|+.+    +.+.+++.|..++...  -.+.+...+..|+.+.+..+++.-...   +...++. +...+..|+.+-+
T Consensus        88 ~~~g~~~----~v~~Ll~~ga~~~~~~~~g~t~L~~A~~~g~~~~v~~Ll~~~~~~~~~~~~g~t~-L~~A~~~g~~~~v  162 (437)
T 1n11_A           88 ARIGHTN----MVKLLLENNANPNLATTAGHTPLHIAAREGHVETVLALLEKEASQACMTKKGFTP-LHVAAKYGKVRVA  162 (437)
T ss_dssp             HHHTCHH----HHHHHHHHTCCTTCCCTTCCCHHHHHHHHTCHHHHHHHHHTTCCSCCCCTTSCCH-HHHHHHTTCHHHH
T ss_pred             HHCCCHH----HHHHHHhCCCCCCCCCCCCCcHHHHHHHcCCHHHHHHHHhCCCCCcCCCCCCCCH-HHHHHHcCCHHHH
Confidence            4556654    4444455565443221  122345556678888777777664322   2222223 3334556776654


Q ss_pred             HHHHHhhhhcCCCCcH---hhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChh--HHHHHHHHHHhcCChHHHHHH
Q 048090          172 LELVRLMPALGLDYDH---FTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVF--MQSSLIEMYGKCGLVTKALQV  246 (447)
Q Consensus       172 ~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~g~~~~A~~~  246 (447)
                      ..+++    .|..++.   ...+.+ ...+..|+.+-    ++.+.+.  +..++..  .-...+...+..|+.+-+..+
T Consensus       163 ~~Ll~----~g~~~~~~~~~g~t~L-~~A~~~~~~~~----v~~Ll~~--g~~~~~~~~~g~t~L~~A~~~~~~~~~~~L  231 (437)
T 1n11_A          163 ELLLE----RDAHPNAAGKNGLTPL-HVAVHHNNLDI----VKLLLPR--GGSPHSPAWNGYTPLHIAAKQNQVEVARSL  231 (437)
T ss_dssp             HHHHH----TTCCTTCCCSSCCCHH-HHHHHTTCHHH----HHHHGGG--TCCSCCCCTTCCCHHHHHHHTTCHHHHHHH
T ss_pred             HHHHh----CCCCCCCCCCCCCCHH-HHHHHcCCHHH----HHHHHhC--CCCCCCcCCCCCCHHHHHHHcCCHHHHHHH
Confidence            44443    3333322   112222 23334555543    3334444  2222221  112234445567777766666


Q ss_pred             HH
Q 048090          247 FN  248 (447)
Q Consensus       247 ~~  248 (447)
                      ++
T Consensus       232 l~  233 (437)
T 1n11_A          232 LQ  233 (437)
T ss_dssp             HH
T ss_pred             HH
Confidence            65

>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=81.36  E-value=28  Score=30.77  Aligned_cols=295  Identities=9%  Similarity=-0.010  Sum_probs=148.9

Q ss_pred             hhHHHHHHHHHccCChhhHHHHhccCCC--------CchhhHHHHHHHHHhc-CCHHHHHHHHHhhhhcCCCCcHhhHH-
Q 048090          122 FVGSALIDLYAKLLLIHDAELMFDEIPV--------KNSVCANALLSGYCEA-KLWAGGLELVRLMPALGLDYDHFTLS-  191 (447)
Q Consensus       122 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~--------~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~-  191 (447)
                      .....|...|.+.|+.++..+++....+        .....-..++..+... +..+.-.++..+..+.. .-+..+|. 
T Consensus        20 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a-~~~~r~flr   98 (394)
T 3txn_A           20 QGILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWA-KQEKRTFLR   98 (394)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHH-HHTTCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHH-HHHHHHHHH
Confidence            3456677888888888888888776652        1334455666666553 44455555655555432 12223442 


Q ss_pred             -----HHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCC---hhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccC-CCcch
Q 048090          192 -----ALLRACAGLSAAEFGRQVHAYMIRKCCNLGND---VFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGE-INKDV  262 (447)
Q Consensus       192 -----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~  262 (447)
                           .++..|...|++.+|.+++..+.+.-......   ..++..-+..|...+++.++...+.......... .+|..
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                 45667777888888888888877763222111   1234555666777788888888887766554332 22222


Q ss_pred             hhHH--HHHHHHH-hcCCHHHHHHHHHHHHhC-C-C-CCC---HHHHHHHHHHHhccCcHHHHHHHH-HHHHHhcCCCCC
Q 048090          263 VLWT--SMLGVYG-RNGYFKEVIKLYEAMLMN-G-T-KPD---EVAFVTVISACSHTGQVKLGIEYF-EWMVHDYKLEPG  332 (447)
Q Consensus       263 ~~~~--~l~~~~~-~~g~~~~a~~~~~~m~~~-~-~-~p~---~~~~~~ll~~~~~~~~~~~a~~~~-~~~~~~~~~~~~  332 (447)
                      ...-  .-...+. ..+++..|...|-+..+. . . .|.   ...|..+. +.....+.+ ...++ +.....+ ..|.
T Consensus       179 ~a~i~~~~Gi~~l~~~rdyk~A~~~F~eaf~~f~~~~~~~~~~~lkYlvL~-aLl~~~r~e-l~~~l~~~~~~~~-~~pe  255 (394)
T 3txn_A          179 QGALDLQSGILHAADERDFKTAFSYFYEAFEGFDSVDSVKALTSLKYMLLC-KIMLGQSDD-VNQLVSGKLAITY-SGRD  255 (394)
T ss_dssp             HHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH-HHHTTCGGG-HHHHHHSHHHHTT-CSHH
T ss_pred             HHHHHHHhhHHHHHhccCHHHHHHHHHHHHhcccccccHHHHHHHHHHHHH-HHHcCCHHH-HHHHhcccccccc-CCcc
Confidence            2211  1122344 577777777766655322 1 1 111   11232222 222222222 22222 2222221 2344


Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhh--hCCCchhHHHHHH
Q 048090          333 PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALE--LDPHNVGIYVMLS  410 (447)
Q Consensus       333 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~~~~l~  410 (447)
                      ...+..++.+ ...+++.+...+++..... + ..|+.. ..-+..+.        ..+..+.+.  ..|-....+..++
T Consensus       256 i~~l~~L~~a-~~~~dl~~f~~iL~~~~~~-l-~~D~~l-~~h~~~L~--------~~Ir~~~L~~i~~pYsrIsl~~iA  323 (394)
T 3txn_A          256 IDAMKSVAEA-SHKRSLADFQAALKEYKKE-L-AEDVIV-QAHLGTLY--------DTMLEQNLCRIIEPYSRVQVAHVA  323 (394)
T ss_dssp             HHHHHHHHHH-HHTTCHHHHHHHHHHSTTT-T-TTSHHH-HHHHHHHH--------HHHHHHHHHHHHTTCSEEEHHHHH
T ss_pred             HHHHHHHHHH-HHhCCHHHHHHHHHHHHHH-H-hcChHH-HHHHHHHH--------HHHHHHHHHHHhHhhceeeHHHHH
Confidence            4445555544 3455666666666554322 2 223321 11111110        011111111  1344555566666


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCC
Q 048090          411 NLYAKFCMWDEIGQLRELMKEKGL  434 (447)
Q Consensus       411 ~~~~~~g~~~~A~~~~~~m~~~~~  434 (447)
                      ..+ .. ..++++..+-+|+..|.
T Consensus       324 ~~l-~l-s~~evE~~L~~lI~dg~  345 (394)
T 3txn_A          324 ESI-QL-PMPQVEKKLSQMILDKK  345 (394)
T ss_dssp             HHH-TC-CHHHHHHHHHHHHHTTS
T ss_pred             HHH-Cc-CHHHHHHHHHHHHHCCC
Confidence            554 33 67889999999988764

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=81.13  E-value=22  Score=29.28  Aligned_cols=113  Identities=6%  Similarity=-0.054  Sum_probs=51.0

Q ss_pred             hhhhhcccccCCcchHHHhhccCCCCCC----ccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhh--HHHHHHHhc
Q 048090           24 MLPYTTCRHKKNLGTLTNCLKFLNPRNP----LPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYA--LCSSLTAST   97 (447)
Q Consensus        24 ~~~~~~~~~~~~~~~A~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~--~~~ll~~~~   97 (447)
                      +...++.|   +++....+++.-...+.    .-++ .+...+..|+.+    +++.+.+.|..|+...  -.+.+...+
T Consensus         9 L~~A~~~g---~~~~v~~Ll~~g~~~~~~~~~~g~t-~L~~A~~~g~~~----~v~~Ll~~g~~~~~~~~~g~t~L~~A~   80 (285)
T 1wdy_A            9 LIKAVQNE---DVDLVQQLLEGGANVNFQEEEGGWT-PLHNAVQMSRED----IVELLLRHGADPVLRKKNGATPFLLAA   80 (285)
T ss_dssp             HHHHHHTT---CHHHHHHHHHTTCCTTCCCTTTCCC-HHHHHHHTTCHH----HHHHHHHTTCCTTCCCTTCCCHHHHHH
T ss_pred             HHHHHHcC---CHHHHHHHHHcCCCcccccCCCCCc-HHHHHHHcCCHH----HHHHHHHcCCCCcccCCCCCCHHHHHH
Confidence            33344455   46666666665433221    1223 344445566653    4444555555443211  112233333


Q ss_pred             cCCchhHHHHHHHHHHHcCCCCchhh--HHHHHHHHHccCChhhHHHHhccCC
Q 048090           98 SVKDARFGKQVQAHVTKSGWLSSVFV--GSALIDLYAKLLLIHDAELMFDEIP  148 (447)
Q Consensus        98 ~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~g~~~~a~~~~~~~~  148 (447)
                      ..|+.+    +++.+++.|..++...  -...+...+..|+.+-...+++.-.
T Consensus        81 ~~~~~~----~v~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~~~~~Ll~~g~  129 (285)
T 1wdy_A           81 IAGSVK----LLKLFLSKGADVNECDFYGFTAFMEAAVYGKVKALKFLYKRGA  129 (285)
T ss_dssp             HHTCHH----HHHHHHHTTCCTTCBCTTCCBHHHHHHHTTCHHHHHHHHHTTC
T ss_pred             HcCCHH----HHHHHHHcCCCCCccCcccCCHHHHHHHhCCHHHHHHHHHhCC
Confidence            445543    4444555554443221  1123344455667666666665543

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	447
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	5e-07
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	7e-07
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	0.001
d1fcha_	323	a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting	7e-04
d1kt1a1	168	a.118.8.1 (A:254-421) FKBP51, C-terminal domain {M	0.004

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.3 bits (116), Expect = 5e-07
 Identities = 37/214 (17%), Positives = 70/214 (32%), Gaps = 13/214 (6%)

Query: 210 HAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSML 269
            A  ++      N     S+L  ++   G +  A+  F  A       ++ + +     L
Sbjct: 155 KACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAV-----TLDPNFLDAYINL 209

Query: 270 G-VYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYK 328
           G V      F   +  Y   L             +       G + L I+ +   +   +
Sbjct: 210 GNVLKEARIFDRAVAAYLRALSLSPNHAV-VHGNLACVYYEQGLIDLAIDTYRRAI---E 265

Query: 329 LEPG-PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFEL 387
           L+P  P+ Y  L + L   G + +A    N  L      +      A +    + G  E 
Sbjct: 266 LQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANI--KREQGNIEE 323

Query: 388 GKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDE 421
                +KALE+ P     +  L+++  +     E
Sbjct: 324 AVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQE 357

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 48.9 bits (115), Expect = 7e-07
 Identities = 30/195 (15%), Positives = 68/195 (34%), Gaps = 11/195 (5%)

Query: 222 NDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEV 281
           N +    +L  +  +  +  +A+  +     R         V+  ++  VY   G     
Sbjct: 201 NFLDAYINLGNVLKEARIFDRAVAAYL----RALSLSPNHAVVHGNLACVYYEQGLIDLA 256

Query: 282 IKLYE-AMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLV 340
           I  Y  A+ +    PD  A+  + +A    G V    + +   +         +  + L 
Sbjct: 257 IDTYRRAIELQPHFPD--AYCNLANALKEKGSVAEAEDCYNTALRLCP--THADSLNNLA 312

Query: 341 DLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDP 400
           ++    G +++A +L  + L+        +    L S     GK +   +  ++A+ + P
Sbjct: 313 NIKREQGNIEEAVRLYRKALEVF--PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISP 370

Query: 401 HNVGIYVMLSNLYAK 415
                Y  + N   +
Sbjct: 371 TFADAYSNMGNTLKE 385

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.1 bits (87), Expect = 0.001
 Identities = 12/75 (16%), Positives = 29/75 (38%), Gaps = 2/75 (2%)

Query: 345 RAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVG 404
           +AG+ + A +   ++  +     +  +   L S    C + +     +  A++ +P    
Sbjct: 11  QAGDFEAAERHCMQLWRQE--PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAE 68

Query: 405 IYVMLSNLYAKFCMW 419
            Y  L N+Y +    
Sbjct: 69  AYSNLGNVYKERGQL 83

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]} Length = 323

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]

 Score = 39.0 bits (89), Expect = 7e-04
 Identities = 22/225 (9%), Positives = 52/225 (23%), Gaps = 5/225 (2%)

Query: 207 RQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWT 266
                          +                 +       +L     EG     +    
Sbjct: 81  ELKPDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSK 140

Query: 267 SMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHD 326
            +LG    +  F EV +L+ A +       +      +         +       +    
Sbjct: 141 RILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGL-GVLFNLSGEYDKAVDCFTAAL 199

Query: 327 YKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFE 386
                    ++ L   L    + ++A       L+   G         L  +C + G   
Sbjct: 200 SVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRS--RYNLGISCINLGAHR 257

Query: 387 LGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKE 431
                  +AL +   + G       +     +W  +     ++ +
Sbjct: 258 EAVEHFLEALNMQRKSRGPRGEGGAMSEN--IWSTLRLALSMLGQ 300

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]} Length = 168

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]

 Score = 35.7 bits (81), Expect = 0.004
 Identities = 22/141 (15%), Positives = 47/141 (33%), Gaps = 16/141 (11%)

Query: 311 GQVKLGIEYFEWMVHDYKLEPG----------PEHYSCLVDL-LCRAGELDKAWKLINEM 359
           G+    +  +  +V   ++E G              +  ++L +C     +    +    
Sbjct: 29  GKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCD 88

Query: 360 LDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMW 419
              G  S++         A     +FE  K   +K LE++P N    + +     K    
Sbjct: 89  KALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFMCQKKAKEH 148

Query: 420 DEIGQLRELMK---EKGLKKD 437
           +E  + R       +K  ++D
Sbjct: 149 NE--RDRRTYANMFKKFAEQD 167

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	447
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.96
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.95
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.8
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.75
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.47
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.46
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.45
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.42
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.42
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.39
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.39
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.36
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.34
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.29
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	99.12
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	99.11
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	99.1
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.07
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	99.06
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	99.04
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	99.0
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.97
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.97
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.94
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.85
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.83
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.79
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.79
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.77
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.76
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.74
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.73
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.71
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.61
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.6
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.53
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.53
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.52
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.49
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.47
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.45
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.42
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.41
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.38
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.2
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	98.2
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.19
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.14
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.11
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	98.08
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.91
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.9
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.78
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.78
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	97.0
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	96.95
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.68
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.67
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	96.54
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	96.5
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.13
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	93.91
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	90.34
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	89.79

>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=99.96  E-value=7.9e-25  Score=197.18  Aligned_cols=369  Identities=11%  Similarity=-0.011  Sum_probs=282.8

Q ss_pred             CcchHHHhhccC---CCCCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHH
Q 048090           35 NLGTLTNCLKFL---NPRNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAH  111 (447)
Q Consensus        35 ~~~~A~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  111 (447)
                      ++++|.+.++++   .|.++.++..+...+.+.|++++|...|++..+.. +-+..++..+..++.+.|++++|...+..
T Consensus        14 ~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~~~~A~~~~~~   92 (388)
T d1w3ba_          14 DFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEAIEHYRH   92 (388)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhcccccccccccc
Confidence            688888888775   34466778888888888888888888888887764 22456778888888888888888888888


Q ss_pred             HHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCC---CCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHh
Q 048090          112 VTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIP---VKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHF  188 (447)
Q Consensus       112 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  188 (447)
                      ..+.. +.+..............+....+........   .................+....+...+.+..... +.+..
T Consensus        93 ~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~  170 (388)
T d1w3ba_          93 ALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAV  170 (388)
T ss_dssp             HHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHH
T ss_pred             ccccc-cccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhccC-cchhH
Confidence            88764 3344444444444455555544444433322   3344455556666777788888888877776653 33556


Q ss_pred             hHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHH
Q 048090          189 TLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSM  268 (447)
Q Consensus       189 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l  268 (447)
                      .+..+...+...++++.|...++...+..   +.+...+..+...+...|++++|...++.....    .+.+...+..+
T Consensus       171 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~---p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~~~~~~~~~l  243 (388)
T d1w3ba_         171 AWSNLGCVFNAQGEIWLAIHHFEKAVTLD---PNFLDAYINLGNVLKEARIFDRAVAAYLRALSL----SPNHAVVHGNL  243 (388)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHH----CTTCHHHHHHH
T ss_pred             HHHhhcccccccCcHHHHHHHHHHHHHhC---cccHHHHHHHhhhhhccccHHHHHHHHHHhHHH----hhhHHHHHHHH
Confidence            77777788888899999999999888873   336677888888899999999999998876654    45566778888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCC
Q 048090          269 LGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGE  348 (447)
Q Consensus       269 ~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  348 (447)
                      ...+.+.|++++|...|++..+.. +-+..++..+..++...|++++|...++.....  .+.+...+..+...+...|+
T Consensus       244 ~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~  320 (388)
T d1w3ba_         244 ACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRL--CPTHADSLNNLANIKREQGN  320 (388)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhcc--CCccchhhhHHHHHHHHCCC
Confidence            888889999999999999888753 225677888888888999999999999888765  34567778888888899999


Q ss_pred             HHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCC
Q 048090          349 LDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCM  418 (447)
Q Consensus       349 ~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  418 (447)
                      +++|+..+++.++..  |++..++..++.++...|++++|...++++++.+|.++.+|..++.+|.+.|+
T Consensus       321 ~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         321 IEEAVRLYRKALEVF--PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHHHHHTTSC--TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC
Confidence            999999999988765  88888888999999999999999999999999999999999999988888775

>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=99.95  E-value=1.8e-24  Score=194.86  Aligned_cols=367  Identities=14%  Similarity=0.027  Sum_probs=305.5

Q ss_pred             HHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCC
Q 048090           57 VISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLL  136 (447)
Q Consensus        57 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  136 (447)
                      +...+.+.|++++|.+.|+++.+.. +-+...+..+..++.+.|++++|...++++++.. |.+..++..+..++.+.|+
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~   82 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhcc
Confidence            4566778999999999999998864 2356788888899999999999999999999875 5567789999999999999


Q ss_pred             hhhHHHHhccCCC---CchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHH
Q 048090          137 IHDAELMFDEIPV---KNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYM  213 (447)
Q Consensus       137 ~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  213 (447)
                      +++|+..+.....   .+...+..........+....+........... .................+....+...+...
T Consensus        83 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (388)
T d1w3ba_          83 LQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKA  161 (388)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccc-cccccccccccccccccchhhhhHHHHHHh
Confidence            9999999988762   344445555555556666666666665555443 334444555566667788888888888888


Q ss_pred             HHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 048090          214 IRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGT  293 (447)
Q Consensus       214 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  293 (447)
                      ...   .+.+...+..+...+...|++++|...+++....    .+.+..+|..+...+...|++++|...+++....+ 
T Consensus       162 ~~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~----~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-  233 (388)
T d1w3ba_         162 IET---QPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTL----DPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-  233 (388)
T ss_dssp             HHH---CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH----CTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-
T ss_pred             hcc---CcchhHHHHhhcccccccCcHHHHHHHHHHHHHh----CcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-
Confidence            876   3446778888999999999999999999977665    45567789999999999999999999999998865 


Q ss_pred             CCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhH
Q 048090          294 KPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMW  372 (447)
Q Consensus       294 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~  372 (447)
                      ..+...+..+...+...|++++|...|+++.+.   .| +...+..+..++...|++++|.+.++......  |.+...+
T Consensus       234 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~  308 (388)
T d1w3ba_         234 PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIEL---QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC--PTHADSL  308 (388)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC--TTCHHHH
T ss_pred             hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC--Cccchhh
Confidence            346777888889999999999999999999864   45 47889999999999999999999999998876  8888899


Q ss_pred             HHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCCccc
Q 048090          373 GALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDVGCS  441 (447)
Q Consensus       373 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~  441 (447)
                      ..++.++...|++++|...++++++..|.++.++..++.+|.+.|++++|++.|++..+  +.|+....
T Consensus       309 ~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--l~P~~~~a  375 (388)
T d1w3ba_         309 NNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPTFADA  375 (388)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT--TCTTCHHH
T ss_pred             hHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHH
Confidence            99999999999999999999999999999999999999999999999999999999886  56765433

>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=99.80  E-value=2.9e-17  Score=143.53  Aligned_cols=243  Identities=12%  Similarity=-0.050  Sum_probs=141.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhc
Q 048090          158 LLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKC  237 (447)
Q Consensus       158 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  237 (447)
                      ....+.+.|++++|+..|++..+.. +-+..+|..+..++...|+++.|...+.+.++..   +.+...+..++.+|...
T Consensus        25 ~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~---p~~~~~~~~la~~~~~~  100 (323)
T d1fcha_          25 EGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK---PDNQTALMALAVSFTNE  100 (323)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc---ccccccccccccccccc
Confidence            3444556666666666666665542 2234455555666666666666666666665542   22445555556666666


Q ss_pred             CChHHHHHHHHhhhhhcccCCCcchhh-HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHH
Q 048090          238 GLVTKALQVFNLAGHRLEGEINKDVVL-WTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLG  316 (447)
Q Consensus       238 g~~~~A~~~~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a  316 (447)
                      |++++|.+.++.+...     .|+... +.......                    ...+.......+..+...+.+.+|
T Consensus       101 ~~~~~A~~~~~~~~~~-----~~~~~~~~~~~~~~~--------------------~~~~~~~~~~~~~~~~~~~~~~~a  155 (323)
T d1fcha_         101 SLQRQACEILRDWLRY-----TPAYAHLVTPAEEGA--------------------GGAGLGPSKRILGSLLSDSLFLEV  155 (323)
T ss_dssp             TCHHHHHHHHHHHHHT-----STTTGGGCC-----------------------------------CTTHHHHHHHHHHHH
T ss_pred             ccccccccchhhHHHh-----ccchHHHHHhhhhhh--------------------hhcccccchhhHHHHHHhhHHHHH
Confidence            6666666666544332     111110 00000000                    000000011112223344556667


Q ss_pred             HHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHh
Q 048090          317 IEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKAL  396 (447)
Q Consensus       317 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  396 (447)
                      ...+.+......-.++...+..+...+...|++++|+..+++.+...  |++..+|..++.++...|++++|...+++++
T Consensus       156 ~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al  233 (323)
T d1fcha_         156 KELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR--PNDYLLWNKLGATLANGNQSEEAVAAYRRAL  233 (323)
T ss_dssp             HHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccc--cccccchhhhhhcccccccchhHHHHHHHHH
Confidence            77777666542233345566677777777777777777777777665  7777777777777777777777877777777


Q ss_pred             hhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          397 ELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       397 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                      +.+|.++.+|..++.+|.+.|++++|++.|++..+
T Consensus       234 ~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         234 ELQPGYIRSRYNLGISCINLGAHREAVEHFLEALN  268 (323)
T ss_dssp             HHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHhhccHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            77777777777777777777777777777777765

>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=99.75  E-value=2e-16  Score=138.15  Aligned_cols=266  Identities=15%  Similarity=0.047  Sum_probs=201.5

Q ss_pred             HHHHHHHccCChhhHHHHhccCC---CCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCc
Q 048090          126 ALIDLYAKLLLIHDAELMFDEIP---VKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSA  202 (447)
Q Consensus       126 ~l~~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  202 (447)
                      .....+.+.|++++|+..|++..   +.+..+|..+..++...|++++|...+.+..+.. +-+...+..+..++...|+
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~  102 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESL  102 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-ccccccccccccccccccc
Confidence            45667889999999999999875   3367789999999999999999999999998764 3456788888899999999


Q ss_pred             HHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHH
Q 048090          203 AEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVI  282 (447)
Q Consensus       203 ~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  282 (447)
                      +++|.+.++.+....+.   ............                       ...+.......+..+...+.+.+|.
T Consensus       103 ~~~A~~~~~~~~~~~~~---~~~~~~~~~~~~-----------------------~~~~~~~~~~~~~~~~~~~~~~~a~  156 (323)
T d1fcha_         103 QRQACEILRDWLRYTPA---YAHLVTPAEEGA-----------------------GGAGLGPSKRILGSLLSDSLFLEVK  156 (323)
T ss_dssp             HHHHHHHHHHHHHTSTT---TGGGCC--------------------------------------CTTHHHHHHHHHHHHH
T ss_pred             ccccccchhhHHHhccc---hHHHHHhhhhhh-----------------------hhcccccchhhHHHHHHhhHHHHHH
Confidence            99999999999886221   111111100000                       0001111111222334556678888


Q ss_pred             HHHHHHHhCCC-CCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHH
Q 048090          283 KLYEAMLMNGT-KPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEML  360 (447)
Q Consensus       283 ~~~~~m~~~~~-~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  360 (447)
                      ..+.+..+... .++..++..+...+...|++++|...|++....   .| +...|..+..+|.+.|++++|.+.+++++
T Consensus       157 ~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al  233 (323)
T d1fcha_         157 ELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV---RPNDYLLWNKLGATLANGNQSEEAVAAYRRAL  233 (323)
T ss_dssp             HHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhccccccccc---ccccccchhhhhhcccccccchhHHHHHHHHH
Confidence            88888776432 335677888888999999999999999999865   34 47889999999999999999999999999


Q ss_pred             hCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchh-----------HHHHHHHHHHhcCChHHHH
Q 048090          361 DRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVG-----------IYVMLSNLYAKFCMWDEIG  423 (447)
Q Consensus       361 ~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-----------~~~~l~~~~~~~g~~~~A~  423 (447)
                      +..  |++..+|..++.+|.+.|++++|...|+++++..|.+..           +|..+..++...|+.+.+.
T Consensus       234 ~~~--p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~  305 (323)
T d1fcha_         234 ELQ--PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYG  305 (323)
T ss_dssp             HHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHH
T ss_pred             HHh--hccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            876  889999999999999999999999999999998776543           4566777777778776554

>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=99.47  E-value=2.9e-12  Score=110.27  Aligned_cols=230  Identities=10%  Similarity=0.052  Sum_probs=176.5

Q ss_pred             hhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcC-ChHHHHHHHHhhhhhcccCCCcchhhHH
Q 048090          188 FTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCG-LVTKALQVFNLAGHRLEGEINKDVVLWT  266 (447)
Q Consensus       188 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~~~~~~~~~~~~~  266 (447)
                      ..|+.+...+.+.+.+++|.++++.+++.   .+-+...|+....++...| ++++|+..++++...    .+.+..+|.
T Consensus        44 ~a~~~~~~~~~~~e~~~~Al~~~~~ai~l---nP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~----~p~~~~a~~  116 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERSERAFKLTRDAIEL---NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEE----QPKNYQVWH  116 (315)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH----CTTCHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHH---CCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHH----HHhhhhHHH
Confidence            45666666777888889999999999887   4556678888888888766 489999999877665    566788888


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHH
Q 048090          267 SMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCR  345 (447)
Q Consensus       267 ~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~  345 (447)
                      .+...+.+.|++++|+..++++.+.. +-+...|..+...+...|++++|++.++++++.   .| +...|+.+..++.+
T Consensus       117 ~~~~~~~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~---~p~n~~a~~~r~~~l~~  192 (315)
T d2h6fa1         117 HRRVLVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE---DVRNNSVWNQRYFVISN  192 (315)
T ss_dssp             HHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH---CTTCHHHHHHHHHHHHH
T ss_pred             HHhHHHHhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHH---CCccHHHHHHHHHHHHH
Confidence            88888999999999999999998864 226788888888888999999999999998865   44 46777777777766


Q ss_pred             cCC------HHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCC--chhHHHHHHHHHHhc-
Q 048090          346 AGE------LDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPH--NVGIYVMLSNLYAKF-  416 (447)
Q Consensus       346 ~g~------~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~l~~~~~~~-  416 (447)
                      .+.      +++|.+.+.+++...  |.+..+|..+...+...| .+++...++++.+..|.  +...+..++..|... 
T Consensus       193 ~~~~~~~~~~~~ai~~~~~al~~~--P~~~~~~~~l~~ll~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~  269 (315)
T d2h6fa1         193 TTGYNDRAVLEREVQYTLEMIKLV--PHNESAWNYLKGILQDRG-LSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDML  269 (315)
T ss_dssp             TTCSCSHHHHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHTTTC-GGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHH
T ss_pred             ccccchhhhhHHhHHHHHHHHHhC--CCchHHHHHHHHHHHhcC-hHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHH
Confidence            665      578888888888877  888888888877765544 57788888888887765  455666677776543 


Q ss_pred             -CChHHHHHHHHHHHH
Q 048090          417 -CMWDEIGQLRELMKE  431 (447)
Q Consensus       417 -g~~~~A~~~~~~m~~  431 (447)
                       +..+.+...+++..+
T Consensus       270 ~~~~~~~~~~~~ka~~  285 (315)
T d2h6fa1         270 ENQCDNKEDILNKALE  285 (315)
T ss_dssp             HTTCSSHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHH
Confidence             566667777766543

>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=99.46  E-value=2.1e-11  Score=104.70  Aligned_cols=233  Identities=13%  Similarity=0.056  Sum_probs=180.0

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCC-cHHHHHHHHHHHHHhhhcCCCChhHHHHH
Q 048090          152 SVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLS-AAEFGRQVHAYMIRKCCNLGNDVFMQSSL  230 (447)
Q Consensus       152 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~~l  230 (447)
                      ...++.+...+.+.+.+++|+++++++.+.. +-+...|.....++...+ ++++|...++.+++..   +-+..+|..+
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~---p~~~~a~~~~  118 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ---PKNYQVWHHR  118 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC---TTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH---HhhhhHHHHH
Confidence            4567778888889999999999999999974 445667788888887766 5899999999999983   4478899999


Q ss_pred             HHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcc
Q 048090          231 IEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHT  310 (447)
Q Consensus       231 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  310 (447)
                      ..++.+.|++++|+..++++...    .+.+...|..+...+.+.|++++|+..++++++.++. +...|+.+...+.+.
T Consensus       119 ~~~~~~l~~~~eAl~~~~kal~~----dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~-n~~a~~~r~~~l~~~  193 (315)
T d2h6fa1         119 RVLVEWLRDPSQELEFIADILNQ----DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNT  193 (315)
T ss_dssp             HHHHHHHTCCTTHHHHHHHHHHH----CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHT
T ss_pred             hHHHHhhccHHHHHHHHhhhhhh----hhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCc-cHHHHHHHHHHHHHc
Confidence            99999999999999999988776    6778899999999999999999999999999996432 566777666555444


Q ss_pred             C------cHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhc-
Q 048090          311 G------QVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDC-  382 (447)
Q Consensus       311 ~------~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~-  382 (447)
                      +      .+++|...+.++.+.   .| +...|..+...+. ....+++.+.++...+....+.+...+..++..|... 
T Consensus       194 ~~~~~~~~~~~ai~~~~~al~~---~P~~~~~~~~l~~ll~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~  269 (315)
T d2h6fa1         194 TGYNDRAVLEREVQYTLEMIKL---VPHNESAWNYLKGILQ-DRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDML  269 (315)
T ss_dssp             TCSCSHHHHHHHHHHHHHHHHH---STTCHHHHHHHHHHHT-TTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHH
T ss_pred             cccchhhhhHHhHHHHHHHHHh---CCCchHHHHHHHHHHH-hcChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHH
Confidence            3      478899999988865   45 5777777766554 4456888888888877664455555566666666442 


Q ss_pred             -CCccHHHHHHHHHhh
Q 048090          383 -GKFELGKLAAQKALE  397 (447)
Q Consensus       383 -g~~~~a~~~~~~~~~  397 (447)
                       ++.+.+...++++.+
T Consensus       270 ~~~~~~~~~~~~ka~~  285 (315)
T d2h6fa1         270 ENQCDNKEDILNKALE  285 (315)
T ss_dssp             HTTCSSHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHH
Confidence             455556666655543

>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=99.45  E-value=9.5e-11  Score=102.68  Aligned_cols=270  Identities=9%  Similarity=-0.049  Sum_probs=110.8

Q ss_pred             HHHHccCChhhHHHHhccCC--CC-c-----hhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCC-CCc----HhhHHHHHH
Q 048090          129 DLYAKLLLIHDAELMFDEIP--VK-N-----SVCANALLSGYCEAKLWAGGLELVRLMPALGL-DYD----HFTLSALLR  195 (447)
Q Consensus       129 ~~~~~~g~~~~a~~~~~~~~--~~-~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~  195 (447)
                      ..+...|++++|++++++..  .| +     ...+..+...+...|++++|...+++..+... .++    ...+..+..
T Consensus        20 ~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~   99 (366)
T d1hz4a_          20 QVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSE   99 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHH
Confidence            44445555555555554432  11 1     12344445555555555555555555433210 001    112333334


Q ss_pred             HHhcCCcHHHHHHHHHHHHHhhhcCCC--Ch---hHHHHHHHHHHhcCChHHHHHHHHhhhhhcccC-CCcchhhHHHHH
Q 048090          196 ACAGLSAAEFGRQVHAYMIRKCCNLGN--DV---FMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGE-INKDVVLWTSML  269 (447)
Q Consensus       196 ~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~~~~l~  269 (447)
                      .+...|++..+...+.......+....  ..   ..+..+...+...|+++.+...+.......... .......+....
T Consensus       100 ~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  179 (366)
T d1hz4a_         100 ILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLI  179 (366)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHH
Confidence            444555555555555554443211111  10   122333444555555555555555443332211 111122333334


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhC----CCCCC--HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC--ChhhHHHHHH
Q 048090          270 GVYGRNGYFKEVIKLYEAMLMN----GTKPD--EVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEP--GPEHYSCLVD  341 (447)
Q Consensus       270 ~~~~~~g~~~~a~~~~~~m~~~----~~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~~l~~  341 (447)
                      ..+...++...+...+.+....    +..+.  ...+..+...+...|+++.|...++.......-.+  ....+..+..
T Consensus       180 ~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~  259 (366)
T d1hz4a_         180 QCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIAR  259 (366)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHH
T ss_pred             HHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHH
Confidence            4444455555555544443321    10110  11223333344445555555555544432100000  0122333444


Q ss_pred             HHHHcCCHHHHHHHHHHHHh----CCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhh
Q 048090          342 LLCRAGELDKAWKLINEMLD----RGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALEL  398 (447)
Q Consensus       342 ~~~~~g~~~~A~~~~~~~~~----~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  398 (447)
                      ++...|++++|...+++++.    .+..|....++..+..+|...|++++|...+++++++
T Consensus       260 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l  320 (366)
T d1hz4a_         260 AQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKL  320 (366)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            45555555555555554431    1222333334445555555555555555555555443

>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=99.42  E-value=5.1e-11  Score=102.21  Aligned_cols=218  Identities=10%  Similarity=0.043  Sum_probs=162.9

Q ss_pred             HHHHHHHHHHHHhhhcCCCChhHHHHHHHHHH--------------hcCChHHHHHHHHhhhhhcccCCCcchhhHHHHH
Q 048090          204 EFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYG--------------KCGLVTKALQVFNLAGHRLEGEINKDVVLWTSML  269 (447)
Q Consensus       204 ~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~--------------~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~  269 (447)
                      +.+..+|++++..   .+.+...|...+..+.              ..+..++|..+|++....   ..+.+...|...+
T Consensus        33 ~Rv~~vyerAl~~---~~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~---~~p~~~~l~~~ya  106 (308)
T d2onda1          33 KRVMFAYEQCLLV---LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAIST---LLKKNMLLYFAYA  106 (308)
T ss_dssp             HHHHHHHHHHHHH---HTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTT---TTTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHH---cCCCCHHHHHHHH
Confidence            3455566676665   2334455544444332              223457788888865432   2344566788888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHH-HHHcCC
Q 048090          270 GVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDL-LCRAGE  348 (447)
Q Consensus       270 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~  348 (447)
                      ..+.+.|+++.|..+|+++.+.........|...+..+.+.|+++.|.++|+++.+.  .+.+...|...... +...|+
T Consensus       107 ~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~--~~~~~~~~~~~a~~e~~~~~~  184 (308)
T d2onda1         107 DYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAALMEYYCSKD  184 (308)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTS--TTCCTHHHHHHHHHHHHTSCC
T ss_pred             HHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHhccC
Confidence            888999999999999999987543334557888889999999999999999998754  22344445444433 334688


Q ss_pred             HHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCc----hhHHHHHHHHHHhcCChHHHHH
Q 048090          349 LDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHN----VGIYVMLSNLYAKFCMWDEIGQ  424 (447)
Q Consensus       349 ~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~  424 (447)
                      .+.|..+|+.++...  |++...|..++..+...|+++.|+.+|+++++..|.+    ..+|..++..-...|+.+.+..
T Consensus       185 ~~~a~~i~e~~l~~~--p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~  262 (308)
T d2onda1         185 KSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILK  262 (308)
T ss_dssp             HHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHH
T ss_pred             HHHHHHHHHHHHHhh--hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            999999999999876  8888899999999999999999999999999977543    3478888888888999999999


Q ss_pred             HHHHHHH
Q 048090          425 LRELMKE  431 (447)
Q Consensus       425 ~~~~m~~  431 (447)
                      +++++.+
T Consensus       263 ~~~r~~~  269 (308)
T d2onda1         263 VEKRRFT  269 (308)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9998876

>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=99.42  E-value=4.5e-12  Score=106.12  Aligned_cols=225  Identities=9%  Similarity=-0.113  Sum_probs=141.1

Q ss_pred             HHHHHHHHHhhhhcCC-CC--cHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHH
Q 048090          168 WAGGLELVRLMPALGL-DY--DHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKAL  244 (447)
Q Consensus       168 ~~~a~~~~~~~~~~~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  244 (447)
                      .+.++.-+++...... .+  ...+|..+..++.+.|++++|...|++.++..   +.++.++..+..+|.+.|++++|+
T Consensus        15 ~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~---p~~~~a~~~lg~~~~~~g~~~~A~   91 (259)
T d1xnfa_          15 QEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR---PDMPEVFNYLGIYLTQAGNFDAAY   91 (259)
T ss_dssp             HHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC---CCCHHHHhhhchHHHHHHHHHHhh
Confidence            3445555555544321 11  22356666777888888888888888888873   346778888888888889999998


Q ss_pred             HHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHH
Q 048090          245 QVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMV  324 (447)
Q Consensus       245 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  324 (447)
                      ..|+++...    .|.+..++..+..++...|++++|...|++..+... .+......+..++.+.+..+.+..+.....
T Consensus        92 ~~~~~al~~----~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  166 (259)
T d1xnfa_          92 EAFDSVLEL----DPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDP-NDPFRSLWLYLAEQKLDEKQAKEVLKQHFE  166 (259)
T ss_dssp             HHHHHHHHH----CTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHCHHHHHHHHHHHHH
T ss_pred             hhhhHHHHH----HhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhcc-ccHHHHHHHHHHHHHhhhHHHHHHHHHHhh
Confidence            888877665    445567788888888888899999888888877532 234443334444455555555555555444


Q ss_pred             HhcCCCCChhhHHHHHHHHHHc----CCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCC
Q 048090          325 HDYKLEPGPEHYSCLVDLLCRA----GELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDP  400 (447)
Q Consensus       325 ~~~~~~~~~~~~~~l~~~~~~~----g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  400 (447)
                      ..   .+....+. ++..+...    +..+.+...+.......  |....+|..++..+...|++++|...|+++++.+|
T Consensus       167 ~~---~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p  240 (259)
T d1xnfa_         167 KS---DKEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLA--EHLSETNFYLGKYYLSLGDLDSATALFKLAVANNV  240 (259)
T ss_dssp             HS---CCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHH--HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             cc---chhhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhcC--cccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC
Confidence            32   22222222 22222211    11222332222222221  33445677888899999999999999999998888


Q ss_pred             CchhHH
Q 048090          401 HNVGIY  406 (447)
Q Consensus       401 ~~~~~~  406 (447)
                      .+..-|
T Consensus       241 ~~~~~~  246 (259)
T d1xnfa_         241 HNFVEH  246 (259)
T ss_dssp             TTCHHH
T ss_pred             CCHHHH
Confidence            765444

>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=99.39  E-value=1.1e-10  Score=102.24  Aligned_cols=271  Identities=9%  Similarity=-0.045  Sum_probs=185.5

Q ss_pred             HHHHHhccCCchhHHHHHHHHHHHcCCCCc-----hhhHHHHHHHHHccCChhhHHHHhccCCC-----C----chhhHH
Q 048090           91 SSLTASTSVKDARFGKQVQAHVTKSGWLSS-----VFVGSALIDLYAKLLLIHDAELMFDEIPV-----K----NSVCAN  156 (447)
Q Consensus        91 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~----~~~~~~  156 (447)
                      .....+...|++++|.+++++.++.. +.+     ..++..+..++...|++++|...|++...     +    ....+.
T Consensus        17 lrA~~~~~~g~~~~A~~~~~~aL~~~-~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   95 (366)
T d1hz4a_          17 LRAQVAINDGNPDEAERLAKLALEEL-PPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLI   95 (366)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTC-CTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhC-cCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHH
Confidence            33445678899999999999888753 222     23566677888888999999988877642     1    234466


Q ss_pred             HHHHHHHhcCCHHHHHHHHHhhhhc----CCCCcH---hhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCC--ChhHH
Q 048090          157 ALLSGYCEAKLWAGGLELVRLMPAL----GLDYDH---FTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGN--DVFMQ  227 (447)
Q Consensus       157 ~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~  227 (447)
                      .+...+...|++..+...+.+....    +.....   ..+..+...+...|+++.+...+.......+...+  ....+
T Consensus        96 ~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  175 (366)
T d1hz4a_          96 QQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCL  175 (366)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHH
Confidence            6677788889999998888776532    222221   23445566777889999999999888876332222  23345


Q ss_pred             HHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcc---hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC---CHHHHH
Q 048090          228 SSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKD---VVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKP---DEVAFV  301 (447)
Q Consensus       228 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p---~~~~~~  301 (447)
                      ......+...++...+...+..............   ...+......+...|++++|...+++........   ....+.
T Consensus       176 ~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  255 (366)
T d1hz4a_         176 AMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWR  255 (366)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHH
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHH
Confidence            5566777888899999888887766544332221   2235556667788899999998888776543222   234556


Q ss_pred             HHHHHHhccCcHHHHHHHHHHHHHh---cCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 048090          302 TVISACSHTGQVKLGIEYFEWMVHD---YKLEPG-PEHYSCLVDLLCRAGELDKAWKLINEMLDR  362 (447)
Q Consensus       302 ~ll~~~~~~~~~~~a~~~~~~~~~~---~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  362 (447)
                      .+..++...|++++|...++.+...   .+..|+ ...+..+..+|.+.|++++|.+.+++.++.
T Consensus       256 ~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l  320 (366)
T d1hz4a_         256 NIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKL  320 (366)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            6777888899999999998887532   133343 456777888889999999999998887654

>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=99.39  E-value=3.5e-12  Score=111.17  Aligned_cols=237  Identities=8%  Similarity=-0.119  Sum_probs=179.0

Q ss_pred             HHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcC--CcHHHHHHHHHHHHHhhhcCCCChhHHH-HHHHHHHhcC
Q 048090          162 YCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGL--SAAEFGRQVHAYMIRKCCNLGNDVFMQS-SLIEMYGKCG  238 (447)
Q Consensus       162 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~a~~~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~g  238 (447)
                      +...|++++|+..++...+.. +-+...+..+..++...  ++++.|...+..+....   +++...+. .....+...+
T Consensus        83 ~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~---~~~~~~~~~~~~~~~~~~~  158 (334)
T d1dcea1          83 EESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD---ERNFHCWDYRRFVAAQAAV  158 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC---chhhhhhhhHHHHHHHhcc
Confidence            345567888999999888763 33555666666665554  45889999999998872   33555543 4556777889


Q ss_pred             ChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHH
Q 048090          239 LVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIE  318 (447)
Q Consensus       239 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~  318 (447)
                      .+++|+..++.+...    .+.+...|+.+..++.+.|++++|...++...+.  .|+.   ..+...+...+..+++..
T Consensus       159 ~~~~Al~~~~~~i~~----~p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~---~~~~~~~~~l~~~~~a~~  229 (334)
T d1dcea1         159 APAEELAFTDSLITR----NFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLKE---LELVQNAFFTDPNDQSAW  229 (334)
T ss_dssp             CHHHHHHHHHTTTTT----TCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHHH---HHHHHHHHHHCSSCSHHH
T ss_pred             ccHHHHHHHHHHHHc----CCCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHHH---HHHHHHHHHhcchhHHHH
Confidence            999999999977664    5667888999999999999988877666554442  2222   122333455666777888


Q ss_pred             HHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhh
Q 048090          319 YFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALEL  398 (447)
Q Consensus       319 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  398 (447)
                      .+......  -+++...+..+...+...|+.++|...+.+....+  |.+..++..++.++...|++++|...++++++.
T Consensus       230 ~~~~~l~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l  305 (334)
T d1dcea1         230 FYHRWLLG--RAEPLFRCELSVEKSTVLQSELESCKELQELEPEN--KWCLLTIILLMRALDPLLYEKETLQYFSTLKAV  305 (334)
T ss_dssp             HHHHHHHS--CCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTC--HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH
T ss_pred             HHHHHHHh--CcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhC--chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            88877654  24456667777888888999999999999999887  888889999999999999999999999999999


Q ss_pred             CCCchhHHHHHHHHHHh
Q 048090          399 DPHNVGIYVMLSNLYAK  415 (447)
Q Consensus       399 ~~~~~~~~~~l~~~~~~  415 (447)
                      +|.+...|..|...+.-
T Consensus       306 dP~~~~y~~~L~~~~~~  322 (334)
T d1dcea1         306 DPMRAAYLDDLRSKFLL  322 (334)
T ss_dssp             CGGGHHHHHHHHHHHHH
T ss_pred             CcccHHHHHHHHHHHhH
Confidence            99999999988776653

>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=99.36  E-value=3.3e-11  Score=100.72  Aligned_cols=222  Identities=14%  Similarity=0.038  Sum_probs=156.0

Q ss_pred             cHHHHHHHHHHHHHhhhcCCC--ChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHH
Q 048090          202 AAEFGRQVHAYMIRKCCNLGN--DVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFK  279 (447)
Q Consensus       202 ~~~~a~~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  279 (447)
                      +.+.+...+++..... ...+  ...++..+..+|.+.|++++|...|++....    .|.+..+|..+..+|.+.|+++
T Consensus        14 ~~e~al~~~~e~l~~~-~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l----~p~~~~a~~~lg~~~~~~g~~~   88 (259)
T d1xnfa_          14 QQEVILARMEQILASR-ALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAI----RPDMPEVFNYLGIYLTQAGNFD   88 (259)
T ss_dssp             HHHHHHHHHHHHHTSS-CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----CCCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHhh-hcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhcc----CCCCHHHHhhhchHHHHHHHHH
Confidence            4456666666666541 1111  2347778889999999999999999988776    5667889999999999999999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHH
Q 048090          280 EVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEM  359 (447)
Q Consensus       280 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  359 (447)
                      +|+..|+++.+.... +..++..+..++...|++++|...|++..+..  +.+......+..++.+.+..+.+..+....
T Consensus        89 ~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  165 (259)
T d1xnfa_          89 AAYEAFDSVLELDPT-YNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQHF  165 (259)
T ss_dssp             HHHHHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_pred             HhhhhhhHHHHHHhh-hhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc--cccHHHHHHHHHHHHHhhhHHHHHHHHHHh
Confidence            999999999986422 46678888899999999999999999998761  234444444555566677666666666666


Q ss_pred             HhCCCCCCchHhHHHHHHHHHh----cCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC
Q 048090          360 LDRGHGSSSVSMWGALLSACHD----CGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLK  435 (447)
Q Consensus       360 ~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  435 (447)
                      ....  +.... +. ++..+..    .+..+.+...+.......|....+|..++..|...|++++|.+.|++...  ..
T Consensus       166 ~~~~--~~~~~-~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~--~~  239 (259)
T d1xnfa_         166 EKSD--KEQWG-WN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVA--NN  239 (259)
T ss_dssp             HHSC--CCSTH-HH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TC
T ss_pred             hccc--hhhhh-hh-HHHHHHHHHHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--cC
Confidence            5554  22221 22 2222221    12233333333333444466677889999999999999999999999886  34


Q ss_pred             CC
Q 048090          436 KD  437 (447)
Q Consensus       436 p~  437 (447)
                      |+
T Consensus       240 p~  241 (259)
T d1xnfa_         240 VH  241 (259)
T ss_dssp             CT
T ss_pred             CC
Confidence            54

>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=99.34  E-value=3.6e-12  Score=111.13  Aligned_cols=266  Identities=7%  Similarity=-0.111  Sum_probs=199.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHhhhhcCCCCcHh-hHHH---HHHHH-------hcCCcHHHHHHHHHHHHHhhhcCCCChhH
Q 048090          158 LLSGYCEAKLWAGGLELVRLMPALGLDYDHF-TLSA---LLRAC-------AGLSAAEFGRQVHAYMIRKCCNLGNDVFM  226 (447)
Q Consensus       158 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~---l~~~~-------~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  226 (447)
                      ++......+..++|++++++..+.  .|+.. .|+.   ++..+       ...+.+++|..+++...+.   .+.+...
T Consensus        35 ~~~~~~~~~~~~~al~~~~~~l~~--~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~---~pk~~~~  109 (334)
T d1dcea1          35 VFQKRQAGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV---NPKSYGT  109 (334)
T ss_dssp             HHHHHHTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH---CTTCHHH
T ss_pred             HHHHHhcccccHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHh---CCCcHHH
Confidence            333333344457888888888775  45543 3322   22222       2345678899999999987   3446777


Q ss_pred             HHHHHHHHHhcC--ChHHHHHHHHhhhhhcccCCCcchhhHH-HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 048090          227 QSSLIEMYGKCG--LVTKALQVFNLAGHRLEGEINKDVVLWT-SMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTV  303 (447)
Q Consensus       227 ~~~l~~~~~~~g--~~~~A~~~~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  303 (447)
                      +..+..++...+  ++++|...++++...    .+++...+. .....+...+.+++|+..++.+.+.+. -+...|..+
T Consensus       110 ~~~~~~~~~~~~~~~~~~a~~~~~~al~~----~~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p-~~~~a~~~l  184 (334)
T d1dcea1         110 WHHRCWLLSRLPEPNWARELELCARFLEA----DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHYR  184 (334)
T ss_dssp             HHHHHHHHHTCSSCCHHHHHHHHHHHHHH----CTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTC-CCHHHHHHH
T ss_pred             HHHhhHHHHHhccccHHHHHHHHHHHHhh----CchhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCC-CCHHHHHHH
Confidence            777777776665  488999999977665    455666655 445677788999999999999988653 367888888


Q ss_pred             HHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcC
Q 048090          304 ISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCG  383 (447)
Q Consensus       304 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  383 (447)
                      ...+...|++++|...+......   .|+.   ..+...+...+..+++...+.......  |+....+..++..+...+
T Consensus       185 ~~~~~~~~~~~~A~~~~~~~~~~---~~~~---~~~~~~~~~l~~~~~a~~~~~~~l~~~--~~~~~~~~~l~~~~~~~~  256 (334)
T d1dcea1         185 SCLLPQLHPQPDSGPQGRLPENV---LLKE---LELVQNAFFTDPNDQSAWFYHRWLLGR--AEPLFRCELSVEKSTVLQ  256 (334)
T ss_dssp             HHHHHHHSCCCCSSSCCSSCHHH---HHHH---HHHHHHHHHHCSSCSHHHHHHHHHHSC--CCCSSSCCCCHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHhHHh---HHHH---HHHHHHHHHhcchhHHHHHHHHHHHhC--cchhhHHHHHHHHHHHHh
Confidence            88999999988887666655432   2221   223344566778888999998888776  777777888899999999


Q ss_pred             CccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCCccccc
Q 048090          384 KFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDVGCSWI  443 (447)
Q Consensus       384 ~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~  443 (447)
                      ++++|...+.+..+.+|.+..++..++.+|.+.|++++|.+.+++..+  +.|+...||-
T Consensus       257 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~--ldP~~~~y~~  314 (334)
T d1dcea1         257 SELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKA--VDPMRAAYLD  314 (334)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHH--HCGGGHHHHH
T ss_pred             hHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--HCcccHHHHH
Confidence            999999999999999999999999999999999999999999999987  6777666654

>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=99.29  E-value=9.6e-10  Score=94.09  Aligned_cols=194  Identities=12%  Similarity=0.118  Sum_probs=151.3

Q ss_pred             CcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcc-hhhHHHHHHHHHhcCCHH
Q 048090          201 SAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKD-VVLWTSMLGVYGRNGYFK  279 (447)
Q Consensus       201 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~  279 (447)
                      +..++|..++++.++.  ..+.+...+...+..+...|+++.|..+|+++...    .+.+ ...|...+....+.|+.+
T Consensus        78 ~~~~~a~~i~~ral~~--~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~----~~~~~~~~w~~~~~~~~~~~~~~  151 (308)
T d2onda1          78 LFSDEAANIYERAIST--LLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI----EDIDPTLVYIQYMKFARRAEGIK  151 (308)
T ss_dssp             HHHHHHHHHHHHHHTT--TTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS----SSSCTHHHHHHHHHHHHHHHCHH
T ss_pred             cchHHHHHHHHHHHHH--cCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHH----hcCChHHHHHHHHHHHHHcCChH
Confidence            3457888899988875  23445677888889999999999999999976553    2323 447889999999999999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHH-HHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHH
Q 048090          280 EVIKLYEAMLMNGTKPDEVAFVTVIS-ACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINE  358 (447)
Q Consensus       280 ~a~~~~~~m~~~~~~p~~~~~~~ll~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  358 (447)
                      .|.++|+++.+.+.. +...|..... -+...|+.+.|..+|+.+.+.  .+.+...|...++.+.+.|+++.|..+|++
T Consensus       152 ~ar~i~~~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~--~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~  228 (308)
T d2onda1         152 SGRMIFKKAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFER  228 (308)
T ss_dssp             HHHHHHHHHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh--hhhhHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            999999999886533 3334433333 234568999999999999876  345688899999999999999999999999


Q ss_pred             HHhCCC-CCC-chHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCch
Q 048090          359 MLDRGH-GSS-SVSMWGALLSACHDCGKFELGKLAAQKALELDPHNV  403 (447)
Q Consensus       359 ~~~~~~-~p~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  403 (447)
                      .+.... .|. ....|...+..-...|+.+.+..+++++.+..|...
T Consensus       229 ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~~~~~  275 (308)
T d2onda1         229 VLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFREEY  275 (308)
T ss_dssp             HHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTTTT
T ss_pred             HHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcccc
Confidence            988752 222 234688889988999999999999999998877643

>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=99.12  E-value=3.8e-10  Score=80.96  Aligned_cols=89  Identities=13%  Similarity=0.128  Sum_probs=46.6

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChH
Q 048090          341 DLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWD  420 (447)
Q Consensus       341 ~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  420 (447)
                      ..+.+.|++++|+..|+++++..  |.+..+|..++.++...|++++|...++++++.+|.++..|..++.++...|+++
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~~--p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKLD--PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcC--CcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCHH
Confidence            33445555555555555555444  5555555555555555555555555555555555555555555555555555555


Q ss_pred             HHHHHHHHHHH
Q 048090          421 EIGQLRELMKE  431 (447)
Q Consensus       421 ~A~~~~~~m~~  431 (447)
                      +|+..+++..+
T Consensus        89 ~A~~~~~~a~~   99 (117)
T d1elwa_          89 EAKRTYEEGLK   99 (117)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHH
Confidence            55555555543

>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=99.11  E-value=3.4e-10  Score=90.38  Aligned_cols=115  Identities=9%  Similarity=-0.084  Sum_probs=71.0

Q ss_pred             CCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHH
Q 048090          295 PDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGA  374 (447)
Q Consensus       295 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~  374 (447)
                      |+...+......+.+.|++++|+..|++++..  -+.+...|..+..+|.+.|++++|+..|+++++..  |++..+|..
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~--~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~--p~~~~a~~~   77 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELD--GQSVKAHFF   77 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC--TTCHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC--CCcHHHHHH
Confidence            55555566666666666777777776666644  12345666666666666677777777666666554  666666666


Q ss_pred             HHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHH
Q 048090          375 LLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLY  413 (447)
Q Consensus       375 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  413 (447)
                      ++.+|...|++++|...|+++++..|.+...+...+..+
T Consensus        78 lg~~~~~l~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~  116 (201)
T d2c2la1          78 LGQCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSA  116 (201)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            666666667777777666666666654443333333333

>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=99.10  E-value=1.7e-09  Score=77.40  Aligned_cols=107  Identities=14%  Similarity=0.092  Sum_probs=95.8

Q ss_pred             HHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhc
Q 048090          303 VISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDC  382 (447)
Q Consensus       303 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~  382 (447)
                      -...+...|++++|+..|+++++.  -+.+...|..+..+|.+.|++++|+..+.+.++.+  |++...|..++.++...
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~g~~~~~~   84 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK--PDWGKGYSRKAAALEFL   84 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhc--CCcchhhhhcccccccccccccccchhhhhHHHhc--cchhhHHHHHHHHHHHc
Confidence            455678899999999999999875  23458889999999999999999999999999887  99999999999999999


Q ss_pred             CCccHHHHHHHHHhhhCCCchhHHHHHHHHH
Q 048090          383 GKFELGKLAAQKALELDPHNVGIYVMLSNLY  413 (447)
Q Consensus       383 g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  413 (447)
                      |++++|...++++++.+|.++.++..+.++-
T Consensus        85 ~~~~~A~~~~~~a~~~~p~~~~~~~~l~~l~  115 (117)
T d1elwa_          85 NRFEEAKRTYEEGLKHEANNPQLKEGLQNME  115 (117)
T ss_dssp             TCHHHHHHHHHHHHTTCTTCHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhCCCCHHHHHHHHHHh
Confidence            9999999999999999999999888877654

>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=99.07  E-value=5.6e-10  Score=79.30  Aligned_cols=93  Identities=13%  Similarity=0.008  Sum_probs=86.8

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHh
Q 048090          336 YSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAK  415 (447)
Q Consensus       336 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  415 (447)
                      +-.+...+.+.|++++|...+++.+..+  |++..+|..++.++...|++++|...++++++.+|.+..++..++.+|..
T Consensus        19 ~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~   96 (112)
T d1hxia_          19 PMEEGLSMLKLANLAEAALAFEAVCQKE--PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTN   96 (112)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHhhhcccc--cccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHH
Confidence            3445677889999999999999999987  99999999999999999999999999999999999999999999999999


Q ss_pred             cCChHHHHHHHHHHH
Q 048090          416 FCMWDEIGQLRELMK  430 (447)
Q Consensus       416 ~g~~~~A~~~~~~m~  430 (447)
                      .|++++|.+.+++..
T Consensus        97 ~g~~~~A~~~l~~~l  111 (112)
T d1hxia_          97 EHNANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHh
Confidence            999999999998864

>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=99.06  E-value=2.4e-09  Score=84.25  Aligned_cols=126  Identities=10%  Similarity=0.047  Sum_probs=66.8

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcC
Q 048090          269 LGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAG  347 (447)
Q Consensus       269 ~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g  347 (447)
                      ...+...|+++.|++.|+++    ..|+..++..+..++...|++++|+..|++.++.   .| +...|..+..+|.+.|
T Consensus        12 g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~l---dp~~~~a~~~~g~~~~~~g   84 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINR---DKHLAVAYFQRGMLYYQTE   84 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHH---hhhhhhhHHHHHHHHHhhc
Confidence            33445556666666655543    2344555555566666666666666666666543   33 2555555566666666


Q ss_pred             CHHHHHHHHHHHHhCCCCCC--------------chHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCC
Q 048090          348 ELDKAWKLINEMLDRGHGSS--------------SVSMWGALLSACHDCGKFELGKLAAQKALELDPH  401 (447)
Q Consensus       348 ~~~~A~~~~~~~~~~~~~p~--------------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  401 (447)
                      ++++|...|++.+......+              ...++..++.++.+.|++++|.+.++++++..|.
T Consensus        85 ~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~  152 (192)
T d1hh8a_          85 KYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSE  152 (192)
T ss_dssp             CHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCS
T ss_pred             cHHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence            66666666665554321000              0122444555555566666666665555555554

>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=99.04  E-value=4.4e-09  Score=80.10  Aligned_cols=120  Identities=9%  Similarity=0.029  Sum_probs=101.9

Q ss_pred             HHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHh
Q 048090          302 TVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHD  381 (447)
Q Consensus       302 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~  381 (447)
                      .....|.+.|++++|+..|+++.+..  +-+...|..+..+|...|++++|...|+++++.+  |.+..+|..++.++..
T Consensus        15 ~~gn~~~~~~~y~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~--p~~~~a~~~~g~~~~~   90 (159)
T d1a17a_          15 TQANDYFKAKDYENAIKFYSQAIELN--PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD--KKYIKGYYRRAASNMA   90 (159)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHhhhccccc--hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc--ccchHHHHHHHHHHHH
Confidence            34556789999999999999998751  3358889999999999999999999999999987  9999999999999999


Q ss_pred             cCCccHHHHHHHHHhhhCCCchhHHHHHHHHH--HhcCChHHHHHH
Q 048090          382 CGKFELGKLAAQKALELDPHNVGIYVMLSNLY--AKFCMWDEIGQL  425 (447)
Q Consensus       382 ~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~--~~~g~~~~A~~~  425 (447)
                      .|++++|...++++++..|.+..++..+..+.  ...+.+++|...
T Consensus        91 ~g~~~eA~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          91 LGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             TTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            99999999999999999999999888876654  344456666544

>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=99.00  E-value=3.1e-09  Score=80.93  Aligned_cols=93  Identities=14%  Similarity=0.100  Sum_probs=87.9

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcC
Q 048090          338 CLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFC  417 (447)
Q Consensus       338 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  417 (447)
                      .....|.+.|++++|+..|+++++.+  |++..+|..++.+|...|++++|...|+++++.+|.+..+|..++.+|...|
T Consensus        15 ~~gn~~~~~~~y~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g   92 (159)
T d1a17a_          15 TQANDYFKAKDYENAIKFYSQAIELN--PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALG   92 (159)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHhhhccccc--hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcC
Confidence            34567889999999999999999987  9999999999999999999999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHHHHHc
Q 048090          418 MWDEIGQLRELMKEK  432 (447)
Q Consensus       418 ~~~~A~~~~~~m~~~  432 (447)
                      ++++|...+++....
T Consensus        93 ~~~eA~~~~~~a~~~  107 (159)
T d1a17a_          93 KFRAALRDYETVVKV  107 (159)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHc
Confidence            999999999999874

>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=98.97  E-value=1.6e-09  Score=86.29  Aligned_cols=99  Identities=8%  Similarity=-0.050  Sum_probs=68.0

Q ss_pred             cchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC-hhhHHH
Q 048090          260 KDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG-PEHYSC  338 (447)
Q Consensus       260 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~  338 (447)
                      |+...+......|.+.|++++|+..|++.++.. +-+...|..+..+|.+.|+++.|+..|++++   .+.|+ ...|..
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al---~l~p~~~~a~~~   77 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRAL---ELDGQSVKAHFF   77 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHT---TSCTTCHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHH---HhCCCcHHHHHH
Confidence            555566666777777777777777777776653 2356667777777777777777777777776   34554 666777


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhC
Q 048090          339 LVDLLCRAGELDKAWKLINEMLDR  362 (447)
Q Consensus       339 l~~~~~~~g~~~~A~~~~~~~~~~  362 (447)
                      +..+|...|++++|+..|++++..
T Consensus        78 lg~~~~~l~~~~~A~~~~~~al~l  101 (201)
T d2c2la1          78 LGQCQLEMESYDEAIANLQRAYSL  101 (201)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHh
Confidence            777777777777777777776654

>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=98.97  E-value=2.4e-08  Score=84.31  Aligned_cols=200  Identities=11%  Similarity=0.003  Sum_probs=133.1

Q ss_pred             HHHHHHhcCChHHHHHHHHhhhhhcccCCC-c-chhhHHHHHHHHHhcCCHHHHHHHHHHHHhC----CC-CCCHHHHHH
Q 048090          230 LIEMYGKCGLVTKALQVFNLAGHRLEGEIN-K-DVVLWTSMLGVYGRNGYFKEVIKLYEAMLMN----GT-KPDEVAFVT  302 (447)
Q Consensus       230 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~----~~-~p~~~~~~~  302 (447)
                      ....|...|++++|.+.|.++......... + ...+|..+..+|.+.|++++|...+++..+.    |. .....++..
T Consensus        43 aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~  122 (290)
T d1qqea_          43 AATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFE  122 (290)
T ss_dssp             HHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHH
Confidence            345677888899998888876554322211 1 2456888888999999999999988876542    11 112345556


Q ss_pred             HHHHHh-ccCcHHHHHHHHHHHHHhc---CCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCc-----hHhH
Q 048090          303 VISACS-HTGQVKLGIEYFEWMVHDY---KLEPG-PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSS-----VSMW  372 (447)
Q Consensus       303 ll~~~~-~~~~~~~a~~~~~~~~~~~---~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~-----~~~~  372 (447)
                      +...|. ..|++++|...+++..+-.   +..+. ..++..+...+...|++++|...++++.......+.     ...+
T Consensus       123 l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~  202 (290)
T d1qqea_         123 LGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYF  202 (290)
T ss_dssp             HHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHH
T ss_pred             HHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHH
Confidence            666664 4699999999998875421   11121 455778888999999999999999998776421111     1234


Q ss_pred             HHHHHHHHhcCCccHHHHHHHHHhhhCCCc-----hhHHHHHHHHHHh--cCChHHHHHHHHHH
Q 048090          373 GALLSACHDCGKFELGKLAAQKALELDPHN-----VGIYVMLSNLYAK--FCMWDEIGQLRELM  429 (447)
Q Consensus       373 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-----~~~~~~l~~~~~~--~g~~~~A~~~~~~m  429 (447)
                      ...+..+...|+++.|...++++.+.+|..     ......++.++..  .+.+++|+..|+++
T Consensus       203 ~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~  266 (290)
T d1qqea_         203 LKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNF  266 (290)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTS
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            566667788899999999999999887652     2345666666654  34577777766544

>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=98.94  E-value=2.4e-08  Score=76.61  Aligned_cols=136  Identities=16%  Similarity=0.057  Sum_probs=100.6

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHH
Q 048090          263 VLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDL  342 (447)
Q Consensus       263 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  342 (447)
                      ..+......+.+.|++++|+..|++.++..  |...            +..+.-......+.        ..+|+.+..+
T Consensus        14 ~~l~~~G~~~~~~~~~~~Ai~~y~~al~~~--~~~~------------~~~~~~~~~~~~~~--------~~~~~nla~~   71 (170)
T d1p5qa1          14 TIVKERGTVYFKEGKYKQALLQYKKIVSWL--EYES------------SFSNEEAQKAQALR--------LASHLNLAMC   71 (170)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHT--TTCC------------CCCSHHHHHHHHHH--------HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHh--hhcc------------ccchHHHhhhchhH--------HHHHHHHHHH
Confidence            345555667777888888888887776531  1100            00000111111111        2356778889


Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHH
Q 048090          343 LCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEI  422 (447)
Q Consensus       343 ~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  422 (447)
                      |.+.|++++|+..+++.+..+  |+++.++..++.++...|++++|...|+++++++|+++.+...+..+..+.+...+.
T Consensus        72 y~k~~~~~~A~~~~~~al~~~--p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~~~~~~~  149 (170)
T d1p5qa1          72 HLKLQAFSAAIESCNKALELD--SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAR  149 (170)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhhhhcccccchhhhhhhcc--ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999987  999999999999999999999999999999999999999999988887666555543

>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=98.85  E-value=8.4e-09  Score=73.92  Aligned_cols=108  Identities=13%  Similarity=0.011  Sum_probs=78.9

Q ss_pred             HHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCC---HHHHHHHHHHHHhCCCCCCchHhHHHHHH
Q 048090          301 VTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGE---LDKAWKLINEMLDRGHGSSSVSMWGALLS  377 (447)
Q Consensus       301 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~p~~~~~~~~l~~  377 (447)
                      ..++..+...+++++|.+.|++....  -+.+..++..+..++.+.++   +++|+.++++++..+..|....++..++.
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~--~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAA--GSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHH
Confidence            45677777888888888888888765  13457777788887776544   45688888888776522222346778888


Q ss_pred             HHHhcCCccHHHHHHHHHhhhCCCchhHHHHHH
Q 048090          378 ACHDCGKFELGKLAAQKALELDPHNVGIYVMLS  410 (447)
Q Consensus       378 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~  410 (447)
                      +|.+.|++++|...|+++++.+|.+..+.....
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            888888888888888888888888877665554

>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=98.83  E-value=1.3e-08  Score=72.81  Aligned_cols=97  Identities=11%  Similarity=-0.015  Sum_probs=69.5

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCC---ccHHHHHHHHHhhhCCCc--hhHHHHHHH
Q 048090          337 SCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGK---FELGKLAAQKALELDPHN--VGIYVMLSN  411 (447)
Q Consensus       337 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~~--~~~~~~l~~  411 (447)
                      ..++..+...+++++|.+.|++.+..+  |+++.++..++.++.+.++   +++|..+++++++.+|.+  ..++..++.
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~--p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG--SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS--CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC--CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHH
Confidence            346666777777888888888877776  7777777777777776443   445777777777776543  346777777


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCC
Q 048090          412 LYAKFCMWDEIGQLRELMKEKGLKKD  437 (447)
Q Consensus       412 ~~~~~g~~~~A~~~~~~m~~~~~~p~  437 (447)
                      +|.+.|++++|++.|+++.+  +.|+
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~--~~P~  104 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQ--TEPQ  104 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH--HCTT
T ss_pred             HHHHHhhhHHHHHHHHHHHH--hCcC
Confidence            88888888888888887776  4454

>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=98.79  E-value=3e-07  Score=77.43  Aligned_cols=206  Identities=8%  Similarity=-0.030  Sum_probs=118.3

Q ss_pred             HHHHhcCCcHHHHHHHHHHHHHhhhcCC---CChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCc--chhhHHHH
Q 048090          194 LRACAGLSAAEFGRQVHAYMIRKCCNLG---NDVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINK--DVVLWTSM  268 (447)
Q Consensus       194 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~--~~~~~~~l  268 (447)
                      ...|...+++++|.+.|.++........   ....+|..+..+|.+.|++++|.+.+++..........+  ...++..+
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            3445566666666666666655321111   113456667777777777777777777654442221111  13345555


Q ss_pred             HHHHH-hcCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCCh-----hhHH
Q 048090          269 LGVYG-RNGYFKEVIKLYEAMLMN----GTKP-DEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGP-----EHYS  337 (447)
Q Consensus       269 ~~~~~-~~g~~~~a~~~~~~m~~~----~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-----~~~~  337 (447)
                      ...|. ..|++++|+..+++..+.    +..+ -..++..+...+...|++++|...|+++.......+..     ..+.
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            55554 358888888888776542    1111 13456777888888888888888888877642111111     1234


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhCCCCCCc---hHhHHHHHHHHHh--cCCccHHHHHHHHHhhhC
Q 048090          338 CLVDLLCRAGELDKAWKLINEMLDRGHGSSS---VSMWGALLSACHD--CGKFELGKLAAQKALELD  399 (447)
Q Consensus       338 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~---~~~~~~l~~~~~~--~g~~~~a~~~~~~~~~~~  399 (447)
                      ..+.++...|+++.|...+++..+.....++   ......++.++..  .+.+++|...|+++.+++
T Consensus       204 ~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~~lD  270 (290)
T d1qqea_         204 KKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLD  270 (290)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCC
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcC
Confidence            4555667788899999988888776521111   2234555556544  234566666666555544

>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=98.79  E-value=1.3e-07  Score=72.27  Aligned_cols=146  Identities=16%  Similarity=0.032  Sum_probs=104.0

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 048090          262 VVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVD  341 (447)
Q Consensus       262 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  341 (447)
                      ...+......+.+.|++++|...|++....  .|.            ..+...........+        ...+|..+..
T Consensus        15 a~~~~e~G~~~~~~~~~~~A~~~Y~~al~~--~~~------------~~~~~~~~~~~~~~~--------~~~~~~Nla~   72 (168)
T d1kt1a1          15 AAIVKEKGTVYFKGGKYVQAVIQYGKIVSW--LEM------------EYGLSEKESKASESF--------LLAAFLNLAM   72 (168)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HTT------------CCSCCHHHHHHHHHH--------HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--HHH------------hhccchhhhhhcchh--------HHHHHHhHHH
Confidence            344555666777777777777777765432  000            000000000111111        1235667888


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHH
Q 048090          342 LLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDE  421 (447)
Q Consensus       342 ~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  421 (447)
                      +|.+.|++++|+..+++.+..+  |.+..+|..++.++...|++++|...|+++++++|++..+...+..+....+...+
T Consensus        73 ~~~~l~~~~~Ai~~~~~al~l~--p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~~~~~e  150 (168)
T d1kt1a1          73 CYLKLREYTKAVECCDKALGLD--SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFMCQKKAKEHNE  150 (168)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhcccchhhhhhhhhcc--cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHhHHH
Confidence            8999999999999999999987  99999999999999999999999999999999999999999988888776665543


Q ss_pred             -HHHHHHHHHH
Q 048090          422 -IGQLRELMKE  431 (447)
Q Consensus       422 -A~~~~~~m~~  431 (447)
                       ..+++..|.+
T Consensus       151 ~~kk~~~~~f~  161 (168)
T d1kt1a1         151 RDRRTYANMFK  161 (168)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence             4555655543

>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=98.77  E-value=2.3e-08  Score=72.65  Aligned_cols=94  Identities=14%  Similarity=0.157  Sum_probs=70.7

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchh-------HHHHH
Q 048090          337 SCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVG-------IYVML  409 (447)
Q Consensus       337 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-------~~~~l  409 (447)
                      ..+...+.+.|++++|+..|.+.++.+  |++..++..++.+|.+.|++++|...++++++.+|.+..       +|..+
T Consensus         8 k~~G~~~~~~~~y~~Ai~~y~~al~~~--p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~l   85 (128)
T d1elra_           8 KELGNDAYKKKDFDTALKHYDKAKELD--PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (128)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC--cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHH
Confidence            445667778888888888888888776  777888888888888888888888888888877765443       45556


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHc
Q 048090          410 SNLYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       410 ~~~~~~~g~~~~A~~~~~~m~~~  432 (447)
                      +..+...+++++|++.|++....
T Consensus        86 g~~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          86 GNSYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhc
Confidence            66677777888888888776653

>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=98.76  E-value=8.7e-08  Score=71.99  Aligned_cols=130  Identities=15%  Similarity=-0.005  Sum_probs=95.8

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 048090          262 VVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVD  341 (447)
Q Consensus       262 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  341 (447)
                      ...+......+.+.|++.+|+..|.+....-  |...           .............        ....+|..+..
T Consensus        17 a~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~--~~~~-----------~~~~~~~~~~~~~--------~~~~~~~Nla~   75 (153)
T d2fbna1          17 AFDIKEEGNEFFKKNEINEAIVKYKEALDFF--IHTE-----------EWDDQILLDKKKN--------IEISCNLNLAT   75 (153)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT--TTCT-----------TCCCHHHHHHHHH--------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--cchh-----------hhhhHHHHHhhhh--------HHHHHHhhHHH
Confidence            3445566777888888888888888877531  1100           0000000000000        12346778889


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHH
Q 048090          342 LLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYA  414 (447)
Q Consensus       342 ~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  414 (447)
                      +|.+.|++++|++.++++++.+  |.+..+|..++.++...|++++|...|+++++++|.|..+...+..+..
T Consensus        76 ~~~~l~~~~~Al~~~~~al~~~--p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~  146 (153)
T d2fbna1          76 CYNKNKDYPKAIDHASKVLKID--KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVN  146 (153)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHhcccchhhhhhhcccccc--chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            9999999999999999999887  9999999999999999999999999999999999999988877765543

>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=98.74  E-value=9.4e-06  Score=66.91  Aligned_cols=113  Identities=18%  Similarity=0.046  Sum_probs=59.0

Q ss_pred             cHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHH----cCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHh----cC
Q 048090          312 QVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCR----AGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHD----CG  383 (447)
Q Consensus       312 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g  383 (447)
                      ....+...+.....    ..+...+..|...|..    ..+...+..+++...+.|    +..+...++..+..    ..
T Consensus       125 ~~~~a~~~~~~~~~----~~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g----~~~A~~~lg~~y~~g~~~~~  196 (265)
T d1ouva_         125 DFKKAVEYFTKACD----LNDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK----DSPGCFNAGNMYHHGEGATK  196 (265)
T ss_dssp             CHHHHHHHHHHHHH----TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT----CHHHHHHHHHHHHHTCSSCC
T ss_pred             hhHHHHHHhhhhhc----ccccchhhhhhhhhccCCCcccccccchhhhhcccccc----ccccccchhhhcccCccccc
Confidence            34444444444332    2334444455555543    334555555555555543    34445555555544    34


Q ss_pred             CccHHHHHHHHHhhhCCCchhHHHHHHHHHHh----cCChHHHHHHHHHHHHcCC
Q 048090          384 KFELGKLAAQKALELDPHNVGIYVMLSNLYAK----FCMWDEIGQLRELMKEKGL  434 (447)
Q Consensus       384 ~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~~~~  434 (447)
                      +++.|...|+++.+.+  ++..+..|+..|.+    ..+.++|.+.|++..+.|.
T Consensus       197 d~~~A~~~~~~aa~~g--~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~  249 (265)
T d1ouva_         197 NFKEALARYSKACELE--NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGA  249 (265)
T ss_dssp             CHHHHHHHHHHHHHTT--CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             chhhhhhhHhhhhccc--CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcC
Confidence            5666666666666554  34455566665554    2356666666666665554

>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=98.73  E-value=1.1e-07  Score=72.94  Aligned_cols=133  Identities=14%  Similarity=0.091  Sum_probs=97.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHH
Q 048090          265 WTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLL  343 (447)
Q Consensus       265 ~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~  343 (447)
                      +......+.+.|++++|+..|.+..+.  .+..          ........       ..   .+.| ....|..+..++
T Consensus        30 ~~~~~~~~~~~~~y~~Ai~~y~~al~~--~~~~----------~~~~~~~~-------~~---~~~~~~~~~~~nla~~~   87 (169)
T d1ihga1          30 LKNIGNTFFKSQNWEMAIKKYTKVLRY--VEGS----------RAAAEDAD-------GA---KLQPVALSCVLNIGACK   87 (169)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--HHHH----------HHHSCHHH-------HG---GGHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh--hhhh----------hhhhhhHH-------HH---HhChhhHHHHHHHHHHH
Confidence            445566677788888888888776541  0000          00000000       00   1122 355677888999


Q ss_pred             HHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHH
Q 048090          344 CRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDE  421 (447)
Q Consensus       344 ~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  421 (447)
                      .+.|++++|+..++++++..  |++..+|..++.++...|++++|...|+++++.+|++..+...+..+..+.....+
T Consensus        88 ~~~~~~~~Ai~~~~~al~~~--p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l~~~~~~l~~~~~  163 (169)
T d1ihga1          88 LKMSDWQGAVDSCLEALEID--PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKIKAQKD  163 (169)
T ss_dssp             HHTTCHHHHHHHHHHHHTTC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             Hhhcccchhhhhhhhhhhhh--hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999877  99999999999999999999999999999999999999998888877655444433

>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=98.71  E-value=6.6e-07  Score=69.86  Aligned_cols=128  Identities=11%  Similarity=0.030  Sum_probs=73.9

Q ss_pred             HHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCC
Q 048090          160 SGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGL  239 (447)
Q Consensus       160 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  239 (447)
                      ..+...|++++|++.|.++.    +|+..++..+..++...|++++|.+.|++.++.+   +.+...|..+..+|.+.|+
T Consensus        13 ~~~~~~~d~~~Al~~~~~i~----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld---p~~~~a~~~~g~~~~~~g~   85 (192)
T d1hh8a_          13 VLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD---KHLAVAYFQRGMLYYQTEK   85 (192)
T ss_dssp             HHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHCCCHHHHHHHHHhcC----CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh---hhhhhhHHHHHHHHHhhcc
Confidence            33455566666666665532    3455555566666666666666666666666652   2345566666666666666


Q ss_pred             hHHHHHHHHhhhhhcccC---------C--Cc-chhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 048090          240 VTKALQVFNLAGHRLEGE---------I--NK-DVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTK  294 (447)
Q Consensus       240 ~~~A~~~~~~~~~~~~~~---------~--~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  294 (447)
                      +++|...|++........         .  .. ...++..+..++.+.|++++|.+.+.........
T Consensus        86 ~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~  152 (192)
T d1hh8a_          86 YDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSE  152 (192)
T ss_dssp             HHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCS
T ss_pred             HHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence            666666666443221100         0  00 1234556677788888888888888887765433

>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=98.61  E-value=3.9e-07  Score=69.69  Aligned_cols=65  Identities=15%  Similarity=-0.006  Sum_probs=60.5

Q ss_pred             hHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 048090          371 MWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKD  437 (447)
Q Consensus       371 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~  437 (447)
                      +|..+..+|.+.|++++|...++++++.+|.++.++..++.+|...|++++|+..|++..+  +.|+
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~--l~P~  128 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQ--LYPN  128 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCSS
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHH--hCCC
Confidence            4778999999999999999999999999999999999999999999999999999999987  4454

>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=98.60  E-value=2.6e-07  Score=65.10  Aligned_cols=90  Identities=12%  Similarity=0.003  Sum_probs=70.7

Q ss_pred             HHHHHHhccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHH
Q 048090          302 TVISACSHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACH  380 (447)
Q Consensus       302 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~  380 (447)
                      .+...+.+.|++++|...|+++.+.   .| +...|..+..++.+.|++++|+..+++.++.+  |++..+|..++.+|.
T Consensus        21 ~~g~~~~~~g~~~~A~~~~~~al~~---~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~a~~~la~~y~   95 (112)
T d1hxia_          21 EEGLSMLKLANLAEAALAFEAVCQK---EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD--PKDIAVHAALAVSHT   95 (112)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhccc---ccccchhhhhhhhhhhhhhhHHHhhcccccccccc--cccccchHHHHHHHH
Confidence            3445667778888888888888765   44 47778888888888888888888888888776  888888888888888


Q ss_pred             hcCCccHHHHHHHHHh
Q 048090          381 DCGKFELGKLAAQKAL  396 (447)
Q Consensus       381 ~~g~~~~a~~~~~~~~  396 (447)
                      ..|++++|.+.+++.+
T Consensus        96 ~~g~~~~A~~~l~~~l  111 (112)
T d1hxia_          96 NEHNANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHh
Confidence            8888888888887754

>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=98.53  E-value=4.5e-07  Score=67.10  Aligned_cols=115  Identities=16%  Similarity=0.077  Sum_probs=85.1

Q ss_pred             hccCcHHHHHHHHHHHHHhcCCCC-ChhhHHHHHHHHHH----------cCCHHHHHHHHHHHHhCCCCCCchHhHHHHH
Q 048090          308 SHTGQVKLGIEYFEWMVHDYKLEP-GPEHYSCLVDLLCR----------AGELDKAWKLINEMLDRGHGSSSVSMWGALL  376 (447)
Q Consensus       308 ~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~----------~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~  376 (447)
                      -+.+.+++|...|+...+.   .| +...+..+..++..          .+.+++|+..|+++++.+  |++..+|..++
T Consensus         8 ~r~~~fe~A~~~~e~al~~---~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~--P~~~~a~~~lG   82 (145)
T d1zu2a1           8 DRILLFEQIRQDAENTYKS---NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID--PKKDEAVWCIG   82 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHH
T ss_pred             HHHccHHHHHHHHHHHHhh---CCcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc--chhhHHHhhHH
Confidence            3445567777777777654   34 35566666655553          345678999999998877  99999999999


Q ss_pred             HHHHhcCC-----------ccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 048090          377 SACHDCGK-----------FELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGL  434 (447)
Q Consensus       377 ~~~~~~g~-----------~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  434 (447)
                      .+|...|+           +++|.+.|+++++.+|.+...+..|...       .+|.+++.+..+.|+
T Consensus        83 ~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l~P~~~~~~~~L~~~-------~ka~~~~~e~~k~~~  144 (145)
T d1zu2a1          83 NAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPDNTHYLKSLEMT-------AKAPQLHAEAYKQGL  144 (145)
T ss_dssp             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHH-------HTHHHHHHHHHHSSS
T ss_pred             HHHHHcccchhhHHHHHHhHHHhhhhhhcccccCCCHHHHHHHHHHH-------HHHHHHHHHHHHHhc
Confidence            99887654           6889999999999999998877777654       466777777777664

>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=98.53  E-value=9.7e-07  Score=66.04  Aligned_cols=67  Identities=18%  Similarity=0.086  Sum_probs=61.7

Q ss_pred             HhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCC
Q 048090          370 SMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDV  438 (447)
Q Consensus       370 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~  438 (447)
                      .+|..++.+|.+.|++++|...++++++.+|.+..+|..++.+|...|++++|+..|++..+  +.|+-
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~--l~P~n  134 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAAS--LNPNN  134 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HSTTC
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHH--hCCCC
Confidence            45788999999999999999999999999999999999999999999999999999999987  44553

>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=98.52  E-value=8.6e-07  Score=68.04  Aligned_cols=73  Identities=14%  Similarity=0.001  Sum_probs=65.8

Q ss_pred             chHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHH-----cCCCCCCcc
Q 048090          368 SVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKE-----KGLKKDVGC  440 (447)
Q Consensus       368 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~-----~~~~p~~~~  440 (447)
                      ...++..++.++...|++++|...++++++.+|.+...|..++.+|.+.|++++|++.|+++.+     .|+.|.+.+
T Consensus        66 ~~~a~~~la~~~~~~g~~~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          66 KVLAHTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHHHHCCCchHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            3456888999999999999999999999999999999999999999999999999999999844     689988654

>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=98.49  E-value=4.4e-07  Score=69.37  Aligned_cols=70  Identities=13%  Similarity=0.074  Sum_probs=64.3

Q ss_pred             CCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 048090          366 SSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKD  437 (447)
Q Consensus       366 p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~  437 (447)
                      |.....|..++.++.+.|++++|+..++++++.+|.++.+|..++.+|.+.|++++|++.|++..+  +.|+
T Consensus        74 ~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~--l~p~  143 (169)
T d1ihga1          74 PVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQE--IAPE  143 (169)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTT
T ss_pred             hhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHH--hCCC
Confidence            556667888999999999999999999999999999999999999999999999999999999987  3444

>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=98.47  E-value=0.00021  Score=58.46  Aligned_cols=227  Identities=11%  Similarity=-0.042  Sum_probs=148.5

Q ss_pred             chhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhc----CCcHHHHHHHHHHHHHhhhcCCCChhH
Q 048090          151 NSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAG----LSAAEFGRQVHAYMIRKCCNLGNDVFM  226 (447)
Q Consensus       151 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  226 (447)
                      |+..+..|...+.+.+++++|++.|++..+.|   +...+..|...+..    ..+...+...+......  +   +...
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~--~---~~~a   72 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDL--N---YSNG   72 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT--T---CHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccc--c---ccch
Confidence            34556667777778888888888888887765   44445555555544    56778888888877665  2   3344


Q ss_pred             HHHHHHHHHh----cCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHH----hcCCHHHHHHHHHHHHhCCCCCCHH
Q 048090          227 QSSLIEMYGK----CGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYG----RNGYFKEVIKLYEAMLMNGTKPDEV  298 (447)
Q Consensus       227 ~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~g~~~~a~~~~~~m~~~~~~p~~~  298 (447)
                      ...+...+..    ..+.+.|...++.....   +   .......+...+.    .......+...+......   .+..
T Consensus        73 ~~~l~~~~~~~~~~~~~~~~a~~~~~~a~~~---g---~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~  143 (265)
T d1ouva_          73 CHLLGNLYYSGQGVSQNTNKALQYYSKACDL---K---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGD  143 (265)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT---T---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHH
T ss_pred             hhccccccccccccchhhHHHHHHHhhhhhh---h---hhhHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccc
Confidence            4445444433    45677788887754332   1   1222222333332    244566777777776653   3455


Q ss_pred             HHHHHHHHHhc----cCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHH----cCCHHHHHHHHHHHHhCCCCCCchH
Q 048090          299 AFVTVISACSH----TGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCR----AGELDKAWKLINEMLDRGHGSSSVS  370 (447)
Q Consensus       299 ~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~p~~~~  370 (447)
                      .+..+...+..    ..+...+..+++...+.    .+......+...|..    ..++++|..+|++..+.|    ++.
T Consensus       144 ~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~----g~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g----~~~  215 (265)
T d1ouva_         144 GCTILGSLYDAGRGTPKDLKKALASYDKACDL----KDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE----NGG  215 (265)
T ss_dssp             HHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT----CHH
T ss_pred             hhhhhhhhhccCCCcccccccchhhhhccccc----cccccccchhhhcccCcccccchhhhhhhHhhhhccc----CHH
Confidence            66666666654    45677777887777543    355566666666665    568999999999999887    455


Q ss_pred             hHHHHHHHHHh----cCCccHHHHHHHHHhhhCCCc
Q 048090          371 MWGALLSACHD----CGKFELGKLAAQKALELDPHN  402 (447)
Q Consensus       371 ~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~  402 (447)
                      ++..|+..|..    ..+.++|...|+++.+.+..+
T Consensus       216 a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~~~  251 (265)
T d1ouva_         216 GCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAKG  251 (265)
T ss_dssp             HHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcCHH
Confidence            67888888875    447899999999998887543

>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=98.45  E-value=1.9e-07  Score=84.99  Aligned_cols=228  Identities=8%  Similarity=-0.055  Sum_probs=117.5

Q ss_pred             HHHHHHHhhhhcCCCCc-HhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHHHHHHH
Q 048090          170 GGLELVRLMPALGLDYD-HFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKALQVFN  248 (447)
Q Consensus       170 ~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  248 (447)
                      +|.+.|++..+.  .|+ ...+..+..++...+++++|   +++++..++.   ....++... .+.+ ..+..+.+.++
T Consensus         4 eA~q~~~qA~~l--~p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~dp~---~a~~~~~e~-~Lw~-~~y~~~ie~~r   73 (497)
T d1ya0a1           4 QSAQYLRQAEVL--KADMTDSKLGPAEVWTSRQALQDL---YQKMLVTDLE---YALDKKVEQ-DLWN-HAFKNQITTLQ   73 (497)
T ss_dssp             HHHHHHHHHHHH--HGGGTCSSSCSSSSHHHHHHHHHH---HHHHHHHCHH---HHHHHTHHH-HHHH-HHTHHHHHHHH
T ss_pred             HHHHHHHHHHHc--CCCCHHHHhhHHHHHHHHchHHHH---HHHHHHcChh---hHHHHhHHH-HHHH-HHHHHHHHHHH
Confidence            577777777664  444 33455555666666666654   6666655211   011111111 1111 11344555555


Q ss_pred             hhhhhcccCCCcchhhHHHHHHH--HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHh
Q 048090          249 LAGHRLEGEINKDVVLWTSMLGV--YGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHD  326 (447)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  326 (447)
                      .....   ...++..-.......  ....+.++.++..+....... .++...+..+...+.+.|+.+.|...+......
T Consensus        74 ~~~k~---~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~  149 (497)
T d1ya0a1          74 GQAKN---RANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSY  149 (497)
T ss_dssp             HHHSC---SSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC--------------------------------CCHHHHH
T ss_pred             Hhccc---ccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCC
Confidence            33221   122222222211111  122344455554444433321 224455666777777888888888777766532


Q ss_pred             cCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHH
Q 048090          327 YKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIY  406 (447)
Q Consensus       327 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  406 (447)
                         .| ..++..+...+...|++++|...|++..+..  |++..+|+.|+..+...|+..+|...|.+++...|+.+.++
T Consensus       150 ---~~-~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~--P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~~~~~a~  223 (497)
T d1ya0a1         150 ---IC-QHCLVHLGDIARYRNQTSQAESYYRHAAQLV--PSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKFPFPAAS  223 (497)
T ss_dssp             ---HH-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSBCCHHHH
T ss_pred             ---CH-HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC--CCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCHHHH
Confidence               12 3567778888888888999999888888876  88888888898888888998889999998888888888888


Q ss_pred             HHHHHHHHhcC
Q 048090          407 VMLSNLYAKFC  417 (447)
Q Consensus       407 ~~l~~~~~~~g  417 (447)
                      ..|...+.+..
T Consensus       224 ~nL~~~~~~~~  234 (497)
T d1ya0a1         224 TNLQKALSKAL  234 (497)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHhh
Confidence            88887776543

>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=98.42  E-value=1.5e-07  Score=69.82  Aligned_cols=95  Identities=12%  Similarity=0.062  Sum_probs=80.5

Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhc----------CCccHHHHHHHHHhhhCCCchhHHHHHHHH
Q 048090          343 LCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDC----------GKFELGKLAAQKALELDPHNVGIYVMLSNL  412 (447)
Q Consensus       343 ~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~----------g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  412 (447)
                      |-+.+.+++|...++..++..  |+++.++..++.++...          +.+++|...++++++++|.+..+|..++.+
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~--P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~~~~a~~~lG~~   84 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSN--PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNA   84 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhC--CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcchhhHHHhhHHHH
Confidence            456778999999999999988  99999999999998754          445789999999999999999999999999


Q ss_pred             HHhcCC-----------hHHHHHHHHHHHHcCCCCCCccc
Q 048090          413 YAKFCM-----------WDEIGQLRELMKEKGLKKDVGCS  441 (447)
Q Consensus       413 ~~~~g~-----------~~~A~~~~~~m~~~~~~p~~~~~  441 (447)
                      |...|+           +++|.+.|++..+  +.|+-..+
T Consensus        85 y~~~g~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~~~~  122 (145)
T d1zu2a1          85 YTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHY  122 (145)
T ss_dssp             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHH
T ss_pred             HHHcccchhhHHHHHHhHHHhhhhhhcccc--cCCCHHHH
Confidence            987654           6888888988886  56665444

>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=98.41  E-value=8.6e-07  Score=67.58  Aligned_cols=67  Identities=13%  Similarity=0.012  Sum_probs=61.5

Q ss_pred             HhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCC
Q 048090          370 SMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDV  438 (447)
Q Consensus       370 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~  438 (447)
                      .+|..+..+|.+.|++++|...++++++++|.+..+|..++.+|...|++++|+..|+++.+  +.|+-
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~--l~P~n  131 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLE--VNPQN  131 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--SCTTC
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCC
Confidence            34777899999999999999999999999999999999999999999999999999999986  55654

>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=98.38  E-value=2.7e-07  Score=83.99  Aligned_cols=225  Identities=8%  Similarity=-0.073  Sum_probs=126.4

Q ss_pred             hHHHHhccCC--CC-chhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHh-hHHHHHHHHhcCCcHHHHHHHHHHHH
Q 048090          139 DAELMFDEIP--VK-NSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHF-TLSALLRACAGLSAAEFGRQVHAYMI  214 (447)
Q Consensus       139 ~a~~~~~~~~--~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~  214 (447)
                      +|.+.|++..  +| ...++..+..++...+++++|   |+++...  .|+.. .+.......  ...+..+.+.++...
T Consensus         4 eA~q~~~qA~~l~p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~--dp~~a~~~~~e~~Lw--~~~y~~~ie~~r~~~   76 (497)
T d1ya0a1           4 QSAQYLRQAEVLKADMTDSKLGPAEVWTSRQALQDL---YQKMLVT--DLEYALDKKVEQDLW--NHAFKNQITTLQGQA   76 (497)
T ss_dssp             HHHHHHHHHHHHHGGGTCSSSCSSSSHHHHHHHHHH---HHHHHHH--CHHHHHHHTHHHHHH--HHHTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCHHHHhhHHHHHHHHchHHHH---HHHHHHc--ChhhHHHHhHHHHHH--HHHHHHHHHHHHHhc
Confidence            4566666554  23 455677778888888888876   6666553  33221 111110000  112345566666655


Q ss_pred             HhhhcCCCChhHHHH--HHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 048090          215 RKCCNLGNDVFMQSS--LIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKEVIKLYEAMLMNG  292 (447)
Q Consensus       215 ~~~~~~~~~~~~~~~--l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  292 (447)
                      +.  ...++..-...  +...+...+.++.|+..+......    .+++...+..+...+.+.|+.+.|...+...... 
T Consensus        77 k~--~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l----~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~-  149 (497)
T d1ya0a1          77 KN--RANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNV----DLPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSY-  149 (497)
T ss_dssp             SC--SSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC-----------------------------------CCHHHHH-
T ss_pred             cc--ccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC----ChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCC-
Confidence            54  22223222211  122233345666666666533332    3456677888888999999999999888876652 


Q ss_pred             CCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHh
Q 048090          293 TKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG-PEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSM  371 (447)
Q Consensus       293 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~  371 (447)
                       .| ..++..+...+...|++++|...|++..+.   .|+ ...|+.|...+...|+..+|...|.+.+...  |+...+
T Consensus       150 -~~-~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l---~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~--~~~~~a  222 (497)
T d1ya0a1         150 -IC-QHCLVHLGDIARYRNQTSQAESYYRHAAQL---VPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK--FPFPAA  222 (497)
T ss_dssp             -HH-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS--BCCHHH
T ss_pred             -CH-HHHHHHHHHHHHHcccHHHHHHHHHHHHHH---CCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC--CCCHHH
Confidence             22 356777888999999999999999999865   564 7899999999999999999999999999876  778888


Q ss_pred             HHHHHHHHHhcCC
Q 048090          372 WGALLSACHDCGK  384 (447)
Q Consensus       372 ~~~l~~~~~~~g~  384 (447)
                      +..|...+.+..+
T Consensus       223 ~~nL~~~~~~~~~  235 (497)
T d1ya0a1         223 STNLQKALSKALE  235 (497)
T ss_dssp             HHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhhh
Confidence            9999888876554

>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=98.20  E-value=1.1e-05  Score=58.08  Aligned_cols=97  Identities=7%  Similarity=0.043  Sum_probs=63.8

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCch-------HhH
Q 048090          300 FVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSV-------SMW  372 (447)
Q Consensus       300 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~-------~~~  372 (447)
                      +..+...+...|++++|+..|++.++.  -+.+...+..+..+|.+.|++++|++.++++++..  |.+.       .+|
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~--~~~~~~~~~~a~~~   82 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVG--RENREDYRQIAKAY   82 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH--HHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhC--cccHHHHHHHHHHH
Confidence            334555667777777777777777654  12346667777777777777777777777766543  3222       245


Q ss_pred             HHHHHHHHhcCCccHHHHHHHHHhhhCC
Q 048090          373 GALLSACHDCGKFELGKLAAQKALELDP  400 (447)
Q Consensus       373 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~  400 (447)
                      ..++..+...+++++|...+++.+...+
T Consensus        83 ~~lg~~~~~~~~~~~A~~~~~kal~~~~  110 (128)
T d1elra_          83 ARIGNSYFKEEKYKDAIHFYNKSLAEHR  110 (128)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHhcCC
Confidence            5566666777777788888877776655

>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=98.20  E-value=8.1e-06  Score=55.07  Aligned_cols=79  Identities=20%  Similarity=0.133  Sum_probs=62.2

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCC-----CCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHH
Q 048090          333 PEHYSCLVDLLCRAGELDKAWKLINEMLDRG-----HGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYV  407 (447)
Q Consensus       333 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-----~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  407 (447)
                      ...+-.+...+.+.|++++|...|++.++..     ..++...++..++.++.+.|++++|...++++++.+|.++.++.
T Consensus         5 addc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~~   84 (95)
T d1tjca_           5 AEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANG   84 (95)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCHHHHH
Confidence            3344567778888899999998888876542     12334567889999999999999999999999999999998888


Q ss_pred             HHHH
Q 048090          408 MLSN  411 (447)
Q Consensus       408 ~l~~  411 (447)
                      .+..
T Consensus        85 Nl~~   88 (95)
T d1tjca_          85 NLKY   88 (95)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7753

>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=98.19  E-value=0.0012  Score=55.37  Aligned_cols=144  Identities=12%  Similarity=-0.069  Sum_probs=65.2

Q ss_pred             CchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHHHHHHccCChhhHHHHhccCCCCchhhHHHHHHHHH
Q 048090           84 LDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYC  163 (447)
Q Consensus        84 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~  163 (447)
                      ||..-...+..-|.+.|.++.|..+|..+.         -|..++..+.+.++++.|.+++.+..  +..+|..+...+.
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            444444555556666666666666665332         23445566666666666666655432  3445666666665


Q ss_pred             hcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHHHHHHhcCChHHH
Q 048090          164 EAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLIEMYGKCGLVTKA  243 (447)
Q Consensus       164 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  243 (447)
                      +.....-+.     +.......++.....++..|-..|.++....+++.....   -..+...++.++..|++.+ .++.
T Consensus        81 ~~~e~~la~-----i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~---~~~~~~~~~~L~~lyak~~-~~kl  151 (336)
T d1b89a_          81 DGKEFRLAQ-----MCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL---ERAHMGMFTELAILYSKFK-PQKM  151 (336)
T ss_dssp             HTTCHHHHH-----HTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS---TTCCHHHHHHHHHHHHTTC-HHHH
T ss_pred             hCcHHHHHH-----HHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC---CccchHHHHHHHHHHHHhC-hHHH
Confidence            554443321     111222233344445566666666666666666654432   2334455556666665543 3333


Q ss_pred             HHHH
Q 048090          244 LQVF  247 (447)
Q Consensus       244 ~~~~  247 (447)
                      .+.+
T Consensus       152 ~e~l  155 (336)
T d1b89a_         152 REHL  155 (336)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            3333

>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=98.14  E-value=2.5e-06  Score=69.80  Aligned_cols=122  Identities=14%  Similarity=0.117  Sum_probs=82.1

Q ss_pred             HhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCcc
Q 048090          307 CSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFE  386 (447)
Q Consensus       307 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  386 (447)
                      ..+.|++++|+..+++.++.  -+-+...+..+...|+..|++++|...++...+..  |++..++..+...+...+..+
T Consensus         6 aL~~G~l~eAl~~l~~al~~--~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~--P~~~~~~~~l~~ll~a~~~~~   81 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKA--SPKDASLRSSFIELLCIDGDFERADEQLMQSIKLF--PEYLPGASQLRHLVKAAQARK   81 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHT--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHhccccH
Confidence            34568888888888888764  23357888888888888888888888888888776  777776666666655444433


Q ss_pred             HHHHHHHHHhhh-CCCchhHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 048090          387 LGKLAAQKALEL-DPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKEK  432 (447)
Q Consensus       387 ~a~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  432 (447)
                      ++.......... .|++...+...+..+...|+.++|.+.++++.+.
T Consensus        82 ~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          82 DFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             HHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            322222211112 2444555566667778888888888888887763

>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=98.11  E-value=0.0018  Score=54.19  Aligned_cols=279  Identities=8%  Similarity=-0.009  Sum_probs=129.9

Q ss_pred             CCCccHHHHHHHHHhCCChhhHHHHHHHHHhcCCCCchhhHHHHHHHhccCCchhHHHHHHHHHHHcCCCCchhhHHHHH
Q 048090           49 RNPLPFNVVISDFCRNGSPLYALKTFSFMHVHGIFLDTYALCSSLTASTSVKDARFGKQVQAHVTKSGWLSSVFVGSALI  128 (447)
Q Consensus        49 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  128 (447)
                      ||..--..+.+-|.+.|.++.|..+|..+.         -|..++..+.+.+++..|.++....      -+..+|..+.
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~---------d~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~~   76 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVS---------NFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVC   76 (336)
T ss_dssp             C----------------CTTTHHHHHHHTT---------CHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCC---------CHHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHHH
Confidence            443334445566666677777777665432         2445555566666666666655432      1445666666


Q ss_pred             HHHHccCChhhHHHHhccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHH
Q 048090          129 DLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQ  208 (447)
Q Consensus       129 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  208 (447)
                      ..+.+.....-+.- .......++.....++..|-..|.+++...+++...... .++...++.++..+++.+. +   +
T Consensus        77 ~~l~~~~e~~la~i-~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~~-~---k  150 (336)
T d1b89a_          77 FACVDGKEFRLAQM-CGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKP-Q---K  150 (336)
T ss_dssp             HHHHHTTCHHHHHH-TTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCH-H---H
T ss_pred             HHHHhCcHHHHHHH-HHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhCh-H---H
Confidence            66666555444322 111122233344566677777777777777777654331 3455556666666666543 2   2


Q ss_pred             HHHHHHHhhhcCCC--------ChhHHHHHHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhcCCHHH
Q 048090          209 VHAYMIRKCCNLGN--------DVFMQSSLIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRNGYFKE  280 (447)
Q Consensus       209 ~~~~~~~~~~~~~~--------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  280 (447)
                      +.+.+........+        ....|.-++..|.+.|+++.|..+.-   .     .+++..-...++..+.+..+.+.
T Consensus       151 l~e~l~~~s~~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~i---~-----~~~~~~~~~~f~e~~~k~~N~e~  222 (336)
T d1b89a_         151 MREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMM---N-----HPTDAWKEGQFKDIITKVANVEL  222 (336)
T ss_dssp             HHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHH---H-----STTTTCCHHHHHHHHHHCSSTHH
T ss_pred             HHHHHHhccccCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHHH---H-----cchhhhhHHHHHHHHHccCChHH
Confidence            22323221000110        11123344555555566665555443   1     23444444455555566655555


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHHHH
Q 048090          281 VIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKLINEML  360 (447)
Q Consensus       281 a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  360 (447)
                      ..++.....+.  .|  ...+.++......-+..                       .+++.+.+.+++.....+++...
T Consensus       223 ~~~~i~~yL~~--~p--~~i~~lL~~v~~~~d~~-----------------------r~V~~~~k~~~l~li~p~Le~v~  275 (336)
T d1b89a_         223 YYRAIQFYLEF--KP--LLLNDLLMVLSPRLDHT-----------------------RAVNYFSKVKQLPLVKPYLRSVQ  275 (336)
T ss_dssp             HHHHHHHHHHH--CG--GGHHHHHHHHGGGCCHH-----------------------HHHHHHHHTTCTTTTHHHHHHHH
T ss_pred             HHHHHHHHHHc--CH--HHHHHHHHHhccCCCHH-----------------------HHHHHHHhcCCcHHHHHHHHHHH
Confidence            55544444432  22  12233333333222222                       23444445555555556665555


Q ss_pred             hCCCCCCchHhHHHHHHHHHhcCCccH
Q 048090          361 DRGHGSSSVSMWGALLSACHDCGKFEL  387 (447)
Q Consensus       361 ~~~~~p~~~~~~~~l~~~~~~~g~~~~  387 (447)
                      ..|    +..+.+++...|...++++.
T Consensus       276 ~~n----~~~vn~al~~lyie~~d~~~  298 (336)
T d1b89a_         276 NHN----NKSVNESLNNLFITEEDYQA  298 (336)
T ss_dssp             TTC----CHHHHHHHHHHHHHTTCHHH
T ss_pred             HcC----hHHHHHHHHHHHhCcchhHH
Confidence            444    23456777777777776544

>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=98.08  E-value=8e-06  Score=61.15  Aligned_cols=97  Identities=18%  Similarity=0.052  Sum_probs=71.2

Q ss_pred             hHHHH--HHHHHHcCCHHHHHHHHHHHHhCCCC-CC---------chHhHHHHHHHHHhcCCccHHHHHHHHHhhhCC--
Q 048090          335 HYSCL--VDLLCRAGELDKAWKLINEMLDRGHG-SS---------SVSMWGALLSACHDCGKFELGKLAAQKALELDP--  400 (447)
Q Consensus       335 ~~~~l--~~~~~~~g~~~~A~~~~~~~~~~~~~-p~---------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~--  400 (447)
                      .|..+  ...+...|++++|++.|++.++..-. |+         ....|+.++.+|...|++++|...++++++..|  
T Consensus         9 a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~   88 (156)
T d2hr2a1           9 AYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRR   88 (156)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccccc
Confidence            34444  44556778888888888887654311 11         234688899999999999999999998887532  


Q ss_pred             -----C----chhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          401 -----H----NVGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       401 -----~----~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                           +    ...+++.++.+|...|++++|++.|++..+
T Consensus        89 ~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          89 GELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             CCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence                 1    233678889999999999999999998775

>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=97.91  E-value=0.00019  Score=54.56  Aligned_cols=58  Identities=16%  Similarity=0.085  Sum_probs=26.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHH
Q 048090          265 WTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWM  323 (447)
Q Consensus       265 ~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  323 (447)
                      +..+..++.+.|++++|+..++++.+.. +-+...|..++.++...|+..+|++.|+++
T Consensus        70 ~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~  127 (179)
T d2ff4a2          70 HTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRV  127 (179)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            3444444444455555555544444432 124444444444555555555544444443

>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=97.90  E-value=3.4e-05  Score=57.56  Aligned_cols=95  Identities=13%  Similarity=-0.018  Sum_probs=64.0

Q ss_pred             HHhccCcHHHHHHHHHHHHHhcCCCCC----------hhhHHHHHHHHHHcCCHHHHHHHHHHHHhCC-----CCCC---
Q 048090          306 ACSHTGQVKLGIEYFEWMVHDYKLEPG----------PEHYSCLVDLLCRAGELDKAWKLINEMLDRG-----HGSS---  367 (447)
Q Consensus       306 ~~~~~~~~~~a~~~~~~~~~~~~~~~~----------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-----~~p~---  367 (447)
                      .+...|++++|+..|++.+.-..-.|+          ..+|+.+..+|...|++++|...+++.+...     ..++   
T Consensus        18 ~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~   97 (156)
T d2hr2a1          18 RQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGK   97 (156)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccc
Confidence            444556677777777666643222221          2457777888888888888888888776431     1111   


Q ss_pred             -chHhHHHHHHHHHhcCCccHHHHHHHHHhhhCC
Q 048090          368 -SVSMWGALLSACHDCGKFELGKLAAQKALELDP  400 (447)
Q Consensus       368 -~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  400 (447)
                       ...+++.++.+|...|++++|...|++++++.|
T Consensus        98 ~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~  131 (156)
T d2hr2a1          98 LWISAVYSRALALDGLGRGAEAMPEFKKVVEMIE  131 (156)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhH
Confidence             223567788999999999999999999888653

>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=97.78  E-value=3.7e-05  Score=51.67  Aligned_cols=65  Identities=17%  Similarity=0.008  Sum_probs=56.4

Q ss_pred             HHHHHHHHHhcCCccHHHHHHHHHhhhCCC-------chhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCC
Q 048090          372 WGALLSACHDCGKFELGKLAAQKALELDPH-------NVGIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKDV  438 (447)
Q Consensus       372 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-------~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~  438 (447)
                      +..++..+.+.|+++.|...++++++..|.       ...++..++.+|.+.|++++|+..++++.+  +.|+-
T Consensus         8 c~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~--l~P~~   79 (95)
T d1tjca_           8 SFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE--LDPEH   79 (95)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTC
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHH--hCcCC
Confidence            568899999999999999999999986533       356899999999999999999999999987  45653

>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=97.78  E-value=4.6e-05  Score=62.12  Aligned_cols=128  Identities=13%  Similarity=-0.017  Sum_probs=75.0

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCC-hhhHHHHHHHHHHcCCHHH
Q 048090          273 GRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPG-PEHYSCLVDLLCRAGELDK  351 (447)
Q Consensus       273 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~  351 (447)
                      .+.|++++|+..+++.++.. +-+...+..+...++..|++++|...|+...+.   .|+ ...+..+...+...+..++
T Consensus         7 L~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l---~P~~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL---FPEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CGGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHhccccHH
Confidence            45677777777777777753 225667777777777777777777777777654   454 3444444444433333333


Q ss_pred             HHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhH
Q 048090          352 AWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGI  405 (447)
Q Consensus       352 A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  405 (447)
                      +..-.......+ .|+....+...+..+...|+.++|...++++.+..|..+..
T Consensus        83 a~~~~~~~~~~~-~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~~~~  135 (264)
T d1zbpa1          83 FAQGAATAKVLG-ENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGFL  135 (264)
T ss_dssp             HTTSCCCEECCC-SCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCEE
T ss_pred             HHHHhhhhhccc-CchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCCcc
Confidence            322211111111 13334444555666777788888888888888877765443

>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=97.00  E-value=0.011  Score=41.80  Aligned_cols=82  Identities=11%  Similarity=-0.071  Sum_probs=45.5

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCchHhHHHHHHHHHh----cCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHh----cCC
Q 048090          347 GELDKAWKLINEMLDRGHGSSSVSMWGALLSACHD----CGKFELGKLAAQKALELDPHNVGIYVMLSNLYAK----FCM  418 (447)
Q Consensus       347 g~~~~A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~  418 (447)
                      .+.++|..++++..+.|    ++.+...|...|..    ..+.++|..+|+++.+.+  ++.....|+..|..    ..+
T Consensus        37 ~~~~~a~~~~~~aa~~g----~~~a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~g--~~~a~~~Lg~~y~~G~gv~~d  110 (133)
T d1klxa_          37 INKQKLFQYLSKACELN----SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN--DQDGCLILGYKQYAGKGVVKN  110 (133)
T ss_dssp             SCHHHHHHHHHHHHHTT----CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSSSCCC
T ss_pred             cCHHHHHHHHhhhhccc----chhhhhhHHHhhhhccccchhhHHHHHHHhhhhccC--cchHHHHHHHHHHcCCccCCC
Confidence            45566666666665554    33444455555443    334566666666666544  33445555555554    345


Q ss_pred             hHHHHHHHHHHHHcCC
Q 048090          419 WDEIGQLRELMKEKGL  434 (447)
Q Consensus       419 ~~~A~~~~~~m~~~~~  434 (447)
                      .++|.+++++..+.|.
T Consensus       111 ~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_         111 EKQAVKTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHCCC
Confidence            6666666666666554

>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=96.95  E-value=0.0084  Score=41.17  Aligned_cols=75  Identities=12%  Similarity=0.107  Sum_probs=56.2

Q ss_pred             CChhhHHHHHHHHHHcC---CHHHHHHHHHHHHhCCCCCCch-HhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHH
Q 048090          331 PGPEHYSCLVDLLCRAG---ELDKAWKLINEMLDRGHGSSSV-SMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIY  406 (447)
Q Consensus       331 ~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~~~p~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  406 (447)
                      |+..+--....++.+..   +.++++.++++..+.+  |.+. ..+..|..+|.+.|++++|...++++++.+|.+..+.
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~--p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~n~qA~  110 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA--ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQVG  110 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC--chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCcHHHH
Confidence            45555555566666554   4568888888888765  5443 5678888899999999999999999999999887654


Q ss_pred             H
Q 048090          407 V  407 (447)
Q Consensus       407 ~  407 (447)
                      .
T Consensus       111 ~  111 (124)
T d2pqrb1         111 A  111 (124)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=96.68  E-value=0.043  Score=37.17  Aligned_cols=141  Identities=13%  Similarity=0.077  Sum_probs=97.1

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHH
Q 048090          272 YGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDK  351 (447)
Q Consensus       272 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  351 (447)
                      +.-.|..++..++..+....   .+..-|+.+|.-....-+-+...++++.+-+-+.+.|-.. ...++.++...+.   
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            34567888888888887763   3566677777766666677777777777755443333211 1223333333322   


Q ss_pred             HHHHHHHHHhCCCCCCchHhHHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 048090          352 AWKLINEMLDRGHGSSSVSMWGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELMKE  431 (447)
Q Consensus       352 A~~~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  431 (447)
                                      ....+..-+.....+|+-+.-.++++..++.+..++.+...++.+|.+.|...++-+++.+..+
T Consensus        85 ----------------~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~~i~~~~llkia~A~kkig~~re~nell~~ACe  148 (161)
T d1wy6a1          85 ----------------LNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACK  148 (161)
T ss_dssp             ----------------CCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ----------------hHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHH
Confidence                            2222566677778888888888888888887778889999999999999999999999999988


Q ss_pred             cCCC
Q 048090          432 KGLK  435 (447)
Q Consensus       432 ~~~~  435 (447)
                      .|++
T Consensus       149 ~G~K  152 (161)
T d1wy6a1         149 KGEK  152 (161)
T ss_dssp             TTCH
T ss_pred             HhHH
Confidence            8874

>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=96.67  E-value=0.035  Score=39.08  Aligned_cols=111  Identities=12%  Similarity=-0.008  Sum_probs=68.1

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHH----cCCHHHH
Q 048090          277 YFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCR----AGELDKA  352 (447)
Q Consensus       277 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A  352 (447)
                      ++++|.++|++..+.|.. .  ....|.  .....+.++|..++++..+. |   ++.....|...|..    ..+.++|
T Consensus         8 d~~~A~~~~~kaa~~g~~-~--a~~~l~--~~~~~~~~~a~~~~~~aa~~-g---~~~a~~~Lg~~y~~g~~~~~d~~~A   78 (133)
T d1klxa_           8 DLKKAIQYYVKACELNEM-F--GCLSLV--SNSQINKQKLFQYLSKACEL-N---SGNGCRFLGDFYENGKYVKKDLRKA   78 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCT-T--HHHHHH--TCTTSCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             CHHHHHHHHHHHHHCCCh-h--hhhhhc--cccccCHHHHHHHHhhhhcc-c---chhhhhhHHHhhhhccccchhhHHH
Confidence            456667777766665522 1  122222  23445677777777776543 3   34444555555554    3567888


Q ss_pred             HHHHHHHHhCCCCCCchHhHHHHHHHHHh----cCCccHHHHHHHHHhhhCC
Q 048090          353 WKLINEMLDRGHGSSSVSMWGALLSACHD----CGKFELGKLAAQKALELDP  400 (447)
Q Consensus       353 ~~~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~  400 (447)
                      .++|++..+.|    ++.+...|...|..    ..+.++|..+++++.+.+.
T Consensus        79 ~~~~~~aa~~g----~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          79 AQYYSKACGLN----DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHHHTT----CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHhhhhccC----cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            88888888776    44456667666665    3467788888888877664

>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=96.54  E-value=0.013  Score=40.11  Aligned_cols=68  Identities=7%  Similarity=-0.057  Sum_probs=56.2

Q ss_pred             chHhHHHHHHHHHhcC---CccHHHHHHHHHhhhCCCch-hHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 048090          368 SVSMWGALLSACHDCG---KFELGKLAAQKALELDPHNV-GIYVMLSNLYAKFCMWDEIGQLRELMKEKGLKKD  437 (447)
Q Consensus       368 ~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~  437 (447)
                      ...+-..++.++.+..   +.++++.+++++.+.+|.+. ..+..|+.+|.+.|++++|.+.++.+.+  +.|+
T Consensus        34 s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~--ieP~  105 (124)
T d2pqrb1          34 TIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERN  105 (124)
T ss_dssp             CHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCTT
T ss_pred             CcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc--cCCC
Confidence            3456677788887665   55789999999999888764 6889999999999999999999999987  5555

>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=96.50  E-value=0.23  Score=43.25  Aligned_cols=55  Identities=7%  Similarity=-0.071  Sum_probs=33.1

Q ss_pred             HHHHHHccCChhhHHHHhccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcC
Q 048090          127 LIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALG  182 (447)
Q Consensus       127 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  182 (447)
                      -+..+.+.++++.....+...+ .+...-.....+....|+.+.|.+.+..+-..|
T Consensus        78 ~l~~L~~~~~w~~~~~~~~~~p-~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~  132 (450)
T d1qsaa1          78 FVNELARREDWRGLLAFSPEKP-GTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTG  132 (450)
T ss_dssp             HHHHHHHTTCHHHHHHHCCSCC-SSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCS
T ss_pred             HHHHHHhccCHHHHHHhccCCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC
Confidence            3455666777777666664432 244444556666777777777777666554433

>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=95.13  E-value=0.26  Score=33.29  Aligned_cols=63  Identities=11%  Similarity=0.085  Sum_probs=33.5

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHh
Q 048090          263 VLWTSMLGVYGRNGYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHD  326 (447)
Q Consensus       263 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  326 (447)
                      ..+...+..+.+.|+-+.-.++++.+.+.+ .|++.....+..+|.+.|...++.+++.++-+.
T Consensus        87 e~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~  149 (161)
T d1wy6a1          87 EHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKK  149 (161)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHH
Confidence            334444555555566555555655554432 445555555555666666666665555555444

>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=93.91  E-value=1.7  Score=37.39  Aligned_cols=274  Identities=12%  Similarity=-0.030  Sum_probs=145.0

Q ss_pred             hhHHHHHHHHHccCChhhHHHHhccCCCCchhhHHHHHHHHHhcCCHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhc--
Q 048090          122 FVGSALIDLYAKLLLIHDAELMFDEIPVKNSVCANALLSGYCEAKLWAGGLELVRLMPALGLDYDHFTLSALLRACAG--  199 (447)
Q Consensus       122 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--  199 (447)
                      ..+-.-+......|+...|..+...+...........+.........   .......     .++......+..++.+  
T Consensus       155 ~~~~~R~~~~l~~~~~~~a~~l~~~l~~~~~~~~~a~~~l~~~p~~~---~~~~~~~-----~~~~~~~~~~~~~l~rla  226 (450)
T d1qsaa1         155 LAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANNPNTV---LTFARTT-----GATDFTRQMAAVAFASVA  226 (450)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHCGGGH---HHHHHHS-----CCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChhhHHHHHhhCChhHHHHHHHHHHHHhChHhH---HHHHhcC-----CCChhhhHHHHHHHHHHh
Confidence            33334445555566777777777766655444455555544322222   2221111     2222222223333322  


Q ss_pred             CCcHHHHHHHHHHHHHhhhcCCCChhHHHH----HHHHHHhcCChHHHHHHHHhhhhhcccCCCcchhhHHHHHHHHHhc
Q 048090          200 LSAAEFGRQVHAYMIRKCCNLGNDVFMQSS----LIEMYGKCGLVTKALQVFNLAGHRLEGEINKDVVLWTSMLGVYGRN  275 (447)
Q Consensus       200 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~----l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  275 (447)
                      ..+.+.+..++.......   ..+..-...    +...+...+..+.+...+.....     ...+.....-.+......
T Consensus       227 ~~d~~~a~~~l~~~~~~~---~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~w~~~~al~~  298 (450)
T d1qsaa1         227 RQDAENARLMIPSLAQAQ---QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIM-----RSQSTSLIERRVRMALGT  298 (450)
T ss_dssp             HHCHHHHHHHHHHHHHHT---TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHH-----TCCCHHHHHHHHHHHHHH
T ss_pred             ccChhHHHHHHHhhhhcc---cccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcc-----cccchHHHHHHHHHHHHc
Confidence            245677777777776652   222222222    22223345666777776664322     222333333344555667


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHH
Q 048090          276 GYFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVDLLCRAGELDKAWKL  355 (447)
Q Consensus       276 g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  355 (447)
                      +++..+...++.|... ......-..-+.+++...|+.+.|..+|..+..    .++  -|.-|.  ..+.|..-.    
T Consensus       299 ~~~~~~~~~~~~l~~~-~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~----~~~--fYG~LA--a~~Lg~~~~----  365 (450)
T d1qsaa1         299 GDRRGLNTWLARLPME-AKEKDEWRYWQADLLLERGREAEAKEILHQLMQ----QRG--FYPMVA--AQRIGEEYE----  365 (450)
T ss_dssp             TCHHHHHHHHHHSCTT-GGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT----SCS--HHHHHH--HHHTTCCCC----
T ss_pred             CChHHHHHHHHhcCcc-cccHHHHHHHHHHHHHHcCChhhHHHHHHHHhc----CCC--hHHHHH--HHHcCCCCC----
Confidence            8888888888876432 222344556677888888999899888888752    232  233332  222332100    


Q ss_pred             HHHHHhCCCCCCchHh-----HHHHHHHHHhcCCccHHHHHHHHHhhhCCCchhHHHHHHHHHHhcCChHHHHHHHHHH
Q 048090          356 INEMLDRGHGSSSVSM-----WGALLSACHDCGKFELGKLAAQKALELDPHNVGIYVMLSNLYAKFCMWDEIGQLRELM  429 (447)
Q Consensus       356 ~~~~~~~~~~p~~~~~-----~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  429 (447)
                         +......++....     -..-+..+...|+...|...+..+....  ++.-...++....+.|.++.|+....+.
T Consensus       366 ---~~~~~~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~~--~~~~~~~la~lA~~~g~~~~aI~a~~~~  439 (450)
T d1qsaa1         366 ---LKIDKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKSK--SKTEQAQLARYAFNNQWWDLSVQATIAG  439 (450)
T ss_dssp             ---CCCCCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CHHHHHHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             ---CCcCCCCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhCC--CHHHHHHHHHHHHHCCChhHHHHHHHHH
Confidence               0000000000000     1133566778899999999888877543  3445667788888999999988766554

>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=90.34  E-value=1.4  Score=28.11  Aligned_cols=62  Identities=16%  Similarity=0.045  Sum_probs=45.8

Q ss_pred             CHHHHHHHHHhhhhcCCCCcHhhHHHHHHHHhcCCcHHHHHHHHHHHHHhhhcCCCChhHHHHHH
Q 048090          167 LWAGGLELVRLMPALGLDYDHFTLSALLRACAGLSAAEFGRQVHAYMIRKCCNLGNDVFMQSSLI  231 (447)
Q Consensus       167 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~  231 (447)
                      +.=++.+-++.+....+.|++....+.+++|.+.+++..|.++++.+...   ..++...|..++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K---~~~~k~~y~yil   82 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK---AGPHKEIYPYVI   82 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---TTTCTTHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH---hcCcHHHHHHHH
Confidence            44566666777777778888888888999999999999999998887765   333444555544

>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=89.79  E-value=1.5  Score=27.88  Aligned_cols=63  Identities=14%  Similarity=0.195  Sum_probs=47.2

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 048090          277 YFKEVIKLYEAMLMNGTKPDEVAFVTVISACSHTGQVKLGIEYFEWMVHDYKLEPGPEHYSCLVD  341 (447)
Q Consensus       277 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  341 (447)
                      +.-++.+-++.+....+.|++....+.+++|.+.+++..|.++|+-+..+.  .++...|..+++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~--~~~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA--GPHKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT--TTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh--cCcHHHHHHHHH
Confidence            444566667777777788898888999999999999999999998887653  344556666553