Citrus Sinensis ID: 041384

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580
Protein Sequence
MVSKHFYEQTLHLYKQELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGLSKSYGFSRIENEY
Secondary Structure (PSIPRED)
cccccccHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHccccHHHHHHHcccccccccHHHHHHHHHHccccHHHHHHHHHHHHHccccccccHHHHHHHHHHcccccHHHHHHHHHHHHHccccccccHHHHHHHHHHHcccHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHccccccccccHHHHHHHHHccccccHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccEEHHHHHHHHHccccHHHHHHHHHccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHcccccHHHHHHHHHHHHHHccccccccccHHHHHHHHHccccHHHHHHHHHcccccccHHHHHHHHHHHHHHccHHHHHHHHHHHHHcccccccHHHHHHHHHHHccccHHHHHHHHHHHHccccccccccEEEccc
Secondary Structure Prediction (SSPRO)
ccccccHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccEHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccEHHHHHHHHHHcHcHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHccHHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHcHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHccHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccEEEEEcc
Coil and Loop (DISEMBL)
MVSKHFYEQTLHLYKqelhpsglysntaiLPSVIKACAYAQTHQHFGLQLHCtalksgsdadpviSNSLISMYAkfskpesayqlfdempyrdtiswNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGcidsqnydTGIDLFRAMqregvkptrVTLTIVLLACAELRDlrngkaihgyayccgfdfDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIrgysqsgdLSEAMKLFSRMRLERIEPNSVTLLAILSSCtrqsflshglGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLIsgygfhgyGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLlgksgkiedackvvstmpmkpstRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGlsksygfsrieney
Flexible Loop (DISEMBL)
MVSKHFYEQTLHLYKQELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMqregvkptrVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIirgysqsgdlSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVStmpmkpstrILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAkglsksygfsrieney
Low Complexity Region (SEG)
MVSKHFYEQTLHLYKQELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGLSKSYGFSRIENEY
Disordered region (IsUnstruct)
*****FYEQTLHLYKQELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGLSK***********
Disordered Region (DISOPRED)
MV**HFYEQTLHLYKQELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGLSKSYGFSRIENEY
Disordered Region (DISEMBL)
MVSKHFYEQTLHLYKQELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGLSKSYGFSRIENEY
Disordered Region (DISPRO)
*VSKHFYEQTLHLYKQELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGLSKSYGFSRIENEY
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVSKHFYEQTLHLYKQELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGLSKSYGFSRIENEY
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	580	2.2.26 [Sep-21-2011]
O65543	624	Pentatricopeptide repeat-	yes	no	0.994	0.924	0.515	1e-171
Q9SN39	871	Pentatricopeptide repeat-	no	no	0.977	0.650	0.356	1e-104
O04659	691	Pentatricopeptide repeat-	no	no	0.977	0.820	0.361	1e-103
Q9FLZ9	677	Pentatricopeptide repeat-	no	no	0.937	0.803	0.357	3e-99
P0C898	689	Putative pentatricopeptid	no	no	0.943	0.793	0.353	6e-98
Q9SIT7	697	Pentatricopeptide repeat-	no	no	0.953	0.793	0.319	4e-96
Q3E6Q1	809	Pentatricopeptide repeat-	no	no	0.929	0.666	0.337	8e-96
Q9ZUW3	868	Pentatricopeptide repeat-	no	no	0.905	0.604	0.341	4e-94
Q9SVP7	1064	Pentatricopeptide repeat-	no	no	0.975	0.531	0.329	3e-93
Q9SS83	1028	Pentatricopeptide repeat-	no	no	0.965	0.544	0.332	1e-92

>sp|O65543|PP343_ARATH Pentatricopeptide repeat-containing protein At4g31070, mitochondrial OS=Arabidopsis thaliana GN=PCMP-E7 PE=2 SV=2

 Score =  601 bits (1549), Expect = e-171,   Method: Compositional matrix adjust.
 Identities = 300/582 (51%), Positives = 420/582 (72%), Gaps = 5/582 (0%)

Query: 1   MVSKHFYEQTLHLYKQELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSD 60
           +VS  FY++ L LYK ++H  G    TAILPSVIKACA+ Q     G QLHC  LK+G+D
Sbjct: 31  LVSDQFYDEALRLYKLKIHSLGTNGFTAILPSVIKACAFQQEPFLLGAQLHCLCLKAGAD 90

Query: 61  ADPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREM 120
            D V+SNSLISMYAKFS+  +  ++FDEM +RDT+S+ SIIN   Q+G    ++++ +EM
Sbjct: 91  CDTVVSNSLISMYAKFSRKYAVRKVFDEMLHRDTVSYCSIINSCCQDGLLYEAMKLIKEM 150

Query: 121 YLCGFVLKAELLAGIISLCSQIGEL-ELGRQIHALVIVDGSFELSVFVSTALLDLYSKCH 179
           Y  GF+ K+EL+A +++LC+++G   ++ R  HALV+VD   + SV +STAL+D+Y K  
Sbjct: 151 YFYGFIPKSELVASLLALCTRMGSSSKVARMFHALVLVDERMQESVLLSTALVDMYLKFD 210

Query: 180 HWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLL 239
               A  VF+QM ++NEVSWTAMISGC+ +QNY+ G+DLFRAMQRE ++P RVTL  VL 
Sbjct: 211 DHAAAFHVFDQMEVKNEVSWTAMISGCVANQNYEMGVDLFRAMQRENLRPNRVTLLSVLP 270

Query: 240 ACAELRDLRN-GKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDV 298
           AC EL    +  K IHG+++  G   D  L+AA M MYC C   +  +R++FE +KV+DV
Sbjct: 271 ACVELNYGSSLVKEIHGFSFRHGCHADERLTAAFMTMYCRCGN-VSLSRVLFETSKVRDV 329

Query: 299 VIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCY 358
           V+WSS+I GY+++GD SE M L ++MR E IE NSVTLLAI+S+CT  + LS    VH  
Sbjct: 330 VMWSSMISGYAETGDCSEVMNLLNQMRKEGIEANSVTLLAIVSACTNSTLLSFASTVHSQ 389

Query: 359 IMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEA 418
           I+K G    + +GNAL++MY+KCGS++++ ++F E+  +D VSW+++I+ YG HG+G EA
Sbjct: 390 ILKCGFMSHILLGNALIDMYAKCGSLSAAREVFYELTEKDLVSWSSMINAYGLHGHGSEA 449

Query: 419 LQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVD 478
           L++F  M + G E D +  LAILSACNHAGLV+EA+T+F    K   + + +EHYACY++
Sbjct: 450 LEIFKGMIKGGHEVDDMAFLAILSACNHAGLVEEAQTIFTQAGK-YHMPVTLEHYACYIN 508

Query: 479 LLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVA-EMLAHQLIEAEPENAA 537
           LLG+ GKI+DA +V   MPMKPS RI SSL+SAC  HGRL+VA +++A++L+++EP+N A
Sbjct: 509 LLGRFGKIDDAFEVTINMPMKPSARIWSSLLSACETHGRLDVAGKIIANELMKSEPDNPA 568

Query: 538 NYTLLSMVCSESGNWLGAEEVWRVMRAKGLSKSYGFSRIENE 579
           NY LLS + +ESGN+  AEEV RVM+ + L+K YGFS+IE E
Sbjct: 569 NYVLLSKIHTESGNYHAAEEVRRVMQRRKLNKCYGFSKIEPE 610

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 =  379 bits (973), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 204/572 (35%), Positives = 331/572 (57%), Gaps = 5/572 (0%)

Query: 7   YEQTLHLYKQELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVIS 66
           +  ++ L+K+ +  SG+  ++     V K+ +  ++  H G QLH   LKSG      + 
Sbjct: 176 FSGSIGLFKK-MMSSGVEMDSYTFSCVSKSFSSLRS-VHGGEQLHGFILKSGFGERNSVG 233

Query: 67  NSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFV 126
           NSL++ Y K  + +SA ++FDEM  RD ISWNSIIN +  NG   + L +F +M + G  
Sbjct: 234 NSLVAFYLKNQRVDSARKVFDEMTERDVISWNSIINGYVSNGLAEKGLSVFVQMLVSGIE 293

Query: 127 LKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALR 186
           +    +  + + C+    + LGR +H+ + V   F         LLD+YSKC     A  
Sbjct: 294 IDLATIVSVFAGCADSRLISLGRAVHS-IGVKACFSREDRFCNTLLDMYSKCGDLDSAKA 352

Query: 187 VFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRD 246
           VF +M  R+ VS+T+MI+G          + LF  M+ EG+ P   T+T VL  CA  R 
Sbjct: 353 VFREMSDRSVVSYTSMIAGYAREGLAGEAVKLFEEMEEEGISPDVYTVTAVLNCCARYRL 412

Query: 247 LRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIR 306
           L  GK +H +       FD  +S ALM MY +C  ++  A ++F   +VKD++ W++II 
Sbjct: 413 LDEGKRVHEWIKENDLGFDIFVSNALMDMYAKCG-SMQEAELVFSEMRVKDIISWNTIIG 471

Query: 307 GYSQSGDLSEAMKLFSRMRLE-RIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLN 365
           GYS++   +EA+ LF+ +  E R  P+  T+  +L +C   S    G  +H YIM+ G  
Sbjct: 472 GYSKNCYANEALSLFNLLLEEKRFSPDERTVACVLPACASLSAFDKGREIHGYIMRNGYF 531

Query: 366 FDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEM 425
            D  + N+L++MY+KCG++  +H +F+++A++D VSWT +I+GYG HG+G+EA+ LF +M
Sbjct: 532 SDRHVANSLVDMYAKCGALLLAHMLFDDIASKDLVSWTVMIAGYGMHGFGKEAIALFNQM 591

Query: 426 QESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGK 485
           +++G+E D I+ +++L AC+H+GLV E    FN +  E KI   +EHYAC VD+L ++G 
Sbjct: 592 RQAGIEADEISFVSLLYACSHSGLVDEGWRFFNIMRHECKIEPTVEHYACIVDMLARTGD 651

Query: 486 IEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMV 545
           +  A + +  MP+ P   I  +L+  CRIH  +++AE +A ++ E EPEN   Y L++ +
Sbjct: 652 LIKAYRFIENMPIPPDATIWGALLCGCRIHHDVKLAEKVAEKVFELEPENTGYYVLMANI 711

Query: 546 CSESGNWLGAEEVWRVMRAKGLSKSYGFSRIE 577
            +E+  W   + + + +  +GL K+ G S IE
Sbjct: 712 YAEAEKWEQVKRLRKRIGQRGLRKNPGCSWIE 743

Arabidopsis thaliana (taxid: 3702)

>sp|O04659|PP398_ARATH Pentatricopeptide repeat-containing protein At5g27110 OS=Arabidopsis thaliana GN=PCMP-E14 PE=2 SV=2

 Score =  375 bits (964), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 207/573 (36%), Positives = 345/573 (60%), Gaps = 6/573 (1%)

Query: 7   YEQTLHLYKQELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVIS 66
           +  TL ++K+ L+ S    ++   P+VIKA   A   +  G  +H   +KSG   D V++
Sbjct: 87  FHDTLEVFKRLLNCSICVPDSFTFPNVIKAYG-ALGREFLGRMIHTLVVKSGYVCDVVVA 145

Query: 67  NSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFV 126
           +SL+ MYAKF+  E++ Q+FDEMP RD  SWN++I+CF Q+G   ++LE+F  M   GF 
Sbjct: 146 SSLVGMYAKFNLFENSLQVFDEMPERDVASWNTVISCFYQSGEAEKALELFGRMESSGFE 205

Query: 127 LKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALR 186
             +  L   IS CS++  LE G++IH   +  G FEL  +V++AL+D+Y KC    +A  
Sbjct: 206 PNSVSLTVAISACSRLLWLERGKEIHRKCVKKG-FELDEYVNSALVDMYGKCDCLEVARE 264

Query: 187 VFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRD 246
           VF++M  ++ V+W +MI G +   +  + +++   M  EG +P++ TLT +L+AC+  R+
Sbjct: 265 VFQKMPRKSLVAWNSMIKGYVAKGDSKSCVEILNRMIIEGTRPSQTTLTSILMACSRSRN 324

Query: 247 LRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVV-IWSSII 305
           L +GK IHGY      + D +++ +L+ +Y +C EA + A  +F +T+ KDV   W+ +I
Sbjct: 325 LLHGKFIHGYVIRSVVNADIYVNCSLIDLYFKCGEA-NLAETVFSKTQ-KDVAESWNVMI 382

Query: 306 RGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLN 365
             Y   G+  +A++++ +M    ++P+ VT  ++L +C++ + L  G  +H  I ++ L 
Sbjct: 383 SSYISVGNWFKAVEVYDQMVSVGVKPDVVTFTSVLPACSQLAALEKGKQIHLSISESRLE 442

Query: 366 FDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEM 425
            D  + +AL++MYSKCG+   + +IFN +  +D VSWT +IS YG HG   EAL  F EM
Sbjct: 443 TDELLLSALLDMYSKCGNEKEAFRIFNSIPKKDVVSWTVMISAYGSHGQPREALYQFDEM 502

Query: 426 QESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGK 485
           Q+ G++PD +T+LA+LSAC HAGL+ E    F+ +  +  I   IEHY+C +D+LG++G+
Sbjct: 503 QKFGLKPDGVTLLAVLSACGHAGLIDEGLKFFSQMRSKYGIEPIIEHYSCMIDILGRAGR 562

Query: 486 IEDACKVVSTMP-MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSM 544
           + +A +++   P    +  +LS+L SAC +H    + + +A  L+E  P++A+ Y +L  
Sbjct: 563 LLEAYEIIQQTPETSDNAELLSTLFSACCLHLEHSLGDRIARLLVENYPDDASTYMVLFN 622

Query: 545 VCSESGNWLGAEEVWRVMRAKGLSKSYGFSRIE 577
           + +   +W  A  V   M+  GL K  G S IE
Sbjct: 623 LYASGESWDAARRVRLKMKEMGLRKKPGCSWIE 655

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FLZ9|PP405_ARATH Pentatricopeptide repeat-containing protein At5g39350 OS=Arabidopsis thaliana GN=PCMP-E16 PE=2 SV=1

 Score =  363 bits (931), Expect = 3e-99,   Method: Compositional matrix adjust.
 Identities = 197/551 (35%), Positives = 314/551 (56%), Gaps = 7/551 (1%)

Query: 31  PSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEMP 90
           P V KA    ++ +  GL +H   L+S    D  + N+L++MY  F K E A  +FD M 
Sbjct: 121 PFVAKAAGELKSMK-LGLVVHGRILRSWFGRDKYVQNALLAMYMNFGKVEMARDVFDVMK 179

Query: 91  YRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQ 150
            RD ISWN++I+ + +NG+   +L MF  M      L    +  ++ +C  + +LE+GR 
Sbjct: 180 NRDVISWNTMISGYYRNGYMNDALMMFDWMVNESVDLDHATIVSMLPVCGHLKDLEMGRN 239

Query: 151 IHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQ 210
           +H LV  +      + V  AL+++Y KC     A  VF++M  R+ ++WT MI+G  +  
Sbjct: 240 VHKLV-EEKRLGDKIEVKNALVNMYLKCGRMDEARFVFDRMERRDVITWTCMINGYTEDG 298

Query: 211 NYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSA 270
           + +  ++L R MQ EGV+P  VT+  ++  C +   + +GK +HG+A       D  +  
Sbjct: 299 DVENALELCRLMQFEGVRPNAVTIASLVSVCGDALKVNDGKCLHGWAVRQQVYSDIIIET 358

Query: 271 ALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIE 330
           +L+ MY +C       R+ F          WS+II G  Q+  +S+A+ LF RMR E +E
Sbjct: 359 SLISMYAKCKRVDLCFRV-FSGASKYHTGPWSAIIAGCVQNELVSDALGLFKRMRREDVE 417

Query: 331 PNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQI 390
           PN  TL ++L +    + L   + +HCY+ K G    +     L+++YSKCG++ S+H+I
Sbjct: 418 PNIATLNSLLPAYAALADLRQAMNIHCYLTKTGFMSSLDAATGLVHVYSKCGTLESAHKI 477

Query: 391 FNEM----AARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNH 446
           FN +     ++D V W  LISGYG HG G  ALQ+F+EM  SGV P+ IT  + L+AC+H
Sbjct: 478 FNGIQEKHKSKDVVLWGALISGYGMHGDGHNALQVFMEMVRSGVTPNEITFTSALNACSH 537

Query: 447 AGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRILS 506
           +GLV+E  TLF  +++  K      HY C VDLLG++G++++A  +++T+P +P++ +  
Sbjct: 538 SGLVEEGLTLFRFMLEHYKTLARSNHYTCIVDLLGRAGRLDEAYNLITTIPFEPTSTVWG 597

Query: 507 SLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKG 566
           +L++AC  H  +++ EM A++L E EPEN  NY LL+ + +  G W   E+V  +M   G
Sbjct: 598 ALLAACVTHENVQLGEMAANKLFELEPENTGNYVLLANIYAALGRWKDMEKVRSMMENVG 657

Query: 567 LSKSYGFSRIE 577
           L K  G S IE
Sbjct: 658 LRKKPGHSTIE 668

Arabidopsis thaliana (taxid: 3702)

>sp|P0C898|PP232_ARATH Putative pentatricopeptide repeat-containing protein At3g15130 OS=Arabidopsis thaliana GN=PCMP-H86 PE=3 SV=1

 Score =  358 bits (920), Expect = 6e-98,   Method: Compositional matrix adjust.
 Identities = 196/554 (35%), Positives = 315/554 (56%), Gaps = 7/554 (1%)

Query: 30  LPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEM 89
           L S+++ C         G Q+HC  LKSGS  + + SN LI MY K  +P  AY++FD M
Sbjct: 9   LVSILRVCTRKGLSDQGG-QVHCYLLKSGSGLNLITSNYLIDMYCKCREPLMAYKVFDSM 67

Query: 90  PYRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGR 149
           P R+ +SW+++++    NG    SL +F EM   G        +  +  C  +  LE G 
Sbjct: 68  PERNVVSWSALMSGHVLNGDLKGSLSLFSEMGRQGIYPNEFTFSTNLKACGLLNALEKGL 127

Query: 150 QIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDS 209
           QIH   +  G FE+ V V  +L+D+YSKC     A +VF ++V R+ +SW AMI+G + +
Sbjct: 128 QIHGFCLKIG-FEMMVEVGNSLVDMYSKCGRINEAEKVFRRIVDRSLISWNAMIAGFVHA 186

Query: 210 QNYDTGIDLFRAMQREGVK--PTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGF--DFD 265
                 +D F  MQ   +K  P   TLT +L AC+    +  GK IHG+    GF     
Sbjct: 187 GYGSKALDTFGMMQEANIKERPDEFTLTSLLKACSSTGMIYAGKQIHGFLVRSGFHCPSS 246

Query: 266 HHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMR 325
             ++ +L+ +Y +C   L  AR  F++ K K ++ WSS+I GY+Q G+  EAM LF R++
Sbjct: 247 ATITGSLVDLYVKCG-YLFSARKAFDQIKEKTMISWSSLILGYAQEGEFVEAMGLFKRLQ 305

Query: 326 LERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSIT 385
               + +S  L +I+      + L  G  +    +K     + S+ N++++MY KCG + 
Sbjct: 306 ELNSQIDSFALSSIIGVFADFALLRQGKQMQALAVKLPSGLETSVLNSVVDMYLKCGLVD 365

Query: 386 SSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACN 445
            + + F EM  +D +SWT +I+GYG HG G++++++F EM    +EPD +  LA+LSAC+
Sbjct: 366 EAEKCFAEMQLKDVISWTVVITGYGKHGLGKKSVRIFYEMLRHNIEPDEVCYLAVLSACS 425

Query: 446 HAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRIL 505
           H+G++KE E LF+ +++   I   +EHYAC VDLLG++G++++A  ++ TMP+KP+  I 
Sbjct: 426 HSGMIKEGEELFSKLLETHGIKPRVEHYACVVDLLGRAGRLKEAKHLIDTMPIKPNVGIW 485

Query: 506 SSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAK 565
            +L+S CR+HG +E+ + +   L+  + +N ANY ++S +  ++G W        +   K
Sbjct: 486 QTLLSLCRVHGDIELGKEVGKILLRIDAKNPANYVMMSNLYGQAGYWNEQGNARELGNIK 545

Query: 566 GLSKSYGFSRIENE 579
           GL K  G S +E E
Sbjct: 546 GLKKEAGMSWVEIE 559

Arabidopsis thaliana (taxid: 3702)

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

 Score =  352 bits (903), Expect = 4e-96,   Method: Compositional matrix adjust.
 Identities = 199/622 (31%), Positives = 329/622 (52%), Gaps = 69/622 (11%)

Query: 24  YSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAY 83
           +++++    ++ +C  ++    +   +H + +KSG   +  I N LI  Y+K    E   
Sbjct: 16  FTDSSPFAKLLDSCIKSKLSAIYVRYVHASVIKSGFSNEIFIQNRLIDAYSKCGSLEDGR 75

Query: 84  QLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREM----------------------- 120
           Q+FD+MP R+  +WNS++   T+ GF   +  +FR M                       
Sbjct: 76  QVFDKMPQRNIYTWNSVVTGLTKLGFLDEADSLFRSMPERDQCTWNSMVSGFAQHDRCEE 135

Query: 121 YLC--------GFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALL 172
            LC        GFVL     A ++S CS + ++  G Q+H+L I    F   V++ +AL+
Sbjct: 136 ALCYFAMMHKEGFVLNEYSFASVLSACSGLNDMNKGVQVHSL-IAKSPFLSDVYIGSALV 194

Query: 173 DLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRV 232
           D+YSKC +   A RVF++M  RN VSW ++I+    +      +D+F+ M    V+P  V
Sbjct: 195 DMYSKCGNVNDAQRVFDEMGDRNVVSWNSLITCFEQNGPAVEALDVFQMMLESRVEPDEV 254

Query: 233 TLTIVLLACAELRDLRNGKAIHGYAYCCG-FDFDHHLSAALMHMYCECTE---------- 281
           TL  V+ ACA L  ++ G+ +HG          D  LS A + MY +C+           
Sbjct: 255 TLASVISACASLSAIKVGQEVHGRVVKNDKLRNDIILSNAFVDMYAKCSRIKEARFIFDS 314

Query: 282 --------------------ALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLF 321
                               +   AR++F +   ++VV W+++I GY+Q+G+  EA+ LF
Sbjct: 315 MPIRNVIAETSMISGYAMAASTKAARLMFTKMAERNVVSWNALIAGYTQNGENEEALSLF 374

Query: 322 SRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNF------DVSIGNALM 375
             ++ E + P   +   IL +C   + L  G+  H +++K G  F      D+ +GN+L+
Sbjct: 375 CLLKRESVCPTHYSFANILKACADLAELHLGMQAHVHVLKHGFKFQSGEEDDIFVGNSLI 434

Query: 376 NMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAI 435
           +MY KCG +   + +F +M  RD VSW  +I G+  +GYG EAL+LF EM ESG +PD I
Sbjct: 435 DMYVKCGCVEEGYLVFRKMMERDCVSWNAMIIGFAQNGYGNEALELFREMLESGEKPDHI 494

Query: 436 TVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVST 495
           T++ +LSAC HAG V+E    F+++ ++  +A   +HY C VDLLG++G +E+A  ++  
Sbjct: 495 TMIGVLSACGHAGFVEEGRHYFSSMTRDFGVAPLRDHYTCMVDLLGRAGFLEEAKSMIEE 554

Query: 496 MPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGA 555
           MPM+P + I  SL++AC++H  + + + +A +L+E EP N+  Y LLS + +E G W   
Sbjct: 555 MPMQPDSVIWGSLLAACKVHRNITLGKYVAEKLLEVEPSNSGPYVLLSNMYAELGKWEDV 614

Query: 556 EEVWRVMRAKGLSKSYGFSRIE 577
             V + MR +G++K  G S I+
Sbjct: 615 MNVRKSMRKEGVTKQPGCSWIK 636

Arabidopsis thaliana (taxid: 3702)

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

 Score =  351 bits (901), Expect = 8e-96,   Method: Compositional matrix adjust.
 Identities = 185/548 (33%), Positives = 320/548 (58%), Gaps = 9/548 (1%)

Query: 33  VIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEMPYR 92
           ++K C   +     G ++H   +KSG   D      L +MYAK  +   A ++FD MP R
Sbjct: 141 LLKVCG-DEAELRVGKEIHGLLVKSGFSLDLFAMTGLENMYAKCRQVNEARKVFDRMPER 199

Query: 93  DTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELEL---GR 149
           D +SWN+I+  ++QNG    +LEM + M  C   LK   +  I+S+   +  L L   G+
Sbjct: 200 DLVSWNTIVAGYSQNGMARMALEMVKSM--CEENLKPSFIT-IVSVLPAVSALRLISVGK 256

Query: 150 QIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDS 209
           +IH   +  G F+  V +STAL+D+Y+KC     A ++F+ M+ RN VSW +MI   + +
Sbjct: 257 EIHGYAMRSG-FDSLVNISTALVDMYAKCGSLETARQLFDGMLERNVVSWNSMIDAYVQN 315

Query: 210 QNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLS 269
           +N    + +F+ M  EGVKPT V++   L ACA+L DL  G+ IH  +   G D +  + 
Sbjct: 316 ENPKEAMLIFQKMLDEGVKPTDVSVMGALHACADLGDLERGRFIHKLSVELGLDRNVSVV 375

Query: 270 AALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERI 329
            +L+ MYC+C E +  A  +F + + + +V W+++I G++Q+G   +A+  FS+MR   +
Sbjct: 376 NSLISMYCKCKE-VDTAASMFGKLQSRTLVSWNAMILGFAQNGRPIDALNYFSQMRSRTV 434

Query: 330 EPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQ 389
           +P++ T ++++++    S   H   +H  +M++ L+ +V +  AL++MY+KCG+I  +  
Sbjct: 435 KPDTFTYVSVITAIAELSITHHAKWIHGVVMRSCLDKNVFVTTALVDMYAKCGAIMIARL 494

Query: 390 IFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGL 449
           IF+ M+ R   +W  +I GYG HG+G+ AL+LF EMQ+  ++P+ +T L+++SAC+H+GL
Sbjct: 495 IFDMMSERHVTTWNAMIDGYGTHGFGKAALELFEEMQKGTIKPNGVTFLSVISACSHSGL 554

Query: 450 VKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRILSSLV 509
           V+     F  + +   I L+++HY   VDLLG++G++ +A   +  MP+KP+  +  +++
Sbjct: 555 VEAGLKCFYMMKENYSIELSMDHYGAMVDLLGRAGRLNEAWDFIMQMPVKPAVNVYGAML 614

Query: 510 SACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGLSK 569
            AC+IH  +  AE  A +L E  P++   + LL+ +   +  W    +V   M  +GL K
Sbjct: 615 GACQIHKNVNFAEKAAERLFELNPDDGGYHVLLANIYRAASMWEKVGQVRVSMLRQGLRK 674

Query: 570 SYGFSRIE 577
           + G S +E
Sbjct: 675 TPGCSMVE 682

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ZUW3|PP172_ARATH Pentatricopeptide repeat-containing protein At2g27610 OS=Arabidopsis thaliana GN=PCMP-H60 PE=2 SV=1

 Score =  346 bits (887), Expect = 4e-94,   Method: Compositional matrix adjust.
 Identities = 182/533 (34%), Positives = 305/533 (57%), Gaps = 8/533 (1%)

Query: 47  GLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQ 106
           GLQ+H   +K+G D    +SNSLI++Y K      A  LFD+   +  ++WNS+I+ +  
Sbjct: 213 GLQVHTVVVKNGLDKTIPVSNSLINLYLKCGNVRKARILFDKTEVKSVVTWNSMISGYAA 272

Query: 107 NGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVF 166
           NG  + +L MF  M L    L     A +I LC+ + EL    Q+H  V+  G F     
Sbjct: 273 NGLDLEALGMFYSMRLNYVRLSESSFASVIKLCANLKELRFTEQLHCSVVKYG-FLFDQN 331

Query: 167 VSTALLDLYSKCHHWLIALRVFEQM-VIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQRE 225
           + TAL+  YSKC   L ALR+F+++  + N VSWTAMISG + +   +  +DLF  M+R+
Sbjct: 332 IRTALMVAYSKCTAMLDALRLFKEIGCVGNVVSWTAMISGFLQNDGKEEAVDLFSEMKRK 391

Query: 226 GVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHP 285
           GV+P   T +++L A   +    +   +H       ++    +  AL+  Y +  +    
Sbjct: 392 GVRPNEFTYSVILTALPVI----SPSEVHAQVVKTNYERSSTVGTALLDAYVKLGKVEEA 447

Query: 286 ARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCT- 344
           A++ F     KD+V WS+++ GY+Q+G+   A+K+F  +    I+PN  T  +IL+ C  
Sbjct: 448 AKV-FSGIDDKDIVAWSAMLAGYAQTGETEAAIKMFGELTKGGIKPNEFTFSSILNVCAA 506

Query: 345 RQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTT 404
             + +  G   H + +K+ L+  + + +AL+ MY+K G+I S+ ++F     +D VSW +
Sbjct: 507 TNASMGQGKQFHGFAIKSRLDSSLCVSSALLTMYAKKGNIESAEEVFKRQREKDLVSWNS 566

Query: 405 LISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEK 464
           +ISGY  HG   +AL +F EM++  V+ D +T + + +AC HAGLV+E E  F+ ++++ 
Sbjct: 567 MISGYAQHGQAMKALDVFKEMKKRKVKMDGVTFIGVFAACTHAGLVEEGEKYFDIMVRDC 626

Query: 465 KIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEML 524
           KIA   EH +C VDL  ++G++E A KV+  MP    + I  ++++ACR+H + E+  + 
Sbjct: 627 KIAPTKEHNSCMVDLYSRAGQLEKAMKVIENMPNPAGSTIWRTILAACRVHKKTELGRLA 686

Query: 525 AHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGLSKSYGFSRIE 577
           A ++I  +PE++A Y LLS + +ESG+W    +V ++M  + + K  G+S IE
Sbjct: 687 AEKIIAMKPEDSAAYVLLSNMYAESGDWQERAKVRKLMNERNVKKEPGYSWIE 739

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SVP7|PP307_ARATH Pentatricopeptide repeat-containing protein At4g13650 OS=Arabidopsis thaliana GN=PCMP-H42 PE=2 SV=2

 Score =  343 bits (879), Expect = 3e-93,   Method: Compositional matrix adjust.
 Identities = 188/570 (32%), Positives = 316/570 (55%), Gaps = 4/570 (0%)

Query: 8   EQTLHLYKQELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISN 67
           E+ + L+K+ +H  GL  ++  L S++ AC+ A      G QLH    K G  ++  I  
Sbjct: 371 EKAMELFKR-MHLDGLEPDSNTLASLVVACS-ADGTLFRGQQLHAYTTKLGFASNNKIEG 428

Query: 68  SLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVL 127
           +L+++YAK +  E+A   F E    + + WN ++  +        S  +FR+M +   V 
Sbjct: 429 ALLNLYAKCADIETALDYFLETEVENVVLWNVMLVAYGLLDDLRNSFRIFRQMQIEEIVP 488

Query: 128 KAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRV 187
                  I+  C ++G+LELG QIH+ +I   +F+L+ +V + L+D+Y+K      A  +
Sbjct: 489 NQYTYPSILKTCIRLGDLELGEQIHSQII-KTNFQLNAYVCSVLIDMYAKLGKLDTAWDI 547

Query: 188 FEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDL 247
             +   ++ VSWT MI+G       D  +  FR M   G++   V LT  + ACA L+ L
Sbjct: 548 LIRFAGKDVVSWTTMIAGYTQYNFDDKALTTFRQMLDRGIRSDEVGLTNAVSACAGLQAL 607

Query: 248 RNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRG 307
           + G+ IH  A   GF  D     AL+ +Y  C + +  + + FE+T+  D + W++++ G
Sbjct: 608 KEGQQIHAQACVSGFSSDLPFQNALVTLYSRCGK-IEESYLAFEQTEAGDNIAWNALVSG 666

Query: 308 YSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFD 367
           + QSG+  EA+++F RM  E I+ N+ T  + + + +  + +  G  VH  I K G + +
Sbjct: 667 FQQSGNNEEALRVFVRMNREGIDNNNFTFGSAVKAASETANMKQGKQVHAVITKTGYDSE 726

Query: 368 VSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQE 427
             + NAL++MY+KCGSI+ + + F E++ ++ VSW  +I+ Y  HG+G EAL  F +M  
Sbjct: 727 TEVCNALISMYAKCGSISDAEKQFLEVSTKNEVSWNAIINAYSKHGFGSEALDSFDQMIH 786

Query: 428 SGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIE 487
           S V P+ +T++ +LSAC+H GLV +    F ++  E  ++   EHY C VD+L ++G + 
Sbjct: 787 SNVRPNHVTLVGVLSACSHIGLVDKGIAYFESMNSEYGLSPKPEHYVCVVDMLTRAGLLS 846

Query: 488 DACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCS 547
            A + +  MP+KP   +  +L+SAC +H  +E+ E  AH L+E EPE++A Y LLS + +
Sbjct: 847 RAKEFIQEMPIKPDALVWRTLLSACVVHKNMEIGEFAAHHLLELEPEDSATYVLLSNLYA 906

Query: 548 ESGNWLGAEEVWRVMRAKGLSKSYGFSRIE 577
            S  W   +   + M+ KG+ K  G S IE
Sbjct: 907 VSKKWDARDLTRQKMKEKGVKKEPGQSWIE 936

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SS83|PP220_ARATH Pentatricopeptide repeat-containing protein At3g09040, mitochondrial OS=Arabidopsis thaliana GN=PCMP-E88 PE=2 SV=1

 Score =  341 bits (874), Expect = 1e-92,   Method: Compositional matrix adjust.
 Identities = 188/565 (33%), Positives = 304/565 (53%), Gaps = 5/565 (0%)

Query: 17  ELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKF 76
           ++  SG   +     S++  CA A      G Q H   +K     +  + N+L+ MYAK 
Sbjct: 418 DMKSSGYNIDDFTFTSLLSTCA-ASHDLEMGSQFHSIIIKKKLAKNLFVGNALVDMYAKC 476

Query: 77  SKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGII 136
              E A Q+F+ M  RD ++WN+II  + Q+     + ++F+ M LCG V     LA  +
Sbjct: 477 GALEDARQIFERMCDRDNVTWNTIIGSYVQDENESEAFDLFKRMNLCGIVSDGACLASTL 536

Query: 137 SLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNE 196
             C+ +  L  G+Q+H L +  G  +  +   ++L+D+YSKC     A +VF  +   + 
Sbjct: 537 KACTHVHGLYQGKQVHCLSVKCG-LDRDLHTGSSLIDMYSKCGIIKDARKVFSSLPEWSV 595

Query: 197 VSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGY 256
           VS  A+I+G     N +  + LF+ M   GV P+ +T   ++ AC +   L  G   HG 
Sbjct: 596 VSMNALIAG-YSQNNLEEAVVLFQEMLTRGVNPSEITFATIVEACHKPESLTLGTQFHGQ 654

Query: 257 AYCCGFDFD-HHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLS 315
               GF  +  +L  +L+ MY           +  E +  K +V+W+ ++ G+SQ+G   
Sbjct: 655 ITKRGFSSEGEYLGISLLGMYMNSRGMTEACALFSELSSPKSIVLWTGMMSGHSQNGFYE 714

Query: 316 EAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALM 375
           EA+K +  MR + + P+  T + +L  C+  S L  G  +H  I     + D    N L+
Sbjct: 715 EALKFYKEMRHDGVLPDQATFVTVLRVCSVLSSLREGRAIHSLIFHLAHDLDELTSNTLI 774

Query: 376 NMYSKCGSITSSHQIFNEMAAR-DFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDA 434
           +MY+KCG +  S Q+F+EM  R + VSW +LI+GY  +GY E+AL++F  M++S + PD 
Sbjct: 775 DMYAKCGDMKGSSQVFDEMRRRSNVVSWNSLINGYAKNGYAEDALKIFDSMRQSHIMPDE 834

Query: 435 ITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVS 494
           IT L +L+AC+HAG V +   +F  ++ +  I   ++H AC VDLLG+ G +++A   + 
Sbjct: 835 ITFLGVLTACSHAGKVSDGRKIFEMMIGQYGIEARVDHVACMVDLLGRWGYLQEADDFIE 894

Query: 495 TMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLG 554
              +KP  R+ SSL+ ACRIHG     E+ A +LIE EP+N++ Y LLS + +  G W  
Sbjct: 895 AQNLKPDARLWSSLLGACRIHGDDIRGEISAEKLIELEPQNSSAYVLLSNIYASQGCWEK 954

Query: 555 AEEVWRVMRAKGLSKSYGFSRIENE 579
           A  + +VMR +G+ K  G+S I+ E
Sbjct: 955 ANALRKVMRDRGVKKVPGYSWIDVE 979

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	580
255561305	578	pentatricopeptide repeat-containing prot	0.989	0.993	0.576	0.0
356557599	601	PREDICTED: pentatricopeptide repeat-cont	0.991	0.956	0.554	0.0
357446017	622	Pentatricopeptide repeat-containing prot	0.991	0.924	0.536	1e-180
15235810	613	pentatricopeptide repeat-containing prot	0.994	0.941	0.515	1e-169
223635626	624	RecName: Full=Pentatricopeptide repeat-c	0.994	0.924	0.515	1e-169
297798862	598	pentatricopeptide repeat-containing prot	0.991	0.961	0.512	1e-168
124359403	460	Tetratricopeptide-like helical [Medicago	0.717	0.904	0.514	1e-121
148909481	795	unknown [Picea sitchensis]	0.982	0.716	0.375	1e-115
147854092	886	hypothetical protein VITISV_041405 [Viti	0.986	0.645	0.372	1e-111
225436612	694	PREDICTED: pentatricopeptide repeat-cont	0.986	0.824	0.372	1e-111

>gi|255561305|ref|XP_002521663.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223539054|gb|EEF40650.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  691 bits (1782), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 332/576 (57%), Positives = 431/576 (74%), Gaps = 2/576 (0%)

Query: 1   MVSKHFYEQTLHLYKQELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSD 60
           MVSK    Q L  YK ELH S +Y+N  I+PSVIKAC+++  H HFG+QL+   LKSG D
Sbjct: 1   MVSKGLNHQILKFYK-ELHSSDIYANAYIIPSVIKACSFSNCH-HFGIQLYSIVLKSGLD 58

Query: 61  ADPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREM 120
           +D VI NS IS YAK S  ESA ++FD MP +D ISWN IIN + QNG++ +   MF+EM
Sbjct: 59  SDFVICNSFISFYAKSSCTESALKVFDTMPLKDPISWNCIINGYFQNGYFTQGFIMFKEM 118

Query: 121 YLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHH 180
           Y CG V K EL+A ++S+C ++G+++LGR IHALV++DG     +FV T+L+D Y K   
Sbjct: 119 YECGIVPKPELVASVVSVCVRLGDMKLGRAIHALVLIDGRIAKEIFVLTSLVDWYFKSGD 178

Query: 181 WLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLA 240
            L+ALRVF+Q+ ++N VSWTA++SGC  + +Y+  +D FRAMQ  GV+P RVTL  +L A
Sbjct: 179 SLMALRVFDQIEVKNVVSWTALVSGCSANLDYNMALDCFRAMQINGVRPNRVTLIAILPA 238

Query: 241 CAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVI 300
            AEL   + GK IHGYA+  GFD DHH  ++L+H+YC   E L  A++ FER+ VKDVV+
Sbjct: 239 FAELGCAKTGKEIHGYAFRHGFDLDHHFLSSLIHIYCRSREGLQLAKLTFERSNVKDVVM 298

Query: 301 WSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIM 360
           WSSII  Y +S D  EA+KLF  MR +  EPNSVTLLA++++CT  + L +G G H YI+
Sbjct: 299 WSSIIGSYCRSADSIEALKLFRWMRADGTEPNSVTLLAVITACTTLTSLKNGYGTHGYIV 358

Query: 361 KAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQ 420
           K GLNFD  IGNAL+NMYSKCG + +SHQIF EM  +D VSW+TLI+ YG HG+G+EAL 
Sbjct: 359 KCGLNFDTYIGNALINMYSKCGCVVASHQIFKEMHIKDSVSWSTLITAYGLHGHGKEALC 418

Query: 421 LFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLL 480
           LF EMQ  GVEPDA+T LA+LSACNH+GLVKE + +F+NV K+ K++L +EHYAC VDLL
Sbjct: 419 LFHEMQLQGVEPDAMTFLAVLSACNHSGLVKEGQQIFDNVKKDGKVSLTVEHYACLVDLL 478

Query: 481 GKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYT 540
           GKSGK++DA  ++  MPMKPST I SSLVSAC+IHGRLE+AE LA +LI++EP NAAN+T
Sbjct: 479 GKSGKVDDAFDILRAMPMKPSTTIWSSLVSACKIHGRLEIAERLAQELIKSEPSNAANHT 538

Query: 541 LLSMVCSESGNWLGAEEVWRVMRAKGLSKSYGFSRI 576
           LLSM+ +ESGNW   E+V R+MR +GLSK YGFS++
Sbjct: 539 LLSMIYAESGNWFAVEDVRRLMRVQGLSKCYGFSQV 574

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356557599|ref|XP_003547103.1| PREDICTED: pentatricopeptide repeat-containing protein At4g31070, mitochondrial-like [Glycine max]

 Score =  642 bits (1655), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 320/577 (55%), Positives = 415/577 (71%), Gaps = 2/577 (0%)

Query: 1   MVSKHFYEQTLHLYKQELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSD 60
            +SK  Y QTL L+  ELH  G  S +  LPSVIKA + AQ H  FG QLHC ALK+GS 
Sbjct: 26  FLSKGLYHQTLQLF-SELHLCGHSSISFFLPSVIKASSSAQCHT-FGTQLHCLALKTGSH 83

Query: 61  ADPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREM 120
           ++ V+SNS+I+MY KFS   SA Q+FD MP+RD I+WNS+IN +  NG+   +LE   ++
Sbjct: 84  SETVVSNSIITMYFKFSDVGSARQVFDTMPHRDPITWNSLINGYLHNGYLEEALEALNDV 143

Query: 121 YLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHH 180
           YL G V K ELLA ++S+C +    ++GRQIHALV+V+     S+F+STAL+D Y +C  
Sbjct: 144 YLLGLVPKPELLASVVSMCGRRMGSKIGRQIHALVVVNERIGQSMFLSTALVDFYFRCGD 203

Query: 181 WLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLA 240
            L+ALRVF+ M ++N VSWT MISGCI  Q+YD     FRAMQ EGV P RVT   +L A
Sbjct: 204 SLMALRVFDGMEVKNVVSWTTMISGCIAHQDYDEAFACFRAMQAEGVCPNRVTSIALLSA 263

Query: 241 CAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVI 300
           CAE   +++GK IHGYA+  GF+     S+AL++MYC+C E +H A +IFE +  +DVV+
Sbjct: 264 CAEPGFVKHGKEIHGYAFRHGFESCPSFSSALVNMYCQCGEPMHLAELIFEGSSFRDVVL 323

Query: 301 WSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIM 360
           WSSII  +S+ GD  +A+KLF++MR E IEPN VTLLA++S+CT  S L HG G+H YI 
Sbjct: 324 WSSIIGSFSRRGDSFKALKLFNKMRTEEIEPNYVTLLAVISACTNLSSLKHGCGLHGYIF 383

Query: 361 KAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQ 420
           K G  F +S+GNAL+NMY+KCG +  S ++F EM  RD V+W++LIS YG HG GE+ALQ
Sbjct: 384 KFGFCFSISVGNALINMYAKCGCLNGSRKMFLEMPNRDNVTWSSLISAYGLHGCGEQALQ 443

Query: 421 LFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLL 480
           +F EM E GV+PDAIT LA+LSACNHAGLV E + +F  V  + +I L IEHYAC VDLL
Sbjct: 444 IFYEMNERGVKPDAITFLAVLSACNHAGLVAEGQRIFKQVRADCEIPLTIEHYACLVDLL 503

Query: 481 GKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYT 540
           G+SGK+E A ++  TMPMKPS RI SSLVSAC++HGRL++AEMLA QLI +EP NA NYT
Sbjct: 504 GRSGKLEYALEIRRTMPMKPSARIWSSLVSACKLHGRLDIAEMLAPQLIRSEPNNAGNYT 563

Query: 541 LLSMVCSESGNWLGAEEVWRVMRAKGLSKSYGFSRIE 577
           LL+ + +E G+WL  E+V   M+ + L K YGFSRIE
Sbjct: 564 LLNTIYAEHGHWLDTEQVREAMKLQKLKKCYGFSRIE 600

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357446017|ref|XP_003593286.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355482334|gb|AES63537.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  639 bits (1648), Expect = e-180,   Method: Compositional matrix adjust.
 Identities = 313/583 (53%), Positives = 420/583 (72%), Gaps = 8/583 (1%)

Query: 1   MVSKHFYEQTLHLYKQELHPSGLYSNTA--ILPSVIKACAYAQTHQHFGLQLHCTALKSG 58
           +VS   Y QTL  + Q LH S  + N+   +LPSVIKAC++   H  FG QLHC A  +G
Sbjct: 39  LVSMGLYHQTLQFFTQ-LHFSAHHFNSIPFVLPSVIKACSFTHFHA-FGTQLHCLAFITG 96

Query: 59  SDADPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFR 118
           S  DP++SNS+ISMYAKF   ESA Q+FD MP+RDTI+WNS+IN + QNG  V +L+M +
Sbjct: 97  SYTDPIVSNSIISMYAKFFDIESARQVFDTMPHRDTITWNSMINAYLQNGLLVEALQMLK 156

Query: 119 EMYLCGFVLKAELLAGIISLCSQIGEL--ELGRQIHALVIVDGSFEL--SVFVSTALLDL 174
           + Y  GF+ K ELLA ++S+C +  +L   +GRQIH LV+VDG   +  SVF+STA +D 
Sbjct: 157 DFYFLGFLPKPELLASMVSMCGREMDLGWRIGRQIHGLVVVDGRIRIQHSVFLSTAFVDF 216

Query: 175 YSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTL 234
           Y +C   L+A  VF++M ++NEVSWTA+ISGC ++Q+YD  +  +R MQ EGV P RVTL
Sbjct: 217 YFRCGDSLMARSVFDEMEVKNEVSWTAVISGCANNQDYDVALACYREMQVEGVSPNRVTL 276

Query: 235 TIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTK 294
             +L ACA    ++ GK IHGYA+  GFD  H  S AL+++YCEC ++LH A  IFE + 
Sbjct: 277 IALLAACARPGFVKYGKEIHGYAFRRGFDSCHSFSPALIYLYCECGQSLHLAERIFEGSS 336

Query: 295 VKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLG 354
           ++DVV+WSSII  Y++ G+  +A+KLF++MR E  EPN VTLLA++S+CT  S   HG  
Sbjct: 337 LRDVVLWSSIIGSYARRGESDKALKLFNKMRTEETEPNYVTLLAVISACTNLSSFKHGGV 396

Query: 355 VHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGY 414
           +H YI+K G+ F + + NAL+NMY+KCGS+  S +IF EM +RD V+W ++IS YG HGY
Sbjct: 397 IHGYILKFGIGFSIFVCNALINMYAKCGSLDDSRKIFLEMPSRDSVTWNSMISAYGLHGY 456

Query: 415 GEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYA 474
           GE+ALQ F EM+E GV+ DA+T LA+LSACNHAGLV E + LF  V  + +I + IEHYA
Sbjct: 457 GEQALQHFYEMKERGVKLDAVTFLAVLSACNHAGLVTEGQQLFEQVNADCEIPITIEHYA 516

Query: 475 CYVDLLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPE 534
           C +DL G+SGK+EDA +++ TMPMKPS RI SSLVS+C++HGRL++AE L+ QLI +EP 
Sbjct: 517 CLIDLHGRSGKLEDALEILRTMPMKPSARIWSSLVSSCKLHGRLDIAESLSSQLIRSEPN 576

Query: 535 NAANYTLLSMVCSESGNWLGAEEVWRVMRAKGLSKSYGFSRIE 577
           NAA+YTLLSM+ +E G WL  E+V   M+ + L K YGFSRIE
Sbjct: 577 NAASYTLLSMIHAEKGRWLDIEQVRETMKLQRLRKCYGFSRIE 619

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15235810|ref|NP_194836.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|2980759|emb|CAA18186.1| putative protein [Arabidopsis thaliana] gi|7270009|emb|CAB79825.1| putative protein [Arabidopsis thaliana] gi|332660453|gb|AEE85853.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  602 bits (1551), Expect = e-169,   Method: Compositional matrix adjust.
 Identities = 300/582 (51%), Positives = 420/582 (72%), Gaps = 5/582 (0%)

Query: 1   MVSKHFYEQTLHLYKQELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSD 60
           +VS  FY++ L LYK ++H  G    TAILPSVIKACA+ Q     G QLHC  LK+G+D
Sbjct: 20  LVSDQFYDEALRLYKLKIHSLGTNGFTAILPSVIKACAFQQEPFLLGAQLHCLCLKAGAD 79

Query: 61  ADPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREM 120
            D V+SNSLISMYAKFS+  +  ++FDEM +RDT+S+ SIIN   Q+G    ++++ +EM
Sbjct: 80  CDTVVSNSLISMYAKFSRKYAVRKVFDEMLHRDTVSYCSIINSCCQDGLLYEAMKLIKEM 139

Query: 121 YLCGFVLKAELLAGIISLCSQIGEL-ELGRQIHALVIVDGSFELSVFVSTALLDLYSKCH 179
           Y  GF+ K+EL+A +++LC+++G   ++ R  HALV+VD   + SV +STAL+D+Y K  
Sbjct: 140 YFYGFIPKSELVASLLALCTRMGSSSKVARMFHALVLVDERMQESVLLSTALVDMYLKFD 199

Query: 180 HWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLL 239
               A  VF+QM ++NEVSWTAMISGC+ +QNY+ G+DLFRAMQRE ++P RVTL  VL 
Sbjct: 200 DHAAAFHVFDQMEVKNEVSWTAMISGCVANQNYEMGVDLFRAMQRENLRPNRVTLLSVLP 259

Query: 240 ACAELRDLRN-GKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDV 298
           AC EL    +  K IHG+++  G   D  L+AA M MYC C   +  +R++FE +KV+DV
Sbjct: 260 ACVELNYGSSLVKEIHGFSFRHGCHADERLTAAFMTMYCRCGN-VSLSRVLFETSKVRDV 318

Query: 299 VIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCY 358
           V+WSS+I GY+++GD SE M L ++MR E IE NSVTLLAI+S+CT  + LS    VH  
Sbjct: 319 VMWSSMISGYAETGDCSEVMNLLNQMRKEGIEANSVTLLAIVSACTNSTLLSFASTVHSQ 378

Query: 359 IMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEA 418
           I+K G    + +GNAL++MY+KCGS++++ ++F E+  +D VSW+++I+ YG HG+G EA
Sbjct: 379 ILKCGFMSHILLGNALIDMYAKCGSLSAAREVFYELTEKDLVSWSSMINAYGLHGHGSEA 438

Query: 419 LQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVD 478
           L++F  M + G E D +  LAILSACNHAGLV+EA+T+F    K   + + +EHYACY++
Sbjct: 439 LEIFKGMIKGGHEVDDMAFLAILSACNHAGLVEEAQTIFTQAGK-YHMPVTLEHYACYIN 497

Query: 479 LLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVA-EMLAHQLIEAEPENAA 537
           LLG+ GKI+DA +V   MPMKPS RI SSL+SAC  HGRL+VA +++A++L+++EP+N A
Sbjct: 498 LLGRFGKIDDAFEVTINMPMKPSARIWSSLLSACETHGRLDVAGKIIANELMKSEPDNPA 557

Query: 538 NYTLLSMVCSESGNWLGAEEVWRVMRAKGLSKSYGFSRIENE 579
           NY LLS + +ESGN+  AEEV RVM+ + L+K YGFS+IE E
Sbjct: 558 NYVLLSKIHTESGNYHAAEEVRRVMQRRKLNKCYGFSKIEPE 599

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|223635626|sp|O65543.2|PP343_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At4g31070, mitochondrial; Flags: Precursor

 Score =  601 bits (1549), Expect = e-169,   Method: Compositional matrix adjust.
 Identities = 300/582 (51%), Positives = 420/582 (72%), Gaps = 5/582 (0%)

Query: 1   MVSKHFYEQTLHLYKQELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSD 60
           +VS  FY++ L LYK ++H  G    TAILPSVIKACA+ Q     G QLHC  LK+G+D
Sbjct: 31  LVSDQFYDEALRLYKLKIHSLGTNGFTAILPSVIKACAFQQEPFLLGAQLHCLCLKAGAD 90

Query: 61  ADPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREM 120
            D V+SNSLISMYAKFS+  +  ++FDEM +RDT+S+ SIIN   Q+G    ++++ +EM
Sbjct: 91  CDTVVSNSLISMYAKFSRKYAVRKVFDEMLHRDTVSYCSIINSCCQDGLLYEAMKLIKEM 150

Query: 121 YLCGFVLKAELLAGIISLCSQIGEL-ELGRQIHALVIVDGSFELSVFVSTALLDLYSKCH 179
           Y  GF+ K+EL+A +++LC+++G   ++ R  HALV+VD   + SV +STAL+D+Y K  
Sbjct: 151 YFYGFIPKSELVASLLALCTRMGSSSKVARMFHALVLVDERMQESVLLSTALVDMYLKFD 210

Query: 180 HWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLL 239
               A  VF+QM ++NEVSWTAMISGC+ +QNY+ G+DLFRAMQRE ++P RVTL  VL 
Sbjct: 211 DHAAAFHVFDQMEVKNEVSWTAMISGCVANQNYEMGVDLFRAMQRENLRPNRVTLLSVLP 270

Query: 240 ACAELRDLRN-GKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDV 298
           AC EL    +  K IHG+++  G   D  L+AA M MYC C   +  +R++FE +KV+DV
Sbjct: 271 ACVELNYGSSLVKEIHGFSFRHGCHADERLTAAFMTMYCRCGN-VSLSRVLFETSKVRDV 329

Query: 299 VIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCY 358
           V+WSS+I GY+++GD SE M L ++MR E IE NSVTLLAI+S+CT  + LS    VH  
Sbjct: 330 VMWSSMISGYAETGDCSEVMNLLNQMRKEGIEANSVTLLAIVSACTNSTLLSFASTVHSQ 389

Query: 359 IMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEA 418
           I+K G    + +GNAL++MY+KCGS++++ ++F E+  +D VSW+++I+ YG HG+G EA
Sbjct: 390 ILKCGFMSHILLGNALIDMYAKCGSLSAAREVFYELTEKDLVSWSSMINAYGLHGHGSEA 449

Query: 419 LQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVD 478
           L++F  M + G E D +  LAILSACNHAGLV+EA+T+F    K   + + +EHYACY++
Sbjct: 450 LEIFKGMIKGGHEVDDMAFLAILSACNHAGLVEEAQTIFTQAGK-YHMPVTLEHYACYIN 508

Query: 479 LLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVA-EMLAHQLIEAEPENAA 537
           LLG+ GKI+DA +V   MPMKPS RI SSL+SAC  HGRL+VA +++A++L+++EP+N A
Sbjct: 509 LLGRFGKIDDAFEVTINMPMKPSARIWSSLLSACETHGRLDVAGKIIANELMKSEPDNPA 568

Query: 538 NYTLLSMVCSESGNWLGAEEVWRVMRAKGLSKSYGFSRIENE 579
           NY LLS + +ESGN+  AEEV RVM+ + L+K YGFS+IE E
Sbjct: 569 NYVLLSKIHTESGNYHAAEEVRRVMQRRKLNKCYGFSKIEPE 610

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297798862|ref|XP_002867315.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297313151|gb|EFH43574.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  598 bits (1543), Expect = e-168,   Method: Compositional matrix adjust.
 Identities = 297/580 (51%), Positives = 417/580 (71%), Gaps = 5/580 (0%)

Query: 1   MVSKHFYEQTLHLYKQELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSD 60
           +VS   +++ L LYK  +HP G    TAILPSVIKAC++ Q     G QLHC   KSG+D
Sbjct: 20  LVSGQLHDEALRLYKLNIHPLGTNGFTAILPSVIKACSFQQEPFLLGAQLHCLCFKSGAD 79

Query: 61  ADPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREM 120
            D V+SNSLISMYAK S+  +A ++FDEM  RDT+S+ SI+NC+ Q+G    ++++ +EM
Sbjct: 80  RDTVVSNSLISMYAKLSRAYAARKVFDEMLQRDTVSYCSIVNCYCQDGLLSEAMKLLKEM 139

Query: 121 YLCGFVLKAELLAGIISLCSQIGEL-ELGRQIHALVIVDGSFELSVFVSTALLDLYSKCH 179
           Y  GFV K+EL+A +++LC+++G   ++ R +HALV+VD   + SV +STALLD+Y K  
Sbjct: 140 YFYGFVPKSELVASLLALCTRMGSSSKVARMLHALVLVDERIQESVLLSTALLDMYLKFD 199

Query: 180 HWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLL 239
               A  VF+QM ++NEVSWTAMISGC+ + NY+ GID FRAMQRE ++P RVTL  VL 
Sbjct: 200 DPAAAFHVFDQMELKNEVSWTAMISGCVANYNYEVGIDFFRAMQRENLRPNRVTLLSVLP 259

Query: 240 ACAEL-RDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDV 298
           AC EL   LR  K IHG+++  GF  D  L AA M MYC C  ++  +R++FE +KV+DV
Sbjct: 260 ACVELGYGLRLVKEIHGFSFRHGFHSDDRLIAAFMTMYCRCG-SVSLSRLLFETSKVRDV 318

Query: 299 VIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCY 358
           V+WSS+I GY+++GD SEAM L S+MR E  EPNSVTLLA++S+CT  + L     VH  
Sbjct: 319 VMWSSMISGYAENGDCSEAMNLLSQMRKEGSEPNSVTLLAVVSACTHSASLKIASTVHSQ 378

Query: 359 IMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEA 418
           I+K G    + + NAL++MY+KCGS+ ++ ++F E+  +D VSW+++I+ YG HG+G EA
Sbjct: 379 ILKCGFMSHILLSNALIDMYAKCGSLPAAREVFYELNEKDLVSWSSMINAYGLHGHGSEA 438

Query: 419 LQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVD 478
           L++F  M ++G E D +  LA+LSACNHAGLV+EA+T+F    K   + + +EHY+CY++
Sbjct: 439 LEIFKGMIKAGHEVDGMAFLAVLSACNHAGLVEEAQTIFTQAGK-YHMPVTLEHYSCYIN 497

Query: 479 LLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVA-EMLAHQLIEAEPENAA 537
           LLG+ GKI+DA +V   MPMKPS RI SSL+SAC  HGRL+VA +++A++L+++EP+N A
Sbjct: 498 LLGRFGKIDDAFEVTINMPMKPSARIWSSLLSACETHGRLDVACKIIANELMKSEPDNPA 557

Query: 538 NYTLLSMVCSESGNWLGAEEVWRVMRAKGLSKSYGFSRIE 577
           NY LLS + +ESGN   AEEVW+ M+ + L+K YGFS+IE
Sbjct: 558 NYVLLSKIHTESGNCDAAEEVWKFMQRRQLNKCYGFSKIE 597

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|124359403|gb|ABN05862.1| Tetratricopeptide-like helical [Medicago truncatula]

 Score =  442 bits (1138), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 218/424 (51%), Positives = 298/424 (70%), Gaps = 8/424 (1%)

Query: 1   MVSKHFYEQTLHLYKQELHPSGLYSNTA--ILPSVIKACAYAQTHQHFGLQLHCTALKSG 58
           +VS   Y QTL  + Q LH S  + N+   +LPSVIKAC++   H  FG QLHC A  +G
Sbjct: 39  LVSMGLYHQTLQFFTQ-LHFSAHHFNSIPFVLPSVIKACSFTHFHA-FGTQLHCLAFITG 96

Query: 59  SDADPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFR 118
           S  DP++SNS+ISMYAKF   ESA Q+FD MP+RDTI+WNS+IN + QNG  V +L+M +
Sbjct: 97  SYTDPIVSNSIISMYAKFFDIESARQVFDTMPHRDTITWNSMINAYLQNGLLVEALQMLK 156

Query: 119 EMYLCGFVLKAELLAGIISLCSQIGEL--ELGRQIHALVIVDGSFEL--SVFVSTALLDL 174
           + Y  GF+ K ELLA ++S+C +  +L   +GRQIH LV+VDG   +  SVF+STA +D 
Sbjct: 157 DFYFLGFLPKPELLASMVSMCGREMDLGWRIGRQIHGLVVVDGRIRIQHSVFLSTAFVDF 216

Query: 175 YSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTL 234
           Y +C   L+A  VF++M ++NEVSWTA+ISGC ++Q+YD  +  +R MQ EGV P RVTL
Sbjct: 217 YFRCGDSLMARSVFDEMEVKNEVSWTAVISGCANNQDYDVALACYREMQVEGVSPNRVTL 276

Query: 235 TIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTK 294
             +L ACA    ++ GK IHGYA+  GFD  H  S AL+++YCEC ++LH A  IFE + 
Sbjct: 277 IALLAACARPGFVKYGKEIHGYAFRRGFDSCHSFSPALIYLYCECGQSLHLAERIFEGSS 336

Query: 295 VKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLG 354
           ++DVV+WSSII  Y++ G+  +A+KLF++MR E  EPN VTLLA++S+CT  S   HG  
Sbjct: 337 LRDVVLWSSIIGSYARRGESDKALKLFNKMRTEETEPNYVTLLAVISACTNLSSFKHGGV 396

Query: 355 VHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGY 414
           +H YI+K G+ F + + NAL+NMY+KCGS+  S +IF EM +RD V+W ++IS YG HGY
Sbjct: 397 IHGYILKFGIGFSIFVCNALINMYAKCGSLDDSRKIFLEMPSRDSVTWNSMISAYGLHGY 456

Query: 415 GEEA 418
           GE+A
Sbjct: 457 GEQA 460

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|148909481|gb|ABR17838.1| unknown [Picea sitchensis]

 Score =  423 bits (1087), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 216/576 (37%), Positives = 347/576 (60%), Gaps = 6/576 (1%)

Query: 2   VSKHFYEQTLHLYKQELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDA 61
           V   F+ + L LY Q +  +G+  +  +  SVIKAC  +Q+    G ++H   +  G ++
Sbjct: 96  VKNGFWNKALRLYYQ-MQRTGINPDKLVFLSVIKACG-SQSDLQAGRKVHEDIIARGFES 153

Query: 62  DPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREMY 121
           D ++  +L SMY K    E+A Q+FD MP RD +SWN+II  ++QNG    +L +F EM 
Sbjct: 154 DVIVGTALASMYTKCGSLENARQVFDRMPKRDVVSWNAIIAGYSQNGQPYEALALFSEMQ 213

Query: 122 LCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHW 181
           + G    +  L  ++ +C+ +  LE G+QIH   I  G  E  V V   L+++Y+KC + 
Sbjct: 214 VNGIKPNSSTLVSVMPVCAHLLALEQGKQIHCYAIRSG-IESDVLVVNGLVNMYAKCGNV 272

Query: 182 LIALRVFEQMVIRNEVSWTAMISG-CIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLA 240
             A ++FE+M IR+  SW A+I G  ++SQ+++  +  F  MQ  G+KP  +T+  VL A
Sbjct: 273 NTAHKLFERMPIRDVASWNAIIGGYSLNSQHHEA-LAFFNRMQVRGIKPNSITMVSVLPA 331

Query: 241 CAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVI 300
           CA L  L  G+ IHGYA   GF+ +  +  AL++MY +C   ++ A  +FER   K+VV 
Sbjct: 332 CAHLFALEQGQQIHGYAIRSGFESNDVVGNALVNMYAKCGN-VNSAYKLFERMPKKNVVA 390

Query: 301 WSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIM 360
           W++II GYSQ G   EA+ LF  M+ + I+P+S  ++++L +C     L  G  +H Y +
Sbjct: 391 WNAIISGYSQHGHPHEALALFIEMQAQGIKPDSFAIVSVLPACAHFLALEQGKQIHGYTI 450

Query: 361 KAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQ 420
           ++G   +V +G  L+++Y+KCG++ ++ ++F  M  +D VSWTT+I  YG HG+GE+AL 
Sbjct: 451 RSGFESNVVVGTGLVDIYAKCGNVNTAQKLFERMPEQDVVSWTTMILAYGIHGHGEDALA 510

Query: 421 LFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLL 480
           LF +MQE+G + D I   AIL+AC+HAGLV +    F  +  +  +A  +EHYAC VDLL
Sbjct: 511 LFSKMQETGTKLDHIAFTAILTACSHAGLVDQGLQYFQCMKSDYGLAPKLEHYACLVDLL 570

Query: 481 GKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYT 540
           G++G +++A  ++  M ++P   +  +L+ ACRIH  +E+ E  A  L E +P+NA  Y 
Sbjct: 571 GRAGHLDEANGIIKNMSLEPDANVWGALLGACRIHCNIELGEQAAKHLFELDPDNAGYYV 630

Query: 541 LLSMVCSESGNWLGAEEVWRVMRAKGLSKSYGFSRI 576
           LLS + +E+  W    ++ ++M+ KG+ K  G S +
Sbjct: 631 LLSNIYAEAQRWEDVAKLRKMMKEKGVKKQPGCSVV 666

Source: Picea sitchensis

Species: Picea sitchensis

Genus: Picea

Family: Pinaceae

Order: Coniferales

Class: Coniferopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147854092|emb|CAN83391.1| hypothetical protein VITISV_041405 [Vitis vinifera]

 Score =  410 bits (1053), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 215/577 (37%), Positives = 356/577 (61%), Gaps = 5/577 (0%)

Query: 3   SKHF-YEQTLHLYKQELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDA 61
           +K+F + + L ++ + LH   L  +    PSV+KAC+       +G  +H   +KSG   
Sbjct: 273 TKNFIFIEGLEVFHRLLHFPYLKPDAFTYPSVLKACS-GLGRVGYGKMVHTHVIKSGFAM 331

Query: 62  DPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREMY 121
           D V+ +S + MYAK +  E A +LFDEMP RD  SWN++I+C+ Q+G   ++LE+F EM 
Sbjct: 332 DVVVMSSAVGMYAKCNVFEDAIKLFDEMPERDVASWNNVISCYYQDGQPEKALELFEEMK 391

Query: 122 LCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHW 181
           + GF   +  L  +IS C+++ +LE G++IH + +V   F L  FVS+AL+D+Y KC   
Sbjct: 392 VSGFKPDSVTLTTVISSCARLLDLERGKEIH-MELVRSGFALDGFVSSALVDMYGKCGCL 450

Query: 182 LIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLAC 241
            +A  VFEQ+  +N VSW +MI+G     +  + I+LFR M  EG++PT  TL+ +L+AC
Sbjct: 451 EMAKEVFEQIQRKNVVSWNSMIAGYSLKGDSKSCIELFRRMDEEGIRPTLTTLSSILMAC 510

Query: 242 AELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIW 301
           +   +L+ GK IHGY      + D  ++++L+ +Y +C   +  A  +F+     +VV W
Sbjct: 511 SRSVNLQLGKFIHGYIIRNRVEADIFVNSSLIDLYFKCGN-IGSAENVFQNMPKTNVVSW 569

Query: 302 SSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMK 361
           + +I GY + G   EA+ +F+ MR   ++P+++T  ++L +C++ + L  G  +H +I++
Sbjct: 570 NVMISGYVKVGSYLEALVIFTDMRKAGVKPDAITFTSVLPACSQLAVLEKGKEIHNFIIE 629

Query: 362 AGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQL 421
           + L  +  +  AL++MY+KCG++  +  IFN++  RDFVSWT++I+ YG HG   EAL+L
Sbjct: 630 SKLEINEVVMGALLDMYAKCGAVDEALHIFNQLPERDFVSWTSMIAAYGSHGQAFEALKL 689

Query: 422 FLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLG 481
           F +MQ+S  +PD +T LAILSAC+HAGLV E    FN ++ E     A+EHY+C +DLLG
Sbjct: 690 FEKMQQSDAKPDKVTFLAILSACSHAGLVDEGCYYFNQMIAEYGFKPAVEHYSCLIDLLG 749

Query: 482 KSGKIEDACKVVSTMP-MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYT 540
           + G++ +A +++   P ++    +LS+L SAC +H +L++ E +   LIE +P++ + Y 
Sbjct: 750 RVGRLREAYEILQRTPDIREDVGLLSTLFSACHLHKKLDLGEQIGRLLIEKDPDDPSTYI 809

Query: 541 LLSMVCSESGNWLGAEEVWRVMRAKGLSKSYGFSRIE 577
           +LS + +    W    +V   ++  GL K+ G S IE
Sbjct: 810 ILSNMYASVKKWDEVRKVRLKIKELGLKKNPGCSWIE 846

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225436612|ref|XP_002275537.1| PREDICTED: pentatricopeptide repeat-containing protein At5g27110-like [Vitis vinifera]

 Score =  409 bits (1052), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 215/577 (37%), Positives = 356/577 (61%), Gaps = 5/577 (0%)

Query: 3   SKHF-YEQTLHLYKQELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDA 61
           +K+F + + L ++ + LH   L  +    PSV+KAC+       +G  +H   +KSG   
Sbjct: 81  TKNFIFIEGLEVFHRLLHFPYLKPDAFTYPSVLKACS-GLGRVGYGKMVHTHVIKSGFAM 139

Query: 62  DPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREMY 121
           D V+ +S + MYAK +  E A +LFDEMP RD  SWN++I+C+ Q+G   ++LE+F EM 
Sbjct: 140 DVVVMSSAVGMYAKCNVFEDAIKLFDEMPERDVASWNNVISCYYQDGQPEKALELFEEMK 199

Query: 122 LCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHW 181
           + GF   +  L  +IS C+++ +LE G++IH + +V   F L  FVS+AL+D+Y KC   
Sbjct: 200 VSGFKPDSVTLTTVISSCARLLDLERGKEIH-MELVRSGFALDGFVSSALVDMYGKCGCL 258

Query: 182 LIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLAC 241
            +A  VFEQ+  +N VSW +MI+G     +  + I+LFR M  EG++PT  TL+ +L+AC
Sbjct: 259 EMAKEVFEQIQRKNVVSWNSMIAGYSLKGDSKSCIELFRRMDEEGIRPTLTTLSSILMAC 318

Query: 242 AELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIW 301
           +   +L+ GK IHGY      + D  ++++L+ +Y +C   +  A  +F+     +VV W
Sbjct: 319 SRSVNLQLGKFIHGYIIRNRVEADIFVNSSLIDLYFKCGN-IGSAENVFQNMPKTNVVSW 377

Query: 302 SSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMK 361
           + +I GY + G   EA+ +F+ MR   ++P+++T  ++L +C++ + L  G  +H +I++
Sbjct: 378 NVMISGYVKVGSYLEALVIFTDMRKAGVKPDAITFTSVLPACSQLAVLEKGKEIHNFIIE 437

Query: 362 AGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQL 421
           + L  +  +  AL++MY+KCG++  +  IFN++  RDFVSWT++I+ YG HG   EAL+L
Sbjct: 438 SKLEINEVVMGALLDMYAKCGAVDEALHIFNQLPERDFVSWTSMIAAYGSHGQAFEALKL 497

Query: 422 FLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLG 481
           F +MQ+S  +PD +T LAILSAC+HAGLV E    FN ++ E     A+EHY+C +DLLG
Sbjct: 498 FEKMQQSDAKPDKVTFLAILSACSHAGLVDEGCYYFNQMIAEYGFKPAVEHYSCLIDLLG 557

Query: 482 KSGKIEDACKVVSTMP-MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYT 540
           + G++ +A +++   P ++    +LS+L SAC +H +L++ E +   LIE +P++ + Y 
Sbjct: 558 RVGRLREAYEILQRTPDIREDVGLLSTLFSACHLHKKLDLGEQIGRLLIEKDPDDPSTYI 617

Query: 541 LLSMVCSESGNWLGAEEVWRVMRAKGLSKSYGFSRIE 577
           +LS + +    W    +V   ++  GL K+ G S IE
Sbjct: 618 ILSNMYASVKKWDEVRKVRLKIKELGLKKNPGCSWIE 654

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	580
TAIR|locus:2181201	691	AT5G27110 [Arabidopsis thalian	0.984	0.826	0.361	1e-98
TAIR|locus:2124137	871	DOT4 "DEFECTIVELY ORGANIZED TR	0.977	0.650	0.356	1.5e-97
TAIR|locus:2083631	689	AT3G15130 "AT3G15130" [Arabido	0.943	0.793	0.353	1.6e-93
TAIR|locus:2175653	677	AT5G39350 "AT5G39350" [Arabido	0.937	0.803	0.357	3.4e-93
TAIR|locus:2202074	809	CRR22 "CHLORORESPIRATORY REDUC	0.927	0.665	0.342	1.1e-89
TAIR|locus:2038603	868	AT2G27610 "AT2G27610" [Arabido	0.905	0.604	0.341	3.2e-88
TAIR|locus:2095289	1028	AT3G09040 "AT3G09040" [Arabido	0.977	0.551	0.329	4.1e-88
TAIR|locus:2063771	689	AT2G03380 [Arabidopsis thalian	0.968	0.815	0.326	6.7e-88
TAIR|locus:2119440	1064	AT4G13650 [Arabidopsis thalian	0.975	0.531	0.329	2.9e-87
TAIR|locus:2118964	823	EMB2758 "embryo defective 2758	0.943	0.664	0.338	1.6e-86

TAIR|locus:2181201 AT5G27110 [Arabidopsis thaliana (taxid:3702)]

 Score = 980 (350.0 bits), Expect = 1.0e-98, P = 1.0e-98
 Identities = 209/578 (36%), Positives = 348/578 (60%)

Query:     3 SKH-FYEQTLHLYKQELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDA 61
             SK+  +  TL ++K+ L+ S    ++   P+VIKA   A   +  G  +H   +KSG   
Sbjct:    82 SKNSMFHDTLEVFKRLLNCSICVPDSFTFPNVIKAYG-ALGREFLGRMIHTLVVKSGYVC 140

Query:    62 DPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREMY 121
             D V+++SL+ MYAKF+  E++ Q+FDEMP RD  SWN++I+CF Q+G   ++LE+F  M 
Sbjct:   141 DVVVASSLVGMYAKFNLFENSLQVFDEMPERDVASWNTVISCFYQSGEAEKALELFGRME 200

Query:   122 LCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHW 181
               GF   +  L   IS CS++  LE G++IH   +  G FEL  +V++AL+D+Y KC   
Sbjct:   201 SSGFEPNSVSLTVAISACSRLLWLERGKEIHRKCVKKG-FELDEYVNSALVDMYGKCDCL 259

Query:   182 LIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLAC 241
              +A  VF++M  ++ V+W +MI G +   +  + +++   M  EG +P++ TLT +L+AC
Sbjct:   260 EVAREVFQKMPRKSLVAWNSMIKGYVAKGDSKSCVEILNRMIIEGTRPSQTTLTSILMAC 319

Query:   242 AELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVV-I 300
             +  R+L +GK IHGY      + D +++ +L+ +Y +C EA + A  +F +T+ KDV   
Sbjct:   320 SRSRNLLHGKFIHGYVIRSVVNADIYVNCSLIDLYFKCGEA-NLAETVFSKTQ-KDVAES 377

Query:   301 WSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIM 360
             W+ +I  Y   G+  +A++++ +M    ++P+ VT  ++L +C++ + L  G  +H  I 
Sbjct:   378 WNVMISSYISVGNWFKAVEVYDQMVSVGVKPDVVTFTSVLPACSQLAALEKGKQIHLSIS 437

Query:   361 KAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQ 420
             ++ L  D  + +AL++MYSKCG+   + +IFN +  +D VSWT +IS YG HG   EAL 
Sbjct:   438 ESRLETDELLLSALLDMYSKCGNEKEAFRIFNSIPKKDVVSWTVMISAYGSHGQPREALY 497

Query:   421 LFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLL 480
              F EMQ+ G++PD +T+LA+LSAC HAGL+ E    F+ +  +  I   IEHY+C +D+L
Sbjct:   498 QFDEMQKFGLKPDGVTLLAVLSACGHAGLIDEGLKFFSQMRSKYGIEPIIEHYSCMIDIL 557

Query:   481 GKSGKIEDACKVVSTMP-MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANY 539
             G++G++ +A +++   P    +  +LS+L SAC +H    + + +A  L+E  P++A+ Y
Sbjct:   558 GRAGRLLEAYEIIQQTPETSDNAELLSTLFSACCLHLEHSLGDRIARLLVENYPDDASTY 617

Query:   540 TLLSMVCSESGNWLGAEEVWRVMRAKGLSKSYGFSRIE 577
              +L  + +   +W  A  V   M+  GL K  G S IE
Sbjct:   618 MVLFNLYASGESWDAARRVRLKMKEMGLRKKPGCSWIE 655

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 969 (346.2 bits), Expect = 1.5e-97, P = 1.5e-97
 Identities = 204/572 (35%), Positives = 331/572 (57%)

Query:     7 YEQTLHLYKQELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVIS 66
             +  ++ L+K+ +  SG+  ++     V K+ +  ++  H G QLH   LKSG      + 
Sbjct:   176 FSGSIGLFKKMMS-SGVEMDSYTFSCVSKSFSSLRS-VHGGEQLHGFILKSGFGERNSVG 233

Query:    67 NSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFV 126
             NSL++ Y K  + +SA ++FDEM  RD ISWNSIIN +  NG   + L +F +M + G  
Sbjct:   234 NSLVAFYLKNQRVDSARKVFDEMTERDVISWNSIINGYVSNGLAEKGLSVFVQMLVSGIE 293

Query:   127 LKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALR 186
             +    +  + + C+    + LGR +H++  V   F         LLD+YSKC     A  
Sbjct:   294 IDLATIVSVFAGCADSRLISLGRAVHSIG-VKACFSREDRFCNTLLDMYSKCGDLDSAKA 352

Query:   187 VFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRD 246
             VF +M  R+ VS+T+MI+G          + LF  M+ EG+ P   T+T VL  CA  R 
Sbjct:   353 VFREMSDRSVVSYTSMIAGYAREGLAGEAVKLFEEMEEEGISPDVYTVTAVLNCCARYRL 412

Query:   247 LRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIR 306
             L  GK +H +       FD  +S ALM MY +C  ++  A ++F   +VKD++ W++II 
Sbjct:   413 LDEGKRVHEWIKENDLGFDIFVSNALMDMYAKCG-SMQEAELVFSEMRVKDIISWNTIIG 471

Query:   307 GYSQSGDLSEAMKLFSRMRLE-RIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLN 365
             GYS++   +EA+ LF+ +  E R  P+  T+  +L +C   S    G  +H YIM+ G  
Sbjct:   472 GYSKNCYANEALSLFNLLLEEKRFSPDERTVACVLPACASLSAFDKGREIHGYIMRNGYF 531

Query:   366 FDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEM 425
              D  + N+L++MY+KCG++  +H +F+++A++D VSWT +I+GYG HG+G+EA+ LF +M
Sbjct:   532 SDRHVANSLVDMYAKCGALLLAHMLFDDIASKDLVSWTVMIAGYGMHGFGKEAIALFNQM 591

Query:   426 QESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGK 485
             +++G+E D I+ +++L AC+H+GLV E    FN +  E KI   +EHYAC VD+L ++G 
Sbjct:   592 RQAGIEADEISFVSLLYACSHSGLVDEGWRFFNIMRHECKIEPTVEHYACIVDMLARTGD 651

Query:   486 IEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMV 545
             +  A + +  MP+ P   I  +L+  CRIH  +++AE +A ++ E EPEN   Y L++ +
Sbjct:   652 LIKAYRFIENMPIPPDATIWGALLCGCRIHHDVKLAEKVAEKVFELEPENTGYYVLMANI 711

Query:   546 CSESGNWLGAEEVWRVMRAKGLSKSYGFSRIE 577
              +E+  W   + + + +  +GL K+ G S IE
Sbjct:   712 YAEAEKWEQVKRLRKRIGQRGLRKNPGCSWIE 743

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:2083631 AT3G15130 "AT3G15130" [Arabidopsis thaliana (taxid:3702)]

 Score = 931 (332.8 bits), Expect = 1.6e-93, P = 1.6e-93
 Identities = 196/554 (35%), Positives = 315/554 (56%)

Query:    30 LPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEM 89
             L S+++ C         G Q+HC  LKSGS  + + SN LI MY K  +P  AY++FD M
Sbjct:     9 LVSILRVCTRKGLSDQGG-QVHCYLLKSGSGLNLITSNYLIDMYCKCREPLMAYKVFDSM 67

Query:    90 PYRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGR 149
             P R+ +SW+++++    NG    SL +F EM   G        +  +  C  +  LE G 
Sbjct:    68 PERNVVSWSALMSGHVLNGDLKGSLSLFSEMGRQGIYPNEFTFSTNLKACGLLNALEKGL 127

Query:   150 QIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDS 209
             QIH   +  G FE+ V V  +L+D+YSKC     A +VF ++V R+ +SW AMI+G + +
Sbjct:   128 QIHGFCLKIG-FEMMVEVGNSLVDMYSKCGRINEAEKVFRRIVDRSLISWNAMIAGFVHA 186

Query:   210 QNYDTGIDLFRAMQREGVK--PTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHH 267
                   +D F  MQ   +K  P   TLT +L AC+    +  GK IHG+    GF     
Sbjct:   187 GYGSKALDTFGMMQEANIKERPDEFTLTSLLKACSSTGMIYAGKQIHGFLVRSGFHCPSS 246

Query:   268 --LSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMR 325
               ++ +L+ +Y +C   L  AR  F++ K K ++ WSS+I GY+Q G+  EAM LF R++
Sbjct:   247 ATITGSLVDLYVKCGY-LFSARKAFDQIKEKTMISWSSLILGYAQEGEFVEAMGLFKRLQ 305

Query:   326 LERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSIT 385
                 + +S  L +I+      + L  G  +    +K     + S+ N++++MY KCG + 
Sbjct:   306 ELNSQIDSFALSSIIGVFADFALLRQGKQMQALAVKLPSGLETSVLNSVVDMYLKCGLVD 365

Query:   386 SSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACN 445
              + + F EM  +D +SWT +I+GYG HG G++++++F EM    +EPD +  LA+LSAC+
Sbjct:   366 EAEKCFAEMQLKDVISWTVVITGYGKHGLGKKSVRIFYEMLRHNIEPDEVCYLAVLSACS 425

Query:   446 HAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRIL 505
             H+G++KE E LF+ +++   I   +EHYAC VDLLG++G++++A  ++ TMP+KP+  I 
Sbjct:   426 HSGMIKEGEELFSKLLETHGIKPRVEHYACVVDLLGRAGRLKEAKHLIDTMPIKPNVGIW 485

Query:   506 SSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAK 565
              +L+S CR+HG +E+ + +   L+  + +N ANY ++S +  ++G W        +   K
Sbjct:   486 QTLLSLCRVHGDIELGKEVGKILLRIDAKNPANYVMMSNLYGQAGYWNEQGNARELGNIK 545

Query:   566 GLSKSYGFSRIENE 579
             GL K  G S +E E
Sbjct:   546 GLKKEAGMSWVEIE 559

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2175653 AT5G39350 "AT5G39350" [Arabidopsis thaliana (taxid:3702)]

 Score = 928 (331.7 bits), Expect = 3.4e-93, P = 3.4e-93
 Identities = 197/551 (35%), Positives = 315/551 (57%)

Query:    31 PSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEMP 90
             P V KA    ++ +  GL +H   L+S    D  + N+L++MY  F K E A  +FD M 
Sbjct:   121 PFVAKAAGELKSMK-LGLVVHGRILRSWFGRDKYVQNALLAMYMNFGKVEMARDVFDVMK 179

Query:    91 YRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQ 150
              RD ISWN++I+ + +NG+   +L MF  M      L    +  ++ +C  + +LE+GR 
Sbjct:   180 NRDVISWNTMISGYYRNGYMNDALMMFDWMVNESVDLDHATIVSMLPVCGHLKDLEMGRN 239

Query:   151 IHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQ 210
             +H LV  +      + V  AL+++Y KC     A  VF++M  R+ ++WT MI+G  +  
Sbjct:   240 VHKLV-EEKRLGDKIEVKNALVNMYLKCGRMDEARFVFDRMERRDVITWTCMINGYTEDG 298

Query:   211 NYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSA 270
             + +  ++L R MQ EGV+P  VT+  ++  C +   + +GK +HG+A       D  +  
Sbjct:   299 DVENALELCRLMQFEGVRPNAVTIASLVSVCGDALKVNDGKCLHGWAVRQQVYSDIIIET 358

Query:   271 ALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIE 330
             +L+ MY +C       R+    +K      WS+II G  Q+  +S+A+ LF RMR E +E
Sbjct:   359 SLISMYAKCKRVDLCFRVFSGASKYHTGP-WSAIIAGCVQNELVSDALGLFKRMRREDVE 417

Query:   331 PNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQI 390
             PN  TL ++L +    + L   + +HCY+ K G    +     L+++YSKCG++ S+H+I
Sbjct:   418 PNIATLNSLLPAYAALADLRQAMNIHCYLTKTGFMSSLDAATGLVHVYSKCGTLESAHKI 477

Query:   391 FNEMA----ARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNH 446
             FN +     ++D V W  LISGYG HG G  ALQ+F+EM  SGV P+ IT  + L+AC+H
Sbjct:   478 FNGIQEKHKSKDVVLWGALISGYGMHGDGHNALQVFMEMVRSGVTPNEITFTSALNACSH 537

Query:   447 AGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRILS 506
             +GLV+E  TLF  +++  K      HY C VDLLG++G++++A  +++T+P +P++ +  
Sbjct:   538 SGLVEEGLTLFRFMLEHYKTLARSNHYTCIVDLLGRAGRLDEAYNLITTIPFEPTSTVWG 597

Query:   507 SLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKG 566
             +L++AC  H  +++ EM A++L E EPEN  NY LL+ + +  G W   E+V  +M   G
Sbjct:   598 ALLAACVTHENVQLGEMAANKLFELEPENTGNYVLLANIYAALGRWKDMEKVRSMMENVG 657

Query:   567 LSKSYGFSRIE 577
             L K  G S IE
Sbjct:   658 LRKKPGHSTIE 668

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 895 (320.1 bits), Expect = 1.1e-89, P = 1.1e-89
 Identities = 188/549 (34%), Positives = 322/549 (58%)

Query:    33 VIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEMPYR 92
             ++K C   +     G ++H   +KSG   D      L +MYAK  +   A ++FD MP R
Sbjct:   141 LLKVCG-DEAELRVGKEIHGLLVKSGFSLDLFAMTGLENMYAKCRQVNEARKVFDRMPER 199

Query:    93 DTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELEL---GR 149
             D +SWN+I+  ++QNG    +LEM + M  C   LK   +  I+S+   +  L L   G+
Sbjct:   200 DLVSWNTIVAGYSQNGMARMALEMVKSM--CEENLKPSFIT-IVSVLPAVSALRLISVGK 256

Query:   150 QIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDS 209
             +IH   +  G F+  V +STAL+D+Y+KC     A ++F+ M+ RN VSW +MI   + +
Sbjct:   257 EIHGYAMRSG-FDSLVNISTALVDMYAKCGSLETARQLFDGMLERNVVSWNSMIDAYVQN 315

Query:   210 QNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLS 269
             +N    + +F+ M  EGVKPT V++   L ACA+L DL  G+ IH  +   G D +  + 
Sbjct:   316 ENPKEAMLIFQKMLDEGVKPTDVSVMGALHACADLGDLERGRFIHKLSVELGLDRNVSVV 375

Query:   270 AALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERI 329
              +L+ MYC+C E +  A  +F + + + +V W+++I G++Q+G   +A+  FS+MR   +
Sbjct:   376 NSLISMYCKCKE-VDTAASMFGKLQSRTLVSWNAMILGFAQNGRPIDALNYFSQMRSRTV 434

Query:   330 EPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQ 389
             +P++ T ++++++    S   H   +H  +M++ L+ +V +  AL++MY+KCG+I  +  
Sbjct:   435 KPDTFTYVSVITAIAELSITHHAKWIHGVVMRSCLDKNVFVTTALVDMYAKCGAIMIARL 494

Query:   390 IFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGL 449
             IF+ M+ R   +W  +I GYG HG+G+ AL+LF EMQ+  ++P+ +T L+++SAC+H+GL
Sbjct:   495 IFDMMSERHVTTWNAMIDGYGTHGFGKAALELFEEMQKGTIKPNGVTFLSVISACSHSGL 554

Query:   450 VKEAETLFNNVMKEK-KIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRILSSL 508
             V+     F  +MKE   I L+++HY   VDLLG++G++ +A   +  MP+KP+  +  ++
Sbjct:   555 VEAGLKCFY-MMKENYSIELSMDHYGAMVDLLGRAGRLNEAWDFIMQMPVKPAVNVYGAM 613

Query:   509 VSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGLS 568
             + AC+IH  +  AE  A +L E  P++   + LL+ +   +  W    +V   M  +GL 
Sbjct:   614 LGACQIHKNVNFAEKAAERLFELNPDDGGYHVLLANIYRAASMWEKVGQVRVSMLRQGLR 673

Query:   569 KSYGFSRIE 577
             K+ G S +E
Sbjct:   674 KTPGCSMVE 682

GO:0005739 "mitochondrion" evidence=ISM

GO:0004519 "endonuclease activity" evidence=IDA

GO:0009507 "chloroplast" evidence=IDA

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

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

 Score = 881 (315.2 bits), Expect = 3.2e-88, P = 3.2e-88
 Identities = 182/533 (34%), Positives = 305/533 (57%)

Query:    47 GLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQ 106
             GLQ+H   +K+G D    +SNSLI++Y K      A  LFD+   +  ++WNS+I+ +  
Sbjct:   213 GLQVHTVVVKNGLDKTIPVSNSLINLYLKCGNVRKARILFDKTEVKSVVTWNSMISGYAA 272

Query:   107 NGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVF 166
             NG  + +L MF  M L    L     A +I LC+ + EL    Q+H  V+  G F     
Sbjct:   273 NGLDLEALGMFYSMRLNYVRLSESSFASVIKLCANLKELRFTEQLHCSVVKYG-FLFDQN 331

Query:   167 VSTALLDLYSKCHHWLIALRVFEQM-VIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQRE 225
             + TAL+  YSKC   L ALR+F+++  + N VSWTAMISG + +   +  +DLF  M+R+
Sbjct:   332 IRTALMVAYSKCTAMLDALRLFKEIGCVGNVVSWTAMISGFLQNDGKEEAVDLFSEMKRK 391

Query:   226 GVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHP 285
             GV+P   T +++L A   +    +   +H       ++    +  AL+  Y +  +    
Sbjct:   392 GVRPNEFTYSVILTALPVI----SPSEVHAQVVKTNYERSSTVGTALLDAYVKLGKVEEA 447

Query:   286 ARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTR 345
             A++ F     KD+V WS+++ GY+Q+G+   A+K+F  +    I+PN  T  +IL+ C  
Sbjct:   448 AKV-FSGIDDKDIVAWSAMLAGYAQTGETEAAIKMFGELTKGGIKPNEFTFSSILNVCAA 506

Query:   346 -QSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTT 404
               + +  G   H + +K+ L+  + + +AL+ MY+K G+I S+ ++F     +D VSW +
Sbjct:   507 TNASMGQGKQFHGFAIKSRLDSSLCVSSALLTMYAKKGNIESAEEVFKRQREKDLVSWNS 566

Query:   405 LISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEK 464
             +ISGY  HG   +AL +F EM++  V+ D +T + + +AC HAGLV+E E  F+ ++++ 
Sbjct:   567 MISGYAQHGQAMKALDVFKEMKKRKVKMDGVTFIGVFAACTHAGLVEEGEKYFDIMVRDC 626

Query:   465 KIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEML 524
             KIA   EH +C VDL  ++G++E A KV+  MP    + I  ++++ACR+H + E+  + 
Sbjct:   627 KIAPTKEHNSCMVDLYSRAGQLEKAMKVIENMPNPAGSTIWRTILAACRVHKKTELGRLA 686

Query:   525 AHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGLSKSYGFSRIE 577
             A ++I  +PE++A Y LLS + +ESG+W    +V ++M  + + K  G+S IE
Sbjct:   687 AEKIIAMKPEDSAAYVLLSNMYAESGDWQERAKVRKLMNERNVKKEPGYSWIE 739

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2095289 AT3G09040 "AT3G09040" [Arabidopsis thaliana (taxid:3702)]

 Score = 880 (314.8 bits), Expect = 4.1e-88, P = 4.1e-88
 Identities = 189/573 (32%), Positives = 308/573 (53%)

Query:     9 QTLHLYKQELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNS 68
             + + L+  ++  SG   +     S++  CA A      G Q H   +K     +  + N+
Sbjct:   411 KVMELF-MDMKSSGYNIDDFTFTSLLSTCA-ASHDLEMGSQFHSIIIKKKLAKNLFVGNA 468

Query:    69 LISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLK 128
             L+ MYAK    E A Q+F+ M  RD ++WN+II  + Q+     + ++F+ M LCG V  
Sbjct:   469 LVDMYAKCGALEDARQIFERMCDRDNVTWNTIIGSYVQDENESEAFDLFKRMNLCGIVSD 528

Query:   129 AELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVF 188
                LA  +  C+ +  L  G+Q+H L +  G  +  +   ++L+D+YSKC     A +VF
Sbjct:   529 GACLASTLKACTHVHGLYQGKQVHCLSVKCG-LDRDLHTGSSLIDMYSKCGIIKDARKVF 587

Query:   189 EQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLR 248
               +   + VS  A+I+G     N +  + LF+ M   GV P+ +T   ++ AC +   L 
Sbjct:   588 SSLPEWSVVSMNALIAG-YSQNNLEEAVVLFQEMLTRGVNPSEITFATIVEACHKPESLT 646

Query:   249 NGKAIHGYAYCCGFDFD-HHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRG 307
              G   HG     GF  +  +L  +L+ MY           +  E +  K +V+W+ ++ G
Sbjct:   647 LGTQFHGQITKRGFSSEGEYLGISLLGMYMNSRGMTEACALFSELSSPKSIVLWTGMMSG 706

Query:   308 YSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFD 367
             +SQ+G   EA+K +  MR + + P+  T + +L  C+  S L  G  +H  I     + D
Sbjct:   707 HSQNGFYEEALKFYKEMRHDGVLPDQATFVTVLRVCSVLSSLREGRAIHSLIFHLAHDLD 766

Query:   368 VSIGNALMNMYSKCGSITSSHQIFNEMAAR-DFVSWTTLISGYGFHGYGEEALQLFLEMQ 426
                 N L++MY+KCG +  S Q+F+EM  R + VSW +LI+GY  +GY E+AL++F  M+
Sbjct:   767 ELTSNTLIDMYAKCGDMKGSSQVFDEMRRRSNVVSWNSLINGYAKNGYAEDALKIFDSMR 826

Query:   427 ESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKI 486
             +S + PD IT L +L+AC+HAG V +   +F  ++ +  I   ++H AC VDLLG+ G +
Sbjct:   827 QSHIMPDEITFLGVLTACSHAGKVSDGRKIFEMMIGQYGIEARVDHVACMVDLLGRWGYL 886

Query:   487 EDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVC 546
             ++A   +    +KP  R+ SSL+ ACRIHG     E+ A +LIE EP+N++ Y LLS + 
Sbjct:   887 QEADDFIEAQNLKPDARLWSSLLGACRIHGDDIRGEISAEKLIELEPQNSSAYVLLSNIY 946

Query:   547 SESGNWLGAEEVWRVMRAKGLSKSYGFSRIENE 579
             +  G W  A  + +VMR +G+ K  G+S I+ E
Sbjct:   947 ASQGCWEKANALRKVMRDRGVKKVPGYSWIDVE 979

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2063771 AT2G03380 [Arabidopsis thaliana (taxid:3702)]

 Score = 878 (314.1 bits), Expect = 6.7e-88, P = 6.7e-88
 Identities = 187/572 (32%), Positives = 320/572 (55%)

Query:     9 QTLHLYKQELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNS 68
             + + LY   L   G   +  +    +KAC   Q   + G ++HC  +K  S  D V+   
Sbjct:   125 EVVKLYDL-LMKHGFRYDDIVFSKALKACTELQDLDN-GKKIHCQLVKVPS-FDNVVLTG 181

Query:    69 LISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLK 128
             L+ MYAK  + +SA+++F+++  R+ + W S+I  + +N      L +F  M     VL 
Sbjct:   182 LLDMYAKCGEIKSAHKVFNDITLRNVVCWTSMIAGYVKNDLCEEGLVLFNRMRENN-VLG 240

Query:   129 AELLAG-IISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRV 187
              E   G +I  C+++  L  G+  H  ++  G  ELS  + T+LLD+Y KC     A RV
Sbjct:   241 NEYTYGTLIMACTKLSALHQGKWFHGCLVKSG-IELSSCLVTSLLDMYVKCGDISNARRV 299

Query:   188 FEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDL 247
             F +    + V WTAMI G   + + +  + LF+ M+   +KP  VT+  VL  C  + +L
Sbjct:   300 FNEHSHVDLVMWTAMIVGYTHNGSVNEALSLFQKMKGVEIKPNCVTIASVLSGCGLIENL 359

Query:   248 RNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRG 307
               G+++HG +   G  +D +++ AL+HMY +C +    A+ +FE    KD+V W+SII G
Sbjct:   360 ELGRSVHGLSIKVGI-WDTNVANALVHMYAKCYQN-RDAKYVFEMESEKDIVAWNSIISG 417

Query:   308 YSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGL--N 365
             +SQ+G + EA+ LF RM  E + PN VT+ ++ S+C     L+ G  +H Y +K G   +
Sbjct:   418 FSQNGSIHEALFLFHRMNSESVTPNGVTVASLFSACASLGSLAVGSSLHAYSVKLGFLAS 477

Query:   366 FDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEM 425
               V +G AL++ Y+KCG   S+  IF+ +  ++ ++W+ +I GYG  G    +L+LF EM
Sbjct:   478 SSVHVGTALLDFYAKCGDPQSARLIFDTIEEKNTITWSAMIGGYGKQGDTIGSLELFEEM 537

Query:   426 QESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGK 485
              +   +P+  T  +ILSAC H G+V E +  F+++ K+     + +HY C VD+L ++G+
Sbjct:   538 LKKQQKPNESTFTSILSACGHTGMVNEGKKYFSSMYKDYNFTPSTKHYTCMVDMLARAGE 597

Query:   486 IEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMV 545
             +E A  ++  MP++P  R   + +  C +H R ++ E++  ++++  P++A+ Y L+S +
Sbjct:   598 LEQALDIIEKMPIQPDVRCFGAFLHGCGMHSRFDLGEIVIKKMLDLHPDDASYYVLVSNL 657

Query:   546 CSESGNWLGAEEVWRVMRAKGLSKSYGFSRIE 577
              +  G W  A+EV  +M+ +GLSK  G S +E
Sbjct:   658 YASDGRWNQAKEVRNLMKQRGLSKIAGHSTME 689

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2119440 AT4G13650 [Arabidopsis thaliana (taxid:3702)]

 Score = 872 (312.0 bits), Expect = 2.9e-87, P = 2.9e-87
 Identities = 188/570 (32%), Positives = 316/570 (55%)

Query:     8 EQTLHLYKQELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISN 67
             E+ + L+K+ +H  GL  ++  L S++ AC+ A      G QLH    K G  ++  I  
Sbjct:   371 EKAMELFKR-MHLDGLEPDSNTLASLVVACS-ADGTLFRGQQLHAYTTKLGFASNNKIEG 428

Query:    68 SLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVL 127
             +L+++YAK +  E+A   F E    + + WN ++  +        S  +FR+M +   V 
Sbjct:   429 ALLNLYAKCADIETALDYFLETEVENVVLWNVMLVAYGLLDDLRNSFRIFRQMQIEEIVP 488

Query:   128 KAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRV 187
                    I+  C ++G+LELG QIH+ +I   +F+L+ +V + L+D+Y+K      A  +
Sbjct:   489 NQYTYPSILKTCIRLGDLELGEQIHSQIIKT-NFQLNAYVCSVLIDMYAKLGKLDTAWDI 547

Query:   188 FEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDL 247
               +   ++ VSWT MI+G       D  +  FR M   G++   V LT  + ACA L+ L
Sbjct:   548 LIRFAGKDVVSWTTMIAGYTQYNFDDKALTTFRQMLDRGIRSDEVGLTNAVSACAGLQAL 607

Query:   248 RNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRG 307
             + G+ IH  A   GF  D     AL+ +Y  C + +  + + FE+T+  D + W++++ G
Sbjct:   608 KEGQQIHAQACVSGFSSDLPFQNALVTLYSRCGK-IEESYLAFEQTEAGDNIAWNALVSG 666

Query:   308 YSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFD 367
             + QSG+  EA+++F RM  E I+ N+ T  + + + +  + +  G  VH  I K G + +
Sbjct:   667 FQQSGNNEEALRVFVRMNREGIDNNNFTFGSAVKAASETANMKQGKQVHAVITKTGYDSE 726

Query:   368 VSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQE 427
               + NAL++MY+KCGSI+ + + F E++ ++ VSW  +I+ Y  HG+G EAL  F +M  
Sbjct:   727 TEVCNALISMYAKCGSISDAEKQFLEVSTKNEVSWNAIINAYSKHGFGSEALDSFDQMIH 786

Query:   428 SGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIE 487
             S V P+ +T++ +LSAC+H GLV +    F ++  E  ++   EHY C VD+L ++G + 
Sbjct:   787 SNVRPNHVTLVGVLSACSHIGLVDKGIAYFESMNSEYGLSPKPEHYVCVVDMLTRAGLLS 846

Query:   488 DACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCS 547
              A + +  MP+KP   +  +L+SAC +H  +E+ E  AH L+E EPE++A Y LLS + +
Sbjct:   847 RAKEFIQEMPIKPDALVWRTLLSACVVHKNMEIGEFAAHHLLELEPEDSATYVLLSNLYA 906

Query:   548 ESGNWLGAEEVWRVMRAKGLSKSYGFSRIE 577
              S  W   +   + M+ KG+ K  G S IE
Sbjct:   907 VSKKWDARDLTRQKMKEKGVKKEPGQSWIE 936

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 865 (309.6 bits), Expect = 1.6e-86, P = 1.6e-86
 Identities = 189/559 (33%), Positives = 320/559 (57%)

Query:    21 SGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPE 80
             SGL  +    PSV+KAC         G ++HC ALK G   D  ++ SLI +Y+++    
Sbjct:   147 SGLTPDYRTFPSVLKACRTVID----GNKIHCLALKFGFMWDVYVAASLIHLYSRYKAVG 202

Query:    81 SAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCS 140
             +A  LFDEMP RD  SWN++I+ + Q+G    +L +   +     V    LL    S C+
Sbjct:   203 NARILFDEMPVRDMGSWNAMISGYCQSGNAKEALTLSNGLRAMDSVTVVSLL----SACT 258

Query:   141 QIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWT 200
             + G+   G  IH+  I  G  E  +FVS  L+DLY++        +VF++M +R+ +SW 
Sbjct:   259 EAGDFNRGVTIHSYSIKHG-LESELFVSNKLIDLYAEFGRLRDCQKVFDRMYVRDLISWN 317

Query:   201 AMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCC 260
             ++I     ++     I LF+ M+   ++P  +TL  +    ++L D+R  +++ G+    
Sbjct:   318 SIIKAYELNEQPLRAISLFQEMRLSRIQPDCLTLISLASILSQLGDIRACRSVQGFTLRK 377

Query:   261 G-FDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMK 319
             G F  D  +  A++ MY +    +  AR +F      DV+ W++II GY+Q+G  SEA++
Sbjct:   378 GWFLEDITIGNAVVVMYAKLG-LVDSARAVFNWLPNTDVISWNTIISGYAQNGFASEAIE 436

Query:   320 LFSRMRLE-RIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMY 378
             +++ M  E  I  N  T +++L +C++   L  G+ +H  ++K GL  DV +  +L +MY
Sbjct:   437 MYNIMEEEGEIAANQGTWVSVLPACSQAGALRQGMKLHGRLLKNGLYLDVFVVTSLADMY 496

Query:   379 SKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVL 438
              KCG +  +  +F ++   + V W TLI+ +GFHG+GE+A+ LF EM + GV+PD IT +
Sbjct:   497 GKCGRLEDALSLFYQIPRVNSVPWNTLIACHGFHGHGEKAVMLFKEMLDEGVKPDHITFV 556

Query:   439 AILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPM 498
              +LSAC+H+GLV E +  F  +  +  I  +++HY C VD+ G++G++E A K + +M +
Sbjct:   557 TLLSACSHSGLVDEGQWCFEMMQTDYGITPSLKHYGCMVDMYGRAGQLETALKFIKSMSL 616

Query:   499 KPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEV 558
             +P   I  +L+SACR+HG +++ ++ +  L E EPE+   + LLS + + +G W G +E+
Sbjct:   617 QPDASIWGALLSACRVHGNVDLGKIASEHLFEVEPEHVGYHVLLSNMYASAGKWEGVDEI 676

Query:   559 WRVMRAKGLSKSYGFSRIE 577
               +   KGL K+ G+S +E
Sbjct:   677 RSIAHGKGLRKTPGWSSME 695

GO:0005739 "mitochondrion" evidence=ISM

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
O65543	PP343_ARATH	No assigned EC number	0.5154	0.9948	0.9246	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	580
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-119
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-80
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	9e-71
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	5e-54
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	9e-35
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-33
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	7e-20
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-13
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	9e-10
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-09
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-09
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-06
pfam01535	31	pfam01535, PPR, PPR repeat	1e-06
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	9e-06
pfam01535	31	pfam01535, PPR, PPR repeat	3e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	7e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	9e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	6e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	6e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.001
pfam13041	50	pfam13041, PPR_2, PPR repeat family	0.003

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

 Score =  372 bits (956), Expect = e-119
 Identities = 196/574 (34%), Positives = 322/574 (56%), Gaps = 10/574 (1%)

Query: 6   FYEQTLHLYKQELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVI 65
           ++++ L LY + L  +G+  +    P V++ C         G ++H   ++ G + D  +
Sbjct: 167 YFDEALCLYHRMLW-AGVRPDVYTFPCVLRTCGGIPDLAR-GREVHAHVVRFGFELDVDV 224

Query: 66  SNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGF 125
            N+LI+MY K     SA  +FD MP RD ISWN++I+ + +NG  +  LE+F  M     
Sbjct: 225 VNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMR--EL 282

Query: 126 VLKAEL--LAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLI 183
            +  +L  +  +IS C  +G+  LGR++H  V+  G F + V V  +L+ +Y     W  
Sbjct: 283 SVDPDLMTITSVISACELLGDERLGREMHGYVVKTG-FAVDVSVCNSLIQMYLSLGSWGE 341

Query: 184 ALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAE 243
           A +VF +M  ++ VSWTAMISG   +   D  ++ +  M+++ V P  +T+  VL ACA 
Sbjct: 342 AEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACAC 401

Query: 244 LRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSS 303
           L DL  G  +H  A   G      ++ AL+ MY +C + +  A  +F     KDV+ W+S
Sbjct: 402 LGDLDVGVKLHELAERKGLISYVVVANALIEMYSKC-KCIDKALEVFHNIPEKDVISWTS 460

Query: 304 IIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAG 363
           II G   +    EA+  F +M L  ++PNSVTL+A LS+C R   L  G  +H ++++ G
Sbjct: 461 IIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSACARIGALMCGKEIHAHVLRTG 519

Query: 364 LNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFL 423
           + FD  + NAL+++Y +CG +  +   FN    +D VSW  L++GY  HG G  A++LF 
Sbjct: 520 IGFDGFLPNALLDLYVRCGRMNYAWNQFN-SHEKDVVSWNILLTGYVAHGKGSMAVELFN 578

Query: 424 EMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKS 483
            M ESGV PD +T +++L AC+ +G+V +    F+++ ++  I   ++HYAC VDLLG++
Sbjct: 579 RMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRA 638

Query: 484 GKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLS 543
           GK+ +A   ++ MP+ P   +  +L++ACRIH  +E+ E+ A  + E +P +   Y LL 
Sbjct: 639 GKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLC 698

Query: 544 MVCSESGNWLGAEEVWRVMRAKGLSKSYGFSRIE 577
            + +++G W     V + MR  GL+   G S +E
Sbjct: 699 NLYADAGKWDEVARVRKTMRENGLTVDPGCSWVE 732

Length = 857

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

 Score =  267 bits (683), Expect = 1e-80
 Identities = 153/521 (29%), Positives = 264/521 (50%), Gaps = 6/521 (1%)

Query: 49  QLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNG 108
            + C++++ G    P +    I +    SK     +L D    +  +S  S I      G
Sbjct: 45  SISCSSVEQGLKPRPRLKPEPIRIEVSESKDA---RLDDTQIRKSGVSLCSQIEKLVACG 101

Query: 109 FYVRSLEMFREMYL-CGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFV 167
            +  +LE+F  +   C F L A     ++  C  +  +   + ++  V   G FE   ++
Sbjct: 102 RHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSG-FEPDQYM 160

Query: 168 STALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGV 227
              +L ++ KC   + A R+F++M  RN  SW  +I G +D+ NY     LFR M  +G 
Sbjct: 161 MNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGS 220

Query: 228 KPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPAR 287
                T  ++L A A L   R G+ +H      G   D  +S AL+ MY +C + +  AR
Sbjct: 221 DAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGD-IEDAR 279

Query: 288 IIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQS 347
            +F+    K  V W+S++ GY+  G   EA+ L+  MR   +  +  T   ++   +R +
Sbjct: 280 CVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLA 339

Query: 348 FLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLIS 407
            L H    H  +++ G   D+    AL+++YSK G +  +  +F+ M  ++ +SW  LI+
Sbjct: 340 LLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIA 399

Query: 408 GYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIA 467
           GYG HG G +A+++F  M   GV P+ +T LA+LSAC ++GL ++   +F ++ +  +I 
Sbjct: 400 GYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIK 459

Query: 468 LAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQ 527
               HYAC ++LLG+ G +++A  ++   P KP+  + ++L++ACRIH  LE+  + A +
Sbjct: 460 PRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEK 519

Query: 528 LIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGLS 568
           L    PE   NY +L  + + SG    A +V   ++ KGLS
Sbjct: 520 LYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLS 560

Length = 697

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

 Score =  243 bits (622), Expect = 9e-71
 Identities = 151/524 (28%), Positives = 276/524 (52%), Gaps = 16/524 (3%)

Query: 32  SVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEMPY 91
           ++ + C + +  +  G ++   AL S       + N+++SM+ +F +   A+ +F +MP 
Sbjct: 91  ALFRLCEWKRAVEE-GSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPE 149

Query: 92  RDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQI 151
           RD  SWN ++  + + G++  +L ++  M   G          ++  C  I +L  GR++
Sbjct: 150 RDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREV 209

Query: 152 HALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQN 211
           HA V+  G FEL V V  AL+ +Y KC   + A  VF++M  R+ +SW AMISG  ++  
Sbjct: 210 HAHVVRFG-FELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGE 268

Query: 212 YDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAA 271
              G++LF  M+   V P  +T+T V+ AC  L D R G+ +HGY    GF  D  +  +
Sbjct: 269 CLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNS 328

Query: 272 LMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEP 331
           L+ MY     +   A  +F R + KD V W+++I GY ++G   +A++ ++ M  + + P
Sbjct: 329 LIQMYLSLG-SWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSP 387

Query: 332 NSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIF 391
           + +T+ ++LS+C     L  G+ +H    + GL   V + NAL+ MYSKC  I  + ++F
Sbjct: 388 DEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVF 447

Query: 392 NEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVK 451
           + +  +D +SWT++I+G   +    EAL  F +M  + ++P+++T++A LSAC   G + 
Sbjct: 448 HNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSACARIGALM 506

Query: 452 EAETLFNNVMKEKKIALAIEHYA--CYVDLLGKSGKIEDACKVVSTMPMK-PSTRILSSL 508
             + +  +V+   +  +  + +     +DL  + G++  A    ++      S  IL + 
Sbjct: 507 CGKEIHAHVL---RTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTG 563

Query: 509 VSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMV--CSESG 550
             A   HG+  +A  L ++++E+   N    T +S++  CS SG
Sbjct: 564 YVA---HGKGSMAVELFNRMVESG-VNPDEVTFISLLCACSRSG 603

Length = 857

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

 Score =  196 bits (500), Expect = 5e-54
 Identities = 115/425 (27%), Positives = 214/425 (50%), Gaps = 6/425 (1%)

Query: 135 IISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIR 194
           +  LC     +E G ++ +  +      L V +  A+L ++ +    + A  VF +M  R
Sbjct: 92  LFRLCEWKRAVEEGSRVCSRAL-SSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPER 150

Query: 195 NEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIH 254
           +  SW  ++ G   +  +D  + L+  M   GV+P   T   VL  C  + DL  G+ +H
Sbjct: 151 DLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVH 210

Query: 255 GYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDL 314
            +    GF+ D  +  AL+ MY +C + +  AR++F+R   +D + W+++I GY ++G+ 
Sbjct: 211 AHVVRFGFELDVDVVNALITMYVKCGDVV-SARLVFDRMPRRDCISWNAMISGYFENGEC 269

Query: 315 SEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNAL 374
            E ++LF  MR   ++P+ +T+ +++S+C        G  +H Y++K G   DVS+ N+L
Sbjct: 270 LEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSL 329

Query: 375 MNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDA 434
           + MY   GS   + ++F+ M  +D VSWT +ISGY  +G  ++AL+ +  M++  V PD 
Sbjct: 330 IQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDE 389

Query: 435 ITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVS 494
           IT+ ++LSAC   G +     L     ++  I+  +   A  +++  K   I+ A +V  
Sbjct: 390 ITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANA-LIEMYSKCKCIDKALEVFH 448

Query: 495 TMPMKPSTRILSSLVSACRIHGR-LEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWL 553
            +P K      +S+++  R++ R  E        L+  +P N+         C+  G  +
Sbjct: 449 NIPEKDVIS-WTSIIAGLRLNNRCFEALIFFRQMLLTLKP-NSVTLIAALSACARIGALM 506

Query: 554 GAEEV 558
             +E+
Sbjct: 507 CGKEI 511

Length = 857

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

 Score =  139 bits (351), Expect = 9e-35
 Identities = 105/405 (25%), Positives = 170/405 (41%), Gaps = 56/405 (13%)

Query: 47  GLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQ 106
           G QLHC  LK+G   D  +S +LI MY+K    E A  +FD MP + T++WNS++  +  
Sbjct: 243 GQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYAL 302

Query: 107 NGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVF 166
           +G+   +L ++ EM   G  +     + +I + S++  LE  +Q HA +I  G F L + 
Sbjct: 303 HGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTG-FPLDIV 361

Query: 167 VSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREG 226
            +TAL+DLYSK      A  VF++M  +N +SW A+I+G  +       +++F  M  EG
Sbjct: 362 ANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEG 421

Query: 227 VKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPA 286
           V P  VT   VL AC       +G +  G+        +H +    MH  C         
Sbjct: 422 VAPNHVTFLAVLSACR-----YSGLSEQGWEIFQSMSENHRIKPRAMHYAC--------- 467

Query: 287 RIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQ 346
                            +I    + G L EA   ++ +R    +P      A+L++C   
Sbjct: 468 -----------------MIELLGREGLLDEA---YAMIRRAPFKPTVNMWAALLTACRIH 507

Query: 347 SFLSHGLGVHCYIMKAGLNFDVSIGN--ALMNMYSKCGSITSSHQIFNEMAARDF----- 399
             L  G      +   G      + N   L+N+Y+  G    + ++   +  +       
Sbjct: 508 KNLELGRLAAEKLYGMGPE---KLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPA 564

Query: 400 VSWTTL-------ISGYGFHGYGEEALQ----LFLEMQESGVEPD 433
            +W  +        SG   H    E  Q    L  E+ E G   +
Sbjct: 565 CTWIEVKKQDHSFFSGDRLHPQSREIYQKLDELMKEISEYGYVAE 609

Length = 697

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

 Score =  135 bits (341), Expect = 3e-33
 Identities = 92/351 (26%), Positives = 152/351 (43%), Gaps = 45/351 (12%)

Query: 218 LFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYC 277
           L  +MQ   V         +   C   R +  G  +   A          L  A++ M+ 
Sbjct: 73  LLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFV 132

Query: 278 ECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLL 337
              E +H   + F +   +D+  W+ ++ GY+++G   EA+ L+ RM    + P+  T  
Sbjct: 133 RFGELVHAWYV-FGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFP 191

Query: 338 AILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAAR 397
            +L +C     L+ G  VH ++++ G   DV + NAL+ MY KCG + S+  +F+ M  R
Sbjct: 192 CVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRR 251

Query: 398 DFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACN------------ 445
           D +SW  +ISGY  +G   E L+LF  M+E  V+PD +T+ +++SAC             
Sbjct: 252 DCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMH 311

Query: 446 -----------------------HAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGK 482
                                    G   EAE +F+  M+ K         + Y     K
Sbjct: 312 GYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSR-METKDAVSWTAMISGYE----K 366

Query: 483 SGKIEDACKVVSTMPM---KPSTRILSSLVSACRIHGRLEVAEMLAHQLIE 530
           +G  + A +  + M      P    ++S++SAC   G L+V   L H+L E
Sbjct: 367 NGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKL-HELAE 416

Length = 857

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

 Score = 93.4 bits (232), Expect = 7e-20
 Identities = 42/143 (29%), Positives = 71/143 (49%)

Query: 302 SSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMK 361
           +S +R     G L +A+KL   M+  R+  +    +A+   C  +  +  G  V    + 
Sbjct: 55  NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALS 114

Query: 362 AGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQL 421
           +  +  V +GNA+++M+ + G +  +  +F +M  RD  SW  L+ GY   GY +EAL L
Sbjct: 115 SHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCL 174

Query: 422 FLEMQESGVEPDAITVLAILSAC 444
           +  M  +GV PD  T   +L  C
Sbjct: 175 YHRMLWAGVRPDVYTFPCVLRTC 197

Length = 857

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

 Score = 73.8 bits (181), Expect = 1e-13
 Identities = 64/290 (22%), Positives = 119/290 (41%), Gaps = 34/290 (11%)

Query: 282 ALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILS 341
           AL   R++ E     D  +++++I   ++SG +    ++F  M    +E N  T  A++ 
Sbjct: 456 ALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALID 515

Query: 342 SCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVS 401
            C R   ++   G +  +    +  D  + NAL++   + G++  +  +  EM A     
Sbjct: 516 GCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKA----- 570

Query: 402 WTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVM 461
                                   +   ++PD ITV A++ AC +AG V  A+ ++   +
Sbjct: 571 ------------------------ETHPIDPDHITVGALMKACANAGQVDRAKEVYQM-I 605

Query: 462 KEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP---MKPSTRILSSLVSACRIHGRL 518
            E  I    E Y   V+   + G  + A  +   M    +KP     S+LV      G L
Sbjct: 606 HEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDL 665

Query: 519 EVA-EMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGL 567
           + A E+L     +       +Y+ L   CS + NW  A E++  +++  L
Sbjct: 666 DKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKL 715

Length = 1060

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

 Score = 61.4 bits (149), Expect = 9e-10
 Identities = 75/358 (20%), Positives = 156/358 (43%), Gaps = 39/358 (10%)

Query: 198 SWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGK--AIHG 255
           ++  ++S C  SQ+ D  + + R +Q  G+K      T ++  CA     ++GK  A+  
Sbjct: 439 TFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCA-----KSGKVDAM-- 491

Query: 256 YAYCCGFDFDHHLSAA----LMHMYCE----CTEALHPARI-----IFERTKVK-DVVIW 301
                 F+  H +  A     +H +      C  A   A+      I     VK D V++
Sbjct: 492 ------FEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVF 545

Query: 302 SSIIRGYSQSGDLSEAMKLFSRMRLER--IEPNSVTLLAILSSCTRQSFLSHGLGVHCYI 359
           +++I    QSG +  A  + + M+ E   I+P+ +T+ A++ +C     +     V+  I
Sbjct: 546 NALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMI 605

Query: 360 MKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEM----AARDFVSWTTLISGYGFHGYG 415
            +  +     +    +N  S+ G    +  I+++M       D V ++ L+   G  G  
Sbjct: 606 HEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDL 665

Query: 416 EEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYAC 475
           ++A ++  + ++ G++   ++  +++ AC++A   K+A  L+ ++ K  K+   +     
Sbjct: 666 DKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDI-KSIKLRPTVSTMNA 724

Query: 476 YVDLLGKSGKIEDACKVVSTMP---MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIE 530
            +  L +  ++  A +V+S M    + P+T   S L+ A       +V   L  Q  E
Sbjct: 725 LITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKE 782

Length = 1060

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

 Score = 53.9 bits (131), Expect = 1e-09
 Identities = 17/40 (42%), Positives = 27/40 (67%)

Query: 296 KDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVT 335
            DVV ++++I GY + G + EA+KLF+ M+   I+PN  T
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYT 40

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

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

 Score = 53.9 bits (131), Expect = 1e-09
 Identities = 18/45 (40%), Positives = 28/45 (62%)

Query: 400 VSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSAC 444
           V++ TLI GY   G  EEAL+LF EM++ G++P+  T   ++   
Sbjct: 4   VTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 45.1 bits (108), Expect = 1e-06
 Identities = 11/48 (22%), Positives = 23/48 (47%)

Query: 195 NEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACA 242
           + V++  +I G       +  + LF  M++ G+KP   T +I++    
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 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 = 44.8 bits (107), Expect = 1e-06
 Identities = 18/31 (58%), Positives = 23/31 (74%)

Query: 400 VSWTTLISGYGFHGYGEEALQLFLEMQESGV 430
           V++ +LISGY   G  EEAL+LF EM+E GV
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 49.9 bits (119), Expect = 3e-06
 Identities = 66/355 (18%), Positives = 144/355 (40%), Gaps = 83/355 (23%)

Query: 57  SGSDADPVISNSLISMYAKFSKPESAYQLFDEM--------------------------- 89
           +G  AD  +  +LIS  AK  K ++ +++F EM                           
Sbjct: 466 AGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAK 525

Query: 90  --------------PYRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAE----- 130
                         P  D + +N++I+   Q+G   R+ ++  EM       KAE     
Sbjct: 526 AFGAYGIMRSKNVKP--DRVVFNALISACGQSGAVDRAFDVLAEM-------KAETHPID 576

Query: 131 ----LLAGIISLCSQIGELELGRQIHALVI---VDGSFELSVFVSTALLDLYSKCHHWLI 183
                +  ++  C+  G+++  ++++ ++    + G+ E    V T  ++  S+   W  
Sbjct: 577 PDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPE----VYTIAVNSCSQKGDWDF 632

Query: 184 ALRVFEQM----VIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLL 239
           AL +++ M    V  +EV ++A++     + + D   ++ +  +++G+K   V+ + ++ 
Sbjct: 633 ALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMG 692

Query: 240 ACAELRDLRNGKAIHGYAYCCGFDFDHHLSA--ALMHMYCECTEALHPARIIFERTKVKD 297
           AC+  ++ +  KA+  Y           +S   AL+   CE  +      ++ E   +K 
Sbjct: 693 ACSNAKNWK--KALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSE---MKR 747

Query: 298 ------VVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQ 346
                  + +S ++    +  D    + L S+ + + I+PN V    I   C R+
Sbjct: 748 LGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRR 802

Length = 1060

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

 Score = 42.1 bits (100), Expect = 9e-06
 Identities = 12/35 (34%), Positives = 23/35 (65%)

Query: 299 VIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNS 333
           V ++++I G  ++G + EA++LF  M+   IEP+ 
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 = 40.9 bits (97), Expect = 3e-05
 Identities = 12/31 (38%), Positives = 22/31 (70%)

Query: 299 VIWSSIIRGYSQSGDLSEAMKLFSRMRLERI 329
           V ++S+I GY ++G L EA++LF  M+ + +
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 46.4 bits (110), Expect = 4e-05
 Identities = 44/256 (17%), Positives = 101/256 (39%), Gaps = 44/256 (17%)

Query: 197 VSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGY 256
           ++  A++  C ++   D   ++++ +    +K T    TI + +C++  D          
Sbjct: 580 ITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDW--------- 630

Query: 257 AYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDV----VIWSSIIRGYSQSG 312
                 DF                     A  I++  K K V    V +S+++     +G
Sbjct: 631 ------DF---------------------ALSIYDDMKKKGVKPDEVFFSALVDVAGHAG 663

Query: 313 DLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGN 372
           DL +A ++    R + I+  +V+  +++ +C+        L ++  I    L   VS  N
Sbjct: 664 DLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMN 723

Query: 373 ALMNMYSKCGSITSSHQIFNEMAAR----DFVSWTTLISGYGFHGYGEEALQLFLEMQES 428
           AL+    +   +  + ++ +EM       + ++++ L+         +  L L  + +E 
Sbjct: 724 ALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKED 783

Query: 429 GVEPDAITVLAILSAC 444
           G++P+ +    I   C
Sbjct: 784 GIKPNLVMCRCITGLC 799

Length = 1060

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

 Score = 39.8 bits (94), Expect = 7e-05
 Identities = 19/35 (54%), Positives = 24/35 (68%)

Query: 400 VSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDA 434
           V++ TLI G    G  EEAL+LF EM+E G+EPD 
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|205109 pfam12854, PPR_1, PPR repeat

 Score = 39.3 bits (93), Expect = 9e-05
 Identities = 10/29 (34%), Positives = 19/29 (65%)

Query: 297 DVVIWSSIIRGYSQSGDLSEAMKLFSRMR 325
           DVV ++++I G  ++G + EA++L   M 
Sbjct: 6   DVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 44.1 bits (104), Expect = 2e-04
 Identities = 57/272 (20%), Positives = 110/272 (40%), Gaps = 51/272 (18%)

Query: 17  ELHPSGLYSNTAILPSVIKACAYA-QTHQHFGLQLHCTALKSGSDADP--VISNSLISMY 73
           E+  +G+ +N     ++I  CA A Q  + FG       +    +  P  V+ N+LIS  
Sbjct: 497 EMVNAGVEANVHTFGALIDGCARAGQVAKAFG----AYGIMRSKNVKPDRVVFNALISAC 552

Query: 74  AKFSKPESAYQLFDEM-----PYR-DTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVL 127
            +    + A+ +  EM     P   D I+  +++      G   R+ E+++ ++      
Sbjct: 553 GQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKG 612

Query: 128 KAELLAGIISLCSQIGELELGRQIH----------------ALV-------IVDGSFE-- 162
             E+    ++ CSQ G+ +    I+                ALV        +D +FE  
Sbjct: 613 TPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEIL 672

Query: 163 ---------LSVFVSTALLDLYSKCHHWLIALRVFEQ---MVIRNEVS-WTAMISGCIDS 209
                    L     ++L+   S   +W  AL ++E    + +R  VS   A+I+   + 
Sbjct: 673 QDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEG 732

Query: 210 QNYDTGIDLFRAMQREGVKPTRVTLTIVLLAC 241
                 +++   M+R G+ P  +T +I+L+A 
Sbjct: 733 NQLPKALEVLSEMKRLGLCPNTITYSILLVAS 764

Length = 1060

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

 Score = 37.8 bits (89), Expect = 6e-04
 Identities = 14/42 (33%), Positives = 23/42 (54%), Gaps = 4/42 (9%)

Query: 67  NSLISMYAKFSKPESAYQLFDEMPYR----DTISWNSIINCF 104
           N+LI  Y K  K E A +LF+EM  R    +  +++ +I+  
Sbjct: 7   NTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 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|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 37.2 bits (87), Expect = 6e-04
 Identities = 5/34 (14%), Positives = 19/34 (55%)

Query: 298 VVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEP 331
           +  +++++   +++GD   A+ +   M+   ++P
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

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

 Score = 36.7 bits (86), Expect = 0.001
 Identities = 8/34 (23%), Positives = 19/34 (55%)

Query: 197 VSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPT 230
           V++  +I G   +   +  ++LF+ M+  G++P 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

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

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

 Score = 35.5 bits (83), Expect = 0.003
 Identities = 12/42 (28%), Positives = 20/42 (47%), Gaps = 4/42 (9%)

Query: 169 TALLDLYSKCHHWLIALRVFEQMVIR----NEVSWTAMISGC 206
             L+D Y K      AL++F +M  R    N  +++ +I G 
Sbjct: 7   NTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	580
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.97
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.96
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.95
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.92
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.91
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.9
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.89
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.89
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.88
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.87
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.86
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.86
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.86
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.85
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.84
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.84
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.84
PRK14574	822	hmsH outer membrane protein; Provisional	99.83
PRK14574	822	hmsH outer membrane protein; Provisional	99.83
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.79
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.77
KOG2003	840	consensus TPR repeat-containing protein [General f	99.76
KOG2076	895	consensus RNA polymerase III transcription factor	99.74
KOG2076	895	consensus RNA polymerase III transcription factor	99.74
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.73
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.71
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.68
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.67
KOG2003	840	consensus TPR repeat-containing protein [General f	99.66
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.61
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.61
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.59
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.58
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.58
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.56
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.55
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.54
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.54
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.52
KOG1126	638	consensus DNA-binding cell division cycle control	99.52
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.51
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.5
KOG1126	638	consensus DNA-binding cell division cycle control	99.5
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.47
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.47
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.45
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.44
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.44
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.44
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.44
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.39
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.38
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.38
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.37
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.34
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.33
PF13041	50	PPR_2: PPR repeat family	99.31
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.31
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.3
PRK12370	553	invasion protein regulator; Provisional	99.3
PF13041	50	PPR_2: PPR repeat family	99.28
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.26
KOG1129	478	consensus TPR repeat-containing protein [General f	99.25
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.25
PRK11189	296	lipoprotein NlpI; Provisional	99.21
PRK12370	553	invasion protein regulator; Provisional	99.21
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.21
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.21
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.2
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.18
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.16
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.16
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.13
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.13
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.11
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.1
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.07
PRK11189	296	lipoprotein NlpI; Provisional	99.07
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.03
KOG1129	478	consensus TPR repeat-containing protein [General f	99.01
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.01
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.99
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.99
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.96
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.94
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.9
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.89
PRK04841	903	transcriptional regulator MalT; Provisional	98.89
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.88
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.88
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.88
KOG1125	579	consensus TPR repeat-containing protein [General f	98.88
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.87
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.85
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.82
PRK04841	903	transcriptional regulator MalT; Provisional	98.78
PRK15359	144	type III secretion system chaperone protein SscB;	98.76
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.73
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.72
PRK15359	144	type III secretion system chaperone protein SscB;	98.68
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.67
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.66
PF12854	34	PPR_1: PPR repeat	98.65
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.63
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.61
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.61
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.6
PLN02789	320	farnesyltranstransferase	98.58
PF12854	34	PPR_1: PPR repeat	98.58
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.57
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.55
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.52
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.52
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.51
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.47
KOG1125	579	consensus TPR repeat-containing protein [General f	98.47
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.46
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.44
PLN02789	320	farnesyltranstransferase	98.43
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.42
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.4
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.38
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.34
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.33
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.32
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.32
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.29
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.29
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.28
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.26
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.23
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	98.2
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.2
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.19
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.18
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.18
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.16
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.15
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.15
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.14
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.12
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.11
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.08
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.06
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.04
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	98.02
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.01
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.96
KOG0553	304	consensus TPR repeat-containing protein [General f	97.93
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.92
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.9
PF13371	73	TPR_9: Tetratricopeptide repeat	97.88
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.85
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.83
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.82
KOG0553	304	consensus TPR repeat-containing protein [General f	97.82
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.8
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.78
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.75
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.75
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.75
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.74
PRK15331	165	chaperone protein SicA; Provisional	97.74
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.71
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.67
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.67
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.67
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.67
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.6
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.6
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.59
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.56
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.53
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.53
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.51
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.5
PF12688	120	TPR_5: Tetratrico peptide repeat	97.48
PRK10803	263	tol-pal system protein YbgF; Provisional	97.47
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.47
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.46
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.45
PF13431	34	TPR_17: Tetratricopeptide repeat	97.44
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.43
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.38
PF13428	44	TPR_14: Tetratricopeptide repeat	97.36
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.36
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.36
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.36
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.3
PF12688	120	TPR_5: Tetratrico peptide repeat	97.28
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.27
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.26
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.2
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.19
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.16
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	97.11
PRK10803	263	tol-pal system protein YbgF; Provisional	97.11
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.07
KOG1585	308	consensus Protein required for fusion of vesicles	97.07
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.06
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.06
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.05
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.04
PF13371	73	TPR_9: Tetratricopeptide repeat	97.04
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.01
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.99
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.98
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.96
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.94
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.86
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.79
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.75
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.72
PRK11906	458	transcriptional regulator; Provisional	96.71
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.69
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.54
PF13512	142	TPR_18: Tetratricopeptide repeat	96.52
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.47
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.35
KOG1258	577	consensus mRNA processing protein [RNA processing	96.35
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.29
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.24
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.21
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.2
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.17
KOG4555	175	consensus TPR repeat-containing protein [Function	96.13
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.1
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.07
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.06
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.04
PRK11619	644	lytic murein transglycosylase; Provisional	95.91
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.88
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	95.87
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.87
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	95.86
PF03704	146	BTAD: Bacterial transcriptional activator domain;	95.84
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.82
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.79
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.78
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	95.6
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.58
PRK15331	165	chaperone protein SicA; Provisional	95.51
KOG3941	406	consensus Intermediate in Toll signal transduction	95.49
COG3118	304	Thioredoxin domain-containing protein [Posttransla	95.37
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	95.27
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.22
KOG4555	175	consensus TPR repeat-containing protein [Function	95.11
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	95.06
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.01
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	94.98
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	94.95
PRK11906	458	transcriptional regulator; Provisional	94.92
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.88
PF13512	142	TPR_18: Tetratricopeptide repeat	94.79
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	94.75
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.71
KOG2610	491	consensus Uncharacterized conserved protein [Funct	94.7
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	94.51
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	94.51
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	94.44
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	94.41
PF13428	44	TPR_14: Tetratricopeptide repeat	94.33
KOG4234	271	consensus TPR repeat-containing protein [General f	94.29
COG3629	280	DnrI DNA-binding transcriptional activator of the	94.26
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	94.16
KOG3941	406	consensus Intermediate in Toll signal transduction	94.14
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.01
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	93.87
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	93.73
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	93.73
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	93.58
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	93.56
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	93.54
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	93.53
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	93.43
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	93.42
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	93.27
COG0457	291	NrfG FOG: TPR repeat [General function prediction	93.15
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	92.96
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	92.86
PRK09687	280	putative lyase; Provisional	92.5
KOG1941	518	consensus Acetylcholine receptor-associated protei	92.35
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	92.1
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	91.85
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	91.85
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	91.83
COG3947	361	Response regulator containing CheY-like receiver a	91.78
KOG4570	418	consensus Uncharacterized conserved protein [Funct	91.37
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	91.22
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	91.08
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	90.98
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	90.96
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	90.9
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	90.87
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	90.72
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	90.67
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	90.61
KOG1585	308	consensus Protein required for fusion of vesicles	90.57
KOG1258	577	consensus mRNA processing protein [RNA processing	90.5
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	90.46
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	90.43
PRK09687	280	putative lyase; Provisional	90.43
KOG4648	536	consensus Uncharacterized conserved protein, conta	90.39
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	90.31
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	90.04
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	90.04
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	90.0
COG4455	273	ImpE Protein of avirulence locus involved in tempe	89.91
KOG4234	271	consensus TPR repeat-containing protein [General f	89.47
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	89.4
COG3629	280	DnrI DNA-binding transcriptional activator of the	89.37
PF13431	34	TPR_17: Tetratricopeptide repeat	89.22
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	89.2
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	88.96
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	88.75
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	88.72
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	88.71
PRK11619	644	lytic murein transglycosylase; Provisional	88.32
PRK10941	269	hypothetical protein; Provisional	88.18
COG4105	254	ComL DNA uptake lipoprotein [General function pred	87.51
PF14561	90	TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S	87.06
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	86.85
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	86.71
KOG4570	418	consensus Uncharacterized conserved protein [Funct	86.63
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	86.0
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	85.85
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	85.68
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	85.49
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	85.1
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	84.72
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	84.71
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	84.38
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	84.2
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	84.18
PF13762	145	MNE1: Mitochondrial splicing apparatus component	84.15
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	83.77
KOG1550	552	consensus Extracellular protein SEL-1 and related	83.55
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	83.35
KOG3364	149	consensus Membrane protein involved in organellar	83.11
KOG4648	536	consensus Uncharacterized conserved protein, conta	81.6
KOG1586	288	consensus Protein required for fusion of vesicles	80.93
smart00386	33	HAT HAT (Half-A-TPR) repeats. Present in several R	80.92

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=3.7e-88  Score=711.02  Aligned_cols=572  Identities=34%  Similarity=0.626  Sum_probs=563.1

Q ss_pred             CCCCchhhHHHHHHHHHccCCCCCCCcchHHHHHHhhcccchhHHHHHHHHHHHHhCCCCChhHHHHHHHHHHcCCCchH
Q 041384            2 VSKHFYEQTLHLYKQELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPES   81 (580)
Q Consensus         2 ~~~~~~~~a~~~~~~~~~~~g~~~~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~   81 (580)
                      ++.|++++|+.+| +.|...|+.||..+|+.++++|+..+++ ..+.+++..+.+.|+.||..++|.|+.+|++.|++++
T Consensus       163 ~~~g~~~~A~~~f-~~M~~~g~~Pd~~t~~~ll~~~~~~~~~-~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~  240 (857)
T PLN03077        163 AKAGYFDEALCLY-HRMLWAGVRPDVYTFPCVLRTCGGIPDL-ARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVS  240 (857)
T ss_pred             HhCCCHHHHHHHH-HHHHHcCCCCChhHHHHHHHHhCCccch-hhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHH
Confidence            5789999999999 9999999999999999999999999999 9999999999999999999999999999999999999


Q ss_pred             HHHhhccCCCCCccchHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCC
Q 041384           82 AYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSF  161 (580)
Q Consensus        82 A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  161 (580)
                      |.++|++|+.||..+||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+.+.+.+++..+.+.| +
T Consensus       241 A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g-~  319 (857)
T PLN03077        241 ARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTG-F  319 (857)
T ss_pred             HHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhC-C
Confidence            999999999999999999999999999999999999999999999999999999999999999999999999999999 9


Q ss_pred             CCchHHHhHHHHHhHhcCCHHHHHHHHhcCCCCCeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 041384          162 ELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLAC  241 (580)
Q Consensus       162 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  241 (580)
                      .||..+|+.|+.+|++.|++++|.++|++|..||..+||.+|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|
T Consensus       320 ~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~  399 (857)
T PLN03077        320 AVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSAC  399 (857)
T ss_pred             ccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHHHhCCChhHHHHHH
Q 041384          242 AELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLF  321 (580)
Q Consensus       242 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  321 (580)
                      ++.|+++.+.++++.+.+.|+.++..+++.++.+|++.|+ ++.|.++|+.+..+|..+|+++|.+|++.|+.++|+.+|
T Consensus       400 ~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~-~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf  478 (857)
T PLN03077        400 ACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKC-IDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFF  478 (857)
T ss_pred             hccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCC-HHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHH
Confidence            9999999999999999999999999999999999999999 999999999999999999999999999999999999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCCCCcch
Q 041384          322 SRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVS  401 (580)
Q Consensus       322 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  401 (580)
                      ++|.. ++.||..||+.++.+|++.|+++.+.+++..+.+.|+.++..++++++++|+++|++++|.++|+.+ .+|..+
T Consensus       479 ~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~-~~d~~s  556 (857)
T PLN03077        479 RQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-EKDVVS  556 (857)
T ss_pred             HHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhc-CCChhh
Confidence            99985 5899999999999999999999999999999999999999999999999999999999999999999 899999


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhh
Q 041384          402 WTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLG  481 (580)
Q Consensus       402 ~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  481 (580)
                      ||++|.+|++.|+.++|+++|++|.+.|+.||..||+.++.+|.+.|.+++|.++|+.|.+..|+.|+..+|+.++++|+
T Consensus       557 ~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~  636 (857)
T PLN03077        557 WNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLG  636 (857)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999997767999999999999999999


Q ss_pred             hcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHH
Q 041384          482 KSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRV  561 (580)
Q Consensus       482 ~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  561 (580)
                      +.|++++|.+++++|+.+||..+|++|+.+|..+|+.+.++...+++.++.|+++..|..+++.|...|+|++|.++.+.
T Consensus       637 r~G~~~eA~~~~~~m~~~pd~~~~~aLl~ac~~~~~~e~~e~~a~~l~~l~p~~~~~y~ll~n~ya~~g~~~~a~~vr~~  716 (857)
T PLN03077        637 RAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKT  716 (857)
T ss_pred             hCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhhCCCCcchHHHHHHHHHHCCChHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhCCCccCCceeEEEeC
Q 041384          562 MRAKGLSKSYGFSRIENE  579 (580)
Q Consensus       562 ~~~~~~~~~~~~~~~~~~  579 (580)
                      |++.|++++||+|||+++
T Consensus       717 M~~~g~~k~~g~s~ie~~  734 (857)
T PLN03077        717 MRENGLTVDPGCSWVEVK  734 (857)
T ss_pred             HHHcCCCCCCCccEEEEC
Confidence            999999999999999985

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=8.6e-81  Score=655.27  Aligned_cols=562  Identities=27%  Similarity=0.495  Sum_probs=546.7

Q ss_pred             CCCCchhhHHHHHHHHHccCCCCCCCcchHHHHHHhhcccchhHHHHHHHHHHHHhCCCCChhHHHHHHHHHHcCCCchH
Q 041384            2 VSKHFYEQTLHLYKQELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPES   81 (580)
Q Consensus         2 ~~~~~~~~a~~~~~~~~~~~g~~~~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~   81 (580)
                      ++.|++++|+.+| +.|...|+.|+..+|..++++|.+.+.. ..+.+++..+.+.|..++...+|.++..|++.|+.+.
T Consensus        62 ~~~g~~~~A~~l~-~~m~~~g~~~~~~~~~~ll~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~n~li~~~~~~g~~~~  139 (857)
T PLN03077         62 CSHGQLEQALKLL-ESMQELRVPVDEDAYVALFRLCEWKRAV-EEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVH  139 (857)
T ss_pred             HhCCCHHHHHHHH-HHHHhcCCCCChhHHHHHHHHHhhCCCH-HHHHHHHHHHHHcCCCCCchHHHHHHHHHHhCCChHH
Confidence            5789999999999 9999999999999999999999999999 9999999999999999999999999999999999999


Q ss_pred             HHHhhccCCCCCccchHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCC
Q 041384           82 AYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSF  161 (580)
Q Consensus        82 A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  161 (580)
                      |.++|++|++||..+||++|.+|++.|++++|+++|++|...|+.||..||+.++++|+..+++..+.+++..+.+.| +
T Consensus       140 A~~~f~~m~~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g-~  218 (857)
T PLN03077        140 AWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFG-F  218 (857)
T ss_pred             HHHHHhcCCCCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcC-C
Confidence            999999999999999999999999999999999999999999999999999999999999999999999999999999 9


Q ss_pred             CCchHHHhHHHHHhHhcCCHHHHHHHHhcCCCCCeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 041384          162 ELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLAC  241 (580)
Q Consensus       162 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  241 (580)
                      .||..+++.|+.+|++.|++++|.++|++|..+|..+||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|
T Consensus       219 ~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~  298 (857)
T PLN03077        219 ELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISAC  298 (857)
T ss_pred             CcccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHHHhCCChhHHHHHH
Q 041384          242 AELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLF  321 (580)
Q Consensus       242 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  321 (580)
                      ++.|+.+.+.+++..+.+.|+.||..+|+.++.+|++.|+ ++.|.++|+.+..+|..+||++|.+|++.|++++|+++|
T Consensus       299 ~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~-~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf  377 (857)
T PLN03077        299 ELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGS-WGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETY  377 (857)
T ss_pred             HhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCC-HHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHH
Confidence            9999999999999999999999999999999999999999 999999999999999999999999999999999999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCCCCcch
Q 041384          322 SRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVS  401 (580)
Q Consensus       322 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  401 (580)
                      ++|.+.|+.||..||+.++.+|++.|+++.|.++++.+.+.|+.|+..+|+.|+++|++.|++++|.++|++|.++|..+
T Consensus       378 ~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs  457 (857)
T PLN03077        378 ALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVIS  457 (857)
T ss_pred             HHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeee
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhh
Q 041384          402 WTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLG  481 (580)
Q Consensus       402 ~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  481 (580)
                      |+.+|.+|++.|+.++|+.+|++|.. ++.||..||+.++.+|++.|+.+.+.+++..+++ .|+.++..+++.|+++|+
T Consensus       458 ~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~-~g~~~~~~~~naLi~~y~  535 (857)
T PLN03077        458 WTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLR-TGIGFDGFLPNALLDLYV  535 (857)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHH-hCCCccceechHHHHHHH
Confidence            99999999999999999999999986 5999999999999999999999999999999665 899999999999999999


Q ss_pred             hcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHhcCChHHHHHHHH
Q 041384          482 KSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAE-PENAANYTLLSMVCSESGNWLGAEEVWR  560 (580)
Q Consensus       482 ~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~  560 (580)
                      ++|++++|.++|+++  .||..+|++++.+|++.|+.++|+++|++|.+.+ .+|..+|..++.+|.+.|++++|.++|+
T Consensus       536 k~G~~~~A~~~f~~~--~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~  613 (857)
T PLN03077        536 RCGRMNYAWNQFNSH--EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFH  613 (857)
T ss_pred             HcCCHHHHHHHHHhc--CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHH
Confidence            999999999999998  8999999999999999999999999999999876 5678889999999999999999999999


Q ss_pred             HHH-hCCCccCC
Q 041384          561 VMR-AKGLSKSY  571 (580)
Q Consensus       561 ~~~-~~~~~~~~  571 (580)
                      +|. +.|+.|+.
T Consensus       614 ~M~~~~gi~P~~  625 (857)
T PLN03077        614 SMEEKYSITPNL  625 (857)
T ss_pred             HHHHHhCCCCch
Confidence            998 56887754

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

Probab=100.00  E-value=7.8e-75  Score=595.74  Aligned_cols=487  Identities=30%  Similarity=0.546  Sum_probs=477.8

Q ss_pred             CCCccchHHHHHHHHhCCChhHHHHHHHHHHHCC-CCCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHh
Q 041384           91 YRDTISWNSIINCFTQNGFYVRSLEMFREMYLCG-FVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVST  169 (580)
Q Consensus        91 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  169 (580)
                      .++..+|+.+|.++.+.|++++|+++|+.|...+ ..||..+|+.++.+|++.++.+.+.+++..+.+.| +.||..+++
T Consensus        84 ~~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g-~~~~~~~~n  162 (697)
T PLN03081         84 RKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSG-FEPDQYMMN  162 (697)
T ss_pred             CCCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CCcchHHHH
Confidence            4467799999999999999999999999998864 78999999999999999999999999999999999 999999999


Q ss_pred             HHHHHhHhcCCHHHHHHHHhcCCCCCeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchh
Q 041384          170 ALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRN  249 (580)
Q Consensus       170 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  249 (580)
                      .|+++|++.|++++|.++|++|.+||..+||.+|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|..+.
T Consensus       163 ~Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~  242 (697)
T PLN03081        163 RVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARA  242 (697)
T ss_pred             HHHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCC
Q 041384          250 GKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERI  329 (580)
Q Consensus       250 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~  329 (580)
                      +.+++..+.+.|+.++..+++.++.+|++.|+ ++.|.++|+.+..+|+.+||++|.+|++.|++++|+.+|++|.+.|+
T Consensus       243 ~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~-~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~  321 (697)
T PLN03081        243 GQQLHCCVLKTGVVGDTFVSCALIDMYSKCGD-IEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGV  321 (697)
T ss_pred             HHHHHHHHHHhCCCccceeHHHHHHHHHHCCC-HHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCC
Confidence            99999999999999999999999999999999 99999999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCCCCcchHHHHHHHH
Q 041384          330 EPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGY  409 (580)
Q Consensus       330 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~  409 (580)
                      .||..||+.++.+|++.|++++|.+++..|.+.|+.|+..+|++|+++|++.|++++|.++|++|.++|..+||.||.+|
T Consensus       322 ~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y  401 (697)
T PLN03081        322 SIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGY  401 (697)
T ss_pred             CCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHH
Q 041384          410 GFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDA  489 (580)
Q Consensus       410 ~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  489 (580)
                      ++.|+.++|+++|++|.+.|+.||..||+.++.+|.+.|.+++|.++|+.|.+..|+.|+..+|+.++++|++.|++++|
T Consensus       402 ~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA  481 (697)
T PLN03081        402 GNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEA  481 (697)
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHH
Confidence            99999999999999999999999999999999999999999999999999877789999999999999999999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCCcc
Q 041384          490 CKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGLSK  569 (580)
Q Consensus       490 ~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  569 (580)
                      .+++++++..|+..+|++|+.+|+.+|+++.|..+++++.+..|++...|..++++|.+.|++++|.+++++|.+.|+++
T Consensus       482 ~~~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~k  561 (697)
T PLN03081        482 YAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSM  561 (697)
T ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHcCCcc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCceeEEEeC
Q 041384          570 SYGFSRIENE  579 (580)
Q Consensus       570 ~~~~~~~~~~  579 (580)
                      .||++|++++
T Consensus       562 ~~g~s~i~~~  571 (697)
T PLN03081        562 HPACTWIEVK  571 (697)
T ss_pred             CCCeeEEEEC
Confidence            9999999974

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.6e-68  Score=550.29  Aligned_cols=512  Identities=16%  Similarity=0.201  Sum_probs=389.5

Q ss_pred             CCCCcchHHHHHHhhcccchhHHHHHHHHHHHHhC-CCCChhHHHHHHHHHHcCCCchHHHHhhccCCCCCccchHHHHH
Q 041384           24 YSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSG-SDADPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIIN  102 (580)
Q Consensus        24 ~~~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~  102 (580)
                      .++...|..++..|.+.|++ ..|.++|++|.+.| ++++..+++.++.+|.+.|..++|.++|+.|+.||..+|+.+|.
T Consensus       367 ~~~~~~~~~~y~~l~r~G~l-~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~pd~~Tyn~LL~  445 (1060)
T PLN03218        367 KRKSPEYIDAYNRLLRDGRI-KDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRNPTLSTFNMLMS  445 (1060)
T ss_pred             CCCchHHHHHHHHHHHCcCH-HHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            45677899999999999999 99999999999998 46788888999999999999999999999999999999999999


Q ss_pred             HHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHH
Q 041384          103 CFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWL  182 (580)
Q Consensus       103 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  182 (580)
                      +|++.|+++.|.++|++|.+.|+.||..+|+.+|.+|++.|+++.|.++|+.|.+.| +.||..+|+.||.+|++.|+++
T Consensus       446 a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~G-v~PdvvTynaLI~gy~k~G~~e  524 (1060)
T PLN03218        446 VCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAG-VEANVHTFGALIDGCARAGQVA  524 (1060)
T ss_pred             HHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHHCcCHH
Confidence            999999999999999999999999999999999999999999999999999999999 8999999999999999999999


Q ss_pred             HHHHHHhcC----CCCCeehHHHHHHHHHhcCChhHHHHHHHHHHH--cCCCCCHHHHHHHHHHHhcCCCchhHHHHHHH
Q 041384          183 IALRVFEQM----VIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQR--EGVKPTRVTLTIVLLACAELRDLRNGKAIHGY  256 (580)
Q Consensus       183 ~a~~~~~~~----~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  256 (580)
                      +|.++|++|    ..||..+|+.+|.+|++.|++++|.++|++|..  .|+.||..+|+.++.+|++.|++++|.++|+.
T Consensus       525 eAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~  604 (1060)
T PLN03218        525 KAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQM  604 (1060)
T ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            999999998    457899999999999999999999999999976  57899999999999999999999999999999


Q ss_pred             HHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHH
Q 041384          257 AYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTL  336 (580)
Q Consensus       257 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~  336 (580)
                      |.+.|+.|+..+|+.++.+|++                                .|++++|..+|++|.+.|+.||..||
T Consensus       605 M~e~gi~p~~~tynsLI~ay~k--------------------------------~G~~deAl~lf~eM~~~Gv~PD~~Ty  652 (1060)
T PLN03218        605 IHEYNIKGTPEVYTIAVNSCSQ--------------------------------KGDWDFALSIYDDMKKKGVKPDEVFF  652 (1060)
T ss_pred             HHHcCCCCChHHHHHHHHHHHh--------------------------------cCCHHHHHHHHHHHHHcCCCCCHHHH
Confidence            9998888766555555555554                                45555555555555555555555555


Q ss_pred             HHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCC----CCCcchHHHHHHHHHhc
Q 041384          337 LAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMA----ARDFVSWTTLISGYGFH  412 (580)
Q Consensus       337 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~l~~~~~~~  412 (580)
                      +.++.+|++.|++++|.++++.|.+.|+.|+..+|+.++.+|++.|++++|.++|++|.    .||..+|+.||.+|++.
T Consensus       653 nsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~  732 (1060)
T PLN03218        653 SALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEG  732 (1060)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHC
Confidence            55555555555555555555555555555555555555555555555555555555553    24555555555555555


Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhh-----------
Q 041384          413 GYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLG-----------  481 (580)
Q Consensus       413 ~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~-----------  481 (580)
                      |++++|.++|++|.+.|+.||..||+.++.+|++.|+++.|.+++.+|. +.|+.||..+|+.++..+.           
T Consensus       733 G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~-k~Gi~pd~~tynsLIglc~~~y~ka~~l~~  811 (1060)
T PLN03218        733 NQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAK-EDGIKPNLVMCRCITGLCLRRFEKACALGE  811 (1060)
T ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH-HcCCCCCHHHHHHHHHHHHHHHHHHhhhhh
Confidence            5555555555555555555555555555555555555555555555533 2455555555555543321           


Q ss_pred             ------------hcCChHHHHHHHHhC---CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc-CCCCchHHHHHHHH
Q 041384          482 ------------KSGKIEDACKVVSTM---PMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEA-EPENAANYTLLSMV  545 (580)
Q Consensus       482 ------------~~g~~~~A~~~~~~~---~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~  545 (580)
                                  ..+..++|..+|++|   ++.||..+|+.++..++..++...+..+++.+... .+++..+|+.++++
T Consensus       812 ~v~~f~~g~~~~~n~w~~~Al~lf~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g  891 (1060)
T PLN03218        812 PVVSFDSGRPQIENKWTSWALMVYRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDG  891 (1060)
T ss_pred             hhhhhhccccccccchHHHHHHHHHHHHHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHh
Confidence                        112346788999988   47899999999997777888888888888877644 36778889999988


Q ss_pred             HHhcCChHHHHHHHHHHHhCCCccCCc
Q 041384          546 CSESGNWLGAEEVWRVMRAKGLSKSYG  572 (580)
Q Consensus       546 ~~~~g~~~~A~~~~~~~~~~~~~~~~~  572 (580)
                      +.+.  .++|..++++|.+.|+.|+..
T Consensus       892 ~~~~--~~~A~~l~~em~~~Gi~p~~~  916 (1060)
T PLN03218        892 FGEY--DPRAFSLLEEAASLGVVPSVS  916 (1060)
T ss_pred             hccC--hHHHHHHHHHHHHcCCCCCcc
Confidence            7322  368999999999999886553

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

Probab=100.00  E-value=2e-67  Score=541.04  Aligned_cols=461  Identities=24%  Similarity=0.392  Sum_probs=444.6

Q ss_pred             CCCCchhhHHHHHHHHHccC-CCCCCCcchHHHHHHhhcccchhHHHHHHHHHHHHhCCCCChhHHHHHHHHHHcCCCch
Q 041384            2 VSKHFYEQTLHLYKQELHPS-GLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPE   80 (580)
Q Consensus         2 ~~~~~~~~a~~~~~~~~~~~-g~~~~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~   80 (580)
                      ++.|++++|+++| +.|... ++.||..+|+.++.+|.+.++. +.+.+++..|.+.|+.||..+||.|+..|++.|+++
T Consensus        98 ~~~g~~~~Al~~f-~~m~~~~~~~~~~~t~~~ll~a~~~~~~~-~~a~~l~~~m~~~g~~~~~~~~n~Li~~y~k~g~~~  175 (697)
T PLN03081         98 VACGRHREALELF-EILEAGCPFTLPASTYDALVEACIALKSI-RCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLI  175 (697)
T ss_pred             HcCCCHHHHHHHH-HHHHhcCCCCCCHHHHHHHHHHHHhCCCH-HHHHHHHHHHHHhCCCcchHHHHHHHHHHhcCCCHH
Confidence            5679999999999 889775 4789999999999999999999 999999999999999999999999999999999999


Q ss_pred             HHHHhhccCCCCCccchHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhCC
Q 041384           81 SAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGS  160 (580)
Q Consensus        81 ~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  160 (580)
                      .|.++|++|+.||..+||++|.+|++.|++++|+++|++|.+.|+.|+..||+.++.+|++.|..+.+.+++..+.+.| 
T Consensus       176 ~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g-  254 (697)
T PLN03081        176 DARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTG-  254 (697)
T ss_pred             HHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhC-
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999999999999 


Q ss_pred             CCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCCCCeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 041384          161 FELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLA  240 (580)
Q Consensus       161 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~  240 (580)
                      +.+|..+++.|+++|+++|++++|.++|++|..+|..+||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+
T Consensus       255 ~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a  334 (697)
T PLN03081        255 VVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRI  334 (697)
T ss_pred             CCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHHHhCCChhHHHHH
Q 041384          241 CAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKL  320 (580)
Q Consensus       241 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  320 (580)
                      |++.|+++.|.+++..|.+.|+.|+..+++.++.+|+++|+ ++.|.++|+.+..+|..+||+||.+|++.|+.++|+++
T Consensus       335 ~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~-~~~A~~vf~~m~~~d~~t~n~lI~~y~~~G~~~~A~~l  413 (697)
T PLN03081        335 FSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGR-MEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEM  413 (697)
T ss_pred             HHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCC-HHHHHHHHHhCCCCCeeeHHHHHHHHHHcCCHHHHHHH
Confidence            99999999999999999999999999999999999999999 99999999999999999999999999999999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHH-hCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCC-CC
Q 041384          321 FSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMK-AGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAA-RD  398 (580)
Q Consensus       321 ~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~  398 (580)
                      |++|.+.|+.||..||+.++.+|++.|.+++|.++|+.|.+ .|+.|+..+|+.++++|++.|++++|.++++++.. |+
T Consensus       414 f~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~~~~p~  493 (697)
T PLN03081        414 FERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPT  493 (697)
T ss_pred             HHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHCCCCCC
Confidence            99999999999999999999999999999999999999986 69999999999999999999999999999999864 79


Q ss_pred             cchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCC
Q 041384          399 FVSWTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALA  469 (580)
Q Consensus       399 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  469 (580)
                      ..+|++|+.+|...|+++.|..+++++.+  +.| +..+|..+++.|++.|++++|.++++. |++.|+.+.
T Consensus       494 ~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~--~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~-m~~~g~~k~  562 (697)
T PLN03081        494 VNMWAALLTACRIHKNLELGRLAAEKLYG--MGPEKLNNYVVLLNLYNSSGRQAEAAKVVET-LKRKGLSMH  562 (697)
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHhC--CCCCCCcchHHHHHHHHhCCCHHHHHHHHHH-HHHcCCccC
Confidence            99999999999999999999999999975  466 467999999999999999999999999 555777543

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.4e-66  Score=535.99  Aligned_cols=489  Identities=16%  Similarity=0.201  Sum_probs=381.5

Q ss_pred             CCCCchhhHHHHHHHHHccCCC-CCCCcchHHHHHHhhcccchhHHHHHHHHHHHHhCCCCChhHHHHHHHHHHcCCCch
Q 041384            2 VSKHFYEQTLHLYKQELHPSGL-YSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPE   80 (580)
Q Consensus         2 ~~~~~~~~a~~~~~~~~~~~g~-~~~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~   80 (580)
                      .+.|++++|+++| +.|...|+ .++...+..++..|.+.+.. ..|..+++.|..    ||..+|+.+|.+|++.|+++
T Consensus       381 ~r~G~l~eAl~Lf-d~M~~~gvv~~~~v~~~~li~~~~~~g~~-~eAl~lf~~M~~----pd~~Tyn~LL~a~~k~g~~e  454 (1060)
T PLN03218        381 LRDGRIKDCIDLL-EDMEKRGLLDMDKIYHAKFFKACKKQRAV-KEAFRFAKLIRN----PTLSTFNMLMSVCASSQDID  454 (1060)
T ss_pred             HHCcCHHHHHHHH-HHHHhCCCCCchHHHHHHHHHHHHHCCCH-HHHHHHHHHcCC----CCHHHHHHHHHHHHhCcCHH
Confidence            4679999999999 99999886 46777788899999999999 999999998863    99999999999999999999


Q ss_pred             HHHHhhccCC----CCCccchHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHHHHH
Q 041384           81 SAYQLFDEMP----YRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVI  156 (580)
Q Consensus        81 ~A~~~~~~~~----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  156 (580)
                      +|.++|+.|.    .||..+|+.||.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|+.|.
T Consensus       455 ~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~  534 (1060)
T PLN03218        455 GALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMR  534 (1060)
T ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHH
Confidence            9999999996    689999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCC------CCCeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC
Q 041384          157 VDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMV------IRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPT  230 (580)
Q Consensus       157 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~  230 (580)
                      +.| +.||..+|+.|+.+|++.|++++|.++|++|.      .||..+|+++|.+|++.|++++|.++|++|.+.|+.|+
T Consensus       535 ~~G-v~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~  613 (1060)
T PLN03218        535 SKN-VKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGT  613 (1060)
T ss_pred             HcC-CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            999 99999999999999999999999999999993      57999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCC----CCChhhHHHHHH
Q 041384          231 RVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTK----VKDVVIWSSIIR  306 (580)
Q Consensus       231 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~l~~  306 (580)
                      ..+|+.++.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|+ ++.|.++++.+.    .|+..+|+++|.
T Consensus       614 ~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~-~eeA~~l~~eM~k~G~~pd~~tynsLI~  692 (1060)
T PLN03218        614 PEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGD-LDKAFEILQDARKQGIKLGTVSYSSLMG  692 (1060)
T ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCC-HHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            999999999999999999999999999999988776666666555555555 444444444332    334444555555


Q ss_pred             HHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHH
Q 041384          307 GYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITS  386 (580)
Q Consensus       307 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  386 (580)
                      +|++.|++++|.++|++|...|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+              
T Consensus       693 ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~--------------  758 (1060)
T PLN03218        693 ACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYS--------------  758 (1060)
T ss_pred             HHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHH--------------
Confidence            555555555555555555444444555555555555555555555555555554444445544444              


Q ss_pred             HHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc--------------------
Q 041384          387 SHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNH--------------------  446 (580)
Q Consensus       387 A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~--------------------  446 (580)
                                       .++.+|++.|++++|.+++.+|.+.|+.||..+|+.++..|.+                    
T Consensus       759 -----------------sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~  821 (1060)
T PLN03218        759 -----------------ILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRP  821 (1060)
T ss_pred             -----------------HHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhcccc
Confidence                             4444555555555555555555555555555555544433221                    


Q ss_pred             ---cCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC---CCCCHHHHHHHHHHHHhcCCHHH
Q 041384          447 ---AGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP---MKPSTRILSSLVSACRIHGRLEV  520 (580)
Q Consensus       447 ---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~p~~~~~~~l~~~~~~~~~~~~  520 (580)
                         .+..+.|..+|++|. +.|+.||..+|+.++.++++.+..+.+..+++++.   ..|+..+|++++.++.+.  .++
T Consensus       822 ~~~n~w~~~Al~lf~eM~-~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~~--~~~  898 (1060)
T PLN03218        822 QIENKWTSWALMVYRETI-SAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEY--DPR  898 (1060)
T ss_pred             ccccchHHHHHHHHHHHH-HCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhccC--hHH
Confidence               122456888888855 47888888888888888888888888888888774   446777888888887432  357


Q ss_pred             HHHHHHHHHhcC
Q 041384          521 AEMLAHQLIEAE  532 (580)
Q Consensus       521 A~~~~~~~~~~~  532 (580)
                      |..++++|...+
T Consensus       899 A~~l~~em~~~G  910 (1060)
T PLN03218        899 AFSLLEEAASLG  910 (1060)
T ss_pred             HHHHHHHHHHcC
Confidence            888888888876

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

Probab=100.00  E-value=5.5e-34  Score=308.76  Aligned_cols=548  Identities=12%  Similarity=0.024  Sum_probs=339.5

Q ss_pred             CCCchhhHHHHHHHHHccCCCCCCCcchHHHHHHhhcccchhHHHHHHHHHHHHhCCCCChhHHHHHHHHHHcCCCchHH
Q 041384            3 SKHFYEQTLHLYKQELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESA   82 (580)
Q Consensus         3 ~~~~~~~a~~~~~~~~~~~g~~~~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A   82 (580)
                      +.|++++|...| +.+.... +.+...+..+...+...|+. +.|...++.+.+.. +.+...+..+...+.+.|++++|
T Consensus       307 ~~g~~~~A~~~~-~~~~~~~-p~~~~~~~~la~~~~~~g~~-~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A  382 (899)
T TIGR02917       307 QLGNLEQAYQYL-NQILKYA-PNSHQARRLLASIQLRLGRV-DEAIATLSPALGLD-PDDPAALSLLGEAYLALGDFEKA  382 (899)
T ss_pred             HcCCHHHHHHHH-HHHHHhC-CCChHHHHHHHHHHHHCCCH-HHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCCCHHHH
Confidence            467888888888 6655432 22344556666677778888 88888888777654 45667777778888888888888


Q ss_pred             HHhhccCC---CCCccchHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhC
Q 041384           83 YQLFDEMP---YRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDG  159 (580)
Q Consensus        83 ~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  159 (580)
                      .+.|+++.   +.+...+..+...+...|++++|++.++.+.+.... .......++..+.+.|+++.|..+++.+....
T Consensus       383 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  461 (899)
T TIGR02917       383 AEYLAKATELDPENAAARTQLGISKLSQGDPSEAIADLETAAQLDPE-LGRADLLLILSYLRSGQFDKALAAAKKLEKKQ  461 (899)
T ss_pred             HHHHHHHHhcCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhhCCc-chhhHHHHHHHHHhcCCHHHHHHHHHHHHHhC
Confidence            88887764   234556666677777777777777777777665322 23344455566667777777777777766653


Q ss_pred             CCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCC---CCeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHH
Q 041384          160 SFELSVFVSTALLDLYSKCHHWLIALRVFEQMVI---RNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTI  236 (580)
Q Consensus       160 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~  236 (580)
                        +++..++..+...+...|++++|...|+++..   .+...+..+...+...|++++|.+.++++.+.+ +.+..++..
T Consensus       462 --~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~  538 (899)
T TIGR02917       462 --PDNASLHNLLGAIYLGKGDLAKAREAFEKALSIEPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILA  538 (899)
T ss_pred             --CCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHH
Confidence              55566677777777777777777777766522   234455566666666777777777777766542 234555666


Q ss_pred             HHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCC---CCChhhHHHHHHHHHhCCC
Q 041384          237 VLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTK---VKDVVIWSSIIRGYSQSGD  313 (580)
Q Consensus       237 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~~~  313 (580)
                      +...+.+.|+.++|...++.+.+.+. .+...+..+...+...|+ .+.+..+++.+.   ..+...|..+..++...|+
T Consensus       539 l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~-~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  616 (899)
T TIGR02917       539 LAGLYLRTGNEEEAVAWLEKAAELNP-QEIEPALALAQYYLGKGQ-LKKALAILNEAADAAPDSPEAWLMLGRAQLAAGD  616 (899)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCc-cchhHHHHHHHHHHHCCC-HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCC
Confidence            66666666777777776666655542 234455556666666666 666666666543   2344566666666666666


Q ss_pred             hhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhc
Q 041384          314 LSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNE  393 (580)
Q Consensus       314 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  393 (580)
                      +++|...|+++.+.. +.+...+..+...+...|++++|..+++.+.+.. +.+...+..++..+...|++++|..+++.
T Consensus       617 ~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  694 (899)
T TIGR02917       617 LNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKS  694 (899)
T ss_pred             HHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            666666666665543 3344555566666666666666666666666543 33455566666666666666666666666


Q ss_pred             CCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCCh
Q 041384          394 MAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAI  470 (580)
Q Consensus       394 ~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  470 (580)
                      +.+   .+...+..+...+...|++++|...++++...  .|+..++..+..++...|++++|.+.++++++  ..+.+.
T Consensus       695 ~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~--~~~~~~  770 (899)
T TIGR02917       695 LQKQHPKAALGFELEGDLYLRQKDYPAAIQAYRKALKR--APSSQNAIKLHRALLASGNTAEAVKTLEAWLK--THPNDA  770 (899)
T ss_pred             HHhhCcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCH
Confidence            554   23345555556666666666666666666653  34445555556666666666666666666443  233345


Q ss_pred             hHHHHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHh
Q 041384          471 EHYACYVDLLGKSGKIEDACKVVSTMP--MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSE  548 (580)
Q Consensus       471 ~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~  548 (580)
                      ..+..++..|...|++++|...|+++.  .++++..++.++..+...|+ ++|+..++++.+..|.++..+..++.++..
T Consensus       771 ~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~  849 (899)
T TIGR02917       771 VLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILDTLGWLLVE  849 (899)
T ss_pred             HHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHHHHHHHHHH
Confidence            555566666666666666666666552  23345555566666666665 556666666666666666666666666666


Q ss_pred             cCChHHHHHHHHHHHhCCC
Q 041384          549 SGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       549 ~g~~~~A~~~~~~~~~~~~  567 (580)
                      .|++++|.++++++.+.+.
T Consensus       850 ~g~~~~A~~~~~~a~~~~~  868 (899)
T TIGR02917       850 KGEADRALPLLRKAVNIAP  868 (899)
T ss_pred             cCCHHHHHHHHHHHHhhCC
Confidence            6666666666666655443

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=1.4e-33  Score=305.51  Aligned_cols=545  Identities=12%  Similarity=0.006  Sum_probs=362.7

Q ss_pred             CCCchhhHHHHHHHHHccCCCCCCCcchHHHHHHhhcccchhHHHHHHHHHHHHhCCCCChhHHHHHHHHHHcCCCchHH
Q 041384            3 SKHFYEQTLHLYKQELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESA   82 (580)
Q Consensus         3 ~~~~~~~a~~~~~~~~~~~g~~~~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A   82 (580)
                      +.|++++|+..+ +.+.... +.+...+..+...+...|+. +.|..+++.+.+.. +.+...+..+...+...|++++|
T Consensus       341 ~~g~~~~A~~~~-~~~~~~~-~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A  416 (899)
T TIGR02917       341 RLGRVDEAIATL-SPALGLD-PDDPAALSLLGEAYLALGDF-EKAAEYLAKATELD-PENAAARTQLGISKLSQGDPSEA  416 (899)
T ss_pred             HCCCHHHHHHHH-HHHHhcC-CCCHHHHHHHHHHHHHCCCH-HHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhCCChHHH
Confidence            456777777777 5554432 23444566666666677777 77777777776653 34555666666677777777777


Q ss_pred             HHhhccCCC---CCccchHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhC
Q 041384           83 YQLFDEMPY---RDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDG  159 (580)
Q Consensus        83 ~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  159 (580)
                      .+.|+.+..   .+...+..++..+.+.|++++|+.+++.+... .++++.++..+...+...|+++.|.+.++++.+..
T Consensus       417 ~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~  495 (899)
T TIGR02917       417 IADLETAAQLDPELGRADLLLILSYLRSGQFDKALAAAKKLEKK-QPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIE  495 (899)
T ss_pred             HHHHHHHHhhCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHh-CCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC
Confidence            777766542   23344555666777777777777777777654 33456667777777777777777777777776654


Q ss_pred             CCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCC---CCeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHH
Q 041384          160 SFELSVFVSTALLDLYSKCHHWLIALRVFEQMVI---RNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTI  236 (580)
Q Consensus       160 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~  236 (580)
                        +.+...+..+...+...|++++|.+.|+++..   .+..++..+...+.+.|+.++|...++++.+.+ +.+...+..
T Consensus       496 --~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~  572 (899)
T TIGR02917       496 --PDFFPAAANLARIDIQEGNPDDAIQRFEKVLTIDPKNLRAILALAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALA  572 (899)
T ss_pred             --CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHH
Confidence              45555666677777777777777777776632   245566667777777777777777777776543 234455666


Q ss_pred             HHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCC---CCChhhHHHHHHHHHhCCC
Q 041384          237 VLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTK---VKDVVIWSSIIRGYSQSGD  313 (580)
Q Consensus       237 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~~~  313 (580)
                      +...+...|++++|..+++.+.+.. +.+...+..+...+...|+ .+.|...++.+.   +.+...+..+...+...|+
T Consensus       573 l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~-~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  650 (899)
T TIGR02917       573 LAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGD-LNKAVSSFKKLLALQPDSALALLLLADAYAVMKN  650 (899)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCC-HHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCC
Confidence            6677777777777777777766543 3355666777777777777 777777766543   2345566667777777777


Q ss_pred             hhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhc
Q 041384          314 LSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNE  393 (580)
Q Consensus       314 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  393 (580)
                      +++|...++++.+.. +.+..++..+...+...|++++|.++++.+.+.. +.+...+..+...+...|++++|...|+.
T Consensus       651 ~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~  728 (899)
T TIGR02917       651 YAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRK  728 (899)
T ss_pred             HHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            777777777776543 3345666677777777777777777777776654 44555666667777777777777777776


Q ss_pred             CCC--CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChh
Q 041384          394 MAA--RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIE  471 (580)
Q Consensus       394 ~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  471 (580)
                      +..  |+..++..++.++...|++++|.+.++++.+.. +.+...+..+...|...|++++|...|+++++  ..+++..
T Consensus       729 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~--~~p~~~~  805 (899)
T TIGR02917       729 ALKRAPSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVK--KAPDNAV  805 (899)
T ss_pred             HHhhCCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHH--hCCCCHH
Confidence            654  344556666777777777777777777776652 33556666677777777777777777777554  2344566


Q ss_pred             HHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhc
Q 041384          472 HYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSES  549 (580)
Q Consensus       472 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~  549 (580)
                      +++.++..+...|+ .+|+.+++++ ...| ++.++..+...+...|++++|...++++.+.+|.++.++..++.++.+.
T Consensus       806 ~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~  884 (899)
T TIGR02917       806 VLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPEAAAIRYHLALALLAT  884 (899)
T ss_pred             HHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHc
Confidence            67777777777777 6677777766 2233 4455666677777777777777777777777777777777777777777


Q ss_pred             CChHHHHHHHHHHH
Q 041384          550 GNWLGAEEVWRVMR  563 (580)
Q Consensus       550 g~~~~A~~~~~~~~  563 (580)
                      |++++|.+++++|+
T Consensus       885 g~~~~A~~~~~~~~  898 (899)
T TIGR02917       885 GRKAEARKELDKLL  898 (899)
T ss_pred             CCHHHHHHHHHHHh
Confidence            77777777777764

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

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.97  E-value=4.7e-25  Score=238.64  Aligned_cols=543  Identities=10%  Similarity=0.022  Sum_probs=400.1

Q ss_pred             CCCCchhhHHHHHHHHHccCCCCCCCcchHHHHHH-hhcccchhHHHHHHHHHHHHhCCCCChhHHHHHHHHHHcCCCch
Q 041384            2 VSKHFYEQTLHLYKQELHPSGLYSNTAILPSVIKA-CAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPE   80 (580)
Q Consensus         2 ~~~~~~~~a~~~~~~~~~~~g~~~~~~~~~~ll~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~   80 (580)
                      .+.|++++|++.| +.+...+ +|+...-...... ....++. +.|...++.+.+.. |.+...+..+...+...|+.+
T Consensus       123 ~~~g~~~eA~~~~-~~~l~~~-p~~~~la~~y~~~~~~~~g~~-~~A~~~L~~ll~~~-P~~~~~~~~LA~ll~~~g~~~  198 (1157)
T PRK11447        123 ATTGRTEEALASY-DKLFNGA-PPELDLAVEYWRLVAKLPAQR-PEAINQLQRLNADY-PGNTGLRNTLALLLFSSGRRD  198 (1157)
T ss_pred             HhCCCHHHHHHHH-HHHccCC-CCChHHHHHHHHHHhhCCccH-HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHccCCHH
Confidence            3579999999999 7776543 2332211112222 2345788 99999999999885 567778889999999999999


Q ss_pred             HHHHhhccCCCCCcc------c-----------------hHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHH
Q 041384           81 SAYQLFDEMPYRDTI------S-----------------WNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIIS  137 (580)
Q Consensus        81 ~A~~~~~~~~~~~~~------~-----------------~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~  137 (580)
                      +|+..|+++......      .                 +...+..+-.......|...+.........|+... ...-.
T Consensus       199 eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~~-~~~G~  277 (1157)
T PRK11447        199 EGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFRA-RAQGL  277 (1157)
T ss_pred             HHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchHH-HHHHH
Confidence            999999987522110      1                 11111111122223445555555544322232221 12245


Q ss_pred             HhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCC--CCe---ehHH------------
Q 041384          138 LCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVI--RNE---VSWT------------  200 (580)
Q Consensus       138 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~---~~~~------------  200 (580)
                      .+...|++++|...+++.++..  |.+..++..|...+.+.|++++|+..|++..+  |+.   ..|.            
T Consensus       278 ~~~~~g~~~~A~~~l~~aL~~~--P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~  355 (1157)
T PRK11447        278 AAVDSGQGGKAIPELQQAVRAN--PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLI  355 (1157)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHH
Confidence            5677899999999999999976  66888999999999999999999999998743  321   1121            


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcC
Q 041384          201 AMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECT  280 (580)
Q Consensus       201 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  280 (580)
                      .....+.+.|++++|...|++..+.. +.+...+..+...+...|++++|.+.|+++.+.... +...+..+...+. .+
T Consensus       356 ~~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~-~~~a~~~L~~l~~-~~  432 (1157)
T PRK11447        356 QQGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPG-NTNAVRGLANLYR-QQ  432 (1157)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH-hc
Confidence            12346778999999999999998863 234566777888999999999999999999987543 3445555666554 34


Q ss_pred             CCHHHHHHHHhhCCCCC------------hhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCC
Q 041384          281 EALHPARIIFERTKVKD------------VVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSF  348 (580)
Q Consensus       281 ~~~~~a~~~~~~~~~~~------------~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~  348 (580)
                      + .+.|...++......            ...+..+...+...|++++|...|++..+.. +-+...+..+...+...|+
T Consensus       433 ~-~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~  510 (1157)
T PRK11447        433 S-PEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQ  510 (1157)
T ss_pred             C-HHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCC
Confidence            5 788888777654321            1234556677889999999999999998764 3355677788889999999


Q ss_pred             hHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCCCC----c---------chHHHHHHHHHhcCCh
Q 041384          349 LSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARD----F---------VSWTTLISGYGFHGYG  415 (580)
Q Consensus       349 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~----~---------~~~~~l~~~~~~~~~~  415 (580)
                      +++|...++.+.+.. +.++..+..+...+...++.++|...++.+....    .         ..+..+...+...|+.
T Consensus       511 ~~~A~~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~  589 (1157)
T PRK11447        511 RSQADALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKE  589 (1157)
T ss_pred             HHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCH
Confidence            999999999998754 3344455555566778999999999999886521    1         1123456678899999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHh
Q 041384          416 EEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVST  495 (580)
Q Consensus       416 ~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  495 (580)
                      ++|..+++.     .+++...+..+...+.+.|++++|+..|+++++.  .+.+...+..++..|...|++++|++.++.
T Consensus       590 ~eA~~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~--~P~~~~a~~~la~~~~~~g~~~eA~~~l~~  662 (1157)
T PRK11447        590 AEAEALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTR--EPGNADARLGLIEVDIAQGDLAAARAQLAK  662 (1157)
T ss_pred             HHHHHHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            999999872     2445667778888999999999999999998763  344577888999999999999999999998


Q ss_pred             CC-CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCc------hHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 041384          496 MP-MKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENA------ANYTLLSMVCSESGNWLGAEEVWRVMRA  564 (580)
Q Consensus       496 ~~-~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~------~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (580)
                      .. ..| +...+..+..++...|++++|.++++++....|+++      .++..++..+...|++++|+..+++...
T Consensus       663 ll~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~  739 (1157)
T PRK11447        663 LPATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMV  739 (1157)
T ss_pred             HhccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            84 444 456677788899999999999999999998776543      4677789999999999999999998864

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.96  E-value=1.7e-24  Score=234.29  Aligned_cols=553  Identities=10%  Similarity=0.013  Sum_probs=401.5

Q ss_pred             CCCCchhhHHHHHHHHHccCCCCCCCcch-----------------HHHHHHhhcccchhHHHHHHHHHHHHhCCCCChh
Q 041384            2 VSKHFYEQTLHLYKQELHPSGLYSNTAIL-----------------PSVIKACAYAQTHQHFGLQLHCTALKSGSDADPV   64 (580)
Q Consensus         2 ~~~~~~~~a~~~~~~~~~~~g~~~~~~~~-----------------~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   64 (580)
                      .+.|+.++|.+.+ +++.+..  |+...+                 ....+.+...|++ +.|.+.++.+.+.. +|+..
T Consensus        73 l~~g~~~~A~~~l-~~l~~~~--P~~~~~~~~~~~~~~~~~~~~~~l~~A~ll~~~g~~-~eA~~~~~~~l~~~-p~~~~  147 (1157)
T PRK11447         73 LRQGDSDGAQKLL-DRLSQLA--PDSNAYRSSRTTMLLSTPEGRQALQQARLLATTGRT-EEALASYDKLFNGA-PPELD  147 (1157)
T ss_pred             HhCCCHHHHHHHH-HHHHhhC--CCChHHHHHHHHHHhcCCchhhHHHHHHHHHhCCCH-HHHHHHHHHHccCC-CCChH
Confidence            3679999999999 8887663  444332                 2223456788999 99999999998764 44432


Q ss_pred             H-HHHHHHHHHcCCCchHHHHhhccCC---CCCccchHHHHHHHHhCCChhHHHHHHHHHHHCCCCC-------------
Q 041384           65 I-SNSLISMYAKFSKPESAYQLFDEMP---YRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVL-------------  127 (580)
Q Consensus        65 ~-~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~-------------  127 (580)
                      . ...+.......|+.++|++.|+++.   +.+...+..+...+...|+.++|+..++++.+.....             
T Consensus       148 la~~y~~~~~~~~g~~~~A~~~L~~ll~~~P~~~~~~~~LA~ll~~~g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~  227 (1157)
T PRK11447        148 LAVEYWRLVAKLPAQRPEAINQLQRLNADYPGNTGLRNTLALLLFSSGRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKD  227 (1157)
T ss_pred             HHHHHHHHHhhCCccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHhhCCCchHHHHHHHHHHHhc
Confidence            2 1122222334699999999999887   3356678888899999999999999999987642110             


Q ss_pred             ---CHh---hHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCC--C-Ceeh
Q 041384          128 ---KAE---LLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVI--R-NEVS  198 (580)
Q Consensus       128 ---~~~---~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~~~~  198 (580)
                         +..   .+...+..+-.......+...+....... ..|+.. ...+...+...|++++|+..|++...  | +..+
T Consensus       228 ~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~-~dp~~~-~~~~G~~~~~~g~~~~A~~~l~~aL~~~P~~~~a  305 (1157)
T PRK11447        228 MPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQL-ADPAFR-ARAQGLAAVDSGQGGKAIPELQQAVRANPKDSEA  305 (1157)
T ss_pred             cCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhc-cCcchH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHH
Confidence               000   11111222222222344455554443332 122221 22345677889999999999998733  3 6678


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHcCCCC-CHHHH------------HHHHHHHhcCCCchhHHHHHHHHHHhcCCCc
Q 041384          199 WTAMISGCIDSQNYDTGIDLFRAMQREGVKP-TRVTL------------TIVLLACAELRDLRNGKAIHGYAYCCGFDFD  265 (580)
Q Consensus       199 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~------------~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  265 (580)
                      +..+...+.+.|++++|+..|++..+..... ....+            ......+.+.|++++|...++++++... .+
T Consensus       306 ~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~P-~~  384 (1157)
T PRK11447        306 LGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAALKANNLAQAERLYQQARQVDN-TD  384 (1157)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CC
Confidence            8899999999999999999999988753221 11111            1223456789999999999999998754 34


Q ss_pred             hhHHHHHHHHHHHcCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCC--------CCHH
Q 041384          266 HHLSAALMHMYCECTEALHPARIIFERTKV---KDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIE--------PNSV  334 (580)
Q Consensus       266 ~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~--------p~~~  334 (580)
                      ...+..+...+...|+ .+.|...|++...   .+...+..+...|. .++.++|..+++.+......        ....
T Consensus       385 ~~a~~~Lg~~~~~~g~-~~eA~~~y~~aL~~~p~~~~a~~~L~~l~~-~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~  462 (1157)
T PRK11447        385 SYAVLGLGDVAMARKD-YAAAERYYQQALRMDPGNTNAVRGLANLYR-QQSPEKALAFIASLSASQRRSIDDIERSLQND  462 (1157)
T ss_pred             HHHHHHHHHHHHHCCC-HHHHHHHHHHHHHhCCCCHHHHHHHHHHHH-hcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhh
Confidence            5667778889999999 9999999988763   34455666666664 46789999988775432100        0112


Q ss_pred             HHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCC--C-CcchHHHHHHHHHh
Q 041384          335 TLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAA--R-DFVSWTTLISGYGF  411 (580)
Q Consensus       335 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~  411 (580)
                      .+..+...+...|++++|.+.+++..+.. +-++..+..+...|.+.|++++|...++++.+  | +...+..+...+..
T Consensus       463 ~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~P~~~~~~~a~al~l~~  541 (1157)
T PRK11447        463 RLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQKPNDPEQVYAYGLYLSG  541 (1157)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHh
Confidence            34556677888999999999999999865 33567778889999999999999999998754  3 44455556666778


Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHH---------HHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhh
Q 041384          412 HGYGEEALQLFLEMQESGVEPDAI---------TVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGK  482 (580)
Q Consensus       412 ~~~~~~a~~~~~~~~~~g~~p~~~---------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  482 (580)
                      .++.++|+..++.+......++..         .+..+...+...|+.++|..+++.      .+.+...+..+...+.+
T Consensus       542 ~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~------~p~~~~~~~~La~~~~~  615 (1157)
T PRK11447        542 SDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQ------QPPSTRIDLTLADWAQQ  615 (1157)
T ss_pred             CCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHh------CCCCchHHHHHHHHHHH
Confidence            899999999998875433233221         123455678889999999998873      34556677889999999


Q ss_pred             cCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHH
Q 041384          483 SGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWR  560 (580)
Q Consensus       483 ~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  560 (580)
                      .|++++|+..|++. ...| +...+..++..+...|+.++|+..++++.+..|+++..+..++.++...|++++|.++++
T Consensus       616 ~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~  695 (1157)
T PRK11447        616 RGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLAAARAQLAKLPATANDSLNTQRRVALAWAALGDTAAAQRTFN  695 (1157)
T ss_pred             cCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            99999999999988 3444 678899999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhCCCccCC
Q 041384          561 VMRAKGLSKSY  571 (580)
Q Consensus       561 ~~~~~~~~~~~  571 (580)
                      ++........|
T Consensus       696 ~al~~~~~~~~  706 (1157)
T PRK11447        696 RLIPQAKSQPP  706 (1157)
T ss_pred             HHhhhCccCCc
Confidence            99876543333

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.95  E-value=7.2e-23  Score=211.51  Aligned_cols=540  Identities=8%  Similarity=-0.015  Sum_probs=382.7

Q ss_pred             CCCchhhHHHHHHHHHccCCCCCCCcchHHHHHHhhcccchhHHHHHHHHHHHHhCCCCChhHHHHHHHHHHcCCCchHH
Q 041384            3 SKHFYEQTLHLYKQELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESA   82 (580)
Q Consensus         3 ~~~~~~~a~~~~~~~~~~~g~~~~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A   82 (580)
                      ..|++++|+..| +...+.. +-+..++..+.+.+...|+. +.|...++...+.. |-|...+..+ ..+   +++++|
T Consensus        56 ~~Gd~~~A~~~l-~~Al~~d-P~n~~~~~~LA~~yl~~g~~-~~A~~~~~kAv~ld-P~n~~~~~~L-a~i---~~~~kA  127 (987)
T PRK09782         56 KNNDEATAIREF-EYIHQQV-PDNIPLTLYLAEAYRHFGHD-DRARLLLEDQLKRH-PGDARLERSL-AAI---PVEVKS  127 (987)
T ss_pred             hCCCHHHHHHHH-HHHHHhC-CCCHHHHHHHHHHHHHCCCH-HHHHHHHHHHHhcC-cccHHHHHHH-HHh---ccChhH
Confidence            359999999999 7666553 22355778888899999999 99999999998874 3444444444 333   889999


Q ss_pred             HHhhccCC--CC-CccchHHHHHH--------HHhCCChhHHHHHHHHHHHCCCCCCHhhHHHH-HHHhhccCCcHHHHH
Q 041384           83 YQLFDEMP--YR-DTISWNSIINC--------FTQNGFYVRSLEMFREMYLCGFVLKAELLAGI-ISLCSQIGELELGRQ  150 (580)
Q Consensus        83 ~~~~~~~~--~~-~~~~~~~li~~--------~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l-l~~~~~~~~~~~a~~  150 (580)
                      ..+++++.  .| +...+..+...        |.+.   +.|.+.++ .......|++.+.... ...|.+.++++.|..
T Consensus       128 ~~~ye~l~~~~P~n~~~~~~la~~~~~~~~l~y~q~---eqAl~AL~-lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~  203 (987)
T PRK09782        128 VTTVEELLAQQKACDAVPTLRCRSEVGQNALRLAQL---PVARAQLN-DATFAASPEGKTLRTDLLQRAIYLKQWSQADT  203 (987)
T ss_pred             HHHHHHHHHhCCCChhHHHHHHHHhhccchhhhhhH---HHHHHHHH-HhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHH
Confidence            99999986  33 45555555554        5555   55555555 4443344456555555 899999999999999


Q ss_pred             HHHHHHHhCCCCCchHHHhHHHHHhHh-cCCHHHHHHHHhcCCCCCeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCC-
Q 041384          151 IHALVIVDGSFELSVFVSTALLDLYSK-CHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVK-  228 (580)
Q Consensus       151 ~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-  228 (580)
                      .+..+.+.+  +.+......|...|.. .++ +++..+++...+.+...+..+...|.+.|+.++|.++++++...... 
T Consensus       204 lL~~L~k~~--pl~~~~~~~L~~ay~q~l~~-~~a~al~~~~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~~~~  280 (987)
T PRK09782        204 LYNEARQQN--TLSAAERRQWFDVLLAGQLD-DRLLALQSQGIFTDPQSRITYATALAYRGEKARLQHYLIENKPLFTTD  280 (987)
T ss_pred             HHHHHHhcC--CCCHHHHHHHHHHHHHhhCH-HHHHHHhchhcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCcccccCC
Confidence            999999997  5666667778788887 467 88988887655568888999999999999999999999987654222 


Q ss_pred             CCHHHHHHH------------------------------HHHHhcCCCchhHHHHHH-----------------------
Q 041384          229 PTRVTLTIV------------------------------LLACAELRDLRNGKAIHG-----------------------  255 (580)
Q Consensus       229 p~~~~~~~l------------------------------l~~~~~~~~~~~a~~~~~-----------------------  255 (580)
                      |+..++.-+                              +..+.+.++++.+.++..                       
T Consensus       281 ~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~  360 (987)
T PRK09782        281 AQEKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLLATLPANEMLEERYAVSVATRNKAE  360 (987)
T ss_pred             CccHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHhcCCCcchHHHHHHhhccccCchhH
Confidence            333332222                              233344444444433321                       


Q ss_pred             ------HHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCC-C-----ChhhHHHHHHHHHhCCC---hhHHHHH
Q 041384          256 ------YAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKV-K-----DVVIWSSIIRGYSQSGD---LSEAMKL  320 (580)
Q Consensus       256 ------~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~-~-----~~~~~~~l~~~~~~~~~---~~~a~~~  320 (580)
                            .+.+. .+-+......+.-.....|+ .+.|..+++.... +     +....+-++..|.+.+.   ..++..+
T Consensus       361 ~~~~~~~~y~~-~~~~~~~l~q~~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l  438 (987)
T PRK09782        361 ALRLARLLYQQ-EPANLTRLDQLTWQLMQNGQ-SREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAIL  438 (987)
T ss_pred             HHHHHHHHHhc-CCCCHHHHHHHHHHHHHccc-HHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHh
Confidence                  00000 01122222223333445677 8999999887654 2     22234466677777665   3333333


Q ss_pred             ----------------------HHHHHH-CCC-CC--CHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHH
Q 041384          321 ----------------------FSRMRL-ERI-EP--NSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNAL  374 (580)
Q Consensus       321 ----------------------~~~m~~-~~~-~p--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  374 (580)
                                            +..... .+. ++  +...+..+..++.. ++.++|...+.......  |+......+
T Consensus       439 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~--Pd~~~~L~l  515 (987)
T PRK09782        439 SKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQ--PDAWQHRAV  515 (987)
T ss_pred             ccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhC--CchHHHHHH
Confidence                                  111111 112 23  55667777766665 78888999888777654  454444444


Q ss_pred             HHHhHhcCCHHHHHHHHhcCCC--CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCCHH
Q 041384          375 MNMYSKCGSITSSHQIFNEMAA--RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDA-ITVLAILSACNHAGLVK  451 (580)
Q Consensus       375 ~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~~~~~  451 (580)
                      ...+...|++++|...|+++..  ++...+..+...+.+.|++++|...+++..+..  |+. ..+..+...+...|+++
T Consensus       516 A~al~~~Gr~eeAi~~~rka~~~~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~--P~~~~l~~~La~~l~~~Gr~~  593 (987)
T PRK09782        516 AYQAYQVEDYATALAAWQKISLHDMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG--LGDNALYWWLHAQRYIPGQPE  593 (987)
T ss_pred             HHHHHHCCCHHHHHHHHHHHhccCCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHhCCCHH
Confidence            5555789999999999997765  344556677788899999999999999998863  543 33444444555679999


Q ss_pred             HHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 041384          452 EAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLI  529 (580)
Q Consensus       452 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  529 (580)
                      +|...++++++   ..|+...+..+..++.+.|+.++|+..+++. ...| +...++.+..++...|++++|+..++++.
T Consensus       594 eAl~~~~~AL~---l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL  670 (987)
T PRK09782        594 LALNDLTRSLN---IAPSANAYVARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAALGYALWDSGDIAQSREMLERAH  670 (987)
T ss_pred             HHHHHHHHHHH---hCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            99999999765   4467788999999999999999999999988 3455 56678888889999999999999999999


Q ss_pred             hcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          530 EAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       530 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      +..|.++.++..++.++...|++++|...+++..+...
T Consensus       671 ~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~P  708 (987)
T PRK09782        671 KGLPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDID  708 (987)
T ss_pred             HhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            99999999999999999999999999999999887553

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.92  E-value=1.9e-19  Score=186.36  Aligned_cols=510  Identities=11%  Similarity=0.006  Sum_probs=356.5

Q ss_pred             cccchhHHHHHHHHHHHHhCCCCChhHHHHHHHHHHcCCCchHHHHhhccCC--CCCccchHHHHHHHHhCCChhHHHHH
Q 041384           39 YAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEMP--YRDTISWNSIINCFTQNGFYVRSLEM  116 (580)
Q Consensus        39 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~  116 (580)
                      ..|++ +.|...|+...+.. |-+..++..|..+|.+.|++++|+..+++..  .|+-..|..++..+   +++++|..+
T Consensus        56 ~~Gd~-~~A~~~l~~Al~~d-P~n~~~~~~LA~~yl~~g~~~~A~~~~~kAv~ldP~n~~~~~~La~i---~~~~kA~~~  130 (987)
T PRK09782         56 KNNDE-ATAIREFEYIHQQV-PDNIPLTLYLAEAYRHFGHDDRARLLLEDQLKRHPGDARLERSLAAI---PVEVKSVTT  130 (987)
T ss_pred             hCCCH-HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHHHHHHh---ccChhHHHH
Confidence            44899 99999999999886 5568888999999999999999999999876  34333333333333   899999999


Q ss_pred             HHHHHHCCCCCCHhhHHHHHHHh-----hccCCcHHHHHHHHHHHHhCCCCCchHHHhHH-HHHhHhcCCHHHHHHHHhc
Q 041384          117 FREMYLCGFVLKAELLAGIISLC-----SQIGELELGRQIHALVIVDGSFELSVFVSTAL-LDLYSKCHHWLIALRVFEQ  190 (580)
Q Consensus       117 ~~~m~~~~~~~~~~~~~~ll~~~-----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~  190 (580)
                      ++++.+.... +..++..+....     ....+.+.|.+.++ ..... ..|+..+.... ...|.+.|++++|+..+.+
T Consensus       131 ye~l~~~~P~-n~~~~~~la~~~~~~~~l~y~q~eqAl~AL~-lr~~~-~~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~  207 (987)
T PRK09782        131 VEELLAQQKA-CDAVPTLRCRSEVGQNALRLAQLPVARAQLN-DATFA-ASPEGKTLRTDLLQRAIYLKQWSQADTLYNE  207 (987)
T ss_pred             HHHHHHhCCC-ChhHHHHHHHHhhccchhhhhhHHHHHHHHH-HhhhC-CCCCcHHHHHHHHHHHHHHhCHHHHHHHHHH
Confidence            9999986422 344554444440     12233366666665 33332 33345544444 8999999999999999999


Q ss_pred             CCCC---CeehHHHHHHHHHh-cCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCC-Cc
Q 041384          191 MVIR---NEVSWTAMISGCID-SQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFD-FD  265 (580)
Q Consensus       191 ~~~~---~~~~~~~li~~~~~-~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~  265 (580)
                      +.+.   +......|...|.. .++ +.+..+++.    .++-+......+...+.+.|+.+.|.++++.+...... |.
T Consensus       208 L~k~~pl~~~~~~~L~~ay~q~l~~-~~a~al~~~----~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~~~~~~  282 (987)
T PRK09782        208 ARQQNTLSAAERRQWFDVLLAGQLD-DRLLALQSQ----GIFTDPQSRITYATALAYRGEKARLQHYLIENKPLFTTDAQ  282 (987)
T ss_pred             HHhcCCCCHHHHHHHHHHHHHhhCH-HHHHHHhch----hcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCcccccCCCc
Confidence            9554   33345566677777 366 777777553    34467888889999999999999999999887644222 22


Q ss_pred             hhHHH------------------------------HHHHHHHHcCCCHHHHHHHHhhCCC--------------------
Q 041384          266 HHLSA------------------------------ALMHMYCECTEALHPARIIFERTKV--------------------  295 (580)
Q Consensus       266 ~~~~~------------------------------~l~~~~~~~~~~~~~a~~~~~~~~~--------------------  295 (580)
                      ...+.                              .++..+.+.+. .+.++++....+.                    
T Consensus       283 ~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~  361 (987)
T PRK09782        283 EKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQ-YDAAQKLLATLPANEMLEERYAVSVATRNKAEA  361 (987)
T ss_pred             cHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccH-HHHHHHHhcCCCcchHHHHHHhhccccCchhHH
Confidence            22111                              11333444444 4444444321110                    


Q ss_pred             -----------C-ChhhHHHHHHHHHhCCChhHHHHHHHHHHHC-C-CCCCHHHHHHHHHHhhccCC-------------
Q 041384          296 -----------K-DVVIWSSIIRGYSQSGDLSEAMKLFSRMRLE-R-IEPNSVTLLAILSSCTRQSF-------------  348 (580)
Q Consensus       296 -----------~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-~-~~p~~~~~~~ll~~~~~~~~-------------  348 (580)
                                 | +......+--...+.|+.++|..+|+..... + -.++......++..+.+.+.             
T Consensus       362 ~~~~~~~y~~~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~  441 (987)
T PRK09782        362 LRLARLLYQQEPANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKP  441 (987)
T ss_pred             HHHHHHHHhcCCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccc
Confidence                       1 2222223334567889999999999998662 1 23344444466666665544             


Q ss_pred             ------------hHHHHHHHHHHHH-hCC-CC--chhHHHHHHHHhHhcCCHHHHHHHHhcCCCCCcchHHHH--HHHHH
Q 041384          349 ------------LSHGLGVHCYIMK-AGL-NF--DVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTL--ISGYG  410 (580)
Q Consensus       349 ------------~~~a~~~~~~~~~-~~~-~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l--~~~~~  410 (580)
                                  ...+......... .+. ++  +...+..+..++.. ++.++|...+.+.....+..+..+  ...+.
T Consensus       442 ~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~Pd~~~~L~lA~al~  520 (987)
T PRK09782        442 LPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQPDAWQHRAVAYQAY  520 (987)
T ss_pred             cccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence                        2222333333433 222 34  67778888888776 889899997777665333334444  44456


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHH
Q 041384          411 FHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDAC  490 (580)
Q Consensus       411 ~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  490 (580)
                      ..|++++|...++++...  .|+...+..+...+...|+.++|...++..++. . +.....+..+...+.+.|++++|.
T Consensus       521 ~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l-~-P~~~~l~~~La~~l~~~Gr~~eAl  596 (987)
T PRK09782        521 QVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQR-G-LGDNALYWWLHAQRYIPGQPELAL  596 (987)
T ss_pred             HCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhc-C-CccHHHHHHHHHHHHhCCCHHHHH
Confidence            899999999999998664  565566667778889999999999999997652 2 223333334444555669999999


Q ss_pred             HHHHhC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          491 KVVSTM-PMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       491 ~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      ..+++. ...|+...+..+...+.+.|+.++|+..++++.+.+|+++..+..++.++...|++++|++.+++..+..+
T Consensus       597 ~~~~~AL~l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P  674 (987)
T PRK09782        597 NDLTRSLNIAPSANAYVARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAALGYALWDSGDIAQSREMLERAHKGLP  674 (987)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            999988 46788889999999999999999999999999999999999999999999999999999999999988654

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

Probab=99.91  E-value=6.9e-21  Score=175.12  Aligned_cols=443  Identities=15%  Similarity=0.097  Sum_probs=328.9

Q ss_pred             hHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhH
Q 041384           97 WNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYS  176 (580)
Q Consensus        97 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  176 (580)
                      ...|..-.-+.|++.+|++.-...-..+. .+......+-..+.+..+++.....-....+..  +.-..+|..+.+.+-
T Consensus        51 ~l~lah~~yq~gd~~~a~~h~nmv~~~d~-t~~~~llll~ai~~q~~r~d~s~a~~~~a~r~~--~q~ae~ysn~aN~~k  127 (966)
T KOG4626|consen   51 RLELAHRLYQGGDYKQAEKHCNMVGQEDP-TNTERLLLLSAIFFQGSRLDKSSAGSLLAIRKN--PQGAEAYSNLANILK  127 (966)
T ss_pred             HHHHHHHHHhccCHHHHHHHHhHhhccCC-Ccccceeeehhhhhcccchhhhhhhhhhhhhcc--chHHHHHHHHHHHHH
Confidence            33455556667777777766555443321 122222223344445555555444444444432  455667777888888


Q ss_pred             hcCCHHHHHHHHhcCCCC---CeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHH-HHHHHhcCCCchhHHH
Q 041384          177 KCHHWLIALRVFEQMVIR---NEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTI-VLLACAELRDLRNGKA  252 (580)
Q Consensus       177 ~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~-ll~~~~~~~~~~~a~~  252 (580)
                      ..|++++|+.+++.+.+.   .+..|..+..++...|+.+.|.+.|.+..+  +.|+.....+ +.......|++.+|..
T Consensus       128 erg~~~~al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alq--lnP~l~ca~s~lgnLlka~Grl~ea~~  205 (966)
T KOG4626|consen  128 ERGQLQDALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQ--LNPDLYCARSDLGNLLKAEGRLEEAKA  205 (966)
T ss_pred             HhchHHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHh--cCcchhhhhcchhHHHHhhcccchhHH
Confidence            888888888888776432   556777788888888888888888877665  3565544333 2233444677888887


Q ss_pred             HHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCCCh---hhHHHHHHHHHhCCChhHHHHHHHHHHHCCC
Q 041384          253 IHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDV---VIWSSIIRGYSQSGDLSEAMKLFSRMRLERI  329 (580)
Q Consensus       253 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~  329 (580)
                      .+.+.++.... -...|+.|...+...|+ +..+...|++..+-|+   ..|-.|-..|...+.+++|...|.+....  
T Consensus       206 cYlkAi~~qp~-fAiawsnLg~~f~~~Ge-i~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~l--  281 (966)
T KOG4626|consen  206 CYLKAIETQPC-FAIAWSNLGCVFNAQGE-IWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNL--  281 (966)
T ss_pred             HHHHHHhhCCc-eeeeehhcchHHhhcch-HHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhc--
Confidence            77777665432 23445666666667777 7777777777665443   45777778888889999999998887655  


Q ss_pred             CCC-HHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCC---CCcchHHHH
Q 041384          330 EPN-SVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAA---RDFVSWTTL  405 (580)
Q Consensus       330 ~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l  405 (580)
                      .|+ ...+..+...|..+|.++.|+..+++..+.. +.-+..|+.|..++...|++.+|.+.+.+...   ....+.+.|
T Consensus       282 rpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~-P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~hadam~NL  360 (966)
T KOG4626|consen  282 RPNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQ-PNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPNHADAMNNL  360 (966)
T ss_pred             CCcchhhccceEEEEeccccHHHHHHHHHHHHhcC-CCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCccHHHHHHH
Confidence            565 4567777778889999999999999988764 33467899999999999999999999998776   345688889


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCC-hhHHHHHHHHhhhc
Q 041384          406 ISGYGFHGYGEEALQLFLEMQESGVEPDA-ITVLAILSACNHAGLVKEAETLFNNVMKEKKIALA-IEHYACYVDLLGKS  483 (580)
Q Consensus       406 ~~~~~~~~~~~~a~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~  483 (580)
                      ...|...|.++.|..+|....+  +.|.- ...+.|...|-.+|++++|+..++++++   +.|+ ...|+.+...|...
T Consensus       361 gni~~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr---I~P~fAda~~NmGnt~ke~  435 (966)
T KOG4626|consen  361 GNIYREQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR---IKPTFADALSNMGNTYKEM  435 (966)
T ss_pred             HHHHHHhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh---cCchHHHHHHhcchHHHHh
Confidence            9999999999999999999888  56765 6788899999999999999999999764   7777 67899999999999


Q ss_pred             CChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHH
Q 041384          484 GKIEDACKVVSTM-PMKPS-TRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLG  554 (580)
Q Consensus       484 g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  554 (580)
                      |+.+.|+..+.+. .+.|. ...++.|...|...|+..+|+..++.++.++|+.+.++..++.++.--.+|.+
T Consensus       436 g~v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA~cNllh~lq~vcdw~D  508 (966)
T KOG4626|consen  436 GDVSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDAYCNLLHCLQIVCDWTD  508 (966)
T ss_pred             hhHHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchhhhHHHHHHHHHhcccc
Confidence            9999999999887 45564 46788999999999999999999999999999999999999887766555554

>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=2.3e-19  Score=182.72  Aligned_cols=419  Identities=11%  Similarity=0.013  Sum_probs=272.9

Q ss_pred             hHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhH
Q 041384           97 WNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYS  176 (580)
Q Consensus        97 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  176 (580)
                      +......+.+.|++++|+..|++..+  +.|++..|..+..++.+.|+++.|.+.+..+++..  +.+...+..+..+|.
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~--~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~--p~~~~a~~~~a~a~~  205 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIE--CKPDPVYYSNRAACHNALGDWEKVVEDTTAALELD--PDYSKALNRRANAYD  205 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHh--cCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHH
Confidence            33455666777777777777777765  34666677777777777777777777777777664  455666777777777


Q ss_pred             hcCCHHHHHHHHhcCCCC---CeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHH
Q 041384          177 KCHHWLIALRVFEQMVIR---NEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAI  253 (580)
Q Consensus       177 ~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~  253 (580)
                      ..|++++|+..|......   +......++..+..    ..+........+.. +++...+..+.. +........... 
T Consensus       206 ~lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~----~~a~~~~~~~l~~~-~~~~~~~~~~~~-~~~~~~~~~~~~-  278 (615)
T TIGR00990       206 GLGKYADALLDLTASCIIDGFRNEQSAQAVERLLK----KFAESKAKEILETK-PENLPSVTFVGN-YLQSFRPKPRPA-  278 (615)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHH----HHHHHHHHHHHhcC-CCCCCCHHHHHH-HHHHccCCcchh-
Confidence            777777777666543211   11111111111111    11222222221111 011111111111 110000000000 


Q ss_pred             HHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCCC---hhhHHHHHHH---HHhCCChhHHHHHHHHHHHC
Q 041384          254 HGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKD---VVIWSSIIRG---YSQSGDLSEAMKLFSRMRLE  327 (580)
Q Consensus       254 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~l~~~---~~~~~~~~~a~~~~~~m~~~  327 (580)
                                                         -+......+   ...+..+...   ....+++++|...|++..+.
T Consensus       279 -----------------------------------~~~~~~~~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~  323 (615)
T TIGR00990       279 -----------------------------------GLEDSNELDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDL  323 (615)
T ss_pred             -----------------------------------hhhcccccccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhc
Confidence                                               000000000   0011111111   12346788999999988876


Q ss_pred             C-CCC-CHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCC---CCcchH
Q 041384          328 R-IEP-NSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAA---RDFVSW  402 (580)
Q Consensus       328 ~-~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~  402 (580)
                      + ..| ....+..+...+...|++++|...++...+.. +-....|..+...+...|++++|...|+++.+   .+...|
T Consensus       324 ~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~  402 (615)
T TIGR00990       324 GKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRVTQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIY  402 (615)
T ss_pred             CCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHH
Confidence            4 234 34567777777888999999999999888753 23456777888888899999999999987765   356788


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhh
Q 041384          403 TTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLG  481 (580)
Q Consensus       403 ~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  481 (580)
                      ..+...+...|++++|+..|++..+.  .| +...+..+...+.+.|++++|+..++++++  ..+.+...++.+...+.
T Consensus       403 ~~lg~~~~~~g~~~~A~~~~~kal~l--~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~--~~P~~~~~~~~lg~~~~  478 (615)
T TIGR00990       403 YHRAQLHFIKGEFAQAGKDYQKSIDL--DPDFIFSHIQLGVTQYKEGSIASSMATFRRCKK--NFPEAPDVYNYYGELLL  478 (615)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHc--CccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCChHHHHHHHHHHH
Confidence            88899999999999999999999885  45 456777788889999999999999999765  23445778888999999


Q ss_pred             hcCChHHHHHHHHhC-CCCCCH-H-------HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCCh
Q 041384          482 KSGKIEDACKVVSTM-PMKPST-R-------ILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNW  552 (580)
Q Consensus       482 ~~g~~~~A~~~~~~~-~~~p~~-~-------~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  552 (580)
                      ..|++++|++.|++. ...|+. .       .++.....+...|++++|...++++.+.+|++...+..+++++.+.|++
T Consensus       479 ~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~  558 (615)
T TIGR00990       479 DQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDV  558 (615)
T ss_pred             HccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCH
Confidence            999999999999886 333321 1       1122222334569999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhCC
Q 041384          553 LGAEEVWRVMRAKG  566 (580)
Q Consensus       553 ~~A~~~~~~~~~~~  566 (580)
                      ++|++.|++..+..
T Consensus       559 ~eAi~~~e~A~~l~  572 (615)
T TIGR00990       559 DEALKLFERAAELA  572 (615)
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999886643

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.89  E-value=1.7e-20  Score=181.77  Aligned_cols=314  Identities=13%  Similarity=0.062  Sum_probs=210.0

Q ss_pred             HHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHH
Q 041384          205 GCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALH  284 (580)
Q Consensus       205 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  284 (580)
                      .+...|++++|+..|.++.+.+ +.+..++..+...+...|++++|..+++.+.+.+..++                   
T Consensus        44 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~-------------------  103 (389)
T PRK11788         44 NFLLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTR-------------------  103 (389)
T ss_pred             HHHhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCH-------------------
Confidence            4455667777777777776642 12334555555556666666666665555443211000                   


Q ss_pred             HHHHHHhhCCCCChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCC
Q 041384          285 PARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGL  364 (580)
Q Consensus       285 ~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  364 (580)
                                ......+..+...|.+.|++++|..+|+++.+.. +++..++..++..+...|++++|.+.++.+.+.+.
T Consensus       104 ----------~~~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~  172 (389)
T PRK11788        104 ----------EQRLLALQELGQDYLKAGLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGG  172 (389)
T ss_pred             ----------HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcC
Confidence                      0012345566666666666666666666666442 33445566666666666666666666666555432


Q ss_pred             CCchhHHHHHHHHhHhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHH
Q 041384          365 NFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSA  443 (580)
Q Consensus       365 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~  443 (580)
                      .+....                           ....+..+...+...|++++|...++++.+.  .| +...+..+...
T Consensus       173 ~~~~~~---------------------------~~~~~~~la~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~  223 (389)
T PRK11788        173 DSLRVE---------------------------IAHFYCELAQQALARGDLDAARALLKKALAA--DPQCVRASILLGDL  223 (389)
T ss_pred             CcchHH---------------------------HHHHHHHHHHHHHhCCCHHHHHHHHHHHHhH--CcCCHHHHHHHHHH
Confidence            211100                           0012345666777888888888888888875  34 35677778888


Q ss_pred             HhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHHHH
Q 041384          444 CNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKPSTRILSSLVSACRIHGRLEVAE  522 (580)
Q Consensus       444 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~A~  522 (580)
                      +.+.|++++|.++++++.+ .+......++..++.+|...|++++|...++++ ...|+...+..++..+.+.|++++|.
T Consensus       224 ~~~~g~~~~A~~~~~~~~~-~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~la~~~~~~g~~~~A~  302 (389)
T PRK11788        224 ALAQGDYAAAIEALERVEE-QDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEYPGADLLLALAQLLEEQEGPEAAQ  302 (389)
T ss_pred             HHHCCCHHHHHHHHHHHHH-HChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHhCCHHHHH
Confidence            8999999999999999665 222222456788889999999999999999987 35677777788999999999999999


Q ss_pred             HHHHHHHhcCCCCchHHHHHHHHHHh---cCChHHHHHHHHHHHhCCCccCCceeEEEeCC
Q 041384          523 MLAHQLIEAEPENAANYTLLSMVCSE---SGNWLGAEEVWRVMRAKGLSKSYGFSRIENEY  580 (580)
Q Consensus       523 ~~~~~~~~~~~~~~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  580 (580)
                      .+++++.+..|++.. +..+...+..   .|+.+++..+++++.+.+++++|.+..-.+|+
T Consensus       303 ~~l~~~l~~~P~~~~-~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~~~c~~cg~  362 (389)
T PRK11788        303 ALLREQLRRHPSLRG-FHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPRYRCRNCGF  362 (389)
T ss_pred             HHHHHHHHhCcCHHH-HHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCCEECCCCCC
Confidence            999999999988775 4444444443   56999999999999999999999976555553

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

Probab=99.89  E-value=6.9e-20  Score=168.65  Aligned_cols=420  Identities=12%  Similarity=0.105  Sum_probs=335.9

Q ss_pred             HHHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCCC---CeehHHHHHHHHHhc
Q 041384          133 AGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIR---NEVSWTAMISGCIDS  209 (580)
Q Consensus       133 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~  209 (580)
                      ..+....-+.|++..|++.-..+-+.+  +.+....-.+-.++....+.+.....-....+.   -..+|..+.+.+-..
T Consensus        52 l~lah~~yq~gd~~~a~~h~nmv~~~d--~t~~~~llll~ai~~q~~r~d~s~a~~~~a~r~~~q~ae~ysn~aN~~ker  129 (966)
T KOG4626|consen   52 LELAHRLYQGGDYKQAEKHCNMVGQED--PTNTERLLLLSAIFFQGSRLDKSSAGSLLAIRKNPQGAEAYSNLANILKER  129 (966)
T ss_pred             HHHHHHHHhccCHHHHHHHHhHhhccC--CCcccceeeehhhhhcccchhhhhhhhhhhhhccchHHHHHHHHHHHHHHh
Confidence            334455567789999988777766654  444444555556677777766655443333222   456899999999999


Q ss_pred             CChhHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHH-HHHHHcCCCHHHHH
Q 041384          210 QNYDTGIDLFRAMQREGVKP-TRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALM-HMYCECTEALHPAR  287 (580)
Q Consensus       210 ~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-~~~~~~~~~~~~a~  287 (580)
                      |++++|+.+++.+.+.  +| ....|..+..++...|+.+.|...|...++.+  |+.....+-+ ..+...|+ +.++.
T Consensus       130 g~~~~al~~y~~aiel--~p~fida~inla~al~~~~~~~~a~~~~~~alqln--P~l~ca~s~lgnLlka~Gr-l~ea~  204 (966)
T KOG4626|consen  130 GQLQDALALYRAAIEL--KPKFIDAYINLAAALVTQGDLELAVQCFFEALQLN--PDLYCARSDLGNLLKAEGR-LEEAK  204 (966)
T ss_pred             chHHHHHHHHHHHHhc--CchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcC--cchhhhhcchhHHHHhhcc-cchhH
Confidence            9999999999999986  45 46789999999999999999999999887754  4444433322 23333566 66666


Q ss_pred             HHHhhCCC--C-ChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCC-HHHHHHHHHHhhccCChHHHHHHHHHHHHhC
Q 041384          288 IIFERTKV--K-DVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPN-SVTLLAILSSCTRQSFLSHGLGVHCYIMKAG  363 (580)
Q Consensus       288 ~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  363 (580)
                      ..+.+...  | -...|+.|...+..+|+...|++.|++..+.  .|+ ...|..|-..|...+.++.|...+.......
T Consensus       205 ~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lr  282 (966)
T KOG4626|consen  205 ACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLR  282 (966)
T ss_pred             HHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcC
Confidence            66554442  2 3457899999999999999999999998855  454 3578888888888899999998888777643


Q ss_pred             CCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCC--CC-cchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHH
Q 041384          364 LNFDVSIGNALMNMYSKCGSITSSHQIFNEMAA--RD-FVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDA-ITVLA  439 (580)
Q Consensus       364 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~-~~~~~  439 (580)
                       +.....+..+...|...|.++.|...+++..+  |+ +..|+.|..++...|++.+|...+.+....  .|+. ...+.
T Consensus       283 -pn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l--~p~hadam~N  359 (966)
T KOG4626|consen  283 -PNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRL--CPNHADAMNN  359 (966)
T ss_pred             -CcchhhccceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHh--CCccHHHHHH
Confidence             33566777788889999999999999999876  33 358999999999999999999999999884  5654 78889


Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHhhCCCCC-hhHHHHHHHHhhhcCChHHHHHHHHhC-CCCCCH-HHHHHHHHHHHhcC
Q 041384          440 ILSACNHAGLVKEAETLFNNVMKEKKIALA-IEHYACYVDLLGKSGKIEDACKVVSTM-PMKPST-RILSSLVSACRIHG  516 (580)
Q Consensus       440 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~-~~~~~l~~~~~~~~  516 (580)
                      |...+...|.+++|..+|...++   +.|. ....+.|...|..+|++++|+.-+++. .++|.. ..++.+...|-..|
T Consensus       360 Lgni~~E~~~~e~A~~ly~~al~---v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAda~~NmGnt~ke~g  436 (966)
T KOG4626|consen  360 LGNIYREQGKIEEATRLYLKALE---VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFADALSNMGNTYKEMG  436 (966)
T ss_pred             HHHHHHHhccchHHHHHHHHHHh---hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHHHHHhcchHHHHhh
Confidence            99999999999999999999764   4455 667899999999999999999999988 577864 68999999999999


Q ss_pred             CHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          517 RLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       517 ~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      +.+.|.+.+.+++..+|.-+.++..|+.+|-..|+..+|++-+++.++..+
T Consensus       437 ~v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkP  487 (966)
T KOG4626|consen  437 DVSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKP  487 (966)
T ss_pred             hHHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCC
Confidence            999999999999999999999999999999999999999999999887654

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

Probab=99.88  E-value=2.3e-17  Score=160.19  Aligned_cols=548  Identities=14%  Similarity=0.077  Sum_probs=359.8

Q ss_pred             CCchhhHHHHHHHHHcc--CCCCCCCcchHHHHHHhhcccchhHHHHHHHHHHHHhCCCCChhHHHHHHHHHHcCCC---
Q 041384            4 KHFYEQTLHLYKQELHP--SGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSK---   78 (580)
Q Consensus         4 ~~~~~~a~~~~~~~~~~--~g~~~~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---   78 (580)
                      .|+|..|+.+| .....  ...+||...-  +=..+...++. +.|...|.+..+.. |-++.++..|--.-....+   
T Consensus       177 kkdY~~al~yy-k~al~inp~~~aD~rIg--ig~Cf~kl~~~-~~a~~a~~ralqLd-p~~v~alv~L~~~~l~~~d~~s  251 (1018)
T KOG2002|consen  177 KKDYRGALKYY-KKALRINPACKADVRIG--IGHCFWKLGMS-EKALLAFERALQLD-PTCVSALVALGEVDLNFNDSDS  251 (1018)
T ss_pred             cccHHHHHHHH-HHHHhcCcccCCCccch--hhhHHHhccch-hhHHHHHHHHHhcC-hhhHHHHHHHHHHHHHccchHH
Confidence            46777777777 44322  2233333322  22344556666 67777777776654 2233333333222222222   


Q ss_pred             chHHHHhhccCC---CCCccchHHHHHHHHhCCChhHHHHHHHHHHHCCCC--CCHhhHHHHHHHhhccCCcHHHHHHHH
Q 041384           79 PESAYQLFDEMP---YRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFV--LKAELLAGIISLCSQIGELELGRQIHA  153 (580)
Q Consensus        79 ~~~A~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~--~~~~~~~~ll~~~~~~~~~~~a~~~~~  153 (580)
                      +..+..++...-   ..|+...+.|.+.|...|+++.+..+.+-+......  .-...|-.+-+++-..|+++.|...|.
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            333333333322   347777888888888888888888888877664311  123457777788888888888888888


Q ss_pred             HHHHhCCCCCc-hHHHhHHHHHhHhcCCHHHHHHHHhcCCC--C-CeehHHHHHHHHHhcC----ChhHHHHHHHHHHHc
Q 041384          154 LVIVDGSFELS-VFVSTALLDLYSKCHHWLIALRVFEQMVI--R-NEVSWTAMISGCIDSQ----NYDTGIDLFRAMQRE  225 (580)
Q Consensus       154 ~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~~----~~~~a~~~~~~m~~~  225 (580)
                      +..+..  +.+ ...+-.|...+.+.|+.+.+...|+.+..  | +..+...|...|...+    ..+.|..++.+..+.
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            877654  222 44455677888888888888888888733  2 4445555555555553    346666666665554


Q ss_pred             CCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHH----HhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCC------
Q 041384          226 GVKPTRVTLTIVLLACAELRDLRNGKAIHGYAY----CCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKV------  295 (580)
Q Consensus       226 ~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~------  295 (580)
                      - +-|...|..+...+.....+.. ..++..+.    ..+..+.+...+.+...+...|. +..|...|+....      
T Consensus       410 ~-~~d~~a~l~laql~e~~d~~~s-L~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~-~~~A~~~f~~A~~~~~~~~  486 (1018)
T KOG2002|consen  410 T-PVDSEAWLELAQLLEQTDPWAS-LDAYGNALDILESKGKQIPPEVLNNVASLHFRLGN-IEKALEHFKSALGKLLEVA  486 (1018)
T ss_pred             c-cccHHHHHHHHHHHHhcChHHH-HHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcC-hHHHHHHHHHHhhhhhhhc
Confidence            2 3456666666666555443333 55554443    45555777788888888888888 8888877765431      


Q ss_pred             -CChh------hHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHH-HHHHHHHHhhccCChHHHHHHHHHHHHhCCCCc
Q 041384          296 -KDVV------IWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSV-TLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFD  367 (580)
Q Consensus       296 -~~~~------~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  367 (580)
                       ++..      +--.+...+-..++++.|.+.|+.+...  .|+-. .|..+.-.....+...+|...+....... ..+
T Consensus       487 n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilke--hp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d-~~n  563 (1018)
T KOG2002|consen  487 NKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKE--HPGYIDAYLRLGCMARDKNNLYEASLLLKDALNID-SSN  563 (1018)
T ss_pred             CccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHH--CchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc-cCC
Confidence             1221      1122445555667888888999888876  45544 34344333334577888888888877643 445


Q ss_pred             hhHHHHHHHHhHhcCCHHHHHHHHhcCCC-----CCcchHHHHHHHHHh------------cCChHHHHHHHHHHHHcCC
Q 041384          368 VSIGNALMNMYSKCGSITSSHQIFNEMAA-----RDFVSWTTLISGYGF------------HGYGEEALQLFLEMQESGV  430 (580)
Q Consensus       368 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~l~~~~~~------------~~~~~~a~~~~~~~~~~g~  430 (580)
                      +..+..+...|.+..++..|.+-|..+.+     +|..+.-.|...|.+            .+..++|+++|.+..... 
T Consensus       564 p~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-  642 (1018)
T KOG2002|consen  564 PNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-  642 (1018)
T ss_pred             cHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-
Confidence            55556667788888888888775554443     355555555554432            345678999999888852 


Q ss_pred             CCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC----CCCCHHHHH
Q 041384          431 EPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP----MKPSTRILS  506 (580)
Q Consensus       431 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~p~~~~~~  506 (580)
                      +-|...-+.+.-.++..|+++.|..+|.++.+...  ....+|-.+..+|..+|++..|+++|+..-    -..++....
T Consensus       643 pkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~--~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~  720 (1018)
T KOG2002|consen  643 PKNMYAANGIGIVLAEKGRFSEARDIFSQVREATS--DFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLH  720 (1018)
T ss_pred             cchhhhccchhhhhhhccCchHHHHHHHHHHHHHh--hCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHH
Confidence            33667778888888999999999999999655332  334557889999999999999999998872    235778889


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhc-------------------CChHHHHHHHHHHHhCCC
Q 041384          507 SLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSES-------------------GNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       507 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~-------------------g~~~~A~~~~~~~~~~~~  567 (580)
                      .|.+++.+.|++.+|.+.+..+....|.|+.+...++-+..+.                   +..+.|.++|..+...+-
T Consensus       721 ~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~v~kkla~s~lr~~k~t~eev~~a~~~le~a~r~F~~ls~~~d  800 (1018)
T KOG2002|consen  721 YLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLALVLKKLAESILRLEKRTLEEVLEAVKELEEARRLFTELSKNGD  800 (1018)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence            9999999999999999999999999999999877777655543                   366778888888877654

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.87  E-value=1.6e-17  Score=172.31  Aligned_cols=186  Identities=10%  Similarity=0.008  Sum_probs=108.7

Q ss_pred             HhcCCHHHHHHHHhcCCCCC---cc-hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-----HHHHHHHHHHHhccCC
Q 041384          379 SKCGSITSSHQIFNEMAARD---FV-SWTTLISGYGFHGYGEEALQLFLEMQESGVEPD-----AITVLAILSACNHAGL  449 (580)
Q Consensus       379 ~~~g~~~~A~~~~~~~~~~~---~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~-----~~~~~~l~~~~~~~~~  449 (580)
                      ...|++++|...|+.+.+.+   +. ....+...|...|++++|+..|+++.+.  .|.     ......+..++...|+
T Consensus       248 l~~g~~~eA~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~~l~~~l~~--~p~~~~~~~~~~~~L~~a~~~~g~  325 (765)
T PRK10049        248 LARDRYKDVISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEKAQSILTELFYH--PETIADLSDEELADLFYSLLESEN  325 (765)
T ss_pred             HHhhhHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhc--CCCCCCCChHHHHHHHHHHHhccc
Confidence            34456666666666555421   11 1112345566666666666666665543  221     1334444555566666


Q ss_pred             HHHHHHHHHHHHHhhC----------CCCC---hhHHHHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHh
Q 041384          450 VKEAETLFNNVMKEKK----------IALA---IEHYACYVDLLGKSGKIEDACKVVSTMP--MKPSTRILSSLVSACRI  514 (580)
Q Consensus       450 ~~~a~~~~~~~~~~~~----------~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~  514 (580)
                      +++|..+++.+.....          -.|+   ...+..++..+...|+.++|+++++++.  .+.+...+..++..+..
T Consensus       326 ~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~n~~l~~~lA~l~~~  405 (765)
T PRK10049        326 YPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNAPGNQGLRIDYASVLQA  405 (765)
T ss_pred             HHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHh
Confidence            6666666666443210          0112   1233455566667777777777777662  23355566667777777


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 041384          515 HGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       515 ~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      .|++++|++.++++.+..|++...+..++..+...|++++|..+++++++..
T Consensus       406 ~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~  457 (765)
T PRK10049        406 RGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVARE  457 (765)
T ss_pred             cCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC
Confidence            7777777777777777777777777777777777777777777777766543

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.86  E-value=1.3e-17  Score=169.10  Aligned_cols=368  Identities=13%  Similarity=0.033  Sum_probs=236.7

Q ss_pred             hcCCHHHHHHHHhcCCCC------CeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhH
Q 041384          177 KCHHWLIALRVFEQMVIR------NEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNG  250 (580)
Q Consensus       177 ~~~~~~~a~~~~~~~~~~------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a  250 (580)
                      +..+|+.---+|....+.      +......++..+.+.|++++|..++.........+ ...+..++.+....|+++.|
T Consensus        17 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~-~~~l~~l~~~~l~~g~~~~A   95 (656)
T PRK15174         17 KQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKNG-RDLLRRWVISPLASSQPDAV   95 (656)
T ss_pred             hhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCCc-hhHHHHHhhhHhhcCCHHHH
Confidence            344555444444443221      23334455667777788888888877777663333 33344444555667888888


Q ss_pred             HHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHhCCChhHHHHHHHHHHHC
Q 041384          251 KAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKV---KDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLE  327 (580)
Q Consensus       251 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  327 (580)
                      ...++.+.+..+. +...+..+...+...|+ .+.|...+++...   .+...+..+...+...|++++|...++.+...
T Consensus        96 ~~~l~~~l~~~P~-~~~a~~~la~~l~~~g~-~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~  173 (656)
T PRK15174         96 LQVVNKLLAVNVC-QPEDVLLVASVLLKSKQ-YATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLARTQAQE  173 (656)
T ss_pred             HHHHHHHHHhCCC-ChHHHHHHHHHHHHcCC-HHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHh
Confidence            8888777766432 34445555566666666 6666666665432   24556777777888888888888888877655


Q ss_pred             CCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCC---CCcchHHH
Q 041384          328 RIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAA---RDFVSWTT  404 (580)
Q Consensus       328 ~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~  404 (580)
                      ... +...+..+ ..+...|++++|...++.+.+....++......+...+.+.|++++|...+++...   .+...+..
T Consensus       174 ~P~-~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~~~~~~~~  251 (656)
T PRK15174        174 VPP-RGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLDGAALRRS  251 (656)
T ss_pred             CCC-CHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            322 22222222 34667788888888888777654334444445556677778888888888887665   24456677


Q ss_pred             HHHHHHhcCChHH----HHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHH
Q 041384          405 LISGYGFHGYGEE----ALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDL  479 (580)
Q Consensus       405 l~~~~~~~~~~~~----a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  479 (580)
                      +...+...|++++    |...+++..+.  .| +...+..+...+...|++++|...++++++.  .+.+...+..+..+
T Consensus       252 Lg~~l~~~G~~~eA~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l--~P~~~~a~~~La~~  327 (656)
T PRK15174        252 LGLAYYQSGRSREAKLQAAEHWRHALQF--NSDNVRIVTLYADALIRTGQNEKAIPLLQQSLAT--HPDLPYVRAMYARA  327 (656)
T ss_pred             HHHHHHHcCCchhhHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            7777888888775    67888887774  45 4466777777788888888888888886652  22234556667778


Q ss_pred             hhhcCChHHHHHHHHhCC-CCCCHHH-HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHH
Q 041384          480 LGKSGKIEDACKVVSTMP-MKPSTRI-LSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEE  557 (580)
Q Consensus       480 ~~~~g~~~~A~~~~~~~~-~~p~~~~-~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  557 (580)
                      |.+.|++++|+..++++. ..|+... +..+..++...|+.++|+..++++.+..|.+.            ...+++|..
T Consensus       328 l~~~G~~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~~~------------~~~~~ea~~  395 (656)
T PRK15174        328 LRQVGQYTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARASHL------------PQSFEEGLL  395 (656)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChhhc------------hhhHHHHHH
Confidence            888888888888887763 4454433 33445667778888888888888888877764            234445555


Q ss_pred             HHHHHHhC
Q 041384          558 VWRVMRAK  565 (580)
Q Consensus       558 ~~~~~~~~  565 (580)
                      .+.+..+.
T Consensus       396 ~~~~~~~~  403 (656)
T PRK15174        396 ALDGQISA  403 (656)
T ss_pred             HHHHHHHh
Confidence            55555543

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

Probab=99.86  E-value=1.1e-16  Score=155.62  Aligned_cols=546  Identities=12%  Similarity=0.053  Sum_probs=388.8

Q ss_pred             hhhHHHHHHHHHccCCCCCCCcchHHHHHHhh--cccchhHHHHHHHHHHHHhC--CCCChhHHHHHHHHHHcCCCchHH
Q 041384            7 YEQTLHLYKQELHPSGLYSNTAILPSVIKACA--YAQTHQHFGLQLHCTALKSG--SDADPVISNSLISMYAKFSKPESA   82 (580)
Q Consensus         7 ~~~a~~~~~~~~~~~g~~~~~~~~~~ll~~~~--~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A   82 (580)
                      .+.|...| ..+....   ....+-.+-++|.  ..+++ ..|..+|...+...  .+||+.+  .+-..+.+.|+.+.|
T Consensus       146 ~~~A~a~F-~~Vl~~s---p~Nil~LlGkA~i~ynkkdY-~~al~yyk~al~inp~~~aD~rI--gig~Cf~kl~~~~~a  218 (1018)
T KOG2002|consen  146 MDDADAQF-HFVLKQS---PDNILALLGKARIAYNKKDY-RGALKYYKKALRINPACKADVRI--GIGHCFWKLGMSEKA  218 (1018)
T ss_pred             HHHHHHHH-HHHHhhC---CcchHHHHHHHHHHhccccH-HHHHHHHHHHHhcCcccCCCccc--hhhhHHHhccchhhH
Confidence            57888888 6666542   2223444445554  45688 89999999976654  5666654  334567889999999


Q ss_pred             HHhhccCCCCCccchHHHHHH---HHhC---CChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHHHHH
Q 041384           83 YQLFDEMPYRDTISWNSIINC---FTQN---GFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVI  156 (580)
Q Consensus        83 ~~~~~~~~~~~~~~~~~li~~---~~~~---~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  156 (580)
                      +..|+...+-|+...++++..   -...   ..+..++.++...-... .-++...+.|..-+.-.|+++.+..+...+.
T Consensus       219 ~~a~~ralqLdp~~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~~n-~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai  297 (1018)
T KOG2002|consen  219 LLAFERALQLDPTCVSALVALGEVDLNFNDSDSYKKGVQLLQRAYKEN-NENPVALNHLANHFYFKKDYERVWHLAEHAI  297 (1018)
T ss_pred             HHHHHHHHhcChhhHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhc-CCCcHHHHHHHHHHhhcccHHHHHHHHHHHH
Confidence            999998876555544444432   1222   33556666666655432 3477888889999999999999999999988


Q ss_pred             HhCCCC--CchHHHhHHHHHhHhcCCHHHHHHHHhcCCCC--C--eehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC
Q 041384          157 VDGSFE--LSVFVSTALLDLYSKCHHWLIALRVFEQMVIR--N--EVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPT  230 (580)
Q Consensus       157 ~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~  230 (580)
                      ... ..  .-...|--+..+|-..|++++|..+|.+..+.  +  +..+--+...+.+.|+.+.+...|+...+. .+-+
T Consensus       298 ~~t-~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~-~p~~  375 (1018)
T KOG2002|consen  298 KNT-ENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQ-LPNN  375 (1018)
T ss_pred             Hhh-hhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccchhHHHHHhchHHHHHHHHHHHHHh-Ccch
Confidence            764 11  12345777899999999999999999887443  2  344556789999999999999999998876 2334


Q ss_pred             HHHHHHHHHHHhcCC----CchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCC-----CHHHHHHHHh-hCCCCChhh
Q 041384          231 RVTLTIVLLACAELR----DLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTE-----ALHPARIIFE-RTKVKDVVI  300 (580)
Q Consensus       231 ~~~~~~ll~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-----~~~~a~~~~~-~~~~~~~~~  300 (580)
                      ..|..++...|+..+    ..+.|..++.+..+.- +.|...|-.+...+...+.     ++..|..++. .+....+..
T Consensus       376 ~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~~d~~~sL~~~~~A~d~L~~~~~~ip~E~  454 (1018)
T KOG2002|consen  376 YETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQTDPWASLDAYGNALDILESKGKQIPPEV  454 (1018)
T ss_pred             HHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHcCCCCCHHH
Confidence            567777777777664    4566666666665554 3355555555555544322     1334443333 333456778


Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHC---CCC------CCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCc-hhH
Q 041384          301 WSSIIRGYSQSGDLSEAMKLFSRMRLE---RIE------PNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFD-VSI  370 (580)
Q Consensus       301 ~~~l~~~~~~~~~~~~a~~~~~~m~~~---~~~------p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~  370 (580)
                      .|.+...+...|++..|...|+.....   ...      ++..+-..+....-..++.+.|.+.|..+.+..  |+ +..
T Consensus       455 LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkeh--p~YId~  532 (1018)
T KOG2002|consen  455 LNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEH--PGYIDA  532 (1018)
T ss_pred             HHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHC--chhHHH
Confidence            899999999999999999999987654   112      232334455666677889999999999998863  22 222


Q ss_pred             HHHHHHHhHhcCCHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHhc
Q 041384          371 GNALMNMYSKCGSITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESG-VEPDAITVLAILSACNH  446 (580)
Q Consensus       371 ~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g-~~p~~~~~~~l~~~~~~  446 (580)
                      |--+.......+...+|...+..+..   .++..++.+...+.....+..|.+-|+...+.- ..+|..+...|.+.|..
T Consensus       533 ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~  612 (1018)
T KOG2002|consen  533 YLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQ  612 (1018)
T ss_pred             HHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHH
Confidence            33333222334677888888887765   467778778878999889999988777776542 23577777777775542


Q ss_pred             ------------cCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHH
Q 041384          447 ------------AGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP--MKPSTRILSSLVSAC  512 (580)
Q Consensus       447 ------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~  512 (580)
                                  .+..++|+++|.++++  ..+.+...-|-+.-+++..|++.+|..+|....  ......+|..+...|
T Consensus       613 ~l~~~~rn~ek~kk~~~KAlq~y~kvL~--~dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~~~~dv~lNlah~~  690 (1018)
T KOG2002|consen  613 ALHNPSRNPEKEKKHQEKALQLYGKVLR--NDPKNMYAANGIGIVLAEKGRFSEARDIFSQVREATSDFEDVWLNLAHCY  690 (1018)
T ss_pred             HhcccccChHHHHHHHHHHHHHHHHHHh--cCcchhhhccchhhhhhhccCchHHHHHHHHHHHHHhhCCceeeeHHHHH
Confidence                        2456788999988775  456677788889999999999999999999883  234567899999999


Q ss_pred             HhcCCHHHHHHHHHHHHhcC--CCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          513 RIHGRLEVAEMLAHQLIEAE--PENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       513 ~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      ...|++-.|+++|+...+..  .+++.+...|+.++.+.|++.+|.+.+...+...+
T Consensus       691 ~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p  747 (1018)
T KOG2002|consen  691 VEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAP  747 (1018)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCC
Confidence            99999999999999998866  45888899999999999999999999888766544

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.86  E-value=2e-18  Score=167.32  Aligned_cols=304  Identities=14%  Similarity=0.091  Sum_probs=170.0

Q ss_pred             HHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCCc--hHHHhHHHHHhHhcCC
Q 041384          103 CFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELS--VFVSTALLDLYSKCHH  180 (580)
Q Consensus       103 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~  180 (580)
                      .+...|++++|+..|+++.+.+ +.+..++..+...+...|+++.|..+++.+...+...+.  ..++..          
T Consensus        44 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~----------  112 (389)
T PRK11788         44 NFLLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQE----------  112 (389)
T ss_pred             HHHhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHH----------
Confidence            3445566666666666666542 123345555555555666666666666655543311110  123344          


Q ss_pred             HHHHHHHHhcCCCCCeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHHHh
Q 041384          181 WLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCC  260 (580)
Q Consensus       181 ~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  260 (580)
                                           +...|.+.|++++|..+|+++.+. .+++..++..++..+.+.|++++|.+.++.+.+.
T Consensus       113 ---------------------La~~~~~~g~~~~A~~~~~~~l~~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~  170 (389)
T PRK11788        113 ---------------------LGQDYLKAGLLDRAEELFLQLVDE-GDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKL  170 (389)
T ss_pred             ---------------------HHHHHHHCCCHHHHHHHHHHHHcC-CcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHh
Confidence                                 444444455555555555554432 1123344444445555555555555554444433


Q ss_pred             cCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHH
Q 041384          261 GFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAIL  340 (580)
Q Consensus       261 ~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll  340 (580)
                      +..+....                            ....+..+...+.+.|++++|...|+++.+.. +.+...+..+.
T Consensus       171 ~~~~~~~~----------------------------~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la  221 (389)
T PRK11788        171 GGDSLRVE----------------------------IAHFYCELAQQALARGDLDAARALLKKALAAD-PQCVRASILLG  221 (389)
T ss_pred             cCCcchHH----------------------------HHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHH
Confidence            22110000                            00112334455566677777777777766543 22344555566


Q ss_pred             HHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCC--CCcchHHHHHHHHHhcCChHHH
Q 041384          341 SSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAA--RDFVSWTTLISGYGFHGYGEEA  418 (580)
Q Consensus       341 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a  418 (580)
                      ..+...|++++|.++++++.+.+......++..++.+|...|++++|...++++.+  |+...+..++..+.+.|++++|
T Consensus       222 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~la~~~~~~g~~~~A  301 (389)
T PRK11788        222 DLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEYPGADLLLALAQLLEEQEGPEAA  301 (389)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHhCCHHHH
Confidence            66667777777777777766554333344556666777777777777777776554  4445556677777777888888


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHhc---cCCHHHHHHHHHHHHHhhCCCCChh
Q 041384          419 LQLFLEMQESGVEPDAITVLAILSACNH---AGLVKEAETLFNNVMKEKKIALAIE  471 (580)
Q Consensus       419 ~~~~~~~~~~g~~p~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~  471 (580)
                      ..+++++.+.  .|+..++..++..+..   .|+.+++..+++++++ .++.|++.
T Consensus       302 ~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~-~~~~~~p~  354 (389)
T PRK11788        302 QALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVG-EQLKRKPR  354 (389)
T ss_pred             HHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHH-HHHhCCCC
Confidence            8888777764  6777777777766553   4577778888887554 55566554

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.85  E-value=6.8e-17  Score=142.65  Aligned_cols=371  Identities=13%  Similarity=0.135  Sum_probs=182.9

Q ss_pred             CCccchHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHH
Q 041384           92 RDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTAL  171 (580)
Q Consensus        92 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  171 (580)
                      ....+|.+||.++|+--..+.|.+++++..+...+.+..+||.+|.+-.-.    ..++++.+|.... ..||..|+|++
T Consensus       205 KT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~----~~K~Lv~EMisqk-m~Pnl~TfNal  279 (625)
T KOG4422|consen  205 KTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYS----VGKKLVAEMISQK-MTPNLFTFNAL  279 (625)
T ss_pred             CCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhh----ccHHHHHHHHHhh-cCCchHhHHHH
Confidence            344556666666666666666666666665555555666666665443211    1245555555555 45555555544


Q ss_pred             HHHhHhcCCHHHHHHHHhcCCCCCeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchh-H
Q 041384          172 LDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRN-G  250 (580)
Q Consensus       172 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~-a  250 (580)
                      +.+..+.|+++.|.                           ..|++++.+|++-|+.|...+|..+|..+++.++..+ +
T Consensus       280 L~c~akfg~F~~ar---------------------------~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~a  332 (625)
T KOG4422|consen  280 LSCAAKFGKFEDAR---------------------------KAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVA  332 (625)
T ss_pred             HHHHHHhcchHHHH---------------------------HHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhh
Confidence            44444444443332                           2467889999999999999999999999999888755 3


Q ss_pred             HHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHHHhCCChhHHHHHHHHHHHCC--
Q 041384          251 KAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLER--  328 (580)
Q Consensus       251 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~--  328 (580)
                      ..++..+...                        ..-+-|.-....|...|...+..|....+.+-|.++-.-.....  
T Consensus       333 s~~i~dI~N~------------------------ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~  388 (625)
T KOG4422|consen  333 SSWINDIQNS------------------------LTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNW  388 (625)
T ss_pred             HHHHHHHHHh------------------------hccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCch
Confidence            3344443321                        00000111111122233333333333334333333322221110  


Q ss_pred             --CCCCH---HHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCCCCcchHH
Q 041384          329 --IEPNS---VTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWT  403 (580)
Q Consensus       329 --~~p~~---~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  403 (580)
                        +.|+.   .-|..+....+.....+.....++.|.-.-.-|+..+...++++....+.++-..+++.++..-      
T Consensus       389 ~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~------  462 (625)
T KOG4422|consen  389 KFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEY------  462 (625)
T ss_pred             hhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHh------
Confidence              11221   1233444444444555555555555554444455555455555554455555444444443211      


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhh
Q 041384          404 TLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNH-AGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGK  482 (580)
Q Consensus       404 ~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  482 (580)
                            ...-+-+--++++..|......|+...-..+-....+ .-++.++.+.-..-++  ....+....+.+.-.+.+
T Consensus       463 ------ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r--~~~~~~t~l~~ia~Ll~R  534 (625)
T KOG4422|consen  463 ------GHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYESQPIRQR--AQDWPATSLNCIAILLLR  534 (625)
T ss_pred             ------hhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhHHHHH--hccCChhHHHHHHHHHHH
Confidence                  1111112233444444444344433221111111111 0122222221111122  233444456777777788


Q ss_pred             cCChHHHHHHHHhCC----CCCCHHHHH---HHHHHHHhcCCHHHHHHHHHHHHhcC
Q 041384          483 SGKIEDACKVVSTMP----MKPSTRILS---SLVSACRIHGRLEVAEMLAHQLIEAE  532 (580)
Q Consensus       483 ~g~~~~A~~~~~~~~----~~p~~~~~~---~l~~~~~~~~~~~~A~~~~~~~~~~~  532 (580)
                      .|+.++|.+++.-..    .-|.....+   -++.+..+.++..+|..+++-+...+
T Consensus       535 ~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a~~~n  591 (625)
T KOG4422|consen  535 AGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLASAFN  591 (625)
T ss_pred             cchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Confidence            888888888776551    113333333   55566667778888888888886655

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

Probab=99.84  E-value=2.2e-16  Score=160.97  Aligned_cols=430  Identities=11%  Similarity=-0.026  Sum_probs=287.2

Q ss_pred             HHHHHHHHHcCCCchHHHHhhccCC--CCCccchHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccC
Q 041384           66 SNSLISMYAKFSKPESAYQLFDEMP--YRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIG  143 (580)
Q Consensus        66 ~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~  143 (580)
                      +......+.+.|++++|+..|++..  .|+...|..+..+|.+.|++++|++.++...+.. +.+...+..+..++...|
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~lg  208 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIECKPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDGLG  208 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcC
Confidence            4455667888999999999999865  5677788889999999999999999999998853 225667888889999999


Q ss_pred             CcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCCCCeehHHHHHHHHHhcCChhHHHHHHHHHH
Q 041384          144 ELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQ  223 (580)
Q Consensus       144 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  223 (580)
                      ++++|...+..+...+++.+  .....++..+........+...++.- ..+...+..+.. +...........-+..-.
T Consensus       209 ~~~eA~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~a~~~~~~~l~~~-~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~  284 (615)
T TIGR00990       209 KYADALLDLTASCIIDGFRN--EQSAQAVERLLKKFAESKAKEILETK-PENLPSVTFVGN-YLQSFRPKPRPAGLEDSN  284 (615)
T ss_pred             CHHHHHHHHHHHHHhCCCcc--HHHHHHHHHHHHHHHHHHHHHHHhcC-CCCCCCHHHHHH-HHHHccCCcchhhhhccc
Confidence            99999988877765542221  11222222222212223344444332 223333333322 322222222222222111


Q ss_pred             HcCCCCCH-HHHHHHHHH---HhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCCChh
Q 041384          224 REGVKPTR-VTLTIVLLA---CAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVV  299 (580)
Q Consensus       224 ~~~~~p~~-~~~~~ll~~---~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~  299 (580)
                      +  ..|+. ..+..+...   ....+++++|.+.++...+.+..                              ......
T Consensus       285 ~--~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~------------------------------~~~~a~  332 (615)
T TIGR00990       285 E--LDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKL------------------------------GEKEAI  332 (615)
T ss_pred             c--cccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCC------------------------------ChhhHH
Confidence            1  11111 011111100   12234566666666655543310                              011334


Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCC-HHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHh
Q 041384          300 IWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPN-SVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMY  378 (580)
Q Consensus       300 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  378 (580)
                      .|+.+...+...|++++|+..|++..+.  .|+ ...|..+...+...|++++|...++...+.. +.+..++..+...+
T Consensus       333 a~~~lg~~~~~~g~~~eA~~~~~kal~l--~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~  409 (615)
T TIGR00990       333 ALNLRGTFKCLKGKHLEALADLSKSIEL--DPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLH  409 (615)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            5666667778889999999999988765  344 5577778888888999999999999887764 44577888888899


Q ss_pred             HhcCCHHHHHHHHhcCCCC---CcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHH
Q 041384          379 SKCGSITSSHQIFNEMAAR---DFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAE  454 (580)
Q Consensus       379 ~~~g~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~  454 (580)
                      ...|++++|...|++..+.   +...+..+...+.+.|++++|+..+++....  .| +...+..+...+...|++++|+
T Consensus       410 ~~~g~~~~A~~~~~kal~l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~  487 (615)
T TIGR00990       410 FIKGEFAQAGKDYQKSIDLDPDFIFSHIQLGVTQYKEGSIASSMATFRRCKKN--FPEAPDVYNYYGELLLDQNKFDEAI  487 (615)
T ss_pred             HHcCCHHHHHHHHHHHHHcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHccCHHHHH
Confidence            9999999999999987652   4556777888899999999999999998875  45 5678888899999999999999


Q ss_pred             HHHHHHHHhhCC-CCC-hh---HHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 041384          455 TLFNNVMKEKKI-ALA-IE---HYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQ  527 (580)
Q Consensus       455 ~~~~~~~~~~~~-~~~-~~---~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~  527 (580)
                      ..|+++++...- .+. ..   .++.....+...|++++|.+++++. ...| +...+..+...+.+.|++++|+..+++
T Consensus       488 ~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~  567 (615)
T TIGR00990       488 EKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALKLFER  567 (615)
T ss_pred             HHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            999997652111 110 11   1222223344579999999999986 4455 445788899999999999999999999


Q ss_pred             HHhcCCCCch
Q 041384          528 LIEAEPENAA  537 (580)
Q Consensus       528 ~~~~~~~~~~  537 (580)
                      +.++.+....
T Consensus       568 A~~l~~~~~e  577 (615)
T TIGR00990       568 AAELARTEGE  577 (615)
T ss_pred             HHHHhccHHH
Confidence            9988765443

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.84  E-value=1.5e-16  Score=165.19  Aligned_cols=223  Identities=10%  Similarity=0.027  Sum_probs=155.0

Q ss_pred             hHHHHHHHHHHHC-CCCCCHH-HHH----HHHHHhhccCChHHHHHHHHHHHHhCCC-CchhHHHHHHHHhHhcCCHHHH
Q 041384          315 SEAMKLFSRMRLE-RIEPNSV-TLL----AILSSCTRQSFLSHGLGVHCYIMKAGLN-FDVSIGNALMNMYSKCGSITSS  387 (580)
Q Consensus       315 ~~a~~~~~~m~~~-~~~p~~~-~~~----~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A  387 (580)
                      ++|+..++.+.+. ...|+.. .+.    ..+..+...|+.++|...|+.+.+.+.+ |+. ....+..+|...|++++|
T Consensus       213 d~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A  291 (765)
T PRK10049        213 DRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKA  291 (765)
T ss_pred             HHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHH
Confidence            5666666666643 1222221 111    1123445567777788777777766532 221 112245677778888888


Q ss_pred             HHHHhcCCCCCc-------chHHHHHHHHHhcCChHHHHHHHHHHHHcC-----------CCCCH---HHHHHHHHHHhc
Q 041384          388 HQIFNEMAARDF-------VSWTTLISGYGFHGYGEEALQLFLEMQESG-----------VEPDA---ITVLAILSACNH  446 (580)
Q Consensus       388 ~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g-----------~~p~~---~~~~~l~~~~~~  446 (580)
                      ...|+++...+.       .....+..++...|++++|..+++++.+..           -.|+.   ..+..+...+..
T Consensus       292 ~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~  371 (765)
T PRK10049        292 QSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKY  371 (765)
T ss_pred             HHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHH
Confidence            888777654221       234556667778888888888888887642           12332   345567778889


Q ss_pred             cCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHHHH
Q 041384          447 AGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKPS-TRILSSLVSACRIHGRLEVAEML  524 (580)
Q Consensus       447 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~~~~~~A~~~  524 (580)
                      .|+.++|++++++++.  ..+.+...+..++..+...|++++|++.+++. ...|+ ...+..++..+...|++++|+.+
T Consensus       372 ~g~~~eA~~~l~~al~--~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~  449 (765)
T PRK10049        372 SNDLPQAEMRARELAY--NAPGNQGLRIDYASVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVL  449 (765)
T ss_pred             cCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHH
Confidence            9999999999999765  34455778889999999999999999999988 35564 56777778888999999999999


Q ss_pred             HHHHHhcCCCCchHHH
Q 041384          525 AHQLIEAEPENAANYT  540 (580)
Q Consensus       525 ~~~~~~~~~~~~~~~~  540 (580)
                      ++++++..|+++.+..
T Consensus       450 ~~~ll~~~Pd~~~~~~  465 (765)
T PRK10049        450 TDDVVAREPQDPGVQR  465 (765)
T ss_pred             HHHHHHhCCCCHHHHH
Confidence            9999999999997543

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.84  E-value=3.9e-17  Score=165.71  Aligned_cols=352  Identities=11%  Similarity=0.019  Sum_probs=268.4

Q ss_pred             hhHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCC--C-CeehHHHHHHHH
Q 041384          130 ELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVI--R-NEVSWTAMISGC  206 (580)
Q Consensus       130 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~li~~~  206 (580)
                      .....++..+.+.|+.+.|..++...+...  +.+......++.+....|++++|...|+++..  | +...+..+...+
T Consensus        43 ~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~--p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P~~~~a~~~la~~l  120 (656)
T PRK15174         43 QNIILFAIACLRKDETDVGLTLLSDRVLTA--KNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVNVCQPEDVLLVASVL  120 (656)
T ss_pred             cCHHHHHHHHHhcCCcchhHHHhHHHHHhC--CCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHH
Confidence            345556777888899999999999888875  55556666666777778999999998888733  3 455677778888


Q ss_pred             HhcCChhHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHH
Q 041384          207 IDSQNYDTGIDLFRAMQREGVKPT-RVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHP  285 (580)
Q Consensus       207 ~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  285 (580)
                      ...|++++|.+.+++..+.  .|+ ...+..+...+...|++++|...++.+......                      
T Consensus       121 ~~~g~~~~Ai~~l~~Al~l--~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~----------------------  176 (656)
T PRK15174        121 LKSKQYATVADLAEQAWLA--FSGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPP----------------------  176 (656)
T ss_pred             HHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCC----------------------
Confidence            8889999999888888764  343 556667777788888888887777665443221                      


Q ss_pred             HHHHHhhCCCCChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCC
Q 041384          286 ARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLN  365 (580)
Q Consensus       286 a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  365 (580)
                                 +...+..+ ..+...|++++|...++.+.+....++......+..++...|++++|...++...+.. +
T Consensus       177 -----------~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p  243 (656)
T PRK15174        177 -----------RGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-L  243 (656)
T ss_pred             -----------CHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-C
Confidence                       22233333 3478899999999999998876534455555666778889999999999999999865 4


Q ss_pred             CchhHHHHHHHHhHhcCCHHH----HHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHH
Q 041384          366 FDVSIGNALMNMYSKCGSITS----SHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPD-AITV  437 (580)
Q Consensus       366 ~~~~~~~~l~~~~~~~g~~~~----A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~-~~~~  437 (580)
                      .+...+..+...+...|++++    |...|++...   .+...+..+...+...|++++|+..+++..+.  .|+ ...+
T Consensus       244 ~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l--~P~~~~a~  321 (656)
T PRK15174        244 DGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLAT--HPDLPYVR  321 (656)
T ss_pred             CCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHH
Confidence            467778889999999999986    7889988775   35568889999999999999999999999985  564 5667


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHHhhCCCCCh-hHHHHHHHHhhhcCChHHHHHHHHhC-CCCCCHHHHHHHHHHHHhc
Q 041384          438 LAILSACNHAGLVKEAETLFNNVMKEKKIALAI-EHYACYVDLLGKSGKIEDACKVVSTM-PMKPSTRILSSLVSACRIH  515 (580)
Q Consensus       438 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~  515 (580)
                      ..+..++...|++++|...++.+++.   .|+. ..+..+..++...|+.++|...|++. ...|+..           .
T Consensus       322 ~~La~~l~~~G~~~eA~~~l~~al~~---~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~~~-----------~  387 (656)
T PRK15174        322 AMYARALRQVGQYTAASDEFVQLARE---KGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARASHL-----------P  387 (656)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHh---CccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChhhc-----------h
Confidence            77888999999999999999997653   3443 33444677889999999999999987 3455542           3


Q ss_pred             CCHHHHHHHHHHHHhcCCCCc
Q 041384          516 GRLEVAEMLAHQLIEAEPENA  536 (580)
Q Consensus       516 ~~~~~A~~~~~~~~~~~~~~~  536 (580)
                      .++++|...+.++.+.-+...
T Consensus       388 ~~~~ea~~~~~~~~~~~~~~~  408 (656)
T PRK15174        388 QSFEEGLLALDGQISAVNLPP  408 (656)
T ss_pred             hhHHHHHHHHHHHHHhcCCcc
Confidence            556778888888887664433

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.83  E-value=5.9e-16  Score=157.39  Aligned_cols=425  Identities=9%  Similarity=0.034  Sum_probs=266.6

Q ss_pred             HHHcCCCchHHHHhhccCCC--CCc-cchHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHH
Q 041384           72 MYAKFSKPESAYQLFDEMPY--RDT-ISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELG  148 (580)
Q Consensus        72 ~~~~~g~~~~A~~~~~~~~~--~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a  148 (580)
                      ...+.|+++.|+..|++..+  |+. .....++..+...|+.++|+..+++.... ..........+...+...|+++.|
T Consensus        43 i~~r~Gd~~~Al~~L~qaL~~~P~~~~av~dll~l~~~~G~~~~A~~~~eka~~p-~n~~~~~llalA~ly~~~gdyd~A  121 (822)
T PRK14574         43 IRARAGDTAPVLDYLQEESKAGPLQSGQVDDWLQIAGWAGRDQEVIDVYERYQSS-MNISSRGLASAARAYRNEKRWDQA  121 (822)
T ss_pred             HHHhCCCHHHHHHHHHHHHhhCccchhhHHHHHHHHHHcCCcHHHHHHHHHhccC-CCCCHHHHHHHHHHHHHcCCHHHH
Confidence            35677777888887777663  322 12336677777777888887777777611 111222222234466666777777


Q ss_pred             HHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCCCCeehHHHHHHHHHh--cCChhHHHHHHHHHHHcC
Q 041384          149 RQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCID--SQNYDTGIDLFRAMQREG  226 (580)
Q Consensus       149 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~--~~~~~~a~~~~~~m~~~~  226 (580)
                      .++++++.+..  |.+..++..++..+...++.++|++.++++.+.+......+..++..  .++..+|++.++++.+. 
T Consensus       122 iely~kaL~~d--P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~-  198 (822)
T PRK14574        122 LALWQSSLKKD--PTNPDLISGMIMTQADAGRGGVVLKQATELAERDPTVQNYMTLSYLNRATDRNYDALQASSEAVRL-  198 (822)
T ss_pred             HHHHHHHHhhC--CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcchHHHHHHHHHHHhcchHHHHHHHHHHHHHh-
Confidence            77777777765  44556666667777777777777777777754433322223333333  44444577777777665 


Q ss_pred             CCCC-HHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCC-Chhh----
Q 041384          227 VKPT-RVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVK-DVVI----  300 (580)
Q Consensus       227 ~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~-~~~~----  300 (580)
                       .|+ ...+.....++.+.|-...|.++                                    ....+.. +...    
T Consensus       199 -~P~n~e~~~~~~~~l~~~~~~~~a~~l------------------------------------~~~~p~~f~~~~~~~l  241 (822)
T PRK14574        199 -APTSEEVLKNHLEILQRNRIVEPALRL------------------------------------AKENPNLVSAEHYRQL  241 (822)
T ss_pred             -CCCCHHHHHHHHHHHHHcCCcHHHHHH------------------------------------HHhCccccCHHHHHHH
Confidence             333 33444445555555554444433                                    3322210 1111    


Q ss_pred             ----HHHHHHHH-H----hCCC---hhHHHHHHHHHHHC-CCCCCH-HH----HHHHHHHhhccCChHHHHHHHHHHHHh
Q 041384          301 ----WSSIIRGY-S----QSGD---LSEAMKLFSRMRLE-RIEPNS-VT----LLAILSSCTRQSFLSHGLGVHCYIMKA  362 (580)
Q Consensus       301 ----~~~l~~~~-~----~~~~---~~~a~~~~~~m~~~-~~~p~~-~~----~~~ll~~~~~~~~~~~a~~~~~~~~~~  362 (580)
                          ...+++.- .    ...+   .+.|+.-++.+... +-.|.. .-    ..-.+-++...++..++++.++.+...
T Consensus       242 ~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~  321 (822)
T PRK14574        242 ERDAAAEQVRMAVLPTRSETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAE  321 (822)
T ss_pred             HHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhc
Confidence                11111110 0    1112   34455555655542 222322 11    223455677888899999999999888


Q ss_pred             CCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCCCC---------cchHHHHHHHHHhcCChHHHHHHHHHHHHcCC---
Q 041384          363 GLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARD---------FVSWTTLISGYGFHGYGEEALQLFLEMQESGV---  430 (580)
Q Consensus       363 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~---  430 (580)
                      +.+....+-.++.++|...+++++|..+++.+...+         ......|..++...+++++|..+++++.+.-.   
T Consensus       322 ~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~  401 (822)
T PRK14574        322 GYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQV  401 (822)
T ss_pred             CCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEE
Confidence            877666777888899999999999999998875421         22246788888888999999999988887311   


Q ss_pred             --------CCCH---HHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC-C
Q 041384          431 --------EPDA---ITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP-M  498 (580)
Q Consensus       431 --------~p~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~  498 (580)
                              .||+   ..+..++..+...|+..+|++.+++++.  .-+-+......+.+.+...|.+.+|+..++... .
T Consensus       402 ~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~--~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l  479 (822)
T PRK14574        402 GVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSS--TAPANQNLRIALASIYLARDLPRKAEQELKAVESL  479 (822)
T ss_pred             eccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhh
Confidence                    1222   2344456667788888888888888654  445567777888888888888888888887763 4


Q ss_pred             CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHH
Q 041384          499 KP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANY  539 (580)
Q Consensus       499 ~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~  539 (580)
                      .| +..+....+.++...|++++|..+.+.+.+..|+++.+-
T Consensus       480 ~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~~~Pe~~~~~  521 (822)
T PRK14574        480 APRSLILERAQAETAMALQEWHQMELLTDDVISRSPEDIPSQ  521 (822)
T ss_pred             CCccHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhCCCchhHH
Confidence            45 445666777778888888888888888888888888643

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.83  E-value=1.8e-15  Score=153.91  Aligned_cols=443  Identities=10%  Similarity=0.007  Sum_probs=314.6

Q ss_pred             hhcccchhHHHHHHHHHHHHhCCCCCh--hHHHHHHHHHHcCCCchHHHHhhccCCCCCccch-HHH--HHHHHhCCChh
Q 041384           37 CAYAQTHQHFGLQLHCTALKSGSDADP--VISNSLISMYAKFSKPESAYQLFDEMPYRDTISW-NSI--INCFTQNGFYV  111 (580)
Q Consensus        37 ~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~l--i~~~~~~~~~~  111 (580)
                      ..+.|+. ..|...|++.++..  |+.  .++ .++..+...|+.++|+..+++...|+...+ ..+  ...+...|+++
T Consensus        44 ~~r~Gd~-~~Al~~L~qaL~~~--P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p~n~~~~~llalA~ly~~~gdyd  119 (822)
T PRK14574         44 RARAGDT-APVLDYLQEESKAG--PLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSSMNISSRGLASAARAYRNEKRWD  119 (822)
T ss_pred             HHhCCCH-HHHHHHHHHHHhhC--ccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHH
Confidence            4578999 99999999998875  443  344 788888899999999999999886644444 334  44777889999


Q ss_pred             HHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcC
Q 041384          112 RSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQM  191 (580)
Q Consensus       112 ~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  191 (580)
                      +|+++|+++.+.... ++..+..++..+...++.++|.+.++.+.+..   |+...+..++..+...++..+|++.++++
T Consensus       120 ~Aiely~kaL~~dP~-n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~d---p~~~~~l~layL~~~~~~~~~AL~~~ekl  195 (822)
T PRK14574        120 QALALWQSSLKKDPT-NPDLISGMIMTQADAGRGGVVLKQATELAERD---PTVQNYMTLSYLNRATDRNYDALQASSEA  195 (822)
T ss_pred             HHHHHHHHHHhhCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHhcccC---cchHHHHHHHHHHHhcchHHHHHHHHHHH
Confidence            999999999987533 46777788888999999999999999998764   44555555555555566776699999998


Q ss_pred             CC--C-CeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhH
Q 041384          192 VI--R-NEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHL  268 (580)
Q Consensus       192 ~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  268 (580)
                      ..  | +...+..+..++.+.|-...|+++..+-... +.|  .....+-        .+.+.+    .++.+..++..-
T Consensus       196 l~~~P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~-f~~--~~~~~l~--------~~~~a~----~vr~a~~~~~~~  260 (822)
T PRK14574        196 VRLAPTSEEVLKNHLEILQRNRIVEPALRLAKENPNL-VSA--EHYRQLE--------RDAAAE----QVRMAVLPTRSE  260 (822)
T ss_pred             HHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccc-cCH--HHHHHHH--------HHHHHH----HHhhcccccccc
Confidence            43  4 5667788889999999999999877653211 111  1111110        011111    111111111000


Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHhhCCC-CCh-----hhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 041384          269 SAALMHMYCECTEALHPARIIFERTKV-KDV-----VIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSS  342 (580)
Q Consensus       269 ~~~l~~~~~~~~~~~~~a~~~~~~~~~-~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~  342 (580)
                          -..+.....++.....++..... |..     ...--.+-++...|+..++++.|+.+...+.+....+...+..+
T Consensus       261 ----~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~ada  336 (822)
T PRK14574        261 ----TERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASA  336 (822)
T ss_pred             ----hhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHH
Confidence                00011111113333444443332 211     12234556788999999999999999999877667788999999


Q ss_pred             hhccCChHHHHHHHHHHHHhC-----CCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCCCCc------------------
Q 041384          343 CTRQSFLSHGLGVHCYIMKAG-----LNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDF------------------  399 (580)
Q Consensus       343 ~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~------------------  399 (580)
                      |...+++++|..+++.+....     .+++......|.-+|...+++++|..+++.+.+..+                  
T Consensus       337 yl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~  416 (822)
T PRK14574        337 YIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWI  416 (822)
T ss_pred             HHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHH
Confidence            999999999999999997743     233444457889999999999999999998876211                  


Q ss_pred             chHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHH
Q 041384          400 VSWTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVD  478 (580)
Q Consensus       400 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  478 (580)
                      ..+..++..+.-.|+..+|++.++++...  .| |......+.+.+...|.+.+|++.++.+..  -.+-+..+....+.
T Consensus       417 ~~~~l~a~~~~~~gdl~~Ae~~le~l~~~--aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~--l~P~~~~~~~~~~~  492 (822)
T PRK14574        417 EGQTLLVQSLVALNDLPTAQKKLEDLSST--APANQNLRIALASIYLARDLPRKAEQELKAVES--LAPRSLILERAQAE  492 (822)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhh--hCCccHHHHHHHHH
Confidence            13445677888999999999999999885  45 778888999999999999999999976432  23334666777888


Q ss_pred             HhhhcCChHHHHHHHHhC-CCCCCHHHHHHHHH
Q 041384          479 LLGKSGKIEDACKVVSTM-PMKPSTRILSSLVS  510 (580)
Q Consensus       479 ~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~  510 (580)
                      .+...|++.+|..+.+.. ...|+......|-.
T Consensus       493 ~al~l~e~~~A~~~~~~l~~~~Pe~~~~~~l~r  525 (822)
T PRK14574        493 TAMALQEWHQMELLTDDVISRSPEDIPSQELDR  525 (822)
T ss_pred             HHHhhhhHHHHHHHHHHHHhhCCCchhHHHHHH
Confidence            889999999999999877 34565554444433

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.79  E-value=1.7e-14  Score=127.74  Aligned_cols=428  Identities=13%  Similarity=0.079  Sum_probs=303.8

Q ss_pred             CccchHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhh--ccCCcHHH-HHHHHHHHHhCCCCCchHHHh
Q 041384           93 DTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCS--QIGELELG-RQIHALVIVDGSFELSVFVST  169 (580)
Q Consensus        93 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~--~~~~~~~a-~~~~~~~~~~~~~~~~~~~~~  169 (580)
                      .+.+-|.|+.. ...|.+.++.-+|+.|...|+..++..-..|++..+  ...+..-+ .+.|-.|...|  ..+..+| 
T Consensus       115 ~V~~E~nL~km-IS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~--E~S~~sW-  190 (625)
T KOG4422|consen  115 QVETENNLLKM-ISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFG--EDSTSSW-  190 (625)
T ss_pred             hhcchhHHHHH-HhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccc--ccccccc-
Confidence            45566666654 567899999999999999999888887777765443  33333322 23333444443  3344444 


Q ss_pred             HHHHHhHhcCCHHHHHHHHhcCCCCCeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchh
Q 041384          170 ALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRN  249 (580)
Q Consensus       170 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  249 (580)
                             +.|.+.+   ++-+....+..+|..||.++|+--..+.|.+++++-.....+.+..+||.+|.+-+-..+   
T Consensus       191 -------K~G~vAd---L~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~---  257 (625)
T KOG4422|consen  191 -------KSGAVAD---LLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG---  257 (625)
T ss_pred             -------ccccHHH---HHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc---
Confidence                   2344433   555556667789999999999999999999999999988888999999999987554332   


Q ss_pred             HHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCC
Q 041384          250 GKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERI  329 (580)
Q Consensus       250 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~  329 (580)
                       ++++.+|....+.||..|+++++.+..+.|+ ++.++                           ..|.+++.+|++-|+
T Consensus       258 -K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~-F~~ar---------------------------~aalqil~EmKeiGV  308 (625)
T KOG4422|consen  258 -KKLVAEMISQKMTPNLFTFNALLSCAAKFGK-FEDAR---------------------------KAALQILGEMKEIGV  308 (625)
T ss_pred             -HHHHHHHHHhhcCCchHhHHHHHHHHHHhcc-hHHHH---------------------------HHHHHHHHHHHHhCC
Confidence             6778888888888777777777777666666 33332                           357788999999999


Q ss_pred             CCCHHHHHHHHHHhhccCChHH-HHHHHHHHHH----hCCCC----chhHHHHHHHHhHhcCCHHHHHHHHhcCCCC---
Q 041384          330 EPNSVTLLAILSSCTRQSFLSH-GLGVHCYIMK----AGLNF----DVSIGNALMNMYSKCGSITSSHQIFNEMAAR---  397 (580)
Q Consensus       330 ~p~~~~~~~ll~~~~~~~~~~~-a~~~~~~~~~----~~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---  397 (580)
                      .|...+|..+|..+++.++..+ +..++.++..    ..++|    +...|...+..|.+..+.+-|.++-.-+...   
T Consensus       309 ePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~  388 (625)
T KOG4422|consen  309 EPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNW  388 (625)
T ss_pred             CcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCch
Confidence            9999999999999988888754 4444444443    22222    5566777888888888988888887765542   


Q ss_pred             --------CcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCC
Q 041384          398 --------DFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALA  469 (580)
Q Consensus       398 --------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  469 (580)
                              ...-|..+....++....+.-...|+.|.-.-+-|+..+...++++....|.++-..++|..+. ..|....
T Consensus       389 ~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~-~~ght~r  467 (625)
T KOG4422|consen  389 KFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSK-EYGHTFR  467 (625)
T ss_pred             hhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHH-Hhhhhhh
Confidence                    1234667778888888999999999999988788999999999999999999999999999844 4665555


Q ss_pred             hhHHHHHHHHhhhcC-Ch--------HH-----HHHHHHhC--------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 041384          470 IEHYACYVDLLGKSG-KI--------ED-----ACKVVSTM--------PMKPSTRILSSLVSACRIHGRLEVAEMLAHQ  527 (580)
Q Consensus       470 ~~~~~~l~~~~~~~g-~~--------~~-----A~~~~~~~--------~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~  527 (580)
                      ......+...+++.. +.        ..     |..+++..        ..+-.....+.++-.+.+.|..++|-+++.-
T Consensus       468 ~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r~~~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l  547 (625)
T KOG4422|consen  468 SDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYESQPIRQRAQDWPATSLNCIAILLLRAGRTQKAWEMLGL  547 (625)
T ss_pred             HHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhHHHHHhccCChhHHHHHHHHHHHcchHHHHHHHHHH
Confidence            555555555555544 11        00     11111111        1233455677777888899999999999998


Q ss_pred             HHhcC---CCCch--HHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          528 LIEAE---PENAA--NYTLLSMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       528 ~~~~~---~~~~~--~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      ..+..   |..+.  +...+.+.-.+.++..+|..+++-|...+.
T Consensus       548 ~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a~~~n~  592 (625)
T KOG4422|consen  548 FLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLASAFNL  592 (625)
T ss_pred             HHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCc
Confidence            86544   43333  244667777788899999999998876554

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

Probab=99.77  E-value=9.3e-13  Score=123.07  Aligned_cols=509  Identities=10%  Similarity=0.059  Sum_probs=381.1

Q ss_pred             HHHHHHHHHHhCCCCChhHHHHHHHHHHcCCCchHHHHhhccCCCCCccchHHHHHHHHhCCChhHHHHHHHHHHHCCCC
Q 041384           47 GLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFV  126 (580)
Q Consensus        47 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~  126 (580)
                      -.+++...+++ +|.++..|-..+.    ..+.+.|.-++....+--. +-.-|.-++.+..-++.|..+++..++. ++
T Consensus       365 K~RVlRKALe~-iP~sv~LWKaAVe----lE~~~darilL~rAveccp-~s~dLwlAlarLetYenAkkvLNkaRe~-ip  437 (913)
T KOG0495|consen  365 KKRVLRKALEH-IPRSVRLWKAAVE----LEEPEDARILLERAVECCP-QSMDLWLALARLETYENAKKVLNKAREI-IP  437 (913)
T ss_pred             HHHHHHHHHHh-CCchHHHHHHHHh----ccChHHHHHHHHHHHHhcc-chHHHHHHHHHHHHHHHHHHHHHHHHhh-CC
Confidence            34556655555 3455555544332    3445556666665442111 1122344556666788888888888775 66


Q ss_pred             CCHhhHHHHHHHhhccCCcHHHHHHHHHHH----HhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCCC------Ce
Q 041384          127 LKAELLAGIISLCSQIGELELGRQIHALVI----VDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIR------NE  196 (580)
Q Consensus       127 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~  196 (580)
                      -++..|.+....--..|+.+....+.++.+    ..| +..+...|..=...+-+.|..-.+..+......-      -.
T Consensus       438 td~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ng-v~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~  516 (913)
T KOG0495|consen  438 TDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANG-VEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRK  516 (913)
T ss_pred             CChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcc-eeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhH
Confidence            688888888887788888888888877643    344 7777777777777777777777777766655221      23


Q ss_pred             ehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHH
Q 041384          197 VSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMY  276 (580)
Q Consensus       197 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  276 (580)
                      .+|+.-...|.+.+.++-|..+|....+. .+-+...|......--..|..+....++++++..-. -....+-.....+
T Consensus       517 ~tw~~da~~~~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~p-kae~lwlM~ake~  594 (913)
T KOG0495|consen  517 STWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQCP-KAEILWLMYAKEK  594 (913)
T ss_pred             hHHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCC-cchhHHHHHHHHH
Confidence            47888888888999999999998887764 223445555555555666888888888888887643 3455666666777


Q ss_pred             HHcCCCHHHHHHHHhhCC---CCChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHH
Q 041384          277 CECTEALHPARIIFERTK---VKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGL  353 (580)
Q Consensus       277 ~~~~~~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~  353 (580)
                      ...|+ +..++.++...-   ..+...|-+-+.....+.+++.|..+|.+....  .|+...|..-+..--..++.++|.
T Consensus       595 w~agd-v~~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~  671 (913)
T KOG0495|consen  595 WKAGD-VPAARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEAL  671 (913)
T ss_pred             HhcCC-cHHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHH
Confidence            77888 888888777554   236667888888888999999999999988754  677777766666666788999999


Q ss_pred             HHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCC--C-CcchHHHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 041384          354 GVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAA--R-DFVSWTTLISGYGFHGYGEEALQLFLEMQESGV  430 (580)
Q Consensus       354 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~  430 (580)
                      +++++..+. ++.-...|-.+...+-+.++++.|...|..-.+  | .+..|-.|...--+.|++-+|..++++.+-.+ 
T Consensus       672 rllEe~lk~-fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkN-  749 (913)
T KOG0495|consen  672 RLLEEALKS-FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKN-  749 (913)
T ss_pred             HHHHHHHHh-CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC-
Confidence            999887765 244466778888888899999999999887665  3 45578888888888889999999999988763 


Q ss_pred             CCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCCCCCCHHHHHHHHH
Q 041384          431 EPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRILSSLVS  510 (580)
Q Consensus       431 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~  510 (580)
                      +-|...|...++.=.+.|..+.|..+..++++  ..+.+...|..-|....+.++-..+...+.+.  +.|+.+..++..
T Consensus       750 Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQ--ecp~sg~LWaEaI~le~~~~rkTks~DALkkc--e~dphVllaia~  825 (913)
T KOG0495|consen  750 PKNALLWLESIRMELRAGNKEQAELLMAKALQ--ECPSSGLLWAEAIWLEPRPQRKTKSIDALKKC--EHDPHVLLAIAK  825 (913)
T ss_pred             CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCccchhHHHHHHhccCcccchHHHHHHHhc--cCCchhHHHHHH
Confidence            34678888999999999999999999998876  45666777888888888888877777777766  456677788888


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCCccCCceeEE
Q 041384          511 ACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGLSKSYGFSRI  576 (580)
Q Consensus       511 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  576 (580)
                      .+....+++.|.+-|.++...+|++..+|..+...+.+.|.-++-.+++.+.....  |.-|..|.
T Consensus       826 lfw~e~k~~kar~Wf~Ravk~d~d~GD~wa~fykfel~hG~eed~kev~~~c~~~E--P~hG~~W~  889 (913)
T KOG0495|consen  826 LFWSEKKIEKAREWFERAVKKDPDNGDAWAWFYKFELRHGTEEDQKEVLKKCETAE--PTHGELWQ  889 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHccCCccchHHHHHHHHHHHhCCHHHHHHHHHHHhccC--CCCCcHHH
Confidence            88899999999999999999999999999999999999999999999999987765  33555554

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

Probab=99.76  E-value=8e-16  Score=137.02  Aligned_cols=204  Identities=12%  Similarity=0.121  Sum_probs=166.4

Q ss_pred             hccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHH
Q 041384          344 TRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQ  420 (580)
Q Consensus       344 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~  420 (580)
                      ...|++++|.+.+++.....-......||.- -.+...|++++|++.|-++..   .+......+...|-...+...|++
T Consensus       501 f~ngd~dka~~~ykeal~ndasc~ealfnig-lt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie  579 (840)
T KOG2003|consen  501 FANGDLDKAAEFYKEALNNDASCTEALFNIG-LTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIE  579 (840)
T ss_pred             eecCcHHHHHHHHHHHHcCchHHHHHHHHhc-ccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHH
Confidence            4567778888887777765444444444432 345677888999888876654   566777778888888899999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCC
Q 041384          421 LFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMK  499 (580)
Q Consensus       421 ~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~  499 (580)
                      ++-+..+. ++.|+....-|...|-+.|+-..|.+.+-+--  +-++.+..+...|...|....-+++|+.+|++. .++
T Consensus       580 ~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsy--ryfp~nie~iewl~ayyidtqf~ekai~y~ekaaliq  656 (840)
T KOG2003|consen  580 LLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSY--RYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQ  656 (840)
T ss_pred             HHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcc--cccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcC
Confidence            99887774 44477888999999999999999999877632  457778999999999999999999999999998 488


Q ss_pred             CCHHHHHHHHHHH-HhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCC
Q 041384          500 PSTRILSSLVSAC-RIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGN  551 (580)
Q Consensus       500 p~~~~~~~l~~~~-~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  551 (580)
                      |+..-|..++..| .+.|++.+|..+++...+..|.+..++..|++.+...|.
T Consensus       657 p~~~kwqlmiasc~rrsgnyqka~d~yk~~hrkfpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  657 PNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRKFPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             ccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCccchHHHHHHHHHhccccc
Confidence            9999999988876 567999999999999999999999999999998887774

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

Probab=99.74  E-value=3.2e-13  Score=131.03  Aligned_cols=520  Identities=10%  Similarity=0.046  Sum_probs=325.1

Q ss_pred             hhcccchhHHHHHHHHHHHHhCCCCChhHHHHHHHHHHcCCCchHHHHhhccC---CCCCccchHHHHHHHHhCCChhHH
Q 041384           37 CAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEM---PYRDTISWNSIINCFTQNGFYVRS  113 (580)
Q Consensus        37 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~~~~~~a  113 (580)
                      +++ |+. +.|..++.++++.. +.+...|..|...|-..|+.+++...+-..   .+.|...|..+.....+.|++..|
T Consensus       150 far-g~~-eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls~~~~~i~qA  226 (895)
T KOG2076|consen  150 FAR-GDL-EEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLSEQLGNINQA  226 (895)
T ss_pred             HHh-CCH-HHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcccHHHH
Confidence            444 888 99999999999885 678889999999999999999998866443   355778899999999999999999


Q ss_pred             HHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHh----HHHHHhHhcCCHHHHHHHHh
Q 041384          114 LEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVST----ALLDLYSKCHHWLIALRVFE  189 (580)
Q Consensus       114 ~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----~l~~~~~~~~~~~~a~~~~~  189 (580)
                      .-+|.+..+.. +++...+---...|-+.|+...|..-+.++.... .+.|..-..    ..+..+...++-+.|.+.++
T Consensus       227 ~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~-p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le  304 (895)
T KOG2076|consen  227 RYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLD-PPVDIERIEDLIRRVAHYFITHNERERAAKALE  304 (895)
T ss_pred             HHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhC-CchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            99999998864 3344444455677888999999999999998876 222322222    34555667777788888888


Q ss_pred             cCCCC-----CeehHHHHHHHHHhcCChhHHHHHHHHHHHcC---------------------------CCCCHHHHHHH
Q 041384          190 QMVIR-----NEVSWTAMISGCIDSQNYDTGIDLFRAMQREG---------------------------VKPTRVTLTIV  237 (580)
Q Consensus       190 ~~~~~-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~---------------------------~~p~~~~~~~l  237 (580)
                      .....     +...++.++..+.+...++.|......+....                           +.++... ..+
T Consensus       305 ~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v-~rl  383 (895)
T KOG2076|consen  305 GALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRV-IRL  383 (895)
T ss_pred             HHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchh-HhH
Confidence            76442     55678889999999999999998888877621                           2222222 223


Q ss_pred             HHHHhcCCCchhHHHHHHHHHHhc--CCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCC----CChhhHHHHHHHHHhC
Q 041384          238 LLACAELRDLRNGKAIHGYAYCCG--FDFDHHLSAALMHMYCECTEALHPARIIFERTKV----KDVVIWSSIIRGYSQS  311 (580)
Q Consensus       238 l~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~l~~~~~~~  311 (580)
                      .-++.+.+..+....+.....+..  +.-+...+..+..+|...|. ...|..++.....    .+...|-.+..+|...
T Consensus       384 ~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~-~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l  462 (895)
T KOG2076|consen  384 MICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGK-YKEALRLLSPITNREGYQNAFVWYKLARCYMEL  462 (895)
T ss_pred             hhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhccc-HHHHHHHHHHHhcCccccchhhhHHHHHHHHHH
Confidence            344556666666666777777766  44456778888888998888 8888888887653    2556788888899999


Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHH--------HhCCCCchhHHHHHHHHhHhcCC
Q 041384          312 GDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIM--------KAGLNFDVSIGNALMNMYSKCGS  383 (580)
Q Consensus       312 ~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~g~  383 (580)
                      |..+.|...|+...... +-+...-.+|-..+...|+.++|.+.++.+.        ..+..|+..+.......+...|+
T Consensus       463 ~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  463 GEYEEAIEFYEKVLILA-PDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGK  541 (895)
T ss_pred             hhHHHHHHHHHHHHhcC-CCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhh
Confidence            99999999998887653 2334455566777788899999998888844        23455666666666677777787


Q ss_pred             HHHHHHHHhcCCCC--------------------------CcchHHHHHHHHHhcCChHHHHHH------HHHHHHcCCC
Q 041384          384 ITSSHQIFNEMAAR--------------------------DFVSWTTLISGYGFHGYGEEALQL------FLEMQESGVE  431 (580)
Q Consensus       384 ~~~A~~~~~~~~~~--------------------------~~~~~~~l~~~~~~~~~~~~a~~~------~~~~~~~g~~  431 (580)
                      .++=..+-..|..+                          +.......+.+-.+.++......-      +..-...|+.
T Consensus       542 ~E~fi~t~~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~d~~~~~~~e~~~Ls  621 (895)
T KOG2076|consen  542 REEFINTASTLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKATDDNVMEKALSDGTEFRAVELRGLS  621 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHHhccCchHHhhhcccchhhhhhhhhccCc
Confidence            76644433333210                          001111122222222221111110      0111111222


Q ss_pred             CCH--HHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChh----HHHHHHHHhhhcCChHHHHHHHHhCC------CC
Q 041384          432 PDA--ITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIE----HYACYVDLLGKSGKIEDACKVVSTMP------MK  499 (580)
Q Consensus       432 p~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~g~~~~A~~~~~~~~------~~  499 (580)
                      .+.  ..+.-++..+++.+++++|..+...++...-+..+..    .-...+.+....+++..|...++.+-      ..
T Consensus       622 iddwfel~~e~i~~L~k~~r~qeAl~vv~~a~~~~~f~~~~~~~k~l~~~~l~~s~~~~d~~~a~~~lR~~i~~~~~~~~  701 (895)
T KOG2076|consen  622 IDDWFELFRELILSLAKLQRVQEALSVVFTALEAYIFFQDSEIRKELQFLGLKASLYARDPGDAFSYLRSVITQFQFYLD  701 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhhhh
Confidence            222  1234455556666666666666666555333333322    11233344455666666666666552      11


Q ss_pred             C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC-chHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 041384          500 P-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPEN-AANYTLLSMVCSESGNWLGAEEVWRVMRA  564 (580)
Q Consensus       500 p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (580)
                      | ....|+...+...+.++-.--.+.+..+....|.+ +......+......+.+.-|...+-+.-.
T Consensus       702 ~~q~~l~n~~~s~~~~~~q~v~~~R~~~~~~~~~~~~~~~l~~i~gh~~~~~~s~~~Al~~y~ra~~  768 (895)
T KOG2076|consen  702 VYQLNLWNLDFSYFSKYGQRVCYLRLIMRLLVKNKDDTPPLALIYGHNLFVNASFKHALQEYMRAFR  768 (895)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCccCCcceeeeechhHhhccchHHHHHHHHHHHH
Confidence            2 22344444444555555444445554544444444 33344444445555666666655544443

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

Probab=99.74  E-value=1.1e-12  Score=127.43  Aligned_cols=559  Identities=11%  Similarity=0.024  Sum_probs=370.5

Q ss_pred             CCchhhHHHHHHHHHccCCCCCCCcchHHHHHHhhcccchhHHHHHHHHHHHHhCCCCChhHHHHHHHHHHcCCCchHHH
Q 041384            4 KHFYEQTLHLYKQELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAY   83 (580)
Q Consensus         4 ~~~~~~a~~~~~~~~~~~g~~~~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~   83 (580)
                      .|+.++|.+++.+..++.  +.+...|..+-..+-..|+. ..+...+-.+. +-.+.|...|..+.....+.|+++.|.
T Consensus       152 rg~~eeA~~i~~EvIkqd--p~~~~ay~tL~~IyEqrGd~-eK~l~~~llAA-HL~p~d~e~W~~ladls~~~~~i~qA~  227 (895)
T KOG2076|consen  152 RGDLEEAEEILMEVIKQD--PRNPIAYYTLGEIYEQRGDI-EKALNFWLLAA-HLNPKDYELWKRLADLSEQLGNINQAR  227 (895)
T ss_pred             hCCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHHHcccH-HHHHHHHHHHH-hcCCCChHHHHHHHHHHHhcccHHHHH
Confidence            499999999994444443  45777899999999999999 77776544333 334667789999999999999999999


Q ss_pred             HhhccCCCC---CccchHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHH----HHHhhccCCcHHHHHHHHHHH
Q 041384           84 QLFDEMPYR---DTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGI----ISLCSQIGELELGRQIHALVI  156 (580)
Q Consensus        84 ~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l----l~~~~~~~~~~~a~~~~~~~~  156 (580)
                      -.|.+..+.   +...+---+..|-+.|+...|.+.|.++.+...+.|..-+..+    ++.+...++.+.|.+.++...
T Consensus       228 ~cy~rAI~~~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~  307 (895)
T KOG2076|consen  228 YCYSRAIQANPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGAL  307 (895)
T ss_pred             HHHHHHHhcCCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            999987643   4333344466788899999999999999987543344444444    445566677788999998888


Q ss_pred             HhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCC----C----------------------CeehHH----HHHHHH
Q 041384          157 VDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVI----R----------------------NEVSWT----AMISGC  206 (580)
Q Consensus       157 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~----------------------~~~~~~----~li~~~  206 (580)
                      ..++-..+...++.++..|.+...++.|.........    +                      +..+|+    -++-++
T Consensus       308 s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~icL  387 (895)
T KOG2076|consen  308 SKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMICL  387 (895)
T ss_pred             hhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhhhh
Confidence            7554456677888999999999999998887765522    1                      111222    223344


Q ss_pred             HhcCChhHHHHHHHHHHHcCCC--CCHHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHH
Q 041384          207 IDSQNYDTGIDLFRAMQREGVK--PTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALH  284 (580)
Q Consensus       207 ~~~~~~~~a~~~~~~m~~~~~~--p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  284 (580)
                      .+....+....+...+.+.++.  -+...|.-+..++...|.+..|..++..+......-+..+|-.+..+|...+. .+
T Consensus       388 ~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e-~e  466 (895)
T KOG2076|consen  388 VHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGE-YE  466 (895)
T ss_pred             hcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhh-HH
Confidence            4555555555666666666643  35667888999999999999999999999988777778899999999999999 99


Q ss_pred             HHHHHHhhCCCCChh---hHHHHHHHHHhCCChhHHHHHHHHHHH--------CCCCCCHHHHHHHHHHhhccCChHHHH
Q 041384          285 PARIIFERTKVKDVV---IWSSIIRGYSQSGDLSEAMKLFSRMRL--------ERIEPNSVTLLAILSSCTRQSFLSHGL  353 (580)
Q Consensus       285 ~a~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~m~~--------~~~~p~~~~~~~ll~~~~~~~~~~~a~  353 (580)
                      .|.+.++......+.   .--.|...+.+.|+.++|.+.+..+..        .+..|+..........+...|+.++-.
T Consensus       467 ~A~e~y~kvl~~~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~fi  546 (895)
T KOG2076|consen  467 EAIEFYEKVLILAPDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREEFI  546 (895)
T ss_pred             HHHHHHHHHHhcCCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHHHH
Confidence            999999887654433   344556678899999999999998642        234555555566666777788877766


Q ss_pred             HHHHHHHHhC----------------------CCCchhHHHHHHHHhHhcCCHHHHHHHHhcCC-----------CCCc-
Q 041384          354 GVHCYIMKAG----------------------LNFDVSIGNALMNMYSKCGSITSSHQIFNEMA-----------ARDF-  399 (580)
Q Consensus       354 ~~~~~~~~~~----------------------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----------~~~~-  399 (580)
                      .+...|+...                      ......+...++.+-.+.++.....+-...-.           -.|. 
T Consensus       547 ~t~~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~d~~~~~~~e~~~Lsiddwf  626 (895)
T KOG2076|consen  547 NTASTLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKATDDNVMEKALSDGTEFRAVELRGLSIDDWF  626 (895)
T ss_pred             HHHHHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHHhccCchHHhhhcccchhhhhhhhhccCcHHHHH
Confidence            5555554311                      11112222223333333333222221111110           0111 


Q ss_pred             chHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHH---HH-HHHHHHHhccCCHHHHHHHHHHHHHhhCCCCC---hh
Q 041384          400 VSWTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAI---TV-LAILSACNHAGLVKEAETLFNNVMKEKKIALA---IE  471 (580)
Q Consensus       400 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~---~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~  471 (580)
                      ..+.-++.++++.+++++|+.+...+.....-- +..   .+ ...+.++...+++..|...++.++...+...+   ..
T Consensus       627 el~~e~i~~L~k~~r~qeAl~vv~~a~~~~~f~~~~~~~k~l~~~~l~~s~~~~d~~~a~~~lR~~i~~~~~~~~~~q~~  706 (895)
T KOG2076|consen  627 ELFRELILSLAKLQRVQEALSVVFTALEAYIFFQDSEIRKELQFLGLKASLYARDPGDAFSYLRSVITQFQFYLDVYQLN  706 (895)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhhhhhHHHH
Confidence            234556777888888888888888877653211 222   22 23445566788888888888877664333222   22


Q ss_pred             HHHHHHH-----------------------------------HhhhcCChHHHHHHHHhC-CCCCCHHHHHHHHH-HH--
Q 041384          472 HYACYVD-----------------------------------LLGKSGKIEDACKVVSTM-PMKPSTRILSSLVS-AC--  512 (580)
Q Consensus       472 ~~~~l~~-----------------------------------~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~-~~--  512 (580)
                      .|+....                                   .+..++.+.-|+..+-+. ...|+.+..+.++. ++  
T Consensus       707 l~n~~~s~~~~~~q~v~~~R~~~~~~~~~~~~~~~l~~i~gh~~~~~~s~~~Al~~y~ra~~~~pd~Pl~nl~lglafih  786 (895)
T KOG2076|consen  707 LWNLDFSYFSKYGQRVCYLRLIMRLLVKNKDDTPPLALIYGHNLFVNASFKHALQEYMRAFRQNPDSPLINLCLGLAFIH  786 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhccCccCCcceeeeechhHhhccchHHHHHHHHHHHHhCCCCcHHHHHHHHHHHH
Confidence            2331111                                   122345566666655544 34465444433332 22  


Q ss_pred             --------HhcCCHHHHHHHHHHHHhcCCC--CchHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          513 --------RIHGRLEVAEMLAHQLIEAEPE--NAANYTLLSMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       513 --------~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                              .++-..-++..++++..++...  .-.++..++++|...|-..-|..++++.++-.+
T Consensus       787 ~a~qr~v~~Rh~~i~qG~afL~RY~~lR~~~~~QEa~YNigRayh~~gl~~LA~~YYekvL~~~p  851 (895)
T KOG2076|consen  787 LALQRRVSNRHAQIAQGFAFLKRYKELRRCEEKQEAFYNIGRAYHQIGLVHLAVSYYEKVLEVSP  851 (895)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhCCCc
Confidence                    1222345678888888887755  677899999999999999999999999887643

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

Probab=99.73  E-value=4.5e-14  Score=136.12  Aligned_cols=518  Identities=12%  Similarity=0.018  Sum_probs=289.4

Q ss_pred             HHHHHHHccCCCCCCCcchHHHHHHhhcccchhHHHHHHHHHHHHhCCCCChhHHHHHHHHHHcCCCchHHHHhhccCCC
Q 041384           12 HLYKQELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEMPY   91 (580)
Q Consensus        12 ~~~~~~~~~~g~~~~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~   91 (580)
                      .+| -.++..|+.|+..+|..++..|+..|+. +.|- +|..|.-...+.+...++.++....+.++.+.+.       .
T Consensus        11 nfl-a~~e~~gi~PnRvtyqsLiarYc~~gdi-eaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-------e   80 (1088)
T KOG4318|consen   11 NFL-ALHEISGILPNRVTYQSLIARYCTKGDI-EAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-------E   80 (1088)
T ss_pred             hHH-HHHHHhcCCCchhhHHHHHHHHcccCCC-cccc-chhhhhcccccccchhHHHHHhcccccccccCCC-------C
Confidence            355 6778899999999999999999999999 8888 9999988888889999999999888888887765       6


Q ss_pred             CCccchHHHHHHHHhCCChhH---HHHHHHHHH----HCCCCCCHhhHHHHHHHh--------------hccCCcHHHHH
Q 041384           92 RDTISWNSIINCFTQNGFYVR---SLEMFREMY----LCGFVLKAELLAGIISLC--------------SQIGELELGRQ  150 (580)
Q Consensus        92 ~~~~~~~~li~~~~~~~~~~~---a~~~~~~m~----~~~~~~~~~~~~~ll~~~--------------~~~~~~~~a~~  150 (580)
                      |...+|..|..+|.+.|+...   +.+.++...    ..|+.....-+-..+.++              ...|-++.+.+
T Consensus        81 p~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllk  160 (1088)
T KOG4318|consen   81 PLADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLK  160 (1088)
T ss_pred             CchhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHH
Confidence            788999999999999999755   222222221    123221122222221211              11222333333


Q ss_pred             HHHHHHHhCCCCCchHHHhHHHHHhHhc-CCHHHHHHHHhcCC-CCCeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCC
Q 041384          151 IHALVIVDGSFELSVFVSTALLDLYSKC-HHWLIALRVFEQMV-IRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVK  228 (580)
Q Consensus       151 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~  228 (580)
                      ++..+-......|...    +++-+... ..+++-..+..... .++..+|..++.+-..+|+.+.|..++.+|++.|++
T Consensus       161 ll~~~Pvsa~~~p~~v----fLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfp  236 (1088)
T KOG4318|consen  161 LLAKVPVSAWNAPFQV----FLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFP  236 (1088)
T ss_pred             HHhhCCcccccchHHH----HHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCC
Confidence            3222111110011111    12222211 22344444433343 378899999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHH
Q 041384          229 PTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGY  308 (580)
Q Consensus       229 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~  308 (580)
                      .+..-|..++-+   .++...+..++.-|.+.|+.|+..|+...+..+.+.|. .......     .+....+.+-...-
T Consensus       237 ir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~-t~~~~e~-----sq~~hg~tAavrsa  307 (1088)
T KOG4318|consen  237 IRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQ-TKYGEEG-----SQLAHGFTAAVRSA  307 (1088)
T ss_pred             cccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchh-hhhcccc-----cchhhhhhHHHHHH
Confidence            998888888766   88888999999999999999999999888877776544 2222221     12222222222222


Q ss_pred             HhCC-----Chh-----HHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCC---CCchhHHHHHH
Q 041384          309 SQSG-----DLS-----EAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGL---NFDVSIGNALM  375 (580)
Q Consensus       309 ~~~~-----~~~-----~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~l~  375 (580)
                      +-.|     +.+     -....+++..-.|+......|.... -...+|.-+...++...+.....   ..++..|..++
T Consensus       308 a~rg~~a~k~l~~nl~~~v~~s~k~~fLlg~d~~~aiws~c~-~l~hQgk~e~veqlvg~l~npt~r~s~~~V~a~~~~l  386 (1088)
T KOG4318|consen  308 ACRGLLANKRLRQNLRKSVIGSTKKLFLLGTDILEAIWSMCE-KLRHQGKGEEVEQLVGQLLNPTLRDSGQNVDAFGALL  386 (1088)
T ss_pred             HhcccHhHHHHHHHHHHHHHHHhhHHHHhccccchHHHHHHH-HHHHcCCCchHHHHHhhhcCCccccCcchHHHHHHHH
Confidence            2223     111     1111222222223333332332222 22235665666665555543111   11233333333


Q ss_pred             HHhHhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHh---cC------------ChHHHHHHHHHHHHcC----CCC----
Q 041384          376 NMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGF---HG------------YGEEALQLFLEMQESG----VEP----  432 (580)
Q Consensus       376 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~---~~------------~~~~a~~~~~~~~~~g----~~p----  432 (580)
                      .-|.            .++..+..........+...   ..            +...+.+-+..+....    ..|    
T Consensus       387 rqyF------------rr~e~~~~~~i~~~~qgls~~l~se~tp~vsell~~lrkns~lr~lv~Lss~Eler~he~~~~~  454 (1088)
T KOG4318|consen  387 RQYF------------RRIERHICSRIYYAGQGLSLNLNSEDTPRVSELLENLRKNSFLRQLVGLSSTELERSHEPWPLI  454 (1088)
T ss_pred             HHHH------------HHHHhhHHHHHHHHHHHHHhhhchhhhHHHHHHHHHhCcchHHHHHhhhhHHHHhcccccchhh
Confidence            3333            22222111100001111111   00            1111111111111000    011    


Q ss_pred             ---CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC-----CCCCHHH
Q 041384          433 ---DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP-----MKPSTRI  504 (580)
Q Consensus       433 ---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~p~~~~  504 (580)
                         -...-+.++..|++.-+..+++..-+. .+..-+.   ..|..|++.++.....+.|..+.++..     ...|...
T Consensus       455 ~h~irdi~~ql~l~l~se~n~lK~l~~~ek-ye~~lf~---g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~  530 (1088)
T KOG4318|consen  455 AHLIRDIANQLHLTLNSEYNKLKILCDEEK-YEDLLFA---GLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPL  530 (1088)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHhh---hHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHh
Confidence               011223344445554444455443333 3222222   457777777777777788877777773     2234455


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcC---CCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCCcc
Q 041384          505 LSSLVSACRIHGRLEVAEMLAHQLIEAE---PENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGLSK  569 (580)
Q Consensus       505 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  569 (580)
                      +..+.+.+.+.+....+..+++++.+.-   |.....+..+.+.....|+.+.-.++.+-+...|+.-
T Consensus       531 m~~l~dLL~r~~~l~dl~tiL~e~ks~a~n~~~~a~~~f~~lns~a~agqqe~Lkkl~d~lvslgl~e  598 (1088)
T KOG4318|consen  531 MTSLQDLLQRLAILYDLSTILYEDKSSAENEPLVAIILFPLLNSGAPAGQQEKLKKLADILVSLGLSE  598 (1088)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHhhhhHHhhCCchHHHHHHHHHhhhhhccCHHHHHHHHHHHHHhhhhh
Confidence            6666777777777777777777776532   3334556666666777777777777777777666654

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

Probab=99.71  E-value=6.7e-11  Score=110.97  Aligned_cols=435  Identities=14%  Similarity=0.074  Sum_probs=329.6

Q ss_pred             HHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcC--
Q 041384          114 LEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQM--  191 (580)
Q Consensus       114 ~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~--  191 (580)
                      .+++++..+. ++-++..|-    +.....+.+.|+-++.++++-  .+.+...|.+    |.+..-++.|.++++..  
T Consensus       366 ~RVlRKALe~-iP~sv~LWK----aAVelE~~~darilL~rAvec--cp~s~dLwlA----larLetYenAkkvLNkaRe  434 (913)
T KOG0495|consen  366 KRVLRKALEH-IPRSVRLWK----AAVELEEPEDARILLERAVEC--CPQSMDLWLA----LARLETYENAKKVLNKARE  434 (913)
T ss_pred             HHHHHHHHHh-CCchHHHHH----HHHhccChHHHHHHHHHHHHh--ccchHHHHHH----HHHHHHHHHHHHHHHHHHh
Confidence            3455555553 332333443    334455666788888888776  3555555554    44556677777777665  


Q ss_pred             -CCCCeehHHHHHHHHHhcCChhHHHHHHHH----HHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCCc-
Q 041384          192 -VIRNEVSWTAMISGCIDSQNYDTGIDLFRA----MQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFD-  265 (580)
Q Consensus       192 -~~~~~~~~~~li~~~~~~~~~~~a~~~~~~----m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-  265 (580)
                       ...+...|.+-...--.+|+.+....++++    +..+|+..+...|..=...|-..|..-.+..+....+..|+... 
T Consensus       435 ~iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed  514 (913)
T KOG0495|consen  435 IIPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEED  514 (913)
T ss_pred             hCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccch
Confidence             444777787777767778888888887765    45568888998888888888888999999999999888887643 


Q ss_pred             -hhHHHHHHHHHHHcCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHH-HHHHHH
Q 041384          266 -HHLSAALMHMYCECTEALHPARIIFERTKV---KDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSV-TLLAIL  340 (580)
Q Consensus       266 -~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~ll  340 (580)
                       ..++..-.+.+.+.+. ++.++.+|.....   .+...|......--..|..+....+|++....  .|... .+....
T Consensus       515 ~~~tw~~da~~~~k~~~-~~carAVya~alqvfp~k~slWlra~~~ek~hgt~Esl~Allqkav~~--~pkae~lwlM~a  591 (913)
T KOG0495|consen  515 RKSTWLDDAQSCEKRPA-IECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQ--CPKAEILWLMYA  591 (913)
T ss_pred             hHhHHhhhHHHHHhcch-HHHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCcchhHHHHHH
Confidence             3566666677777777 8888888876653   35567777777667788899999999998876  44443 444445


Q ss_pred             HHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCC--CCcchHHHHHHHHHhcCChHHH
Q 041384          341 SSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAA--RDFVSWTTLISGYGFHGYGEEA  418 (580)
Q Consensus       341 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a  418 (580)
                      ...-..|++..|..++....+... .+..++-+.+.......+++.|..+|.+...  +....|.--+....-.++.++|
T Consensus       592 ke~w~agdv~~ar~il~~af~~~p-nseeiwlaavKle~en~e~eraR~llakar~~sgTeRv~mKs~~~er~ld~~eeA  670 (913)
T KOG0495|consen  592 KEKWKAGDVPAARVILDQAFEANP-NSEEIWLAAVKLEFENDELERARDLLAKARSISGTERVWMKSANLERYLDNVEEA  670 (913)
T ss_pred             HHHHhcCCcHHHHHHHHHHHHhCC-CcHHHHHHHHHHhhccccHHHHHHHHHHHhccCCcchhhHHHhHHHHHhhhHHHH
Confidence            566678999999999999988763 3888899999999999999999999998776  5667777777777778899999


Q ss_pred             HHHHHHHHHcCCCCCH-HHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC
Q 041384          419 LQLFLEMQESGVEPDA-ITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP  497 (580)
Q Consensus       419 ~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  497 (580)
                      ++++++..+.  .|+- ..|..+...+.+.++.+.|...|..-++  ..+..+..|-.|.+.-.+.|.+-.|..++++..
T Consensus       671 ~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k--~cP~~ipLWllLakleEk~~~~~rAR~ildrar  746 (913)
T KOG0495|consen  671 LRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTK--KCPNSIPLWLLLAKLEEKDGQLVRARSILDRAR  746 (913)
T ss_pred             HHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccc--cCCCCchHHHHHHHHHHHhcchhhHHHHHHHHH
Confidence            9999998885  6766 5677788889999999999999987443  455556678888888889999999999999884


Q ss_pred             --CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC------------------------------CchHHHHHHHH
Q 041384          498 --MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPE------------------------------NAANYTLLSMV  545 (580)
Q Consensus       498 --~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~------------------------------~~~~~~~l~~~  545 (580)
                        .+.+...|...++.-.+.|+.+.|..++.++++.-|.                              |+.+...++..
T Consensus       747 lkNPk~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVllaia~l  826 (913)
T KOG0495|consen  747 LKNPKNALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLLAIAKL  826 (913)
T ss_pred             hcCCCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhccCCchhHHHHHHH
Confidence              4458889999999999999999999988887765444                              34455667777


Q ss_pred             HHhcCChHHHHHHHHHHHhCCC
Q 041384          546 CSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       546 ~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      +....++++|++.|.+..+.+.
T Consensus       827 fw~e~k~~kar~Wf~Ravk~d~  848 (913)
T KOG0495|consen  827 FWSEKKIEKAREWFERAVKKDP  848 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHccCC
Confidence            7788888888888888877653

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

Probab=99.68  E-value=1.3e-12  Score=118.05  Aligned_cols=408  Identities=13%  Similarity=0.048  Sum_probs=256.5

Q ss_pred             hHHHHHHHHhCCChhHHHHHHHHHHHCCCCCC-HhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHh
Q 041384           97 WNSIINCFTQNGFYVRSLEMFREMYLCGFVLK-AELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLY  175 (580)
Q Consensus        97 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  175 (580)
                      +-...+-|.++|.+++|+..|.+.++.  .|+ +.-|.....+|...|+|+.+.+.-...++.+  |.-+..+..-..++
T Consensus       118 lK~~GN~~f~~kkY~eAIkyY~~AI~l--~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl~--P~Y~KAl~RRA~A~  193 (606)
T KOG0547|consen  118 LKTKGNKFFRNKKYDEAIKYYTQAIEL--CPDEPIFYSNRAACYESLGDWEKVIEDCTKALELN--PDYVKALLRRASAH  193 (606)
T ss_pred             HHhhhhhhhhcccHHHHHHHHHHHHhc--CCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcC--cHHHHHHHHHHHHH
Confidence            344456677889999999999998874  567 7778888888889999999888888877754  33455677777777


Q ss_pred             HhcCCHHHHHHHHhcCCCCCeehHHHHHHHHHhcCChhHHHHHHHHH--------HH-c--CCCCCHHHHHHHHHHHhcC
Q 041384          176 SKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAM--------QR-E--GVKPTRVTLTIVLLACAEL  244 (580)
Q Consensus       176 ~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m--------~~-~--~~~p~~~~~~~ll~~~~~~  244 (580)
                      -..|++++|+.=+         +-..+...+....-.--+.+++++.        .+ +  .+.|+.....+....+...
T Consensus       194 E~lg~~~eal~D~---------tv~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~  264 (606)
T KOG0547|consen  194 EQLGKFDEALFDV---------TVLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHAD  264 (606)
T ss_pred             HhhccHHHHHHhh---------hHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhcccc
Confidence            7888887776422         1122222222222222222222211        11 1  1234333333322222110


Q ss_pred             CCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHHHh-CCChhHHHHHHHH
Q 041384          245 RDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQ-SGDLSEAMKLFSR  323 (580)
Q Consensus       245 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~  323 (580)
                      -.            .....+.......+..++..                            .+.. ...+..|...+.+
T Consensus       265 ~~------------~~~~~~~~ksDa~l~~~l~~----------------------------l~~~~~e~Y~~a~~~~te  304 (606)
T KOG0547|consen  265 PK------------PLFDNKSDKSDAALAEALEA----------------------------LEKGLEEGYLKAYDKATE  304 (606)
T ss_pred             cc------------ccccCCCccchhhHHHHHHH----------------------------HHhhCchhHHHHHHHHHH
Confidence            00            00000000001111111000                            0000 0122233322222


Q ss_pred             HHHCC-CCC-----CH------HHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHH
Q 041384          324 MRLER-IEP-----NS------VTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIF  391 (580)
Q Consensus       324 m~~~~-~~p-----~~------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  391 (580)
                      -.... ..+     |.      .+......-+.-.|+.-.+..-|+..++....++. .|--+..+|....+.++....|
T Consensus       305 ~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~~a~~d~~~~I~l~~~~~~-lyI~~a~~y~d~~~~~~~~~~F  383 (606)
T KOG0547|consen  305 ECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSLGAQEDFDAAIKLDPAFNS-LYIKRAAAYADENQSEKMWKDF  383 (606)
T ss_pred             HhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCchhhhhhHHHHHhcCcccch-HHHHHHHHHhhhhccHHHHHHH
Confidence            11100 011     11      11111111223457777788888887776543332 2556667788888888888888


Q ss_pred             hcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCC
Q 041384          392 NEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIA  467 (580)
Q Consensus       392 ~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  467 (580)
                      ++..+   .|+.+|..-...+.-.+++++|..=|++.++.  .| +...|..+..+..+.++++++...|++..+  .++
T Consensus       384 ~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L--~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kk--kFP  459 (606)
T KOG0547|consen  384 NKAEDLDPENPDVYYHRGQMRFLLQQYEEAIADFQKAISL--DPENAYAYIQLCCALYRQHKIAESMKTFEEAKK--KFP  459 (606)
T ss_pred             HHHHhcCCCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhc--ChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hCC
Confidence            87765   46678888888888888999999999999884  66 557788888888889999999999999654  677


Q ss_pred             CChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCCC---------HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCch
Q 041384          468 LAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKPS---------TRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAA  537 (580)
Q Consensus       468 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~---------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~  537 (580)
                      ..+..|+.....+..++++++|.+.|+.. ...|+         +.+...++ .+...+++..|+.+++++.+++|....
T Consensus       460 ~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l-~~qwk~d~~~a~~Ll~KA~e~Dpkce~  538 (606)
T KOG0547|consen  460 NCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALL-VLQWKEDINQAENLLRKAIELDPKCEQ  538 (606)
T ss_pred             CCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHh-hhchhhhHHHHHHHHHHHHccCchHHH
Confidence            77888999999999999999999999887 34443         12222222 233458999999999999999999999


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHH
Q 041384          538 NYTLLSMVCSESGNWLGAEEVWRVMR  563 (580)
Q Consensus       538 ~~~~l~~~~~~~g~~~~A~~~~~~~~  563 (580)
                      +|..|+..-.+.|+.++|+++|++..
T Consensus       539 A~~tlaq~~lQ~~~i~eAielFEksa  564 (606)
T KOG0547|consen  539 AYETLAQFELQRGKIDEAIELFEKSA  564 (606)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            99999999999999999999998754

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

Probab=99.67  E-value=4.1e-16  Score=142.78  Aligned_cols=257  Identities=13%  Similarity=0.087  Sum_probs=113.6

Q ss_pred             HHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHH-HHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcC
Q 041384          304 IIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLA-ILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCG  382 (580)
Q Consensus       304 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~-ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  382 (580)
                      +...+.+.|++++|++++++......+|+...|.. +...+...++.+.|.+.++.+...+.. ++..+..++.. ...+
T Consensus        14 ~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~~   91 (280)
T PF13429_consen   14 LARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQDG   91 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-cccc
Confidence            46677889999999999976554442455544444 445666789999999999999886533 56667777777 7889


Q ss_pred             CHHHHHHHHhcCCC--CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHhccCCHHHHHHHHHH
Q 041384          383 SITSSHQIFNEMAA--RDFVSWTTLISGYGFHGYGEEALQLFLEMQESG-VEPDAITVLAILSACNHAGLVKEAETLFNN  459 (580)
Q Consensus       383 ~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  459 (580)
                      ++++|.+++...-+  ++...+..++..+...++++++.++++.+.... .+++...|..+...+.+.|+.++|++.+++
T Consensus        92 ~~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~  171 (280)
T PF13429_consen   92 DPEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRK  171 (280)
T ss_dssp             --------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             cccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            99999999887644  466777888889999999999999999987643 234667788888899999999999999999


Q ss_pred             HHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCch
Q 041384          460 VMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP--MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAA  537 (580)
Q Consensus       460 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~  537 (580)
                      +++.  .+.+......++..+...|+.+++.+++....  .+.|+..+..+..++...|+.++|+..++++...+|.|+.
T Consensus       172 al~~--~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d~~  249 (280)
T PF13429_consen  172 ALEL--DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDDPL  249 (280)
T ss_dssp             HHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-HH
T ss_pred             HHHc--CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhccccccccccccccccccccccccc
Confidence            8762  22346778889999999999999888887773  2456678899999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHh
Q 041384          538 NYTLLSMVCSESGNWLGAEEVWRVMRA  564 (580)
Q Consensus       538 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (580)
                      ....+++++...|+.++|.++.+++.+
T Consensus       250 ~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  250 WLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HHHHHHHHHT-----------------
T ss_pred             ccccccccccccccccccccccccccc
Confidence            999999999999999999999887643

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

Probab=99.66  E-value=9.6e-14  Score=123.97  Aligned_cols=428  Identities=12%  Similarity=0.093  Sum_probs=287.2

Q ss_pred             hHHHHH---HHhhccCCcHHHHHHHHHHHHhCCCCCchH-HHhHHHHHhHhcCCHHHHHHHHhcCCC----CC----eeh
Q 041384          131 LLAGII---SLCSQIGELELGRQIHALVIVDGSFELSVF-VSTALLDLYSKCHHWLIALRVFEQMVI----RN----EVS  198 (580)
Q Consensus       131 ~~~~ll---~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~----~~~  198 (580)
                      ||+.|.   .-|....-..+|...++-+++.. .-|+.. .-..+.+.+.+...+.+|+++++....    -+    +..
T Consensus       200 tfsvl~nlaqqy~~ndm~~ealntyeiivknk-mf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~riki  278 (840)
T KOG2003|consen  200 TFSVLFNLAQQYEANDMTAEALNTYEIIVKNK-MFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKI  278 (840)
T ss_pred             hHHHHHHHHHHhhhhHHHHHHhhhhhhhhccc-ccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHH
Confidence            444444   34444555677888888888777 455544 334567788888999999998876522    12    223


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhH--------HH
Q 041384          199 WTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHL--------SA  270 (580)
Q Consensus       199 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--------~~  270 (580)
                      .+.+.-.+.+.|.+++|+..|+...+.  .|+..+-..++-++...|+.++..+.|.+|......+|..-        -.
T Consensus       279 l~nigvtfiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~  356 (840)
T KOG2003|consen  279 LNNIGVTFIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDD  356 (840)
T ss_pred             HhhcCeeEEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcch
Confidence            444445677889999999999988775  68877777777777778999999999999886543332211        11


Q ss_pred             HHHHHHHH---------cCC-----CHHHHHHHHhhCCCCChh---hH----------HH--------HHHHHHhCCChh
Q 041384          271 ALMHMYCE---------CTE-----ALHPARIIFERTKVKDVV---IW----------SS--------IIRGYSQSGDLS  315 (580)
Q Consensus       271 ~l~~~~~~---------~~~-----~~~~a~~~~~~~~~~~~~---~~----------~~--------l~~~~~~~~~~~  315 (580)
                      .|+.--.+         ..+     ++-.+.++......|+-.   -|          .-        -..-|.++|+++
T Consensus       357 ~ll~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~  436 (840)
T KOG2003|consen  357 NLLNEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIE  436 (840)
T ss_pred             HHHHHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHH
Confidence            12221111         111     011112222222222211   01          00        123478899999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHH--HHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhc
Q 041384          316 EAMKLFSRMRLERIEPNSVTLL--AILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNE  393 (580)
Q Consensus       316 ~a~~~~~~m~~~~~~p~~~~~~--~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  393 (580)
                      .|.++++-..++.-+.-+..-+  +.+..+.-..++..|.++-+...... ..++.....-.+.....|++++|...+.+
T Consensus       437 ~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~dka~~~yke  515 (840)
T KOG2003|consen  437 GAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGDLDKAAEFYKE  515 (840)
T ss_pred             HHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcHHHHHHHHHH
Confidence            9999999887664333332222  23333333456777777766655432 22222222222334457999999999999


Q ss_pred             CCCCCcchHHHHH---HHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCCh
Q 041384          394 MAARDFVSWTTLI---SGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAI  470 (580)
Q Consensus       394 ~~~~~~~~~~~l~---~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  470 (580)
                      ....|...-..|.   -.+-..|+.++|++.|-++..- +..+......+.+.|....+...|++++.++.  .-++.|+
T Consensus       516 al~ndasc~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~--slip~dp  592 (840)
T KOG2003|consen  516 ALNNDASCTEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQAN--SLIPNDP  592 (840)
T ss_pred             HHcCchHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhc--ccCCCCH
Confidence            9988776544443   3466789999999999887664 34567788888899999999999999988742  4566678


Q ss_pred             hHHHHHHHHhhhcCChHHHHHHHHh-CC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHh
Q 041384          471 EHYACYVDLLGKSGKIEDACKVVST-MP-MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSE  548 (580)
Q Consensus       471 ~~~~~l~~~~~~~g~~~~A~~~~~~-~~-~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~  548 (580)
                      .++..|.+.|-+.|+-..|.+..-+ .. ++-+..+..-|..-|....-++.++..|+++.-..|.-...-..++.++-+
T Consensus       593 ~ilskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlmiasc~rr  672 (840)
T KOG2003|consen  593 AILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLMIASCFRR  672 (840)
T ss_pred             HHHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHh
Confidence            8999999999999999999886544 34 455778887788888888888999999999988888777755566667778


Q ss_pred             cCChHHHHHHHHHHHhC
Q 041384          549 SGNWLGAEEVWRVMRAK  565 (580)
Q Consensus       549 ~g~~~~A~~~~~~~~~~  565 (580)
                      .|+|.+|..+++...++
T Consensus       673 sgnyqka~d~yk~~hrk  689 (840)
T KOG2003|consen  673 SGNYQKAFDLYKDIHRK  689 (840)
T ss_pred             cccHHHHHHHHHHHHHh
Confidence            99999999999988764

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

Probab=99.61  E-value=1.3e-10  Score=104.93  Aligned_cols=462  Identities=11%  Similarity=0.071  Sum_probs=327.5

Q ss_pred             CCChhHHHHHHHHHHcCCCchHHHHhhccCC---CCCccchHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHH
Q 041384           60 DADPVISNSLISMYAKFSKPESAYQLFDEMP---YRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGII  136 (580)
Q Consensus        60 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll  136 (580)
                      ..+...|-.....-...+++..|..+|+...   ..+...|-.-+..=.++..+..|..++++....=...|. .|---+
T Consensus        70 R~~~~~WikYaqwEesq~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdq-lWyKY~  148 (677)
T KOG1915|consen   70 RLNMQVWIKYAQWEESQKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQ-LWYKYI  148 (677)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHH-HHHHHH
Confidence            3556667666666677788999999998876   456667777777888888899999999988774222222 233333


Q ss_pred             HHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcC--CCCCeehHHHHHHHHHhcCChhH
Q 041384          137 SLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQM--VIRNEVSWTAMISGCIDSQNYDT  214 (580)
Q Consensus       137 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~  214 (580)
                      ..--..|+...|+++|+.-..   ..|+...|.+.++.=.+-+.++.|..++++.  ..|++.+|--....-.+.|....
T Consensus       149 ymEE~LgNi~gaRqiferW~~---w~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~  225 (677)
T KOG1915|consen  149 YMEEMLGNIAGARQIFERWME---WEPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVAL  225 (677)
T ss_pred             HHHHHhcccHHHHHHHHHHHc---CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHH
Confidence            344566889999999988766   5789999999999989999999999999886  66888888888888888899888


Q ss_pred             HHHHHHHHHHc-CC-CCCHHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCCc-hhHHHHHHHHHHHcCCCHHHHHHH--
Q 041384          215 GIDLFRAMQRE-GV-KPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFD-HHLSAALMHMYCECTEALHPARII--  289 (580)
Q Consensus       215 a~~~~~~m~~~-~~-~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~a~~~--  289 (580)
                      |..+|....+. |- .-+...+.+....-.+...++.|.-+++-.++.=+... ...|..+...=-+.|+ ....+..  
T Consensus       226 aR~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd-~~gIEd~Iv  304 (677)
T KOG1915|consen  226 ARSVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGD-KEGIEDAIV  304 (677)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcc-hhhhHHHHh
Confidence            88888887664 10 11222333333333456678888888888877643322 3444444444444555 3333322  


Q ss_pred             ------HhhCCCC---ChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHH-------HHHHHHHHh---hccCChH
Q 041384          290 ------FERTKVK---DVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSV-------TLLAILSSC---TRQSFLS  350 (580)
Q Consensus       290 ------~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-------~~~~ll~~~---~~~~~~~  350 (580)
                            ++.....   |-.+|-..++.-...|+.+...++|++.... ++|-..       .|..+=-+|   ....+++
T Consensus       305 ~KRk~qYE~~v~~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~e  383 (677)
T KOG1915|consen  305 GKRKFQYEKEVSKNPYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVE  383 (677)
T ss_pred             hhhhhHHHHHHHhCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHH
Confidence                  1222222   4456666777777889999999999998865 344321       222222222   3478899


Q ss_pred             HHHHHHHHHHHhCCCCchhHHHHHHHHh----HhcCCHHHHHHHHhcCCC--CCcchHHHHHHHHHhcCChHHHHHHHHH
Q 041384          351 HGLGVHCYIMKAGLNFDVSIGNALMNMY----SKCGSITSSHQIFNEMAA--RDFVSWTTLISGYGFHGYGEEALQLFLE  424 (580)
Q Consensus       351 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~g~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~  424 (580)
                      .+.++++...+ -++....+|.-+--+|    .++.++..|.+++.....  |...+|...|..-.+.++++.+..++++
T Consensus       384 rtr~vyq~~l~-lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEk  462 (677)
T KOG1915|consen  384 RTRQVYQACLD-LIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEK  462 (677)
T ss_pred             HHHHHHHHHHh-hcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            99999999888 3444555555443333    467899999999998775  6667888888888999999999999999


Q ss_pred             HHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCCCH
Q 041384          425 MQESGVEP-DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKPST  502 (580)
Q Consensus       425 ~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~  502 (580)
                      ..+-  .| |..++.-....=...|+.+.|..+|+-++...........|...|+--...|.++.|..+++++ ...+..
T Consensus       463 fle~--~Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt~h~  540 (677)
T KOG1915|consen  463 FLEF--SPENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRTQHV  540 (677)
T ss_pred             HHhc--ChHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhcccc
Confidence            9985  55 6688888777777899999999999988775555555667788888888999999999999988 345566


Q ss_pred             HHHHHHHHHHH-----hcC-----------CHHHHHHHHHHHHh
Q 041384          503 RILSSLVSACR-----IHG-----------RLEVAEMLAHQLIE  530 (580)
Q Consensus       503 ~~~~~l~~~~~-----~~~-----------~~~~A~~~~~~~~~  530 (580)
                      .+|-++..--.     ..+           ....|..+|+++..
T Consensus       541 kvWisFA~fe~s~~~~~~~~~~~~~e~~~~~~~~AR~iferAn~  584 (677)
T KOG1915|consen  541 KVWISFAKFEASASEGQEDEDLAELEITDENIKRARKIFERANT  584 (677)
T ss_pred             hHHHhHHHHhccccccccccchhhhhcchhHHHHHHHHHHHHHH
Confidence            67766665443     233           56678888888764

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

Probab=99.61  E-value=2.1e-11  Score=109.74  Aligned_cols=327  Identities=11%  Similarity=-0.001  Sum_probs=231.0

Q ss_pred             CCHHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCCChhhH-HHHHHH
Q 041384          229 PTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIW-SSIIRG  307 (580)
Q Consensus       229 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~l~~~  307 (580)
                      -|...+-.....+.+.|..+.|...+...+..-    +..|.+.+....-..+ .+.+..+....+..+...- -.+..+
T Consensus       162 ~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~~----P~~W~AWleL~~lit~-~e~~~~l~~~l~~~~h~M~~~F~~~a  236 (559)
T KOG1155|consen  162 KDEFLLYLYGVVLKELGLLSLAIDSFVEVVNRY----PWFWSAWLELSELITD-IEILSILVVGLPSDMHWMKKFFLKKA  236 (559)
T ss_pred             chhHHHHHHHHHHHhhchHHHHHHHHHHHHhcC----CcchHHHHHHHHhhch-HHHHHHHHhcCcccchHHHHHHHHHH
Confidence            343333333334555666777776666554321    2222222222222222 3333333333322111111 123356


Q ss_pred             HHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCC--CchhHHHHHHHHhHhcCCHH
Q 041384          308 YSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLN--FDVSIGNALMNMYSKCGSIT  385 (580)
Q Consensus       308 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~  385 (580)
                      +....+.+++..-.......|++-+...-+....+.....++++|+.+|+++.+...-  -|..+|..++-.--...++.
T Consensus       237 ~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs  316 (559)
T KOG1155|consen  237 YQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLS  316 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHH
Confidence            6666678888888888888887777766666677778899999999999999986321  25666666553322222222


Q ss_pred             HHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCCHHHHHHHHHHHHHhh
Q 041384          386 SSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDA-ITVLAILSACNHAGLVKEAETLFNNVMKEK  464 (580)
Q Consensus       386 ~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  464 (580)
                      --....-.+.+--+.|..++.+-|.-.++.++|...|++..+.  .|.. ..++.+..-|....+...|..-++.+++  
T Consensus       317 ~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkL--Np~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvd--  392 (559)
T KOG1155|consen  317 YLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKL--NPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVD--  392 (559)
T ss_pred             HHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhc--CcchhHHHHHhhHHHHHhcccHHHHHHHHHHHh--
Confidence            1112222233335567777888888899999999999999985  5654 6777888889999999999999999775  


Q ss_pred             CCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHH
Q 041384          465 KIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLL  542 (580)
Q Consensus       465 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l  542 (580)
                      -.+.|-..|-.|.++|.-.+...=|+-+|++. ..+| |+..|.+|...|.+.++.++|+..|+++...+..+..++..|
T Consensus       393 i~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~L  472 (559)
T KOG1155|consen  393 INPRDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRL  472 (559)
T ss_pred             cCchhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHH
Confidence            34456778999999999999999999999998 4555 889999999999999999999999999999998899999999


Q ss_pred             HHHHHhcCChHHHHHHHHHHHh
Q 041384          543 SMVCSESGNWLGAEEVWRVMRA  564 (580)
Q Consensus       543 ~~~~~~~g~~~~A~~~~~~~~~  564 (580)
                      ++.|-+.++.++|.+.+++.++
T Consensus       473 akLye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  473 AKLYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             HHHHHHHHhHHHHHHHHHHHHH
Confidence            9999999999999999988766

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

Probab=99.59  E-value=1.1e-09  Score=102.81  Aligned_cols=519  Identities=12%  Similarity=0.083  Sum_probs=316.5

Q ss_pred             hHHHHHHhhcccchhHHHHHHHHHHHHh-CCCCChhHHHHHHHHHHcCCCchHHHHhhccCCCCCccchHHHHHHHHhCC
Q 041384           30 LPSVIKACAYAQTHQHFGLQLHCTALKS-GSDADPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNG  108 (580)
Q Consensus        30 ~~~ll~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~  108 (580)
                      +...++....++++ ......|+..+.. .++--..+|...+......|-++.+.++++...+-++..-+--|..+++.+
T Consensus       105 wl~Ylq~l~~Q~~i-T~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~~P~~~eeyie~L~~~d  183 (835)
T KOG2047|consen  105 WLDYLQFLIKQGLI-TRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKVAPEAREEYIEYLAKSD  183 (835)
T ss_pred             HHHHHHHHHhcchH-HHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcc
Confidence            44444444566666 6667777776654 233344577778887888888888888888877666667788888888899


Q ss_pred             ChhHHHHHHHHHHHCC------CCCCHhhHHHHHHHhhccCCcHHH---HHHHHHHHHhCCCCCch--HHHhHHHHHhHh
Q 041384          109 FYVRSLEMFREMYLCG------FVLKAELLAGIISLCSQIGELELG---RQIHALVIVDGSFELSV--FVSTALLDLYSK  177 (580)
Q Consensus       109 ~~~~a~~~~~~m~~~~------~~~~~~~~~~ll~~~~~~~~~~~a---~~~~~~~~~~~~~~~~~--~~~~~l~~~~~~  177 (580)
                      ++++|.+.+.......      -+.+...|.-+....++..+.-..   ..++..+..   .-+|.  ..|++|.+-|.+
T Consensus       184 ~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~---rftDq~g~Lw~SLAdYYIr  260 (835)
T KOG2047|consen  184 RLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIR---RFTDQLGFLWCSLADYYIR  260 (835)
T ss_pred             chHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcc---cCcHHHHHHHHHHHHHHHH
Confidence            9998888887775431      233445566666665555443322   233333322   22343  478999999999


Q ss_pred             cCCHHHHHHHHhcCCCC--CeehHHHHHHHHHh----------------cCC------hhHHHHHHHHHHHcCC-C----
Q 041384          178 CHHWLIALRVFEQMVIR--NEVSWTAMISGCID----------------SQN------YDTGIDLFRAMQREGV-K----  228 (580)
Q Consensus       178 ~~~~~~a~~~~~~~~~~--~~~~~~~li~~~~~----------------~~~------~~~a~~~~~~m~~~~~-~----  228 (580)
                      .|+++.|..+|++....  ++.-|..+.++|+.                .++      ++-.+.-|+.+...+. -    
T Consensus       261 ~g~~ekarDvyeeai~~v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsV  340 (835)
T KOG2047|consen  261 SGLFEKARDVYEEAIQTVMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNSV  340 (835)
T ss_pred             hhhhHHHHHHHHHHHHhheehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHH
Confidence            99999999999887543  22233333333332                111      1222333444333210 0    


Q ss_pred             ------CCHHHHHHHHHHHhcCCCchhHHHHHHHHHHhc-C----CCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCCC
Q 041384          229 ------PTRVTLTIVLLACAELRDLRNGKAIHGYAYCCG-F----DFDHHLSAALMHMYCECTEALHPARIIFERTKVKD  297 (580)
Q Consensus       229 ------p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~----~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~  297 (580)
                            -+..++..-+  -...|+..+....+.++++.- +    ..-...+..+...|-+.|+ ++.|+.+|++..+-+
T Consensus       341 lLRQn~~nV~eW~kRV--~l~e~~~~~~i~tyteAv~~vdP~ka~Gs~~~Lw~~faklYe~~~~-l~~aRvifeka~~V~  417 (835)
T KOG2047|consen  341 LLRQNPHNVEEWHKRV--KLYEGNAAEQINTYTEAVKTVDPKKAVGSPGTLWVEFAKLYENNGD-LDDARVIFEKATKVP  417 (835)
T ss_pred             HHhcCCccHHHHHhhh--hhhcCChHHHHHHHHHHHHccCcccCCCChhhHHHHHHHHHHhcCc-HHHHHHHHHHhhcCC
Confidence                  0111121111  122455566666666666531 1    1123456778888888999 999999999887644


Q ss_pred             hh-------hHHHHHHHHHhCCChhHHHHHHHHHHHCCCC----------C-------CHHHHHHHHHHhhccCChHHHH
Q 041384          298 VV-------IWSSIIRGYSQSGDLSEAMKLFSRMRLERIE----------P-------NSVTLLAILSSCTRQSFLSHGL  353 (580)
Q Consensus       298 ~~-------~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~----------p-------~~~~~~~ll~~~~~~~~~~~a~  353 (580)
                      -.       +|..-...-.+..+++.|+.+++......-.          |       +...|+..++.-...|-++...
T Consensus       418 y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk  497 (835)
T KOG2047|consen  418 YKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTK  497 (835)
T ss_pred             ccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHH
Confidence            33       3444444455677888898888776432111          1       1223444455555678888889


Q ss_pred             HHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCC----CCc-chHHHHHHHHHh---cCChHHHHHHHHHH
Q 041384          354 GVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAA----RDF-VSWTTLISGYGF---HGYGEEALQLFLEM  425 (580)
Q Consensus       354 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~-~~~~~l~~~~~~---~~~~~~a~~~~~~~  425 (580)
                      .+++.+.+..+.....+.| ....+-...-++++.+++++-..    |++ ..|+..+.-+.+   ....+.|..+|++.
T Consensus       498 ~vYdriidLriaTPqii~N-yAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqa  576 (835)
T KOG2047|consen  498 AVYDRIIDLRIATPQIIIN-YAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQA  576 (835)
T ss_pred             HHHHHHHHHhcCCHHHHHH-HHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHH
Confidence            9999999866543332222 23334556678999999997655    444 356666555543   23789999999999


Q ss_pred             HHcCCCCCHHHHHHHHH--HHhccCCHHHHHHHHHHHHHhhCCCCC--hhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC
Q 041384          426 QESGVEPDAITVLAILS--ACNHAGLVKEAETLFNNVMKEKKIALA--IEHYACYVDLLGKSGKIEDACKVVSTM-PMKP  500 (580)
Q Consensus       426 ~~~g~~p~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p  500 (580)
                      .+ |.+|...-+..|+-  .=.+.|-...|.++++++..  ++++.  ...|+.+|.--+..=-+..-..+|++. ..-|
T Consensus       577 L~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~--~v~~a~~l~myni~I~kaae~yGv~~TR~iYekaIe~Lp  653 (835)
T KOG2047|consen  577 LD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATS--AVKEAQRLDMYNIYIKKAAEIYGVPRTREIYEKAIESLP  653 (835)
T ss_pred             Hh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCHHHHHHHHHHHHHHHHHHhCCcccHHHHHHHHHhCC
Confidence            99 67775533332322  22346888999999998543  45444  556777776444332233334444444 2235


Q ss_pred             CHHHHHHH---HHHHHhcCCHHHHHHHHHHHHhcCCC--CchHHHHHHHHHHhcCChHHHHHHH
Q 041384          501 STRILSSL---VSACRIHGRLEVAEMLAHQLIEAEPE--NAANYTLLSMVCSESGNWLGAEEVW  559 (580)
Q Consensus       501 ~~~~~~~l---~~~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~  559 (580)
                      +...-...   ...-++.|..++|..++....+.-+|  +...|...-..-.+.|+-+--.+.+
T Consensus       654 ~~~~r~mclrFAdlEtklGEidRARaIya~~sq~~dPr~~~~fW~twk~FEvrHGnedT~keML  717 (835)
T KOG2047|consen  654 DSKAREMCLRFADLETKLGEIDRARAIYAHGSQICDPRVTTEFWDTWKEFEVRHGNEDTYKEML  717 (835)
T ss_pred             hHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhcCCCcCChHHHHHHHHHHHhcCCHHHHHHHH
Confidence            54443333   33346889999999999988887644  7777888888888999955555444

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

Probab=99.58  E-value=6.7e-12  Score=107.57  Aligned_cols=311  Identities=14%  Similarity=0.127  Sum_probs=212.4

Q ss_pred             cCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHH
Q 041384          209 SQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARI  288 (580)
Q Consensus       209 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~  288 (580)
                      ++++++|.++|-+|.+.+ +-+..+-.++.+.|.+.|..+.|.++++.+.++.   |...-..                 
T Consensus        48 s~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~sp---dlT~~qr-----------------  106 (389)
T COG2956          48 SNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESP---DLTFEQR-----------------  106 (389)
T ss_pred             hcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCC---CCchHHH-----------------
Confidence            567899999999998742 2234455677788888999999999988877642   1111000                 


Q ss_pred             HHhhCCCCChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCch
Q 041384          289 IFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDV  368 (580)
Q Consensus       289 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  368 (580)
                               ....-.|..-|...|-+|.|+.+|..+.+.+ .--......++..|-...+|++|+++-+.+.+.+..+..
T Consensus       107 ---------~lAl~qL~~Dym~aGl~DRAE~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~  176 (389)
T COG2956         107 ---------LLALQQLGRDYMAAGLLDRAEDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYR  176 (389)
T ss_pred             ---------HHHHHHHHHHHHHhhhhhHHHHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccch
Confidence                     0112235566888899999999999888755 334456677788888888888888888777776544332


Q ss_pred             hHHHHHHHHhHhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhcc
Q 041384          369 SIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAI-TVLAILSACNHA  447 (580)
Q Consensus       369 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~-~~~~l~~~~~~~  447 (580)
                      .   .+...|                        .-|...+....+.++|..++.+..+.  .|+.. .-.++.+.....
T Consensus       177 ~---eIAqfy------------------------CELAq~~~~~~~~d~A~~~l~kAlqa--~~~cvRAsi~lG~v~~~~  227 (389)
T COG2956         177 V---EIAQFY------------------------CELAQQALASSDVDRARELLKKALQA--DKKCVRASIILGRVELAK  227 (389)
T ss_pred             h---HHHHHH------------------------HHHHHHHhhhhhHHHHHHHHHHHHhh--CccceehhhhhhHHHHhc
Confidence            1   122222                        23444455566777888888887764  44443 333456677788


Q ss_pred             CCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 041384          448 GLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKPSTRILSSLVSACRIHGRLEVAEMLAH  526 (580)
Q Consensus       448 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~  526 (580)
                      |+++.|++.++.+.+ .+..--..+...|..+|...|+.++...++.++ ...+.......+...-....-.+.|...+.
T Consensus       228 g~y~~AV~~~e~v~e-Qn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~~~~l~l~~lie~~~G~~~Aq~~l~  306 (389)
T COG2956         228 GDYQKAVEALERVLE-QNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGADAELMLADLIELQEGIDAAQAYLT  306 (389)
T ss_pred             cchHHHHHHHHHHHH-hChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCccHHHHHHHHHHHhhChHHHHHHHH
Confidence            888888888888554 554455667788888888888888888888776 345666666666666556666778888888


Q ss_pred             HHHhcCCCCchHHHHHHHHHHh--cCChHHHHHHHHHHHhCCCccCCceeEEEeCC
Q 041384          527 QLIEAEPENAANYTLLSMVCSE--SGNWLGAEEVWRVMRAKGLSKSYGFSRIENEY  580 (580)
Q Consensus       527 ~~~~~~~~~~~~~~~l~~~~~~--~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  580 (580)
                      +-+...|.-...+..+-.-...  .|...+....++.|....++..|.+.+-.+||
T Consensus       307 ~Ql~r~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvge~l~~~~~YRC~~CGF  362 (389)
T COG2956         307 RQLRRKPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVGEQLRRKPRYRCQNCGF  362 (389)
T ss_pred             HHHhhCCcHHHHHHHHHhhhccccccchhhhHHHHHHHHHHHHhhcCCceecccCC
Confidence            8788777666545444333322  35678888889999999999999999888887

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.58  E-value=6e-12  Score=120.63  Aligned_cols=250  Identities=13%  Similarity=0.038  Sum_probs=182.5

Q ss_pred             HHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHH--HHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcC
Q 041384          305 IRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLL--AILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCG  382 (580)
Q Consensus       305 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~--~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  382 (580)
                      ..+..+.|+++.|...+.++.+.  .|+.....  .....+...|+++.|.+.++.+.+.. +-++.....+...|.+.|
T Consensus       125 A~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~-P~~~~al~ll~~~~~~~g  201 (398)
T PRK10747        125 AEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAARHGVDKLLEVA-PRHPEVLRLAEQAYIRTG  201 (398)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHH
Confidence            34446778888888888888755  45543332  33556677888888888888887765 445677777888888888


Q ss_pred             CHHHHHHHHhcCCCCCcc-----------hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHH
Q 041384          383 SITSSHQIFNEMAARDFV-----------SWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVK  451 (580)
Q Consensus       383 ~~~~A~~~~~~~~~~~~~-----------~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~  451 (580)
                      ++++|.+++..+.+....           .|..++.......+.+...++++.+.+. .+.++.....+...+...|+.+
T Consensus       202 dw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~  280 (398)
T PRK10747        202 AWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQSRK-TRHQVALQVAMAEHLIECDDHD  280 (398)
T ss_pred             hHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCHH-HhCCHHHHHHHHHHHHHCCCHH
Confidence            888888888877753221           2333333334445556666667666543 3447778888899999999999


Q ss_pred             HHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 041384          452 EAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLI  529 (580)
Q Consensus       452 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  529 (580)
                      +|.+++++.++   .+|+....  ++.+....++.+++.+..++. +..| |+..+..+...|.+.+++++|.+.|+++.
T Consensus       281 ~A~~~L~~~l~---~~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al  355 (398)
T PRK10747        281 TAQQIILDGLK---RQYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQHGDTPLLWSTLGQLLMKHGEWQEASLAFRAAL  355 (398)
T ss_pred             HHHHHHHHHHh---cCCCHHHH--HHHhhccCCChHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            99999998665   34454322  333444568999999999888 3345 55678899999999999999999999999


Q ss_pred             hcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 041384          530 EAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRA  564 (580)
Q Consensus       530 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (580)
                      +..|++.. +..++.++.+.|+.++|.+++++-..
T Consensus       356 ~~~P~~~~-~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        356 KQRPDAYD-YAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             hcCCCHHH-HHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            99887665 77899999999999999999988654

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.56  E-value=6.6e-12  Score=120.34  Aligned_cols=218  Identities=12%  Similarity=0.022  Sum_probs=138.3

Q ss_pred             HHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCch-------hHHHHHHHHhHh
Q 041384          308 YSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDV-------SIGNALMNMYSK  380 (580)
Q Consensus       308 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~  380 (580)
                      +...|+++.|...++++.+.. +-+...+..+...+...|+++++.+++..+.+.+..++.       ..|..++.....
T Consensus       163 ~l~~g~~~~Al~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~  241 (398)
T PRK10747        163 QLARNENHAARHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMA  241 (398)
T ss_pred             HHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444332 223334444444444445555555555544443322211       122233333334


Q ss_pred             cCCHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHH
Q 041384          381 CGSITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLF  457 (580)
Q Consensus       381 ~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~  457 (580)
                      ..+.+...++++.+.+   .++.....+...+...|+.++|..++++..+.  +||....  ++.+....++.+++.+..
T Consensus       242 ~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~l~~~l~~~~~~~al~~~  317 (398)
T PRK10747        242 DQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--LLIPRLKTNNPEQLEKVL  317 (398)
T ss_pred             hcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HHHhhccCCChHHHHHHH
Confidence            4456666667776654   36667777888888888888888888888773  5555322  233334568888888888


Q ss_pred             HHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 041384          458 NNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAE  532 (580)
Q Consensus       458 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  532 (580)
                      +...+  ..+-|...+..+...+.+.|++++|.+.|+.. ...|+...+..+...+.+.|+.++|.+++++....-
T Consensus       318 e~~lk--~~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~  391 (398)
T PRK10747        318 RQQIK--QHGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAYDYAWLADALDRLHKPEEAAAMRRDGLMLT  391 (398)
T ss_pred             HHHHh--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhh
Confidence            88664  34445566778888888899999999988887 467888888888888999999999999988887643

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

Probab=99.55  E-value=9e-10  Score=99.64  Aligned_cols=459  Identities=9%  Similarity=0.021  Sum_probs=326.1

Q ss_pred             ccchHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHH
Q 041384           94 TISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLD  173 (580)
Q Consensus        94 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  173 (580)
                      ...|-.-.+-=..++++..|..+|++..... .-+...|..-+..-.+...+..|+.+++.++..-  |.-...|-..+.
T Consensus        73 ~~~WikYaqwEesq~e~~RARSv~ERALdvd-~r~itLWlkYae~Emknk~vNhARNv~dRAvt~l--PRVdqlWyKY~y  149 (677)
T KOG1915|consen   73 MQVWIKYAQWEESQKEIQRARSVFERALDVD-YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTIL--PRVDQLWYKYIY  149 (677)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHhcc-cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhc--chHHHHHHHHHH
Confidence            3344444444455778899999999998765 3356667777777788899999999999998863  444455666666


Q ss_pred             HhHhcCCHHHHHHHHhcC--CCCCeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHH
Q 041384          174 LYSKCHHWLIALRVFEQM--VIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGK  251 (580)
Q Consensus       174 ~~~~~~~~~~a~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~  251 (580)
                      +=-..|++..|.++|++.  -+|+..+|++.|+.-.+-+.++.|..++++..-  +.|+..+|.--...-.+.|+...+.
T Consensus       150 mEE~LgNi~gaRqiferW~~w~P~eqaW~sfI~fElRykeieraR~IYerfV~--~HP~v~~wikyarFE~k~g~~~~aR  227 (677)
T KOG1915|consen  150 MEEMLGNIAGARQIFERWMEWEPDEQAWLSFIKFELRYKEIERARSIYERFVL--VHPKVSNWIKYARFEEKHGNVALAR  227 (677)
T ss_pred             HHHHhcccHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe--ecccHHHHHHHHHHHHhcCcHHHHH
Confidence            666789999999999987  457999999999999999999999999999876  4699999998888888999999999


Q ss_pred             HHHHHHHHh-cC-CCchhHHHHHHHHHHHcCCCHHHHHHHHhhCC----CC-ChhhHHHHHHHHHhCCChhHHHHH----
Q 041384          252 AIHGYAYCC-GF-DFDHHLSAALMHMYCECTEALHPARIIFERTK----VK-DVVIWSSIIRGYSQSGDLSEAMKL----  320 (580)
Q Consensus       252 ~~~~~~~~~-~~-~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~----~~-~~~~~~~l~~~~~~~~~~~~a~~~----  320 (580)
                      .++..+.+. |- ......+.++...=.++.+ .+.++.++.-..    .. ....|..+...--+-|+-....+.    
T Consensus       228 ~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE-~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~K  306 (677)
T KOG1915|consen  228 SVYERAIEFLGDDEEAEILFVAFAEFEERQKE-YERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGK  306 (677)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhh
Confidence            999988763 21 1122333333333334555 677777665332    22 133444444444445554433332    


Q ss_pred             ----HHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCch-hHHHHHH-----HHh---HhcCCHHHH
Q 041384          321 ----FSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDV-SIGNALM-----NMY---SKCGSITSS  387 (580)
Q Consensus       321 ----~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~-----~~~---~~~g~~~~A  387 (580)
                          ++.+...+ +-|-.++--.+..-...|+.+...++++..+..-.+.+. ..|...|     -++   ....+++.+
T Consensus       307 Rk~qYE~~v~~n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIanvpp~~ekr~W~RYIYLWinYalyeEle~ed~ert  385 (677)
T KOG1915|consen  307 RKFQYEKEVSKN-PYNYDSWFDYLRLEESVGDKDRIRETYERAIANVPPASEKRYWRRYIYLWINYALYEELEAEDVERT  385 (677)
T ss_pred             hhhHHHHHHHhC-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHccCCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Confidence                33444443 556677777777778889999999999988865322221 1111111     111   346788899


Q ss_pred             HHHHhcCCC---CCcchH----HHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHH
Q 041384          388 HQIFNEMAA---RDFVSW----TTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNV  460 (580)
Q Consensus       388 ~~~~~~~~~---~~~~~~----~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  460 (580)
                      .++|+...+   ....||    -....-..++.+...|.+++...+  |.-|-..+|...|..=.+.+.++....++++.
T Consensus       386 r~vyq~~l~lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI--G~cPK~KlFk~YIelElqL~efDRcRkLYEkf  463 (677)
T KOG1915|consen  386 RQVYQACLDLIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI--GKCPKDKLFKGYIELELQLREFDRCRKLYEKF  463 (677)
T ss_pred             HHHHHHHHhhcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh--ccCCchhHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            999887665   233343    334444567788999999988766  46898999999999888999999999999997


Q ss_pred             HHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCc
Q 041384          461 MKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPS----TRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENA  536 (580)
Q Consensus       461 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~  536 (580)
                      ++  -.+-+..+|......-...|+.+.|..+|+-...+|.    ...|.+.|.--...|.++.|..+++++++..+...
T Consensus       464 le--~~Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt~h~k  541 (677)
T KOG1915|consen  464 LE--FSPENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRTQHVK  541 (677)
T ss_pred             Hh--cChHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhcccch
Confidence            65  2344577888888888899999999999998865653    34677777777889999999999999999886655


Q ss_pred             hHHHHHHHHHH-----hcC-----------ChHHHHHHHHHHHh
Q 041384          537 ANYTLLSMVCS-----ESG-----------NWLGAEEVWRVMRA  564 (580)
Q Consensus       537 ~~~~~l~~~~~-----~~g-----------~~~~A~~~~~~~~~  564 (580)
                       +|.+.+..-.     ..|           ....|..+|++...
T Consensus       542 -vWisFA~fe~s~~~~~~~~~~~~~e~~~~~~~~AR~iferAn~  584 (677)
T KOG1915|consen  542 -VWISFAKFEASASEGQEDEDLAELEITDENIKRARKIFERANT  584 (677)
T ss_pred             -HHHhHHHHhccccccccccchhhhhcchhHHHHHHHHHHHHHH
Confidence             5777666444     344           56678888877643

>TIGR00540 hemY_coli hemY protein

Probab=99.54  E-value=3.5e-11  Score=116.05  Aligned_cols=284  Identities=11%  Similarity=-0.015  Sum_probs=140.3

Q ss_pred             hcCChhHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHH
Q 041384          208 DSQNYDTGIDLFRAMQREGVKPTR-VTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPA  286 (580)
Q Consensus       208 ~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a  286 (580)
                      ..|+++.|.+.+.+..+.  .|+. ..+.....+....|+.+.+...+....+....+.                     
T Consensus        96 ~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~---------------------  152 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDN---------------------  152 (409)
T ss_pred             hCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCc---------------------
Confidence            467777777777665554  3432 3333444556666777777777666544321111                     


Q ss_pred             HHHHhhCCCCChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCC
Q 041384          287 RIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNF  366 (580)
Q Consensus       287 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  366 (580)
                                 ....-.....+...|+++.|...++.+.+.. +-+...+..+...+...|+++.+.+.+..+.+.+..+
T Consensus       153 -----------l~~~~~~a~l~l~~~~~~~Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~  220 (409)
T TIGR00540       153 -----------ILVEIARTRILLAQNELHAARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFD  220 (409)
T ss_pred             -----------hHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCC
Confidence                       1111223455666777777777777777664 3345566677777777777777777777777765433


Q ss_pred             chhHHHHHHHHh---H----hcCCHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHH
Q 041384          367 DVSIGNALMNMY---S----KCGSITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAIT  436 (580)
Q Consensus       367 ~~~~~~~l~~~~---~----~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~  436 (580)
                      .......-..++   .    .....+.....++...+   +++..+..+...+...|+.++|.+++++..+.  .||...
T Consensus       221 ~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~--~pd~~~  298 (409)
T TIGR00540       221 DEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK--LGDDRA  298 (409)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh--CCCccc
Confidence            222111111111   1    11112222233333322   13344444444444444444444444444442  222211


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CH--HHHHHHHHHH
Q 041384          437 VLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-ST--RILSSLVSAC  512 (580)
Q Consensus       437 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~--~~~~~l~~~~  512 (580)
                                                       ..............++.+.+.+.+++. +..| |+  ....++.+.+
T Consensus       299 ---------------------------------~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~~~~~~ll~sLg~l~  345 (409)
T TIGR00540       299 ---------------------------------ISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVDDKPKCCINRALGQLL  345 (409)
T ss_pred             ---------------------------------chhHHHHHhhhcCCCChHHHHHHHHHHHHhCCCChhHHHHHHHHHHH
Confidence                                             000011111112234444445544444 2223 22  3445566666


Q ss_pred             HhcCCHHHHHHHHH--HHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHH
Q 041384          513 RIHGRLEVAEMLAH--QLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVM  562 (580)
Q Consensus       513 ~~~~~~~~A~~~~~--~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  562 (580)
                      .+.|++++|.+.|+  ...+..|++.. +..++..+.+.|+.++|.+++++.
T Consensus       346 ~~~~~~~~A~~~le~a~a~~~~p~~~~-~~~La~ll~~~g~~~~A~~~~~~~  396 (409)
T TIGR00540       346 MKHGEFIEAADAFKNVAACKEQLDAND-LAMAADAFDQAGDKAEAAAMRQDS  396 (409)
T ss_pred             HHcccHHHHHHHHHHhHHhhcCCCHHH-HHHHHHHHHHcCCHHHHHHHHHHH
Confidence            66666666666666  34444444333 446666666666666666666654

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.

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

Probab=99.54  E-value=7.6e-12  Score=121.14  Aligned_cols=437  Identities=10%  Similarity=0.004  Sum_probs=245.5

Q ss_pred             HHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCCC
Q 041384          115 EMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIR  194 (580)
Q Consensus       115 ~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  194 (580)
                      .++-.+...|+.|+..||..+|..||..|+.+.|- +|..|.-.. .+....+++.++.+..+.++.+.+.       .|
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ks-Lpv~e~vf~~lv~sh~~And~Enpk-------ep   81 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKS-LPVREGVFRGLVASHKEANDAENPK-------EP   81 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhccc-ccccchhHHHHHhcccccccccCCC-------CC
Confidence            45566677778888888888888888888887777 777776666 6677777777777777777766655       56


Q ss_pred             CeehHHHHHHHHHhcCChhH---HHHHHHHH----HHcCCCCCHHHHHHHHHHHhcCC-Cchh------HHHHHHHHHHh
Q 041384          195 NEVSWTAMISGCIDSQNYDT---GIDLFRAM----QREGVKPTRVTLTIVLLACAELR-DLRN------GKAIHGYAYCC  260 (580)
Q Consensus       195 ~~~~~~~li~~~~~~~~~~~---a~~~~~~m----~~~~~~p~~~~~~~ll~~~~~~~-~~~~------a~~~~~~~~~~  260 (580)
                      ...+|..|..+|...|+...   +.+.+...    ...|+......+-..+.++-..- +...      -+.++...++.
T Consensus        82 ~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkl  161 (1088)
T KOG4318|consen   82 LADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKL  161 (1088)
T ss_pred             chhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHH
Confidence            66677888888877777544   22211111    11232222222222222211110 0000      11222333332


Q ss_pred             cC-CCchh---HHHHHHHHHHHcCCCHHHHHHHHhhCCC-CChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHH
Q 041384          261 GF-DFDHH---LSAALMHMYCECTEALHPARIIFERTKV-KDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVT  335 (580)
Q Consensus       261 ~~-~~~~~---~~~~l~~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~  335 (580)
                      +. .|...   .+..+++-.......++....+...... +++.+|.+++++-..+|+.+.|..++.+|.+.|++.+.+-
T Consensus       162 l~~~Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~Hy  241 (1088)
T KOG4318|consen  162 LAKVPVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHY  241 (1088)
T ss_pred             HhhCCcccccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCccccc
Confidence            21 11111   1111233333333335555555555554 8999999999999999999999999999999999999988


Q ss_pred             HHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHH-----------hcCCCC-------
Q 041384          336 LLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIF-----------NEMAAR-------  397 (580)
Q Consensus       336 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~-----------~~~~~~-------  397 (580)
                      |..++-+   .++...+..++.-|...|+.|+..|+...+-.+...|....+....           ..+...       
T Consensus       242 FwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~e~sq~~hg~tAavrsaa~rg~~a~k~l  318 (1088)
T KOG4318|consen  242 FWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGEEGSQLAHGFTAAVRSAACRGLLANKRL  318 (1088)
T ss_pred             chhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhcccccchhhhhhHHHHHHHhcccHhHHHH
Confidence            8888766   8888889999999999999999999887766665544322211111           011000       


Q ss_pred             ----------------------CcchHHHHHHHHHhcCChHHHHHHHHHHHHcC--CCC-CHHHHHHHHHHHhccC----
Q 041384          398 ----------------------DFVSWTTLISGYGFHGYGEEALQLFLEMQESG--VEP-DAITVLAILSACNHAG----  448 (580)
Q Consensus       398 ----------------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g--~~p-~~~~~~~l~~~~~~~~----  448 (580)
                                            ...+|.. ..-....|+-++..++...|...-  +.| +...|..++.-|.+.-    
T Consensus       319 ~~nl~~~v~~s~k~~fLlg~d~~~aiws~-c~~l~hQgk~e~veqlvg~l~npt~r~s~~~V~a~~~~lrqyFrr~e~~~  397 (1088)
T KOG4318|consen  319 RQNLRKSVIGSTKKLFLLGTDILEAIWSM-CEKLRHQGKGEEVEQLVGQLLNPTLRDSGQNVDAFGALLRQYFRRIERHI  397 (1088)
T ss_pred             HHHHHHHHHHHhhHHHHhccccchHHHHH-HHHHHHcCCCchHHHHHhhhcCCccccCcchHHHHHHHHHHHHHHHHhhH
Confidence                                  0011211 111222455555555555554221  122 1233433333332211    


Q ss_pred             ------------------CHHHHHHHHHHHHH---------------hhCCCC-------ChhHHHHHHHHhhhcCChHH
Q 041384          449 ------------------LVKEAETLFNNVMK---------------EKKIAL-------AIEHYACYVDLLGKSGKIED  488 (580)
Q Consensus       449 ------------------~~~~a~~~~~~~~~---------------~~~~~~-------~~~~~~~l~~~~~~~g~~~~  488 (580)
                                        ...+..+......+               .+.+.|       -...-+.++..+++.-+..+
T Consensus       398 ~~~i~~~~qgls~~l~se~tp~vsell~~lrkns~lr~lv~Lss~Eler~he~~~~~~h~irdi~~ql~l~l~se~n~lK  477 (1088)
T KOG4318|consen  398 CSRIYYAGQGLSLNLNSEDTPRVSELLENLRKNSFLRQLVGLSSTELERSHEPWPLIAHLIRDIANQLHLTLNSEYNKLK  477 (1088)
T ss_pred             HHHHHHHHHHHHhhhchhhhHHHHHHHHHhCcchHHHHHhhhhHHHHhcccccchhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence                              01111111111000               000000       01112233334444444444


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC---CCchHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 041384          489 ACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEP---ENAANYTLLSMVCSESGNWLGAEEVWRVMRA  564 (580)
Q Consensus       489 A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (580)
                      ++..-++.....=...|..|++-+..++..+.|..+.++....+.   -+-.-+..+.+.+.+.+....+.++++++.+
T Consensus       478 ~l~~~ekye~~lf~g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~l~dLL~r~~~l~dl~tiL~e~ks  556 (1088)
T KOG4318|consen  478 ILCDEEKYEDLLFAGLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTSLQDLLQRLAILYDLSTILYEDKS  556 (1088)
T ss_pred             HHHHHHHHHHHHhhhHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHHHHHHHHHhHHHHHHHHHHhhhhH
Confidence            443322221111125678888888999999999998888876652   2555588889999999999999999998877

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

Probab=99.52  E-value=2.7e-10  Score=105.38  Aligned_cols=265  Identities=12%  Similarity=0.030  Sum_probs=212.0

Q ss_pred             ChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 041384          297 DVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMN  376 (580)
Q Consensus       297 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  376 (580)
                      ++.....-..-+...+++.+..++.+...+.. ++....+..-|.++...|+..+-..+=..+++.- +..+.+|-++.-
T Consensus       243 ~~dll~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~aVg~  320 (611)
T KOG1173|consen  243 NLDLLAEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWFAVGC  320 (611)
T ss_pred             cHHHHHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchhhHHH
Confidence            44445555566778899999999999988765 5666666666778888888887777777777653 556788888888


Q ss_pred             HhHhcCCHHHHHHHHhcCCCCCc---chHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHH
Q 041384          377 MYSKCGSITSSHQIFNEMAARDF---VSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEA  453 (580)
Q Consensus       377 ~~~~~g~~~~A~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a  453 (580)
                      .|.-.|+..+|++.|.+...-|.   ..|-.+...|.-.+..+.|+..+...-+. ++-....+..+.--|.+.++.+.|
T Consensus       321 YYl~i~k~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl-~~G~hlP~LYlgmey~~t~n~kLA  399 (611)
T KOG1173|consen  321 YYLMIGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL-MPGCHLPSLYLGMEYMRTNNLKLA  399 (611)
T ss_pred             HHHHhcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh-ccCCcchHHHHHHHHHHhccHHHH
Confidence            88888999999999998776443   47999999999999999999999888764 222333444555568889999999


Q ss_pred             HHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC--------CC-CCHHHHHHHHHHHHhcCCHHHHHHH
Q 041384          454 ETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP--------MK-PSTRILSSLVSACRIHGRLEVAEML  524 (580)
Q Consensus       454 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--------~~-p~~~~~~~l~~~~~~~~~~~~A~~~  524 (580)
                      .++|.+++.  -.+.|+..++.+.-.....+.+.+|..+|+...        .. ....+++.|..+|++.+.+++|+..
T Consensus       400 e~Ff~~A~a--i~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~  477 (611)
T KOG1173|consen  400 EKFFKQALA--IAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDY  477 (611)
T ss_pred             HHHHHHHHh--cCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHH
Confidence            999998653  233456677778777788899999999998762        11 2456789999999999999999999


Q ss_pred             HHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 041384          525 AHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       525 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      +++++...|.++.++..++-+|...|+++.|++.|.+.+...
T Consensus       478 ~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~  519 (611)
T KOG1173|consen  478 YQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALALK  519 (611)
T ss_pred             HHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcC
Confidence            999999999999999999999999999999999999876543

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

Probab=99.52  E-value=4.2e-12  Score=119.53  Aligned_cols=277  Identities=15%  Similarity=0.023  Sum_probs=216.1

Q ss_pred             HHHHHHHHhhCCC--C-ChhhHHHHHHHHHhCCChhHHHHHHHHHHHCC--CCCCHHHHHHHHHHhhccCChHHHHHHHH
Q 041384          283 LHPARIIFERTKV--K-DVVIWSSIIRGYSQSGDLSEAMKLFSRMRLER--IEPNSVTLLAILSSCTRQSFLSHGLGVHC  357 (580)
Q Consensus       283 ~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~--~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  357 (580)
                      .+.|...|...+.  + ...+...+..+|...+++++|..+|+.+.+..  ..-+..+|.+.+..+-+    +-++.++.
T Consensus       335 ~~~A~~~~~klp~h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~----~v~Ls~La  410 (638)
T KOG1126|consen  335 CREALNLFEKLPSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD----EVALSYLA  410 (638)
T ss_pred             HHHHHHHHHhhHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh----hHHHHHHH
Confidence            4556666666432  2 23345566789999999999999999998663  12366788888776533    22223333


Q ss_pred             HHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCCCCc---chHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH
Q 041384          358 YIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDF---VSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDA  434 (580)
Q Consensus       358 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~  434 (580)
                      +-.-..-+-.+.+|.++.++|.-.++.+.|.+.|++..+-|+   .+|+.+..=+.....+|.|...|+....  +.|..
T Consensus       411 q~Li~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~--~~~rh  488 (638)
T KOG1126|consen  411 QDLIDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKALG--VDPRH  488 (638)
T ss_pred             HHHHhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhhc--CCchh
Confidence            222222366789999999999999999999999999887444   5777777778888899999999998876  34533


Q ss_pred             -HHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCC-hhHHHHHHHHhhhcCChHHHHHHHHhCC-CC-CCHHHHHHHHH
Q 041384          435 -ITVLAILSACNHAGLVKEAETLFNNVMKEKKIALA-IEHYACYVDLLGKSGKIEDACKVVSTMP-MK-PSTRILSSLVS  510 (580)
Q Consensus       435 -~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~-p~~~~~~~l~~  510 (580)
                       ..|-.+...|.++++++.|+-.|+++++   +.|. ......+...+.+.|+.++|+.+++++. .. .|+..-...+.
T Consensus       489 YnAwYGlG~vy~Kqek~e~Ae~~fqkA~~---INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~~  565 (638)
T KOG1126|consen  489 YNAWYGLGTVYLKQEKLEFAEFHFQKAVE---INPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRAS  565 (638)
T ss_pred             hHHHHhhhhheeccchhhHHHHHHHhhhc---CCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHHH
Confidence             5666778889999999999999998654   5555 5556677888999999999999999983 34 46666677778


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCCc
Q 041384          511 ACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGLS  568 (580)
Q Consensus       511 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  568 (580)
                      .+...++.++|+..++++.+.-|++..+|..++.+|.+.|+.+.|+.-|.-+.+..++
T Consensus       566 il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpk  623 (638)
T KOG1126|consen  566 ILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDPK  623 (638)
T ss_pred             HHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCc
Confidence            8888999999999999999999999999999999999999999999999888776544

>TIGR00540 hemY_coli hemY protein

Probab=99.51  E-value=4.9e-11  Score=115.09  Aligned_cols=253  Identities=11%  Similarity=0.026  Sum_probs=182.8

Q ss_pred             HhCCChhHHHHHHHHHHHCCCCCCHH-HHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHH
Q 041384          309 SQSGDLSEAMKLFSRMRLERIEPNSV-TLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSS  387 (580)
Q Consensus       309 ~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  387 (580)
                      ...|+++.|.+.+.+..+.  .|+.. .+-....+....|+.+.+.+++....+....+...........+...|+++.|
T Consensus        95 ~~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~A  172 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAA  172 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHH
Confidence            3578999999999887655  45543 34445667778899999999999887654333333444457788889999999


Q ss_pred             HHHHhcCCCC---CcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHH-HHHH---HHhccCCHHHHHHHHHHH
Q 041384          388 HQIFNEMAAR---DFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVL-AILS---ACNHAGLVKEAETLFNNV  460 (580)
Q Consensus       388 ~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~-~l~~---~~~~~~~~~~a~~~~~~~  460 (580)
                      ...++.+.+.   +...+..+...+...|++++|.+.+..+.+.+..+ ...+. .-..   .....+..+.+...+..+
T Consensus       173 l~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~-~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~  251 (409)
T TIGR00540       173 RHGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFD-DEEFADLEQKAEIGLLDEAMADEGIDGLLNW  251 (409)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCC-HHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            9999988763   55678888999999999999999999999986443 33221 1111   113333333333444443


Q ss_pred             HHhh--CCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCCCHHH---HHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 041384          461 MKEK--KIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKPSTRI---LSSLVSACRIHGRLEVAEMLAHQLIEAEPE  534 (580)
Q Consensus       461 ~~~~--~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~---~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  534 (580)
                      .+..  ..+.+...+..++..+...|+.++|.+++++. ...|+...   ...........++.+.+.+.+++..+..|+
T Consensus       252 ~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~  331 (409)
T TIGR00540       252 WKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVDD  331 (409)
T ss_pred             HHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCCC
Confidence            3211  12247788889999999999999999999988 34565542   122222334568889999999999999999


Q ss_pred             Cc--hHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 041384          535 NA--ANYTLLSMVCSESGNWLGAEEVWRVMRA  564 (580)
Q Consensus       535 ~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (580)
                      |+  .....+++.+.+.|++++|.++|++...
T Consensus       332 ~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a  363 (409)
T TIGR00540       332 KPKCCINRALGQLLMKHGEFIEAADAFKNVAA  363 (409)
T ss_pred             ChhHHHHHHHHHHHHHcccHHHHHHHHHHhHH
Confidence            99  8899999999999999999999995333

This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.

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

Probab=99.50  E-value=7.1e-14  Score=127.98  Aligned_cols=227  Identities=16%  Similarity=0.124  Sum_probs=105.2

Q ss_pred             HHHHHhhccCChHHHHHHHHHHHHhC-CCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCCC---CcchHHHHHHHHHhcC
Q 041384          338 AILSSCTRQSFLSHGLGVHCYIMKAG-LNFDVSIGNALMNMYSKCGSITSSHQIFNEMAAR---DFVSWTTLISGYGFHG  413 (580)
Q Consensus       338 ~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~  413 (580)
                      .+...+...|++++|++++....... .+.++..|..+.......++++.|...++++...   ++..+..++.. ...+
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~~~~~~~~l~~l-~~~~   91 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKANPQDYERLIQL-LQDG   91 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-cccc
Confidence            55777889999999999997665544 3456666677777788899999999999999874   34466677776 6889


Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHH
Q 041384          414 YGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVV  493 (580)
Q Consensus       414 ~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  493 (580)
                      ++++|.+++++..+.  .+++..+..++..+...++++++..+++.+......+.+...|..+...+.+.|+.++|++.+
T Consensus        92 ~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~  169 (280)
T PF13429_consen   92 DPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDY  169 (280)
T ss_dssp             ----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHH
T ss_pred             ccccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            999999999887765  466777788888899999999999999996654555677888999999999999999999999


Q ss_pred             HhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          494 STM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       494 ~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      ++. ...| |......++..+...|+.+++.++++...+..|.++..+..++.+|...|+.++|..++++..+...
T Consensus       170 ~~al~~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p  245 (280)
T PF13429_consen  170 RKALELDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNP  245 (280)
T ss_dssp             HHHHHH-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHST
T ss_pred             HHHHHcCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhccccccccccccccccccccc
Confidence            998 4456 5778899999999999999999999999999999999999999999999999999999999887543

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

Probab=99.50  E-value=2.9e-12  Score=120.62  Aligned_cols=246  Identities=13%  Similarity=0.092  Sum_probs=197.1

Q ss_pred             ChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhC--CCCchhHHHHHHHHhHhcCCHHHHHHH
Q 041384          313 DLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAG--LNFDVSIGNALMNMYSKCGSITSSHQI  390 (580)
Q Consensus       313 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~  390 (580)
                      +..+|...|.++... +.-+......+..+|...++++++.++|+.+.+..  ..-+..+|.+.+--+-+.=.+.---+-
T Consensus       334 ~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~  412 (638)
T KOG1126|consen  334 NCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQD  412 (638)
T ss_pred             HHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHH
Confidence            467899999885544 23344677788899999999999999999998743  223667777766544332222221222


Q ss_pred             HhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCC
Q 041384          391 FNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALA  469 (580)
Q Consensus       391 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  469 (580)
                      +-......+.+|.++..+|.-+++.+.|++.|++...  +.| ...+|+.+..-+.....+|.|...|+.++.     .+
T Consensus       413 Li~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQ--ldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~-----~~  485 (638)
T KOG1126|consen  413 LIDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQ--LDPRFAYAYTLLGHESIATEEFDKAMKSFRKALG-----VD  485 (638)
T ss_pred             HHhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhc--cCCccchhhhhcCChhhhhHHHHhHHHHHHhhhc-----CC
Confidence            2223335778999999999999999999999999998  467 668999999999999999999999998654     44


Q ss_pred             hhHH---HHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHH
Q 041384          470 IEHY---ACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSM  544 (580)
Q Consensus       470 ~~~~---~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  544 (580)
                      +..|   .-+.-.|.++++++.|+-.|+++ .+.| +......+...+.+.|+.++|+++++++..++|.|+-.-...+.
T Consensus       486 ~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~~  565 (638)
T KOG1126|consen  486 PRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRAS  565 (638)
T ss_pred             chhhHHHHhhhhheeccchhhHHHHHHHhhhcCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHHH
Confidence            4444   45677899999999999999998 4566 66677888888999999999999999999999999999999999


Q ss_pred             HHHhcCChHHHHHHHHHHHhCC
Q 041384          545 VCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       545 ~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      .+...+++++|.+.++++.+.-
T Consensus       566 il~~~~~~~eal~~LEeLk~~v  587 (638)
T KOG1126|consen  566 ILFSLGRYVEALQELEELKELV  587 (638)
T ss_pred             HHHhhcchHHHHHHHHHHHHhC
Confidence            9999999999999999987643

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

Probab=99.47  E-value=1.6e-08  Score=95.34  Aligned_cols=505  Identities=14%  Similarity=0.139  Sum_probs=302.4

Q ss_pred             CCCCchhhHHHHHHHHHccCCCCCCCcchHHHHHHhhcccchhHHHHHHHHHHHHhCCCCChhHHHHHHHHHHcCCCchH
Q 041384            2 VSKHFYEQTLHLYKQELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPES   81 (580)
Q Consensus         2 ~~~~~~~~a~~~~~~~~~~~g~~~~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~   81 (580)
                      .++|+.....+.|...+..--+.-+...+...++.....+-+ +.+.+++++.++.    ++..-+-.|..++..+++++
T Consensus       113 ~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lP-ets~rvyrRYLk~----~P~~~eeyie~L~~~d~~~e  187 (835)
T KOG2047|consen  113 IKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLP-ETSIRVYRRYLKV----APEAREEYIEYLAKSDRLDE  187 (835)
T ss_pred             HhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCCh-HHHHHHHHHHHhc----CHHHHHHHHHHHHhccchHH
Confidence            456777777788855566666666777888888888888877 8899999988754    34446777888999999999


Q ss_pred             HHHhhccCCCC----------CccchHHHHHHHHhCCChhH---HHHHHHHHHHCCCCCC--HhhHHHHHHHhhccCCcH
Q 041384           82 AYQLFDEMPYR----------DTISWNSIINCFTQNGFYVR---SLEMFREMYLCGFVLK--AELLAGIISLCSQIGELE  146 (580)
Q Consensus        82 A~~~~~~~~~~----------~~~~~~~li~~~~~~~~~~~---a~~~~~~m~~~~~~~~--~~~~~~ll~~~~~~~~~~  146 (580)
                      |.+.+..+...          +-..|..+-...+++-+.-.   ...+++.+..+  -+|  ...|++|.+-|.+.|+++
T Consensus       188 aa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~r--ftDq~g~Lw~SLAdYYIr~g~~e  265 (835)
T KOG2047|consen  188 AAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRR--FTDQLGFLWCSLADYYIRSGLFE  265 (835)
T ss_pred             HHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhccc--CcHHHHHHHHHHHHHHHHhhhhH
Confidence            99999877522          23344444444444332221   22233333221  122  235666667777777777


Q ss_pred             HHHHHHHHHHHhCCCCCchHHHhHHHHHhHhc----------------C------CHHHHHHHHhcCCCC----------
Q 041384          147 LGRQIHALVIVDGSFELSVFVSTALLDLYSKC----------------H------HWLIALRVFEQMVIR----------  194 (580)
Q Consensus       147 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------------~------~~~~a~~~~~~~~~~----------  194 (580)
                      .|..++++.+..-   ..+.-++.+-+.|+.-                +      +++-...-|+.+...          
T Consensus       266 karDvyeeai~~v---~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsVlL  342 (835)
T KOG2047|consen  266 KARDVYEEAIQTV---MTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNSVLL  342 (835)
T ss_pred             HHHHHHHHHHHhh---eehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHHHH
Confidence            7777777665542   2222222222222211                1      122222333333111          


Q ss_pred             -----CeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC------HHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCC
Q 041384          195 -----NEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPT------RVTLTIVLLACAELRDLRNGKAIHGYAYCCGFD  263 (580)
Q Consensus       195 -----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  263 (580)
                           ++..|..-+.  +..|+..+-...+.+..+. +.|.      ...+..+.+.|-..|+++.|..+|++..+...+
T Consensus       343 RQn~~nV~eW~kRV~--l~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~  419 (835)
T KOG2047|consen  343 RQNPHNVEEWHKRVK--LYEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYK  419 (835)
T ss_pred             hcCCccHHHHHhhhh--hhcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCcc
Confidence                 2333333222  2356667777777777664 3332      234667777888889999999999888776554


Q ss_pred             Cc---hhHHHHHHHHHHHcCCCHHHHHHHHhhCCC-C--------------------ChhhHHHHHHHHHhCCChhHHHH
Q 041384          264 FD---HHLSAALMHMYCECTEALHPARIIFERTKV-K--------------------DVVIWSSIIRGYSQSGDLSEAMK  319 (580)
Q Consensus       264 ~~---~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~-~--------------------~~~~~~~l~~~~~~~~~~~~a~~  319 (580)
                      .-   ..+|-....+=.+..+ .+.|.++.+.... |                    +...|...++..-..|-++....
T Consensus       420 ~v~dLa~vw~~waemElrh~~-~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~  498 (835)
T KOG2047|consen  420 TVEDLAEVWCAWAEMELRHEN-FEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKA  498 (835)
T ss_pred             chHHHHHHHHHHHHHHHhhhh-HHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHH
Confidence            32   2333333333344455 6677766654331 1                    33456666776667788889999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCc-hhHHHHHHHHhHh---cCCHHHHHHHHhcCC
Q 041384          320 LFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFD-VSIGNALMNMYSK---CGSITSSHQIFNEMA  395 (580)
Q Consensus       320 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~---~g~~~~A~~~~~~~~  395 (580)
                      +|+++.+..+.. +........-+....-++++.++++.-+..=..|+ -.+|+..+.-+.+   ..+++.|..+|++..
T Consensus       499 vYdriidLriaT-Pqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL  577 (835)
T KOG2047|consen  499 VYDRIIDLRIAT-PQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQAL  577 (835)
T ss_pred             HHHHHHHHhcCC-HHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHH
Confidence            999998776432 22222222223344557777777766555333343 3456665555543   346899999999888


Q ss_pred             CCCcc-----hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCC
Q 041384          396 ARDFV-----SWTTLISGYGFHGYGEEALQLFLEMQESGVEPDA--ITVLAILSACNHAGLVKEAETLFNNVMKEKKIAL  468 (580)
Q Consensus       396 ~~~~~-----~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  468 (580)
                      +.-+.     .|-.....--+.|-...|+.++++.... +.+..  ..|++.|.--...=.+.....+|+++++.   -|
T Consensus       578 ~~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~~-v~~a~~l~myni~I~kaae~yGv~~TR~iYekaIe~---Lp  653 (835)
T KOG2047|consen  578 DGCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATSA-VKEAQRLDMYNIYIKKAAEIYGVPRTREIYEKAIES---LP  653 (835)
T ss_pred             hcCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHHHHHHhCCcccHHHHHHHHHh---CC
Confidence            73222     1222222223457788899999997664 55543  56888777555544556667888887764   34


Q ss_pred             Chh---HHHHHHHHhhhcCChHHHHHHHHhCC--CCC--CHHHHHHHHHHHHhcCCHHHHHHHH
Q 041384          469 AIE---HYACYVDLLGKSGKIEDACKVVSTMP--MKP--STRILSSLVSACRIHGRLEVAEMLA  525 (580)
Q Consensus       469 ~~~---~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p--~~~~~~~l~~~~~~~~~~~~A~~~~  525 (580)
                      +..   .--.+.+.-++.|..+.|..++....  .+|  +...|.+.-.--.++|+-+.-.+++
T Consensus       654 ~~~~r~mclrFAdlEtklGEidRARaIya~~sq~~dPr~~~~fW~twk~FEvrHGnedT~keML  717 (835)
T KOG2047|consen  654 DSKAREMCLRFADLETKLGEIDRARAIYAHGSQICDPRVTTEFWDTWKEFEVRHGNEDTYKEML  717 (835)
T ss_pred             hHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhcCCCcCChHHHHHHHHHHHhcCCHHHHHHHH
Confidence            433   33345566678999999999998763  344  5667888888888999954444333

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

Probab=99.47  E-value=1.4e-09  Score=98.82  Aligned_cols=221  Identities=10%  Similarity=-0.023  Sum_probs=172.0

Q ss_pred             HHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHH
Q 041384          308 YSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSS  387 (580)
Q Consensus       308 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  387 (580)
                      +.-.|+.-.|..-|+..+.....++. .|-.+...|....+.++....|....+.+ +-++.+|..-..++.-.+++++|
T Consensus       336 ~fL~g~~~~a~~d~~~~I~l~~~~~~-lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A  413 (606)
T KOG0547|consen  336 HFLKGDSLGAQEDFDAAIKLDPAFNS-LYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEA  413 (606)
T ss_pred             hhhcCCchhhhhhHHHHHhcCcccch-HHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHH
Confidence            34568888899999998877544433 26677778899999999999999998866 44666777777788888999999


Q ss_pred             HHHHhcCCCC---CcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhh
Q 041384          388 HQIFNEMAAR---DFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEK  464 (580)
Q Consensus       388 ~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  464 (580)
                      ..=|++..+-   +...|-.+.-+.-+.+++++++..|++.++. ++--+..|+.....+..+++++.|.+.|+..++-.
T Consensus       414 ~aDF~Kai~L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE  492 (606)
T KOG0547|consen  414 IADFQKAISLDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELE  492 (606)
T ss_pred             HHHHHHHhhcChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhc
Confidence            9999988774   4456666666777888999999999999987 44456899999999999999999999999977622


Q ss_pred             CC------CCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 041384          465 KI------ALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAE  532 (580)
Q Consensus       465 ~~------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  532 (580)
                      ..      .+.+.+-..++..-. .+++..|+.++++. +..| ....+..|...-.+.|+.++|+++|++...+-
T Consensus       493 ~~~~~~~v~~~plV~Ka~l~~qw-k~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~lA  567 (606)
T KOG0547|consen  493 PREHLIIVNAAPLVHKALLVLQW-KEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQLA  567 (606)
T ss_pred             cccccccccchhhhhhhHhhhch-hhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence            11      122222233333333 38999999999988 4555 56789999999999999999999999987654

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

Probab=99.45  E-value=5.2e-10  Score=99.34  Aligned_cols=283  Identities=14%  Similarity=0.054  Sum_probs=167.2

Q ss_pred             cCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHH
Q 041384          209 SQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARI  288 (580)
Q Consensus       209 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~  288 (580)
                      .|++.+|..+..+-.+.+-.| ...|.....+.-..|+.+.+-.++.++-+....++..+.-...               
T Consensus        97 eG~~~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltra---------------  160 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRA---------------  160 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHH---------------
Confidence            566666666666655554332 3344445555566666666666665555443233322222222               


Q ss_pred             HHhhCCCCChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCc-
Q 041384          289 IFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFD-  367 (580)
Q Consensus       289 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-  367 (580)
                                       ......|+++.|..-+.++.+.+ +-+.........+|.+.|++.....++..+.+.+.-.+ 
T Consensus       161 -----------------rlll~~~d~~aA~~~v~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~  222 (400)
T COG3071         161 -----------------RLLLNRRDYPAARENVDQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDE  222 (400)
T ss_pred             -----------------HHHHhCCCchhHHHHHHHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChH
Confidence                             33333444444444444444332 22233344444444444444444444444444433222 


Q ss_pred             ------hhHHHHHHHHhHhcCCHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHH
Q 041384          368 ------VSIGNALMNMYSKCGSITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVL  438 (580)
Q Consensus       368 ------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~  438 (580)
                            ..+|..+++-....+..+.-...++..+.   .++..-.+++.-+.+.|+.++|.++.++..+.+..|+    .
T Consensus       223 e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~----L  298 (400)
T COG3071         223 EAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR----L  298 (400)
T ss_pred             HHHHHHHHHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh----H
Confidence                  22344444444444444555556666654   3566667777777888888888888888887766665    2


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCC
Q 041384          439 AILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKPSTRILSSLVSACRIHGR  517 (580)
Q Consensus       439 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~~~  517 (580)
                      ...-.+.+.++.+.-++..++.++..+..|  ..+..|...|.+.+.|.+|...|+.. ...|+..+|+-+..++.+.|+
T Consensus       299 ~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p--~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~~g~  376 (400)
T COG3071         299 CRLIPRLRPGDPEPLIKAAEKWLKQHPEDP--LLLSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALDQLGE  376 (400)
T ss_pred             HHHHhhcCCCCchHHHHHHHHHHHhCCCCh--hHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHcCC
Confidence            222345677787777777777666555555  56777888888888888888888766 567888888888888888888


Q ss_pred             HHHHHHHHHHHHhc
Q 041384          518 LEVAEMLAHQLIEA  531 (580)
Q Consensus       518 ~~~A~~~~~~~~~~  531 (580)
                      ...|.++.++....
T Consensus       377 ~~~A~~~r~e~L~~  390 (400)
T COG3071         377 PEEAEQVRREALLL  390 (400)
T ss_pred             hHHHHHHHHHHHHH
Confidence            88888888777643

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.44  E-value=3.9e-11  Score=107.48  Aligned_cols=197  Identities=14%  Similarity=0.109  Sum_probs=154.7

Q ss_pred             hhHHHHHHHHhHhcCCHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 041384          368 VSIGNALMNMYSKCGSITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSAC  444 (580)
Q Consensus       368 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~  444 (580)
                      ...+..+...+...|++++|...+++..+   .+...+..+...+...|++++|.+.+++..+.. +.+...+..+...+
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~  109 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTFL  109 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHH
Confidence            44555566667777777777777776544   234566777788888888999999988888753 33556777788888


Q ss_pred             hccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHH
Q 041384          445 NHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAE  522 (580)
Q Consensus       445 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~  522 (580)
                      ...|++++|.+.+++++.....+.....+..+...+...|++++|...+++. ...| +...+..+...+...|++++|.
T Consensus       110 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  189 (234)
T TIGR02521       110 CQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKDAR  189 (234)
T ss_pred             HHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHHHH
Confidence            8999999999999997753333334556777888899999999999999887 2333 5667888899999999999999


Q ss_pred             HHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 041384          523 MLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAK  565 (580)
Q Consensus       523 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (580)
                      ..++++.+..|.++..+..++..+...|+.++|..+.+.+.+.
T Consensus       190 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       190 AYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            9999999988888888889999999999999999998887653

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.

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

Probab=99.44  E-value=4.2e-09  Score=95.25  Aligned_cols=282  Identities=12%  Similarity=0.112  Sum_probs=155.4

Q ss_pred             HHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCC------ChhhHHHHHHHHHhCCC
Q 041384          240 ACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVK------DVVIWSSIIRGYSQSGD  313 (580)
Q Consensus       240 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~l~~~~~~~~~  313 (580)
                      ++....+.+++.+-.......|++.+...-+....+.....+ ++.|..+|+.+...      |..+|+.++-  +++.+
T Consensus       236 a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rD-fD~a~s~Feei~knDPYRl~dmdlySN~LY--v~~~~  312 (559)
T KOG1155|consen  236 AYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRD-FDQAESVFEEIRKNDPYRLDDMDLYSNVLY--VKNDK  312 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhh-HHHHHHHHHHHHhcCCCcchhHHHHhHHHH--HHhhh
Confidence            333344455555555555555555444444444444444444 55555555555433      2334444432  22221


Q ss_pred             hhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhc
Q 041384          314 LSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNE  393 (580)
Q Consensus       314 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  393 (580)
                      ..  +.++..-.-.--+--+.|..++.+-|+-.++.++|..+|+...+.+ +-....|+.+.+-|....+...|.+-++.
T Consensus       313 sk--Ls~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYRr  389 (559)
T KOG1155|consen  313 SK--LSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYRR  389 (559)
T ss_pred             HH--HHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHHH
Confidence            11  1122111111112233455555566666666777777777666654 33455666666777777777777777776


Q ss_pred             CCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCC
Q 041384          394 MAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALA  469 (580)
Q Consensus       394 ~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  469 (580)
                      ..+   .|-..|..|.++|.-.+.+.-|+-.|++....  +| |+..+..|..+|.+.++.++|++.|..++.  .-..+
T Consensus       390 Avdi~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~--kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~--~~dte  465 (559)
T KOG1155|consen  390 AVDINPRDYRAWYGLGQAYEIMKMHFYALYYFQKALEL--KPNDSRLWVALGECYEKLNRLEEAIKCYKRAIL--LGDTE  465 (559)
T ss_pred             HHhcCchhHHHHhhhhHHHHHhcchHHHHHHHHHHHhc--CCCchHHHHHHHHHHHHhccHHHHHHHHHHHHh--ccccc
Confidence            554   35556677777777777777777777777663  45 556677777777777777777777777554  22234


Q ss_pred             hhHHHHHHHHhhhcCChHHHHHHHHhCC--------CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 041384          470 IEHYACYVDLLGKSGKIEDACKVVSTMP--------MKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEA  531 (580)
Q Consensus       470 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--------~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  531 (580)
                      ...+..|.+.|.+.++.++|...|.+..        ..| .......|..-+.+.+++++|.........-
T Consensus       466 ~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~~  536 (559)
T KOG1155|consen  466 GSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVLKG  536 (559)
T ss_pred             hHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHhcC
Confidence            4566777777777777777766665441        122 1112222444455666666666655555444

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

Probab=99.44  E-value=1.5e-09  Score=100.52  Aligned_cols=495  Identities=12%  Similarity=0.006  Sum_probs=304.5

Q ss_pred             hHHHHHHhhcccchhHHHHHHHHHHHHhCCCCChhHHHHHHHHHHcCCCchHHHHhhcc--CCCCCccchHHHHHHHHhC
Q 041384           30 LPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDE--MPYRDTISWNSIINCFTQN  107 (580)
Q Consensus        30 ~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~--~~~~~~~~~~~li~~~~~~  107 (580)
                      +..+++-+.....+ ..|.-+-+.....+  .|+..--.+.+.+.-.|+++.|..+...  +...|..+.......+.+.
T Consensus        19 ~~~~~r~~l~q~~y-~~a~f~adkV~~l~--~dp~d~~~~aq~l~~~~~y~ra~~lit~~~le~~d~~cryL~~~~l~~l   95 (611)
T KOG1173|consen   19 YRRLVRDALMQHRY-KTALFWADKVAGLT--NDPADIYWLAQVLYLGRQYERAAHLITTYKLEKRDIACRYLAAKCLVKL   95 (611)
T ss_pred             HHHHHHHHHHHHhh-hHHHHHHHHHHhcc--CChHHHHHHHHHHHhhhHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHH
Confidence            44445545555555 55665555555544  4444445577778888888888887764  3467888888888888888


Q ss_pred             CChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHH
Q 041384          108 GFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRV  187 (580)
Q Consensus       108 ~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  187 (580)
                      .+++.|+.++..-.   +.-++..|-.-=.  ...=+.+.+.+       .+........+-.-...|.....+++|...
T Consensus        96 k~~~~al~vl~~~~---~~~~~f~yy~~~~--~~~l~~n~~~~-------~~~~~~essic~lRgk~y~al~n~~~ar~~  163 (611)
T KOG1173|consen   96 KEWDQALLVLGRGH---VETNPFSYYEKDA--ANTLELNSAGE-------DLMINLESSICYLRGKVYVALDNREEARDK  163 (611)
T ss_pred             HHHHHHHHHhcccc---hhhcchhhcchhh--hceeccCcccc-------cccccchhceeeeeeehhhhhccHHHHHHH
Confidence            99999988887321   0001111100000  00000000000       000111111111222334445566777777


Q ss_pred             HhcCCCCCeehHHHHHHHHHhcCChhHHHHHHHHHHHcC----CCCCHHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCC
Q 041384          188 FEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREG----VKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFD  263 (580)
Q Consensus       188 ~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~----~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  263 (580)
                      |.+....|...|..+...-..  ..-.+.+.+..+...+    .+-+......+.....-...-+.....-....-.+..
T Consensus       164 Y~~Al~~D~~c~Ea~~~lvs~--~mlt~~Ee~~ll~~l~~a~~~~ed~e~l~~lyel~~~k~~n~~~~~r~~~~sl~~l~  241 (611)
T KOG1173|consen  164 YKEALLADAKCFEAFEKLVSA--HMLTAQEEFELLESLDLAMLTKEDVERLEILYELKLCKNRNEESLTRNEDESLIGLA  241 (611)
T ss_pred             HHHHHhcchhhHHHHHHHHHH--HhcchhHHHHHHhcccHHhhhhhHHHHHHHHHHhhhhhhccccccccCchhhhhhhh
Confidence            766655555544443321111  1111212222222111    0112222222222110000000000000001112233


Q ss_pred             CchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCC---ChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHH
Q 041384          264 FDHHLSAALMHMYCECTEALHPARIIFERTKVK---DVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAIL  340 (580)
Q Consensus       264 ~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll  340 (580)
                      .+..+...-.+.+....+ +....++++...+.   +...+..-|.++...|+..+-..+=.++.+.- +-...+|-++.
T Consensus       242 ~~~dll~~~ad~~y~~c~-f~~c~kit~~lle~dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~aVg  319 (611)
T KOG1173|consen  242 ENLDLLAEKADRLYYGCR-FKECLKITEELLEKDPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWFAVG  319 (611)
T ss_pred             hcHHHHHHHHHHHHHcCh-HHHHHHHhHHHHhhCCCCcchHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchhhHH
Confidence            445555555566666666 77777777766543   44456666778889999888888888888663 44556888888


Q ss_pred             HHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCC--C-CcchHHHHHHHHHhcCChHH
Q 041384          341 SSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAA--R-DFVSWTTLISGYGFHGYGEE  417 (580)
Q Consensus       341 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~  417 (580)
                      --|...|..++|.++|.+....... -...|-.+.+.|.-.|+-+.|...+....+  + .-..+--+..-|.+.++.+.
T Consensus       320 ~YYl~i~k~seARry~SKat~lD~~-fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n~kL  398 (611)
T KOG1173|consen  320 CYYLMIGKYSEARRYFSKATTLDPT-FGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNNLKL  398 (611)
T ss_pred             HHHHHhcCcHHHHHHHHHHhhcCcc-ccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhccHHH
Confidence            8888889999999999987754422 245678888999999999999988876654  2 22233335556788999999


Q ss_pred             HHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhC-----CCCChhHHHHHHHHhhhcCChHHHHH
Q 041384          418 ALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETLFNNVMKEKK-----IALAIEHYACYVDLLGKSGKIEDACK  491 (580)
Q Consensus       418 a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~g~~~~A~~  491 (580)
                      |.+.|.+...  +-| |+..++-+.-.....+.+.+|..+|+..+....     ......+++.|..+|.+.+.+++|+.
T Consensus       399 Ae~Ff~~A~a--i~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~  476 (611)
T KOG1173|consen  399 AEKFFKQALA--IAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAID  476 (611)
T ss_pred             HHHHHHHHHh--cCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHH
Confidence            9999999887  456 677788887777888999999999998763111     11235568899999999999999999


Q ss_pred             HHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHH
Q 041384          492 VVSTMP--MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVC  546 (580)
Q Consensus       492 ~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  546 (580)
                      .+++.-  .+.+..++.++.-.|...|+++.|...|.+++-+.|+|..+-..|..+.
T Consensus       477 ~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~lL~~ai  533 (611)
T KOG1173|consen  477 YYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISELLKLAI  533 (611)
T ss_pred             HHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHHHHHHH
Confidence            999882  4568899999999999999999999999999999999988766666544

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.44  E-value=1.9e-09  Score=93.99  Aligned_cols=177  Identities=10%  Similarity=0.085  Sum_probs=79.9

Q ss_pred             hhcccchhHHHHHHHHHHHHhCCCCChhHHHHHHHHHHcCCCchHHHHhhccCC---CCCccchHHHHHHHHhCCChhHH
Q 041384           37 CAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEMP---YRDTISWNSIINCFTQNGFYVRS  113 (580)
Q Consensus        37 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~a  113 (580)
                      +...+|+ ..|..+++.-...+-+-...+-..+...+-+.|++++|...+..+.   .++...+-.|.-.+.-.|.+.+|
T Consensus        32 fls~rDy-tGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~~~~~el~vnLAcc~FyLg~Y~eA  110 (557)
T KOG3785|consen   32 FLSNRDY-TGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKDDAPAELGVNLACCKFYLGQYIEA  110 (557)
T ss_pred             HHhcccc-hhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccCCCCcccchhHHHHHHHHHHHHHH
Confidence            3344555 5555555544433322222222233344455666666666665543   22333344444444444555555


Q ss_pred             HHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCC
Q 041384          114 LEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVI  193 (580)
Q Consensus       114 ~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  193 (580)
                      ..+-....+     ++-.-..++...-+.++-++-..+.+.+.+      ...-..+|.......-++.+|+.++.++..
T Consensus       111 ~~~~~ka~k-----~pL~~RLlfhlahklndEk~~~~fh~~LqD------~~EdqLSLAsvhYmR~HYQeAIdvYkrvL~  179 (557)
T KOG3785|consen  111 KSIAEKAPK-----TPLCIRLLFHLAHKLNDEKRILTFHSSLQD------TLEDQLSLASVHYMRMHYQEAIDVYKRVLQ  179 (557)
T ss_pred             HHHHhhCCC-----ChHHHHHHHHHHHHhCcHHHHHHHHHHHhh------hHHHHHhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            554433211     222223333344445555444444444322      112233444444444556666666666533


Q ss_pred             C--CeehHHHH-HHHHHhcCChhHHHHHHHHHHHc
Q 041384          194 R--NEVSWTAM-ISGCIDSQNYDTGIDLFRAMQRE  225 (580)
Q Consensus       194 ~--~~~~~~~l-i~~~~~~~~~~~a~~~~~~m~~~  225 (580)
                      .  +-...|.. .-+|.+..-++-+.++++-....
T Consensus       180 dn~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q  214 (557)
T KOG3785|consen  180 DNPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ  214 (557)
T ss_pred             cChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh
Confidence            2  22333332 23455556666666666555543

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

Probab=99.39  E-value=1.6e-09  Score=96.28  Aligned_cols=259  Identities=13%  Similarity=0.078  Sum_probs=201.0

Q ss_pred             hhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHh
Q 041384          299 VIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMY  378 (580)
Q Consensus       299 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  378 (580)
                      ..|-.-+.+-.+.|+.+.+-.++.+..+.--.++...+-+........|+.+.|..-+.++.+.+ +-++.......++|
T Consensus       119 l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~v~~ll~~~-pr~~~vlrLa~r~y  197 (400)
T COG3071         119 LAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARENVDQLLEMT-PRHPEVLRLALRAY  197 (400)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHHHHHHHHhC-cCChHHHHHHHHHH
Confidence            34555556777889999999999998876445666677777888899999999999999999876 44567778899999


Q ss_pred             HhcCCHHHHHHHHhcCCCCCc-----------chHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcc
Q 041384          379 SKCGSITSSHQIFNEMAARDF-----------VSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHA  447 (580)
Q Consensus       379 ~~~g~~~~A~~~~~~~~~~~~-----------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~  447 (580)
                      .+.|++.....++..+.+...           .+|+.++.-....+..+.-...|+..... .+-++..-..++.-+...
T Consensus       198 ~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~-lr~~p~l~~~~a~~li~l  276 (400)
T COG3071         198 IRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPRK-LRNDPELVVAYAERLIRL  276 (400)
T ss_pred             HHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhccHH-hhcChhHHHHHHHHHHHc
Confidence            999999999999999987422           36777777777666666666677776554 455677777888889999


Q ss_pred             CCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 041384          448 GLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM--PMKPSTRILSSLVSACRIHGRLEVAEMLA  525 (580)
Q Consensus       448 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~~~~~~A~~~~  525 (580)
                      |+.++|.++.++.++ ++..|+.   ..++ ...+-++...-++..++.  ..+.++..+.+|...|.+.+.+.+|...|
T Consensus       277 ~~~~~A~~~i~~~Lk-~~~D~~L---~~~~-~~l~~~d~~~l~k~~e~~l~~h~~~p~L~~tLG~L~~k~~~w~kA~~~l  351 (400)
T COG3071         277 GDHDEAQEIIEDALK-RQWDPRL---CRLI-PRLRPGDPEPLIKAAEKWLKQHPEDPLLLSTLGRLALKNKLWGKASEAL  351 (400)
T ss_pred             CChHHHHHHHHHHHH-hccChhH---HHHH-hhcCCCCchHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhHHHHHHHHH
Confidence            999999999999887 5666652   2222 234566666555555544  12335578899999999999999999999


Q ss_pred             HHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 041384          526 HQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAK  565 (580)
Q Consensus       526 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (580)
                      +.+.+..|... .|..++.++.+.|+.++|.+..++....
T Consensus       352 eaAl~~~~s~~-~~~~la~~~~~~g~~~~A~~~r~e~L~~  390 (400)
T COG3071         352 EAALKLRPSAS-DYAELADALDQLGEPEEAEQVRREALLL  390 (400)
T ss_pred             HHHHhcCCChh-hHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            98888887554 4999999999999999999999887644

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

Probab=99.38  E-value=2.3e-09  Score=92.40  Aligned_cols=288  Identities=13%  Similarity=0.122  Sum_probs=152.2

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCCch--HHHhHHHHHhHhcCCHHHH
Q 041384          107 NGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSV--FVSTALLDLYSKCHHWLIA  184 (580)
Q Consensus       107 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a  184 (580)
                      +++.++|.++|-+|.+.. +-+..+-.+|-+.+.+.|..+.|+.+++.+.++...+.+.  ...-.|..-|...|-+|.|
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            456778888888887642 2233444556667777777777777777776654222222  1233445555666666666


Q ss_pred             HHHHhcCCCCC---eehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHHHhc
Q 041384          185 LRVFEQMVIRN---EVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCG  261 (580)
Q Consensus       185 ~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  261 (580)
                      +.+|..+.+..   ..+...|+..|-...++++|+++-.++.+.+-.+...    -|                       
T Consensus       127 E~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~----eI-----------------------  179 (389)
T COG2956         127 EDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRV----EI-----------------------  179 (389)
T ss_pred             HHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchh----HH-----------------------
Confidence            66666554422   2234445555656666666666655555543222111    00                       


Q ss_pred             CCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHH-HHHHHH
Q 041384          262 FDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSV-TLLAIL  340 (580)
Q Consensus       262 ~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~ll  340 (580)
                                 .                         ..|.-+...+....+.+.|..++.+..+.+  |+.+ .--.+.
T Consensus       180 -----------A-------------------------qfyCELAq~~~~~~~~d~A~~~l~kAlqa~--~~cvRAsi~lG  221 (389)
T COG2956         180 -----------A-------------------------QFYCELAQQALASSDVDRARELLKKALQAD--KKCVRASIILG  221 (389)
T ss_pred             -----------H-------------------------HHHHHHHHHHhhhhhHHHHHHHHHHHHhhC--ccceehhhhhh
Confidence                       0                         112333444444555666666666655442  2222 112233


Q ss_pred             HHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCC--CCcchHHHHHHHHHhcCChHHH
Q 041384          341 SSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAA--RDFVSWTTLISGYGFHGYGEEA  418 (580)
Q Consensus       341 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a  418 (580)
                      +.....|+++.|.+.++.+.+.+...-..+...|..+|...|+.++....+..+.+  ++...-..+...-....-.+.|
T Consensus       222 ~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~~~~l~l~~lie~~~G~~~A  301 (389)
T COG2956         222 RVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGADAELMLADLIELQEGIDAA  301 (389)
T ss_pred             HHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCccHHHHHHHHHHHhhChHHH
Confidence            44455566666666666666555444555556666666666666666666555544  2333333343333344445556


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHhc---cCCHHHHHHHHHHHHH
Q 041384          419 LQLFLEMQESGVEPDAITVLAILSACNH---AGLVKEAETLFNNVMK  462 (580)
Q Consensus       419 ~~~~~~~~~~g~~p~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~  462 (580)
                      ...+.+-...  +|+...+..++.....   .|...+-+..+.+|+.
T Consensus       302 q~~l~~Ql~r--~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvg  346 (389)
T COG2956         302 QAYLTRQLRR--KPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVG  346 (389)
T ss_pred             HHHHHHHHhh--CCcHHHHHHHHHhhhccccccchhhhHHHHHHHHH
Confidence            5555555443  6777777777776543   3345555555555443

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

Probab=99.38  E-value=2.6e-08  Score=93.01  Aligned_cols=249  Identities=14%  Similarity=0.152  Sum_probs=148.6

Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHH---HhhccCC-hH-HHHHHHHHH-----------HHhCCCC
Q 041384          303 SIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILS---SCTRQSF-LS-HGLGVHCYI-----------MKAGLNF  366 (580)
Q Consensus       303 ~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~---~~~~~~~-~~-~a~~~~~~~-----------~~~~~~~  366 (580)
                      .|.-.+...|+.++|..++....... .+|.........   +...-.+ ++ .++..++..           ......-
T Consensus       229 QlayVlQ~~Gqt~ea~~iy~~~i~~~-~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~  307 (652)
T KOG2376|consen  229 QLAYVLQLQGQTAEASSIYVDIIKRN-PADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQ  307 (652)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHHhc-CCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            34556778899999999999998876 445433222222   1111111 11 111111111           1111011


Q ss_pred             chhHHHHHHHHhHhcCCHHHHHHHHhcCCCCC-cchHHHHHHHHHh--cCChHHHHHHHHHHHHcCCCCCH--HHHHHHH
Q 041384          367 DVSIGNALMNMYSKCGSITSSHQIFNEMAARD-FVSWTTLISGYGF--HGYGEEALQLFLEMQESGVEPDA--ITVLAIL  441 (580)
Q Consensus       367 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~g~~p~~--~~~~~l~  441 (580)
                      ....-+.++..|.  +..+.+.++-..+.... ...+..++....+  ......+.+++...-+.  .|..  ......+
T Consensus       308 ~i~~N~~lL~l~t--nk~~q~r~~~a~lp~~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~--~p~~s~~v~L~~a  383 (652)
T KOG2376|consen  308 AIYRNNALLALFT--NKMDQVRELSASLPGMSPESLFPILLQEATKVREKKHKKAIELLLQFADG--HPEKSKVVLLLRA  383 (652)
T ss_pred             HHHHHHHHHHHHh--hhHHHHHHHHHhCCccCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhcc--CCchhHHHHHHHH
Confidence            1111233344333  55667777777666543 3344455444322  23467788888777665  4544  4455556


Q ss_pred             HHHhccCCHHHHHHHHH--------HHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC-----CCCCHHHHHHH
Q 041384          442 SACNHAGLVKEAETLFN--------NVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP-----MKPSTRILSSL  508 (580)
Q Consensus       442 ~~~~~~~~~~~a~~~~~--------~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~p~~~~~~~l  508 (580)
                      ......|+++.|.+++.        . +.+.+..|  .+...+...+.+.++.+.|..++.+..     ..+.......+
T Consensus       384 Ql~is~gn~~~A~~il~~~~~~~~ss-~~~~~~~P--~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~  460 (652)
T KOG2376|consen  384 QLKISQGNPEVALEILSLFLESWKSS-ILEAKHLP--GTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSL  460 (652)
T ss_pred             HHHHhcCCHHHHHHHHHHHhhhhhhh-hhhhccCh--hHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhH
Confidence            66788999999999999        4 22244444  445667778888887776766666551     22333333333


Q ss_pred             ----HHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHH
Q 041384          509 ----VSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWR  560 (580)
Q Consensus       509 ----~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  560 (580)
                          ...-.+.|+-++|..+++++.+.+|++..+...++.+|++ =+.+.|..+-+
T Consensus       461 ~~~aa~f~lr~G~~~ea~s~leel~k~n~~d~~~l~~lV~a~~~-~d~eka~~l~k  515 (652)
T KOG2376|consen  461 MREAAEFKLRHGNEEEASSLLEELVKFNPNDTDLLVQLVTAYAR-LDPEKAESLSK  515 (652)
T ss_pred             HHHHhHHHHhcCchHHHHHHHHHHHHhCCchHHHHHHHHHHHHh-cCHHHHHHHhh
Confidence                3334577999999999999999999999999999998865 46667766544

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.37  E-value=7.5e-10  Score=105.65  Aligned_cols=255  Identities=18%  Similarity=0.164  Sum_probs=157.4

Q ss_pred             HHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCCChh-hHHHHHHHHH
Q 041384          231 RVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVV-IWSSIIRGYS  309 (580)
Q Consensus       231 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~l~~~~~  309 (580)
                      ..+...+...|...|+++.|..+++..++.                         ..+.+. ...+.+. ..+.+...|.
T Consensus       199 ~~~~~~La~~y~~~g~~e~A~~l~k~Al~~-------------------------l~k~~G-~~hl~va~~l~~~a~~y~  252 (508)
T KOG1840|consen  199 LRTLRNLAEMYAVQGRLEKAEPLCKQALRI-------------------------LEKTSG-LKHLVVASMLNILALVYR  252 (508)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHH-------------------------HHHccC-ccCHHHHHHHHHHHHHHH
Confidence            345555777788888888888887776543                         101000 0011111 1223445566


Q ss_pred             hCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHH
Q 041384          310 QSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQ  389 (580)
Q Consensus       310 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  389 (580)
                      ..+++++|..+|+++..-                            ++.......+.-..+++.|..+|.+.|++++|..
T Consensus       253 ~~~k~~eAv~ly~~AL~i----------------------------~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~  304 (508)
T KOG1840|consen  253 SLGKYDEAVNLYEEALTI----------------------------REEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEE  304 (508)
T ss_pred             HhccHHHHHHHHHHHHHH----------------------------HHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHH
Confidence            666666666666665321                            0000001111123344556666777777777766


Q ss_pred             HHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCCHHHHHHHHHHHHHhhC--C
Q 041384          390 IFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDA-ITVLAILSACNHAGLVKEAETLFNNVMKEKK--I  466 (580)
Q Consensus       390 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~  466 (580)
                      .+                        +.|++++++..-. ..|.. ..++.+...|...+++++|..+++..++-..  +
T Consensus       305 ~~------------------------e~Al~I~~~~~~~-~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~  359 (508)
T KOG1840|consen  305 YC------------------------ERALEIYEKLLGA-SHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAP  359 (508)
T ss_pred             HH------------------------HHHHHHHHHhhcc-ChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhc
Confidence            65                        4455555552111 12222 3355566667778888888888877655332  2


Q ss_pred             CCC----hhHHHHHHHHhhhcCChHHHHHHHHhCC-------C--CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhc-
Q 041384          467 ALA----IEHYACYVDLLGKSGKIEDACKVVSTMP-------M--KPS-TRILSSLVSACRIHGRLEVAEMLAHQLIEA-  531 (580)
Q Consensus       467 ~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~--~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-  531 (580)
                      .++    ..+++.|...|...|++++|.++++++.       .  .+. ...++.|..+|.+.++..+|.++|.+.... 
T Consensus       360 g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~  439 (508)
T KOG1840|consen  360 GEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIM  439 (508)
T ss_pred             cccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHH
Confidence            222    4567788888888888888888888761       1  122 346788888998889998898888887643 


Q ss_pred             ---CC---CCchHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 041384          532 ---EP---ENAANYTLLSMVCSESGNWLGAEEVWRVMRA  564 (580)
Q Consensus       532 ---~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (580)
                         +|   +...+|..|+.+|-..|++++|.++.+....
T Consensus       440 ~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  440 KLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence               34   4455689999999999999999999887753

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

Probab=99.34  E-value=1e-08  Score=96.79  Aligned_cols=436  Identities=12%  Similarity=0.046  Sum_probs=241.1

Q ss_pred             hCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHH
Q 041384          106 QNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIAL  185 (580)
Q Consensus       106 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  185 (580)
                      ..+++...+.+.+.+.+. ..-...|....--.+...|+.++|.......++..  ..+...|..+.-.+....++++|+
T Consensus        19 E~kQYkkgLK~~~~iL~k-~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d--~~S~vCwHv~gl~~R~dK~Y~eai   95 (700)
T KOG1156|consen   19 ETKQYKKGLKLIKQILKK-FPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRND--LKSHVCWHVLGLLQRSDKKYDEAI   95 (700)
T ss_pred             HHHHHHhHHHHHHHHHHh-CCccchhHHhccchhhcccchHHHHHHHHHHhccC--cccchhHHHHHHHHhhhhhHHHHH
Confidence            456777777777777663 33344555554455667788888888888777754  667778888888888888899999


Q ss_pred             HHHhcCC---CCCeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhcCCCchhHHHHHHHHHHhc
Q 041384          186 RVFEQMV---IRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPT-RVTLTIVLLACAELRDLRNGKAIHGYAYCCG  261 (580)
Q Consensus       186 ~~~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  261 (580)
                      +.|+...   +.|...|.-+.-.-++.|+++...+.-..+.+.  .|+ ...|.....++--.|+...|..+++...+..
T Consensus        96 Kcy~nAl~~~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql--~~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~  173 (700)
T KOG1156|consen   96 KCYRNALKIEKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQL--RPSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQ  173 (700)
T ss_pred             HHHHHHHhcCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHh--hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            9988763   335666666655556777888777777776654  333 4456666667777788888888888877655


Q ss_pred             C-CCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHH-HHH
Q 041384          262 F-DFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTL-LAI  339 (580)
Q Consensus       262 ~-~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~-~~l  339 (580)
                      . .|+...+......+.+.                          ......|..+.|++.+..-...  ..|...+ .+-
T Consensus       174 ~~~~s~~~~e~se~~Ly~n--------------------------~i~~E~g~~q~ale~L~~~e~~--i~Dkla~~e~k  225 (700)
T KOG1156|consen  174 NTSPSKEDYEHSELLLYQN--------------------------QILIEAGSLQKALEHLLDNEKQ--IVDKLAFEETK  225 (700)
T ss_pred             ccCCCHHHHHHHHHHHHHH--------------------------HHHHHcccHHHHHHHHHhhhhH--HHHHHHHhhhH
Confidence            2 44444443332222211                          1122333334443333322211  1111111 111


Q ss_pred             HHHhhccCChHHHHHHHHHHHHhCCCCchhH-HHHHHHHhHhcCCHHHHH-HHHhcCCCC---CcchHHHHHHHHHhcCC
Q 041384          340 LSSCTRQSFLSHGLGVHCYIMKAGLNFDVSI-GNALMNMYSKCGSITSSH-QIFNEMAAR---DFVSWTTLISGYGFHGY  414 (580)
Q Consensus       340 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~g~~~~A~-~~~~~~~~~---~~~~~~~l~~~~~~~~~  414 (580)
                      ...+.+.+++++|..++..+....  ||..- |..+..++.+-.+.-++. .+|....+.   ....-..=+.......-
T Consensus       226 a~l~~kl~~lEeA~~~y~~Ll~rn--Pdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlplsvl~~eel  303 (700)
T KOG1156|consen  226 ADLLMKLGQLEEAVKVYRRLLERN--PDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRRLPLSVLNGEEL  303 (700)
T ss_pred             HHHHHHHhhHHhHHHHHHHHHhhC--chhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchhccHHHhCcchh
Confidence            222334444444444444444332  22222 222222222222222222 333333321   00000000000111112


Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHH---HHHhhC----------CCCChh--HHHHHHHH
Q 041384          415 GEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNN---VMKEKK----------IALAIE--HYACYVDL  479 (580)
Q Consensus       415 ~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~---~~~~~~----------~~~~~~--~~~~l~~~  479 (580)
                      .+..-.++..+.+.|+++--..+.++   |-.....+-..++...   .+...|          -+|+..  ++..++..
T Consensus       304 ~~~vdkyL~~~l~Kg~p~vf~dl~SL---yk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh  380 (700)
T KOG1156|consen  304 KEIVDKYLRPLLSKGVPSVFKDLRSL---YKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQH  380 (700)
T ss_pred             HHHHHHHHHHHhhcCCCchhhhhHHH---HhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHH
Confidence            23334455666666655432222222   2221111111111111   011110          134433  34456778


Q ss_pred             hhhcCChHHHHHHHHhC-CCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHH
Q 041384          480 LGKSGKIEDACKVVSTM-PMKPST-RILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEE  557 (580)
Q Consensus       480 ~~~~g~~~~A~~~~~~~-~~~p~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  557 (580)
                      +-+.|+++.|..+++.. ...|+. ..|..-.+.+...|++++|...++++.+++-.|..+-..-+....+.++.++|.+
T Consensus       381 ~D~~g~~~~A~~yId~AIdHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~INsKcAKYmLrAn~i~eA~~  460 (700)
T KOG1156|consen  381 YDKLGDYEVALEYIDLAIDHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTADRAINSKCAKYMLRANEIEEAEE  460 (700)
T ss_pred             HHHcccHHHHHHHHHHHhccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchhHHHHHHHHHHHHHccccHHHHH
Confidence            88899999999999887 345544 3556666778889999999999999999998888877788888889999999999


Q ss_pred             HHHHHHhCCCc-----cCCceeEEEeC
Q 041384          558 VWRVMRAKGLS-----KSYGFSRIENE  579 (580)
Q Consensus       558 ~~~~~~~~~~~-----~~~~~~~~~~~  579 (580)
                      +...+.+.|..     .+-.++|.+++
T Consensus       461 ~~skFTr~~~~~~~~L~~mqcmWf~~E  487 (700)
T KOG1156|consen  461 VLSKFTREGFGAVNNLAEMQCMWFQLE  487 (700)
T ss_pred             HHHHhhhcccchhhhHHHhhhHHHhHh
Confidence            99988887742     33446676553

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

Probab=99.33  E-value=1e-07  Score=85.12  Aligned_cols=296  Identities=10%  Similarity=0.023  Sum_probs=192.6

Q ss_pred             cCChhHHHHHHHHHHHcC-CCCCHHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHH
Q 041384          209 SQNYDTGIDLFRAMQREG-VKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPAR  287 (580)
Q Consensus       209 ~~~~~~a~~~~~~m~~~~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~  287 (580)
                      .++-..|...+-.+.... ++-+......+.+.+...|+.+++...|++....++.  ...                   
T Consensus       209 ~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy--~i~-------------------  267 (564)
T KOG1174|consen  209 NFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPD--NVE-------------------  267 (564)
T ss_pred             hcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChh--hhh-------------------
Confidence            444444444444444333 3334444556666666677766666666655433211  000                   


Q ss_pred             HHHhhCCCCChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCc
Q 041384          288 IIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFD  367 (580)
Q Consensus       288 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  367 (580)
                               ....|..   .+.+.|+.++...+...+.... .-....|-.-.......++++.|+.+-++.++.. +-+
T Consensus       268 ---------~MD~Ya~---LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~-~r~  333 (564)
T KOG1174|consen  268 ---------AMDLYAV---LLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSE-PRN  333 (564)
T ss_pred             ---------hHHHHHH---HHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccC-ccc
Confidence                     0011222   2345566666666666554322 1112222222333345667777777777666543 223


Q ss_pred             hhHHHHHHHHhHhcCCHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHH-HH
Q 041384          368 VSIGNALMNMYSKCGSITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAIL-SA  443 (580)
Q Consensus       368 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~-~~  443 (580)
                      ...+-.-..++...|+.++|.-.|+....   -+..+|..|+.+|...|++.+|.-+-+..... ++.+..+.+.+. ..
T Consensus       334 ~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V  412 (564)
T KOG1174|consen  334 HEALILKGRLLIALERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLV  412 (564)
T ss_pred             chHHHhccHHHHhccchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhccee
Confidence            34444444567778889998888886553   36789999999999999999999888777664 445666766663 34


Q ss_pred             Hhc-cCCHHHHHHHHHHHHHhhCCCCC-hhHHHHHHHHhhhcCChHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHH
Q 041384          444 CNH-AGLVKEAETLFNNVMKEKKIALA-IEHYACYVDLLGKSGKIEDACKVVSTM-PMKPSTRILSSLVSACRIHGRLEV  520 (580)
Q Consensus       444 ~~~-~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~  520 (580)
                      |.- ..--++|.+++++.++   +.|+ ....+.+...+...|+.++++.++++. ...||....+.|.+.+...+.+++
T Consensus       413 ~~~dp~~rEKAKkf~ek~L~---~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~D~~LH~~Lgd~~~A~Ne~Q~  489 (564)
T KOG1174|consen  413 LFPDPRMREKAKKFAEKSLK---INPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFPDVNLHNHLGDIMRAQNEPQK  489 (564)
T ss_pred             eccCchhHHHHHHHHHhhhc---cCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhccccHHHHHHHHHHHHhhhHHH
Confidence            433 3345788888888554   5565 556778888999999999999999887 577999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCCchHHHHHH
Q 041384          521 AEMLAHQLIEAEPENAANYTLLS  543 (580)
Q Consensus       521 A~~~~~~~~~~~~~~~~~~~~l~  543 (580)
                      |.+.|..+++++|.|..+...+-
T Consensus       490 am~~y~~ALr~dP~~~~sl~Gl~  512 (564)
T KOG1174|consen  490 AMEYYYKALRQDPKSKRTLRGLR  512 (564)
T ss_pred             HHHHHHHHHhcCccchHHHHHHH
Confidence            99999999999999887665553

>PF13041 PPR_2: PPR repeat family

Probab=99.31  E-value=5.2e-12  Score=80.41  Aligned_cols=50  Identities=24%  Similarity=0.584  Sum_probs=47.1

Q ss_pred             CCeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 041384          194 RNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAE  243 (580)
Q Consensus       194 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  243 (580)
                      ||+.+||++|++|++.|++++|.++|++|.+.|+.||..||++++++|++
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            68889999999999999999999999999999999999999999999875

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

Probab=99.31  E-value=5.9e-08  Score=93.64  Aligned_cols=399  Identities=16%  Similarity=0.135  Sum_probs=253.0

Q ss_pred             CCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCCC---CeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHH-HHH
Q 041384          161 FELSVFVSTALLDLYSKCHHWLIALRVFEQMVIR---NEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVT-LTI  236 (580)
Q Consensus       161 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~-~~~  236 (580)
                      +.-|..+|..|.-+..++|+++.+.+.|++...-   ....|+.+...+...|.-..|+.+++.-....-.|+..+ +-.
T Consensus       319 ~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~Lm  398 (799)
T KOG4162|consen  319 FQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLLM  398 (799)
T ss_pred             hcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHHH
Confidence            5668888888888999999999999999987443   455788888899999999999999987665433354333 433


Q ss_pred             HHHHHh-cCCCchhHHHHHHHHHHh--cC--CCchhHHHHHHHHHHHcC---C-------CHHHHHHHHhhCCC---CCh
Q 041384          237 VLLACA-ELRDLRNGKAIHGYAYCC--GF--DFDHHLSAALMHMYCECT---E-------ALHPARIIFERTKV---KDV  298 (580)
Q Consensus       237 ll~~~~-~~~~~~~a~~~~~~~~~~--~~--~~~~~~~~~l~~~~~~~~---~-------~~~~a~~~~~~~~~---~~~  298 (580)
                      .-..|. +.+..+++..+-.++...  +.  ...+..+..+.-+|...-   .       ....+...+++...   .|+
T Consensus       399 asklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~dp  478 (799)
T KOG4162|consen  399 ASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPTDP  478 (799)
T ss_pred             HHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCCCc
Confidence            334443 457777777777776662  21  123334444444444211   0       01122223333321   122


Q ss_pred             hhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHH-hCCCCchhHHHHHHHH
Q 041384          299 VIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMK-AGLNFDVSIGNALMNM  377 (580)
Q Consensus       299 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~  377 (580)
                      ...--+.--|+..++.+.|++..++..+.+-.-+...+..+.-.+...+++..|+.+.+.... .|......  ..-++.
T Consensus       479 ~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~l~--~~~~~i  556 (799)
T KOG4162|consen  479 LVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHVLM--DGKIHI  556 (799)
T ss_pred             hHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhhhc--hhhhhh
Confidence            222223334667788999999999998887678888888888888999999999999887665 33211100  000111


Q ss_pred             hHhcCCHHHHHHH-------Hh-------------------cCCC-----CC-cchHHHHHHHHHhcCChHHHHHHHHHH
Q 041384          378 YSKCGSITSSHQI-------FN-------------------EMAA-----RD-FVSWTTLISGYGFHGYGEEALQLFLEM  425 (580)
Q Consensus       378 ~~~~g~~~~A~~~-------~~-------------------~~~~-----~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~  425 (580)
                      -..-++.+++...       |+                   .+.-     .+ +.++..+.......+  ..+..-.. +
T Consensus       557 ~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~--~~~~se~~-L  633 (799)
T KOG4162|consen  557 ELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQL--KSAGSELK-L  633 (799)
T ss_pred             hhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhh--hhcccccc-c
Confidence            1112333333332       22                   1110     01 122222222211111  00000000 1


Q ss_pred             HHcCCCC--CH------HHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-
Q 041384          426 QESGVEP--DA------ITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-  496 (580)
Q Consensus       426 ~~~g~~p--~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-  496 (580)
                      ...-+.|  +.      ..+......+.+.+..++|...+.++-+  ..+.....|......+...|.+++|.+.|... 
T Consensus       634 p~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~--~~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al  711 (799)
T KOG4162|consen  634 PSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASK--IDPLSASVYYLRGLLLEVKGQLEEAKEAFLVAL  711 (799)
T ss_pred             CcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHh--cchhhHHHHHHhhHHHHHHHhhHHHHHHHHHHH
Confidence            1111222  21      1234455667788888999888877432  34445667777788889999999999988877 


Q ss_pred             CCCC-CHHHHHHHHHHHHhcCCHHHHHH--HHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 041384          497 PMKP-STRILSSLVSACRIHGRLEVAEM--LAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       497 ~~~p-~~~~~~~l~~~~~~~~~~~~A~~--~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      ...| ++.+..++...+.+.|+..-|..  ++..+.+.+|.++.+|..++.++-+.|+.++|.+.|+......
T Consensus       712 ~ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe  784 (799)
T KOG4162|consen  712 ALDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLE  784 (799)
T ss_pred             hcCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhc
Confidence            4566 56788999999999998877777  9999999999999999999999999999999999999887754

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.30  E-value=8.1e-08  Score=84.04  Aligned_cols=463  Identities=12%  Similarity=0.068  Sum_probs=264.8

Q ss_pred             HHHHHcCCCchHHHHhhccCCCC---Cc-cchHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCc
Q 041384           70 ISMYAKFSKPESAYQLFDEMPYR---DT-ISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGEL  145 (580)
Q Consensus        70 ~~~~~~~g~~~~A~~~~~~~~~~---~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~  145 (580)
                      +.-+...+++..|+.+++.-...   .. .+--.+..++.+.|++++|+..+..+.+.. .|+...+..+.-+.--.|.+
T Consensus        29 Ledfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg~Y  107 (557)
T KOG3785|consen   29 LEDFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLGQY  107 (557)
T ss_pred             HHHHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHHHH
Confidence            33455567888888888765421   11 222335566778999999999999988754 55666666666666667888


Q ss_pred             HHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCCCCeehHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 041384          146 ELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQRE  225 (580)
Q Consensus       146 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  225 (580)
                      .+|+.+-...      +.+......|.+...+.++-++-..+-+.+.... .---+|.+.....-.+++|++++++....
T Consensus       108 ~eA~~~~~ka------~k~pL~~RLlfhlahklndEk~~~~fh~~LqD~~-EdqLSLAsvhYmR~HYQeAIdvYkrvL~d  180 (557)
T KOG3785|consen  108 IEAKSIAEKA------PKTPLCIRLLFHLAHKLNDEKRILTFHSSLQDTL-EDQLSLASVHYMRMHYQEAIDVYKRVLQD  180 (557)
T ss_pred             HHHHHHHhhC------CCChHHHHHHHHHHHHhCcHHHHHHHHHHHhhhH-HHHHhHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            8888776642      3444455566677777888777776666553332 11223333333344689999999998765


Q ss_pred             CCCCCHHHHHHHH-HHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHH--cCC-CHHHHHHHHhhCCCCChhhH
Q 041384          226 GVKPTRVTLTIVL-LACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCE--CTE-ALHPARIIFERTKVKDVVIW  301 (580)
Q Consensus       226 ~~~p~~~~~~~ll-~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~-~~~~a~~~~~~~~~~~~~~~  301 (580)
                        .|.-...+.-+ -+|.+..-++-+.++++-.++.- +.++...+.......+  .|+ +.++...+-+.....    |
T Consensus       181 --n~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q~-pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~----~  253 (557)
T KOG3785|consen  181 --NPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQF-PDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQE----Y  253 (557)
T ss_pred             --ChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHhC-CCcHHHHHHHHHHHhhhhccchhHHHHHHHHhccccc----c
Confidence              34545554433 34566666777777776655542 2222222222222222  222 112222222222211    1


Q ss_pred             HHHHHHHHh-----CCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 041384          302 SSIIRGYSQ-----SGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMN  376 (580)
Q Consensus       302 ~~l~~~~~~-----~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  376 (580)
                      . .+.-+++     -.+-+.|++++-.+.+.  .|..  -..++--|.+.+++.+|..+.+++.  ...|-..+...++.
T Consensus       254 ~-f~~~l~rHNLVvFrngEgALqVLP~L~~~--IPEA--RlNL~iYyL~q~dVqeA~~L~Kdl~--PttP~EyilKgvv~  326 (557)
T KOG3785|consen  254 P-FIEYLCRHNLVVFRNGEGALQVLPSLMKH--IPEA--RLNLIIYYLNQNDVQEAISLCKDLD--PTTPYEYILKGVVF  326 (557)
T ss_pred             h-hHHHHHHcCeEEEeCCccHHHhchHHHhh--ChHh--hhhheeeecccccHHHHHHHHhhcC--CCChHHHHHHHHHH
Confidence            1 1122222     23446677766655532  3332  2345556778888888877766543  11222222222221


Q ss_pred             H-----hHhcCCHHHHHHHHhcCCCC-----CcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 041384          377 M-----YSKCGSITSSHQIFNEMAAR-----DFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNH  446 (580)
Q Consensus       377 ~-----~~~~g~~~~A~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~  446 (580)
                      +     ......+.-|.+.|+-.-+.     .+.--.++.+.+.-..++++.+-.+..+.+- +..|....-.+..+.+.
T Consensus       327 aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sY-F~NdD~Fn~N~AQAk~a  405 (557)
T KOG3785|consen  327 AALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESY-FTNDDDFNLNLAQAKLA  405 (557)
T ss_pred             HHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHH-hcCcchhhhHHHHHHHH
Confidence            1     11122345566666654432     3334566777777777888888888877775 23333333346778888


Q ss_pred             cCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCCCCCCHHH-HHHHHHHHHhcCCHHHHHHHH
Q 041384          447 AGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRI-LSSLVSACRIHGRLEVAEMLA  525 (580)
Q Consensus       447 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~-~~~l~~~~~~~~~~~~A~~~~  525 (580)
                      .|++.+|.++|-. +....++.+..-...|.++|.+++.++-|+.++-++..+.+..+ +..+.+.|.+.+.+=-|-..|
T Consensus       406 tgny~eaEelf~~-is~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t~~e~fsLLqlIAn~CYk~~eFyyaaKAF  484 (557)
T KOG3785|consen  406 TGNYVEAEELFIR-ISGPEIKNKILYKSMLARCYIRNKKPQLAWDMMLKTNTPSERFSLLQLIANDCYKANEFYYAAKAF  484 (557)
T ss_pred             hcChHHHHHHHhh-hcChhhhhhHHHHHHHHHHHHhcCCchHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            8888888888877 44333444444445677888888888888888887763334433 344556678888888888888


Q ss_pred             HHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 041384          526 HQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       526 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      +.+...+|.... |         .|+-....-+|.++....
T Consensus       485 d~lE~lDP~pEn-W---------eGKRGACaG~f~~l~~~~  515 (557)
T KOG3785|consen  485 DELEILDPTPEN-W---------EGKRGACAGLFRQLANHK  515 (557)
T ss_pred             hHHHccCCCccc-c---------CCccchHHHHHHHHHcCC
Confidence            888777765333 2         344444455565554443

>PRK12370 invasion protein regulator; Provisional

Probab=99.30  E-value=1.3e-09  Score=109.38  Aligned_cols=242  Identities=16%  Similarity=0.076  Sum_probs=175.7

Q ss_pred             ChhHHHHHHHHHHHCCCCCCH-HHHHHHHHHhh---------ccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcC
Q 041384          313 DLSEAMKLFSRMRLERIEPNS-VTLLAILSSCT---------RQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCG  382 (580)
Q Consensus       313 ~~~~a~~~~~~m~~~~~~p~~-~~~~~ll~~~~---------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  382 (580)
                      +.++|...|++..+.  .|+. ..+..+..++.         ..+++++|...+++..+.. +-+...+..+...+...|
T Consensus       276 ~~~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~~g  352 (553)
T PRK12370        276 SLQQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELD-HNNPQALGLLGLINTIHS  352 (553)
T ss_pred             HHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcc
Confidence            467899999988866  4543 44444444332         2345789999999888765 446777788888889999


Q ss_pred             CHHHHHHHHhcCCC--C-CcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCCHHHHHHHHH
Q 041384          383 SITSSHQIFNEMAA--R-DFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDA-ITVLAILSACNHAGLVKEAETLFN  458 (580)
Q Consensus       383 ~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~  458 (580)
                      ++++|...|++..+  | +...+..+...+...|++++|+..+++..+.  .|+. ..+..++..+...|++++|...++
T Consensus       353 ~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l--~P~~~~~~~~~~~~~~~~g~~eeA~~~~~  430 (553)
T PRK12370        353 EYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLKL--DPTRAAAGITKLWITYYHTGIDDAIRLGD  430 (553)
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCChhhHHHHHHHHHhccCHHHHHHHHH
Confidence            99999999998776  3 4457888889999999999999999999985  5653 333344555677899999999999


Q ss_pred             HHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC-CCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhcC---C
Q 041384          459 NVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP-MKPST-RILSSLVSACRIHGRLEVAEMLAHQLIEAE---P  533 (580)
Q Consensus       459 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~---~  533 (580)
                      ++++. ..+-+...+..+..+|...|+.++|...+.++. ..|+. ...+.+...|...|  +.|...++.+.+..   |
T Consensus       431 ~~l~~-~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~~  507 (553)
T PRK12370        431 ELRSQ-HLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQRID  507 (553)
T ss_pred             HHHHh-ccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHhh
Confidence            96642 222235557778889999999999999999873 34543 44556666677777  47788777776644   4


Q ss_pred             CCchHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 041384          534 ENAANYTLLSMVCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       534 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      .++..   +...|.-.|+-+.+... +++.+.+
T Consensus       508 ~~~~~---~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        508 NNPGL---LPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             cCchH---HHHHHHHHhhhHHHHHH-HHhhccc
Confidence            44443   55566777888877766 7777654

>PF13041 PPR_2: PPR repeat family

Probab=99.28  E-value=1.2e-11  Score=78.73  Aligned_cols=50  Identities=34%  Similarity=0.667  Sum_probs=43.5

Q ss_pred             CChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhc
Q 041384          296 KDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTR  345 (580)
Q Consensus       296 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  345 (580)
                      ||+.+||++|++|++.|++++|.++|++|.+.|+.||..||+.+|.+|++
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            67888888888888888888899999998888888888888888888864

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

Probab=99.26  E-value=1.8e-06  Score=82.01  Aligned_cols=260  Identities=14%  Similarity=0.117  Sum_probs=156.6

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHH-HHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhH
Q 041384          301 WSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSV-TLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYS  379 (580)
Q Consensus       301 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  379 (580)
                      +-.++..+-..|+++.|+.+++.....  .|+.. -|..-.+.+...|+++.|..++++..+.. .+|..+-.--.....
T Consensus       374 ~y~laqh~D~~g~~~~A~~yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD-~aDR~INsKcAKYmL  450 (700)
T KOG1156|consen  374 LYFLAQHYDKLGDYEVALEYIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD-TADRAINSKCAKYML  450 (700)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc-chhHHHHHHHHHHHH
Confidence            334677888999999999999988755  67654 45555677888999999999999988766 566655556667777


Q ss_pred             hcCCHHHHHHHHhcCCCCCcch----------HHHH--HHHHHhcCChHHHHHHHHHHHHc--CC---CCCHHH------
Q 041384          380 KCGSITSSHQIFNEMAARDFVS----------WTTL--ISGYGFHGYGEEALQLFLEMQES--GV---EPDAIT------  436 (580)
Q Consensus       380 ~~g~~~~A~~~~~~~~~~~~~~----------~~~l--~~~~~~~~~~~~a~~~~~~~~~~--g~---~p~~~~------  436 (580)
                      +.++.++|.++.....+.+...          |-.+  ..+|.+.|++..|++-|..+...  .+   +-|-.|      
T Consensus       451 rAn~i~eA~~~~skFTr~~~~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i~k~~~~~~~dqfDfhtyc~rk~  530 (700)
T KOG1156|consen  451 RANEIEEAEEVLSKFTREGFGAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHEIEKHYKTWSEDQFDFHTYCMRKG  530 (700)
T ss_pred             HccccHHHHHHHHHhhhcccchhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhHHHHHHHHhhhhhhHHHHHHhcC
Confidence            8899999999988877643222          2222  34567777777777665554432  01   222222      


Q ss_pred             ----HHHHHHHHhccC-------CHHHHHHHHHHHHHhhC-CCCChhHHHHHH----HHhhhcC-ChHHHHHHHHhC---
Q 041384          437 ----VLAILSACNHAG-------LVKEAETLFNNVMKEKK-IALAIEHYACYV----DLLGKSG-KIEDACKVVSTM---  496 (580)
Q Consensus       437 ----~~~l~~~~~~~~-------~~~~a~~~~~~~~~~~~-~~~~~~~~~~l~----~~~~~~g-~~~~A~~~~~~~---  496 (580)
                          |.-|+.-.-...       -...|++++-.+..... ..+.......+-    ....++. +-.+|.+--..+   
T Consensus       531 tlrsYv~ll~~~d~L~~~p~y~~Aa~~Ai~iYl~l~d~p~~~~~~~~~~~~ms~e~kk~~~k~rk~~kk~~~e~~~~~~~  610 (700)
T KOG1156|consen  531 TLRSYVELLEWEDNLRSSPYYLRAAKGAIEIYLRLHDSPNMYTNKADEIEKMSDEEKKIKKKQRKAKKKAKKEAKKKKDK  610 (700)
T ss_pred             cHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcCcccccccchhhhhccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                333333221111       12345556555433220 001111111111    1111111 111111111111   


Q ss_pred             -----------CCCCCHHHHHHHHHHHHhcCC-HHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 041384          497 -----------PMKPSTRILSSLVSACRIHGR-LEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRA  564 (580)
Q Consensus       497 -----------~~~p~~~~~~~l~~~~~~~~~-~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (580)
                                 +..||..   -+...+.+..+ .++|..++.......+.+...|..-...|.+.|.+.-+.+.+.++..
T Consensus       611 ~~~~~~s~~~~~~~~d~~---~~gekL~~t~~Pl~ea~kf~~~l~~~~~~~~~~~iL~~ely~rk~k~~l~~~~~~~~~~  687 (700)
T KOG1156|consen  611 KKKEAKSQSGKPVDIDED---PFGEKLLKTEDPLEEARKFLPNLQHKGKEKGETYILSFELYYRKGKFLLALACLNNAEG  687 (700)
T ss_pred             HHhhhccccCCCCCCCCc---chhhhHhhcCChHHHHHHHHHHHHHhcccchhhhhhhHHHHHHHHHHHHHHHHHHhhhh
Confidence                       1224444   33444555555 47799999999999999999999999999999999999999988766


Q ss_pred             CC
Q 041384          565 KG  566 (580)
Q Consensus       565 ~~  566 (580)
                      ..
T Consensus       688 ~~  689 (700)
T KOG1156|consen  688 IH  689 (700)
T ss_pred             hc
Confidence            54

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

Probab=99.25  E-value=1.1e-09  Score=94.40  Aligned_cols=227  Identities=14%  Similarity=0.096  Sum_probs=133.1

Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcC
Q 041384          303 SIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCG  382 (580)
Q Consensus       303 ~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  382 (580)
                      .+.++|.+.|.+.+|.+.|+.-.+.  .|-+.||..+-.+|.+..++..|+.++.+-.+. ++.++....-..+.     
T Consensus       228 Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi-----  299 (478)
T KOG1129|consen  228 QMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARI-----  299 (478)
T ss_pred             HHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHH-----
Confidence            3555666666666666666665554  444555555555555555555555555544432 12222222223333     


Q ss_pred             CHHHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 041384          383 SITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMK  462 (580)
Q Consensus       383 ~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  462 (580)
                                                +-..++.++|.++++...+.. ..+.....++...|.-.++++.|+.++.++++
T Consensus       300 --------------------------~eam~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLq  352 (478)
T KOG1129|consen  300 --------------------------HEAMEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQ  352 (478)
T ss_pred             --------------------------HHHHHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHH
Confidence                                      334444555555555555431 22334444444455555555555555555443


Q ss_pred             hhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC---CCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCch
Q 041384          463 EKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP---MKP--STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAA  537 (580)
Q Consensus       463 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~p--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~  537 (580)
                       .|+ .++..|..+.-+|.-.++++-++.-|++..   -.|  -..+|-.+.....-.||+..|.+.|+-++..++++..
T Consensus       353 -mG~-~speLf~NigLCC~yaqQ~D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~e  430 (478)
T KOG1129|consen  353 -MGA-QSPELFCNIGLCCLYAQQIDLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGE  430 (478)
T ss_pred             -hcC-CChHHHhhHHHHHHhhcchhhhHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHH
Confidence             333 233344555555555555555555554441   122  2346666767777789999999999999999999999


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 041384          538 NYTLLSMVCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       538 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      .++.|+-.-.+.|++++|..+++......
T Consensus       431 alnNLavL~~r~G~i~~Arsll~~A~s~~  459 (478)
T KOG1129|consen  431 ALNNLAVLAARSGDILGARSLLNAAKSVM  459 (478)
T ss_pred             HHHhHHHHHhhcCchHHHHHHHHHhhhhC
Confidence            99999999999999999999998876654

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.25  E-value=3.6e-09  Score=94.66  Aligned_cols=199  Identities=17%  Similarity=0.097  Sum_probs=111.7

Q ss_pred             hhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHh
Q 041384          299 VIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMY  378 (580)
Q Consensus       299 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  378 (580)
                      ..+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|.+.++...+.. +             
T Consensus        32 ~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~-------------   96 (234)
T TIGR02521        32 KIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-P-------------   96 (234)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-C-------------
Confidence            344455555555566666666555554432 2223344444444444555555555544444332 1             


Q ss_pred             HhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHH
Q 041384          379 SKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETLF  457 (580)
Q Consensus       379 ~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~  457 (580)
                                        .+...+..+...+...|++++|.+.+++..+....| ....+..+...+...|++++|...+
T Consensus        97 ------------------~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (234)
T TIGR02521        97 ------------------NNGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYL  158 (234)
T ss_pred             ------------------CCHHHHHHHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHH
Confidence                              122344445555566666666666666665532222 2344555666667777777777777


Q ss_pred             HHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 041384          458 NNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP--MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAE  532 (580)
Q Consensus       458 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  532 (580)
                      ++.++.  .+.+...+..+...+...|++++|...+++..  .+.+...+..++..+...|+.+.|..+.+.+.+..
T Consensus       159 ~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  233 (234)
T TIGR02521       159 TRALQI--DPQRPESLLELAELYYLRGQYKDARAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQKLF  233 (234)
T ss_pred             HHHHHh--CcCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhhC
Confidence            775542  22234556667777777777777777777652  22344555566667777778888777777666543

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.

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.21  E-value=6.1e-10  Score=102.13  Aligned_cols=226  Identities=11%  Similarity=-0.009  Sum_probs=146.4

Q ss_pred             HHhCCChhHHHHHHHHHHHCC-CCCC--HHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCH
Q 041384          308 YSQSGDLSEAMKLFSRMRLER-IEPN--SVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSI  384 (580)
Q Consensus       308 ~~~~~~~~~a~~~~~~m~~~~-~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  384 (580)
                      ....+..+.++.-+.++.... ..|+  ...|..+...+...|+.++|...|+...+.. +.+...|+.+...+...|++
T Consensus        36 ~~~~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~  114 (296)
T PRK11189         36 LQPTLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNF  114 (296)
T ss_pred             cCCchHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCH
Confidence            334566777888888877543 2232  2456666677788888888888888887764 34577888888888888888


Q ss_pred             HHHHHHHhcCCC--C-CcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHH
Q 041384          385 TSSHQIFNEMAA--R-DFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVM  461 (580)
Q Consensus       385 ~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  461 (580)
                      ++|...|++..+  | +...|..+..++...|++++|++.+++..+.  .|+..........+...++.++|...+.+..
T Consensus       115 ~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~  192 (296)
T PRK11189        115 DAAYEAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRY  192 (296)
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHH
Confidence            888888887765  2 3456777778888888888888888888874  5544322222223445677888888887644


Q ss_pred             HhhCCCCChhHHHHHHHHhhhcCChHH--HHHHHHhC-CCC----C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 041384          462 KEKKIALAIEHYACYVDLLGKSGKIED--ACKVVSTM-PMK----P-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEP  533 (580)
Q Consensus       462 ~~~~~~~~~~~~~~l~~~~~~~g~~~~--A~~~~~~~-~~~----p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  533 (580)
                      .  ...|+...+ .+..  ...|+..+  +.+.+.+. ...    | ....|..+...+.+.|++++|+..|+++.+.+|
T Consensus       193 ~--~~~~~~~~~-~~~~--~~lg~~~~~~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~  267 (296)
T PRK11189        193 E--KLDKEQWGW-NIVE--FYLGKISEETLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNV  267 (296)
T ss_pred             h--hCCccccHH-HHHH--HHccCCCHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            3  223332222 2222  23444433  33323221 111    1 235677888888888888888888888888887


Q ss_pred             CCchHHHH
Q 041384          534 ENAANYTL  541 (580)
Q Consensus       534 ~~~~~~~~  541 (580)
                      ++..-+..
T Consensus       268 ~~~~e~~~  275 (296)
T PRK11189        268 YNFVEHRY  275 (296)
T ss_pred             chHHHHHH
Confidence            55444433

>PRK12370 invasion protein regulator; Provisional

Probab=99.21  E-value=2.9e-09  Score=106.94  Aligned_cols=211  Identities=16%  Similarity=0.022  Sum_probs=162.8

Q ss_pred             CChHHHHHHHHHHHHhCCCCchhHHHHHHHHhH---------hcCCHHHHHHHHhcCCCC---CcchHHHHHHHHHhcCC
Q 041384          347 SFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYS---------KCGSITSSHQIFNEMAAR---DFVSWTTLISGYGFHGY  414 (580)
Q Consensus       347 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---------~~g~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~  414 (580)
                      ++.++|...+++..+.. +-+...+..+..+|.         ..+++++|...+++..+.   +...+..+...+...|+
T Consensus       275 ~~~~~A~~~~~~Al~ld-P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP~~~~a~~~lg~~~~~~g~  353 (553)
T PRK12370        275 YSLQQALKLLTQCVNMS-PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDHNNPQALGLLGLINTIHSE  353 (553)
T ss_pred             HHHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHccC
Confidence            44678889999888764 223445555555443         234588999999987763   55678888888999999


Q ss_pred             hHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCCh-hHHHHHHHHhhhcCChHHHHHH
Q 041384          415 GEEALQLFLEMQESGVEPD-AITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAI-EHYACYVDLLGKSGKIEDACKV  492 (580)
Q Consensus       415 ~~~a~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~  492 (580)
                      +++|...+++..+.  .|+ ...+..+...+...|++++|...++++++.   .|+. ..+..++..+...|++++|+..
T Consensus       354 ~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l---~P~~~~~~~~~~~~~~~~g~~eeA~~~  428 (553)
T PRK12370        354 YIVGSLLFKQANLL--SPISADIKYYYGWNLFMAGQLEEALQTINECLKL---DPTRAAAGITKLWITYYHTGIDDAIRL  428 (553)
T ss_pred             HHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCCChhhHHHHHHHHHhccCHHHHHHH
Confidence            99999999999986  564 577888888999999999999999997763   3432 2333344456678999999999


Q ss_pred             HHhCC--CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 041384          493 VSTMP--MKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAK  565 (580)
Q Consensus       493 ~~~~~--~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (580)
                      +++..  .+| ++..+..+...+...|+.++|...++++....|.+......++..|...|  ++|...++++.+.
T Consensus       429 ~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~  502 (553)
T PRK12370        429 GDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNS--ERALPTIREFLES  502 (553)
T ss_pred             HHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccH--HHHHHHHHHHHHH
Confidence            98873  235 44557778888899999999999999998888888888999998888888  4888888877653

>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=99.21  E-value=2.4e-07  Score=89.95  Aligned_cols=254  Identities=17%  Similarity=0.131  Sum_probs=144.1

Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHHCCCCCC-HHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHh
Q 041384          302 SSIIRGYSQSGDLSEAMKLFSRMRLERIEPN-SVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSK  380 (580)
Q Consensus       302 ~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  380 (580)
                      .-+...|...|++++|+.++++.++.  .|+ +..|..-...+-+.|++.+|.+.++..+... .-|..+-+-.+..+.+
T Consensus       198 ~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD-~~DRyiNsK~aKy~LR  274 (517)
T PF12569_consen  198 YFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILKHAGDLKEAAEAMDEARELD-LADRYINSKCAKYLLR  274 (517)
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCC-hhhHHHHHHHHHHHHH
Confidence            44566677788888888888877766  455 4566667777788888888888888877755 4456666667777788


Q ss_pred             cCCHHHHHHHHhcCCCCCcc----------hH--HHHHHHHHhcCChHHHHHHHHHHHHc--CCCC---CH---------
Q 041384          381 CGSITSSHQIFNEMAARDFV----------SW--TTLISGYGFHGYGEEALQLFLEMQES--GVEP---DA---------  434 (580)
Q Consensus       381 ~g~~~~A~~~~~~~~~~~~~----------~~--~~l~~~~~~~~~~~~a~~~~~~~~~~--g~~p---~~---------  434 (580)
                      .|++++|.+++....+++..          .|  .....+|.+.|++..|+..|..+.+.  .+.-   |-         
T Consensus       275 a~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k~f~~~~~DQfDFH~Yc~RK~t  354 (517)
T PF12569_consen  275 AGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLKHFDDFEEDQFDFHSYCLRKMT  354 (517)
T ss_pred             CCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhcccccHHHHHHhhcc
Confidence            88888888888777665421          11  22356677788877777766555432  1111   21         


Q ss_pred             -HHHHHHHHHHhcc---CC----HHHHHHHHHHHHHhhCCCC-----------ChhHHHHHHHHh---hhcCChHHHHHH
Q 041384          435 -ITVLAILSACNHA---GL----VKEAETLFNNVMKEKKIAL-----------AIEHYACYVDLL---GKSGKIEDACKV  492 (580)
Q Consensus       435 -~~~~~l~~~~~~~---~~----~~~a~~~~~~~~~~~~~~~-----------~~~~~~~l~~~~---~~~g~~~~A~~~  492 (580)
                       .+|..+++..-+.   ..    ...|.+++-.+-.......           +..-...+..-.   .+...-+++.+.
T Consensus       355 ~r~Y~~~L~~ed~l~~~~~y~raa~~ai~iYl~l~d~~~~~~~~~~~~~~~~~~~~e~Kk~~kK~kK~~~k~~~~~~~~~  434 (517)
T PF12569_consen  355 LRAYVDMLRWEDKLRSHPFYRRAAKGAIRIYLELHDKPEAKQGEEQEADNENMSAAERKKAKKKAKKAAKKAKKEEAEKA  434 (517)
T ss_pred             HHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHhcCcccccccccccccccCChHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence             2222233221111   11    1234444444221110000           000001111100   111111111111


Q ss_pred             H-H----------hC----CCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHH
Q 041384          493 V-S----------TM----PMKPSTRILSSLVSACRIHG-RLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAE  556 (580)
Q Consensus       493 ~-~----------~~----~~~p~~~~~~~l~~~~~~~~-~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  556 (580)
                      - +          +.    +.+.|...   +..-+.+.. =.++|.++++-+.+..|++..+|..-..+|.+.|++-.|.
T Consensus       435 ~~~~~~~~~~~~~~~~~~~~~~~D~Dp---~GekL~~t~dPLe~A~kfl~pL~~~a~~~~et~~laFeVy~Rk~K~LLaL  511 (517)
T PF12569_consen  435 AKKEPKKQQNKSKKKEKVEPKKKDDDP---LGEKLLKTEDPLEEAMKFLKPLLELAPDNIETHLLAFEVYLRKGKYLLAL  511 (517)
T ss_pred             HhhhhhhhhccccccccccCCcCCCCc---cHHHHhcCCcHHHHHHHHHHHHHHhCccchhhHHHHhHHHHhcCcHHHHH
Confidence            1 0          00    11122211   122233444 4588999999999999999999999999999999999999


Q ss_pred             HHHHH
Q 041384          557 EVWRV  561 (580)
Q Consensus       557 ~~~~~  561 (580)
                      +.+.+
T Consensus       512 qaL~k  516 (517)
T PF12569_consen  512 QALKK  516 (517)
T ss_pred             HHHHh
Confidence            87764

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 [], [].

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

Probab=99.21  E-value=8.2e-07  Score=79.59  Aligned_cols=267  Identities=11%  Similarity=0.031  Sum_probs=199.3

Q ss_pred             CCChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHH-HHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHH
Q 041384          295 VKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVT-LLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNA  373 (580)
Q Consensus       295 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~-~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  373 (580)
                      ..|+.....+.+.+...|+.++|...|++..-.  .|+..+ .....-.+...|+.+....+...+.... ..+...|..
T Consensus       229 r~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~--dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV  305 (564)
T KOG1174|consen  229 RCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCA--NPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFV  305 (564)
T ss_pred             CccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC--ChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhh
Confidence            347778888999999999999999999987633  343322 2222233457788888877777776533 122233333


Q ss_pred             HHHHhHhcCCHHHHHHHHhcCCCCCc---chHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCC
Q 041384          374 LMNMYSKCGSITSSHQIFNEMAARDF---VSWTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGL  449 (580)
Q Consensus       374 l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~  449 (580)
                      -.......++++.|+.+-++..+.|.   ..|-.-...+...+++++|.-.|+..+.  +.| +...|..|+..|...|+
T Consensus       306 ~~~~l~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~--Lap~rL~~Y~GL~hsYLA~~~  383 (564)
T KOG1174|consen  306 HAQLLYDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIALERHTQAVIAFRTAQM--LAPYRLEIYRGLFHSYLAQKR  383 (564)
T ss_pred             hhhhhhhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhccchHHHHHHHHHHHh--cchhhHHHHHHHHHHHHhhch
Confidence            34445567889999999888776444   4444445678889999999999999887  466 66999999999999999


Q ss_pred             HHHHHHHHHHHHHhhCCCCChhHHHHHH-HHhh-hcCChHHHHHHHHhC-CCCCCH-HHHHHHHHHHHhcCCHHHHHHHH
Q 041384          450 VKEAETLFNNVMKEKKIALAIEHYACYV-DLLG-KSGKIEDACKVVSTM-PMKPST-RILSSLVSACRIHGRLEVAEMLA  525 (580)
Q Consensus       450 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~-~~~~-~~g~~~~A~~~~~~~-~~~p~~-~~~~~l~~~~~~~~~~~~A~~~~  525 (580)
                      +.+|.-.-...++  -++.+..+...+. ..+. ...--++|.+++++. ...|+. ...+.+...|...|..+.++.++
T Consensus       384 ~kEA~~~An~~~~--~~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LL  461 (564)
T KOG1174|consen  384 FKEANALANWTIR--LFQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIKLL  461 (564)
T ss_pred             HHHHHHHHHHHHH--HhhcchhhhhhhcceeeccCchhHHHHHHHHHhhhccCCccHHHHHHHHHHHHhhCccchHHHHH
Confidence            9999999888775  3445555565553 3333 233457899999887 567754 56778888899999999999999


Q ss_pred             HHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCCcc
Q 041384          526 HQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGLSK  569 (580)
Q Consensus       526 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  569 (580)
                      ++.+...|+.. .+..|++.+...+.+.+|.+.|....+.+++.
T Consensus       462 e~~L~~~~D~~-LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~~  504 (564)
T KOG1174|consen  462 EKHLIIFPDVN-LHNHLGDIMRAQNEPQKAMEYYYKALRQDPKS  504 (564)
T ss_pred             HHHHhhccccH-HHHHHHHHHHHhhhHHHHHHHHHHHHhcCccc
Confidence            99998887654 49999999999999999999999988776553

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

Probab=99.20  E-value=4.8e-07  Score=87.60  Aligned_cols=132  Identities=18%  Similarity=0.183  Sum_probs=107.2

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCC-hhHHHHHHH
Q 041384          401 SWTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALA-IEHYACYVD  478 (580)
Q Consensus       401 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~  478 (580)
                      .|......+.+.++.++|...+.+....  .| ....|......+...|.+++|.+.|...+   .+.|+ +.+..++..
T Consensus       652 lwllaa~~~~~~~~~~~a~~CL~Ea~~~--~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al---~ldP~hv~s~~Ala~  726 (799)
T KOG4162|consen  652 LWLLAADLFLLSGNDDEARSCLLEASKI--DPLSASVYYLRGLLLEVKGQLEEAKEAFLVAL---ALDPDHVPSMTALAE  726 (799)
T ss_pred             HHHHHHHHHHhcCCchHHHHHHHHHHhc--chhhHHHHHHhhHHHHHHHhhHHHHHHHHHHH---hcCCCCcHHHHHHHH
Confidence            4556667788888999999888888774  44 55677777778888999999999998855   35555 667889999


Q ss_pred             HhhhcCChHHHHH--HHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCch
Q 041384          479 LLGKSGKIEDACK--VVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAA  537 (580)
Q Consensus       479 ~~~~~g~~~~A~~--~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~  537 (580)
                      ++.+.|+..-|..  ++.++ ...| +...|..+...+.+.|+.++|.+.|..+.++.+.+|.
T Consensus       727 ~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe~S~PV  789 (799)
T KOG4162|consen  727 LLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLEESNPV  789 (799)
T ss_pred             HHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhccCCCc
Confidence            9999998777777  77777 4455 7889999999999999999999999999999876664

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

Probab=99.18  E-value=4.3e-09  Score=86.53  Aligned_cols=185  Identities=13%  Similarity=0.079  Sum_probs=94.6

Q ss_pred             HHHHHHhHhcCCHHHHHHHHhcCCCCCc---chHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhcc
Q 041384          372 NALMNMYSKCGSITSSHQIFNEMAARDF---VSWTTLISGYGFHGYGEEALQLFLEMQESGVEPD-AITVLAILSACNHA  447 (580)
Q Consensus       372 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~  447 (580)
                      ..|.-.|...|+...|..-+++..+.|+   .+|..+...|.+.|..+.|.+-|++..+.  .|+ ....|....-+|..
T Consensus        39 lqLal~YL~~gd~~~A~~nlekAL~~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl--~p~~GdVLNNYG~FLC~q  116 (250)
T COG3063          39 LQLALGYLQQGDYAQAKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSL--APNNGDVLNNYGAFLCAQ  116 (250)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhc--CCCccchhhhhhHHHHhC
Confidence            3344455555555555555555554322   34445555555555555555555555552  342 24444555555555


Q ss_pred             CCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHH
Q 041384          448 GLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLA  525 (580)
Q Consensus       448 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~  525 (580)
                      |++++|...|++++..........+|..+.-+-.+.|+.+.|...|++. ...| .+.+...+.....+.|++..|...+
T Consensus       117 g~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~Ar~~~  196 (250)
T COG3063         117 GRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAPARLYL  196 (250)
T ss_pred             CChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchHHHHHH
Confidence            5555555555555544333333445555555555555555555555544 2222 3334445555555555555555555


Q ss_pred             HHHHhcCCCCchHHHHHHHHHHhcCChHHHHHH
Q 041384          526 HQLIEAEPENAANYTLLSMVCSESGNWLGAEEV  558 (580)
Q Consensus       526 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  558 (580)
                      ++.....+.+...+-..+.+-...|+-+.|.++
T Consensus       197 ~~~~~~~~~~A~sL~L~iriak~~gd~~~a~~Y  229 (250)
T COG3063         197 ERYQQRGGAQAESLLLGIRIAKRLGDRAAAQRY  229 (250)
T ss_pred             HHHHhcccccHHHHHHHHHHHHHhccHHHHHHH
Confidence            555555555555555555555555555555444

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.16  E-value=4.6e-07  Score=87.04  Aligned_cols=221  Identities=14%  Similarity=0.135  Sum_probs=134.7

Q ss_pred             HHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHH
Q 041384          306 RGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSIT  385 (580)
Q Consensus       306 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  385 (580)
                      .+.....+|.+|+.+++.+.++.  .-+--|..+...|+..|+++.|.++|.+.         ..++-.|.+|.+.|+++
T Consensus       740 eaai~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw~  808 (1636)
T KOG3616|consen  740 EAAIGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKWE  808 (1636)
T ss_pred             HHHhhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccHH
Confidence            34456667777777777776553  23334666677777788888777777542         23355667778888888


Q ss_pred             HHHHHHhcCCCCCc--chHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHh
Q 041384          386 SSHQIFNEMAARDF--VSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKE  463 (580)
Q Consensus       386 ~A~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  463 (580)
                      .|.++-.+...|..  ..|-.-..-+-..|++.+|.+++-...    .|+.     .|..|-+.|..+..+++.++    
T Consensus       809 da~kla~e~~~~e~t~~~yiakaedldehgkf~eaeqlyiti~----~p~~-----aiqmydk~~~~ddmirlv~k----  875 (1636)
T KOG3616|consen  809 DAFKLAEECHGPEATISLYIAKAEDLDEHGKFAEAEQLYITIG----EPDK-----AIQMYDKHGLDDDMIRLVEK----  875 (1636)
T ss_pred             HHHHHHHHhcCchhHHHHHHHhHHhHHhhcchhhhhheeEEcc----CchH-----HHHHHHhhCcchHHHHHHHH----
Confidence            88777777666533  344444455666777777776664432    2332     35566777777777776665    


Q ss_pred             hCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHH
Q 041384          464 KKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLS  543 (580)
Q Consensus       464 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~  543 (580)
                      ..-..-..+...+..-|...|++.+|..-|-+..      -|.+-++.|...+-+++|-++.+   ..+..|..-.....
T Consensus       876 ~h~d~l~dt~~~f~~e~e~~g~lkaae~~flea~------d~kaavnmyk~s~lw~dayriak---tegg~n~~k~v~fl  946 (1636)
T KOG3616|consen  876 HHGDHLHDTHKHFAKELEAEGDLKAAEEHFLEAG------DFKAAVNMYKASELWEDAYRIAK---TEGGANAEKHVAFL  946 (1636)
T ss_pred             hChhhhhHHHHHHHHHHHhccChhHHHHHHHhhh------hHHHHHHHhhhhhhHHHHHHHHh---ccccccHHHHHHHH
Confidence            2222224456667777777888888887776653      34555566666666666655432   34445555555555


Q ss_pred             HHHHhcCChHHHHHHHHH
Q 041384          544 MVCSESGNWLGAEEVWRV  561 (580)
Q Consensus       544 ~~~~~~g~~~~A~~~~~~  561 (580)
                      |+-.-.|  +.|.+++.+
T Consensus       947 waksigg--daavkllnk  962 (1636)
T KOG3616|consen  947 WAKSIGG--DAAVKLLNK  962 (1636)
T ss_pred             HHHhhCc--HHHHHHHHh
Confidence            5544444  356666654

>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=99.16  E-value=1.2e-08  Score=98.85  Aligned_cols=255  Identities=10%  Similarity=0.024  Sum_probs=171.8

Q ss_pred             HHHhCCChhHHHHHHHHHHHCCCCCCH-HHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhc----
Q 041384          307 GYSQSGDLSEAMKLFSRMRLERIEPNS-VTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKC----  381 (580)
Q Consensus       307 ~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----  381 (580)
                      .+...|++++|++.+.+-...  .+|. ..+......+.+.|+.++|..++..+.+.+ +.+..-|..+..+....    
T Consensus        13 il~e~g~~~~AL~~L~~~~~~--I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN-Pdn~~Yy~~L~~~~g~~~~~~   89 (517)
T PF12569_consen   13 ILEEAGDYEEALEHLEKNEKQ--ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN-PDNYDYYRGLEEALGLQLQLS   89 (517)
T ss_pred             HHHHCCCHHHHHHHHHhhhhh--CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHhhhcccc
Confidence            456678888888887664433  4444 345556667777888888888888888775 34444445555554222    


Q ss_pred             -CCHHHHHHHHhcCCCCCc--chHHHHHHHHHhcCCh-HHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHH
Q 041384          382 -GSITSSHQIFNEMAARDF--VSWTTLISGYGFHGYG-EEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLF  457 (580)
Q Consensus       382 -g~~~~A~~~~~~~~~~~~--~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~  457 (580)
                       .+.+....+++++....+  .....+.-.+.....+ ..+...+..+...|+++   +|..+-..|....+..-..+++
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             245666777776655221  2222222112221122 34556667777777654   3444444455555555555666


Q ss_pred             HHHHHhh-------------CCCCCh--hHHHHHHHHhhhcCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHH
Q 041384          458 NNVMKEK-------------KIALAI--EHYACYVDLLGKSGKIEDACKVVSTM-PMKPS-TRILSSLVSACRIHGRLEV  520 (580)
Q Consensus       458 ~~~~~~~-------------~~~~~~--~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~~~~~~  520 (580)
                      .......             .-+|+.  .++..+...|-..|++++|++++++. ...|. +..|..-.+.+-+.|++++
T Consensus       167 ~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt~~ely~~KarilKh~G~~~~  246 (517)
T PF12569_consen  167 EEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTPTLVELYMTKARILKHAGDLKE  246 (517)
T ss_pred             HHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHCCCHHH
Confidence            5543321             112333  24466788899999999999999977 45564 6788889999999999999


Q ss_pred             HHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          521 AEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       521 A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      |.+.++.+..+++.|..+-+-.+..+.+.|++++|.+++..+.+.+.
T Consensus       247 Aa~~~~~Ar~LD~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~  293 (517)
T PF12569_consen  247 AAEAMDEARELDLADRYINSKCAKYLLRAGRIEEAEKTASLFTREDV  293 (517)
T ss_pred             HHHHHHHHHhCChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCC
Confidence            99999999999999999999999999999999999999999988775

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 [], [].

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.13  E-value=1.4e-07  Score=90.48  Aligned_cols=236  Identities=18%  Similarity=0.141  Sum_probs=131.5

Q ss_pred             HHhHHHHHhHhcCCHHHHHHHHhcCCC----------CCee-hHHHHHHHHHhcCChhHHHHHHHHHHHc---CCCC---
Q 041384          167 VSTALLDLYSKCHHWLIALRVFEQMVI----------RNEV-SWTAMISGCIDSQNYDTGIDLFRAMQRE---GVKP---  229 (580)
Q Consensus       167 ~~~~l~~~~~~~~~~~~a~~~~~~~~~----------~~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~p---  229 (580)
                      +...+...|...|+++.|+.+++...+          +.+. ..+.+...|...+++++|..+|+++..-   ..-+   
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            333355555555555555555544311          1111 2234566777888888888888887642   1112   


Q ss_pred             -CHHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCC---CCCh-hhHHHH
Q 041384          230 -TRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTK---VKDV-VIWSSI  304 (580)
Q Consensus       230 -~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~---~~~~-~~~~~l  304 (580)
                       -..+++.|..+|.+.|++++|...++.+.+                             +++...   .+.+ ..++.+
T Consensus       281 ~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~-----------------------------I~~~~~~~~~~~v~~~l~~~  331 (508)
T KOG1840|consen  281 AVAATLNNLAVLYYKQGKFAEAEEYCERALE-----------------------------IYEKLLGASHPEVAAQLSEL  331 (508)
T ss_pred             HHHHHHHHHHHHHhccCChHHHHHHHHHHHH-----------------------------HHHHhhccChHHHHHHHHHH
Confidence             234566666778888888888887555433                             222211   1111 234555


Q ss_pred             HHHHHhCCChhHHHHHHHHHHHC---CCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhc
Q 041384          305 IRGYSQSGDLSEAMKLFSRMRLE---RIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKC  381 (580)
Q Consensus       305 ~~~~~~~~~~~~a~~~~~~m~~~---~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  381 (580)
                      ...++..+++++|..+++...+.   -+.++.                               ..-..+++.|...|...
T Consensus       332 ~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~-------------------------------~~~a~~~~nl~~l~~~~  380 (508)
T KOG1840|consen  332 AAILQSMNEYEEAKKLLQKALKIYLDAPGEDN-------------------------------VNLAKIYANLAELYLKM  380 (508)
T ss_pred             HHHHHHhcchhHHHHHHHHHHHHHHhhccccc-------------------------------hHHHHHHHHHHHHHHHh
Confidence            66677778888888777754321   011111                               01123344444445555


Q ss_pred             CCHHHHHHHHhcCCCC-----------CcchHHHHHHHHHhcCChHHHHHHHHHHH----HcCC-CCCH-HHHHHHHHHH
Q 041384          382 GSITSSHQIFNEMAAR-----------DFVSWTTLISGYGFHGYGEEALQLFLEMQ----ESGV-EPDA-ITVLAILSAC  444 (580)
Q Consensus       382 g~~~~A~~~~~~~~~~-----------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~g~-~p~~-~~~~~l~~~~  444 (580)
                      |++++|.++++++...           ....++.|...|.+.+++++|.++|.+..    ..|. .|+. .+|..|...|
T Consensus       381 gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y  460 (508)
T KOG1840|consen  381 GKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALY  460 (508)
T ss_pred             cchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHH
Confidence            5555555554443321           11245556666666666666666665533    2221 2343 6788899999


Q ss_pred             hccCCHHHHHHHHHHHHH
Q 041384          445 NHAGLVKEAETLFNNVMK  462 (580)
Q Consensus       445 ~~~~~~~~a~~~~~~~~~  462 (580)
                      ...|+++.|.++.+.++.
T Consensus       461 ~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  461 RAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HHcccHHHHHHHHHHHHH
Confidence            999999999999888653

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.13  E-value=4e-06  Score=83.62  Aligned_cols=345  Identities=12%  Similarity=0.128  Sum_probs=197.9

Q ss_pred             hHHHHHHhhcccchhHHHHHHHHHHHHhCCCCChhHHHHHHHHHHcCCCchHHHHhhccCCCCCccchHHHHHHHHhCCC
Q 041384           30 LPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGF  109 (580)
Q Consensus        30 ~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~  109 (580)
                      ...+..-+-+..++ ......++...+.| .-++.+||+|...|..+++-.+-  .+.    .|...=+..+.-||..++
T Consensus       841 ~deLv~EvEkRNRL-klLlp~LE~~i~eG-~~d~a~hnAlaKIyIDSNNnPE~--fLk----eN~yYDs~vVGkYCEKRD  912 (1666)
T KOG0985|consen  841 VDELVEEVEKRNRL-KLLLPWLESLIQEG-SQDPATHNALAKIYIDSNNNPER--FLK----ENPYYDSKVVGKYCEKRD  912 (1666)
T ss_pred             hHHHHHHHHhhhhH-HHHHHHHHHHHhcc-CcchHHHhhhhheeecCCCChHH--hcc----cCCcchhhHHhhhhcccC
Confidence            45566667777777 77777888888777 46788888888888776553321  111    122211222333333333


Q ss_pred             hhHHHHHHHH-----------------------HHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCCC--Cc
Q 041384          110 YVRSLEMFRE-----------------------MYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFE--LS  164 (580)
Q Consensus       110 ~~~a~~~~~~-----------------------m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~  164 (580)
                      +.-|.-.|++                       +.+   +.|...|..++.-     +-.--+++.++.++.+ ++  .|
T Consensus       913 P~lA~vaYerGqcD~elI~vcNeNSlfK~~aRYlv~---R~D~~LW~~VL~e-----~n~~rRqLiDqVv~ta-l~E~~d  983 (1666)
T KOG0985|consen  913 PHLACVAYERGQCDLELINVCNENSLFKSQARYLVE---RSDPDLWAKVLNE-----ENPYRRQLIDQVVQTA-LPETQD  983 (1666)
T ss_pred             CceEEEeecccCCcHHHHHhcCchhHHHHHHHHHHh---ccChHHHHHHHhc-----cChHHHHHHHHHHHhc-CCccCC
Confidence            2221111110                       111   1244445444421     1122345566666655 33  34


Q ss_pred             hHHHhHHHHHhHhcCCHHHHHHHHhcCC-CCC-----eehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHH
Q 041384          165 VFVSTALLDLYSKCHHWLIALRVFEQMV-IRN-----EVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVL  238 (580)
Q Consensus       165 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll  238 (580)
                      +.-.+.-+.++...+-..+-+++++++. +++     ...-|.||-...+. +..+..+..+++-.-+. |+      +.
T Consensus       984 Pe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAika-d~trVm~YI~rLdnyDa-~~------ia 1055 (1666)
T KOG0985|consen  984 PEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIKA-DRTRVMEYINRLDNYDA-PD------IA 1055 (1666)
T ss_pred             hHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhhc-ChHHHHHHHHHhccCCc-hh------HH
Confidence            5555666777888888888888888773 222     22334454444443 45566777766654321 22      22


Q ss_pred             HHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHHHhCCChhHHH
Q 041384          239 LACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAM  318 (580)
Q Consensus       239 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  318 (580)
                      ..+...+-+++|..+|++.     ..+......|+.-...    ++.|.+.-++...  +..|..+..+-.+.|...+|.
T Consensus      1056 ~iai~~~LyEEAF~ifkkf-----~~n~~A~~VLie~i~~----ldRA~efAe~~n~--p~vWsqlakAQL~~~~v~dAi 1124 (1666)
T KOG0985|consen 1056 EIAIENQLYEEAFAIFKKF-----DMNVSAIQVLIENIGS----LDRAYEFAERCNE--PAVWSQLAKAQLQGGLVKDAI 1124 (1666)
T ss_pred             HHHhhhhHHHHHHHHHHHh-----cccHHHHHHHHHHhhh----HHHHHHHHHhhCC--hHHHHHHHHHHHhcCchHHHH
Confidence            3344455667777777654     2333444444444433    5555555554443  456888888888888888888


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCCCC
Q 041384          319 KLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARD  398 (580)
Q Consensus       319 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  398 (580)
                      +-|-+      ..|+..|..++..+.+.|.+++-.+++...++....|.+.  +.|+-+|++.+++.+-++++.   .||
T Consensus      1125 eSyik------adDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~AyAkt~rl~elE~fi~---gpN 1193 (1666)
T KOG0985|consen 1125 ESYIK------ADDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAYAKTNRLTELEEFIA---GPN 1193 (1666)
T ss_pred             HHHHh------cCCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHHHHhchHHHHHHHhc---CCC
Confidence            76654      3466678888888888888888888888877776666655  567788888888777666543   244


Q ss_pred             cchHHHHHHHHHhcCChHHHHHH
Q 041384          399 FVSWTTLISGYGFHGYGEEALQL  421 (580)
Q Consensus       399 ~~~~~~l~~~~~~~~~~~~a~~~  421 (580)
                      .........-|...+.++.|.-+
T Consensus      1194 ~A~i~~vGdrcf~~~~y~aAkl~ 1216 (1666)
T KOG0985|consen 1194 VANIQQVGDRCFEEKMYEAAKLL 1216 (1666)
T ss_pred             chhHHHHhHHHhhhhhhHHHHHH
Confidence            44444444444444444444333

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

Probab=99.11  E-value=3.4e-08  Score=81.39  Aligned_cols=198  Identities=13%  Similarity=0.002  Sum_probs=90.1

Q ss_pred             HHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCC---CCcchHHHHHHHHHhc
Q 041384          336 LLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAA---RDFVSWTTLISGYGFH  412 (580)
Q Consensus       336 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~  412 (580)
                      ...+.-.|...|+...|..-+++.++.. +.+..++..+...|.+.|+.+.|.+-|++..+   .+..+.|....-+|..
T Consensus        38 rlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~GdVLNNYG~FLC~q  116 (250)
T COG3063          38 RLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGDVLNNYGAFLCAQ  116 (250)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccchhhhhhHHHHhC
Confidence            3344444455555555555555555443 22334444444455555555555555554333   2334444444455555


Q ss_pred             CChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHH
Q 041384          413 GYGEEALQLFLEMQESGVEPD-AITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACK  491 (580)
Q Consensus       413 ~~~~~a~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  491 (580)
                      |++++|...|++....-..|. ..+|..+.-+..+.|+.+.|...|++.++.  .+-.......+.+...+.|++-.|..
T Consensus       117 g~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~--dp~~~~~~l~~a~~~~~~~~y~~Ar~  194 (250)
T COG3063         117 GRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALEL--DPQFPPALLELARLHYKAGDYAPARL  194 (250)
T ss_pred             CChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHh--CcCCChHHHHHHHHHHhcccchHHHH
Confidence            555555555555444322221 234444444444455555555555544331  11112233444444445555555555


Q ss_pred             HHHhC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCc
Q 041384          492 VVSTM--PMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENA  536 (580)
Q Consensus       492 ~~~~~--~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~  536 (580)
                      +++..  ...++..++...|..-...||.+.+-+.=.++.+..|.+.
T Consensus       195 ~~~~~~~~~~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~fP~s~  241 (250)
T COG3063         195 YLERYQQRGGAQAESLLLGIRIAKRLGDRAAAQRYQAQLQRLFPYSE  241 (250)
T ss_pred             HHHHHHhcccccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcH
Confidence            54444  1224444444444444445555555444444444444443

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

Probab=99.10  E-value=2e-06  Score=80.82  Aligned_cols=408  Identities=11%  Similarity=0.045  Sum_probs=222.2

Q ss_pred             HHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHH----HHHhH
Q 041384          101 INCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTAL----LDLYS  176 (580)
Q Consensus       101 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l----~~~~~  176 (580)
                      ++-+...+++++|.....++...+ +-+...+..=+-++.+.+.++.|..+.+.-       +-..+++..    .-+..
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~-------~~~~~~~~~~fEKAYc~Y   90 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKN-------GALLVINSFFFEKAYCEY   90 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhc-------chhhhcchhhHHHHHHHH
Confidence            455666777888888888877654 334556666666777777777777544421       111122221    22334


Q ss_pred             hcCCHHHHHHHHhcCCCCCeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhcCCCchhHHHHHH
Q 041384          177 KCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRV-TLTIVLLACAELRDLRNGKAIHG  255 (580)
Q Consensus       177 ~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~  255 (580)
                      +.+..|+|...++.....+..+...-...+.+.|++++|+++|+.+.+++..--.. .-..++.+-.             
T Consensus        91 rlnk~Dealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a-------------  157 (652)
T KOG2376|consen   91 RLNKLDEALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAA-------------  157 (652)
T ss_pred             HcccHHHHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHH-------------
Confidence            66777777777775544455455555667777777777777777776664321111 1111111000             


Q ss_pred             HHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCCChhhHHHH---HHHHHhCCChhHHHHHHHHHHHCC----
Q 041384          256 YAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSI---IRGYSQSGDLSEAMKLFSRMRLER----  328 (580)
Q Consensus       256 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l---~~~~~~~~~~~~a~~~~~~m~~~~----  328 (580)
                                                 ...+. +.+..+.....+|..+   ...+...|++.+|++++.....-+    
T Consensus       158 ---------------------------~l~~~-~~q~v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l  209 (652)
T KOG2376|consen  158 ---------------------------ALQVQ-LLQSVPEVPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKL  209 (652)
T ss_pred             ---------------------------hhhHH-HHHhccCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhh
Confidence                                       11111 2222222223333333   335667899999999998873221    


Q ss_pred             ----CC-----CCHH-HHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHH----HHHHHHhHhcCC-HH-HHHHHHh
Q 041384          329 ----IE-----PNSV-TLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIG----NALMNMYSKCGS-IT-SSHQIFN  392 (580)
Q Consensus       329 ----~~-----p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~g~-~~-~A~~~~~  392 (580)
                          ..     -... +-..+...+-..|+..+|..++....+... +|....    |.|+. +....+ ++ .++..++
T Consensus       210 ~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~~~~-~D~~~~Av~~NNLva-~~~d~~~~d~~~l~~k~  287 (652)
T KOG2376|consen  210 EDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDIIKRNP-ADEPSLAVAVNNLVA-LSKDQNYFDGDLLKSKK  287 (652)
T ss_pred             cccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhcC-CCchHHHHHhcchhh-hccccccCchHHHHHHH
Confidence                11     1111 122345566778999999999999998763 333222    22221 111111 11 1222222


Q ss_pred             cCCCC--------------CcchH-HHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc--cCCHHHHHH
Q 041384          393 EMAAR--------------DFVSW-TTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNH--AGLVKEAET  455 (580)
Q Consensus       393 ~~~~~--------------~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~--~~~~~~a~~  455 (580)
                      .....              ..... +.++..|..  .-+.+.++.....  +..|. ..+.+++..+.+  ...+..+..
T Consensus       288 ~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~tn--k~~q~r~~~a~lp--~~~p~-~~~~~ll~~~t~~~~~~~~ka~e  362 (652)
T KOG2376|consen  288 SQVFKLAEFLLSKLSKKQKQAIYRNNALLALFTN--KMDQVRELSASLP--GMSPE-SLFPILLQEATKVREKKHKKAIE  362 (652)
T ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhh--hHHHHHHHHHhCC--ccCch-HHHHHHHHHHHHHHHHHHhhhHH
Confidence            22211              11111 222222222  2233333222211  12233 334445444332  225677777


Q ss_pred             HHHHHHHhhCCCCC-hhHHHHHHHHhhhcCChHHHHHHHH--------hCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 041384          456 LFNNVMKEKKIALA-IEHYACYVDLLGKSGKIEDACKVVS--------TMP-MKPSTRILSSLVSACRIHGRLEVAEMLA  525 (580)
Q Consensus       456 ~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~--------~~~-~~p~~~~~~~l~~~~~~~~~~~~A~~~~  525 (580)
                      ++....+  +.+-. ..+.-..+......|+++.|++++.        .+. ..-.+.+..++...+.+.++.+.|..++
T Consensus       363 ~L~~~~~--~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P~~V~aiv~l~~~~~~~~~a~~vl  440 (652)
T KOG2376|consen  363 LLLQFAD--GHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHLPGTVGAIVALYYKIKDNDSASAVL  440 (652)
T ss_pred             HHHHHhc--cCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccChhHHHHHHHHHHhccCCccHHHHH
Confidence            7777332  22222 4455566778889999999999998        442 3445556667777788888887888888


Q ss_pred             HHHHh----cC---CCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 041384          526 HQLIE----AE---PENAANYTLLSMVCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       526 ~~~~~----~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      ..+..    ..   +.-...+..++..-.+.|+.++|...++++.+..
T Consensus       441 ~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~n  488 (652)
T KOG2376|consen  441 DSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKFN  488 (652)
T ss_pred             HHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHhC
Confidence            77664    11   2233445566666777899999999999998743

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.07  E-value=6.1e-07  Score=76.83  Aligned_cols=385  Identities=11%  Similarity=0.037  Sum_probs=208.5

Q ss_pred             hHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCC--CCeehHHH-HHHHHH
Q 041384          131 LLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVI--RNEVSWTA-MISGCI  207 (580)
Q Consensus       131 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~-li~~~~  207 (580)
                      -+.+++..+.+..++..|.+++..-.+..  +.+....+.|..+|....++..|-..++++..  |...-|.. -...+.
T Consensus        12 eftaviy~lI~d~ry~DaI~~l~s~~Er~--p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrlY~AQSLY   89 (459)
T KOG4340|consen   12 EFTAVVYRLIRDARYADAIQLLGSELERS--PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRLYQAQSLY   89 (459)
T ss_pred             chHHHHHHHHHHhhHHHHHHHHHHHHhcC--ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHHH
Confidence            35555555556666666666666555543  44566666777777777777777777777633  32222222 235566


Q ss_pred             hcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH--hcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHH
Q 041384          208 DSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLAC--AELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHP  285 (580)
Q Consensus       208 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  285 (580)
                      +.+.+.+|+.+...|...   |....-..-+.+.  ...+++..+..+++                              
T Consensus        90 ~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLve------------------------------  136 (459)
T KOG4340|consen   90 KACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVE------------------------------  136 (459)
T ss_pred             HhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHH------------------------------
Confidence            677788888887777543   2222111111111  23344444444433                              


Q ss_pred             HHHHHhhCC-CCChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCC
Q 041384          286 ARIIFERTK-VKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGL  364 (580)
Q Consensus       286 a~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  364 (580)
                            +.+ +.+..+.+.......+.|+++.|.+-|+...+-+--.....|+..+ +..+.++...|++...+++++|+
T Consensus       137 ------Qlp~en~Ad~~in~gCllykegqyEaAvqkFqaAlqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIieRG~  209 (459)
T KOG4340|consen  137 ------QLPSENEADGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIERGI  209 (459)
T ss_pred             ------hccCCCccchhccchheeeccccHHHHHHHHHHHHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhh
Confidence                  333 1222333333333445666666666666655443222333444333 33455666666666666666543


Q ss_pred             CC-------------c---------------hhHHHHHHHHhHhcCCHHHHHHHHhcCCCC-----CcchHHHHHHHHHh
Q 041384          365 NF-------------D---------------VSIGNALMNMYSKCGSITSSHQIFNEMAAR-----DFVSWTTLISGYGF  411 (580)
Q Consensus       365 ~~-------------~---------------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~~~~~~l~~~~~~  411 (580)
                      +.             |               +..+|.-...+.+.|+++.|.+.+-.|+.+     |++|...+.-.= .
T Consensus       210 r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~  288 (459)
T KOG4340|consen  210 RQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-M  288 (459)
T ss_pred             hcCCccCccceeccCchhcccchHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-c
Confidence            21             1               112232333456789999999999999863     677766554322 2


Q ss_pred             cCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCC-CCChhHHHHHHHHhh-hcCChHH
Q 041384          412 HGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETLFNNVMKEKKI-ALAIEHYACYVDLLG-KSGKIED  488 (580)
Q Consensus       412 ~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~l~~~~~-~~g~~~~  488 (580)
                      .+++.+..+-++-+...  .| ...||..++-.||+..-++.|..++.+-.. ... -.+...|+ |++++. ..-..++
T Consensus       289 ~~~p~~g~~KLqFLL~~--nPfP~ETFANlLllyCKNeyf~lAADvLAEn~~-lTyk~L~~Yly~-LLdaLIt~qT~pEe  364 (459)
T KOG4340|consen  289 DARPTEGFEKLQFLLQQ--NPFPPETFANLLLLYCKNEYFDLAADVLAENAH-LTYKFLTPYLYD-LLDALITCQTAPEE  364 (459)
T ss_pred             cCCccccHHHHHHHHhc--CCCChHHHHHHHHHHhhhHHHhHHHHHHhhCcc-hhHHHhhHHHHH-HHHHHHhCCCCHHH
Confidence            34566666666666664  44 568999999999999999999988776111 100 11233333 333333 3446777


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHH--HHhcCCH---HHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHH
Q 041384          489 ACKVVSTMPMKPSTRILSSLVSA--CRIHGRL---EVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMR  563 (580)
Q Consensus       489 A~~~~~~~~~~p~~~~~~~l~~~--~~~~~~~---~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  563 (580)
                      |.+-++.+........-..-+..  -...++-   ..|++-+++.++..   ..+....++.|++..++..+.++|..-.
T Consensus       365 a~KKL~~La~~l~~kLRklAi~vQe~r~~~dd~a~R~ai~~Yd~~LE~Y---LPVlMa~AkiyW~~~Dy~~vEk~Fr~Sv  441 (459)
T KOG4340|consen  365 AFKKLDGLAGMLTEKLRKLAIQVQEARHNRDDEAIRKAVNEYDETLEKY---LPVLMAQAKIYWNLEDYPMVEKIFRKSV  441 (459)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHH---HHHHHHHHHhhccccccHHHHHHHHHHH
Confidence            77666555211111111111111  1112221   12333344444433   2346677888999999999999998765


Q ss_pred             hC
Q 041384          564 AK  565 (580)
Q Consensus       564 ~~  565 (580)
                      +.
T Consensus       442 ef  443 (459)
T KOG4340|consen  442 EF  443 (459)
T ss_pred             hh
Confidence            53

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.07  E-value=1.2e-07  Score=87.04  Aligned_cols=216  Identities=13%  Similarity=0.003  Sum_probs=152.0

Q ss_pred             CChHHHHHHHHHHHHhC-CCC--chhHHHHHHHHhHhcCCHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHH
Q 041384          347 SFLSHGLGVHCYIMKAG-LNF--DVSIGNALMNMYSKCGSITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQ  420 (580)
Q Consensus       347 ~~~~~a~~~~~~~~~~~-~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~  420 (580)
                      +..+.++.-+.++.... ..|  ....|..+...|...|+.++|...|++..+   .+...|+.+...+...|++++|..
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~  119 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYE  119 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            35566666666666432 222  245677778889999999999999998765   356789999999999999999999


Q ss_pred             HHHHHHHcCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC--
Q 041384          421 LFLEMQESGVEPD-AITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP--  497 (580)
Q Consensus       421 ~~~~~~~~g~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--  497 (580)
                      .|++..+.  .|+ ..++..+..++...|++++|.+.++..++   ..|+..........+...++.++|...|.+..  
T Consensus       120 ~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~---~~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~  194 (296)
T PRK11189        120 AFDSVLEL--DPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQ---DDPNDPYRALWLYLAESKLDPKQAKENLKQRYEK  194 (296)
T ss_pred             HHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhh
Confidence            99999984  664 57778888888899999999999999775   23433222222233456778999999996652  


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH-------hcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCCccC
Q 041384          498 MKPSTRILSSLVSACRIHGRLEVAEMLAHQLI-------EAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGLSKS  570 (580)
Q Consensus       498 ~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  570 (580)
                      ..|+...+   .......|+...+ ..++.+.       +..|..+.+|..++..+.+.|++++|+..|++..+.++...
T Consensus       195 ~~~~~~~~---~~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~~~  270 (296)
T PRK11189        195 LDKEQWGW---NIVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVYNF  270 (296)
T ss_pred             CCccccHH---HHHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCchH
Confidence            23332222   2223335555433 2344443       34466778899999999999999999999999988765433


Q ss_pred             C
Q 041384          571 Y  571 (580)
Q Consensus       571 ~  571 (580)
                      +
T Consensus       271 ~  271 (296)
T PRK11189        271 V  271 (296)
T ss_pred             H
Confidence            3

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.03  E-value=1.1e-05  Score=80.64  Aligned_cols=187  Identities=14%  Similarity=0.244  Sum_probs=135.8

Q ss_pred             hccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHH
Q 041384          344 TRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFL  423 (580)
Q Consensus       344 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  423 (580)
                      ...+-+++|..+|+..     ..+....+.|+.   .-+.++.|.+.-++..+|  ..|+.+..+-.+.|.+.+|++-|-
T Consensus      1059 i~~~LyEEAF~ifkkf-----~~n~~A~~VLie---~i~~ldRA~efAe~~n~p--~vWsqlakAQL~~~~v~dAieSyi 1128 (1666)
T KOG0985|consen 1059 IENQLYEEAFAIFKKF-----DMNVSAIQVLIE---NIGSLDRAYEFAERCNEP--AVWSQLAKAQLQGGLVKDAIESYI 1128 (1666)
T ss_pred             hhhhHHHHHHHHHHHh-----cccHHHHHHHHH---HhhhHHHHHHHHHhhCCh--HHHHHHHHHHHhcCchHHHHHHHH
Confidence            3444556666666543     223333333332   345667777666665543  579999999999999999988764


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCCCCCCHH
Q 041384          424 EMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTR  503 (580)
Q Consensus       424 ~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~  503 (580)
                      +      .-|+..|.-+++.+.+.|.|++..+++.. .+.....|.+.  ..|+-+|++.+++.+-++++.    -|+..
T Consensus      1129 k------adDps~y~eVi~~a~~~~~~edLv~yL~M-aRkk~~E~~id--~eLi~AyAkt~rl~elE~fi~----gpN~A 1195 (1666)
T KOG0985|consen 1129 K------ADDPSNYLEVIDVASRTGKYEDLVKYLLM-ARKKVREPYID--SELIFAYAKTNRLTELEEFIA----GPNVA 1195 (1666)
T ss_pred             h------cCCcHHHHHHHHHHHhcCcHHHHHHHHHH-HHHhhcCccch--HHHHHHHHHhchHHHHHHHhc----CCCch
Confidence            4      23678899999999999999999999986 44466667665  568899999999988877663    67888


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHH
Q 041384          504 ILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRV  561 (580)
Q Consensus       504 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  561 (580)
                      ....+.+-|...|.++.|.-++..        .+.|..|+..+...|.+..|...-.+
T Consensus      1196 ~i~~vGdrcf~~~~y~aAkl~y~~--------vSN~a~La~TLV~LgeyQ~AVD~aRK 1245 (1666)
T KOG0985|consen 1196 NIQQVGDRCFEEKMYEAAKLLYSN--------VSNFAKLASTLVYLGEYQGAVDAARK 1245 (1666)
T ss_pred             hHHHHhHHHhhhhhhHHHHHHHHH--------hhhHHHHHHHHHHHHHHHHHHHHhhh
Confidence            888888889888988888877765        34477778888888888777655443

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

Probab=99.01  E-value=2.2e-08  Score=86.57  Aligned_cols=230  Identities=13%  Similarity=0.078  Sum_probs=149.4

Q ss_pred             HHHHHHHHcCCCHHHHHHHHhhCC--CCChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHH-HHHHhhccC
Q 041384          271 ALMHMYCECTEALHPARIIFERTK--VKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLA-ILSSCTRQS  347 (580)
Q Consensus       271 ~l~~~~~~~~~~~~~a~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~-ll~~~~~~~  347 (580)
                      .+..+|.+.|- ...|++.++...  .+-+.+|-.|-++|.+..++..|+.++.+-.+.  .|-.+||.. ..+.+...+
T Consensus       228 Q~gkCylrLgm-~r~AekqlqssL~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi~eam~  304 (478)
T KOG1129|consen  228 QMGKCYLRLGM-PRRAEKQLQSSLTQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARIHEAME  304 (478)
T ss_pred             HHHHHHHHhcC-hhhhHHHHHHHhhcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHHHHHHH
Confidence            45556666666 666666666544  356778888899999999999999999998866  677777643 445555566


Q ss_pred             ChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHH
Q 041384          348 FLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQE  427 (580)
Q Consensus       348 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  427 (580)
                      +.+.|.++++...+.. +.++                               ...-++...|.-.++++-|+..++++..
T Consensus       305 ~~~~a~~lYk~vlk~~-~~nv-------------------------------EaiAcia~~yfY~~~PE~AlryYRRiLq  352 (478)
T KOG1129|consen  305 QQEDALQLYKLVLKLH-PINV-------------------------------EAIACIAVGYFYDNNPEMALRYYRRILQ  352 (478)
T ss_pred             hHHHHHHHHHHHHhcC-Cccc-------------------------------eeeeeeeeccccCCChHHHHHHHHHHHH
Confidence            6666666666665532 2222                               2223334445555666777777777777


Q ss_pred             cCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCC--hhHHHHHHHHhhhcCChHHHHHHHHhCC-CC-CCHH
Q 041384          428 SGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALA--IEHYACYVDLLGKSGKIEDACKVVSTMP-MK-PSTR  503 (580)
Q Consensus       428 ~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~-p~~~  503 (580)
                      .|+. ++..|..+.-+|.-.++++-++.-|++++.. --.|+  ..+|..+.......||+.-|.+-|+-.. .. .+..
T Consensus       353 mG~~-speLf~NigLCC~yaqQ~D~~L~sf~RAlst-at~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~e  430 (478)
T KOG1129|consen  353 MGAQ-SPELFCNIGLCCLYAQQIDLVLPSFQRALST-ATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGE  430 (478)
T ss_pred             hcCC-ChHHHhhHHHHHHhhcchhhhHHHHHHHHhh-ccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHH
Confidence            6643 5566666666666677777777777765542 22222  4556667667777777777777776652 22 3455


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCch
Q 041384          504 ILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAA  537 (580)
Q Consensus       504 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~  537 (580)
                      .++.|.-.-.+.|++++|..++..+....|.-..
T Consensus       431 alnNLavL~~r~G~i~~Arsll~~A~s~~P~m~E  464 (478)
T KOG1129|consen  431 ALNNLAVLAARSGDILGARSLLNAAKSVMPDMAE  464 (478)
T ss_pred             HHHhHHHHHhhcCchHHHHHHHHHhhhhCccccc
Confidence            6777777777777777777777777777766433

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.01  E-value=4.7e-06  Score=80.35  Aligned_cols=345  Identities=13%  Similarity=0.096  Sum_probs=146.4

Q ss_pred             hHHHHHHhhcccchhHHHHHHHHHHHHhCCCCChhHHHHHHHHHHcCCCchHHHHhhccCCCCCccchHHHHHHHHhCCC
Q 041384           30 LPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGF  109 (580)
Q Consensus        30 ~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~  109 (580)
                      -...+..|.....+ +++..+-+   ..|.|.=...-.+.++++...|+-+.|-++-+    .+..+. +.|+.|.+.|.
T Consensus       560 te~aigmy~~lhkw-de~i~lae---~~~~p~~eklk~sy~q~l~dt~qd~ka~elk~----sdgd~l-aaiqlyika~~  630 (1636)
T KOG3616|consen  560 TEEAIGMYQELHKW-DEAIALAE---AKGHPALEKLKRSYLQALMDTGQDEKAAELKE----SDGDGL-AAIQLYIKAGK  630 (1636)
T ss_pred             HHHHHHHHHHHHhH-HHHHHHHH---hcCChHHHHHHHHHHHHHHhcCchhhhhhhcc----ccCccH-HHHHHHHHcCC
Confidence            34555666666666 66665433   23333323334455666666677666655432    222222 24667777777


Q ss_pred             hhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHh
Q 041384          110 YVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFE  189 (580)
Q Consensus       110 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  189 (580)
                      +.+|.+....-.+  ...|......+..++.+..-++.|-.+|+++..     ++     .-+..|-+-+-+.+|.++-+
T Consensus       631 p~~a~~~a~n~~~--l~~de~il~~ia~alik~elydkagdlfeki~d-----~d-----kale~fkkgdaf~kaielar  698 (1636)
T KOG3616|consen  631 PAKAARAALNDEE--LLADEEILEHIAAALIKGELYDKAGDLFEKIHD-----FD-----KALECFKKGDAFGKAIELAR  698 (1636)
T ss_pred             chHHHHhhcCHHH--hhccHHHHHHHHHHHHhhHHHHhhhhHHHHhhC-----HH-----HHHHHHHcccHHHHHHHHHH
Confidence            7666654422111  223455555555555555445555555544321     11     11122222222333333322


Q ss_pred             cCCCCCeeh-HHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhH
Q 041384          190 QMVIRNEVS-WTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHL  268 (580)
Q Consensus       190 ~~~~~~~~~-~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  268 (580)
                      -.-...++. -......+...|+++.|+.-|-+..         ...-.+.+......+.+|..+++.+......  ..-
T Consensus       699 fafp~evv~lee~wg~hl~~~~q~daainhfiea~---------~~~kaieaai~akew~kai~ildniqdqk~~--s~y  767 (1636)
T KOG3616|consen  699 FAFPEEVVKLEEAWGDHLEQIGQLDAAINHFIEAN---------CLIKAIEAAIGAKEWKKAISILDNIQDQKTA--SGY  767 (1636)
T ss_pred             hhCcHHHhhHHHHHhHHHHHHHhHHHHHHHHHHhh---------hHHHHHHHHhhhhhhhhhHhHHHHhhhhccc--ccc
Confidence            221111110 1112222333444444443332211         1111233333444455555554444433221  112


Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCC
Q 041384          269 SAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSF  348 (580)
Q Consensus       269 ~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~  348 (580)
                      |..+.+-|...|+ ++.++++|-+..     .++..|..|.+.|+|+.|.++-.+..  |.......|..-..-+-..|+
T Consensus       768 y~~iadhyan~~d-fe~ae~lf~e~~-----~~~dai~my~k~~kw~da~kla~e~~--~~e~t~~~yiakaedldehgk  839 (1636)
T KOG3616|consen  768 YGEIADHYANKGD-FEIAEELFTEAD-----LFKDAIDMYGKAGKWEDAFKLAEECH--GPEATISLYIAKAEDLDEHGK  839 (1636)
T ss_pred             chHHHHHhccchh-HHHHHHHHHhcc-----hhHHHHHHHhccccHHHHHHHHHHhc--CchhHHHHHHHhHHhHHhhcc
Confidence            2233333333344 444444443321     24445556666666666666554433  223333344444444444555


Q ss_pred             hHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCCC-CcchHHHHHHHHHhcCChHHHHHHHH
Q 041384          349 LSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAAR-DFVSWTTLISGYGFHGYGEEALQLFL  423 (580)
Q Consensus       349 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~  423 (580)
                      +.+|.+++-.+.    .|+     ..|.+|-+.|..+...++.++-... -..+...+..-|-..|+...|.+.|-
T Consensus       840 f~eaeqlyiti~----~p~-----~aiqmydk~~~~ddmirlv~k~h~d~l~dt~~~f~~e~e~~g~lkaae~~fl  906 (1636)
T KOG3616|consen  840 FAEAEQLYITIG----EPD-----KAIQMYDKHGLDDDMIRLVEKHHGDHLHDTHKHFAKELEAEGDLKAAEEHFL  906 (1636)
T ss_pred             hhhhhheeEEcc----Cch-----HHHHHHHhhCcchHHHHHHHHhChhhhhHHHHHHHHHHHhccChhHHHHHHH
Confidence            555554442221    122     2344455555555555554443321 11233344444455555555554443

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.99  E-value=9.7e-07  Score=82.07  Aligned_cols=89  Identities=18%  Similarity=0.113  Sum_probs=48.2

Q ss_pred             HHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHH
Q 041384          477 VDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLG  554 (580)
Q Consensus       477 ~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  554 (580)
                      ...+.+.|++..|++.+.++ ...| |...|..-..+|.+.|.+..|+.-.+...+++|+....|..=+.++....+|++
T Consensus       365 Gne~Fk~gdy~~Av~~YteAIkr~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydk  444 (539)
T KOG0548|consen  365 GNEAFKKGDYPEAVKHYTEAIKRDPEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDK  444 (539)
T ss_pred             HHHHHhccCHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHH
Confidence            33444555555555555555 1223 444555555555555555555555555555555555555555555555555555


Q ss_pred             HHHHHHHHHhC
Q 041384          555 AEEVWRVMRAK  565 (580)
Q Consensus       555 A~~~~~~~~~~  565 (580)
                      |.+.|++.++.
T Consensus       445 Aleay~eale~  455 (539)
T KOG0548|consen  445 ALEAYQEALEL  455 (539)
T ss_pred             HHHHHHHHHhc
Confidence            55555554443

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=98.99  E-value=9.4e-09  Score=92.70  Aligned_cols=78  Identities=19%  Similarity=0.275  Sum_probs=33.8

Q ss_pred             hHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCCh-HHHHHHHHHH
Q 041384          486 IEDACKVVSTMP--MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNW-LGAEEVWRVM  562 (580)
Q Consensus       486 ~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~  562 (580)
                      +.+|..+|+++.  ..+++.+.+.+..+....|++++|+++++++.+.+|.++.+...++-+....|+. +.+.+++.++
T Consensus       183 ~~~A~y~f~El~~~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL  262 (290)
T PF04733_consen  183 YQDAFYIFEELSDKFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKPTEAAERYLSQL  262 (290)
T ss_dssp             CCHHHHHHHHHHCCS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCChhHHHHHHHHH
Confidence            444444444441  2234444444444444455555555555554444454444444444444444444 3344444443


Q ss_pred             H
Q 041384          563 R  563 (580)
Q Consensus       563 ~  563 (580)
                      .
T Consensus       263 ~  263 (290)
T PF04733_consen  263 K  263 (290)
T ss_dssp             H
T ss_pred             H
Confidence            3

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.

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.96  E-value=4.9e-07  Score=77.36  Aligned_cols=317  Identities=11%  Similarity=0.018  Sum_probs=193.9

Q ss_pred             HHHHHHHHHHcCCCchHHHHhhccCCCC---CccchHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHH-HHHhh
Q 041384           65 ISNSLISMYAKFSKPESAYQLFDEMPYR---DTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGI-ISLCS  140 (580)
Q Consensus        65 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l-l~~~~  140 (580)
                      -+.+.+..+.+..++..|++++....++   +....+.|..+|-...++..|.++++++-..  .|...-|..- ...+-
T Consensus        12 eftaviy~lI~d~ry~DaI~~l~s~~Er~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQSLY   89 (459)
T KOG4340|consen   12 EFTAVVYRLIRDARYADAIQLLGSELERSPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQSLY   89 (459)
T ss_pred             chHHHHHHHHHHhhHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHHHH
Confidence            3556666667777788888877665432   4556667777777788888888888887653  4444444322 24455


Q ss_pred             ccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCC-CCeehHHHHHHHHHhcCChhHHHHHH
Q 041384          141 QIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVI-RNEVSWTAMISGCIDSQNYDTGIDLF  219 (580)
Q Consensus       141 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~  219 (580)
                      +.+.+..|..+...+.+..  ..-..+...-.......+++..+..++++.+. .+..+.+.......+.|+++.|++-|
T Consensus        90 ~A~i~ADALrV~~~~~D~~--~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkF  167 (459)
T KOG4340|consen   90 KACIYADALRVAFLLLDNP--ALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKF  167 (459)
T ss_pred             HhcccHHHHHHHHHhcCCH--HHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHHH
Confidence            6677777777777765432  00111111111223456788888888888874 45555555555667889999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHH----HHHHHHHHcCCCHHHHHHHHhhCCC
Q 041384          220 RAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSA----ALMHMYCECTEALHPARIIFERTKV  295 (580)
Q Consensus       220 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~----~l~~~~~~~~~~~~~a~~~~~~~~~  295 (580)
                      +...+-+--.....|+..+.. .+.++.+.|.+...+++++|+...+..--    ..++. -..|+.......       
T Consensus       168 qaAlqvsGyqpllAYniALaH-y~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDv-rsvgNt~~lh~S-------  238 (459)
T KOG4340|consen  168 QAALQVSGYQPLLAYNLALAH-YSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDV-RSVGNTLVLHQS-------  238 (459)
T ss_pred             HHHHhhcCCCchhHHHHHHHH-HhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCch-hcccchHHHHHH-------
Confidence            988776544456677766544 45688899999999999888653221100    00000 000000000000       


Q ss_pred             CChhhHHHHHHHHHhCCChhHHHHHHHHHHHCC-CCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHH
Q 041384          296 KDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLER-IEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNAL  374 (580)
Q Consensus       296 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  374 (580)
                      .-+..+|.-...+.+.|+++.|.+-+..|.-+. -..|+.|...+.-.- ..+++....+-+.-+.... +....||..+
T Consensus       239 al~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~n-PfP~ETFANl  316 (459)
T KOG4340|consen  239 ALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQN-PFPPETFANL  316 (459)
T ss_pred             HHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcC-CCChHHHHHH
Confidence            011234444455678889999998888885332 355777766554322 2344555555555555554 3456788888


Q ss_pred             HHHhHhcCCHHHHHHHHhcCCC
Q 041384          375 MNMYSKCGSITSSHQIFNEMAA  396 (580)
Q Consensus       375 ~~~~~~~g~~~~A~~~~~~~~~  396 (580)
                      +-.||+..-++-|.+++.+-..
T Consensus       317 LllyCKNeyf~lAADvLAEn~~  338 (459)
T KOG4340|consen  317 LLLYCKNEYFDLAADVLAENAH  338 (459)
T ss_pred             HHHHhhhHHHhHHHHHHhhCcc
Confidence            8899999999999888876554

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.94  E-value=7.8e-06  Score=78.23  Aligned_cols=255  Identities=12%  Similarity=-0.000  Sum_probs=138.6

Q ss_pred             HHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhh----ccCChHHHHHHHHHHHHhCCCCc-hhHHHHHHHHhHhcC
Q 041384          308 YSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCT----RQSFLSHGLGVHCYIMKAGLNFD-VSIGNALMNMYSKCG  382 (580)
Q Consensus       308 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~----~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g  382 (580)
                      +...|++++|...+++..+.. +.+...+.. ...+.    ..+....+.+.+..  .....|+ ......+...+...|
T Consensus        53 ~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~-~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~~~~~~a~~~~~~G  128 (355)
T cd05804          53 AWIAGDLPKALALLEQLLDDY-PRDLLALKL-HLGAFGLGDFSGMRDHVARVLPL--WAPENPDYWYLLGMLAFGLEEAG  128 (355)
T ss_pred             HHHcCCHHHHHHHHHHHHHHC-CCcHHHHHH-hHHHHHhcccccCchhHHHHHhc--cCcCCCCcHHHHHHHHHHHHHcC
Confidence            445566777777766665542 222222221 11111    23333344433333  1111222 233334455667777


Q ss_pred             CHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CCCH--HHHHHHHHHHhccCCHHHHHHH
Q 041384          383 SITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGV-EPDA--ITVLAILSACNHAGLVKEAETL  456 (580)
Q Consensus       383 ~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~-~p~~--~~~~~l~~~~~~~~~~~~a~~~  456 (580)
                      ++++|...+++..+   .+...+..+...+...|++++|...+++...... .|+.  ..|..+...+...|++++|..+
T Consensus       129 ~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~  208 (355)
T cd05804         129 QYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAI  208 (355)
T ss_pred             CHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHH
Confidence            77777777776654   2445666677777778888888888877766421 1222  2344566777788888888888


Q ss_pred             HHHHHHhhCCCCChhHH-H--HHHHHhhhcCChHHHHHH---HHhC-CCCC---CHHHHHHHHHHHHhcCCHHHHHHHHH
Q 041384          457 FNNVMKEKKIALAIEHY-A--CYVDLLGKSGKIEDACKV---VSTM-PMKP---STRILSSLVSACRIHGRLEVAEMLAH  526 (580)
Q Consensus       457 ~~~~~~~~~~~~~~~~~-~--~l~~~~~~~g~~~~A~~~---~~~~-~~~p---~~~~~~~l~~~~~~~~~~~~A~~~~~  526 (580)
                      ++++.......+..... +  .++..+...|....+.+.   .... ...|   ..........++...|+.+.|...++
T Consensus       209 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~  288 (355)
T cd05804         209 YDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLA  288 (355)
T ss_pred             HHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHH
Confidence            88754321111111111 1  222233334432222222   1111 1001   11222356666778899999999998


Q ss_pred             HHHhcCC---------CCchHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 041384          527 QLIEAEP---------ENAANYTLLSMVCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       527 ~~~~~~~---------~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      .+.....         .........+.++...|++++|.+.+......+
T Consensus       289 ~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~a  337 (355)
T cd05804         289 ALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDDL  337 (355)
T ss_pred             HHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            8765331         134445667778889999999999998887654

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.

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.90  E-value=4.1e-06  Score=81.81  Aligned_cols=147  Identities=12%  Similarity=0.142  Sum_probs=74.0

Q ss_pred             ChhHHHHHHH--HHHcCCCchHHHHhhccCCCCCccchHHHHHHHHhCCChhHHHHHHHHHHHC-C--------CCCCHh
Q 041384           62 DPVISNSLIS--MYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREMYLC-G--------FVLKAE  130 (580)
Q Consensus        62 ~~~~~~~l~~--~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~--------~~~~~~  130 (580)
                      |..+-..+++  .|..-|+.+.|.+-.+.+.  +...|..|.+.+++.++.+-|.-.+-.|... |        ..|+ .
T Consensus       725 d~~TRkaml~FSfyvtiG~MD~AfksI~~Ik--S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e  801 (1416)
T KOG3617|consen  725 DESTRKAMLDFSFYVTIGSMDAAFKSIQFIK--SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-E  801 (1416)
T ss_pred             CHHHHHhhhceeEEEEeccHHHHHHHHHHHh--hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-c
Confidence            4445555553  3566677787777666664  4566777888888888777777666665431 1        1111 2


Q ss_pred             hHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCCC-CeehHHHHHHHHHhc
Q 041384          131 LLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIR-NEVSWTAMISGCIDS  209 (580)
Q Consensus       131 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~li~~~~~~  209 (580)
                      +=..+.......|-+++|+.++.+..+..          .|=..|-..|.|++|.++-+.-..- =..+|......+-..
T Consensus       802 ~eakvAvLAieLgMlEeA~~lYr~ckR~D----------LlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Lear  871 (1416)
T KOG3617|consen  802 DEAKVAVLAIELGMLEEALILYRQCKRYD----------LLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLEAR  871 (1416)
T ss_pred             hhhHHHHHHHHHhhHHHHHHHHHHHHHHH----------HHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHHhh
Confidence            22222223334455555555555554432          2223344455555555554332111 111333334444444


Q ss_pred             CChhHHHHHHHH
Q 041384          210 QNYDTGIDLFRA  221 (580)
Q Consensus       210 ~~~~~a~~~~~~  221 (580)
                      ++.+.|++.|++
T Consensus       872 ~Di~~AleyyEK  883 (1416)
T KOG3617|consen  872 RDIEAALEYYEK  883 (1416)
T ss_pred             ccHHHHHHHHHh
Confidence            555555555543

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.89  E-value=2e-05  Score=78.94  Aligned_cols=527  Identities=12%  Similarity=0.029  Sum_probs=243.6

Q ss_pred             chHHHHHHhhcccchhHHHHHHHHHHHHhCCCCChhHHHHHHHHHHcCCCchHHHHhhccCCCC---Cccc--hHHHHHH
Q 041384           29 ILPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEMPYR---DTIS--WNSIINC  103 (580)
Q Consensus        29 ~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~--~~~li~~  103 (580)
                      .|..+=..|..-.+. ..|...|+..-+.. +.+...+....+.|++..+++.|..+.-...+.   -...  |-...-.
T Consensus       494 af~~LG~iYrd~~Dm-~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~y  571 (1238)
T KOG1127|consen  494 AFAFLGQIYRDSDDM-KRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPY  571 (1238)
T ss_pred             HHHHHHHHHHHHHHH-HHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhcccc
Confidence            344444555555566 67777777766654 455666777778888888888887774332211   1111  2223334


Q ss_pred             HHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHH
Q 041384          104 FTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLI  183 (580)
Q Consensus       104 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  183 (580)
                      +.+.++..+|+.-|+...+..+ -|...|..+..+|.+.|.+..|.++|.++....  |.+....--....-+..|.+.+
T Consensus       572 yLea~n~h~aV~~fQsALR~dP-kD~n~W~gLGeAY~~sGry~~AlKvF~kAs~Lr--P~s~y~~fk~A~~ecd~GkYke  648 (1238)
T KOG1127|consen  572 YLEAHNLHGAVCEFQSALRTDP-KDYNLWLGLGEAYPESGRYSHALKVFTKASLLR--PLSKYGRFKEAVMECDNGKYKE  648 (1238)
T ss_pred             ccCccchhhHHHHHHHHhcCCc-hhHHHHHHHHHHHHhcCceehHHHhhhhhHhcC--cHhHHHHHHHHHHHHHhhhHHH
Confidence            5566777777777776665432 256677777777777777777777777665543  2222222223333455667777


Q ss_pred             HHHHHhcCCCC----------CeehHHHHHHHHHhcCChhHHHHHHHHHH-------HcCCCCCHHHHHHHHHHHh---c
Q 041384          184 ALRVFEQMVIR----------NEVSWTAMISGCIDSQNYDTGIDLFRAMQ-------REGVKPTRVTLTIVLLACA---E  243 (580)
Q Consensus       184 a~~~~~~~~~~----------~~~~~~~li~~~~~~~~~~~a~~~~~~m~-------~~~~~p~~~~~~~ll~~~~---~  243 (580)
                      |...+..+...          -..++-.+...+.-.|-..+|.+++++-+       .+...-+...+..+-.+|.   .
T Consensus       649 ald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~asdac~~f~q  728 (1238)
T KOG1127|consen  649 ALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVASDACYIFSQ  728 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHhHHHHHHHH
Confidence            77666655211          01112222222222233333333333222       1111112222222111110   0


Q ss_pred             CC-Cch--hHHHHH-HHHHHhcCCC--------------------chhHHHHHHHHHHH----cCCC---HHHHHHHHhh
Q 041384          244 LR-DLR--NGKAIH-GYAYCCGFDF--------------------DHHLSAALMHMYCE----CTEA---LHPARIIFER  292 (580)
Q Consensus       244 ~~-~~~--~a~~~~-~~~~~~~~~~--------------------~~~~~~~l~~~~~~----~~~~---~~~a~~~~~~  292 (580)
                      .. ++.  ....++ .+....+..+                    +...+..+...|.+    .++.   ...+...+..
T Consensus       729 ~e~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hlsl~~~~~~WyNLGinylr~f~~l~et~~~~~~Ai~c~Kk  808 (1238)
T KOG1127|consen  729 EEPSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLSLAIHMYPWYNLGINYLRYFLLLGETMKDACTAIRCCKK  808 (1238)
T ss_pred             hcccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHHHhhccchHHHHhHHHHHHHHHcCCcchhHHHHHHHHHH
Confidence            00 000  000000 0011111111                    11122222222111    1110   1112222221


Q ss_pred             CC---CCChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchh
Q 041384          293 TK---VKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVS  369 (580)
Q Consensus       293 ~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  369 (580)
                      ..   ..+...||.|--. ...|.+.-|..-|-+-.... +.+..+|..+.-.+....+++.|...|....... +.+..
T Consensus       809 aV~L~ann~~~WnaLGVl-sg~gnva~aQHCfIks~~se-p~~~~~W~NlgvL~l~n~d~E~A~~af~~~qSLd-P~nl~  885 (1238)
T KOG1127|consen  809 AVSLCANNEGLWNALGVL-SGIGNVACAQHCFIKSRFSE-PTCHCQWLNLGVLVLENQDFEHAEPAFSSVQSLD-PLNLV  885 (1238)
T ss_pred             HHHHhhccHHHHHHHHHh-hccchhhhhhhhhhhhhhcc-ccchhheeccceeEEecccHHHhhHHHHhhhhcC-chhhH
Confidence            11   1233344433222 33344444444443332221 2233455555555566667777777776665443 22333


Q ss_pred             HHHHHHHHhHhcCCHHHHHHHHhcC-----CC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHc---------CCCC
Q 041384          370 IGNALMNMYSKCGSITSSHQIFNEM-----AA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQES---------GVEP  432 (580)
Q Consensus       370 ~~~~l~~~~~~~g~~~~A~~~~~~~-----~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---------g~~p  432 (580)
                      .|--........|+.-++..+|.--     .+   ++..-|-........+|+.++-+...+.+...         |.+-
T Consensus       886 ~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs~al~~yf~~~p~  965 (1238)
T KOG1127|consen  886 QWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTARKISSASLALSYYFLGHPQ  965 (1238)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhhhhhhhHHHHHHHHhcCcc
Confidence            3322222233445555555555431     11   12222333333334455554444333332211         2222


Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHH----HHHHHhhhcCChHHHHHHHHhCCCCCCHHHHHHH
Q 041384          433 DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYA----CYVDLLGKSGKIEDACKVVSTMPMKPSTRILSSL  508 (580)
Q Consensus       433 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l  508 (580)
                      +...|.+......+.+.+..|.....+.+.--....+...|+    .+.+.++..|.++.|..-+.......+...-.+-
T Consensus       966 ~~fAy~~~gstlEhL~ey~~a~ela~RliglLe~k~d~sqynvak~~~gRL~lslgefe~A~~a~~~~~~evdEdi~gt~ 1045 (1238)
T KOG1127|consen  966 LCFAYAANGSTLEHLEEYRAALELATRLIGLLELKLDESQYNVAKPDAGRLELSLGEFESAKKASWKEWMEVDEDIRGTD 1045 (1238)
T ss_pred             hhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhcchhhHhhhhcccchhHHHHHhhhh
Confidence            446677777666677777766666655432112223333333    3445566777788777666555333333332222


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCc---hHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 041384          509 VSACRIHGRLEVAEMLAHQLIEAEPENA---ANYTLLSMVCSESGNWLGAEEVWRVMRA  564 (580)
Q Consensus       509 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (580)
                      +.. .-.|+++++.+.|+++......+.   .....++.+....+.-+.|.+.+=+...
T Consensus      1046 l~l-Ffkndf~~sl~~fe~aLsis~se~d~vvLl~kva~~~g~~~~k~~A~~lLfe~~~ 1103 (1238)
T KOG1127|consen 1046 LTL-FFKNDFFSSLEFFEQALSISNSESDKVVLLCKVAVCMGLARQKNDAQFLLFEVKS 1103 (1238)
T ss_pred             HHH-HHHhHHHHHHHHHHHHhhhcccccchhhhhHHHHHHHhhcccchHHHHHHHHHHH
Confidence            222 345788888888888887664333   3455666667777777888777554433

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.89  E-value=1.3e-05  Score=87.14  Aligned_cols=261  Identities=13%  Similarity=0.011  Sum_probs=158.3

Q ss_pred             HHHHhCCChhHHHHHHHHHHHCCCCCCH----HHHHHHHHHhhccCChHHHHHHHHHHHHhCC---CC--chhHHHHHHH
Q 041384          306 RGYSQSGDLSEAMKLFSRMRLERIEPNS----VTLLAILSSCTRQSFLSHGLGVHCYIMKAGL---NF--DVSIGNALMN  376 (580)
Q Consensus       306 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~  376 (580)
                      ..+...|+++.|...+++....-...+.    .....+...+...|+++.|...+........   .+  .......+..
T Consensus       460 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~  539 (903)
T PRK04841        460 QVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSE  539 (903)
T ss_pred             HHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHH
Confidence            3455678888888888776653111121    2334455556678888888888877765211   11  1233445566


Q ss_pred             HhHhcCCHHHHHHHHhcCCC-------CC----cchHHHHHHHHHhcCChHHHHHHHHHHHHcC--CCCC--HHHHHHHH
Q 041384          377 MYSKCGSITSSHQIFNEMAA-------RD----FVSWTTLISGYGFHGYGEEALQLFLEMQESG--VEPD--AITVLAIL  441 (580)
Q Consensus       377 ~~~~~g~~~~A~~~~~~~~~-------~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g--~~p~--~~~~~~l~  441 (580)
                      .+...|+++.|...+++...       ++    ...+..+...+...|++++|...+++.....  ..+.  ...+..+.
T Consensus       540 ~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la  619 (903)
T PRK04841        540 ILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLA  619 (903)
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHH
Confidence            67778888888887766443       11    1123344556667788888888887765431  1122  23344455


Q ss_pred             HHHhccCCHHHHHHHHHHHHHhhCCCCChhHH-----HHHHHHhhhcCChHHHHHHHHhCCCC--CCH----HHHHHHHH
Q 041384          442 SACNHAGLVKEAETLFNNVMKEKKIALAIEHY-----ACYVDLLGKSGKIEDACKVVSTMPMK--PST----RILSSLVS  510 (580)
Q Consensus       442 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-----~~l~~~~~~~g~~~~A~~~~~~~~~~--p~~----~~~~~l~~  510 (580)
                      ......|+++.|...++.+..-.........+     ...+..+...|+.+.|...+......  ...    ..+..+..
T Consensus       620 ~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~  699 (903)
T PRK04841        620 KISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIAR  699 (903)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHH
Confidence            66777889998888888754311111111101     11223445678888888888766311  111    11345666


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcC------CCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 041384          511 ACRIHGRLEVAEMLAHQLIEAE------PENAANYTLLSMVCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       511 ~~~~~~~~~~A~~~~~~~~~~~------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      ++...|+.++|...++++.+..      +....++..++.++.+.|+.++|...+.+..+..
T Consensus       700 ~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        700 AQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKLA  761 (903)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            7788888999988888887642      1233457778888888999999998888887644

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.88  E-value=1e-05  Score=70.94  Aligned_cols=324  Identities=10%  Similarity=0.011  Sum_probs=180.2

Q ss_pred             CchHHHhHHHHHhHhcCCHHHHHHHHhcCCCCCeehHHHHH---HHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHH-HH
Q 041384          163 LSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMI---SGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTI-VL  238 (580)
Q Consensus       163 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li---~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~-ll  238 (580)
                      .++.-...+...+...|++..|+..|...++-|...|.++.   ..|...|+...|+.-|.+..+.  +||-..-.+ -.
T Consensus        36 advekhlElGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg  113 (504)
T KOG0624|consen   36 ADVEKHLELGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRG  113 (504)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhc
Confidence            33444455667777788888898888888887777777664   4677888888888888877763  676543221 12


Q ss_pred             HHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHHHhCCChhHHH
Q 041384          239 LACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAM  318 (580)
Q Consensus       239 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  318 (580)
                      ..+.+.|.++.|..=|+.+++........     ..++.+.    ..+.+         .......+..+...|+...|+
T Consensus       114 ~vllK~Gele~A~~DF~~vl~~~~s~~~~-----~eaqskl----~~~~e---------~~~l~~ql~s~~~~GD~~~ai  175 (504)
T KOG0624|consen  114 VVLLKQGELEQAEADFDQVLQHEPSNGLV-----LEAQSKL----ALIQE---------HWVLVQQLKSASGSGDCQNAI  175 (504)
T ss_pred             hhhhhcccHHHHHHHHHHHHhcCCCcchh-----HHHHHHH----HhHHH---------HHHHHHHHHHHhcCCchhhHH
Confidence            23556777777777777776654321110     0000000    00000         000111233344455555555


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCCCC
Q 041384          319 KLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARD  398 (580)
Q Consensus       319 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  398 (580)
                      .....+.+-. +.|...|..-..+|...|.+..|+.=++...+..                                ..+
T Consensus       176 ~~i~~llEi~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs--------------------------------~Dn  222 (504)
T KOG0624|consen  176 EMITHLLEIQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLS--------------------------------QDN  222 (504)
T ss_pred             HHHHHHHhcC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcc--------------------------------ccc
Confidence            5555555432 2344444444444444455444444443333322                                223


Q ss_pred             cchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH-H---HHHH---------HHHHhccCCHHHHHHHHHHHHHhhC
Q 041384          399 FVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAI-T---VLAI---------LSACNHAGLVKEAETLFNNVMKEKK  465 (580)
Q Consensus       399 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~-~---~~~l---------~~~~~~~~~~~~a~~~~~~~~~~~~  465 (580)
                      ...+.-+-..+...|+.+.++...++-.+  +.||.. .   |..|         +......++|.+++...+..++...
T Consensus       223 Te~~ykis~L~Y~vgd~~~sL~~iRECLK--ldpdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep  300 (504)
T KOG0624|consen  223 TEGHYKISQLLYTVGDAENSLKEIRECLK--LDPDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEP  300 (504)
T ss_pred             hHHHHHHHHHHHhhhhHHHHHHHHHHHHc--cCcchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCC
Confidence            33333334444444555555555544444  244431 1   1111         1123456677777777777665221


Q ss_pred             CCC--ChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHH
Q 041384          466 IAL--AIEHYACYVDLLGKSGKIEDACKVVSTM-PMKPS-TRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTL  541 (580)
Q Consensus       466 ~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  541 (580)
                      -.+  ....+..+-.++...|++.+|++...+. .+.|| +.++..-..+|.-...++.|+.-|+.+.+.++.|..+-..
T Consensus       301 ~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n~sn~~~reG  380 (504)
T KOG0624|consen  301 EETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDIDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELNESNTRAREG  380 (504)
T ss_pred             cccceeeeeeheeeecccccCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcccHHHHHH
Confidence            111  1334455666777788888888887776 45564 6777777788888888888888888888888887765443

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=98.88  E-value=9.7e-08  Score=86.19  Aligned_cols=225  Identities=13%  Similarity=0.101  Sum_probs=145.5

Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCC-CchhHHHHHHHHhHhc
Q 041384          303 SIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLN-FDVSIGNALMNMYSKC  381 (580)
Q Consensus       303 ~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~  381 (580)
                      .+.+++...|+++.++   .++.... .|.......+...+....+-+.+..-++........ .+..........+...
T Consensus        40 ~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~  115 (290)
T PF04733_consen   40 YQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAATILFHE  115 (290)
T ss_dssp             HHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCC
T ss_pred             HHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHHHHHc
Confidence            3556677777766443   3333333 566666655555554444444554444433333322 2333333344566778


Q ss_pred             CCHHHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh----ccCCHHHHHHHH
Q 041384          382 GSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACN----HAGLVKEAETLF  457 (580)
Q Consensus       382 g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~----~~~~~~~a~~~~  457 (580)
                      |++++|.+++...  .+.......+..|.+.++++.|.+.++.|.+.  ..|. +...+..++.    ..+.+.+|..+|
T Consensus       116 ~~~~~AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--~eD~-~l~qLa~awv~l~~g~e~~~~A~y~f  190 (290)
T PF04733_consen  116 GDYEEALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELKNMQQI--DEDS-ILTQLAEAWVNLATGGEKYQDAFYIF  190 (290)
T ss_dssp             CHHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--SCCH-HHHHHHHHHHHHHHTTTCCCHHHHHH
T ss_pred             CCHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcH-HHHHHHHHHHHHHhCchhHHHHHHHH
Confidence            9999998888775  45666677888899999999999999999873  4444 3333444332    234689999999


Q ss_pred             HHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCH-HHHHHHHHHHHhcCCC
Q 041384          458 NNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRL-EVAEMLAHQLIEAEPE  534 (580)
Q Consensus       458 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~-~~A~~~~~~~~~~~~~  534 (580)
                      +++.  ....+++.+.+.+..+....|++++|.+++.+. ...| ++.++..++......|+. +.+.+.+.++....|.
T Consensus       191 ~El~--~~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~~p~  268 (290)
T PF04733_consen  191 EELS--DKFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQSNPN  268 (290)
T ss_dssp             HHHH--CCS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHHTTT
T ss_pred             HHHH--hccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHhCCC
Confidence            9954  356678888899999999999999999998886 3333 566777777777777877 7788899999998888


Q ss_pred             CchH
Q 041384          535 NAAN  538 (580)
Q Consensus       535 ~~~~  538 (580)
                      ++.+
T Consensus       269 h~~~  272 (290)
T PF04733_consen  269 HPLV  272 (290)
T ss_dssp             SHHH
T ss_pred             ChHH
Confidence            7763

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.

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.88  E-value=1.6e-05  Score=77.77  Aligned_cols=256  Identities=11%  Similarity=0.045  Sum_probs=152.3

Q ss_pred             CCcchHHHHHH--hhcccchhHHHHHHHHHHHHhCCCCChhHHHHHHHHHHcCCCchHHHHhhccCCCC-----------
Q 041384           26 NTAILPSVIKA--CAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEMPYR-----------   92 (580)
Q Consensus        26 ~~~~~~~ll~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----------   92 (580)
                      |..|-..++..  |...|+. +.|..-.+.+.      +..+|..+...|.+.++.+-|.-.+-.|...           
T Consensus       725 d~~TRkaml~FSfyvtiG~M-D~AfksI~~Ik------S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q  797 (1416)
T KOG3617|consen  725 DESTRKAMLDFSFYVTIGSM-DAAFKSIQFIK------SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQ  797 (1416)
T ss_pred             CHHHHHhhhceeEEEEeccH-HHHHHHHHHHh------hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHh
Confidence            34444444432  5567777 77776666554      3467888999999998888888888777511           


Q ss_pred             Cc-cchHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHH
Q 041384           93 DT-ISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTAL  171 (580)
Q Consensus        93 ~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  171 (580)
                      |. ..-....-.-.+.|..++|+.+|.+-.+         |..+-+.|...|.+++|.++-+.--+..    =..||...
T Consensus       798 ~~~e~eakvAvLAieLgMlEeA~~lYr~ckR---------~DLlNKlyQs~g~w~eA~eiAE~~DRiH----Lr~Tyy~y  864 (1416)
T KOG3617|consen  798 NGEEDEAKVAVLAIELGMLEEALILYRQCKR---------YDLLNKLYQSQGMWSEAFEIAETKDRIH----LRNTYYNY  864 (1416)
T ss_pred             CCcchhhHHHHHHHHHhhHHHHHHHHHHHHH---------HHHHHHHHHhcccHHHHHHHHhhcccee----hhhhHHHH
Confidence            11 2222233333567889999999998765         4455567778899999998876532222    12345555


Q ss_pred             HHHhHhcCCHHHHHHHHhcCCCCCeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHH
Q 041384          172 LDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGK  251 (580)
Q Consensus       172 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~  251 (580)
                      ..-+-..++.+.|++.|++...+--..+..|.      .++.......+++.      |...|.--.......|+.+.|.
T Consensus       865 A~~Lear~Di~~AleyyEK~~~hafev~rmL~------e~p~~~e~Yv~~~~------d~~L~~WWgqYlES~GemdaAl  932 (1416)
T KOG3617|consen  865 AKYLEARRDIEAALEYYEKAGVHAFEVFRMLK------EYPKQIEQYVRRKR------DESLYSWWGQYLESVGEMDAAL  932 (1416)
T ss_pred             HHHHHhhccHHHHHHHHHhcCChHHHHHHHHH------hChHHHHHHHHhcc------chHHHHHHHHHHhcccchHHHH
Confidence            55566678899999999876444222222111      12223333333332      2233333333445567777777


Q ss_pred             HHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHHHhCCChhHHHHHHHHHH
Q 041384          252 AIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMR  325 (580)
Q Consensus       252 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  325 (580)
                      .+|.....         |-.++...|-.|+ .+.|..+-++.  .|....-.+.+.|-..|++.+|...|.+..
T Consensus       933 ~~Y~~A~D---------~fs~VrI~C~qGk-~~kAa~iA~es--gd~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  933 SFYSSAKD---------YFSMVRIKCIQGK-TDKAARIAEES--GDKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             HHHHHhhh---------hhhheeeEeeccC-chHHHHHHHhc--ccHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            77766543         2334444455555 55555554433  244455566777777788888877776654

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.88  E-value=7.3e-08  Score=90.09  Aligned_cols=216  Identities=13%  Similarity=0.098  Sum_probs=162.1

Q ss_pred             hccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCCC---CcchHHHHHHHHHhcCChHHHHH
Q 041384          344 TRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAAR---DFVSWTTLISGYGFHGYGEEALQ  420 (580)
Q Consensus       344 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~  420 (580)
                      .+.|++.+|.-.|+..++.. +-+...|..|.......++-..|+..+++..+-   |....-.|.-.|...|.-..|+.
T Consensus       296 m~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~Al~  374 (579)
T KOG1125|consen  296 MKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQALK  374 (579)
T ss_pred             HhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHHHH
Confidence            35666777777777666654 446667777777777777777777777766653   44456666677777787778888


Q ss_pred             HHHHHHHcCCCCCHHHHHHHH-----------HHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHH
Q 041384          421 LFLEMQESGVEPDAITVLAIL-----------SACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDA  489 (580)
Q Consensus       421 ~~~~~~~~g~~p~~~~~~~l~-----------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  489 (580)
                      .++.-+...  |..   ..+.           ..+..........++|-++....+..+|+.+...|.-.|--.|++++|
T Consensus       375 ~L~~Wi~~~--p~y---~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdra  449 (579)
T KOG1125|consen  375 MLDKWIRNK--PKY---VHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRA  449 (579)
T ss_pred             HHHHHHHhC--ccc---hhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHH
Confidence            887765532  110   0000           122223344556667777666677668888899999999999999999


Q ss_pred             HHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 041384          490 CKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAK  565 (580)
Q Consensus       490 ~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (580)
                      +..|+.+ ..+| |...||-|...++...+..+|+..|.+++++.|.-..+...|+..|...|.|++|.+.|=..+..
T Consensus       450 iDcf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~m  527 (579)
T KOG1125|consen  450 VDCFEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSM  527 (579)
T ss_pred             HHHHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHh
Confidence            9999988 4566 77899999999999999999999999999999999999999999999999999999998766553

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.87  E-value=2.1e-06  Score=79.88  Aligned_cols=238  Identities=13%  Similarity=0.055  Sum_probs=154.1

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCc------hhHHHHH
Q 041384          301 WSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFD------VSIGNAL  374 (580)
Q Consensus       301 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~l  374 (580)
                      ...+..+.-+..++..|.+-+....+..  -+..-++....++...|....+........+.|...-      ...+..+
T Consensus       227 ek~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r~  304 (539)
T KOG0548|consen  227 EKELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALARL  304 (539)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHHh
Confidence            3345556666777788888777776553  3333344555666777776666666555555442211      1111223


Q ss_pred             HHHhHhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCCHHHH
Q 041384          375 MNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDA-ITVLAILSACNHAGLVKEA  453 (580)
Q Consensus       375 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~~~~~~a  453 (580)
                      ..+|.+.++.+.+...|++...+...     -....+....++++...+...-  +.|.. .-...-...+.+.|++..|
T Consensus       305 g~a~~k~~~~~~ai~~~~kaLte~Rt-----~~~ls~lk~~Ek~~k~~e~~a~--~~pe~A~e~r~kGne~Fk~gdy~~A  377 (539)
T KOG0548|consen  305 GNAYTKREDYEGAIKYYQKALTEHRT-----PDLLSKLKEAEKALKEAERKAY--INPEKAEEEREKGNEAFKKGDYPEA  377 (539)
T ss_pred             hhhhhhHHhHHHHHHHHHHHhhhhcC-----HHHHHHHHHHHHHHHHHHHHHh--hChhHHHHHHHHHHHHHhccCHHHH
Confidence            34666777888888888875432111     1112223344555555444433  34443 2222336678889999999


Q ss_pred             HHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 041384          454 ETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEA  531 (580)
Q Consensus       454 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  531 (580)
                      +..|.++++.  .+-|...|..-.-+|.+.|.+..|++=.+.. ...| ....|.--..++....+++.|.+.|.+.++.
T Consensus       378 v~~YteAIkr--~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eale~  455 (539)
T KOG0548|consen  378 VKHYTEAIKR--DPEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEALEL  455 (539)
T ss_pred             HHHHHHHHhc--CCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            9999998873  3667888999999999999999998876665 3344 3445655566667778999999999999999


Q ss_pred             CCCCchHHHHHHHHHHhc
Q 041384          532 EPENAANYTLLSMVCSES  549 (580)
Q Consensus       532 ~~~~~~~~~~l~~~~~~~  549 (580)
                      +|.+..+...+.+++...
T Consensus       456 dp~~~e~~~~~~rc~~a~  473 (539)
T KOG0548|consen  456 DPSNAEAIDGYRRCVEAQ  473 (539)
T ss_pred             CchhHHHHHHHHHHHHHh
Confidence            999999888888777653

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.85  E-value=3.6e-07  Score=81.53  Aligned_cols=180  Identities=12%  Similarity=-0.010  Sum_probs=110.0

Q ss_pred             chhHHHHHHHHhHhcCCHHHHHHHHhcCCCC---Cc---chHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH----HH
Q 041384          367 DVSIGNALMNMYSKCGSITSSHQIFNEMAAR---DF---VSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDA----IT  436 (580)
Q Consensus       367 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~----~~  436 (580)
                      ....+..+...+...|++++|...|+++...   +.   ..+..+..++...|++++|+..++++.+.  .|+.    .+
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a  109 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRL--HPNHPDADYA  109 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCCchHHH
Confidence            4445555666666777777777777665542   11   24455666667777777777777777664  3322    13


Q ss_pred             HHHHHHHHhcc--------CCHHHHHHHHHHHHHhhCCCCCh-hHHHHHHHHhhhcCChHHHHHHHHhCCCCCCHHHHHH
Q 041384          437 VLAILSACNHA--------GLVKEAETLFNNVMKEKKIALAI-EHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRILSS  507 (580)
Q Consensus       437 ~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~  507 (580)
                      +..+..++...        |+++.|.+.++.+++.   .|+. ..+..+....    ......           ......
T Consensus       110 ~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~a~~~~~----~~~~~~-----------~~~~~~  171 (235)
T TIGR03302       110 YYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR---YPNSEYAPDAKKRMD----YLRNRL-----------AGKELY  171 (235)
T ss_pred             HHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH---CCCChhHHHHHHHHH----HHHHHH-----------HHHHHH
Confidence            33334444433        5566666666665542   1221 1111111100    000000           001124


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCC---chHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 041384          508 LVSACRIHGRLEVAEMLAHQLIEAEPEN---AANYTLLSMVCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       508 l~~~~~~~~~~~~A~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      +...+.+.|++++|+..++++.+..|++   +..+..++.++...|++++|..+++.+....
T Consensus       172 ~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~  233 (235)
T TIGR03302       172 VARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANY  233 (235)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            5667889999999999999999987654   5789999999999999999999999887654

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).

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.82  E-value=4.5e-07  Score=77.24  Aligned_cols=119  Identities=8%  Similarity=0.115  Sum_probs=70.8

Q ss_pred             cCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHH-HhcCC--HHHH
Q 041384          447 AGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSAC-RIHGR--LEVA  521 (580)
Q Consensus       447 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~-~~~~~--~~~A  521 (580)
                      .++.+++...++..++  .-+.+...|..+...|...|++++|...+++. ...| +...+..+..++ ...|+  .++|
T Consensus        52 ~~~~~~~i~~l~~~L~--~~P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         52 QQTPEAQLQALQDKIR--ANPQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHH
Confidence            4444555555555443  23344555666666666666666666666655 2333 445555555543 45455  3666


Q ss_pred             HHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          522 EMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       522 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      .++++++.+.+|.++.++..++..+.+.|++++|+..|+++.+...
T Consensus       130 ~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~~  175 (198)
T PRK10370        130 REMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKVLDLNS  175 (198)
T ss_pred             HHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            7777777777776666666666666667777777777666665443

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.78  E-value=8.3e-05  Score=80.95  Aligned_cols=162  Identities=12%  Similarity=0.095  Sum_probs=104.5

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHC--CCCCC--HHHHHHHHHHhhccCChHHHHHHHHHHHHhC--CCCchh--H--
Q 041384          301 WSSIIRGYSQSGDLSEAMKLFSRMRLE--RIEPN--SVTLLAILSSCTRQSFLSHGLGVHCYIMKAG--LNFDVS--I--  370 (580)
Q Consensus       301 ~~~l~~~~~~~~~~~~a~~~~~~m~~~--~~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~--~--  370 (580)
                      +..+...+...|++++|...+.+....  ...+.  ...+..+.......|+.+.|.+.+.......  ......  .  
T Consensus       576 ~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~  655 (903)
T PRK04841        576 LRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANA  655 (903)
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHH
Confidence            334455566779999998888876542  11122  2334445566778899999999888876521  111110  0  


Q ss_pred             HHHHHHHhHhcCCHHHHHHHHhcCCCCCcc-------hHHHHHHHHHhcCChHHHHHHHHHHHHc----CCCCCH-HHHH
Q 041384          371 GNALMNMYSKCGSITSSHQIFNEMAARDFV-------SWTTLISGYGFHGYGEEALQLFLEMQES----GVEPDA-ITVL  438 (580)
Q Consensus       371 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-------~~~~l~~~~~~~~~~~~a~~~~~~~~~~----g~~p~~-~~~~  438 (580)
                      ....+..+...|+.+.|...+.....+...       .+..+..++...|++++|...+++....    |..++. .+..
T Consensus       656 ~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~  735 (903)
T PRK04841        656 DKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLI  735 (903)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHH
Confidence            011224445678999999988776653211       1345667788889999999999887653    322222 4556


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHH
Q 041384          439 AILSACNHAGLVKEAETLFNNVMK  462 (580)
Q Consensus       439 ~l~~~~~~~~~~~~a~~~~~~~~~  462 (580)
                      .+..++...|+.++|...+.++++
T Consensus       736 ~la~a~~~~G~~~~A~~~L~~Al~  759 (903)
T PRK04841        736 LLNQLYWQQGRKSEAQRVLLEALK  759 (903)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHH
Confidence            667778899999999999998776

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.76  E-value=3.4e-07  Score=73.65  Aligned_cols=105  Identities=10%  Similarity=-0.051  Sum_probs=57.0

Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCC-CCHHHHHHHHHHHHhcC
Q 041384          439 AILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMK-PSTRILSSLVSACRIHG  516 (580)
Q Consensus       439 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~~  516 (580)
                      .+...+...|++++|...|+.++.  --+.+...+..+..++.+.|++++|+..|++. ... .+...+..+..++...|
T Consensus        29 ~~g~~~~~~g~~~~A~~~~~~al~--~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~~~g  106 (144)
T PRK15359         29 ASGYASWQEGDYSRAVIDFSWLVM--AQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTGVCLKMMG  106 (144)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHH--cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHcC
Confidence            344555556666666666665443  12233445555555555666666666655555 222 24455555555555556


Q ss_pred             CHHHHHHHHHHHHhcCCCCchHHHHHHHH
Q 041384          517 RLEVAEMLAHQLIEAEPENAANYTLLSMV  545 (580)
Q Consensus       517 ~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  545 (580)
                      +.++|+..++++.+..|.++..+...+.+
T Consensus       107 ~~~eAi~~~~~Al~~~p~~~~~~~~~~~~  135 (144)
T PRK15359        107 EPGLAREAFQTAIKMSYADASWSEIRQNA  135 (144)
T ss_pred             CHHHHHHHHHHHHHhCCCChHHHHHHHHH
Confidence            66666666666666666555555555443

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.73  E-value=4.3e-05  Score=73.12  Aligned_cols=266  Identities=12%  Similarity=0.026  Sum_probs=167.0

Q ss_pred             hhHHHHHHHHHhCCChhHHHHHHHHHHHCC-CCCCHHHH-HHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHH---
Q 041384          299 VIWSSIIRGYSQSGDLSEAMKLFSRMRLER-IEPNSVTL-LAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNA---  373 (580)
Q Consensus       299 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~-~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---  373 (580)
                      ..|..+...+...|+.+.+...+....... ..++.... ......+...|++++|.++++...+.. +.+...+..   
T Consensus         7 ~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~~~~   85 (355)
T cd05804           7 LGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLALKLHLG   85 (355)
T ss_pred             HHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHhHH
Confidence            345556666667777888766666654432 12333222 222334567899999999999988764 333333331   


Q ss_pred             HHHHhHhcCCHHHHHHHHhcCCCCCc---chHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCH
Q 041384          374 LMNMYSKCGSITSSHQIFNEMAARDF---VSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLV  450 (580)
Q Consensus       374 l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~  450 (580)
                      ........+..+.+.+.+......++   .....+...+...|++++|...+++..+.. +.+...+..+...+...|++
T Consensus        86 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~  164 (355)
T cd05804          86 AFGLGDFSGMRDHVARVLPLWAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRF  164 (355)
T ss_pred             HHHhcccccCchhHHHHHhccCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCH
Confidence            22222235666677777765333322   234455668889999999999999999863 33457788888899999999


Q ss_pred             HHHHHHHHHHHHhhCCCCCh--hHHHHHHHHhhhcCChHHHHHHHHhCC-CCCCHHHH----H--HHHHHHHhcCCHHHH
Q 041384          451 KEAETLFNNVMKEKKIALAI--EHYACYVDLLGKSGKIEDACKVVSTMP-MKPSTRIL----S--SLVSACRIHGRLEVA  521 (580)
Q Consensus       451 ~~a~~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~~~~~----~--~l~~~~~~~~~~~~A  521 (580)
                      ++|...+++.+......|+.  ..|..+...+...|++++|..++++.. ..|....+    +  .++.-+...|..+.+
T Consensus       165 ~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~  244 (355)
T cd05804         165 KEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVG  244 (355)
T ss_pred             HHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChH
Confidence            99999999976533222333  345678889999999999999999973 22311111    1  223333444533333


Q ss_pred             HHH---HHHHHhcCCC--CchHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 041384          522 EML---AHQLIEAEPE--NAANYTLLSMVCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       522 ~~~---~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      .+.   ........|.  ........+.++...|+.++|...++.+....
T Consensus       245 ~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~  294 (355)
T cd05804         245 DRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRA  294 (355)
T ss_pred             HHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHH
Confidence            332   2221111122  22233467788889999999999999886643

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.

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.72  E-value=1.9e-06  Score=88.75  Aligned_cols=162  Identities=17%  Similarity=0.192  Sum_probs=72.1

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHH
Q 041384          401 SWTTLISGYGFHGYGEEALQLFLEMQESGVEPDA-ITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDL  479 (580)
Q Consensus       401 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  479 (580)
                      .|.++++....-|.-+...++|+++.+.   -|+ ..|..|...|.+.+.+++|.++++.|++..+  -....|..+++.
T Consensus      1499 iWiA~lNlEn~yG~eesl~kVFeRAcqy---cd~~~V~~~L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~f 1573 (1710)
T KOG1070|consen 1499 IWIAYLNLENAYGTEESLKKVFERACQY---CDAYTVHLKLLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADF 1573 (1710)
T ss_pred             HHHHHHhHHHhhCcHHHHHHHHHHHHHh---cchHHHHHHHHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHH
Confidence            3444444444444444444444444441   122 3344444444455555555555555444333  333344444444


Q ss_pred             hhhcCChHHHHHHHHhC-CCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHH
Q 041384          480 LGKSGKIEDACKVVSTM-PMKP---STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGA  555 (580)
Q Consensus       480 ~~~~g~~~~A~~~~~~~-~~~p---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  555 (580)
                      +.++.+-++|..++.++ ..-|   ........+..-.+.||.+++..+|+..+...|.....|..+++.-.++|+.+.+
T Consensus      1574 Ll~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~v 1653 (1710)
T KOG1070|consen 1574 LLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKYGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYV 1653 (1710)
T ss_pred             HhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhcCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHH
Confidence            44444444444444443 1111   1222233333334445555555555555555555555555555554455555555


Q ss_pred             HHHHHHHHhCCC
Q 041384          556 EEVWRVMRAKGL  567 (580)
Q Consensus       556 ~~~~~~~~~~~~  567 (580)
                      +.+|++....++
T Consensus      1654 R~lfeRvi~l~l 1665 (1710)
T KOG1070|consen 1654 RDLFERVIELKL 1665 (1710)
T ss_pred             HHHHHHHHhcCC
Confidence            555555444443

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.68  E-value=1.1e-06  Score=70.82  Aligned_cols=95  Identities=11%  Similarity=-0.082  Sum_probs=84.8

Q ss_pred             HHHHHHHhhhcCChHHHHHHHHhC-CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcC
Q 041384          473 YACYVDLLGKSGKIEDACKVVSTM-PMK-PSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESG  550 (580)
Q Consensus       473 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  550 (580)
                      +..+...+...|++++|...|+.. ... .+...|..+..++...|++++|+..++++.+.+|.++..+..++.++...|
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~~~g  106 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTGVCLKMMG  106 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHcC
Confidence            556778889999999999999987 334 477888999999999999999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHHHHhCCC
Q 041384          551 NWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       551 ~~~~A~~~~~~~~~~~~  567 (580)
                      ++++|++.+++..+..+
T Consensus       107 ~~~eAi~~~~~Al~~~p  123 (144)
T PRK15359        107 EPGLAREAFQTAIKMSY  123 (144)
T ss_pred             CHHHHHHHHHHHHHhCC
Confidence            99999999999887654

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.67  E-value=4.5e-06  Score=80.61  Aligned_cols=188  Identities=18%  Similarity=0.124  Sum_probs=105.9

Q ss_pred             CCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 041384          364 LNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSA  443 (580)
Q Consensus       364 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~  443 (580)
                      .+|-...-..+...+...|-...|..+++++     ..|...+.+|...|+..+|..+..+-.+.  +||+.-|..+++.
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            3444445556666777777777777777764     35666677777777777777777666662  6677777777766


Q ss_pred             HhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHH
Q 041384          444 CNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVA  521 (580)
Q Consensus       444 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A  521 (580)
                      .....-+++|.++.+.....        .-..+.....+.++++++.+.|+.- .+.| ...+|..+..+..+.++++.|
T Consensus       467 ~~d~s~yEkawElsn~~sar--------A~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~a  538 (777)
T KOG1128|consen  467 LHDPSLYEKAWELSNYISAR--------AQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQAA  538 (777)
T ss_pred             ccChHHHHHHHHHhhhhhHH--------HHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHHH
Confidence            66665666666666653321        1111112222345555555555433 2222 344555555555555555555


Q ss_pred             HHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 041384          522 EMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       522 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      ...|.......|++...|+.+.-+|.+.|+..+|...+++..+.+
T Consensus       539 v~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn  583 (777)
T KOG1128|consen  539 VKAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN  583 (777)
T ss_pred             HHHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC
Confidence            555555555555555555555555555555555555555555444

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.66  E-value=8.1e-06  Score=84.43  Aligned_cols=227  Identities=15%  Similarity=0.126  Sum_probs=178.2

Q ss_pred             CCHHHHHHHHHHhhccCChHHHHHHHHHHHHh-CCCC---chhHHHHHHHHhHhcCCHHHHHHHHhcCCCC-C-cchHHH
Q 041384          331 PNSVTLLAILSSCTRQSFLSHGLGVHCYIMKA-GLNF---DVSIGNALMNMYSKCGSITSSHQIFNEMAAR-D-FVSWTT  404 (580)
Q Consensus       331 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~-~~~~~~  404 (580)
                      -++..|-..|......++.++|.++.++.... ++.-   -..+|.++++.-..-|.-+...++|+++.+- | ...|..
T Consensus      1456 NSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd~~~V~~~ 1535 (1710)
T KOG1070|consen 1456 NSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYCDAYTVHLK 1535 (1710)
T ss_pred             CcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcchHHHHHH
Confidence            34456777788888999999999999988863 2222   2446777777777778888899999998873 3 357889


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcC
Q 041384          405 LISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSG  484 (580)
Q Consensus       405 l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  484 (580)
                      |...|.+.+.+++|.++++.|.+. +.-....|..++..+.++.+-+.|..++.++++...-.-........+..-.+.|
T Consensus      1536 L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~G 1614 (1710)
T KOG1070|consen 1536 LLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKYG 1614 (1710)
T ss_pred             HHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhcC
Confidence            999999999999999999999987 4556688999999999999999999999998874433334666777778888999


Q ss_pred             ChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CCCch-HHHHHHHHHHhcCChHHHHHH
Q 041384          485 KIEDACKVVSTMP--MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAE--PENAA-NYTLLSMVCSESGNWLGAEEV  558 (580)
Q Consensus       485 ~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~-~~~~l~~~~~~~g~~~~A~~~  558 (580)
                      +.+.+..+|+...  .+.....|+.+++.-.++|+.+.+..+|+++..+.  |.... .|.-++..--+.|+-+.+..+
T Consensus      1615 DaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~vE~V 1693 (1710)
T KOG1070|consen 1615 DAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNVEYV 1693 (1710)
T ss_pred             CchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhHHHH
Confidence            9999999999883  44477899999999999999999999999999987  44443 344555544455665544444

>PF12854 PPR_1: PPR repeat

Probab=98.65  E-value=2.6e-08  Score=56.59  Aligned_cols=33  Identities=42%  Similarity=0.701  Sum_probs=27.5

Q ss_pred             CCCCChhHHHHHHHHHHcCCCchHHHHhhccCC
Q 041384           58 GSDADPVISNSLISMYAKFSKPESAYQLFDEMP   90 (580)
Q Consensus        58 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~   90 (580)
                      |+.||..+||.||.+|++.|++++|.++|++|+
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            678888888888888888888888888888774

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.63  E-value=6.4e-06  Score=83.50  Aligned_cols=135  Identities=10%  Similarity=0.054  Sum_probs=66.6

Q ss_pred             cchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHH
Q 041384          399 FVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDA-ITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYV  477 (580)
Q Consensus       399 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  477 (580)
                      +..+..|.....+.|++++|..+++...+  +.||. .....+...+.+.+++++|+..+++.+.  .-+-+......+.
T Consensus        86 ~~~~~~La~i~~~~g~~~ea~~~l~~~~~--~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~--~~p~~~~~~~~~a  161 (694)
T PRK15179         86 ELFQVLVARALEAAHRSDEGLAVWRGIHQ--RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFS--GGSSSAREILLEA  161 (694)
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHHh--hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhh--cCCCCHHHHHHHH
Confidence            44455555555555555555555555555  24433 3334444555555555555555555432  2222233444455


Q ss_pred             HHhhhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCch
Q 041384          478 DLLGKSGKIEDACKVVSTMP-MKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAA  537 (580)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~  537 (580)
                      .++.+.|++++|..+|+++. ..| +...+..+..++...|+.++|...|+++.+...+...
T Consensus       162 ~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~  223 (694)
T PRK15179        162 KSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGAR  223 (694)
T ss_pred             HHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchH
Confidence            55555555555555555552 122 2345555555555555555555555555555433333

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.61  E-value=0.00024  Score=62.67  Aligned_cols=179  Identities=11%  Similarity=0.010  Sum_probs=122.1

Q ss_pred             CCChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHH
Q 041384          295 VKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNAL  374 (580)
Q Consensus       295 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  374 (580)
                      ..|...|..-..+|...|++..|+.=++...+.. ..+..++..+-..+...|+.+.++...++..+.  .|+-...-. 
T Consensus       186 ~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~-  261 (504)
T KOG0624|consen  186 PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFP-  261 (504)
T ss_pred             cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHH-
Confidence            4577777788889999999999988777765443 345566667777788888888888777777654  344322111 


Q ss_pred             HHHhHhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH---HHHHHHHHHhccCCHH
Q 041384          375 MNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAI---TVLAILSACNHAGLVK  451 (580)
Q Consensus       375 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~---~~~~l~~~~~~~~~~~  451 (580)
                        .|-   ++.+..+.++.|            ......++|.++++..+...+........   .+..+-.++...|++.
T Consensus       262 --~YK---klkKv~K~les~------------e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~  324 (504)
T KOG0624|consen  262 --FYK---KLKKVVKSLESA------------EQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFG  324 (504)
T ss_pred             --HHH---HHHHHHHHHHHH------------HHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHH
Confidence              122   222233333222            23346678889999888888753221223   3444556667789999


Q ss_pred             HHHHHHHHHHHhhCCCCC-hhHHHHHHHHhhhcCChHHHHHHHHhCC
Q 041384          452 EAETLFNNVMKEKKIALA-IEHYACYVDLLGKSGKIEDACKVVSTMP  497 (580)
Q Consensus       452 ~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~  497 (580)
                      +|++...+++.   +.|+ +.++---..+|.-...++.|+.-|+...
T Consensus       325 eAiqqC~evL~---~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~  368 (504)
T KOG0624|consen  325 EAIQQCKEVLD---IDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKAL  368 (504)
T ss_pred             HHHHHHHHHHh---cCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            99999999664   5565 7788888889998999999999998873

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.61  E-value=4.7e-06  Score=70.63  Aligned_cols=156  Identities=17%  Similarity=0.178  Sum_probs=118.9

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhh
Q 041384          403 TTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGK  482 (580)
Q Consensus       403 ~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  482 (580)
                      ..+-..+...|+-+....+....... ..-|......++....+.|++..|+..+.++.  ..-++|...|+.+.-+|.+
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~--~l~p~d~~~~~~lgaaldq  146 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAA--RLAPTDWEAWNLLGAALDQ  146 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHh--ccCCCChhhhhHHHHHHHH
Confidence            55666677777777777777665442 12344556667788888888888888888854  3667778888888888888


Q ss_pred             cCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHH
Q 041384          483 SGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWR  560 (580)
Q Consensus       483 ~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  560 (580)
                      .|++++|..-|.+. .+.| ++...+.+...+.-.||.+.|+.++.......+.+..+-..|+.+....|++++|..+..
T Consensus       147 ~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A~~i~~  226 (257)
T COG5010         147 LGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREAEDIAV  226 (257)
T ss_pred             ccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHHHhhcc
Confidence            88888888887776 3444 566778888888888888888888888888888888888888888888888888887765


Q ss_pred             H
Q 041384          561 V  561 (580)
Q Consensus       561 ~  561 (580)
                      +
T Consensus       227 ~  227 (257)
T COG5010         227 Q  227 (257)
T ss_pred             c
Confidence            4

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.60  E-value=0.00028  Score=71.10  Aligned_cols=473  Identities=13%  Similarity=0.057  Sum_probs=219.3

Q ss_pred             HHHHHHHHHHcCCCchHHHHhhccCC---CCCccchHHHHHHHHhCCChhHHHHHHHHHHHCCC-CCCHhhHHHHHHHhh
Q 041384           65 ISNSLISMYAKFSKPESAYQLFDEMP---YRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGF-VLKAELLAGIISLCS  140 (580)
Q Consensus        65 ~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~ll~~~~  140 (580)
                      .|..|-..|+...+...|.+.|+...   ..+...+......|++..+++.|..+.-..-+... ..-...|...--.+.
T Consensus       494 af~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~yyL  573 (1238)
T KOG1127|consen  494 AFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPYYL  573 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhcccccc
Confidence            56666666666667777777777654   33555666777777777777777776322222110 001112222223345


Q ss_pred             ccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCCCCeeh-HH--HHHHHHHhcCChhHHHH
Q 041384          141 QIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVS-WT--AMISGCIDSQNYDTGID  217 (580)
Q Consensus       141 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~--~li~~~~~~~~~~~a~~  217 (580)
                      ..++...+..-|+...+..  |.|...|..+..+|.++|++..|.++|.+...-++.. |.  -..-..+..|.+.+|++
T Consensus       574 ea~n~h~aV~~fQsALR~d--PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~y~~fk~A~~ecd~GkYkeald  651 (1238)
T KOG1127|consen  574 EAHNLHGAVCEFQSALRTD--PKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLSKYGRFKEAVMECDNGKYKEALD  651 (1238)
T ss_pred             CccchhhHHHHHHHHhcCC--chhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHhHHHHHHHHHHHHHhhhHHHHHH
Confidence            5667777777777777665  6677778888888888888888888886663322221 11  11223455677777777


Q ss_pred             HHHHHHHc------CCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHHH-------hcCCCchhHHHHHHHHHHHcCCCHH
Q 041384          218 LFRAMQRE------GVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYC-------CGFDFDHHLSAALMHMYCECTEALH  284 (580)
Q Consensus       218 ~~~~m~~~------~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~~~~~~  284 (580)
                      .+......      +..--..++..+...+...|-...+..+++..++       .....+...+..+           .
T Consensus       652 ~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~a-----------s  720 (1238)
T KOG1127|consen  652 ALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVA-----------S  720 (1238)
T ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHH-----------h
Confidence            77665432      1111223333333333333333333333333222       1111111111111           1


Q ss_pred             HHHHHHhhCCCCChh--hHHHHHHH-HHhCCCh---h---HHHHHHHHHHHCCCCCCHHHHHHHHHHhhc--------cC
Q 041384          285 PARIIFERTKVKDVV--IWSSIIRG-YSQSGDL---S---EAMKLFSRMRLERIEPNSVTLLAILSSCTR--------QS  347 (580)
Q Consensus       285 ~a~~~~~~~~~~~~~--~~~~l~~~-~~~~~~~---~---~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~--------~~  347 (580)
                      .+-.+|-... |+.+  .+..++.. .-..+..   +   -+.+.+-.-.  ....+..++..+...+.+        ..
T Consensus       721 dac~~f~q~e-~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hl--sl~~~~~~WyNLGinylr~f~~l~et~~  797 (1238)
T KOG1127|consen  721 DACYIFSQEE-PSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHL--SLAIHMYPWYNLGINYLRYFLLLGETMK  797 (1238)
T ss_pred             HHHHHHHHhc-ccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHH--HHhhccchHHHHhHHHHHHHHHcCCcch
Confidence            1222222222 2211  11111111 1111111   1   0000000000  011122233333222221        11


Q ss_pred             ChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHH
Q 041384          348 FLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLE  424 (580)
Q Consensus       348 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~  424 (580)
                      +...|...+...++.. .-+..+|+.|. .....|.+.-|...|-+-..   .+..+|..+...+.+..+++-|...|..
T Consensus       798 ~~~~Ai~c~KkaV~L~-ann~~~WnaLG-Vlsg~gnva~aQHCfIks~~sep~~~~~W~NlgvL~l~n~d~E~A~~af~~  875 (1238)
T KOG1127|consen  798 DACTAIRCCKKAVSLC-ANNEGLWNALG-VLSGIGNVACAQHCFIKSRFSEPTCHCQWLNLGVLVLENQDFEHAEPAFSS  875 (1238)
T ss_pred             hHHHHHHHHHHHHHHh-hccHHHHHHHH-HhhccchhhhhhhhhhhhhhccccchhheeccceeEEecccHHHhhHHHHh
Confidence            2234555555554432 22344444443 33555666666666654332   3445677777777777788888888877


Q ss_pred             HHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHH--HH-hhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC---
Q 041384          425 MQESGVEP-DAITVLAILSACNHAGLVKEAETLFNNV--MK-EKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP---  497 (580)
Q Consensus       425 ~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~--~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---  497 (580)
                      .+..  .| |...+..........|+.-++..+|..-  +. ..|-.|+..-|..........|+.++-+...+++.   
T Consensus       876 ~qSL--dP~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs  953 (1238)
T KOG1127|consen  876 VQSL--DPLNLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTARKISSAS  953 (1238)
T ss_pred             hhhc--CchhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhhhhhhhH
Confidence            7763  45 3344444333344566666666666541  11 12333333333333334445565555544444431   


Q ss_pred             ---------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC------CCCchHHHHHHHHHHhcCChHHHHH
Q 041384          498 ---------MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAE------PENAANYTLLSMVCSESGNWLGAEE  557 (580)
Q Consensus       498 ---------~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~------~~~~~~~~~l~~~~~~~g~~~~A~~  557 (580)
                               .+.+...|...+...-+.+.+..|.+...++...-      .....+-..+++.+...|.++.|..
T Consensus       954 ~al~~yf~~~p~~~fAy~~~gstlEhL~ey~~a~ela~RliglLe~k~d~sqynvak~~~gRL~lslgefe~A~~ 1028 (1238)
T KOG1127|consen  954 LALSYYFLGHPQLCFAYAANGSTLEHLEEYRAALELATRLIGLLELKLDESQYNVAKPDAGRLELSLGEFESAKK 1028 (1238)
T ss_pred             HHHHHHHhcCcchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhcchhhHhh
Confidence                     12233445554444455555555555554443211      1122233344455555555554443

>PLN02789 farnesyltranstransferase

Probab=98.58  E-value=4.8e-05  Score=69.90  Aligned_cols=177  Identities=8%  Similarity=0.030  Sum_probs=108.7

Q ss_pred             HHHHHHHHhcCCCC---CcchHHHHHHHHHhcCC--hHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHH
Q 041384          384 ITSSHQIFNEMAAR---DFVSWTTLISGYGFHGY--GEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETLF  457 (580)
Q Consensus       384 ~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~  457 (580)
                      +++++..++++.+.   +..+|+.....+.+.|+  .++++..++++.+.  .| |..+|.....++...|+++++++.+
T Consensus        88 l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~~el~~~~kal~~--dpkNy~AW~~R~w~l~~l~~~~eeL~~~  165 (320)
T PLN02789         88 LEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAANKELEFTRKILSL--DAKNYHAWSHRQWVLRTLGGWEDELEYC  165 (320)
T ss_pred             HHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            45555555544432   22334433333334443  25567777777764  34 5567777777777777788888888


Q ss_pred             HHHHHhhCCCCChhHHHHHHHHhhhc---CCh----HHHHHHHHhC-CCCC-CHHHHHHHHHHHHhc----CCHHHHHHH
Q 041384          458 NNVMKEKKIALAIEHYACYVDLLGKS---GKI----EDACKVVSTM-PMKP-STRILSSLVSACRIH----GRLEVAEML  524 (580)
Q Consensus       458 ~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~----~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~----~~~~~A~~~  524 (580)
                      +++++..  +-+...|+.....+.+.   |..    ++.+.+..++ ...| +...|+.+...+...    +...+|.+.
T Consensus       166 ~~~I~~d--~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~  243 (320)
T PLN02789        166 HQLLEED--VRNNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSV  243 (320)
T ss_pred             HHHHHHC--CCchhHHHHHHHHHHhccccccccccHHHHHHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHH
Confidence            7766522  23344455544444333   222    3555555444 3344 667888787777663    344668888


Q ss_pred             HHHHHhcCCCCchHHHHHHHHHHhcC------------------ChHHHHHHHHHHHh
Q 041384          525 AHQLIEAEPENAANYTLLSMVCSESG------------------NWLGAEEVWRVMRA  564 (580)
Q Consensus       525 ~~~~~~~~~~~~~~~~~l~~~~~~~g------------------~~~~A~~~~~~~~~  564 (580)
                      +.++...+|.++.++..|++.|....                  ..++|.++++.+.+
T Consensus       244 ~~~~~~~~~~s~~al~~l~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~l~~  301 (320)
T PLN02789        244 CLEVLSKDSNHVFALSDLLDLLCEGLQPTAEFRDTVDTLAEELSDSTLAQAVCSELEV  301 (320)
T ss_pred             HHHhhcccCCcHHHHHHHHHHHHhhhccchhhhhhhhccccccccHHHHHHHHHHHHh
Confidence            88888888999999999999998643                  34678888888743

>PF12854 PPR_1: PPR repeat

Probab=98.58  E-value=1e-07  Score=54.17  Aligned_cols=32  Identities=19%  Similarity=0.376  Sum_probs=17.2

Q ss_pred             CCCCChhHHHHHHHHhhhcCChHHHHHHHHhC
Q 041384          465 KIALAIEHYACYVDLLGKSGKIEDACKVVSTM  496 (580)
Q Consensus       465 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  496 (580)
                      |+.||..+|+.||.+|++.|++++|.++|++|
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            44555555555555555555555555555554

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.57  E-value=4.2e-06  Score=80.82  Aligned_cols=218  Identities=11%  Similarity=0.012  Sum_probs=168.7

Q ss_pred             CCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCC--CCcchHHHHHHH
Q 041384          331 PNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAA--RDFVSWTTLISG  408 (580)
Q Consensus       331 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~l~~~  408 (580)
                      |--..-..+...+.+.|-...|..+++.+.         .+.-++.+|...|+..+|..+..+..+  ||...|..+.+.
T Consensus       396 p~Wq~q~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek~~d~~lyc~LGDv  466 (777)
T KOG1128|consen  396 PIWQLQRLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEKDPDPRLYCLLGDV  466 (777)
T ss_pred             CcchHHHHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcCCCcchhHHHhhhh
Confidence            333344456667777888888888888654         456678899999999999888776554  577788888887


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHH
Q 041384          409 YGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIED  488 (580)
Q Consensus       409 ~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  488 (580)
                      .....-+++|.++.+.....       .-..+.....+.++++++.+.|+.-++-.  +....+|-.+..+..+.++++.
T Consensus       467 ~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n--plq~~~wf~~G~~ALqlek~q~  537 (777)
T KOG1128|consen  467 LHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN--PLQLGTWFGLGCAALQLEKEQA  537 (777)
T ss_pred             ccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC--ccchhHHHhccHHHHHHhhhHH
Confidence            77777788888887665432       11122222345789999999999866533  2345678888888889999999


Q ss_pred             HHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 041384          489 ACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       489 A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      |.+.|... ...| +...||.+..+|.+.|+-.+|...++++.+-+-.+..+|-...-....-|.+++|.+.++++.+..
T Consensus       538 av~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w~iWENymlvsvdvge~eda~~A~~rll~~~  617 (777)
T KOG1128|consen  538 AVKAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDLR  617 (777)
T ss_pred             HHHHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCCeeeechhhhhhhcccHHHHHHHHHHHHHhh
Confidence            99999877 4566 557899999999999999999999999999988888888888888889999999999999987754

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.55  E-value=1.3e-06  Score=68.82  Aligned_cols=97  Identities=9%  Similarity=-0.015  Sum_probs=85.6

Q ss_pred             hhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHH
Q 041384          470 IEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCS  547 (580)
Q Consensus       470 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  547 (580)
                      ......+...+...|++++|.++|+-+ ...| +...|..|...+...|++++|+..+.++..++|+++..+..++.++.
T Consensus        35 l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~L  114 (157)
T PRK15363         35 LNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECYL  114 (157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHH
Confidence            445556777788999999999999988 3455 66788899999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHHHHHHHHhCC
Q 041384          548 ESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       548 ~~g~~~~A~~~~~~~~~~~  566 (580)
                      ..|+.+.|++.|+..+...
T Consensus       115 ~lG~~~~A~~aF~~Ai~~~  133 (157)
T PRK15363        115 ACDNVCYAIKALKAVVRIC  133 (157)
T ss_pred             HcCCHHHHHHHHHHHHHHh
Confidence            9999999999999887653

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.52  E-value=1.8e-05  Score=67.46  Aligned_cols=155  Identities=10%  Similarity=0.091  Sum_probs=115.6

Q ss_pred             HHHhHhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHH
Q 041384          375 MNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAE  454 (580)
Q Consensus       375 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~  454 (580)
                      +..|...|+++.+....+.+..+.        ..+...++.++++..++...+.. +.|...|..+...|...|+++.|.
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~~~--------~~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~   93 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLADPL--------HQFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNAL   93 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhCcc--------ccccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            346777788777655543332221        01123566788888888877752 446788999999999999999999


Q ss_pred             HHHHHHHHhhCCCCChhHHHHHHHHh-hhcCC--hHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 041384          455 TLFNNVMKEKKIALAIEHYACYVDLL-GKSGK--IEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLI  529 (580)
Q Consensus       455 ~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~--~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  529 (580)
                      ..|+++.+  -.+.+...+..+..++ ...|+  .++|.+++++. ...| +...+..+...+.+.|++++|+..++++.
T Consensus        94 ~a~~~Al~--l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL  171 (198)
T PRK10370         94 LAYRQALQ--LRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKVL  171 (198)
T ss_pred             HHHHHHHH--hCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            99999765  2234577778888864 67777  59999999998 3445 67788999999999999999999999999


Q ss_pred             hcCCCCchHHH
Q 041384          530 EAEPENAANYT  540 (580)
Q Consensus       530 ~~~~~~~~~~~  540 (580)
                      +..|++..-+.
T Consensus       172 ~l~~~~~~r~~  182 (198)
T PRK10370        172 DLNSPRVNRTQ  182 (198)
T ss_pred             hhCCCCccHHH
Confidence            99988776443

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.52  E-value=1e-05  Score=68.63  Aligned_cols=155  Identities=17%  Similarity=0.084  Sum_probs=123.6

Q ss_pred             HHHHHHhHhcCCHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccC
Q 041384          372 NALMNMYSKCGSITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAG  448 (580)
Q Consensus       372 ~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~  448 (580)
                      ..+-..+.-.|+-+....+......   .|......++....+.|++..|...+++..... ++|..+++.+.-+|.+.|
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~G  148 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIAYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQLG  148 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhccCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHcc
Confidence            5566677778888888777777543   344566668899999999999999999998752 567899999999999999


Q ss_pred             CHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHhcCCHHHHHHHHH
Q 041384          449 LVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP-MKP-STRILSSLVSACRIHGRLEVAEMLAH  526 (580)
Q Consensus       449 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~  526 (580)
                      +.+.|..-|.+.++-.+-  +...++.+.-.|.-.|+.+.|..++.+.. ..+ |..+-..+..+....|+++.|+.+..
T Consensus       149 r~~~Ar~ay~qAl~L~~~--~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A~~i~~  226 (257)
T COG5010         149 RFDEARRAYRQALELAPN--EPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREAEDIAV  226 (257)
T ss_pred             ChhHHHHHHHHHHHhccC--CchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHHHhhcc
Confidence            999999999997763333  34557888888899999999999998884 233 77788888888999999999998876


Q ss_pred             HHH
Q 041384          527 QLI  529 (580)
Q Consensus       527 ~~~  529 (580)
                      +-.
T Consensus       227 ~e~  229 (257)
T COG5010         227 QEL  229 (257)
T ss_pred             ccc
Confidence            643

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.51  E-value=9e-06  Score=72.50  Aligned_cols=183  Identities=15%  Similarity=0.006  Sum_probs=128.7

Q ss_pred             CCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCC-C-chhHHHHHHHHhHhcCCHHHHHHHHhcCCCC---Ccc---h
Q 041384          330 EPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLN-F-DVSIGNALMNMYSKCGSITSSHQIFNEMAAR---DFV---S  401 (580)
Q Consensus       330 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~---~  401 (580)
                      ......+..+...+...|+++.|...++.+...... | ....+..+..++.+.|++++|...++++.+.   +..   .
T Consensus        30 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a  109 (235)
T TIGR03302        30 EWPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYA  109 (235)
T ss_pred             cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHH
Confidence            445667888888999999999999999999875421 1 2246677888999999999999999998752   222   3


Q ss_pred             HHHHHHHHHhc--------CChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhH
Q 041384          402 WTTLISGYGFH--------GYGEEALQLFLEMQESGVEPDAI-TVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEH  472 (580)
Q Consensus       402 ~~~l~~~~~~~--------~~~~~a~~~~~~~~~~g~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  472 (580)
                      +..+..++...        |+.++|.+.++++.+.  .|+.. ....+.....    .      ... ..        ..
T Consensus       110 ~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~~~----~------~~~-~~--------~~  168 (235)
T TIGR03302       110 YYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRMDY----L------RNR-LA--------GK  168 (235)
T ss_pred             HHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHHHH----H------HHH-HH--------HH
Confidence            55555666554        6789999999999885  56542 2222211100    0      000 00        01


Q ss_pred             HHHHHHHhhhcCChHHHHHHHHhCC-CCC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 041384          473 YACYVDLLGKSGKIEDACKVVSTMP-MKP----STRILSSLVSACRIHGRLEVAEMLAHQLIEAEP  533 (580)
Q Consensus       473 ~~~l~~~~~~~g~~~~A~~~~~~~~-~~p----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  533 (580)
                      ...+...|.+.|++++|+..+++.. ..|    ....+..+..++.+.|++++|...++.+....|
T Consensus       169 ~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~~  234 (235)
T TIGR03302       169 ELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANYP  234 (235)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            1246677889999999999888872 222    346788899999999999999999888877665

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).

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.47  E-value=3.6e-06  Score=67.58  Aligned_cols=94  Identities=14%  Similarity=0.092  Sum_probs=53.4

Q ss_pred             HHHHHHHhhhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcC
Q 041384          473 YACYVDLLGKSGKIEDACKVVSTM-P-MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESG  550 (580)
Q Consensus       473 ~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  550 (580)
                      ...+...+...|++++|.+.++.. . .+.+...+..+...+...|++++|...++++.+.+|.++..+..++.++...|
T Consensus        20 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~g   99 (135)
T TIGR02552        20 IYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLLALG   99 (135)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHcC
Confidence            334444455555555555555554 1 12244555555555666666666666666666666666666666666666666


Q ss_pred             ChHHHHHHHHHHHhCC
Q 041384          551 NWLGAEEVWRVMRAKG  566 (580)
Q Consensus       551 ~~~~A~~~~~~~~~~~  566 (580)
                      ++++|...+++..+..
T Consensus       100 ~~~~A~~~~~~al~~~  115 (135)
T TIGR02552       100 EPESALKALDLAIEIC  115 (135)
T ss_pred             CHHHHHHHHHHHHHhc
Confidence            6666666666655543

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.47  E-value=1.6e-05  Score=74.91  Aligned_cols=247  Identities=13%  Similarity=0.079  Sum_probs=174.2

Q ss_pred             HHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHH
Q 041384          308 YSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSS  387 (580)
Q Consensus       308 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  387 (580)
                      +.+.|+..+|.-.|+..+... +-+...|..|.......++-..|+..+.+..+.. +-+....-.|.-.|...|.-..|
T Consensus       295 lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~~A  372 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQNQA  372 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHHHH
Confidence            467788888888888777664 3355677777777777777777888777777654 44566666777778888888888


Q ss_pred             HHHHhcCCCCCcc-hHHHHH---------HHHHhcCChHHHHHHHHHH-HHcCCCCCHHHHHHHHHHHhccCCHHHHHHH
Q 041384          388 HQIFNEMAARDFV-SWTTLI---------SGYGFHGYGEEALQLFLEM-QESGVEPDAITVLAILSACNHAGLVKEAETL  456 (580)
Q Consensus       388 ~~~~~~~~~~~~~-~~~~l~---------~~~~~~~~~~~a~~~~~~~-~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~  456 (580)
                      .+.++......+. .|....         ..+..........++|-++ ...+..+|+.....|.-.|.-.|++++|+..
T Consensus       373 l~~L~~Wi~~~p~y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDc  452 (579)
T KOG1125|consen  373 LKMLDKWIRNKPKYVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDC  452 (579)
T ss_pred             HHHHHHHHHhCccchhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHH
Confidence            8887765321110 000000         0111111233344444444 4555457888888888888899999999999


Q ss_pred             HHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 041384          457 FNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKPST-RILSSLVSACRIHGRLEVAEMLAHQLIEAEPE  534 (580)
Q Consensus       457 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  534 (580)
                      |+.++.  --+-|...||.|.-.++...+.++|+..|++. .++|.. +++-.|.-+|...|.+++|...|-.++.+.+.
T Consensus       453 f~~AL~--v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~mq~k  530 (579)
T KOG1125|consen  453 FEAALQ--VKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSMQRK  530 (579)
T ss_pred             HHHHHh--cCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHhhhc
Confidence            999775  23345778999999999999999999999988 577864 57788999999999999999999888875532


Q ss_pred             ----------CchHHHHHHHHHHhcCChHHHHHH
Q 041384          535 ----------NAANYTLLSMVCSESGNWLGAEEV  558 (580)
Q Consensus       535 ----------~~~~~~~l~~~~~~~g~~~~A~~~  558 (580)
                                +..+|..|-.++...++.+-+.+.
T Consensus       531 s~~~~~~~~~se~iw~tLR~als~~~~~D~l~~a  564 (579)
T KOG1125|consen  531 SRNHNKAPMASENIWQTLRLALSAMNRSDLLQEA  564 (579)
T ss_pred             ccccccCCcchHHHHHHHHHHHHHcCCchHHHHh
Confidence                      235788887788888887755544

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.46  E-value=3e-05  Score=65.30  Aligned_cols=192  Identities=15%  Similarity=0.149  Sum_probs=99.5

Q ss_pred             ChHHHHHHHHHHHH---hC-CCCchh-HHHHHHHHhHhcCCHHHHHHHHhcCCCCCcchHHH---HHHHHHhcCChHHHH
Q 041384          348 FLSHGLGVHCYIMK---AG-LNFDVS-IGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTT---LISGYGFHGYGEEAL  419 (580)
Q Consensus       348 ~~~~a~~~~~~~~~---~~-~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~---l~~~~~~~~~~~~a~  419 (580)
                      +.++..+++.++..   .| ..++.. +|..++-+....|+.+.|...++.+...=+.++..   -...+-..|++++|+
T Consensus        27 nseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~~~A~  106 (289)
T KOG3060|consen   27 NSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNYKEAI  106 (289)
T ss_pred             CHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhchhhHH
Confidence            44455555555443   22 223322 33334444555666666666666655421222211   122334456666666


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC-C
Q 041384          420 QLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP-M  498 (580)
Q Consensus       420 ~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~  498 (580)
                      ++++.+.+.+ +-|..++..=+...-..|+.-+|++-+.+-++  .+..|...|..+.+.|...|++++|.--++++. .
T Consensus       107 e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~--~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~  183 (289)
T KOG3060|consen  107 EYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLD--KFMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLI  183 (289)
T ss_pred             HHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHH--HhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHc
Confidence            6666666653 22445555444444455555566665555443  455566666666666666666666666666662 3


Q ss_pred             CC-CHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhcCCCCchHHHHH
Q 041384          499 KP-STRILSSLVSACRIHG---RLEVAEMLAHQLIEAEPENAANYTLL  542 (580)
Q Consensus       499 ~p-~~~~~~~l~~~~~~~~---~~~~A~~~~~~~~~~~~~~~~~~~~l  542 (580)
                      .| ++..+..+...+.-.|   +...|...+.+++++.|.+...+..+
T Consensus       184 ~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~~~~ral~GI  231 (289)
T KOG3060|consen  184 QPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNPKNLRALFGI  231 (289)
T ss_pred             CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhChHhHHHHHHH
Confidence            33 4444555555543332   44556666666666666554444443

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.44  E-value=2.5e-05  Score=80.06  Aligned_cols=227  Identities=11%  Similarity=0.098  Sum_probs=142.9

Q ss_pred             CChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHH-HHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHH
Q 041384          296 KDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVT-LLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNAL  374 (580)
Q Consensus       296 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~-~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  374 (580)
                      .+...+..|+..+...+++++|.++.+...+.  .|+... |..+...+.+.++...+..+                 .+
T Consensus        29 ~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv-----------------~~   89 (906)
T PRK14720         29 SKFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL-----------------NL   89 (906)
T ss_pred             chHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh-----------------hh
Confidence            35667888889998999999999998876655  455443 22233344555554444333                 22


Q ss_pred             HHHhHhcCCHHHHHHHHhcCCC--CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHH
Q 041384          375 MNMYSKCGSITSSHQIFNEMAA--RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKE  452 (580)
Q Consensus       375 ~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~  452 (580)
                      +.......++..+..+...+..  .+...+..+..+|-+.|+.++|..+++++.+.. +-|+...+.+...+... +.++
T Consensus        90 l~~~~~~~~~~~ve~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~K  167 (906)
T PRK14720         90 IDSFSQNLKWAIVEHICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEK  167 (906)
T ss_pred             hhhcccccchhHHHHHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHH
Confidence            2223333333333333333332  233456677778888888888888888888754 23567777777777777 8888


Q ss_pred             HHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC---------------------CHHHHHHHHH
Q 041384          453 AETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKP---------------------STRILSSLVS  510 (580)
Q Consensus       453 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p---------------------~~~~~~~l~~  510 (580)
                      |.+++.+++..                |...+++.++.++|.++ ...|                     -..++..+-.
T Consensus       168 A~~m~~KAV~~----------------~i~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~  231 (906)
T PRK14720        168 AITYLKKAIYR----------------FIKKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYE  231 (906)
T ss_pred             HHHHHHHHHHH----------------HHhhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHH
Confidence            88877776542                33344555555555544 1222                     2233444445


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHH
Q 041384          511 ACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVM  562 (580)
Q Consensus       511 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  562 (580)
                      -|...++++++..+++.+++.+|.|..+...++.+|.  +.|.. ...+++.
T Consensus       232 ~y~~~~~~~~~i~iLK~iL~~~~~n~~a~~~l~~~y~--~kY~~-~~~~ee~  280 (906)
T PRK14720        232 PYKALEDWDEVIYILKKILEHDNKNNKAREELIRFYK--EKYKD-HSLLEDY  280 (906)
T ss_pred             HHhhhhhhhHHHHHHHHHHhcCCcchhhHHHHHHHHH--HHccC-cchHHHH
Confidence            6777889999999999999999999999999999886  44444 4444443

>PLN02789 farnesyltranstransferase

Probab=98.43  E-value=2e-05  Score=72.31  Aligned_cols=187  Identities=11%  Similarity=0.042  Sum_probs=136.3

Q ss_pred             hHhcCCHHHHHHHHhcCCCC---CcchHHHHHHHHHhcC-ChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCH--
Q 041384          378 YSKCGSITSSHQIFNEMAAR---DFVSWTTLISGYGFHG-YGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLV--  450 (580)
Q Consensus       378 ~~~~g~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~--  450 (580)
                      +...+..++|..+..++.+.   +..+|+.....+...| ++++++..++++...  .| +..+|..-...+.+.|+.  
T Consensus        47 l~~~e~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~--npknyqaW~~R~~~l~~l~~~~~  124 (320)
T PLN02789         47 YASDERSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAED--NPKNYQIWHHRRWLAEKLGPDAA  124 (320)
T ss_pred             HHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHH--CCcchHHhHHHHHHHHHcCchhh
Confidence            34456777777777776653   3345555555666666 679999999999986  44 445666555555566653  


Q ss_pred             HHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhc---CC----HHHH
Q 041384          451 KEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-P-MKPSTRILSSLVSACRIH---GR----LEVA  521 (580)
Q Consensus       451 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~---~~----~~~A  521 (580)
                      +++..+++++++  .-+-+..+|+...-++.+.|+++++++.++++ . ...+...|+.....+.+.   |.    .+++
T Consensus       125 ~~el~~~~kal~--~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~N~sAW~~R~~vl~~~~~l~~~~~~~e~e  202 (320)
T PLN02789        125 NKELEFTRKILS--LDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVRNNSAWNQRYFVITRSPLLGGLEAMRDSE  202 (320)
T ss_pred             HHHHHHHHHHHH--hCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCchhHHHHHHHHHHhccccccccccHHHH
Confidence            678888888765  33456778888888899999999999999998 3 334677887777666554   22    2578


Q ss_pred             HHHHHHHHhcCCCCchHHHHHHHHHHhc----CChHHHHHHHHHHHhCCCc
Q 041384          522 EMLAHQLIEAEPENAANYTLLSMVCSES----GNWLGAEEVWRVMRAKGLS  568 (580)
Q Consensus       522 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~----g~~~~A~~~~~~~~~~~~~  568 (580)
                      +....+++..+|.|..+|..+..++...    ++..+|.+.+.+..+.++.
T Consensus       203 l~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~  253 (320)
T PLN02789        203 LKYTIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSN  253 (320)
T ss_pred             HHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCC
Confidence            8888899999999999999999999883    4567788888887665544

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.42  E-value=0.0018  Score=61.10  Aligned_cols=150  Identities=9%  Similarity=0.045  Sum_probs=99.7

Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHH
Q 041384          415 GEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVS  494 (580)
Q Consensus       415 ~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  494 (580)
                      .+...+.++++...-..--..+|..+++.-.+....+.|..+|.++.++......+.+.++++..|| .++.+-|.++|+
T Consensus       347 ~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFe  425 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFE  425 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHH
Confidence            4455556666554321112245667777777777888888888885543333336777777777665 567778888887


Q ss_pred             hC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--C-CCchHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 041384          495 TM-P-MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAE--P-ENAANYTLLSMVCSESGNWLGAEEVWRVMRAK  565 (580)
Q Consensus       495 ~~-~-~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (580)
                      -- . ..-++......+.-+...|+-..+..+|+++....  | ....+|..++..-..-|+.+.+.++-+++...
T Consensus       426 LGLkkf~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~a  501 (656)
T KOG1914|consen  426 LGLKKFGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTA  501 (656)
T ss_pred             HHHHhcCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            54 2 23344444667777778888888888888888762  2 25567888888888888888888877766553

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.40  E-value=0.0032  Score=63.14  Aligned_cols=159  Identities=13%  Similarity=0.009  Sum_probs=91.6

Q ss_pred             hHHHHHHHHHhcCChH---HHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHH
Q 041384          401 SWTTLISGYGFHGYGE---EALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYV  477 (580)
Q Consensus       401 ~~~~l~~~~~~~~~~~---~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  477 (580)
                      +.+.|+..+.+.++..   +|+-+++...... +.|..+-..+++.|+-.|-+..|...|.. +.-..+..|..-|- +.
T Consensus       438 av~~Lid~~rktnd~~~l~eaI~LLE~glt~s-~hnf~~KLlLiriY~~lGa~p~a~~~y~t-LdIK~IQ~DTlgh~-~~  514 (932)
T KOG2053|consen  438 AVNHLIDLWRKTNDLTDLFEAITLLENGLTKS-PHNFQTKLLLIRIYSYLGAFPDAYELYKT-LDIKNIQTDTLGHL-IF  514 (932)
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHHhhcC-CccHHHHHHHHHHHHHhcCChhHHHHHHh-cchHHhhhccchHH-HH
Confidence            4566777888877655   3444555544431 22455566778888888888888888887 55566666643332 33


Q ss_pred             HHhhhcCChHHHHHHHHhCC--CCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC----CCCchHHHHHHHHHHhcC
Q 041384          478 DLLGKSGKIEDACKVVSTMP--MKPS-TRILSSLVSACRIHGRLEVAEMLAHQLIEAE----PENAANYTLLSMVCSESG  550 (580)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~~--~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~----~~~~~~~~~l~~~~~~~g  550 (580)
                      ..+...|++..+...++...  ..-+ ..+-..+..+| +.|.+....++..-=.++.    -.-..+-+.....+...+
T Consensus       515 ~~~~t~g~~~~~s~~~~~~lkfy~~~~kE~~eyI~~AY-r~g~ySkI~em~~fr~rL~~S~q~~a~~VE~~~l~ll~~~~  593 (932)
T KOG2053|consen  515 RRAETSGRSSFASNTFNEHLKFYDSSLKETPEYIALAY-RRGAYSKIPEMLAFRDRLMHSLQKWACRVENLQLSLLCNAD  593 (932)
T ss_pred             HHHHhcccchhHHHHHHHHHHHHhhhhhhhHHHHHHHH-HcCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence            45566777777777666552  1111 11222233333 5566666555443322322    112334456667777788


Q ss_pred             ChHHHHHHHHHHH
Q 041384          551 NWLGAEEVWRVMR  563 (580)
Q Consensus       551 ~~~~A~~~~~~~~  563 (580)
                      +.++-...++.|.
T Consensus       594 ~~~q~~~~~~~~~  606 (932)
T KOG2053|consen  594 RGTQLLKLLESMK  606 (932)
T ss_pred             cHHHHHHHHhccc
Confidence            8887777777664

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.38  E-value=0.00012  Score=67.86  Aligned_cols=136  Identities=16%  Similarity=0.047  Sum_probs=71.7

Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCC-hhHHHHHHHHhhhcCC
Q 041384          408 GYGFHGYGEEALQLFLEMQESGVEPDA-ITVLAILSACNHAGLVKEAETLFNNVMKEKKIALA-IEHYACYVDLLGKSGK  485 (580)
Q Consensus       408 ~~~~~~~~~~a~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~  485 (580)
                      .+...|++++|+..++.+...  .||. .........+...++..+|.+.+++++.   ..|+ ....-.+..+|.+.|+
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--QPDNPYYLELAGDILLEANKAKEAIERLKKALA---LDPNSPLLQLNLAQALLKGGK  389 (484)
T ss_pred             HHHHhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh---cCCCccHHHHHHHHHHHhcCC
Confidence            334455566666666665553  4433 3333344455556666666666665443   2233 3333445555666666


Q ss_pred             hHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHH
Q 041384          486 IEDACKVVSTMP--MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMR  563 (580)
Q Consensus       486 ~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  563 (580)
                      +.+|+..+++..  .+-|+..|..|..+|...|+..++...                 .+..|+-.|++++|+..+....
T Consensus       390 ~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A-----------------~AE~~~~~G~~~~A~~~l~~A~  452 (484)
T COG4783         390 PQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLA-----------------RAEGYALAGRLEQAIIFLMRAS  452 (484)
T ss_pred             hHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHH-----------------HHHHHHhCCCHHHHHHHHHHHH
Confidence            666666655552  233555566666666666655554442                 2234455566666666666655


Q ss_pred             hC
Q 041384          564 AK  565 (580)
Q Consensus       564 ~~  565 (580)
                      +.
T Consensus       453 ~~  454 (484)
T COG4783         453 QQ  454 (484)
T ss_pred             Hh
Confidence            54

>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=98.34  E-value=1.6e-05  Score=74.38  Aligned_cols=121  Identities=13%  Similarity=0.117  Sum_probs=92.8

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHh
Q 041384          437 VLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRI  514 (580)
Q Consensus       437 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~  514 (580)
                      ...|+..+...++++.|..+++++.+ ..  |+  ....+++.+...++-.+|.+++.+. ...| +...+..-...|.+
T Consensus       172 v~~Ll~~l~~t~~~~~ai~lle~L~~-~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~d~~LL~~Qa~fLl~  246 (395)
T PF09295_consen  172 VDTLLKYLSLTQRYDEAIELLEKLRE-RD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKENPQDSELLNLQAEFLLS  246 (395)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHh-cC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHh
Confidence            34455666667778888888888544 22  44  3445677777777777888877776 2233 66666777777889


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHH
Q 041384          515 HGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVM  562 (580)
Q Consensus       515 ~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  562 (580)
                      .++.+.|+.+.+++.+..|.+...|..|+.+|...|+++.|+..+..+
T Consensus       247 k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~  294 (395)
T PF09295_consen  247 KKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLALNSC  294 (395)
T ss_pred             cCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcC
Confidence            999999999999999999999999999999999999999999888765

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=98.33  E-value=0.00017  Score=67.00  Aligned_cols=186  Identities=11%  Similarity=0.009  Sum_probs=120.6

Q ss_pred             CCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCC--C-CcchHHHHH
Q 041384          330 EPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAA--R-DFVSWTTLI  406 (580)
Q Consensus       330 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~l~  406 (580)
                      .|+...+...+.+......-..+...+.+..+.  .-...-|..- -.+...|+.++|+..++.+..  | |+..+....
T Consensus       271 ~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~--~~~aa~YG~A-~~~~~~~~~d~A~~~l~~L~~~~P~N~~~~~~~~  347 (484)
T COG4783         271 SPDFQLARARIRAKYEALPNQQAADLLAKRSKR--GGLAAQYGRA-LQTYLAGQYDEALKLLQPLIAAQPDNPYYLELAG  347 (484)
T ss_pred             CccHHHHHHHHHHHhccccccchHHHHHHHhCc--cchHHHHHHH-HHHHHhcccchHHHHHHHHHHhCCCCHHHHHHHH
Confidence            445555555555544443333333333322221  1112222222 234556788888888887764  3 555566667


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCC
Q 041384          407 SGYGFHGYGEEALQLFLEMQESGVEPDA-ITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGK  485 (580)
Q Consensus       407 ~~~~~~~~~~~a~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  485 (580)
                      ..+.+.++..+|.+.++++...  .|+. .....+..++.+.|++.+|+.+++...  ...+-++..|..|..+|...|+
T Consensus       348 ~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~eai~~L~~~~--~~~p~dp~~w~~LAqay~~~g~  423 (484)
T COG4783         348 DILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQEAIRILNRYL--FNDPEDPNGWDLLAQAYAELGN  423 (484)
T ss_pred             HHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHHHHHHHHHHh--hcCCCCchHHHHHHHHHHHhCc
Confidence            7788888888888888888884  6764 555567778888888888888888744  3566677788888888888888


Q ss_pred             hHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCch
Q 041384          486 IEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAA  537 (580)
Q Consensus       486 ~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~  537 (580)
                      ..++....               ...+...|++++|+..+..+.+....+..
T Consensus       424 ~~~a~~A~---------------AE~~~~~G~~~~A~~~l~~A~~~~~~~~~  460 (484)
T COG4783         424 RAEALLAR---------------AEGYALAGRLEQAIIFLMRASQQVKLGFP  460 (484)
T ss_pred             hHHHHHHH---------------HHHHHhCCCHHHHHHHHHHHHHhccCCcH
Confidence            77766543               34556678888888888888877644433

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.32  E-value=0.00011  Score=62.48  Aligned_cols=246  Identities=12%  Similarity=0.064  Sum_probs=154.6

Q ss_pred             HHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCH
Q 041384          305 IRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSI  384 (580)
Q Consensus       305 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  384 (580)
                      ++-+.-.|.+..++..-......  +.+...-.-+.++|...|.....   ..++.... .|.......+......-++.
T Consensus        15 iRn~fY~Gnyq~~ine~~~~~~~--~~~~e~d~y~~raylAlg~~~~~---~~eI~~~~-~~~lqAvr~~a~~~~~e~~~   88 (299)
T KOG3081|consen   15 IRNYFYLGNYQQCINEAEKFSSS--KTDVELDVYMYRAYLALGQYQIV---ISEIKEGK-ATPLQAVRLLAEYLELESNK   88 (299)
T ss_pred             HHHHHHhhHHHHHHHHHHhhccc--cchhHHHHHHHHHHHHccccccc---cccccccc-CChHHHHHHHHHHhhCcchh
Confidence            45556667887777665544322  23333344455566666654322   22222222 34444444444433334443


Q ss_pred             HHHH-HHHhcCCCCCc----chHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHH
Q 041384          385 TSSH-QIFNEMAARDF----VSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNN  459 (580)
Q Consensus       385 ~~A~-~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  459 (580)
                      +.-. ++.+.+..+..    .....-...|+..+++++|++......      +......=...+.+..+.+-|.+.+++
T Consensus        89 ~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~  162 (299)
T KOG3081|consen   89 KSILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKK  162 (299)
T ss_pred             HHHHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3322 33333333221    222233456889999999999887722      222233333445677888999999998


Q ss_pred             HHHhhCCCCChhHHHHHHHHhh----hcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 041384          460 VMKEKKIALAIEHYACYVDLLG----KSGKIEDACKVVSTMP--MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEP  533 (580)
Q Consensus       460 ~~~~~~~~~~~~~~~~l~~~~~----~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  533 (580)
                      |..   + .+..+.+.|..++.    -.+...+|.-+|+++.  .+|++.+.+-.+..+...|++++|+.+++.++..++
T Consensus       163 mq~---i-ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~  238 (299)
T KOG3081|consen  163 MQQ---I-DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEKTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDA  238 (299)
T ss_pred             HHc---c-chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccC
Confidence            543   2 33445666666654    3457999999999994  678999999999999999999999999999999999


Q ss_pred             CCchHHHHHHHHHHhcCChHHHH-HHHHHHHhCC
Q 041384          534 ENAANYTLLSMVCSESGNWLGAE-EVWRVMRAKG  566 (580)
Q Consensus       534 ~~~~~~~~l~~~~~~~g~~~~A~-~~~~~~~~~~  566 (580)
                      .++.+...++-+-...|.-.++. +.+.++....
T Consensus       239 ~dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~~~  272 (299)
T KOG3081|consen  239 KDPETLANLIVLALHLGKDAEVTERNLSQLKLSH  272 (299)
T ss_pred             CCHHHHHHHHHHHHHhCCChHHHHHHHHHHHhcC
Confidence            99999999888877888776554 4456655433

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.32  E-value=0.00029  Score=59.61  Aligned_cols=188  Identities=11%  Similarity=0.045  Sum_probs=134.4

Q ss_pred             HhCCChhHHHHHHHHHHH---CC-CCCCHH-HHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCC
Q 041384          309 SQSGDLSEAMKLFSRMRL---ER-IEPNSV-TLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGS  383 (580)
Q Consensus       309 ~~~~~~~~a~~~~~~m~~---~~-~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  383 (580)
                      ....+.++..+++.++..   .| ..|+.. .|..++-+....|+.+.|...++.+.+.- +-+..+-..-...+-..|.
T Consensus        23 ~~~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa~~~  101 (289)
T KOG3060|consen   23 ETVRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF-PGSKRVGKLKAMLLEATGN  101 (289)
T ss_pred             ccccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhc
Confidence            345678888888888853   34 556665 45667777788899999999999888754 3343333333334556789


Q ss_pred             HHHHHHHHhcCCCC---CcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHH
Q 041384          384 ITSSHQIFNEMAAR---DFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNV  460 (580)
Q Consensus       384 ~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  460 (580)
                      .++|.++++.+.+.   |.+++..-+......|+.-+|++-+.+..+. +..|...|.-+...|...|+++.|.-.++++
T Consensus       102 ~~~A~e~y~~lL~ddpt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~  180 (289)
T KOG3060|consen  102 YKEAIEYYESLLEDDPTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEEL  180 (289)
T ss_pred             hhhHHHHHHHHhccCcchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHH
Confidence            99999999988875   4456666666777778888888888888776 5668899999999999999999999999997


Q ss_pred             HHhhCCCCChhHHHHHHHHhhhcC---ChHHHHHHHHhC-CCCC
Q 041384          461 MKEKKIALAIEHYACYVDLLGKSG---KIEDACKVVSTM-PMKP  500 (580)
Q Consensus       461 ~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~-~~~p  500 (580)
                      +-  --|.++..+..+.+.+.-.|   +.+-|.++|.+. .+.|
T Consensus       181 ll--~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~  222 (289)
T KOG3060|consen  181 LL--IQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNP  222 (289)
T ss_pred             HH--cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhCh
Confidence            64  22334455666777665554   456677777766 3444

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.29  E-value=0.00036  Score=59.49  Aligned_cols=175  Identities=13%  Similarity=0.029  Sum_probs=105.6

Q ss_pred             HHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH
Q 041384          356 HCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAI  435 (580)
Q Consensus       356 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~  435 (580)
                      .+.+.......+......-...|+..|++++|++......  +....-.=+..+.+..+++-|.+.+++|.+-   -+..
T Consensus        96 ~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~--~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i---ded~  170 (299)
T KOG3081|consen   96 YELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE--NLEAAALNVQILLKMHRFDLAEKELKKMQQI---DEDA  170 (299)
T ss_pred             HHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc--hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc---chHH
Confidence            3333334334443333344455777777888877777632  2222222234455666777888888888762   3455


Q ss_pred             HHHHHHHHHhc----cCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHH
Q 041384          436 TVLAILSACNH----AGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP--MKPSTRILSSLV  509 (580)
Q Consensus       436 ~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~  509 (580)
                      |.+.|..++.+    .+.+..|.-+|+++-  ...+|+..+.+-...++...|++++|..++++.-  ...++.++..++
T Consensus       171 tLtQLA~awv~la~ggek~qdAfyifeE~s--~k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL~Nli  248 (299)
T KOG3081|consen  171 TLTQLAQAWVKLATGGEKIQDAFYIFEELS--EKTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETLANLI  248 (299)
T ss_pred             HHHHHHHHHHHHhccchhhhhHHHHHHHHh--cccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHHH
Confidence            66656555543    446777888888842  3467777777777777788888888888887772  334555665555


Q ss_pred             HHHHhcCC-HHHHHHHHHHHHhcCCCCch
Q 041384          510 SACRIHGR-LEVAEMLAHQLIEAEPENAA  537 (580)
Q Consensus       510 ~~~~~~~~-~~~A~~~~~~~~~~~~~~~~  537 (580)
                      -.-...|. .+--.+.+.++....|..+-
T Consensus       249 v~a~~~Gkd~~~~~r~l~QLk~~~p~h~~  277 (299)
T KOG3081|consen  249 VLALHLGKDAEVTERNLSQLKLSHPEHPF  277 (299)
T ss_pred             HHHHHhCCChHHHHHHHHHHHhcCCcchH
Confidence            54444554 34456666677666666554

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.29  E-value=0.00018  Score=73.18  Aligned_cols=140  Identities=9%  Similarity=0.072  Sum_probs=93.0

Q ss_pred             CCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCC--C-CcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHH
Q 041384          364 LNFDVSIGNALMNMYSKCGSITSSHQIFNEMAA--R-DFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDA-ITVLA  439 (580)
Q Consensus       364 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~-~~~~~  439 (580)
                      .+.++..+..|.....+.|..++|..+++.+.+  | +......+...+.+.+++++|+..+++..+.  .|+. .....
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~--~p~~~~~~~~  159 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSG--GSSSAREILL  159 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhc--CCCCHHHHHH
Confidence            345566777777777777777777777777665  3 3345666677777777777777777777774  4544 45556


Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHHHH
Q 041384          440 ILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP--MKPSTRILSS  507 (580)
Q Consensus       440 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~  507 (580)
                      +..++...|++++|..+|++++.  ..+-+..++..+..++...|+.++|...|++..  ..|....|+.
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~--~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~~~~~  227 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSR--QHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGARKLTR  227 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHh--cCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchHHHHH
Confidence            66667777777777777777654  223335667777777777777777777777762  3344444443

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.28  E-value=0.0039  Score=58.95  Aligned_cols=130  Identities=11%  Similarity=0.123  Sum_probs=72.1

Q ss_pred             CCChhHHHHHHHHHHcCCCchHHHHhhccCCC--C-CccchHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHH
Q 041384           60 DADPVISNSLISMYAKFSKPESAYQLFDEMPY--R-DTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGII  136 (580)
Q Consensus        60 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll  136 (580)
                      |-|..+|+.||.-+... .++++.+.++++..  | ....|..-|..-...++++....+|.+....-.  +...|..-+
T Consensus        17 P~di~sw~~lire~qt~-~~~~~R~~YEq~~~~FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkvL--nlDLW~lYl   93 (656)
T KOG1914|consen   17 PYDIDSWSQLIREAQTQ-PIDKVRETYEQLVNVFPSSPRAWKLYIERELASKDFESVEKLFSRCLVKVL--NLDLWKLYL   93 (656)
T ss_pred             CccHHHHHHHHHHHccC-CHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHh--hHhHHHHHH
Confidence            56777788777755544 77788888777762  2 555677777777777888888888877766532  344444443


Q ss_pred             HHhhc-cCCcH----HHHHHHHHHHHhCCCCC-chHHHhHHHHH---------hHhcCCHHHHHHHHhcCC
Q 041384          137 SLCSQ-IGELE----LGRQIHALVIVDGSFEL-SVFVSTALLDL---------YSKCHHWLIALRVFEQMV  192 (580)
Q Consensus       137 ~~~~~-~~~~~----~a~~~~~~~~~~~~~~~-~~~~~~~l~~~---------~~~~~~~~~a~~~~~~~~  192 (580)
                      .-..+ .|...    ...+.++-.+...++.+ +...|+..+..         |....+++...++++++.
T Consensus        94 ~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral  164 (656)
T KOG1914|consen   94 SYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRAL  164 (656)
T ss_pred             HHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHh
Confidence            32211 12222    22233333333322322 23345544433         233345666777777763

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.26  E-value=4.6e-05  Score=61.69  Aligned_cols=115  Identities=17%  Similarity=0.106  Sum_probs=63.4

Q ss_pred             cCCHHHHHHHHHHHHHhhCCCC-ChhHHHHHHHHhhhcCChHHHHHHHHhCC-CCCCH----HHHHHHHHHHHhcCCHHH
Q 041384          447 AGLVKEAETLFNNVMKEKKIAL-AIEHYACYVDLLGKSGKIEDACKVVSTMP-MKPST----RILSSLVSACRIHGRLEV  520 (580)
Q Consensus       447 ~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~~----~~~~~l~~~~~~~~~~~~  520 (580)
                      .++...+...++.+.+..+-.+ .....-.+...+...|++++|...|+... ..|+.    .....+...+...|++++
T Consensus        24 ~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~  103 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDE  103 (145)
T ss_pred             CCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            5555555555555444222111 11222234455556666666666666552 12332    133345566667777777


Q ss_pred             HHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHH
Q 041384          521 AEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVM  562 (580)
Q Consensus       521 A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  562 (580)
                      |+..++.. ...+..+..+...+++|.+.|++++|+..|++.
T Consensus       104 Al~~L~~~-~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen  104 ALATLQQI-PDEAFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHhc-cCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            77777552 223445556777777777777777777777653

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.23  E-value=5e-05  Score=60.87  Aligned_cols=115  Identities=14%  Similarity=0.055  Sum_probs=89.0

Q ss_pred             HHHHHHHcCCCCCH-HHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CC
Q 041384          421 LFLEMQESGVEPDA-ITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PM  498 (580)
Q Consensus       421 ~~~~~~~~g~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~  498 (580)
                      .+++..+  ..|+. .....+...+...|++++|...++.+..  ..+.+...+..+...+...|++++|...++.. ..
T Consensus         5 ~~~~~l~--~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~--~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~   80 (135)
T TIGR02552         5 TLKDLLG--LDSEQLEQIYALAYNLYQQGRYDEALKLFQLLAA--YDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAAL   80 (135)
T ss_pred             hHHHHHc--CChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            4455555  35533 5566677778889999999999998654  23446777888889999999999999998887 33


Q ss_pred             C-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHH
Q 041384          499 K-PSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANY  539 (580)
Q Consensus       499 ~-p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~  539 (580)
                      . .+...+..+...+...|++++|...++++.+..|.+....
T Consensus        81 ~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  122 (135)
T TIGR02552        81 DPDDPRPYFHAAECLLALGEPESALKALDLAIEICGENPEYS  122 (135)
T ss_pred             CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHH
Confidence            3 4667788888899999999999999999999999877743

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>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=98.20  E-value=5.6e-06  Score=57.09  Aligned_cols=65  Identities=22%  Similarity=0.190  Sum_probs=60.6

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcC-ChHHHHHHHHHHHhC
Q 041384          501 STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESG-NWLGAEEVWRVMRAK  565 (580)
Q Consensus       501 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~  565 (580)
                      ++.+|..+...+...|++++|+..|+++++.+|.++.++..++.++...| ++++|++.+++.++.
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l   67 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKL   67 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHc
Confidence            46788899999999999999999999999999999999999999999999 799999999998764

...

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.20  E-value=3e-06  Score=49.10  Aligned_cols=35  Identities=23%  Similarity=0.605  Sum_probs=31.5

Q ss_pred             ehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCH
Q 041384          197 VSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTR  231 (580)
Q Consensus       197 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  231 (580)
                      .+||++|.+|++.|++++|.++|++|.+.|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            37999999999999999999999999999999873

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.

>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=2.7e-06  Score=61.37  Aligned_cols=78  Identities=22%  Similarity=0.281  Sum_probs=55.2

Q ss_pred             cCChHHHHHHHHhCC-CCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHH
Q 041384          483 SGKIEDACKVVSTMP-MKP---STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEV  558 (580)
Q Consensus       483 ~g~~~~A~~~~~~~~-~~p---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  558 (580)
                      .|++++|+.+++++. ..|   +...+..+..++.+.|++++|..++++ .+.+|.++.....++.++.+.|++++|+++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~~~~~~~l~a~~~~~l~~y~eAi~~   80 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPSNPDIHYLLARCLLKLGKYEEAIKA   80 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHCHHHHHHHHHHHHHHTT-HHHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHHhCCHHHHHHH
Confidence            456667777766662 222   344555677888888888888888888 666677777777778888888888888888


Q ss_pred             HHH
Q 041384          559 WRV  561 (580)
Q Consensus       559 ~~~  561 (580)
                      +++
T Consensus        81 l~~   83 (84)
T PF12895_consen   81 LEK   83 (84)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            875

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=98.18  E-value=6.3e-06  Score=55.98  Aligned_cols=60  Identities=18%  Similarity=0.212  Sum_probs=53.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          508 LVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       508 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      +...+...|++++|+..++++++..|.++.++..++.++...|++++|...++++.+..+
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P   62 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELDP   62 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHST
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence            566788999999999999999999999999999999999999999999999999887554

>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=98.18  E-value=2.6e-05  Score=58.03  Aligned_cols=94  Identities=20%  Similarity=0.222  Sum_probs=76.9

Q ss_pred             HHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcC
Q 041384          473 YACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESG  550 (580)
Q Consensus       473 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  550 (580)
                      +..++..+...|++++|..++++. ...| +...+..+...+...|++++|...+++..+..|.+...+..++.++...|
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLG   82 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHH
Confidence            455667777888888888888876 3333 44667778888888899999999999999999988888999999999999


Q ss_pred             ChHHHHHHHHHHHhCC
Q 041384          551 NWLGAEEVWRVMRAKG  566 (580)
Q Consensus       551 ~~~~A~~~~~~~~~~~  566 (580)
                      ++++|...+++..+..
T Consensus        83 ~~~~a~~~~~~~~~~~   98 (100)
T cd00189          83 KYEEALEAYEKALELD   98 (100)
T ss_pred             hHHHHHHHHHHHHccC
Confidence            9999999998876543

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.16  E-value=3.6e-05  Score=60.11  Aligned_cols=92  Identities=17%  Similarity=0.108  Sum_probs=43.3

Q ss_pred             HHHHHhhhcCChHHHHHHHHhCC-CCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC---chHHHHHHHHH
Q 041384          475 CYVDLLGKSGKIEDACKVVSTMP-MKPS----TRILSSLVSACRIHGRLEVAEMLAHQLIEAEPEN---AANYTLLSMVC  546 (580)
Q Consensus       475 ~l~~~~~~~g~~~~A~~~~~~~~-~~p~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~---~~~~~~l~~~~  546 (580)
                      .++..+.+.|++++|.+.|+.+. ..|+    ...+..+...+.+.|+++.|...++.+....|.+   +.++..++.++
T Consensus         7 ~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~   86 (119)
T TIGR02795         7 DAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMSL   86 (119)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHHH
Confidence            33444444444444444444441 1111    1233344455555555555555555555544442   33455555555


Q ss_pred             HhcCChHHHHHHHHHHHhCC
Q 041384          547 SESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       547 ~~~g~~~~A~~~~~~~~~~~  566 (580)
                      .+.|++++|...++++.+..
T Consensus        87 ~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        87 QELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HHhCChHHHHHHHHHHHHHC
Confidence            55555555555555554443

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.

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.15  E-value=3.8e-06  Score=48.70  Aligned_cols=35  Identities=26%  Similarity=0.502  Sum_probs=31.3

Q ss_pred             cchHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCH
Q 041384           95 ISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKA  129 (580)
Q Consensus        95 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~  129 (580)
                      .+||++|.+|++.|++++|.++|++|.+.|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            37999999999999999999999999999998873

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.

>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=98.15  E-value=0.00011  Score=69.04  Aligned_cols=124  Identities=15%  Similarity=0.121  Sum_probs=98.7

Q ss_pred             HHHHHHHHhHhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccC
Q 041384          370 IGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAG  448 (580)
Q Consensus       370 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~  448 (580)
                      ....|+..+...++++.|..+|+++.+.++.....++..+...++-.+|.+++++....  .| +...+..-...|.+.+
T Consensus       171 Lv~~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~--~p~d~~LL~~Qa~fLl~k~  248 (395)
T PF09295_consen  171 LVDTLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKE--NPQDSELLNLQAEFLLSKK  248 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcC
Confidence            33455666677788888999999888887777778888888888888999999888865  34 5566666667788899


Q ss_pred             CHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC
Q 041384          449 LVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP  497 (580)
Q Consensus       449 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  497 (580)
                      +++.|+.+.+++.+  -.+-+..+|..|+.+|...|++++|+..++.++
T Consensus       249 ~~~lAL~iAk~av~--lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  249 KYELALEIAKKAVE--LSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             CHHHHHHHHHHHHH--hCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            99999999998664  233346689999999999999999999999886

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.14  E-value=4.4e-06  Score=47.97  Aligned_cols=33  Identities=30%  Similarity=0.724  Sum_probs=28.9

Q ss_pred             ehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCC
Q 041384          197 VSWTAMISGCIDSQNYDTGIDLFRAMQREGVKP  229 (580)
Q Consensus       197 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p  229 (580)
                      .+|+.++.+|++.|+++.|.++|+.|++.|++|
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            578889999999999999999999998888877

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.12  E-value=0.014  Score=58.81  Aligned_cols=65  Identities=22%  Similarity=0.246  Sum_probs=55.4

Q ss_pred             HHHHHHHHHHhcCCH---HHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCCc
Q 041384          504 ILSSLVSACRIHGRL---EVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGLS  568 (580)
Q Consensus       504 ~~~~l~~~~~~~~~~---~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  568 (580)
                      +.+.|+..+.+.++.   -+|+-+++.....+|.|..+-..++.+|.-.|-...|.+.++.+.-+.|+
T Consensus       438 av~~Lid~~rktnd~~~l~eaI~LLE~glt~s~hnf~~KLlLiriY~~lGa~p~a~~~y~tLdIK~IQ  505 (932)
T KOG2053|consen  438 AVNHLIDLWRKTNDLTDLFEAITLLENGLTKSPHNFQTKLLLIRIYSYLGAFPDAYELYKTLDIKNIQ  505 (932)
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHHhhcCCccHHHHHHHHHHHHHhcCChhHHHHHHhcchHHhh
Confidence            356778888888875   47888899999999999999999999999999999999999987655554

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.11  E-value=5.1e-06  Score=47.71  Aligned_cols=34  Identities=21%  Similarity=0.303  Sum_probs=29.1

Q ss_pred             ccchHHHHHHHHhCCChhHHHHHHHHHHHCCCCC
Q 041384           94 TISWNSIINCFTQNGFYVRSLEMFREMYLCGFVL  127 (580)
Q Consensus        94 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~  127 (580)
                      +.+|+.+|.+|++.|+++.|.++|++|.+.|++|
T Consensus         1 v~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    1 VHTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             CcHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            3578888999999999999999999998888876

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.08  E-value=0.0049  Score=63.93  Aligned_cols=168  Identities=13%  Similarity=0.106  Sum_probs=91.8

Q ss_pred             CeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHH-HHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHH
Q 041384          195 NEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTL-TIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALM  273 (580)
Q Consensus       195 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~-~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  273 (580)
                      +...+..|+..+...+++++|.++.+...+.  .|+...+ ..+...+.+.++...+..+                    
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv--------------------   87 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL--------------------   87 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh--------------------
Confidence            5556777788887888888888887765554  3443322 2222234444443333222                    


Q ss_pred             HHHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHH
Q 041384          274 HMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGL  353 (580)
Q Consensus       274 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~  353 (580)
                                                   .++.......++.-+..+...|.+.  .-+...+..+..+|.+.|+.+++.
T Consensus        88 -----------------------------~~l~~~~~~~~~~~ve~~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~  136 (906)
T PRK14720         88 -----------------------------NLIDSFSQNLKWAIVEHICDKILLY--GENKLALRTLAEAYAKLNENKKLK  136 (906)
T ss_pred             -----------------------------hhhhhcccccchhHHHHHHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHH
Confidence                                         2222333333443334444444432  223335556666666666666666


Q ss_pred             HHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 041384          354 GVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQES  428 (580)
Q Consensus       354 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  428 (580)
                      .+|+++.+.. +-++.+.|.+...|... ++++|..++.+.           +..+...+++..+.++|.++...
T Consensus       137 ~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KA-----------V~~~i~~kq~~~~~e~W~k~~~~  198 (906)
T PRK14720        137 GVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKA-----------IYRFIKKKQYVGIEEIWSKLVHY  198 (906)
T ss_pred             HHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHH-----------HHHHHhhhcchHHHHHHHHHHhc
Confidence            6666666655 44566666666666666 666666665542           23345555666666666666653

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.06  E-value=0.00022  Score=57.68  Aligned_cols=123  Identities=12%  Similarity=0.124  Sum_probs=85.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCC--hhHHHH
Q 041384          402 WTTLISGYGFHGYGEEALQLFLEMQESGVEPDA----ITVLAILSACNHAGLVKEAETLFNNVMKEKKIALA--IEHYAC  475 (580)
Q Consensus       402 ~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~  475 (580)
                      |..++..+ ..++...+...++.+.+.  .|+.    .....+...+...|++++|...|+.++. ....|.  ......
T Consensus        15 y~~~~~~~-~~~~~~~~~~~~~~l~~~--~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~-~~~d~~l~~~a~l~   90 (145)
T PF09976_consen   15 YEQALQAL-QAGDPAKAEAAAEQLAKD--YPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALA-NAPDPELKPLARLR   90 (145)
T ss_pred             HHHHHHHH-HCCCHHHHHHHHHHHHHH--CCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh-hCCCHHHHHHHHHH
Confidence            33444444 467788888888888876  3332    2333455677888999999999998665 332222  223445


Q ss_pred             HHHHhhhcCChHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 041384          476 YVDLLGKSGKIEDACKVVSTMPMK-PSTRILSSLVSACRIHGRLEVAEMLAHQL  528 (580)
Q Consensus       476 l~~~~~~~g~~~~A~~~~~~~~~~-p~~~~~~~l~~~~~~~~~~~~A~~~~~~~  528 (580)
                      +...+...|++++|+..++..... ..+..+......+.+.|++++|...|+++
T Consensus        91 LA~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   91 LARILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            677888899999999998876422 34556677788889999999999988875

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.04  E-value=0.00014  Score=56.71  Aligned_cols=105  Identities=20%  Similarity=0.115  Sum_probs=67.7

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCC-ChhHHHHHHHHhhhcCChHHHHHHHHhCC-CCCC----HHHHHHHH
Q 041384          436 TVLAILSACNHAGLVKEAETLFNNVMKEKKIAL-AIEHYACYVDLLGKSGKIEDACKVVSTMP-MKPS----TRILSSLV  509 (580)
Q Consensus       436 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~----~~~~~~l~  509 (580)
                      ++..+...+...|++++|.+.+..++....-.+ ....+..+..++.+.|++++|...|+.+. ..|+    ...+..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            344455556666777777777776554221111 13345556677777777777777777652 2232    34567777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCchHHH
Q 041384          510 SACRIHGRLEVAEMLAHQLIEAEPENAANYT  540 (580)
Q Consensus       510 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  540 (580)
                      ..+.+.|+.++|...++++.+..|+++....
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~  114 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKRYPGSSAAKL  114 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHHCcCChhHHH
Confidence            7788888888888888888888888776544

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.

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=98.02  E-value=0.00011  Score=64.34  Aligned_cols=109  Identities=18%  Similarity=0.164  Sum_probs=88.3

Q ss_pred             CCCChhHHHHHHHHhhhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhc---CCHHHHHHHHHHHHhcCCCCchHHH
Q 041384          466 IALAIEHYACYVDLLGKSGKIEDACKVVSTM-P-MKPSTRILSSLVSACRIH---GRLEVAEMLAHQLIEAEPENAANYT  540 (580)
Q Consensus       466 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~---~~~~~A~~~~~~~~~~~~~~~~~~~  540 (580)
                      .+-|...|..|...|...|+...|..-|.+. . ..+++..+..+..++...   .+..++..++++++..+|.|.....
T Consensus       152 nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~  231 (287)
T COG4235         152 NPGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALS  231 (287)
T ss_pred             CCCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHH
Confidence            4556778888888888888888888888877 2 345667777777775433   2457889999999999999999999


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCccCCcee
Q 041384          541 LLSMVCSESGNWLGAEEVWRVMRAKGLSKSYGFS  574 (580)
Q Consensus       541 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  574 (580)
                      .|+-.++..|++.+|...|+.|.+.....+|+.+
T Consensus       232 lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~~rr~  265 (287)
T COG4235         232 LLAFAAFEQGDYAEAAAAWQMLLDLLPADDPRRS  265 (287)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhcCCCCCchHH
Confidence            9999999999999999999999998877766644

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.01  E-value=3.4e-05  Score=72.68  Aligned_cols=105  Identities=13%  Similarity=0.053  Sum_probs=84.9

Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCC
Q 041384          440 ILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGR  517 (580)
Q Consensus       440 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~  517 (580)
                      -...+...|+++.|+..|+++++.  .+.+...|..+..+|...|++++|+..++++ ...| +...|..+..+|...|+
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~--~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDL--DPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCC
Confidence            345567789999999999997762  2344667888888999999999999999888 3444 66788888889999999


Q ss_pred             HHHHHHHHHHHHhcCCCCchHHHHHHHHH
Q 041384          518 LEVAEMLAHQLIEAEPENAANYTLLSMVC  546 (580)
Q Consensus       518 ~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  546 (580)
                      +++|+..++++++.+|.++.+...+..+.
T Consensus        86 ~~eA~~~~~~al~l~P~~~~~~~~l~~~~  114 (356)
T PLN03088         86 YQTAKAALEKGASLAPGDSRFTKLIKECD  114 (356)
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            99999999999999999988777765553

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.96  E-value=0.00013  Score=61.06  Aligned_cols=94  Identities=16%  Similarity=0.196  Sum_probs=59.1

Q ss_pred             HHHHHHHhhhcCChHHHHHHHHhCC-CCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHH
Q 041384          473 YACYVDLLGKSGKIEDACKVVSTMP-MKPS----TRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCS  547 (580)
Q Consensus       473 ~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  547 (580)
                      +..+...+...|++++|...|++.. ..|+    ...+..+...+.+.|++++|...++++.+..|.++..+..++.++.
T Consensus        38 ~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~  117 (172)
T PRK02603         38 YYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALNNIAVIYH  117 (172)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            4444444555555555555555441 1111    2456666777777777777777777777777777777777777777


Q ss_pred             hcCC--------------hHHHHHHHHHHHhCC
Q 041384          548 ESGN--------------WLGAEEVWRVMRAKG  566 (580)
Q Consensus       548 ~~g~--------------~~~A~~~~~~~~~~~  566 (580)
                      ..|+              +++|.+++++..+.+
T Consensus       118 ~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~~~  150 (172)
T PRK02603        118 KRGEKAEEAGDQDEAEALFDKAAEYWKQAIRLA  150 (172)
T ss_pred             HcCChHhHhhCHHHHHHHHHHHHHHHHHHHhhC
Confidence            7666              456666666665544

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.93  E-value=5.5e-05  Score=65.71  Aligned_cols=111  Identities=17%  Similarity=0.128  Sum_probs=88.1

Q ss_pred             HHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCH
Q 041384          441 LSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRL  518 (580)
Q Consensus       441 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~  518 (580)
                      ..-+.+.+++.+|+..|.++++  -.+-+...|..-..+|.+.|.++.|++-.+.. .+.| ...+|..|..+|...|++
T Consensus        88 GN~~m~~~~Y~eAv~kY~~AI~--l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~  165 (304)
T KOG0553|consen   88 GNKLMKNKDYQEAVDKYTEAIE--LDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKY  165 (304)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHh--cCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcH
Confidence            4456778899999999999775  23344666777788999999999999877776 4555 456899999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChH
Q 041384          519 EVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWL  553 (580)
Q Consensus       519 ~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  553 (580)
                      ++|++.|+++++++|.|......|-.+-.+.+...
T Consensus       166 ~~A~~aykKaLeldP~Ne~~K~nL~~Ae~~l~e~~  200 (304)
T KOG0553|consen  166 EEAIEAYKKALELDPDNESYKSNLKIAEQKLNEPK  200 (304)
T ss_pred             HHHHHHHHhhhccCCCcHHHHHHHHHHHHHhcCCC
Confidence            99999999999999999987777776655555544

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=97.92  E-value=1.8e-05  Score=54.33  Aligned_cols=55  Identities=20%  Similarity=0.263  Sum_probs=45.8

Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          513 RIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       513 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      .+.|++++|++.++++.+..|.+..++..++.+|.+.|++++|.++++++.....
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~   56 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQDP   56 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGT
T ss_pred             hhccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence            4678888999999999999999988888999999999999999988888766554

...

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.90  E-value=0.00016  Score=60.36  Aligned_cols=94  Identities=16%  Similarity=0.090  Sum_probs=71.9

Q ss_pred             ChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHH
Q 041384          469 AIEHYACYVDLLGKSGKIEDACKVVSTM-PMKPS----TRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLS  543 (580)
Q Consensus       469 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~  543 (580)
                      ....+..++..+...|++++|+..|++. ...|+    ..++..+...+...|++++|+..++++.+..|.+...+..++
T Consensus        34 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la  113 (168)
T CHL00033         34 EAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMA  113 (168)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHH
Confidence            3455666677777788888888888776 22222    347888888999999999999999999999999888888888


Q ss_pred             HHHH-------hcCChHHHHHHHHHH
Q 041384          544 MVCS-------ESGNWLGAEEVWRVM  562 (580)
Q Consensus       544 ~~~~-------~~g~~~~A~~~~~~~  562 (580)
                      .++.       ..|++++|...+++.
T Consensus       114 ~i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        114 VICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHHhhHHHHHcccHHHHHHHHHHH
Confidence            8888       788888665555543

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.88  E-value=5.8e-05  Score=52.67  Aligned_cols=59  Identities=12%  Similarity=0.023  Sum_probs=53.0

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          509 VSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       509 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      ...|.+.++++.|.++++++...+|.++..+...+.++...|++++|.+.+++..+.+.
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p   60 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSP   60 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCC
Confidence            35678899999999999999999999999999999999999999999999999887665

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.85  E-value=0.023  Score=52.32  Aligned_cols=79  Identities=16%  Similarity=0.158  Sum_probs=39.2

Q ss_pred             HHHhHhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHH
Q 041384          375 MNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAE  454 (580)
Q Consensus       375 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~  454 (580)
                      +.-+...|+...|.++-.+..-|+..-|...+.+++..++|++-..+...      .-.+..|..++.+|.+.|...+|.
T Consensus       184 i~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~~~eA~  257 (319)
T PF04840_consen  184 IRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGNKKEAS  257 (319)
T ss_pred             HHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCCHHHHH
Confidence            33444455555555555555555555555555555555555544433221      112344555555555555555555


Q ss_pred             HHHHH
Q 041384          455 TLFNN  459 (580)
Q Consensus       455 ~~~~~  459 (580)
                      .+..+
T Consensus       258 ~yI~k  262 (319)
T PF04840_consen  258 KYIPK  262 (319)
T ss_pred             HHHHh
Confidence            55444

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

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.83  E-value=7.4e-05  Score=53.79  Aligned_cols=80  Identities=16%  Similarity=0.166  Sum_probs=30.7

Q ss_pred             CCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHH
Q 041384          448 GLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPST-RILSSLVSACRIHGRLEVAEMLAH  526 (580)
Q Consensus       448 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~A~~~~~  526 (580)
                      |+++.|+.+++++.+.....++...+..+..+|.+.|++++|..++++....|.. .....+..++.+.|++++|+.+++
T Consensus         3 ~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~~~~~~~~~~~~~l~a~~~~~l~~y~eAi~~l~   82 (84)
T PF12895_consen    3 GNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQKLKLDPSNPDIHYLLARCLLKLGKYEEAIKALE   82 (84)
T ss_dssp             T-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHCHTHHHCHHHHHHHHHHHHHHTT-HHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHhCCHHHHHHHHh
Confidence            3444444444444332221112222333444444444444444444442211211 222233444444455555554444


Q ss_pred             H
Q 041384          527 Q  527 (580)
Q Consensus       527 ~  527 (580)
                      +
T Consensus        83 ~   83 (84)
T PF12895_consen   83 K   83 (84)
T ss_dssp             H
T ss_pred             c
Confidence            3

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.82  E-value=0.00069  Score=61.57  Aligned_cols=134  Identities=17%  Similarity=0.163  Sum_probs=96.7

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH-HhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHH
Q 041384          401 SWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSA-CNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDL  479 (580)
Q Consensus       401 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  479 (580)
                      +|..++....+.+..+.|..+|.+.++.+ ..+...|...... +...++.+.|.++|+..++.  ++.+...|...++.
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~--f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK--FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH--HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHH
Confidence            57777888888888888999998888542 2234444444443 33456777799999998874  55566778888899


Q ss_pred             hhhcCChHHHHHHHHhCC-CCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCch
Q 041384          480 LGKSGKIEDACKVVSTMP-MKPS----TRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAA  537 (580)
Q Consensus       480 ~~~~g~~~~A~~~~~~~~-~~p~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~  537 (580)
                      +...|+.+.|..+|++.. .-|.    ...|...+.--.+.|+.+....+.+++.+..|.+..
T Consensus        80 l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~~~~~  142 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFPEDNS  142 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTTS-H
T ss_pred             HHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhhhH
Confidence            999999999999998873 2233    348888998889999999999999999988877555

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.

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.82  E-value=0.00025  Score=61.78  Aligned_cols=98  Identities=17%  Similarity=0.111  Sum_probs=80.1

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCC-hhHHHHHHHHhhhc
Q 041384          406 ISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALA-IEHYACYVDLLGKS  483 (580)
Q Consensus       406 ~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~  483 (580)
                      ..-+.+.+++++|+..|.+.++.  .| |++.|..=..+|.+.|.++.|++-.+..+.   +.|. ..+|..|..+|...
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--DPTNAVYYCNRAAAYSKLGEYEDAVKDCESALS---IDPHYSKAYGRLGLAYLAL  162 (304)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHhc--CCCcchHHHHHHHHHHHhcchHHHHHHHHHHHh---cChHHHHHHHHHHHHHHcc
Confidence            34567889999999999999994  66 667777788899999999999999888664   4444 66788999999999


Q ss_pred             CChHHHHHHHHhC-CCCCCHHHHHHH
Q 041384          484 GKIEDACKVVSTM-PMKPSTRILSSL  508 (580)
Q Consensus       484 g~~~~A~~~~~~~-~~~p~~~~~~~l  508 (580)
                      |++++|++.|++. .+.|+-.+|..=
T Consensus       163 gk~~~A~~aykKaLeldP~Ne~~K~n  188 (304)
T KOG0553|consen  163 GKYEEAIEAYKKALELDPDNESYKSN  188 (304)
T ss_pred             CcHHHHHHHHHhhhccCCCcHHHHHH
Confidence            9999999999888 578877666433

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.80  E-value=0.001  Score=55.70  Aligned_cols=116  Identities=13%  Similarity=0.072  Sum_probs=67.5

Q ss_pred             chHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHH
Q 041384          400 VSWTTLISGYGFHGYGEEALQLFLEMQESGVEPD--AITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYV  477 (580)
Q Consensus       400 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  477 (580)
                      ..+..+...+...|++++|...|++..+....+.  ...+..+...+.+.|++++|...+++++..  .+.+...+..+.
T Consensus        36 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg  113 (172)
T PRK02603         36 FVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL--NPKQPSALNNIA  113 (172)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHHHH
Confidence            3556666666667777777777777665422221  245556666666677777777777765542  122244445555


Q ss_pred             HHhhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 041384          478 DLLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPEN  535 (580)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~  535 (580)
                      .++...|+...+..-++..                  ...+++|.++++++.+.+|++
T Consensus       114 ~~~~~~g~~~~a~~~~~~A------------------~~~~~~A~~~~~~a~~~~p~~  153 (172)
T PRK02603        114 VIYHKRGEKAEEAGDQDEA------------------EALFDKAAEYWKQAIRLAPNN  153 (172)
T ss_pred             HHHHHcCChHhHhhCHHHH------------------HHHHHHHHHHHHHHHhhCchh
Confidence            5565555554444322211                  122577888888888888877

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.78  E-value=3.2e-05  Score=43.17  Aligned_cols=31  Identities=23%  Similarity=0.666  Sum_probs=24.3

Q ss_pred             ehHHHHHHHHHhcCChhHHHHHHHHHHHcCC
Q 041384          197 VSWTAMISGCIDSQNYDTGIDLFRAMQREGV  227 (580)
Q Consensus       197 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  227 (580)
                      ++||.++++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            3678888888888888888888888877663

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.

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.75  E-value=0.036  Score=51.55  Aligned_cols=231  Identities=14%  Similarity=0.069  Sum_probs=124.6

Q ss_pred             HHCCCCCCHH-HHHHHHHHhhccCChHHHHHHHHHHHHhCCCC----chhHHHHHHHHhHhcCCHHHHHHHHhcCCC--C
Q 041384          325 RLERIEPNSV-TLLAILSSCTRQSFLSHGLGVHCYIMKAGLNF----DVSIGNALMNMYSKCGSITSSHQIFNEMAA--R  397 (580)
Q Consensus       325 ~~~~~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~  397 (580)
                      ...-+.|+.. ....+...+.+  +.+++..+.+.+....+.+    -..++..++....+.++...|.+.+.-+..  |
T Consensus       252 e~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~ldp  329 (549)
T PF07079_consen  252 ENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKILDP  329 (549)
T ss_pred             HhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCC
Confidence            3334455543 22333333333  4555555555554433222    234555666666677777777776665443  2


Q ss_pred             Ccc-------hHHHHHHHHHhc----CChHHHHHHHHHHHHcCCCCCH-HHHHHHHH---HHhccCC-HHHHHHHHHHHH
Q 041384          398 DFV-------SWTTLISGYGFH----GYGEEALQLFLEMQESGVEPDA-ITVLAILS---ACNHAGL-VKEAETLFNNVM  461 (580)
Q Consensus       398 ~~~-------~~~~l~~~~~~~----~~~~~a~~~~~~~~~~g~~p~~-~~~~~l~~---~~~~~~~-~~~a~~~~~~~~  461 (580)
                      +..       +-..+-+..+..    -+...-+.+|+......  .|. .....|+.   -+-+.|. -++|+.+++.++
T Consensus       330 ~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~D--iDrqQLvh~L~~~Ak~lW~~g~~dekalnLLk~il  407 (549)
T PF07079_consen  330 RISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYD--IDRQQLVHYLVFGAKHLWEIGQCDEKALNLLKLIL  407 (549)
T ss_pred             cchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhc--ccHHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHH
Confidence            221       111112222211    12334455666666543  333 22222332   2445555 778888888765


Q ss_pred             HhhCCCCChhHHHHHH----HHhhhc---CChH---HHHHHHHhCCCCC----CHHHHHHHHHH--HHhcCCHHHHHHHH
Q 041384          462 KEKKIALAIEHYACYV----DLLGKS---GKIE---DACKVVSTMPMKP----STRILSSLVSA--CRIHGRLEVAEMLA  525 (580)
Q Consensus       462 ~~~~~~~~~~~~~~l~----~~~~~~---g~~~---~A~~~~~~~~~~p----~~~~~~~l~~~--~~~~~~~~~A~~~~  525 (580)
                      +-  -+-|..+-|.+.    ..|...   ..+.   +-..+.++.+++|    +...-|.|.+|  +..+|++.++.-.-
T Consensus       408 ~f--t~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys  485 (549)
T PF07079_consen  408 QF--TNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYS  485 (549)
T ss_pred             Hh--ccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHH
Confidence            42  122333322221    222221   1112   2233344444444    34456667666  46789999999888


Q ss_pred             HHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHH
Q 041384          526 HQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVM  562 (580)
Q Consensus       526 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  562 (580)
                      .-+.+..| ++.+|..++-++....+|++|..+++.+
T Consensus       486 ~WL~~iaP-S~~~~RLlGl~l~e~k~Y~eA~~~l~~L  521 (549)
T PF07079_consen  486 SWLTKIAP-SPQAYRLLGLCLMENKRYQEAWEYLQKL  521 (549)
T ss_pred             HHHHHhCC-cHHHHHHHHHHHHHHhhHHHHHHHHHhC
Confidence            88888888 8999999999999999999999999864

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.75  E-value=0.00071  Score=63.89  Aligned_cols=101  Identities=14%  Similarity=0.023  Sum_probs=76.4

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhc
Q 041384          405 LISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKS  483 (580)
Q Consensus       405 l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  483 (580)
                      ....+...|++++|++.|++.++.  .| +...|..+..+|...|++++|+..++++++.  .+.+...|..+..+|...
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~--~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l--~P~~~~a~~~lg~~~~~l   83 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDL--DPNNAELYADRAQANIKLGNFTEAVADANKAIEL--DPSLAKAYLRKGTACMKL   83 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHh
Confidence            345567788999999999999885  45 5577778888888999999999999987652  233466788888889999


Q ss_pred             CChHHHHHHHHhC-CCCCCHHHHHHHH
Q 041384          484 GKIEDACKVVSTM-PMKPSTRILSSLV  509 (580)
Q Consensus       484 g~~~~A~~~~~~~-~~~p~~~~~~~l~  509 (580)
                      |++++|+..|++. ...|+......++
T Consensus        84 g~~~eA~~~~~~al~l~P~~~~~~~~l  110 (356)
T PLN03088         84 EEYQTAKAALEKGASLAPGDSRFTKLI  110 (356)
T ss_pred             CCHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence            9999999999887 4556554444333

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.75  E-value=4.1e-05  Score=42.70  Aligned_cols=31  Identities=32%  Similarity=0.620  Sum_probs=24.5

Q ss_pred             cchHHHHHHHHhCCChhHHHHHHHHHHHCCC
Q 041384           95 ISWNSIINCFTQNGFYVRSLEMFREMYLCGF  125 (580)
Q Consensus        95 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  125 (580)
                      .+|+.+|++|++.|++++|.++|++|.+.|+
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.

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.74  E-value=0.001  Score=65.61  Aligned_cols=66  Identities=21%  Similarity=0.188  Sum_probs=39.6

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          501 STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       501 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      ++..+..+.-.....|++++|...++++.+++| +...|..++.++...|+.++|.+.+++.....+
T Consensus       419 ~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~p-s~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P  484 (517)
T PRK10153        419 LPRIYEILAVQALVKGKTDEAYQAINKAIDLEM-SWLNYVLLGKVYELKGDNRLAADAYSTAFNLRP  484 (517)
T ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            344555554444455666666666666666666 455666666666666666666666666555443

>PRK15331 chaperone protein SicA; Provisional

Probab=97.74  E-value=0.00041  Score=55.21  Aligned_cols=89  Identities=8%  Similarity=0.038  Sum_probs=71.7

Q ss_pred             HHHHhhhcCChHHHHHHHHhCC-CC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChH
Q 041384          476 YVDLLGKSGKIEDACKVVSTMP-MK-PSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWL  553 (580)
Q Consensus       476 l~~~~~~~g~~~~A~~~~~~~~-~~-p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  553 (580)
                      ...-+...|++++|..+|+-+. .. -+...|..|...+...++++.|+..+..+..++++||..+...+.+|...|+.+
T Consensus        43 ~Ay~~y~~Gk~~eA~~~F~~L~~~d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f~agqC~l~l~~~~  122 (165)
T PRK15331         43 HAYEFYNQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRKAA  122 (165)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCCHH
Confidence            3444557888888888887763 23 366677788888888889999999999988888888888999999999999999


Q ss_pred             HHHHHHHHHHh
Q 041384          554 GAEEVWRVMRA  564 (580)
Q Consensus       554 ~A~~~~~~~~~  564 (580)
                      .|+..|+...+
T Consensus       123 ~A~~~f~~a~~  133 (165)
T PRK15331        123 KARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHh
Confidence            99998887766

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.71  E-value=0.0029  Score=57.79  Aligned_cols=92  Identities=13%  Similarity=0.164  Sum_probs=41.4

Q ss_pred             HHHhcc-CCHHHHHHHHHHHHHhhCC--CCC--hhHHHHHHHHhhhcCChHHHHHHHHhCC---CC-----CCHH-HHHH
Q 041384          442 SACNHA-GLVKEAETLFNNVMKEKKI--ALA--IEHYACYVDLLGKSGKIEDACKVVSTMP---MK-----PSTR-ILSS  507 (580)
Q Consensus       442 ~~~~~~-~~~~~a~~~~~~~~~~~~~--~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~-----p~~~-~~~~  507 (580)
                      ..|... |+++.|++.|+++..-...  .+.  ..++..++..+.+.|++++|.++|++..   ..     .+.. .+..
T Consensus       122 ~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~  201 (282)
T PF14938_consen  122 EIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLK  201 (282)
T ss_dssp             HHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHH
Confidence            344444 5555555555554431111  111  2334455556666666666666666541   01     1111 1222


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCC
Q 041384          508 LVSACRIHGRLEVAEMLAHQLIEAEP  533 (580)
Q Consensus       508 l~~~~~~~~~~~~A~~~~~~~~~~~~  533 (580)
                      .+-.+...||...|...+++....+|
T Consensus       202 a~l~~L~~~D~v~A~~~~~~~~~~~~  227 (282)
T PF14938_consen  202 AILCHLAMGDYVAARKALERYCSQDP  227 (282)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHHGTTST
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            22234445666666666666666654

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.67  E-value=0.002  Score=63.62  Aligned_cols=139  Identities=14%  Similarity=0.087  Sum_probs=94.8

Q ss_pred             CCcchHHHHHHHHHh--c---CChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhcc--------CCHHHHHHHHHHHHH
Q 041384          397 RDFVSWTTLISGYGF--H---GYGEEALQLFLEMQESGVEPDA-ITVLAILSACNHA--------GLVKEAETLFNNVMK  462 (580)
Q Consensus       397 ~~~~~~~~l~~~~~~--~---~~~~~a~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~--------~~~~~a~~~~~~~~~  462 (580)
                      .|...|...+.+...  .   +..+.|..+|++..+.  .|+. ..+..+..++...        .+...+.+...+...
T Consensus       335 ~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~a  412 (517)
T PRK10153        335 HQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVA  412 (517)
T ss_pred             CCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhh
Confidence            344555555555332  2   2366888888888884  6754 4444443333221        122333444443222


Q ss_pred             hhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCch
Q 041384          463 EKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAA  537 (580)
Q Consensus       463 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~  537 (580)
                      ....+.+...+..+.-.....|++++|...++++ ...|+...|..+...+...|+.++|.+.++++.+++|.++.
T Consensus       413 l~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~pt  488 (517)
T PRK10153        413 LPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGENT  488 (517)
T ss_pred             cccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCch
Confidence            1224445567777777777889999999999998 46788889999999999999999999999999999999886

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.67  E-value=0.00015  Score=49.14  Aligned_cols=61  Identities=18%  Similarity=0.235  Sum_probs=48.3

Q ss_pred             HHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCc
Q 041384          476 YVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENA  536 (580)
Q Consensus       476 l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~  536 (580)
                      +...+.+.|++++|++.|+++ ...| +...+..+...+...|++++|...++++.+..|+++
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~~p   65 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELDPDNP   65 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-H
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCC
Confidence            456677888888888888887 3445 566788888889999999999999999999998875

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.67  E-value=0.00066  Score=50.23  Aligned_cols=90  Identities=18%  Similarity=0.135  Sum_probs=44.4

Q ss_pred             HHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CC-CCCHHHHHHHHHHHHhcCCHH
Q 041384          442 SACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PM-KPSTRILSSLVSACRIHGRLE  519 (580)
Q Consensus       442 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~~~~~  519 (580)
                      ..+...|++++|...++++++.  .+.+...+..+...+...|++++|.+.++.. .. +.+...+..+...+...|+.+
T Consensus         8 ~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (100)
T cd00189           8 NLYYKLGDYDEALEYYEKALEL--DPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLGKYE   85 (100)
T ss_pred             HHHHHHhcHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHHhHH
Confidence            3344445555555555543321  1112233444455555555555555555544 11 223345555556666666666


Q ss_pred             HHHHHHHHHHhcCC
Q 041384          520 VAEMLAHQLIEAEP  533 (580)
Q Consensus       520 ~A~~~~~~~~~~~~  533 (580)
                      .|...+++..+..|
T Consensus        86 ~a~~~~~~~~~~~~   99 (100)
T cd00189          86 EALEAYEKALELDP   99 (100)
T ss_pred             HHHHHHHHHHccCC
Confidence            66666666655544

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.67  E-value=0.045  Score=50.46  Aligned_cols=78  Identities=14%  Similarity=0.158  Sum_probs=35.8

Q ss_pred             HHHHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHH
Q 041384          273 MHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHG  352 (580)
Q Consensus       273 ~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a  352 (580)
                      +..+...|. ...|.++......|+...|-..+.+++..++|++-..+-..      +-++..|..++.+|.+.|+..+|
T Consensus       184 i~~li~~~~-~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~~~eA  256 (319)
T PF04840_consen  184 IRKLIEMGQ-EKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGNKKEA  256 (319)
T ss_pred             HHHHHHCCC-HHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCCHHHH
Confidence            333344444 45555555555555555555555555555555544433211      11223444445555555554444


Q ss_pred             HHHHH
Q 041384          353 LGVHC  357 (580)
Q Consensus       353 ~~~~~  357 (580)
                      ..+..
T Consensus       257 ~~yI~  261 (319)
T PF04840_consen  257 SKYIP  261 (319)
T ss_pred             HHHHH
Confidence            44443

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

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.60  E-value=0.00091  Score=49.01  Aligned_cols=78  Identities=18%  Similarity=0.151  Sum_probs=66.8

Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHHCCC-CCCHHHHHHHHHHhhccC--------ChHHHHHHHHHHHHhCCCCchhHHHH
Q 041384          303 SIIRGYSQSGDLSEAMKLFSRMRLERI-EPNSVTLLAILSSCTRQS--------FLSHGLGVHCYIMKAGLNFDVSIGNA  373 (580)
Q Consensus       303 ~l~~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~~~~~ll~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~~~  373 (580)
                      ..|..+...+++.....+|+.++..|+ .|+..+|+.++.+.++..        .+...+.+++.|...+++|+..+|+.
T Consensus        30 ~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYni  109 (120)
T PF08579_consen   30 DNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNI  109 (120)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHH
Confidence            345566677999999999999999999 999999999999887643        35567889999999999999999999


Q ss_pred             HHHHhHh
Q 041384          374 LMNMYSK  380 (580)
Q Consensus       374 l~~~~~~  380 (580)
                      ++..+.+
T Consensus       110 vl~~Llk  116 (120)
T PF08579_consen  110 VLGSLLK  116 (120)
T ss_pred             HHHHHHH
Confidence            9987765

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.60  E-value=0.0011  Score=62.61  Aligned_cols=119  Identities=15%  Similarity=0.081  Sum_probs=66.6

Q ss_pred             CCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHh--CCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCC----CCcch
Q 041384          328 RIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKA--GLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAA----RDFVS  401 (580)
Q Consensus       328 ~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~  401 (580)
                      +.+.+...+..++..+....+++.+..++...+..  ....-+.+..++++.|.+.|..+.+..+++.=..    +|..+
T Consensus        61 ~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s  140 (429)
T PF10037_consen   61 KKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFS  140 (429)
T ss_pred             CCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhh
Confidence            33455666666666666666666666666666553  2222233334666666666666666665554333    45556


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 041384          402 WTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNH  446 (580)
Q Consensus       402 ~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~  446 (580)
                      +|.||..+.+.|++..|.++...|...+...+..|+...+.+|.+
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~  185 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYK  185 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHH
Confidence            666666666666666666666555555545555555544444444

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=97.59  E-value=0.00074  Score=61.37  Aligned_cols=129  Identities=11%  Similarity=0.083  Sum_probs=100.4

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhh-cCChHHHHHHHHhC--CCCCCHHHHHHHHHH
Q 041384          435 ITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGK-SGKIEDACKVVSTM--PMKPSTRILSSLVSA  511 (580)
Q Consensus       435 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~  511 (580)
                      .+|..+++...+.+..+.|..+|.++.+.  ...+..+|...+..-.. .++.+.|.++|+..  .+..+...|...+.-
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~--~~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKD--KRCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKFPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCC--CCS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            46788888888999999999999997642  23344555555555334 56777799999998  356688899999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCc---hHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 041384          512 CRIHGRLEVAEMLAHQLIEAEPENA---ANYTLLSMVCSESGNWLGAEEVWRVMRAK  565 (580)
Q Consensus       512 ~~~~~~~~~A~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (580)
                      +.+.|+.+.|..+|+++...-|...   .+|...+..=.+.|+.+...++.+++.+.
T Consensus        80 l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            9999999999999999998876544   68999999999999999999999888764

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.

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=97.56  E-value=0.00014  Score=49.82  Aligned_cols=61  Identities=21%  Similarity=0.329  Sum_probs=31.3

Q ss_pred             hcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHH
Q 041384          482 KSGKIEDACKVVSTM-P-MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLL  542 (580)
Q Consensus       482 ~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l  542 (580)
                      ..|++++|+++|+++ . .+-+...+..++..|.+.|++++|..+++++....|+++..+..+
T Consensus         3 ~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~l~   65 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQDPDNPEYQQLL   65 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTTHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCHHHHHHHH
Confidence            345555555555554 1 222444555555555666666666666666666555554444333

...

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.53  E-value=0.0012  Score=62.46  Aligned_cols=118  Identities=8%  Similarity=0.042  Sum_probs=92.6

Q ss_pred             CCchHHHhHHHHHhHhcCCHHHHHHHHhcCCC-C-----CeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHH
Q 041384          162 ELSVFVSTALLDLYSKCHHWLIALRVFEQMVI-R-----NEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLT  235 (580)
Q Consensus       162 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~  235 (580)
                      +.+......+++.+....+++.+..++-+... |     -..+..++|+.|.+.|..+.++.+++.=...|+-||..|++
T Consensus        63 ~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n  142 (429)
T PF10037_consen   63 PVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFN  142 (429)
T ss_pred             CCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHH
Confidence            44555566667777677777777777666522 1     23355689999999999999999999988899999999999


Q ss_pred             HHHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHc
Q 041384          236 IVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCEC  279 (580)
Q Consensus       236 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  279 (580)
                      .+|+.+.+.|++..|.++...|...+...+..++...+.++.+.
T Consensus       143 ~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  143 LLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            99999999999999999999988888777777777666666664

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 [].

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.53  E-value=0.018  Score=50.99  Aligned_cols=57  Identities=12%  Similarity=0.128  Sum_probs=47.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCC---CchHHHHHHHHHHhcCChHHHHHHHHHHH
Q 041384          507 SLVSACRIHGRLEVAEMLAHQLIEAEPE---NAANYTLLSMVCSESGNWLGAEEVWRVMR  563 (580)
Q Consensus       507 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  563 (580)
                      .+..-|.+.|.+..|..-++.+.+..|.   ...+...++.+|...|..++|.++.+.+.
T Consensus       180 ~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        180 SVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            4456688899999999999999998876   44557788899999999999999877653

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.51  E-value=0.015  Score=47.09  Aligned_cols=127  Identities=13%  Similarity=0.081  Sum_probs=68.3

Q ss_pred             CCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC-CCC---CHHHHH
Q 041384          431 EPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP-MKP---STRILS  506 (580)
Q Consensus       431 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p---~~~~~~  506 (580)
                      .|+...-..|..+....|+..+|...|++.+. --+..|....-.+.++....+++..|...++++. ..|   ++....
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qals-G~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~L  164 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALS-GIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHL  164 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhc-cccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchH
Confidence            45554445555666666666666666666442 2233445555555566666666666666665551 111   222333


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHH
Q 041384          507 SLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVW  559 (580)
Q Consensus       507 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  559 (580)
                      .+.+.+...|...+|+..|+.+..-.|. +......+..+.++|+..+|..-+
T Consensus       165 l~aR~laa~g~~a~Aesafe~a~~~ypg-~~ar~~Y~e~La~qgr~~ea~aq~  216 (251)
T COG4700         165 LFARTLAAQGKYADAESAFEVAISYYPG-PQARIYYAEMLAKQGRLREANAQY  216 (251)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHHhCCC-HHHHHHHHHHHHHhcchhHHHHHH
Confidence            4556666666666666666666665543 222344444555666555554433

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.50  E-value=0.041  Score=50.31  Aligned_cols=157  Identities=10%  Similarity=0.080  Sum_probs=87.1

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcC-CCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHH
Q 041384          200 TAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAEL-RDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCE  278 (580)
Q Consensus       200 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  278 (580)
                      ...+..|...|++..|-.++..+               ...|... |+++.|.+.|++..+                   
T Consensus        98 ~~A~~~y~~~G~~~~aA~~~~~l---------------A~~ye~~~~d~e~Ai~~Y~~A~~-------------------  143 (282)
T PF14938_consen   98 EKAIEIYREAGRFSQAAKCLKEL---------------AEIYEEQLGDYEKAIEYYQKAAE-------------------  143 (282)
T ss_dssp             HHHHHHHHHCT-HHHHHHHHHHH---------------HHHHCCTT--HHHHHHHHHHHHH-------------------
T ss_pred             HHHHHHHHhcCcHHHHHHHHHHH---------------HHHHHHHcCCHHHHHHHHHHHHH-------------------
Confidence            34456677777777776666554               3356566 788888887665543                   


Q ss_pred             cCCCHHHHHHHHhhCCCC--ChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCC-----CCHH-HHHHHHHHhhccCChH
Q 041384          279 CTEALHPARIIFERTKVK--DVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIE-----PNSV-TLLAILSSCTRQSFLS  350 (580)
Q Consensus       279 ~~~~~~~a~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~-----p~~~-~~~~ll~~~~~~~~~~  350 (580)
                                +|+.-..+  -...+..+...+.+.|++++|..+|++.......     .+.. .|...+-++...|+..
T Consensus       144 ----------~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v  213 (282)
T PF14938_consen  144 ----------LYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYV  213 (282)
T ss_dssp             ----------HHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HH
T ss_pred             ----------HHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHH
Confidence                      22221111  1123555677888999999999999988765322     1222 2333444556678888


Q ss_pred             HHHHHHHHHHHh--CCCCc--hhHHHHHHHHhHh--cCCHHHHHHHHhcCCCCCcc
Q 041384          351 HGLGVHCYIMKA--GLNFD--VSIGNALMNMYSK--CGSITSSHQIFNEMAARDFV  400 (580)
Q Consensus       351 ~a~~~~~~~~~~--~~~~~--~~~~~~l~~~~~~--~g~~~~A~~~~~~~~~~~~~  400 (580)
                      .|...++.....  ++..+  ......|+.++-.  ...++.+..-|+.+.+-|..
T Consensus       214 ~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~~D~e~f~~av~~~d~~~~ld~w  269 (282)
T PF14938_consen  214 AARKALERYCSQDPSFASSREYKFLEDLLEAYEEGDVEAFTEAVAEYDSISRLDNW  269 (282)
T ss_dssp             HHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHTT-CCCHHHHCHHHTTSS---HH
T ss_pred             HHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHhCCHHHHHHHHHHHcccCccHHH
Confidence            888888887753  23222  3344455555543  33466666666666655543

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.48  E-value=0.0023  Score=48.92  Aligned_cols=84  Identities=25%  Similarity=0.180  Sum_probs=46.6

Q ss_pred             HHhhhcCChHHHHHHHHhCC---CCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC---CchHHHHHHHHHHhc
Q 041384          478 DLLGKSGKIEDACKVVSTMP---MKP--STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPE---NAANYTLLSMVCSES  549 (580)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~~---~~p--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~---~~~~~~~l~~~~~~~  549 (580)
                      .++-..|+.++|+.+|++..   ...  ....+..+...+...|++++|+.++++.....|+   +......++.++...
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            34444555555555555441   111  1224445556666666666666666666666555   555555566666666


Q ss_pred             CChHHHHHHHHH
Q 041384          550 GNWLGAEEVWRV  561 (580)
Q Consensus       550 g~~~~A~~~~~~  561 (580)
                      |+.++|.+.+-.
T Consensus        89 gr~~eAl~~~l~  100 (120)
T PF12688_consen   89 GRPKEALEWLLE  100 (120)
T ss_pred             CCHHHHHHHHHH
Confidence            666666666544

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.47  E-value=0.0013  Score=58.58  Aligned_cols=100  Identities=16%  Similarity=0.117  Sum_probs=45.1

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHHhhCCCC-ChhHHHHHHHHhhhcCChHHHHHHHHhCC-CCC----CHHHHHHHHH
Q 041384          437 VLAILSACNHAGLVKEAETLFNNVMKEKKIAL-AIEHYACYVDLLGKSGKIEDACKVVSTMP-MKP----STRILSSLVS  510 (580)
Q Consensus       437 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p----~~~~~~~l~~  510 (580)
                      |...+....+.|++++|...|+.+++...-.+ ....+..+...|...|++++|...|+.+. ..|    ....+..++.
T Consensus       146 Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~  225 (263)
T PRK10803        146 YNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGV  225 (263)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHH
Confidence            44433333445666666666666544221111 02234445555555555555555555441 111    1223333344


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCc
Q 041384          511 ACRIHGRLEVAEMLAHQLIEAEPENA  536 (580)
Q Consensus       511 ~~~~~~~~~~A~~~~~~~~~~~~~~~  536 (580)
                      .+...|+.+.|...++++.+..|.+.
T Consensus       226 ~~~~~g~~~~A~~~~~~vi~~yP~s~  251 (263)
T PRK10803        226 IMQDKGDTAKAKAVYQQVIKKYPGTD  251 (263)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCcCCH
Confidence            44445555555555555555555443

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.47  E-value=0.063  Score=52.26  Aligned_cols=88  Identities=16%  Similarity=0.131  Sum_probs=47.2

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC-CCCCHH----------
Q 041384          435 ITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP-MKPSTR----------  503 (580)
Q Consensus       435 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~~~----------  503 (580)
                      .+...+...+.+...+..|.++|.++-.          ...+++.....++|.+|..+-++.+ ..|++.          
T Consensus       748 e~l~~~a~ylk~l~~~gLAaeIF~k~gD----------~ksiVqlHve~~~W~eAFalAe~hPe~~~dVy~pyaqwLAE~  817 (1081)
T KOG1538|consen  748 EPLLLCATYLKKLDSPGLAAEIFLKMGD----------LKSLVQLHVETQRWDEAFALAEKHPEFKDDVYMPYAQWLAEN  817 (1081)
T ss_pred             hHHHHHHHHHhhccccchHHHHHHHhcc----------HHHHhhheeecccchHhHhhhhhCccccccccchHHHHhhhh
Confidence            3333333344445555555566555211          2334555556666666666665553 233321          


Q ss_pred             -HHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 041384          504 -ILSSLVSACRIHGRLEVAEMLAHQLIEAE  532 (580)
Q Consensus       504 -~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  532 (580)
                       -|...-.+|.++|+..+|.++++++....
T Consensus       818 DrFeEAqkAfhkAGr~~EA~~vLeQLtnna  847 (1081)
T KOG1538|consen  818 DRFEEAQKAFHKAGRQREAVQVLEQLTNNA  847 (1081)
T ss_pred             hhHHHHHHHHHHhcchHHHHHHHHHhhhhh
Confidence             12223355677888888888888876543

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.46  E-value=0.0032  Score=52.51  Aligned_cols=99  Identities=16%  Similarity=0.075  Sum_probs=44.0

Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHHhhCCCC-ChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHH-
Q 041384          438 LAILSACNHAGLVKEAETLFNNVMKEKKIAL-AIEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACR-  513 (580)
Q Consensus       438 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~-  513 (580)
                      ..+...+...|++++|...|++++.....++ ...++..+..++...|++++|+..+++. ...| ....+..+...+. 
T Consensus        39 ~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la~i~~~  118 (168)
T CHL00033         39 YRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMAVICHY  118 (168)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHH
Confidence            3333344444555555555554432111111 1223444444555555555555555444 1122 2233333333333 


Q ss_pred             ------hcCCHH-------HHHHHHHHHHhcCCCCc
Q 041384          514 ------IHGRLE-------VAEMLAHQLIEAEPENA  536 (580)
Q Consensus       514 ------~~~~~~-------~A~~~~~~~~~~~~~~~  536 (580)
                            ..|+++       +|...+++.....|++.
T Consensus       119 ~~~~~~~~g~~~~A~~~~~~a~~~~~~a~~~~p~~~  154 (168)
T CHL00033        119 RGEQAIEQGDSEIAEAWFDQAAEYWKQAIALAPGNY  154 (168)
T ss_pred             hhHHHHHcccHHHHHHHHHHHHHHHHHHHHhCcccH
Confidence                  555555       55556666666666544

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.45  E-value=0.003  Score=57.62  Aligned_cols=156  Identities=11%  Similarity=0.046  Sum_probs=111.1

Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH--HHhccCCHHHHHHHHHHHHHhhCCCCChhH------------
Q 041384          407 SGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILS--ACNHAGLVKEAETLFNNVMKEKKIALAIEH------------  472 (580)
Q Consensus       407 ~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~------------  472 (580)
                      .++...|+.++|...--...+.  .++ ..+..+++  ++...++.+.|...|++.++   ..|+...            
T Consensus       177 ~cl~~~~~~~~a~~ea~~ilkl--d~~-n~~al~vrg~~~yy~~~~~ka~~hf~qal~---ldpdh~~sk~~~~~~k~le  250 (486)
T KOG0550|consen  177 ECLAFLGDYDEAQSEAIDILKL--DAT-NAEALYVRGLCLYYNDNADKAINHFQQALR---LDPDHQKSKSASMMPKKLE  250 (486)
T ss_pred             hhhhhcccchhHHHHHHHHHhc--ccc-hhHHHHhcccccccccchHHHHHHHhhhhc---cChhhhhHHhHhhhHHHHH
Confidence            4556678888888877776663  221 22333333  34457788888888887554   3344221            


Q ss_pred             -HHHHHHHhhhcCChHHHHHHHHhC-CC-----CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHH
Q 041384          473 -YACYVDLLGKSGKIEDACKVVSTM-PM-----KPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMV  545 (580)
Q Consensus       473 -~~~l~~~~~~~g~~~~A~~~~~~~-~~-----~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  545 (580)
                       +..=..-..+.|++.+|.+.+.+. .+     +|+...|.....+..+.|+..+|+.--+.+..++|.-...+..-+.+
T Consensus       251 ~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~syikall~ra~c  330 (486)
T KOG0550|consen  251 VKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSSYIKALLRRANC  330 (486)
T ss_pred             HHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHHHHHHHHHHHHH
Confidence             112223456789999999999887 33     34556677777778889999999999999999999888888889999


Q ss_pred             HHhcCChHHHHHHHHHHHhCCCc
Q 041384          546 CSESGNWLGAEEVWRVMRAKGLS  568 (580)
Q Consensus       546 ~~~~g~~~~A~~~~~~~~~~~~~  568 (580)
                      +.-.++|++|.+-+++..+..-.
T Consensus       331 ~l~le~~e~AV~d~~~a~q~~~s  353 (486)
T KOG0550|consen  331 HLALEKWEEAVEDYEKAMQLEKD  353 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHhhccc
Confidence            99999999999999888765443

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=97.44  E-value=0.00012  Score=41.44  Aligned_cols=33  Identities=27%  Similarity=0.384  Sum_probs=30.8

Q ss_pred             HHHHHhcCCCCchHHHHHHHHHHhcCChHHHHH
Q 041384          525 AHQLIEAEPENAANYTLLSMVCSESGNWLGAEE  557 (580)
Q Consensus       525 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  557 (580)
                      ++++++.+|+|+.+|..++.+|...|++++|++
T Consensus         2 y~kAie~~P~n~~a~~nla~~~~~~g~~~~A~~   34 (34)
T PF13431_consen    2 YKKAIELNPNNAEAYNNLANLYLNQGDYEEAIA   34 (34)
T ss_pred             hHHHHHHCCCCHHHHHHHHHHHHHCcCHHhhcC
Confidence            678999999999999999999999999999863

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.43  E-value=0.06  Score=50.10  Aligned_cols=185  Identities=18%  Similarity=0.118  Sum_probs=109.8

Q ss_pred             HHHHHhHhcCCHHHHHHHHhcCCCC-------CcchHHHHHHHHHh---cCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 041384          373 ALMNMYSKCGSITSSHQIFNEMAAR-------DFVSWTTLISGYGF---HGYGEEALQLFLEMQESGVEPDAITVLAILS  442 (580)
Q Consensus       373 ~l~~~~~~~g~~~~A~~~~~~~~~~-------~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~  442 (580)
                      .++-.|....+++...++.+.+...       ....-....-++.+   .|+.++|++++..+....-.+++.+|..+.+
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            3444566667777777777766652       11122233445555   7888888888888666556778888887777


Q ss_pred             HHhc---------cCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCCh----HHHHHHH---HhC-------CCC
Q 041384          443 ACNH---------AGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKI----EDACKVV---STM-------PMK  499 (580)
Q Consensus       443 ~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~----~~A~~~~---~~~-------~~~  499 (580)
                      .|-.         ....++|...|.+..+   +.|+...--.++..+...|..    .+..++-   ..+       ...
T Consensus       226 IyKD~~~~s~~~d~~~ldkAi~~Y~kgFe---~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~  302 (374)
T PF13281_consen  226 IYKDLFLESNFTDRESLDKAIEWYRKGFE---IEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKM  302 (374)
T ss_pred             HHHHHHHHcCccchHHHHHHHHHHHHHHc---CCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcccccc
Confidence            6532         2346778888887543   345533322333333333431    1222222   111       122


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCCccCC
Q 041384          500 PSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGLSKSY  571 (580)
Q Consensus       500 p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  571 (580)
                      .+...+.+++.++.-.|+.+.|.+.++++....|+.-..-..+           +-+.+++.+.+..-.++|
T Consensus       303 ~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~~~W~l~St~-----------~ni~Li~~~~~~~~~~~~  363 (374)
T PF13281_consen  303 QDYWDVATLLEASVLAGDYEKAIQAAEKAFKLKPPAWELESTL-----------ENIKLIRHFRKRPEEPSP  363 (374)
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCcchhHHHHH-----------HHHHHHHHHhcCCCCCCc
Confidence            4555667888999999999999999999999987665422222           335666666655443433

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.38  E-value=0.0038  Score=45.85  Aligned_cols=78  Identities=15%  Similarity=0.228  Sum_probs=61.5

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHcCC-CCCHHHHHHHHHHHhcCCC--------chhHHHHHHHHHHhcCCCchhHHHH
Q 041384          201 AMISGCIDSQNYDTGIDLFRAMQREGV-KPTRVTLTIVLLACAELRD--------LRNGKAIHGYAYCCGFDFDHHLSAA  271 (580)
Q Consensus       201 ~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~~~~~ll~~~~~~~~--------~~~a~~~~~~~~~~~~~~~~~~~~~  271 (580)
                      ..|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..-        +.....+++.|+..++.|+..+|+.
T Consensus        30 ~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYni  109 (120)
T PF08579_consen   30 DNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNI  109 (120)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHH
Confidence            445666677999999999999999999 9999999999998876532        3345667778888888888888877


Q ss_pred             HHHHHHH
Q 041384          272 LMHMYCE  278 (580)
Q Consensus       272 l~~~~~~  278 (580)
                      ++..+.+
T Consensus       110 vl~~Llk  116 (120)
T PF08579_consen  110 VLGSLLK  116 (120)
T ss_pred             HHHHHHH
Confidence            7776654

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 [, , ].

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=97.36  E-value=0.0005  Score=41.95  Aligned_cols=42  Identities=21%  Similarity=0.329  Sum_probs=38.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHH
Q 041384          503 RILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSM  544 (580)
Q Consensus       503 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  544 (580)
                      .++..+..+|.+.|++++|+++++++++..|+|+..+..++.
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~La~   43 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRALAQ   43 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHhhh
Confidence            467788999999999999999999999999999999888764

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.36  E-value=0.085  Score=51.41  Aligned_cols=86  Identities=8%  Similarity=0.047  Sum_probs=48.2

Q ss_pred             HHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCCCCcchHH----------
Q 041384          334 VTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWT----------  403 (580)
Q Consensus       334 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~----------  403 (580)
                      .+...+...+.+...+..|-++|..|-+.         ..+++.+...+++++|..+-+..++--...|.          
T Consensus       748 e~l~~~a~ylk~l~~~gLAaeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe~~~dVy~pyaqwLAE~D  818 (1081)
T KOG1538|consen  748 EPLLLCATYLKKLDSPGLAAEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPEFKDDVYMPYAQWLAEND  818 (1081)
T ss_pred             hHHHHHHHHHhhccccchHHHHHHHhccH---------HHHhhheeecccchHhHhhhhhCccccccccchHHHHhhhhh
Confidence            34444444455555666666666665543         34556666777777777777766652111222          


Q ss_pred             ---HHHHHHHhcCChHHHHHHHHHHHHc
Q 041384          404 ---TLISGYGFHGYGEEALQLFLEMQES  428 (580)
Q Consensus       404 ---~l~~~~~~~~~~~~a~~~~~~~~~~  428 (580)
                         -.-.+|.+.|+-.+|..+++++...
T Consensus       819 rFeEAqkAfhkAGr~~EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  819 RFEEAQKAFHKAGRQREAVQVLEQLTNN  846 (1081)
T ss_pred             hHHHHHHHHHHhcchHHHHHHHHHhhhh
Confidence               2223455666666666666666543

>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=97.36  E-value=0.0023  Score=53.36  Aligned_cols=97  Identities=15%  Similarity=0.219  Sum_probs=76.8

Q ss_pred             HHHHhhC--CCCChhhHHHHHHHHHh-----CCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhcc-------------
Q 041384          287 RIIFERT--KVKDVVIWSSIIRGYSQ-----SGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQ-------------  346 (580)
Q Consensus       287 ~~~~~~~--~~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~-------------  346 (580)
                      ...|+..  ...+-.+|..++..|.+     .|..+=....++.|.+-|+.-|..+|+.|++.+-+.             
T Consensus        34 ~~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~  113 (228)
T PF06239_consen   34 EELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFM  113 (228)
T ss_pred             HHHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhc
Confidence            3444443  34566677777777654     477888888899999999999999999999988652             


Q ss_pred             ---CChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCC
Q 041384          347 ---SFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGS  383 (580)
Q Consensus       347 ---~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  383 (580)
                         .+.+-|++++++|...|+-||..++..+++.+++.+.
T Consensus       114 hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  114 HYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             cCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence               2456789999999999999999999999999977654

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.36  E-value=0.055  Score=43.90  Aligned_cols=121  Identities=17%  Similarity=0.139  Sum_probs=55.8

Q ss_pred             CchhHHHHHHHHhHhcCCHHHHHHHHhcCCC----CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC---CHHHHH
Q 041384          366 FDVSIGNALMNMYSKCGSITSSHQIFNEMAA----RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEP---DAITVL  438 (580)
Q Consensus       366 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p---~~~~~~  438 (580)
                      |++..-..|..+..+.|+..+|...|++...    .|....-.+.++....+++..|...++.+.+..  |   ++.+..
T Consensus        87 pTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~--pa~r~pd~~L  164 (251)
T COG4700          87 PTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYN--PAFRSPDGHL  164 (251)
T ss_pred             hhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcC--CccCCCCchH
Confidence            3443334444444455555555555444333    244444444445555555555555555554431  2   112233


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHH
Q 041384          439 AILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACK  491 (580)
Q Consensus       439 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  491 (580)
                      .+.+.+...|++..|..-|+..+.   .-|+....-.....+.++|+.+++..
T Consensus       165 l~aR~laa~g~~a~Aesafe~a~~---~ypg~~ar~~Y~e~La~qgr~~ea~a  214 (251)
T COG4700         165 LFARTLAAQGKYADAESAFEVAIS---YYPGPQARIYYAEMLAKQGRLREANA  214 (251)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHH---hCCCHHHHHHHHHHHHHhcchhHHHH
Confidence            344455555555555555555332   23343333334444555555544433

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=97.30  E-value=0.00065  Score=46.64  Aligned_cols=64  Identities=17%  Similarity=0.165  Sum_probs=46.7

Q ss_pred             hhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhcCC
Q 041384          470 IEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHG-RLEVAEMLAHQLIEAEP  533 (580)
Q Consensus       470 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~-~~~~A~~~~~~~~~~~~  533 (580)
                      +..|..+...+...|++++|+..|++. ...| ++..|..+..++...| ++++|++.++++++++|
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            445666777777777777777777766 2333 5567778888888888 68888888888888776

...

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.28  E-value=0.013  Score=44.94  Aligned_cols=91  Identities=18%  Similarity=0.142  Sum_probs=60.5

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCC-ChhHHHHHHHHhh
Q 041384          405 LISGYGFHGYGEEALQLFLEMQESGVEPDA--ITVLAILSACNHAGLVKEAETLFNNVMKEKKIAL-AIEHYACYVDLLG  481 (580)
Q Consensus       405 l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~  481 (580)
                      +..++-..|+.++|+.+|++..+.|+....  ..+..+.+.+...|++++|..++++.+.+..-.+ +......+.-++.
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~   86 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALY   86 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHH
Confidence            445666778888888888888887766543  4566677778888888888888888665322111 2222233445667


Q ss_pred             hcCChHHHHHHHHh
Q 041384          482 KSGKIEDACKVVST  495 (580)
Q Consensus       482 ~~g~~~~A~~~~~~  495 (580)
                      ..|+.++|++.+-.
T Consensus        87 ~~gr~~eAl~~~l~  100 (120)
T PF12688_consen   87 NLGRPKEALEWLLE  100 (120)
T ss_pred             HCCCHHHHHHHHHH
Confidence            77888888776644

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.27  E-value=0.0017  Score=60.80  Aligned_cols=62  Identities=13%  Similarity=0.046  Sum_probs=30.6

Q ss_pred             hhHHHHHHHHhhhcCChHHHHHHHHhC-CCCCCHH----HHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 041384          470 IEHYACYVDLLGKSGKIEDACKVVSTM-PMKPSTR----ILSSLVSACRIHGRLEVAEMLAHQLIEA  531 (580)
Q Consensus       470 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~----~~~~l~~~~~~~~~~~~A~~~~~~~~~~  531 (580)
                      ...++.+..+|...|++++|+..|++. ...|+..    +|..+..+|...|+.++|+..++++++.
T Consensus        75 a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         75 AEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            344445555555555555555555443 3344322    2455555555555555555555555554

>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=97.26  E-value=0.00064  Score=48.06  Aligned_cols=62  Identities=18%  Similarity=0.182  Sum_probs=49.2

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhcC----CC---CchHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 041384          503 RILSSLVSACRIHGRLEVAEMLAHQLIEAE----PE---NAANYTLLSMVCSESGNWLGAEEVWRVMRA  564 (580)
Q Consensus       503 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~----~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (580)
                      .+++.+...|...|++++|+..++++.+..    +.   -..++..++.++...|++++|.+++++..+
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            467788888889999999999988887542    22   355688999999999999999999988754

...

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.20  E-value=0.27  Score=48.57  Aligned_cols=205  Identities=10%  Similarity=0.038  Sum_probs=116.2

Q ss_pred             CCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCC--------chHHHhHHHHHhHhcCCHHHHHHHHhcCCCCCee
Q 041384          126 VLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFEL--------SVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEV  197 (580)
Q Consensus       126 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  197 (580)
                      .|.+..|..+.......-+++.|+..|-+...-.+++.        +.....+=+.+|  -|++++|++++-++..+|. 
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~~--~g~feeaek~yld~drrDL-  765 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISAF--YGEFEEAEKLYLDADRRDL-  765 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhhh--hcchhHhhhhhhccchhhh-
Confidence            57888888888777777777777777665543222211        111112222222  3899999999988877764 


Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHc-CCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHH
Q 041384          198 SWTAMISGCIDSQNYDTGIDLFRAMQRE-GVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMY  276 (580)
Q Consensus       198 ~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  276 (580)
                          .|..+.+.|++-...++++.--.. +-..-...++.+...++....++.|.+.+..-..         ....+.++
T Consensus       766 ----Aielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~---------~e~~~ecl  832 (1189)
T KOG2041|consen  766 ----AIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGD---------TENQIECL  832 (1189)
T ss_pred             ----hHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc---------hHhHHHHH
Confidence                356677778887777766431100 0011134566777777777777777776654221         12344444


Q ss_pred             HHcCCCHHHHHHHHhhCCCCChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHH
Q 041384          277 CECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVH  356 (580)
Q Consensus       277 ~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~  356 (580)
                      .+... ++..+.+-...++ +....-.+...+...|.-++|.+.+-+-.    .|     ...+..|...+++.+|.++-
T Consensus       833 y~le~-f~~LE~la~~Lpe-~s~llp~~a~mf~svGMC~qAV~a~Lr~s----~p-----kaAv~tCv~LnQW~~avela  901 (1189)
T KOG2041|consen  833 YRLEL-FGELEVLARTLPE-DSELLPVMADMFTSVGMCDQAVEAYLRRS----LP-----KAAVHTCVELNQWGEAVELA  901 (1189)
T ss_pred             HHHHh-hhhHHHHHHhcCc-ccchHHHHHHHHHhhchHHHHHHHHHhcc----Cc-----HHHHHHHHHHHHHHHHHHHH
Confidence            44444 4454444444443 44455566677777777777766554321    11     12345566666666666554


Q ss_pred             H
Q 041384          357 C  357 (580)
Q Consensus       357 ~  357 (580)
                      +
T Consensus       902 q  902 (1189)
T KOG2041|consen  902 Q  902 (1189)
T ss_pred             H
Confidence            4

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.19  E-value=0.0044  Score=56.44  Aligned_cols=257  Identities=12%  Similarity=-0.010  Sum_probs=148.5

Q ss_pred             HHHhCCChhHHHHHHHHHHHCCCCCCH----HHHHHHHHHhhccCChHHHHHHHHHHH--H--hCCCC-chhHHHHHHHH
Q 041384          307 GYSQSGDLSEAMKLFSRMRLERIEPNS----VTLLAILSSCTRQSFLSHGLGVHCYIM--K--AGLNF-DVSIGNALMNM  377 (580)
Q Consensus       307 ~~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~--~--~~~~~-~~~~~~~l~~~  377 (580)
                      -+|+.|+......+|+...+.| .-|.    .+|..+-.+|...+++++|+++...=.  .  .|-+. .......|.+.
T Consensus        26 RLck~gdcraGv~ff~aA~qvG-TeDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGNt  104 (639)
T KOG1130|consen   26 RLCKMGDCRAGVDFFKAALQVG-TEDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGNT  104 (639)
T ss_pred             HHHhccchhhhHHHHHHHHHhc-chHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccch
Confidence            3677788888888888877776 2333    346666677777778888877654311  1  11000 11111223333


Q ss_pred             hHhcCCHHHHHHHHhcCCC---------CCcchHHHHHHHHHhcCC--------------------hHHHHHHHHHHH--
Q 041384          378 YSKCGSITSSHQIFNEMAA---------RDFVSWTTLISGYGFHGY--------------------GEEALQLFLEMQ--  426 (580)
Q Consensus       378 ~~~~g~~~~A~~~~~~~~~---------~~~~~~~~l~~~~~~~~~--------------------~~~a~~~~~~~~--  426 (580)
                      +.-.|.+++|.-.-.+-..         .....+..+...|...|+                    ++.|.+.|.+=.  
T Consensus       105 lKv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL~l  184 (639)
T KOG1130|consen  105 LKVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENLEL  184 (639)
T ss_pred             hhhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHHHH
Confidence            3344555555433221111         011233344455543331                    233444443321  


Q ss_pred             --HcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHH---HhhCCCCC-hhHHHHHHHHhhhcCChHHHHHHHHhC---
Q 041384          427 --ESGVEP-DAITVLAILSACNHAGLVKEAETLFNNVM---KEKKIALA-IEHYACYVDLLGKSGKIEDACKVVSTM---  496 (580)
Q Consensus       427 --~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~---  496 (580)
                        +.|-.. -...|..|...|.-.|+++.|+...+.-+   ++.|.... ...+..+..++.-.|+++.|.+.+...   
T Consensus       185 ~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~L  264 (639)
T KOG1130|consen  185 SEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNL  264 (639)
T ss_pred             HHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHH
Confidence              212111 11346666677777889999987766422   23333322 456777888899999999999888754   


Q ss_pred             ----C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh----cC--CCCchHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 041384          497 ----P-MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIE----AE--PENAANYTLLSMVCSESGNWLGAEEVWRVMRA  564 (580)
Q Consensus       497 ----~-~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~----~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (580)
                          + ........-+|.+.|.-..+++.|+....+=+.    ++  .....++.+|+.++...|..++|..+.+.-.+
T Consensus       265 Aielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  265 AIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence                1 112344556777888777888889888776443    22  34666788999999999999999988766544

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.16  E-value=0.013  Score=46.70  Aligned_cols=88  Identities=11%  Similarity=0.022  Sum_probs=49.1

Q ss_pred             HHHhHhcCCHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHH
Q 041384          375 MNMYSKCGSITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVK  451 (580)
Q Consensus       375 ~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~  451 (580)
                      ...+...|++++|..+|+-+..   .+..-|..|..++-..|++++|+..|....... +-|+..+-.+..++...|+.+
T Consensus        42 A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~L~lG~~~  120 (157)
T PRK15363         42 AMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYLACDNVC  120 (157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHHcCCHH
Confidence            3344455666666666655443   133345555556666666666666666666542 124455555666666666666


Q ss_pred             HHHHHHHHHHHh
Q 041384          452 EAETLFNNVMKE  463 (580)
Q Consensus       452 ~a~~~~~~~~~~  463 (580)
                      .|.+.|+.++..
T Consensus       121 ~A~~aF~~Ai~~  132 (157)
T PRK15363        121 YAIKALKAVVRI  132 (157)
T ss_pred             HHHHHHHHHHHH
Confidence            666666665543

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=97.11  E-value=0.074  Score=40.42  Aligned_cols=140  Identities=13%  Similarity=0.102  Sum_probs=88.0

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHH
Q 041384          410 GFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDA  489 (580)
Q Consensus       410 ~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  489 (580)
                      .-.|..++..++..+....   .+..-++.++.-....-+-+-..++++.+=+-..+.| ......++.+|+..|.    
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---SNIKEYNWVICNIIDAADCDYVVETLDSIGKIFDISK-CGNLKRVIECYAKRNK----   84 (161)
T ss_dssp             HHTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-GGG--S-THHHHHHHHHTT-----
T ss_pred             HHhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhhhcCchh-hcchHHHHHHHHHhcc----
Confidence            4467788888888888763   4556667666666666666667777776322111111 1123344555554432    


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCCc
Q 041384          490 CKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGLS  568 (580)
Q Consensus       490 ~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  568 (580)
                                 +.......+..+...|+-++-.+++..+...+..+|.+..-++.+|.+.|+..++.+++.++=+.|++
T Consensus        85 -----------~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   85 -----------LSEYVDLALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             -------------HHHHHHHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             -----------hHHHHHHHHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence                       44456667788889999999999999998877889999999999999999999999999999888874

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.11  E-value=0.011  Score=52.70  Aligned_cols=86  Identities=14%  Similarity=0.147  Sum_probs=50.0

Q ss_pred             hhcCChHHHHHHHHhCC-CCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC---chHHHHHHHHHHhcCCh
Q 041384          481 GKSGKIEDACKVVSTMP-MKPST----RILSSLVSACRIHGRLEVAEMLAHQLIEAEPEN---AANYTLLSMVCSESGNW  552 (580)
Q Consensus       481 ~~~g~~~~A~~~~~~~~-~~p~~----~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~  552 (580)
                      .+.|++++|...|+... ..|+.    ..+..+...|...|++++|...|+.+.+..|++   +.++..++.++...|++
T Consensus       154 ~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~  233 (263)
T PRK10803        154 QDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDT  233 (263)
T ss_pred             HhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCH
Confidence            44566666666666652 22332    344556666666666666666666666655543   33444455666666666


Q ss_pred             HHHHHHHHHHHhCC
Q 041384          553 LGAEEVWRVMRAKG  566 (580)
Q Consensus       553 ~~A~~~~~~~~~~~  566 (580)
                      ++|..+++++.+..
T Consensus       234 ~~A~~~~~~vi~~y  247 (263)
T PRK10803        234 AKAKAVYQQVIKKY  247 (263)
T ss_pred             HHHHHHHHHHHHHC
Confidence            66666666665543

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.07  E-value=0.4  Score=47.98  Aligned_cols=136  Identities=13%  Similarity=0.018  Sum_probs=84.7

Q ss_pred             HCCCCCCHhhHHH-----HHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcC---CHHHHHHHHhcCCC
Q 041384          122 LCGFVLKAELLAG-----IISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCH---HWLIALRVFEQMVI  193 (580)
Q Consensus       122 ~~~~~~~~~~~~~-----ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~  193 (580)
                      .-|+..+..-|..     ++..+...+.+..|.++-..+...-  .....++.....-+.+..   +-+.+..+-+++..
T Consensus       425 ~~gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~--~~~~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~  502 (829)
T KOG2280|consen  425 RIGIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPE--SQGDRVLLEWARRKIKQSDKMDEEVLDKIDEKLSA  502 (829)
T ss_pred             ccCccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCcc--ccccHHHHHHHHHHHhccCccchHHHHHHHHHhcc
Confidence            4567777666654     4677778888889988888764322  112566666666666653   33344455555544


Q ss_pred             --CCeehHHHHHHHHHhcCChhHHHHHHHHHHHcC----CCCCHHHHHHHHHHHhcCCCchhHHHHHHHHHH
Q 041384          194 --RNEVSWTAMISGCIDSQNYDTGIDLFRAMQREG----VKPTRVTLTIVLLACAELRDLRNGKAIHGYAYC  259 (580)
Q Consensus       194 --~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~----~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  259 (580)
                        ....+|..+.+.....|+++-|..+++.=...+    +-.+..-+...+.-+...|+.+....++-.+..
T Consensus       503 ~~~~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~  574 (829)
T KOG2280|consen  503 KLTPGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKN  574 (829)
T ss_pred             cCCCceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHH
Confidence              456678888888888999999988876422211    111233455566667777777777666655543

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.07  E-value=0.14  Score=43.63  Aligned_cols=86  Identities=13%  Similarity=0.068  Sum_probs=47.9

Q ss_pred             HHHHHHHhhhcCChHHHHHHHHhCC-------CCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhcC----CCCchHHH
Q 041384          473 YACYVDLLGKSGKIEDACKVVSTMP-------MKPST-RILSSLVSACRIHGRLEVAEMLAHQLIEAE----PENAANYT  540 (580)
Q Consensus       473 ~~~l~~~~~~~g~~~~A~~~~~~~~-------~~p~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~----~~~~~~~~  540 (580)
                      +..+...|.+..++++|-..+.+-.       ..|+. ..+...|-.+.-..|+..|+..++.-.+..    |.+..+..
T Consensus       153 ~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~le  232 (308)
T KOG1585|consen  153 YGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLE  232 (308)
T ss_pred             HHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHH
Confidence            3334455566666666555444331       11222 234444555555667777777777655432    55666666


Q ss_pred             HHHHHHHhcCChHHHHHHH
Q 041384          541 LLSMVCSESGNWLGAEEVW  559 (580)
Q Consensus       541 ~l~~~~~~~g~~~~A~~~~  559 (580)
                      .|+.+| ..|+.+++..++
T Consensus       233 nLL~ay-d~gD~E~~~kvl  250 (308)
T KOG1585|consen  233 NLLTAY-DEGDIEEIKKVL  250 (308)
T ss_pred             HHHHHh-ccCCHHHHHHHH
Confidence            777666 667777766554

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=97.06  E-value=0.27  Score=45.95  Aligned_cols=448  Identities=13%  Similarity=0.083  Sum_probs=229.8

Q ss_pred             HHHHHHHHhCCCCChhHHHHHHHHHHcCCCchHHHHhhccCCCCC---ccchHHHHHHHHhCCChhHHHHHHHHHHHCCC
Q 041384           49 QLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEMPYRD---TISWNSIINCFTQNGFYVRSLEMFREMYLCGF  125 (580)
Q Consensus        49 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  125 (580)
                      ++-+.+.+.  |.|...|-.|+.-|...|..++..+++++|..|-   ...|..-+.+=....++.....+|.+......
T Consensus        30 rLRerIkdN--PtnI~S~fqLiq~~~tq~s~~~~re~yeq~~~pfp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~l  107 (660)
T COG5107          30 RLRERIKDN--PTNILSYFQLIQYLETQESMDAEREMYEQLSSPFPIMEHAWRLYMSGELARKDFRSVESLFGRCLKKSL  107 (660)
T ss_pred             HHHHHhhcC--chhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCCCccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhhc
Confidence            444444433  6788899999999999999999999999998663   44677777777777889999999998887644


Q ss_pred             CCCHhhHHHHHHHhhccCCc------HHHHHHHHHHHHhCCCCC-chHHHhHHHHH---hHhcCCH------HHHHHHHh
Q 041384          126 VLKAELLAGIISLCSQIGEL------ELGRQIHALVIVDGSFEL-SVFVSTALLDL---YSKCHHW------LIALRVFE  189 (580)
Q Consensus       126 ~~~~~~~~~ll~~~~~~~~~------~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~---~~~~~~~------~~a~~~~~  189 (580)
                        +...|..-+.-..+.+..      ....+.++-.+.--.+.| +...|+..+..   .-..|.|      |...+.+.
T Consensus       108 --~ldLW~lYl~YIRr~n~~~tGq~r~~i~~ayefv~~~~~~e~~s~~~W~ey~~fle~~~~~~kwEeQqrid~iR~~Y~  185 (660)
T COG5107         108 --NLDLWMLYLEYIRRVNNLITGQKRFKIYEAYEFVLGCAIFEPQSENYWDEYGLFLEYIEELGKWEEQQRIDKIRNGYM  185 (660)
T ss_pred             --cHhHHHHHHHHHHhhCcccccchhhhhHHHHHHHHhcccccccccchHHHHHHHHHhccccccHHHHHHHHHHHHHHH
Confidence              444555444433332211      112233333333111333 23334443332   2223333      34444454


Q ss_pred             cCCC-C--C-------eehHHHHHHHHH-h------cCChhHHHHHHHHHHH--cCCCC----CHHHHHHHHHHHhcCCC
Q 041384          190 QMVI-R--N-------EVSWTAMISGCI-D------SQNYDTGIDLFRAMQR--EGVKP----TRVTLTIVLLACAELRD  246 (580)
Q Consensus       190 ~~~~-~--~-------~~~~~~li~~~~-~------~~~~~~a~~~~~~m~~--~~~~p----~~~~~~~ll~~~~~~~~  246 (580)
                      ++.. |  |       -..|..=++... +      .--+-.|.+.++++..  +|+..    +..|++-+-+.    . 
T Consensus       186 ral~tP~~nleklW~dy~~fE~e~N~~TarKfvge~sp~ym~ar~~yqe~~nlt~Gl~v~~~~~~Rt~nK~~r~----s-  260 (660)
T COG5107         186 RALQTPMGNLEKLWKDYENFELELNKITARKFVGETSPIYMSARQRYQEIQNLTRGLSVKNPINLRTANKAART----S-  260 (660)
T ss_pred             HHHcCccccHHHHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhccccccCchhhhhhcccccc----c-
Confidence            4422 1  1       011111111000 0      0012233444444332  12211    11222211110    0 


Q ss_pred             chhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHhCCChhHHHHHHHH
Q 041384          247 LRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKV---KDVVIWSSIIRGYSQSGDLSEAMKLFSR  323 (580)
Q Consensus       247 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~  323 (580)
                      ...=....+.-.+.|+.....+...-|..             +++....   -....|-.--.-+...++-+.|+.....
T Consensus       261 ~S~WlNwIkwE~en~l~L~~~~~~qRi~y-------------~~~q~~~y~~~~~evw~dys~Y~~~isd~q~al~tv~r  327 (660)
T COG5107         261 DSNWLNWIKWEMENGLKLGGRPHEQRIHY-------------IHNQILDYFYYAEEVWFDYSEYLIGISDKQKALKTVER  327 (660)
T ss_pred             cchhhhHhhHhhcCCcccCCCcHHHHHHH-------------HHHHHHHHhhhhHHHHHHHHHHHhhccHHHHHHHHHHh
Confidence            00000111111222222222111111111             1111100   0112222222334455666677666554


Q ss_pred             HHHCCCCCCHHHHHHHHHHhh-ccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhH---------hcCCHHHHHHHHhc
Q 041384          324 MRLERIEPNSVTLLAILSSCT-RQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYS---------KCGSITSSHQIFNE  393 (580)
Q Consensus       324 m~~~~~~p~~~~~~~ll~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---------~~g~~~~A~~~~~~  393 (580)
                      -...  .|+   .+..+.-|. -..+-+.....|+....           .|.+-|.         ..|+++.-.+++-+
T Consensus       328 g~~~--sps---L~~~lse~yel~nd~e~v~~~fdk~~q-----------~L~r~ys~~~s~~~s~~D~N~e~~~Ell~k  391 (660)
T COG5107         328 GIEM--SPS---LTMFLSEYYELVNDEEAVYGCFDKCTQ-----------DLKRKYSMGESESASKVDNNFEYSKELLLK  391 (660)
T ss_pred             cccC--CCc---hheeHHHHHhhcccHHHHhhhHHHHHH-----------HHHHHHhhhhhhhhccccCCccccHHHHHH
Confidence            3221  333   222233232 22333333333333221           0111110         01223222222221


Q ss_pred             CCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhH
Q 041384          394 MAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESG-VEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEH  472 (580)
Q Consensus       394 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  472 (580)
                      -..+=...|..++..-.+....+.|..+|.+..+.| +.++...++.++.-++ .|+...|..+|+--+.  .++.+..-
T Consensus       392 r~~k~t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~--~f~d~~~y  468 (660)
T COG5107         392 RINKLTFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLL--KFPDSTLY  468 (660)
T ss_pred             HHhhhhhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHH--hCCCchHH
Confidence            112334567788888888888899999999999988 5667788888887554 6788899999997665  23333333


Q ss_pred             HHHHHHHhhhcCChHHHHHHHHhCC--CCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCch
Q 041384          473 YACYVDLLGKSGKIEDACKVVSTMP--MKPS--TRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAA  537 (580)
Q Consensus       473 ~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~  537 (580)
                      -+..+.-+.+.++-+.|..+|+...  +..+  ...|..++.--..-|+...+..+-+++.+..|....
T Consensus       469 ~~kyl~fLi~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~~pQen~  537 (660)
T COG5107         469 KEKYLLFLIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRELVPQENL  537 (660)
T ss_pred             HHHHHHHHHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHHcCcHhH
Confidence            4556677788999999999998652  2223  468888888888999999999998998888876433

>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=97.06  E-value=0.0027  Score=51.51  Aligned_cols=70  Identities=24%  Similarity=0.261  Sum_probs=55.1

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHh-----CCCccCCc
Q 041384          503 RILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRA-----KGLSKSYG  572 (580)
Q Consensus       503 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~  572 (580)
                      .....++..+...|++++|+..++++...+|.+...|..++.+|...|+..+|.+.|+++.+     .|+.|+|.
T Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~  137 (146)
T PF03704_consen   63 DALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPE  137 (146)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HH
T ss_pred             HHHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHH
Confidence            34566777788999999999999999999999999999999999999999999999988743     47776654

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.05  E-value=0.28  Score=45.99  Aligned_cols=448  Identities=11%  Similarity=0.062  Sum_probs=202.3

Q ss_pred             CCCchhhHHHHHHHHHccCCCCCCCcch------HHHHHHhhcccchhHHHHHHHHHHHHhCCCCChhHHHHHHHHH--H
Q 041384            3 SKHFYEQTLHLYKQELHPSGLYSNTAIL------PSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMY--A   74 (580)
Q Consensus         3 ~~~~~~~a~~~~~~~~~~~g~~~~~~~~------~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~--~   74 (580)
                      ++++..+|.++| .+.... +..++..+      ..++.++- ..+. +.....+....+.-  | ...|-.|..++  -
T Consensus        18 kq~~~~esEkif-skI~~e-~~~~~f~lkeEvl~grilnAff-l~nl-d~Me~~l~~l~~~~--~-~s~~l~LF~~L~~Y   90 (549)
T PF07079_consen   18 KQKKFQESEKIF-SKIYDE-KESSPFLLKEEVLGGRILNAFF-LNNL-DLMEKQLMELRQQF--G-KSAYLPLFKALVAY   90 (549)
T ss_pred             HHhhhhHHHHHH-HHHHHH-hhcchHHHHHHHHhhHHHHHHH-HhhH-HHHHHHHHHHHHhc--C-CchHHHHHHHHHHH
Confidence            568889999999 665443 12233333      34455554 3344 55555555555442  2 33444444443  5


Q ss_pred             cCCCchHHHHhhccCCCC------------------CccchHHHHHHHHhCCChhHHHHHHHHHHHCCC----CCCHhhH
Q 041384           75 KFSKPESAYQLFDEMPYR------------------DTISWNSIINCFTQNGFYVRSLEMFREMYLCGF----VLKAELL  132 (580)
Q Consensus        75 ~~g~~~~A~~~~~~~~~~------------------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~----~~~~~~~  132 (580)
                      +.+.+..|.+.|......                  |-..-+..+..+...|++.++..+++++.++=.    ..+..+|
T Consensus        91 ~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~y  170 (549)
T PF07079_consen   91 KQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMY  170 (549)
T ss_pred             HhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHH
Confidence            667888888887654311                  111224556777888888888888888766433    3677777


Q ss_pred             HHHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCCCCeehHHHHHHHHHh--cC
Q 041384          133 AGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCID--SQ  210 (580)
Q Consensus       133 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~--~~  210 (580)
                      +.++-.+.+.        .|-++.+......-.. |-.++-.|.+.=+.-++.. +++. .|.......++....-  ..
T Consensus       171 d~~vlmlsrS--------YfLEl~e~~s~dl~pd-yYemilfY~kki~~~d~~~-Y~k~-~peeeL~s~imqhlfi~p~e  239 (549)
T PF07079_consen  171 DRAVLMLSRS--------YFLELKESMSSDLYPD-YYEMILFYLKKIHAFDQRP-YEKF-IPEEELFSTIMQHLFIVPKE  239 (549)
T ss_pred             HHHHHHHhHH--------HHHHHHHhcccccChH-HHHHHHHHHHHHHHHhhch-HHhh-CcHHHHHHHHHHHHHhCCHh
Confidence            7755554432        2222222110111111 2222333322111111000 0000 0111111112211111  11


Q ss_pred             ChhHHHHHHHHHHHcCCCCCHHHH-HHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHH
Q 041384          211 NYDTGIDLFRAMQREGVKPTRVTL-TIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARII  289 (580)
Q Consensus       211 ~~~~a~~~~~~m~~~~~~p~~~~~-~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~  289 (580)
                      +..--.+++......-+.|+.... ..+...+.+  +.+++..+-+.+....                            
T Consensus       240 ~l~~~mq~l~~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~----------------------------  289 (549)
T PF07079_consen  240 RLPPLMQILENWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSK----------------------------  289 (549)
T ss_pred             hccHHHHHHHHHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHh----------------------------
Confidence            122223333333333344443222 122222222  3333333322222111                            


Q ss_pred             HhhCCCCChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHH-------HHhh-c---cCChHHHHHHHHH
Q 041384          290 FERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAIL-------SSCT-R---QSFLSHGLGVHCY  358 (580)
Q Consensus       290 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll-------~~~~-~---~~~~~~a~~~~~~  358 (580)
                      .+...+.=+.++..++...++.++...|.+.+.-+.--  .|+...-..++       +..+ .   ..+...-+.+|+.
T Consensus       290 i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~l--dp~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~  367 (549)
T PF07079_consen  290 IEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKIL--DPRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEE  367 (549)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhc--CCcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHH
Confidence            00111112345667777778888888888777766533  33332211111       1111 1   1112222334444


Q ss_pred             HHHhCCCCchhHHHHHH---HHhHhcCC-HHHHHHHHhcCCC---CCcchHHHHH----HHHHh---cCChHHHHHHHHH
Q 041384          359 IMKAGLNFDVSIGNALM---NMYSKCGS-ITSSHQIFNEMAA---RDFVSWTTLI----SGYGF---HGYGEEALQLFLE  424 (580)
Q Consensus       359 ~~~~~~~~~~~~~~~l~---~~~~~~g~-~~~A~~~~~~~~~---~~~~~~~~l~----~~~~~---~~~~~~a~~~~~~  424 (580)
                      .....+.- ......|+   .-+.+.|. -++|..+++.+.+   .|..+-|...    ..|..   ...+.+-+.+-+-
T Consensus       368 ~qs~DiDr-qQLvh~L~~~Ak~lW~~g~~dekalnLLk~il~ft~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~f  446 (549)
T PF07079_consen  368 IQSYDIDR-QQLVHYLVFGAKHLWEIGQCDEKALNLLKLILQFTNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDF  446 (549)
T ss_pred             HHhhcccH-HHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHH
Confidence            44333211 11111222   22334444 6667777776654   2332222211    11211   1233344444444


Q ss_pred             HHHcCCCCCH----HHHHHHHHH--HhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCCC
Q 041384          425 MQESGVEPDA----ITVLAILSA--CNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPM  498 (580)
Q Consensus       425 ~~~~g~~p~~----~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  498 (580)
                      +.+.|++|-.    ..-+.|.++  +...|++.++.-.-..+.   .+.|++.+|..+.-++....++++|..++..++ 
T Consensus       447 i~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~---~iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~LP-  522 (549)
T PF07079_consen  447 ITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLT---KIAPSPQAYRLLGLCLMENKRYQEAWEYLQKLP-  522 (549)
T ss_pred             HHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHH---HhCCcHHHHHHHHHHHHHHhhHHHHHHHHHhCC-
Confidence            5566766622    333344433  455777777766555532   366777777777777777777777777777763 


Q ss_pred             CCCHHHHH
Q 041384          499 KPSTRILS  506 (580)
Q Consensus       499 ~p~~~~~~  506 (580)
                       |+...++
T Consensus       523 -~n~~~~d  529 (549)
T PF07079_consen  523 -PNERMRD  529 (549)
T ss_pred             -CchhhHH
Confidence             4544443

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.04  E-value=0.21  Score=44.35  Aligned_cols=58  Identities=10%  Similarity=0.119  Sum_probs=39.5

Q ss_pred             HHHHHHhCCChhHHHHHHHHHHHCCCCCCHH-H---HHHHHHHhhccCChHHHHHHHHHHHHhC
Q 041384          304 IIRGYSQSGDLSEAMKLFSRMRLERIEPNSV-T---LLAILSSCTRQSFLSHGLGVHCYIMKAG  363 (580)
Q Consensus       304 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~---~~~ll~~~~~~~~~~~a~~~~~~~~~~~  363 (580)
                      ....+...|++++|...|+++...-  |+.. .   .-.+..++.+.++++.|...++...+..
T Consensus        38 ~A~~~~~~g~y~~Ai~~f~~l~~~y--P~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~   99 (243)
T PRK10866         38 TAQQKLQDGNWKQAITQLEALDNRY--PFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN   99 (243)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC
Confidence            3444567788888888888887653  3322 2   2345567778888888888888877743

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.04  E-value=0.0033  Score=43.68  Aligned_cols=65  Identities=17%  Similarity=0.199  Sum_probs=50.4

Q ss_pred             HHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHH
Q 041384          478 DLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLL  542 (580)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l  542 (580)
                      ..|.+.+++++|.++++.+ ...| ++..|......+.+.|++++|.+.++++.+..|+++......
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~~~~~~~   69 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSPDDPDARALR   69 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcHHHHHHH
Confidence            4567788888888888877 3334 666777888888899999999999999999998877754443

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.01  E-value=0.038  Score=48.88  Aligned_cols=110  Identities=18%  Similarity=0.096  Sum_probs=85.1

Q ss_pred             CCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcC---ChHHHHHHHHhC-CCCC-CHHHH
Q 041384          431 EPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSG---KIEDACKVVSTM-PMKP-STRIL  505 (580)
Q Consensus       431 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~-~~~p-~~~~~  505 (580)
                      +-|...|..|...|...|+.+.|..-|.+..+-.|-.  +..+..+..++..+.   ...++..+|+++ ..+| ++...
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 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDN--PEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRAL  230 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCC--HHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHH
Confidence            3377899999999999999999999999977644443  445566666554333   467888999988 3444 77788


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHH
Q 041384          506 SSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLS  543 (580)
Q Consensus       506 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~  543 (580)
                      ..|...+...|++.+|...++.|.+..|++.. +..++
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~~-rr~~i  267 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLLPADDP-RRSLI  267 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcCCCCCc-hHHHH
Confidence            88888999999999999999999999988776 44443

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.99  E-value=0.022  Score=52.36  Aligned_cols=95  Identities=15%  Similarity=0.073  Sum_probs=80.0

Q ss_pred             hHHHHHHHHhhhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHh
Q 041384          471 EHYACYVDLLGKSGKIEDACKVVSTM-P-MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSE  548 (580)
Q Consensus       471 ~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~  548 (580)
                      .++..+.-+|.+.+++.+|+...++. . .++|...+-.-..+|...|+++.|+..|+++++..|.|..+-..|+.+-.+
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l~~k  337 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKLKQK  337 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHH
Confidence            35677888899999999999988877 3 456788888888999999999999999999999999999999999988777


Q ss_pred             cCChHH-HHHHHHHHHhC
Q 041384          549 SGNWLG-AEEVWRVMRAK  565 (580)
Q Consensus       549 ~g~~~~-A~~~~~~~~~~  565 (580)
                      ...+++ ..++|..|-..
T Consensus       338 ~~~~~~kekk~y~~mF~k  355 (397)
T KOG0543|consen  338 IREYEEKEKKMYANMFAK  355 (397)
T ss_pred             HHHHHHHHHHHHHHHhhc
Confidence            766665 47888888653

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=96.98  E-value=0.009  Score=49.98  Aligned_cols=72  Identities=11%  Similarity=0.057  Sum_probs=35.8

Q ss_pred             CChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcC----------------CCchhHHHHHHHHHHhcCCCchhHHHHHH
Q 041384          210 QNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAEL----------------RDLRNGKAIHGYAYCCGFDFDHHLSAALM  273 (580)
Q Consensus       210 ~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~----------------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  273 (580)
                      |..+=...-++.|.+-|+.-|..+|+.|++.+=+.                .+-+-+..++++|...|+-||..++..++
T Consensus        66 GHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll  145 (228)
T PF06239_consen   66 GHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAIDLLEQMENNGVMPDKETEQMLL  145 (228)
T ss_pred             ChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHH
Confidence            33444444455555555555555555555544331                12233555555555555555555555555


Q ss_pred             HHHHHcCC
Q 041384          274 HMYCECTE  281 (580)
Q Consensus       274 ~~~~~~~~  281 (580)
                      +.+++.+.
T Consensus       146 ~iFG~~s~  153 (228)
T PF06239_consen  146 NIFGRKSH  153 (228)
T ss_pred             HHhccccH
Confidence            55554433

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.96  E-value=0.092  Score=45.26  Aligned_cols=50  Identities=18%  Similarity=0.177  Sum_probs=39.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCchH---HHHHHHHHHhcCChHHHHH
Q 041384          508 LVSACRIHGRLEVAEMLAHQLIEAEPENAAN---YTLLSMVCSESGNWLGAEE  557 (580)
Q Consensus       508 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~---~~~l~~~~~~~g~~~~A~~  557 (580)
                      +..-|.+.|.+..|..-++.+++..|+++..   ...++.+|.+.|..+.|..
T Consensus       147 ia~~Y~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~~  199 (203)
T PF13525_consen  147 IARFYYKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAADT  199 (203)
T ss_dssp             HHHHHHCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHHH
Confidence            5566889999999999999999999886554   6778889999999885543

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.94  E-value=0.017  Score=49.50  Aligned_cols=138  Identities=12%  Similarity=0.036  Sum_probs=97.5

Q ss_pred             chHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHH----
Q 041384          400 VSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYAC----  475 (580)
Q Consensus       400 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~----  475 (580)
                      ..-+.++..+.-.|.+.-....+.+.++...+-++.....|++.-.+.|+.+.|...|++.-+.. -..+...++.    
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 RVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVT-QKLDGLQGKIMVLM  256 (366)
T ss_pred             HHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHH-hhhhccchhHHHHh
Confidence            45566777777788888889999999987545577778888888899999999999999744433 2333333333    


Q ss_pred             -HHHHhhhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchH
Q 041384          476 -YVDLLGKSGKIEDACKVVSTMP-MKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAAN  538 (580)
Q Consensus       476 -l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~  538 (580)
                       ....|.-+.++.+|...++++. ..| ++...|.-.-...-.|+...|++.++.+.+..|.....
T Consensus       257 n~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~~~l~  322 (366)
T KOG2796|consen  257 NSAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDPRHYLH  322 (366)
T ss_pred             hhhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCCccchh
Confidence             3344566778889999998884 233 44444544444445788999999999999998874443

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.86  E-value=0.12  Score=44.52  Aligned_cols=126  Identities=11%  Similarity=0.041  Sum_probs=60.0

Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC--------CCCCHHHHHHHHH
Q 041384          439 AILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP--------MKPSTRILSSLVS  510 (580)
Q Consensus       439 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--------~~p~~~~~~~l~~  510 (580)
                      .++..+.-.|.+.-....+.++++ ...+.++.....|+..-.+.||.+.|...|++.+        .+-...+......
T Consensus       182 ~~~~~llG~kEy~iS~d~~~~vi~-~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~  260 (366)
T KOG2796|consen  182 SMANCLLGMKEYVLSVDAYHSVIK-YYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAF  260 (366)
T ss_pred             HHHHHHhcchhhhhhHHHHHHHHH-hCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhh
Confidence            334444444555555555555333 3333344444555555555555555555555331        1111122222223


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 041384          511 ACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAK  565 (580)
Q Consensus       511 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (580)
                      .+.-++++..|...+.+..+.+|.++...+.-+-++.-.|+..+|++.++.|...
T Consensus       261 i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  261 LHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             heecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            3444455555555555555555555555555555555555555555555555443

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.79  E-value=0.69  Score=46.40  Aligned_cols=108  Identities=16%  Similarity=0.071  Sum_probs=74.9

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 041384          436 TVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIH  515 (580)
Q Consensus       436 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~  515 (580)
                      +.+--+.-+...|+..+|.++-.+ .    -.||...|..-+.+++..+++++-+++-+..+   ++.-|.-...+|.+.
T Consensus       686 Sl~dTv~~li~~g~~k~a~ql~~~-F----kipdKr~~wLk~~aLa~~~kweeLekfAkskk---sPIGy~PFVe~c~~~  757 (829)
T KOG2280|consen  686 SLHDTVTTLILIGQNKRAEQLKSD-F----KIPDKRLWWLKLTALADIKKWEELEKFAKSKK---SPIGYLPFVEACLKQ  757 (829)
T ss_pred             cHHHHHHHHHHccchHHHHHHHHh-c----CCcchhhHHHHHHHHHhhhhHHHHHHHHhccC---CCCCchhHHHHHHhc
Confidence            344445556667777777777665 2    24777777777888888888888877777664   245566677788888


Q ss_pred             CCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHH
Q 041384          516 GRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVW  559 (580)
Q Consensus       516 ~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  559 (580)
                      |+.++|...+-+.-.        +...+.+|.+.|++.+|.+.-
T Consensus       758 ~n~~EA~KYiprv~~--------l~ekv~ay~~~~~~~eAad~A  793 (829)
T KOG2280|consen  758 GNKDEAKKYIPRVGG--------LQEKVKAYLRVGDVKEAADLA  793 (829)
T ss_pred             ccHHHHhhhhhccCC--------hHHHHHHHHHhccHHHHHHHH
Confidence            888888777655422        225677788888888887653

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.75  E-value=0.45  Score=43.73  Aligned_cols=192  Identities=15%  Similarity=0.121  Sum_probs=106.3

Q ss_pred             HHHHHHHHHH--cCCCchHHHHhhccCC---CCCccchHHHHH--HHHhCCChhHHHHHHHHHHHCCCCCCHhh----HH
Q 041384           65 ISNSLISMYA--KFSKPESAYQLFDEMP---YRDTISWNSIIN--CFTQNGFYVRSLEMFREMYLCGFVLKAEL----LA  133 (580)
Q Consensus        65 ~~~~l~~~~~--~~g~~~~A~~~~~~~~---~~~~~~~~~li~--~~~~~~~~~~a~~~~~~m~~~~~~~~~~~----~~  133 (580)
                      .|.+|-.++.  -.|+-..|.++-.+-.   ..|....-.|+.  +-.-.|+++.|.+-|+.|..     |+.|    ..
T Consensus        84 gyqALStGliAagAGda~lARkmt~~~~~llssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~-----dPEtRllGLR  158 (531)
T COG3898          84 GYQALSTGLIAAGAGDASLARKMTARASKLLSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLD-----DPETRLLGLR  158 (531)
T ss_pred             HHHHHhhhhhhhccCchHHHHHHHHHHHhhhhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhc-----ChHHHHHhHH
Confidence            3455555443  3466666666554432   234444434443  23346888888888888865     3333    23


Q ss_pred             HHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcC-----CCCCeeh--HHHHHHHH
Q 041384          134 GIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQM-----VIRNEVS--WTAMISGC  206 (580)
Q Consensus       134 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-----~~~~~~~--~~~li~~~  206 (580)
                      .|.-...+.|+.+.|++.-+.....-  +.-...+...+...+..|+|+.|+++++.-     .+++..-  -..|+.+-
T Consensus       159 gLyleAqr~GareaAr~yAe~Aa~~A--p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAk  236 (531)
T COG3898         159 GLYLEAQRLGAREAARHYAERAAEKA--PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAK  236 (531)
T ss_pred             HHHHHHHhcccHHHHHHHHHHHHhhc--cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHH
Confidence            33333456778888877777766653  444566777778888888888888887754     2233221  11122111


Q ss_pred             H---hcCChhHHHHHHHHHHHcCCCCCHHHH-HHHHHHHhcCCCchhHHHHHHHHHHhcCCCc
Q 041384          207 I---DSQNYDTGIDLFRAMQREGVKPTRVTL-TIVLLACAELRDLRNGKAIHGYAYCCGFDFD  265 (580)
Q Consensus       207 ~---~~~~~~~a~~~~~~m~~~~~~p~~~~~-~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  265 (580)
                      .   -.-+...|.+.-.+..  .+.||..-- .....++.+.|+..++-.+++.+-+....|+
T Consensus       237 A~s~ldadp~~Ar~~A~~a~--KL~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~  297 (531)
T COG3898         237 AMSLLDADPASARDDALEAN--KLAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPD  297 (531)
T ss_pred             HHHHhcCChHHHHHHHHHHh--hcCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChH
Confidence            1   1123444444433322  245554332 2334566777777777777777777665554

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.72  E-value=0.73  Score=45.77  Aligned_cols=170  Identities=9%  Similarity=-0.023  Sum_probs=92.5

Q ss_pred             CCChhHHHHHHHHHHcCCCchHHHHhhccCCC-CCccchH--------HH--HHHHHhCCChhHHHHHHHHHHHCCCCCC
Q 041384           60 DADPVISNSLISMYAKFSKPESAYQLFDEMPY-RDTISWN--------SI--INCFTQNGFYVRSLEMFREMYLCGFVLK  128 (580)
Q Consensus        60 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~--------~l--i~~~~~~~~~~~a~~~~~~m~~~~~~~~  128 (580)
                      .|-+..|..|...-...-.++.|+..|-+... +......        .+  ...-.--|++++|.++|-+|-+++    
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~~~g~feeaek~yld~drrD----  764 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISAFYGEFEEAEKLYLDADRRD----  764 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhhhhcchhHhhhhhhccchhh----
Confidence            57788888887777776777788777765431 1111100        01  111223578888888888776653    


Q ss_pred             HhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCC----chHHHhHHHHHhHhcCCHHHHHHHHhcCCCCCeehHHHHHH
Q 041384          129 AELLAGIISLCSQIGELELGRQIHALVIVDGSFEL----SVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMIS  204 (580)
Q Consensus       129 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~  204 (580)
                           ..+....+.||+-...++++.    |+-..    -...++.+.+.+.....|++|.+.+..-..     -...+.
T Consensus       765 -----LAielr~klgDwfrV~qL~r~----g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~-----~e~~~e  830 (1189)
T KOG2041|consen  765 -----LAIELRKKLGDWFRVYQLIRN----GGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGD-----TENQIE  830 (1189)
T ss_pred             -----hhHHHHHhhhhHHHHHHHHHc----cCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc-----hHhHHH
Confidence                 234555566777666555432    21111    134677777777777777777777765422     123345


Q ss_pred             HHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHH
Q 041384          205 GCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKA  252 (580)
Q Consensus       205 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~  252 (580)
                      ++.+...+++-..+...+.     -+....-.+...+.+.|.-++|.+
T Consensus       831 cly~le~f~~LE~la~~Lp-----e~s~llp~~a~mf~svGMC~qAV~  873 (1189)
T KOG2041|consen  831 CLYRLELFGELEVLARTLP-----EDSELLPVMADMFTSVGMCDQAVE  873 (1189)
T ss_pred             HHHHHHhhhhHHHHHHhcC-----cccchHHHHHHHHHhhchHHHHHH
Confidence            5555555554444443332     233333344445555555544443

>PRK11906 transcriptional regulator; Provisional

Probab=96.71  E-value=0.039  Score=52.20  Aligned_cols=143  Identities=10%  Similarity=0.027  Sum_probs=72.3

Q ss_pred             ChHHHHHHHHHHHH-cCCCCCH-HHHHHHHHHHhcc---------CCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhh
Q 041384          414 YGEEALQLFLEMQE-SGVEPDA-ITVLAILSACNHA---------GLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGK  482 (580)
Q Consensus       414 ~~~~a~~~~~~~~~-~g~~p~~-~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  482 (580)
                      ..+.|+.+|.+... ..+.|+- ..|..+..++...         .+..+|.++.+++++  --+-|......+..++.-
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAve--ld~~Da~a~~~~g~~~~~  350 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSD--ITTVDGKILAIMGLITGL  350 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHh--cCCCCHHHHHHHHHHHHh
Confidence            34567777777762 1245543 4555554443321         123334444444332  122334445555555555


Q ss_pred             cCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchH--HHHHHHHHHhcCChHHHHHH
Q 041384          483 SGKIEDACKVVSTM-PMKPS-TRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAAN--YTLLSMVCSESGNWLGAEEV  558 (580)
Q Consensus       483 ~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~--~~~l~~~~~~~g~~~~A~~~  558 (580)
                      .|+++.|...|++. ...|| ...|......+.-.|+.++|.+.++++.+++|....+  ....++.|+. ...+.|+.+
T Consensus       351 ~~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~~-~~~~~~~~~  429 (458)
T PRK11906        351 SGQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKECVDMYVP-NPLKNNIKL  429 (458)
T ss_pred             hcchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHHHHHHHcC-CchhhhHHH
Confidence            66666666666666 24443 3344445555555666666666666666666653332  3333334443 334455554


Q ss_pred             H
Q 041384          559 W  559 (580)
Q Consensus       559 ~  559 (580)
                      +
T Consensus       430 ~  430 (458)
T PRK11906        430 Y  430 (458)
T ss_pred             H
Confidence            4

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.69  E-value=0.5  Score=43.45  Aligned_cols=243  Identities=14%  Similarity=0.139  Sum_probs=152.3

Q ss_pred             hCCChhHHHHHHHHHHHCCCCCCH--HHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHH
Q 041384          310 QSGDLSEAMKLFSRMRLERIEPNS--VTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSS  387 (580)
Q Consensus       310 ~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  387 (580)
                      -.|+++.|.+-|+.|...   |..  -.+..|.-...+.|+.+.|.++-+..-... +.-.-...+.+...+..|+++.|
T Consensus       132 ~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~A  207 (531)
T COG3898         132 LEGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGA  207 (531)
T ss_pred             hcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHH
Confidence            457888888888887632   211  123334444456777777777776665543 22344556777888888888888


Q ss_pred             HHHHhcCCC-----CCcc--hHHHHHHHHH---hcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhccCCHHHHHHH
Q 041384          388 HQIFNEMAA-----RDFV--SWTTLISGYG---FHGYGEEALQLFLEMQESGVEPDAI-TVLAILSACNHAGLVKEAETL  456 (580)
Q Consensus       388 ~~~~~~~~~-----~~~~--~~~~l~~~~~---~~~~~~~a~~~~~~~~~~g~~p~~~-~~~~l~~~~~~~~~~~~a~~~  456 (580)
                      +++++.-..     +++.  .--.|+.+-.   -.-+...|...-.+..+  +.||.. .-.....++.+.|+..++-.+
T Consensus       208 lkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~i  285 (531)
T COG3898         208 LKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKI  285 (531)
T ss_pred             HHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhH
Confidence            888876543     3332  1112222211   11245556655555554  577763 344556778999999999999


Q ss_pred             HHHHHHhhCCCCChhHHHHHHHHhhhcCChHHH--HH--HHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 041384          457 FNNVMKEKKIALAIEHYACYVDLLGKSGKIEDA--CK--VVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAE  532 (580)
Q Consensus       457 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A--~~--~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  532 (580)
                      ++.+-+   ..|.+.++.  ...+.+.|+....  .+  -+..|+ +.+..+...+..+....|++..|..-.+.+.+..
T Consensus       286 lE~aWK---~ePHP~ia~--lY~~ar~gdta~dRlkRa~~L~slk-~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~~  359 (531)
T COG3898         286 LETAWK---AEPHPDIAL--LYVRARSGDTALDRLKRAKKLESLK-PNNAESSLAVAEAALDAGEFSAARAKAEAAAREA  359 (531)
T ss_pred             HHHHHh---cCCChHHHH--HHHHhcCCCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHhccchHHHHHHHHHHhhhC
Confidence            998654   445554443  3345567764322  11  223332 3466777788888889999999998888888777


Q ss_pred             CCCchHHHHHHHHHHhc-CChHHHHHHHHHHHhC
Q 041384          533 PENAANYTLLSMVCSES-GNWLGAEEVWRVMRAK  565 (580)
Q Consensus       533 ~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~  565 (580)
                      |... +|..|+++-... |+-.++...+-+..+.
T Consensus       360 pres-~~lLlAdIeeAetGDqg~vR~wlAqav~A  392 (531)
T COG3898         360 PRES-AYLLLADIEEAETGDQGKVRQWLAQAVKA  392 (531)
T ss_pred             chhh-HHHHHHHHHhhccCchHHHHHHHHHHhcC
Confidence            7544 477888876555 9999999888776553

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.54  E-value=0.45  Score=41.03  Aligned_cols=59  Identities=19%  Similarity=0.127  Sum_probs=40.4

Q ss_pred             HHHHHHhCCChhHHHHHHHHHHHCCC--CCCHHHHHHHHHHhhccCChHHHHHHHHHHHHh
Q 041384          304 IIRGYSQSGDLSEAMKLFSRMRLERI--EPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKA  362 (580)
Q Consensus       304 l~~~~~~~~~~~~a~~~~~~m~~~~~--~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  362 (580)
                      ....+...|++.+|...|+.+.....  +-.....-.++.++.+.|+++.|...++...+.
T Consensus        11 ~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen   11 KALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             HHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            34456778889999999999876631  112334556777888888888888888887774

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.52  E-value=0.071  Score=41.74  Aligned_cols=89  Identities=16%  Similarity=0.129  Sum_probs=59.6

Q ss_pred             HHhhhcCChHHHHHHHHhCC----CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchH---HHHHHHHHHhc
Q 041384          478 DLLGKSGKIEDACKVVSTMP----MKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAAN---YTLLSMVCSES  549 (580)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~~----~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~---~~~l~~~~~~~  549 (580)
                      ....+.|++++|.+.|+.+.    ..| ....-..++.+|.+.|+++.|...+++.+++.|.++.+   +...+-++.+.
T Consensus        18 ~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~~~~   97 (142)
T PF13512_consen   18 QEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSYYEQ   97 (142)
T ss_pred             HHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHHHHH
Confidence            34456777777877777773    112 33455677888888899999999999999988776554   44444444444


Q ss_pred             CC---------------hHHHHHHHHHHHhCC
Q 041384          550 GN---------------WLGAEEVWRVMRAKG  566 (580)
Q Consensus       550 g~---------------~~~A~~~~~~~~~~~  566 (580)
                      ..               ..+|..-|+++++.-
T Consensus        98 ~~~~~~~~~~~drD~~~~~~A~~~f~~lv~~y  129 (142)
T PF13512_consen   98 DEGSLQSFFRSDRDPTPARQAFRDFEQLVRRY  129 (142)
T ss_pred             hhhHHhhhcccccCcHHHHHHHHHHHHHHHHC
Confidence            44               567777777776644

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.47  E-value=0.039  Score=49.75  Aligned_cols=125  Identities=14%  Similarity=0.086  Sum_probs=69.2

Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHHhhCCCCC----hhHHHHHHHHhhhcCChHHHHHHHHhC-------CCCCC-----
Q 041384          438 LAILSACNHAGLVKEAETLFNNVMKEKKIALA----IEHYACYVDLLGKSGKIEDACKVVSTM-------PMKPS-----  501 (580)
Q Consensus       438 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p~-----  501 (580)
                      .++..++...+.++++++.|+.+++-..-..|    ..++..|...|.+..|.++|.-+..+.       ..+.-     
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            34555666666677777777766553222222    345666666677777766665554443       11111     


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC------CCCchHHHHHHHHHHhcCChHHHHHHHHHH
Q 041384          502 TRILSSLVSACRIHGRLEVAEMLAHQLIEAE------PENAANYTLLSMVCSESGNWLGAEEVWRVM  562 (580)
Q Consensus       502 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  562 (580)
                      ....-.|.-++...|....|.+.-+++.++.      +........++++|-..|+.|.|..-++..
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            1122344455666676666666666655432      334444566677777777777766666554

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.35  E-value=0.019  Score=52.77  Aligned_cols=67  Identities=12%  Similarity=0.013  Sum_probs=61.5

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCCc
Q 041384          502 TRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGLS  568 (580)
Q Consensus       502 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  568 (580)
                      ..+++.+...+.+.+++..|++...+.++.+|+|...+..-+.+|...|+++.|+..|+++.+..+.
T Consensus       257 ~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~  323 (397)
T KOG0543|consen  257 LACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLEPS  323 (397)
T ss_pred             HHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCC
Confidence            3467788888999999999999999999999999999999999999999999999999999886654

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=96.35  E-value=1.2  Score=43.75  Aligned_cols=180  Identities=13%  Similarity=0.106  Sum_probs=98.9

Q ss_pred             chhHHHHHHHHhHhcCCHHHHHHHHhcCCCCC---cchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH-
Q 041384          367 DVSIGNALMNMYSKCGSITSSHQIFNEMAARD---FVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILS-  442 (580)
Q Consensus       367 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~-  442 (580)
                      +...|..-+..-.+.|+.+.+.-+|+...-|-   ...|-..+.-....|+.+-|..++....+-- .|+......+-. 
T Consensus       296 ql~nw~~yLdf~i~~g~~~~~~~l~ercli~cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~-~k~~~~i~L~~a~  374 (577)
T KOG1258|consen  296 QLKNWRYYLDFEITLGDFSRVFILFERCLIPCALYDEFWIKYARWMESSGDVSLANNVLARACKIH-VKKTPIIHLLEAR  374 (577)
T ss_pred             HHHHHHHHhhhhhhcccHHHHHHHHHHHHhHHhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhc-CCCCcHHHHHHHH
Confidence            34455555666666777777777777665541   1233334444444477777776666655542 233222222222 


Q ss_pred             HHhccCCHHHHHHHHHHHHHhhCCCCC-hhHHHHHHHHhhhcCChHHHH---HHHHhC-CCCCCHHHHHHHHHH-----H
Q 041384          443 ACNHAGLVKEAETLFNNVMKEKKIALA-IEHYACYVDLLGKSGKIEDAC---KVVSTM-PMKPSTRILSSLVSA-----C  512 (580)
Q Consensus       443 ~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~---~~~~~~-~~~p~~~~~~~l~~~-----~  512 (580)
                      -+...|+++.|..+++.+..+  . |+ ...-..-+....+.|..+.+.   .++... ..+-+......+.--     +
T Consensus       375 f~e~~~n~~~A~~~lq~i~~e--~-pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~~~~i~~~l~~~~~r~~~  451 (577)
T KOG1258|consen  375 FEESNGNFDDAKVILQRIESE--Y-PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKENNGILEKLYVKFARLRY  451 (577)
T ss_pred             HHHhhccHHHHHHHHHHHHhh--C-CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhcccccCcchhHHHHHHHHHHHH
Confidence            234467888888888874432  2 43 222222344455677777666   333333 122222222222211     2


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcC
Q 041384          513 RIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESG  550 (580)
Q Consensus       513 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  550 (580)
                      .-.++.+.|..++.++.+..|++...|..++......+
T Consensus       452 ~i~~d~~~a~~~l~~~~~~~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  452 KIREDADLARIILLEANDILPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             HHhcCHHHHHHHHHHhhhcCCccHHHHHHHHHHHHhCC
Confidence            33467788888888888888888888888777766655

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.29  E-value=0.14  Score=45.88  Aligned_cols=159  Identities=16%  Similarity=0.113  Sum_probs=96.8

Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHH----HHHHHHhhhcCCh
Q 041384          411 FHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHY----ACYVDLLGKSGKI  486 (580)
Q Consensus       411 ~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~g~~  486 (580)
                      ..|+..+|...++++.+. .+.|...+.-.-++|...|+...-...+++++.  ...++...|    ..+.-++..+|-+
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-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIP--KWNADLPCYSYVHGMYAFGLEECGIY  191 (491)
T ss_pred             ccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhcc--ccCCCCcHHHHHHHHHHhhHHHhccc
Confidence            345666666677777664 344556666666777777777777777777553  223443333    2344455677888


Q ss_pred             HHHHHHHHhC-CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC----CchHHHHHHHHHHhcCChHHHHHHHH
Q 041384          487 EDACKVVSTM-PM-KPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPE----NAANYTLLSMVCSESGNWLGAEEVWR  560 (580)
Q Consensus       487 ~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~  560 (580)
                      ++|++.-++. .+ +.|.-...++...+...|+++++.+++.+-...=..    -...|-+.+-.+.+.+.++.|.++|+
T Consensus       192 ~dAEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD  271 (491)
T KOG2610|consen  192 DDAEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYD  271 (491)
T ss_pred             hhHHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHH
Confidence            8888777776 22 335555666667777778888877776664432111    12235556666777788888888876


Q ss_pred             HHHhCCCccCCc
Q 041384          561 VMRAKGLSKSYG  572 (580)
Q Consensus       561 ~~~~~~~~~~~~  572 (580)
                      +-+-..++++-+
T Consensus       272 ~ei~k~l~k~Da  283 (491)
T KOG2610|consen  272 REIWKRLEKDDA  283 (491)
T ss_pred             HHHHHHhhccch
Confidence            654444444433

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.24  E-value=0.047  Score=50.09  Aligned_cols=263  Identities=10%  Similarity=-0.015  Sum_probs=120.7

Q ss_pred             HHHhCCChhHHHHHHHHHHHCCCCCCHh----hHHHHHHHhhccCCcHHHHHHHHHHHH----hCCCCCchHHHhHHHHH
Q 041384          103 CFTQNGFYVRSLEMFREMYLCGFVLKAE----LLAGIISLCSQIGELELGRQIHALVIV----DGSFELSVFVSTALLDL  174 (580)
Q Consensus       103 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~----~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~~~~~l~~~  174 (580)
                      -+++.|+....+.+|+...+.|.. |-.    .|..|-.+|.-.+++++|.+++..=+.    .|.-.-.......|.+.
T Consensus        26 RLck~gdcraGv~ff~aA~qvGTe-Dl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGNt  104 (639)
T KOG1130|consen   26 RLCKMGDCRAGVDFFKAALQVGTE-DLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGNT  104 (639)
T ss_pred             HHHhccchhhhHHHHHHHHHhcch-HHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccch
Confidence            456677777777777777666532 222    234444455555666666665443111    11001112223334444


Q ss_pred             hHhcCCHHHHHHHHhc-C------CCC--CeehHHHHHHHHHhcCC--------------------hhHHHHHHHHHHH-
Q 041384          175 YSKCHHWLIALRVFEQ-M------VIR--NEVSWTAMISGCIDSQN--------------------YDTGIDLFRAMQR-  224 (580)
Q Consensus       175 ~~~~~~~~~a~~~~~~-~------~~~--~~~~~~~li~~~~~~~~--------------------~~~a~~~~~~m~~-  224 (580)
                      +--.|.+++|..+-.+ +      ..+  ...++..+...|...|+                    ++.|.++|.+=.+ 
T Consensus       105 lKv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL~l  184 (639)
T KOG1130|consen  105 LKVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENLEL  184 (639)
T ss_pred             hhhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHHHH
Confidence            4445566665543221 1      000  11123333444443332                    2334444433211 


Q ss_pred             ---cC-CCCCHHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCCChhh
Q 041384          225 ---EG-VKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVI  300 (580)
Q Consensus       225 ---~~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~~  300 (580)
                         .| --.-...|..+-..|.-.|+++.+....+.-+..                         +.++=++..  ....
T Consensus       185 ~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~i-------------------------a~efGDrAa--eRRA  237 (639)
T KOG1130|consen  185 SEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEI-------------------------AQEFGDRAA--ERRA  237 (639)
T ss_pred             HHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHH-------------------------HHHhhhHHH--HHHh
Confidence               11 1112344555666666677888887766554321                         111111000  1123


Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHH----CC-CCCCHHHHHHHHHHhhccCChHHHHHHHHHHHH-----hCCCCchhH
Q 041384          301 WSSIIRGYSQSGDLSEAMKLFSRMRL----ER-IEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMK-----AGLNFDVSI  370 (580)
Q Consensus       301 ~~~l~~~~~~~~~~~~a~~~~~~m~~----~~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~  370 (580)
                      +..+..++.-.|+++.|.+.|+.-..    .| -........++...|.-..++++|+.++..-..     ....-....
T Consensus       238 ~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~Ra  317 (639)
T KOG1130|consen  238 HSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRA  317 (639)
T ss_pred             hcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHH
Confidence            44455555666666666666655321    11 111223344555555555666666666554332     112223455


Q ss_pred             HHHHHHHhHhcCCHHHHHHHHhc
Q 041384          371 GNALMNMYSKCGSITSSHQIFNE  393 (580)
Q Consensus       371 ~~~l~~~~~~~g~~~~A~~~~~~  393 (580)
                      +-+|..+|...|.-++|+.+.+.
T Consensus       318 cwSLgna~~alg~h~kAl~fae~  340 (639)
T KOG1130|consen  318 CWSLGNAFNALGEHRKALYFAEL  340 (639)
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHH
Confidence            56666666666666666655543

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.21  E-value=1.1  Score=42.13  Aligned_cols=128  Identities=13%  Similarity=0.098  Sum_probs=98.1

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHHHhhC-CCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCCCHHHH-HHHHHH
Q 041384          435 ITVLAILSACNHAGLVKEAETLFNNVMKEKK-IALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKPSTRIL-SSLVSA  511 (580)
Q Consensus       435 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~-~~l~~~  511 (580)
                      ..|..++....+....+.|..+|.++.+ .+ +.+++.++++++..++ .|+...|..+|+-- ..-||...| +-.+.-
T Consensus       398 ~v~C~~~N~v~r~~Gl~aaR~~F~k~rk-~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~f~d~~~y~~kyl~f  475 (660)
T COG5107         398 FVFCVHLNYVLRKRGLEAARKLFIKLRK-EGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLKFPDSTLYKEKYLLF  475 (660)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHhc-cCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHhCCCchHHHHHHHHH
Confidence            4466677777788889999999999555 55 6788999999998765 67888899998765 333555444 666777


Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCC--chHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 041384          512 CRIHGRLEVAEMLAHQLIEAEPEN--AANYTLLSMVCSESGNWLGAEEVWRVMRA  564 (580)
Q Consensus       512 ~~~~~~~~~A~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (580)
                      +...|+-..|..+|+...+.-..+  ..+|..++..-..-|+...+..+=++|.+
T Consensus       476 Li~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e  530 (660)
T COG5107         476 LIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE  530 (660)
T ss_pred             HHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH
Confidence            788999999999999777654333  66799999988889999888777666654

>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=96.20  E-value=0.076  Score=41.16  Aligned_cols=52  Identities=15%  Similarity=0.203  Sum_probs=40.2

Q ss_pred             CCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHh
Q 041384          429 GVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLL  480 (580)
Q Consensus       429 g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  480 (580)
                      ...|+..+..+++.+|+..|++..|.++.+...+..+++.+..+|..|++-.
T Consensus        47 pl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~   98 (126)
T PF12921_consen   47 PLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWA   98 (126)
T ss_pred             CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            3567788888888888888888888888888777777777777777777643

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.17  E-value=1.8  Score=44.20  Aligned_cols=53  Identities=9%  Similarity=0.179  Sum_probs=39.7

Q ss_pred             HHHHHhHhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHH
Q 041384          373 ALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEM  425 (580)
Q Consensus       373 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  425 (580)
                      -++..+.+..+.+.+..+.+...+.++..|-.+++.+++.+.++...+...+.
T Consensus       710 dl~~~~~q~~d~E~~it~~~~~g~~~p~l~~~~L~yF~~~~~i~~~~~~v~~v  762 (933)
T KOG2114|consen  710 DLMLYFQQISDPETVITLCERLGKEDPSLWLHALKYFVSEESIEDCYEIVYKV  762 (933)
T ss_pred             HHHHHHHHhhChHHHHHHHHHhCccChHHHHHHHHHHhhhcchhhHHHHHHHH
Confidence            35666777788888888888888888889999999998888666555444443

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.13  E-value=0.079  Score=40.14  Aligned_cols=88  Identities=15%  Similarity=0.146  Sum_probs=47.1

Q ss_pred             HhhhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC-CCCc---hHHHHHHHHHHhcCCh
Q 041384          479 LLGKSGKIEDACKVVSTM-P-MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAE-PENA---ANYTLLSMVCSESGNW  552 (580)
Q Consensus       479 ~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~---~~~~~l~~~~~~~g~~  552 (580)
                      +++..|+++.|++.|.+. . .+.....||.-..++.-+|+.++|+.-++++.++. |...   ..|..-+..|-..|+-
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~d  131 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGND  131 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCch
Confidence            344555666666655554 1 22355556666666666666666666666666544 2221   1244445555556666


Q ss_pred             HHHHHHHHHHHhCC
Q 041384          553 LGAEEVWRVMRAKG  566 (580)
Q Consensus       553 ~~A~~~~~~~~~~~  566 (580)
                      +.|..=|+...+.|
T Consensus       132 d~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  132 DAARADFEAAAQLG  145 (175)
T ss_pred             HHHHHhHHHHHHhC
Confidence            66666565554444

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=96.10  E-value=0.025  Score=39.83  Aligned_cols=27  Identities=19%  Similarity=0.130  Sum_probs=15.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 041384          504 ILSSLVSACRIHGRLEVAEMLAHQLIE  530 (580)
Q Consensus       504 ~~~~l~~~~~~~~~~~~A~~~~~~~~~  530 (580)
                      ++..+...+...|++++|++.++++.+
T Consensus        48 ~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen   48 TLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            445555556666666666666665544

...

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.07  E-value=0.88  Score=39.64  Aligned_cols=56  Identities=16%  Similarity=0.106  Sum_probs=42.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCch---HHHHHHHHHHhcCChHHHHHHHHHH
Q 041384          507 SLVSACRIHGRLEVAEMLAHQLIEAEPENAA---NYTLLSMVCSESGNWLGAEEVWRVM  562 (580)
Q Consensus       507 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~  562 (580)
                      .+.+-|.+.|.+..|..-++.+.+.-|..+.   .+..+..+|...|..++|...-+-+
T Consensus       172 ~IaryY~kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl  230 (254)
T COG4105         172 AIARYYLKRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVL  230 (254)
T ss_pred             HHHHHHHHhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHH
Confidence            3456678889999999999999988766444   4666777899999999888765544

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.06  E-value=0.47  Score=42.07  Aligned_cols=119  Identities=13%  Similarity=0.125  Sum_probs=67.9

Q ss_pred             HhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCCCCCCHHHHH---HHHHHHHhcCCHHH
Q 041384          444 CNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRILS---SLVSACRIHGRLEV  520 (580)
Q Consensus       444 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~---~l~~~~~~~~~~~~  520 (580)
                      ....|++.+|..+|..++....  -+....-.++.+|...|+.+.|..++..++..-...-+.   .-+..+.+.....+
T Consensus       144 ~~~~e~~~~a~~~~~~al~~~~--~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~  221 (304)
T COG3118         144 LIEAEDFGEAAPLLKQALQAAP--ENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPE  221 (304)
T ss_pred             hhhccchhhHHHHHHHHHHhCc--ccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCC
Confidence            4556777777777776554222  224445566777777777777777777775332222222   22233333333332


Q ss_pred             HHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 041384          521 AEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAK  565 (580)
Q Consensus       521 A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (580)
                      ... +++-...+|+|...-..++..+...|+.++|.+.+=.+.++
T Consensus       222 ~~~-l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~  265 (304)
T COG3118         222 IQD-LQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRR  265 (304)
T ss_pred             HHH-HHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            222 33344556777777777777777777777777766555444

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.04  E-value=0.059  Score=47.05  Aligned_cols=102  Identities=24%  Similarity=0.230  Sum_probs=59.9

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHhhC-CCCChhHHHHHHHHhhhcCChHHHHHHHHhC----CCCC-CHHHHHHHH
Q 041384          436 TVLAILSACNHAGLVKEAETLFNNVMKEKK-IALAIEHYACYVDLLGKSGKIEDACKVVSTM----PMKP-STRILSSLV  509 (580)
Q Consensus       436 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~p-~~~~~~~l~  509 (580)
                      .|+.-+. +.+.|++..|...|...++... -.-....+..|..++...|++++|..+|..+    +..| -+..+.-|.
T Consensus       144 ~Y~~A~~-~~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg  222 (262)
T COG1729         144 LYNAALD-LYKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHH-HHHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            4555444 3455667777777777655221 1111334455677777777777777766655    1112 334555666


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCchH
Q 041384          510 SACRIHGRLEVAEMLAHQLIEAEPENAAN  538 (580)
Q Consensus       510 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~  538 (580)
                      ....+.|+.++|...|+++.+..|.++.+
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            66666777777777777777777766554

>PRK11619 lytic murein transglycosylase; Provisional

Probab=95.91  E-value=2.5  Score=43.58  Aligned_cols=48  Identities=13%  Similarity=0.010  Sum_probs=23.2

Q ss_pred             ChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhc
Q 041384          297 DVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTR  345 (580)
Q Consensus       297 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  345 (580)
                      +...-.....+....|+.++|....+.+=..| ...+.....++..+.+
T Consensus       128 ~~~~~c~~~~A~~~~G~~~~A~~~a~~lW~~g-~~~p~~cd~l~~~~~~  175 (644)
T PRK11619        128 PVEARCNYYYAKWATGQQQEAWQGAKELWLTG-KSLPNACDKLFSVWQQ  175 (644)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-CCCChHHHHHHHHHHH
Confidence            44444555556666666665655555543333 2223334444444443

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.88  E-value=0.065  Score=50.65  Aligned_cols=61  Identities=15%  Similarity=0.071  Sum_probs=45.1

Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCCh----hHHHHHHHHhhhcCChHHHHHHHHhC
Q 041384          433 DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAI----EHYACYVDLLGKSGKIEDACKVVSTM  496 (580)
Q Consensus       433 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~A~~~~~~~  496 (580)
                      +...+..+..+|...|++++|+..|++.++   +.|+.    .+|..+..+|...|+.++|+..+++.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALe---L~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrA  138 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALE---LNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTA  138 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHh---hCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            446777777788888888888888887665   34553    34777888888888888888887776

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=95.87  E-value=1.4  Score=41.37  Aligned_cols=165  Identities=10%  Similarity=0.002  Sum_probs=106.1

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCC--CC-CHHHHHHHHHHHhc---cCCHHHHHHHHHHHHHhhCCCCChhHHH
Q 041384          401 SWTTLISGYGFHGYGEEALQLFLEMQESGV--EP-DAITVLAILSACNH---AGLVKEAETLFNNVMKEKKIALAIEHYA  474 (580)
Q Consensus       401 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~--~p-~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~  474 (580)
                      +...++-+|....+++..+++.+.+.....  .+ ....--...-++.+   .|+.++|++++..++. ....+++.++.
T Consensus       143 iv~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~-~~~~~~~d~~g  221 (374)
T PF13281_consen  143 IVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLE-SDENPDPDTLG  221 (374)
T ss_pred             HHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHh-ccCCCChHHHH
Confidence            344566678899999999999999987410  11 12222233445556   8999999999999554 45667788888


Q ss_pred             HHHHHhhh---------cCChHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCC-HH---HHHHHH---H-HHHhcC----
Q 041384          475 CYVDLLGK---------SGKIEDACKVVSTM-PMKPSTRILSSLVSACRIHGR-LE---VAEMLA---H-QLIEAE----  532 (580)
Q Consensus       475 ~l~~~~~~---------~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~~~-~~---~A~~~~---~-~~~~~~----  532 (580)
                      .++..|..         ....++|+..|.+. ...|+..+--.++..+...|. ++   +..++-   . .+.+.+    
T Consensus       222 L~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~  301 (374)
T PF13281_consen  222 LLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEK  301 (374)
T ss_pred             HHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhccccc
Confidence            88877642         22478888888877 556665433223333333332 21   222222   1 111222    


Q ss_pred             CCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 041384          533 PENAANYTLLSMVCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       533 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      -.+-..+.+++.+..-.|++++|.+..++|.+..
T Consensus       302 ~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~  335 (374)
T PF13281_consen  302 MQDYWDVATLLEASVLAGDYEKAIQAAEKAFKLK  335 (374)
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC
Confidence            2355567789999999999999999999998763

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.87  E-value=0.13  Score=44.96  Aligned_cols=92  Identities=17%  Similarity=0.184  Sum_probs=64.6

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCC-hhHHHHH
Q 041384          402 WTTLISGYGFHGYGEEALQLFLEMQESGVEPD----AITVLAILSACNHAGLVKEAETLFNNVMKEKKIALA-IEHYACY  476 (580)
Q Consensus       402 ~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l  476 (580)
                      |+.-+.. .+.|++..|...|...++.  .|+    ...+-.|..++...|+++.|..+|..+.++.+-.|. ++.+-.|
T Consensus       145 Y~~A~~~-~ksgdy~~A~~~F~~fi~~--YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKl  221 (262)
T COG1729         145 YNAALDL-YKSGDYAEAEQAFQAFIKK--YPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKL  221 (262)
T ss_pred             HHHHHHH-HHcCCHHHHHHHHHHHHHc--CCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHH
Confidence            5554444 4556688888888887775  332    245566777888888888888888887776655555 3677777


Q ss_pred             HHHhhhcCChHHHHHHHHhC
Q 041384          477 VDLLGKSGKIEDACKVVSTM  496 (580)
Q Consensus       477 ~~~~~~~g~~~~A~~~~~~~  496 (580)
                      ..+..+.|+.++|..+|++.
T Consensus       222 g~~~~~l~~~d~A~atl~qv  241 (262)
T COG1729         222 GVSLGRLGNTDEACATLQQV  241 (262)
T ss_pred             HHHHHHhcCHHHHHHHHHHH
Confidence            77888888888888888777

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=95.86  E-value=1.6  Score=40.79  Aligned_cols=84  Identities=13%  Similarity=-0.028  Sum_probs=48.2

Q ss_pred             hHhcCCHHHHHHHHhcCCCC-------CcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCC
Q 041384          378 YSKCGSITSSHQIFNEMAAR-------DFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDA-ITVLAILSACNHAGL  449 (580)
Q Consensus       378 ~~~~g~~~~A~~~~~~~~~~-------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~~~  449 (580)
                      ..+.|.+..|.+.|.+...-       +...|.....+..+.|+..+|+.--++..+.  .|.. ..|..-..++...++
T Consensus       259 ~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~i--D~syikall~ra~c~l~le~  336 (486)
T KOG0550|consen  259 AFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKI--DSSYIKALLRRANCHLALEK  336 (486)
T ss_pred             HhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhc--CHHHHHHHHHHHHHHHHHHH
Confidence            44566666666666665542       2234555555566677777777766666542  2211 222233334555677


Q ss_pred             HHHHHHHHHHHHHh
Q 041384          450 VKEAETLFNNVMKE  463 (580)
Q Consensus       450 ~~~a~~~~~~~~~~  463 (580)
                      |++|++-++.+++.
T Consensus       337 ~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  337 WEEAVEDYEKAMQL  350 (486)
T ss_pred             HHHHHHHHHHHHhh
Confidence            77777777776653

>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=95.84  E-value=0.098  Score=42.34  Aligned_cols=72  Identities=14%  Similarity=0.139  Sum_probs=53.7

Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHH-----hCCCCchhHHH
Q 041384          300 IWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMK-----AGLNFDVSIGN  372 (580)
Q Consensus       300 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~  372 (580)
                      ....++..+...|+++.|..+.+.+.... +.+...+..+|.++...|+...|.+.|+.+.+     .|+.|++.+-.
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~  140 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRA  140 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHH
Confidence            34556777888999999999999998775 55778999999999999999999999998764     68999877543

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.82  E-value=0.66  Score=45.86  Aligned_cols=113  Identities=19%  Similarity=0.105  Sum_probs=64.6

Q ss_pred             CCHHHHHHHHHHHHHhhCCCCChhHHH-HHHHHhhhcCChHHHHHHHHhCCC------CCCHHHHHHHHHHHHhcCCHHH
Q 041384          448 GLVKEAETLFNNVMKEKKIALAIEHYA-CYVDLLGKSGKIEDACKVVSTMPM------KPSTRILSSLVSACRIHGRLEV  520 (580)
Q Consensus       448 ~~~~~a~~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~g~~~~A~~~~~~~~~------~p~~~~~~~l~~~~~~~~~~~~  520 (580)
                      .+.+.|.++++.+.+   .-|+...|. .-.+.+...|++++|++.|++...      +.....+--++..+....++++
T Consensus       247 ~~~~~a~~lL~~~~~---~yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~  323 (468)
T PF10300_consen  247 VPLEEAEELLEEMLK---RYPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEE  323 (468)
T ss_pred             CCHHHHHHHHHHHHH---hCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHH
Confidence            355566666666433   223433332 223445556666666666665421      1122334455566677788888


Q ss_pred             HHHHHHHHHhcCCCCchHHH-HHHHHHHhcCCh-------HHHHHHHHHHH
Q 041384          521 AEMLAHQLIEAEPENAANYT-LLSMVCSESGNW-------LGAEEVWRVMR  563 (580)
Q Consensus       521 A~~~~~~~~~~~~~~~~~~~-~l~~~~~~~g~~-------~~A~~~~~~~~  563 (580)
                      |...+.++.+.+.-+...|. ..+-++...|+.       ++|.+++.+.-
T Consensus       324 A~~~f~~L~~~s~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  324 AAEYFLRLLKESKWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHHHHHHHHhccccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHH
Confidence            88888888877655444443 344456667777       77777777653

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.

>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=95.79  E-value=0.62  Score=35.66  Aligned_cols=68  Identities=12%  Similarity=0.081  Sum_probs=46.1

Q ss_pred             ChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCC
Q 041384          297 DVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLN  365 (580)
Q Consensus       297 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  365 (580)
                      +....+..+..+..+|.-++-.+++.++.+.+ .+++.....+..+|.+.|+..++.+++.+..+.|++
T Consensus        85 ~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   85 LSEYVDLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             --HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            33345556777888888888888888877543 778888888888899999988888888888877753

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.78  E-value=1.3  Score=39.18  Aligned_cols=191  Identities=19%  Similarity=0.157  Sum_probs=86.7

Q ss_pred             HHHHHHhHhcCCHHHHHHHHhcCCC-----CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH-HHh
Q 041384          372 NALMNMYSKCGSITSSHQIFNEMAA-----RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILS-ACN  445 (580)
Q Consensus       372 ~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~-~~~  445 (580)
                      ......+...+++..+...+.....     .....+......+...+++..+...+.........+ ......... .+.
T Consensus        63 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~  141 (291)
T COG0457          63 LLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDP-DLAEALLALGALY  141 (291)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCc-chHHHHHHHHHHH
Confidence            3334444444444444444443321     122233334444444444555555555555432121 111111111 455


Q ss_pred             ccCCHHHHHHHHHHHHHhhCC--CCChhHHHHHHHHhhhcCChHHHHHHHHhCC-CCCC--HHHHHHHHHHHHhcCCHHH
Q 041384          446 HAGLVKEAETLFNNVMKEKKI--ALAIEHYACYVDLLGKSGKIEDACKVVSTMP-MKPS--TRILSSLVSACRIHGRLEV  520 (580)
Q Consensus       446 ~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~--~~~~~~l~~~~~~~~~~~~  520 (580)
                      ..|+++.|...+.+... ...  ......+......+...++.+.+...+.+.. ..++  ...+..+...+...++++.
T Consensus       142 ~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  220 (291)
T COG0457         142 ELGDYEEALELYEKALE-LDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGKYEE  220 (291)
T ss_pred             HcCCHHHHHHHHHHHHh-cCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHcccHHH
Confidence            55556666655555422 110  0112222222333445555666665555552 2222  3445555555555556666


Q ss_pred             HHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 041384          521 AEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRA  564 (580)
Q Consensus       521 A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (580)
                      |...+.......|.....+..+...+...|.++++...+++...
T Consensus       221 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  264 (291)
T COG0457         221 ALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALE  264 (291)
T ss_pred             HHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHH
Confidence            66666666666655444445555554455556666655555444

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=95.60  E-value=0.13  Score=39.87  Aligned_cols=50  Identities=12%  Similarity=0.092  Sum_probs=30.0

Q ss_pred             CCCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHH
Q 041384          125 FVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDL  174 (580)
Q Consensus       125 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  174 (580)
                      ..|+..+..+++.+++..|++..|.++++...+.-+++.+..+|..|+.-
T Consensus        48 l~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W   97 (126)
T PF12921_consen   48 LYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEW   97 (126)
T ss_pred             CCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            45666666666666666666666666666665554455555556555543

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.58  E-value=0.94  Score=36.23  Aligned_cols=127  Identities=9%  Similarity=0.010  Sum_probs=75.3

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHh
Q 041384          401 SWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLL  480 (580)
Q Consensus       401 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  480 (580)
                      ....++..+...+.+......++.+...+ ..+....+.++..|++.+ .......++.       ..+.......++.+
T Consensus         9 ~~~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~-------~~~~yd~~~~~~~c   79 (140)
T smart00299        9 DVSEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN-------KSNHYDIEKVGKLC   79 (140)
T ss_pred             CHHHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh-------ccccCCHHHHHHHH
Confidence            34456666666677777788888777765 356667777777777653 3444444442       12223334466666


Q ss_pred             hhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-CCHHHHHHHHHHHHhcCCCCchHHHHHHHHHH
Q 041384          481 GKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIH-GRLEVAEMLAHQLIEAEPENAANYTLLSMVCS  547 (580)
Q Consensus       481 ~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~-~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  547 (580)
                      .+.+-++++.-++.+++.      +...+..+... ++.+.|.+++++     +.++..|..++..+.
T Consensus        80 ~~~~l~~~~~~l~~k~~~------~~~Al~~~l~~~~d~~~a~~~~~~-----~~~~~lw~~~~~~~l  136 (140)
T smart00299       80 EKAKLYEEAVELYKKDGN------FKDAIVTLIEHLGNYEKAIEYFVK-----QNNPELWAEVLKALL  136 (140)
T ss_pred             HHcCcHHHHHHHHHhhcC------HHHHHHHHHHcccCHHHHHHHHHh-----CCCHHHHHHHHHHHH
Confidence            777777777777777642      22222333333 677777777665     345666776666554

>PRK15331 chaperone protein SicA; Provisional

Probab=95.51  E-value=0.43  Score=38.47  Aligned_cols=86  Identities=10%  Similarity=-0.010  Sum_probs=48.2

Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCCh
Q 041384          408 GYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKI  486 (580)
Q Consensus       408 ~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  486 (580)
                      -+...|++++|..+|+-+.-.  .| |..-+..|..+|-..+++++|+..|.....-.  .-|+..+-....+|...|+.
T Consensus        46 ~~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         46 EFYNQGRLDEAETFFRFLCIY--DFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL--KNDYRPVFFTGQCQLLMRKA  121 (165)
T ss_pred             HHHHCCCHHHHHHHHHHHHHh--CcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc--cCCCCccchHHHHHHHhCCH
Confidence            344566677777777666653  23 33444455555555677777777766543311  12233334456666666777


Q ss_pred             HHHHHHHHhCC
Q 041384          487 EDACKVVSTMP  497 (580)
Q Consensus       487 ~~A~~~~~~~~  497 (580)
                      +.|...|+...
T Consensus       122 ~~A~~~f~~a~  132 (165)
T PRK15331        122 AKARQCFELVN  132 (165)
T ss_pred             HHHHHHHHHHH
Confidence            76666666553

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=95.49  E-value=0.15  Score=44.40  Aligned_cols=101  Identities=13%  Similarity=0.128  Sum_probs=78.1

Q ss_pred             HHHHHHHHhhCC--CCChhhHHHHHHHHHh-----CCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccC--------
Q 041384          283 LHPARIIFERTK--VKDVVIWSSIIRGYSQ-----SGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQS--------  347 (580)
Q Consensus       283 ~~~a~~~~~~~~--~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~--------  347 (580)
                      +-..+..|....  +.|-.+|-+.+..+..     .+.++-....++.|.+-|+.-|..+|..|+..+-+..        
T Consensus        50 Lv~~e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ  129 (406)
T KOG3941|consen   50 LVHVEKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQ  129 (406)
T ss_pred             ccchhhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHH
Confidence            334455566555  4566677777766643     4567777778899999999999999999999886633        


Q ss_pred             --------ChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCC
Q 041384          348 --------FLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGS  383 (580)
Q Consensus       348 --------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  383 (580)
                              +-+-++.++++|...|+.||-.+-..|++++++.+-
T Consensus       130 ~~F~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  130 KVFLHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             HHHhhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence                    344578999999999999999999999999988765

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=95.37  E-value=1.9  Score=38.51  Aligned_cols=149  Identities=14%  Similarity=0.071  Sum_probs=95.0

Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCCh
Q 041384          407 SGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKI  486 (580)
Q Consensus       407 ~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  486 (580)
                      ......|++.+|..+|....... +-+......+..++...|+.+.|..++..+-. .--.........-+..+.+....
T Consensus       142 ~~~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~-~~~~~~~~~l~a~i~ll~qaa~~  219 (304)
T COG3118         142 KELIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPL-QAQDKAAHGLQAQIELLEQAAAT  219 (304)
T ss_pred             hhhhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCcc-cchhhHHHHHHHHHHHHHHHhcC
Confidence            34556778888888888877752 22446666777888888888888888886321 11111111122233444455544


Q ss_pred             HHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CCCchHHHHHHHHHHhcCChHHHHH
Q 041384          487 EDACKVVSTMPMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAE--PENAANYTLLSMVCSESGNWLGAEE  557 (580)
Q Consensus       487 ~~A~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~  557 (580)
                      .+...+-++....| |...-..+...+...|+.+.|.+.+-.+.+.+  -.+...-..++..+.-.|.-+.+..
T Consensus       220 ~~~~~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g~~Dp~~~  293 (304)
T COG3118         220 PEIQDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFGPADPLVL  293 (304)
T ss_pred             CCHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcCCCCHHHH
Confidence            44444444443355 66666778888888899999888877777655  5577778888888877775554433

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.27  E-value=0.059  Score=30.32  Aligned_cols=30  Identities=23%  Similarity=0.155  Sum_probs=15.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 041384          505 LSSLVSACRIHGRLEVAEMLAHQLIEAEPE  534 (580)
Q Consensus       505 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  534 (580)
                      |..+...+...|++++|++.++++.+++|+
T Consensus         4 ~~~lg~~~~~~~~~~~A~~~~~~al~l~p~   33 (34)
T PF07719_consen    4 WYYLGQAYYQLGNYEEAIEYFEKALELDPN   33 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHCcC
Confidence            444445555555555555555555555554

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 ....

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.22  E-value=0.88  Score=44.98  Aligned_cols=116  Identities=19%  Similarity=0.082  Sum_probs=63.2

Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHH-HHHHhccCCHHHHHHHHHHHHHhhCCC--CChhHHHHHHHHhhhcCChHHH
Q 041384          413 GYGEEALQLFLEMQESGVEPDAITVLAI-LSACNHAGLVKEAETLFNNVMKEKKIA--LAIEHYACYVDLLGKSGKIEDA  489 (580)
Q Consensus       413 ~~~~~a~~~~~~~~~~g~~p~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A  489 (580)
                      ...+.|.++++.+.+.  .|+...|... .+.+...|+.++|++.|+++.....--  .....+.-+.-.+.-.+++++|
T Consensus       247 ~~~~~a~~lL~~~~~~--yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A  324 (468)
T PF10300_consen  247 VPLEEAEELLEEMLKR--YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEA  324 (468)
T ss_pred             CCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHH
Confidence            3566677777777764  5665554433 334555777777777777644311111  1122344455566677777777


Q ss_pred             HHHHHhCC-CCCCHHHHHHHHHH--HHhcCCH-------HHHHHHHHHHHh
Q 041384          490 CKVVSTMP-MKPSTRILSSLVSA--CRIHGRL-------EVAEMLAHQLIE  530 (580)
Q Consensus       490 ~~~~~~~~-~~p~~~~~~~l~~~--~~~~~~~-------~~A~~~~~~~~~  530 (580)
                      .+.|..+. .......+-..+.+  +...|+.       ++|.++++++-.
T Consensus       325 ~~~f~~L~~~s~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  325 AEYFLRLLKESKWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHHHHHhccccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            77777773 22223333223322  2345555       666666666543

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.

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.11  E-value=0.086  Score=39.96  Aligned_cols=57  Identities=21%  Similarity=0.054  Sum_probs=52.5

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 041384          509 VSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAK  565 (580)
Q Consensus       509 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (580)
                      .-++...|+.+.|++.|.+.+..-|.++++|+.-+.++--+|+.++|..=+++..+.
T Consensus        50 ~valaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleL  106 (175)
T KOG4555|consen   50 AIALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALEL  106 (175)
T ss_pred             HHHHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHh
Confidence            345678999999999999999999999999999999999999999999999888764

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.06  E-value=0.052  Score=30.60  Aligned_cols=31  Identities=23%  Similarity=0.193  Sum_probs=16.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 041384          504 ILSSLVSACRIHGRLEVAEMLAHQLIEAEPE  534 (580)
Q Consensus       504 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  534 (580)
                      +|..+...+...|++++|+..++++++.+|+
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            3445555555555555555555555555553

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 ....

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.01  E-value=0.86  Score=43.67  Aligned_cols=67  Identities=16%  Similarity=0.129  Sum_probs=42.1

Q ss_pred             HHHHHHHhhhcCChHHHHHHHHhCC-CCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC-CCCchHH
Q 041384          473 YACYVDLLGKSGKIEDACKVVSTMP-MKP---STRILSSLVSACRIHGRLEVAEMLAHQLIEAE-PENAANY  539 (580)
Q Consensus       473 ~~~l~~~~~~~g~~~~A~~~~~~~~-~~p---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  539 (580)
                      -..+..++.+.|+.++|++.++++- ..|   .......|+.++...+.+.++..++.+.-+.. |+++...
T Consensus       262 KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~  333 (539)
T PF04184_consen  262 KRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATIC  333 (539)
T ss_pred             HHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHH
Confidence            3446666667777777777777772 222   22355667777777777777777777765543 4555443

The molecular function of this protein is uncertain.

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=94.98  E-value=3.3  Score=44.34  Aligned_cols=138  Identities=16%  Similarity=0.091  Sum_probs=62.9

Q ss_pred             HHHhHhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHH
Q 041384          375 MNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAE  454 (580)
Q Consensus       375 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~  454 (580)
                      ++.-.+.|.+.+|..++..=.+.-...|.+...-+.....+++|.-.|+..-+         ..-.+.+|...|+|.+|.
T Consensus       915 ~n~I~kh~Ly~~aL~ly~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dWr~~l  985 (1265)
T KOG1920|consen  915 KNYIKKHGLYDEALALYKPDSEKQKVIYEAYADHLREELMSDEAALMYERCGK---------LEKALKAYKECGDWREAL  985 (1265)
T ss_pred             HHHHHhcccchhhhheeccCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccHHHHH
Confidence            33334445555555544433222223444444444455555555555544322         112345555666666666


Q ss_pred             HHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 041384          455 TLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQL  528 (580)
Q Consensus       455 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~  528 (580)
                      .+..++-.  +-.--..+-..|+.-+...++.-+|-++..+....|..     .+..+++...+++|.++....
T Consensus       986 ~~a~ql~~--~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd~~~-----av~ll~ka~~~~eAlrva~~~ 1052 (1265)
T KOG1920|consen  986 SLAAQLSE--GKDELVILAEELVSRLVEQRKHYEAAKILLEYLSDPEE-----AVALLCKAKEWEEALRVASKA 1052 (1265)
T ss_pred             HHHHhhcC--CHHHHHHHHHHHHHHHHHcccchhHHHHHHHHhcCHHH-----HHHHHhhHhHHHHHHHHHHhc
Confidence            66555211  11111112244555566666666666666555323221     122334444555555544443

>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=94.95  E-value=2.9  Score=38.21  Aligned_cols=17  Identities=6%  Similarity=-0.263  Sum_probs=11.5

Q ss_pred             HHhcCCHHHHHHHHHHH
Q 041384          512 CRIHGRLEVAEMLAHQL  528 (580)
Q Consensus       512 ~~~~~~~~~A~~~~~~~  528 (580)
                      +.+.++++.|...++-.
T Consensus       256 ~~~~k~y~~A~~w~~~a  272 (278)
T PF08631_consen  256 HYKAKNYDEAIEWYELA  272 (278)
T ss_pred             HHhhcCHHHHHHHHHHH
Confidence            44667777777777654

It is also involved in sporulation [].

>PRK11906 transcriptional regulator; Provisional

Probab=94.92  E-value=1.9  Score=41.30  Aligned_cols=141  Identities=16%  Similarity=0.100  Sum_probs=93.9

Q ss_pred             CHHHHHHHHhcCC---CCC---cchHHHHHHHHHhc---------CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcc
Q 041384          383 SITSSHQIFNEMA---ARD---FVSWTTLISGYGFH---------GYGEEALQLFLEMQESGVEPDAITVLAILSACNHA  447 (580)
Q Consensus       383 ~~~~A~~~~~~~~---~~~---~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~  447 (580)
                      ..+.|..+|.+..   +-|   ...|..+..++...         ....+|.++.++..+.+ +-|+.....+..+....
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~  351 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDIT-TVDGKILAIMGLITGLS  351 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhh
Confidence            4577888888887   433   33455444443221         23456777777777754 44778888888877888


Q ss_pred             CCHHHHHHHHHHHHHhhCCCCC-hhHHHHHHHHhhhcCChHHHHHHHHh-CCCCCCH---HHHHHHHHHHHhcCCHHHHH
Q 041384          448 GLVKEAETLFNNVMKEKKIALA-IEHYACYVDLLGKSGKIEDACKVVST-MPMKPST---RILSSLVSACRIHGRLEVAE  522 (580)
Q Consensus       448 ~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p~~---~~~~~l~~~~~~~~~~~~A~  522 (580)
                      ++++.|...|+++.   .+.|+ ...|......+.-.|+.++|.+.+++ +...|..   ......+..|+.. ..+.|+
T Consensus       352 ~~~~~a~~~f~rA~---~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~~~-~~~~~~  427 (458)
T PRK11906        352 GQAKVSHILFEQAK---IHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKECVDMYVPN-PLKNNI  427 (458)
T ss_pred             cchhhHHHHHHHHh---hcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHHHHHHHcCC-chhhhH
Confidence            88999999999854   35566 44555566666778999999999988 4556643   3344445566654 467777


Q ss_pred             HHHHHH
Q 041384          523 MLAHQL  528 (580)
Q Consensus       523 ~~~~~~  528 (580)
                      .++-+-
T Consensus       428 ~~~~~~  433 (458)
T PRK11906        428 KLYYKE  433 (458)
T ss_pred             HHHhhc
Confidence            777553

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.88  E-value=2.1  Score=41.12  Aligned_cols=100  Identities=15%  Similarity=0.148  Sum_probs=69.3

Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCCC--CCCH--HHHHHHHHHHH
Q 041384          438 LAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPM--KPST--RILSSLVSACR  513 (580)
Q Consensus       438 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~--~~~~~l~~~~~  513 (580)
                      ..+..++.+.|+.++|++.+.+++++........+...|+.+|...+.+.++..++.+...  -|..  ..|+..+-.+.
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALLkaR  342 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALLKAR  342 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHHHHH
Confidence            3456667789999999999999887554333456778899999999999999999988741  2333  34554443333


Q ss_pred             hcCC---------------HHHHHHHHHHHHhcCCCCch
Q 041384          514 IHGR---------------LEVAEMLAHQLIEAEPENAA  537 (580)
Q Consensus       514 ~~~~---------------~~~A~~~~~~~~~~~~~~~~  537 (580)
                      ..++               -..|.+.+.++.+.+|.-+.
T Consensus       343 av~d~fs~e~a~rRGls~ae~~aveAi~RAvefNPHVp~  381 (539)
T PF04184_consen  343 AVGDKFSPEAASRRGLSPAEMNAVEAIHRAVEFNPHVPK  381 (539)
T ss_pred             hhccccCchhhhhcCCChhHHHHHHHHHHHHHhCCCCch
Confidence            3333               13466788888887766544

The molecular function of this protein is uncertain.

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=94.79  E-value=0.46  Score=37.32  Aligned_cols=61  Identities=13%  Similarity=0.006  Sum_probs=52.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCC---CchHHHHHHHHHHhcCChHHHHHHHHHHHhCCCc
Q 041384          508 LVSACRIHGRLEVAEMLAHQLIEAEPE---NAANYTLLSMVCSESGNWLGAEEVWRVMRAKGLS  568 (580)
Q Consensus       508 l~~~~~~~~~~~~A~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  568 (580)
                      -.....+.|++++|++.|+.+....|.   ...+-..|+.+|.+.|++++|...++++++..+.
T Consensus        16 ~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~   79 (142)
T PF13512_consen   16 EAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPT   79 (142)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC
Confidence            344455789999999999999998876   4456778999999999999999999999998764

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=94.75  E-value=0.75  Score=44.77  Aligned_cols=149  Identities=14%  Similarity=0.112  Sum_probs=87.6

Q ss_pred             HcCCCchHHHH------hhccCCCCCccchHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHH
Q 041384           74 AKFSKPESAYQ------LFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELEL  147 (580)
Q Consensus        74 ~~~g~~~~A~~------~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~  147 (580)
                      .-.|+++++.+      ++..++   ....+.++.-+-+.|..+.|+++..+-.            .-+....+.|+++.
T Consensus       272 v~~~d~~~v~~~i~~~~ll~~i~---~~~~~~i~~fL~~~G~~e~AL~~~~D~~------------~rFeLAl~lg~L~~  336 (443)
T PF04053_consen  272 VLRGDFEEVLRMIAASNLLPNIP---KDQGQSIARFLEKKGYPELALQFVTDPD------------HRFELALQLGNLDI  336 (443)
T ss_dssp             HHTT-HHH-----HHHHTGGG-----HHHHHHHHHHHHHTT-HHHHHHHSS-HH------------HHHHHHHHCT-HHH
T ss_pred             HHcCChhhhhhhhhhhhhcccCC---hhHHHHHHHHHHHCCCHHHHHhhcCChH------------HHhHHHHhcCCHHH
Confidence            34567777433      333332   4456777777777888888877754322            22344556677777


Q ss_pred             HHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCCCCeehHHHHHHHHHhcCChhHHHHHHHHHHHcCC
Q 041384          148 GRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGV  227 (580)
Q Consensus       148 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  227 (580)
                      |.++.+.       ..+...|..|.+...+.|+++-|.+.|.+...     |..|+-.|.-.|+.+.-.++.+.....|-
T Consensus       337 A~~~a~~-------~~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d-----~~~L~lLy~~~g~~~~L~kl~~~a~~~~~  404 (443)
T PF04053_consen  337 ALEIAKE-------LDDPEKWKQLGDEALRQGNIELAEECYQKAKD-----FSGLLLLYSSTGDREKLSKLAKIAEERGD  404 (443)
T ss_dssp             HHHHCCC-------CSTHHHHHHHHHHHHHTTBHHHHHHHHHHCT------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHh-------cCcHHHHHHHHHHHHHcCCHHHHHHHHHhhcC-----ccccHHHHHHhCCHHHHHHHHHHHHHccC
Confidence            7766442       34666888888888888888888888877653     66677777778887777777666655532


Q ss_pred             CCCHHHHHHHHHHHhcCCCchhHHHHHH
Q 041384          228 KPTRVTLTIVLLACAELRDLRNGKAIHG  255 (580)
Q Consensus       228 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~  255 (580)
                            ++....++.-.|+.++..+++.
T Consensus       405 ------~n~af~~~~~lgd~~~cv~lL~  426 (443)
T PF04053_consen  405 ------INIAFQAALLLGDVEECVDLLI  426 (443)
T ss_dssp             ------HHHHHHHHHHHT-HHHHHHHHH
T ss_pred             ------HHHHHHHHHHcCCHHHHHHHHH
Confidence                  3444445555566666555543

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.

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.71  E-value=0.073  Score=30.54  Aligned_cols=26  Identities=15%  Similarity=0.201  Sum_probs=20.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHH
Q 041384          538 NYTLLSMVCSESGNWLGAEEVWRVMR  563 (580)
Q Consensus       538 ~~~~l~~~~~~~g~~~~A~~~~~~~~  563 (580)
                      ++..|+.+|.+.|++++|++++++..
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            36788889999999999999988854

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.70  E-value=0.44  Score=42.84  Aligned_cols=115  Identities=10%  Similarity=0.001  Sum_probs=93.9

Q ss_pred             hccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHH----HHHHHHHHhcCCH
Q 041384          445 NHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP--MKPSTRIL----SSLVSACRIHGRL  518 (580)
Q Consensus       445 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~----~~l~~~~~~~~~~  518 (580)
                      ...|+..+|-..++++++  ..+.|...++..-+++.-.|+.+.....++++-  -.||.+.|    ..+.-++...|-+
T Consensus       114 ~~~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  114 WGRGKHHEAAIEWDKLLD--DYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIY  191 (491)
T ss_pred             hccccccHHHHHHHHHHH--hCchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccc
Confidence            356788888889999775  567788888888888999999888888888873  23444322    3444556788999


Q ss_pred             HHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHH
Q 041384          519 EVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRV  561 (580)
Q Consensus       519 ~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  561 (580)
                      ++|++..+++.+++|.+.-+...++.++...|+..++.+..++
T Consensus       192 ~dAEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~  234 (491)
T KOG2610|consen  192 DDAEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYK  234 (491)
T ss_pred             hhHHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHh
Confidence            9999999999999999999999999999999999999998765

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=94.51  E-value=1  Score=43.90  Aligned_cols=156  Identities=15%  Similarity=0.034  Sum_probs=94.0

Q ss_pred             HHhHhcCCHHHHHHHHh--cCCC-CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHH
Q 041384          376 NMYSKCGSITSSHQIFN--EMAA-RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKE  452 (580)
Q Consensus       376 ~~~~~~g~~~~A~~~~~--~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~  452 (580)
                      ....-.++++++.+..+  ++.. -.....+.++.-+.+.|.++.|+++.+.-..            -.+...+.|+.+.
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll~~i~~~~~~~i~~fL~~~G~~e~AL~~~~D~~~------------rFeLAl~lg~L~~  336 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLLPNIPKDQGQSIARFLEKKGYPELALQFVTDPDH------------RFELALQLGNLDI  336 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTGGG--HHHHHHHHHHHHHTT-HHHHHHHSS-HHH------------HHHHHHHCT-HHH
T ss_pred             HHHHHcCChhhhhhhhhhhhhcccCChhHHHHHHHHHHHCCCHHHHHhhcCChHH------------HhHHHHhcCCHHH
Confidence            34445677777655554  2221 1233467777777778888888775433211            1233456788888


Q ss_pred             HHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 041384          453 AETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAE  532 (580)
Q Consensus       453 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  532 (580)
                      |.++.++       .++...|..|.+...++|+++-|++.|++..      -+..|+-.|...|+.+.-.++.+.+...+
T Consensus       337 A~~~a~~-------~~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~------d~~~L~lLy~~~g~~~~L~kl~~~a~~~~  403 (443)
T PF04053_consen  337 ALEIAKE-------LDDPEKWKQLGDEALRQGNIELAEECYQKAK------DFSGLLLLYSSTGDREKLSKLAKIAEERG  403 (443)
T ss_dssp             HHHHCCC-------CSTHHHHHHHHHHHHHTTBHHHHHHHHHHCT-------HHHHHHHHHHCT-HHHHHHHHHHHHHTT
T ss_pred             HHHHHHh-------cCcHHHHHHHHHHHHHcCCHHHHHHHHHhhc------CccccHHHHHHhCCHHHHHHHHHHHHHcc
Confidence            7776544       2366688888888888999999998888875      45666667777888877777777776655


Q ss_pred             CCCchHHHHHHHHHHhcCChHHHHHHHHH
Q 041384          533 PENAANYTLLSMVCSESGNWLGAEEVWRV  561 (580)
Q Consensus       533 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  561 (580)
                      .     ++....++.-.|+.++..+++.+
T Consensus       404 ~-----~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  404 D-----INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             ------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             C-----HHHHHHHHHHcCCHHHHHHHHHH
Confidence            4     33334445566888888887765

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.

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.51  E-value=1.5  Score=35.52  Aligned_cols=122  Identities=16%  Similarity=0.195  Sum_probs=77.3

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHH--HHHhhhcCC
Q 041384          409 YGFHGYGEEALQLFLEMQESGVEPDA-ITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACY--VDLLGKSGK  485 (580)
Q Consensus       409 ~~~~~~~~~a~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l--~~~~~~~g~  485 (580)
                      +.+.+..++|+.-|..+.+.|...=+ .............|+...|...|.++-+...++.-..-...|  ...+...|.
T Consensus        68 lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gs  147 (221)
T COG4649          68 LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGS  147 (221)
T ss_pred             HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhcccc
Confidence            45667789999999998887644322 112223334567888899999999854432222111111111  224567788


Q ss_pred             hHHHHHHHHhCCCC--C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 041384          486 IEDACKVVSTMPMK--P-STRILSSLVSACRIHGRLEVAEMLAHQLIE  530 (580)
Q Consensus       486 ~~~A~~~~~~~~~~--p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  530 (580)
                      +++...-.+.+..+  | ....-..|.-+-.+.|++..|...|+++..
T Consensus       148 y~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         148 YDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             HHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            88888777777322  2 334556777777888888888888888776

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=94.44  E-value=8.6  Score=41.40  Aligned_cols=52  Identities=17%  Similarity=0.221  Sum_probs=27.4

Q ss_pred             HHHhHhcCCHHHHHHHHhcCCCCCcchH---HHHHHHHHhcCChHHHHHHHHHHH
Q 041384          375 MNMYSKCGSITSSHQIFNEMAARDFVSW---TTLISGYGFHGYGEEALQLFLEMQ  426 (580)
Q Consensus       375 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~  426 (580)
                      +.+|..+|++.+|+.+..++...-....   ..|+.-+...+++-+|-+++.+..
T Consensus       972 l~a~~~~~dWr~~l~~a~ql~~~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~ 1026 (1265)
T KOG1920|consen  972 LKAYKECGDWREALSLAAQLSEGKDELVILAEELVSRLVEQRKHYEAAKILLEYL 1026 (1265)
T ss_pred             HHHHHHhccHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHHcccchhHHHHHHHHh
Confidence            3455555666666666665554322222   445555555666656655555544

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=94.41  E-value=4.8  Score=38.35  Aligned_cols=150  Identities=9%  Similarity=-0.036  Sum_probs=79.0

Q ss_pred             CcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC---CHHHHHHHHHHHhccCCHHHHHHHHHHHHHh-hCCCCChhHH
Q 041384          398 DFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEP---DAITVLAILSACNHAGLVKEAETLFNNVMKE-KKIALAIEHY  473 (580)
Q Consensus       398 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~  473 (580)
                      ...+|..++..+.+.|.++.|...+.++...+..+   ++.....-...+-..|+..+|...++..++. .....+....
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~~~~~~~~~~~~  224 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKCRLSKNIDSISN  224 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhccccccH
Confidence            33467777788888888888888888877643211   2333333445566778888888888776551 1111111111


Q ss_pred             HHHHHHhhhcCChHHHHHH-HHhCCCCCCHHHHHHHHHHHHhc------CCHHHHHHHHHHHHhcCCCCchHHHHHHHHH
Q 041384          474 ACYVDLLGKSGKIEDACKV-VSTMPMKPSTRILSSLVSACRIH------GRLEVAEMLAHQLIEAEPENAANYTLLSMVC  546 (580)
Q Consensus       474 ~~l~~~~~~~g~~~~A~~~-~~~~~~~p~~~~~~~l~~~~~~~------~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  546 (580)
                      ..+...+..  ..+..... ........-...+..+..-+...      ++.+++...++.+.+..|.....|..++..+
T Consensus       225 ~~~~~~~~~--~~~~~~~~~~~~~~~~~~a~~~l~~a~w~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~k~~~~~a~~~  302 (352)
T PF02259_consen  225 AELKSGLLE--SLEVISSTNLDKESKELKAKAFLLLAKWLDELYSKLSSESSDEILKYYKEATKLDPSWEKAWHSWALFN  302 (352)
T ss_pred             HHHhhcccc--ccccccccchhhhhHHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHhChhHHHHHHHHHHHH
Confidence            111111100  00000000 00000000112233333333333      7788899999999999998888888887766


Q ss_pred             Hhc
Q 041384          547 SES  549 (580)
Q Consensus       547 ~~~  549 (580)
                      .+.
T Consensus       303 ~~~  305 (352)
T PF02259_consen  303 DKL  305 (352)
T ss_pred             HHH
Confidence            553

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=94.33  E-value=0.1  Score=31.58  Aligned_cols=33  Identities=21%  Similarity=0.088  Sum_probs=29.0

Q ss_pred             chHHHHHHHHHHhcCChHHHHHHHHHHHhCCCc
Q 041384          536 AANYTLLSMVCSESGNWLGAEEVWRVMRAKGLS  568 (580)
Q Consensus       536 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  568 (580)
                      |.++..++.+|.+.|++++|+++++++++..+.
T Consensus         1 p~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~   33 (44)
T PF13428_consen    1 PAAWLALARAYRRLGQPDEAERLLRRALALDPD   33 (44)
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC
Confidence            356889999999999999999999999887653

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=94.29  E-value=0.23  Score=41.02  Aligned_cols=102  Identities=17%  Similarity=0.170  Sum_probs=67.2

Q ss_pred             HHHhccCCHHHHHHHHHHHHHhhCCCCC-----hhHHHHHHHHhhhcCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHh
Q 041384          442 SACNHAGLVKEAETLFNNVMKEKKIALA-----IEHYACYVDLLGKSGKIEDACKVVSTM-PMKPS-TRILSSLVSACRI  514 (580)
Q Consensus       442 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~  514 (580)
                      .-+...|++++|..-|..++..  .++.     ...|..-..++.+.+.++.|+.-..+. .+.|. ...+..-..+|.+
T Consensus       103 N~~F~ngdyeeA~skY~~Ale~--cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek  180 (271)
T KOG4234|consen  103 NELFKNGDYEEANSKYQEALES--CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEK  180 (271)
T ss_pred             HHhhhcccHHHHHHHHHHHHHh--CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHh
Confidence            4577889999999998887752  2332     223444455677778888887766655 33342 2333333456777


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCchHHHHHHHH
Q 041384          515 HGRLEVAEMLAHQLIEAEPENAANYTLLSMV  545 (580)
Q Consensus       515 ~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  545 (580)
                      ...++.|++-|+++.+.+|....+-..++..
T Consensus       181 ~ek~eealeDyKki~E~dPs~~ear~~i~rl  211 (271)
T KOG4234|consen  181 MEKYEEALEDYKKILESDPSRREAREAIARL  211 (271)
T ss_pred             hhhHHHHHHHHHHHHHhCcchHHHHHHHHhc
Confidence            7888888888888888888777665555544

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=94.26  E-value=0.31  Score=43.48  Aligned_cols=59  Identities=15%  Similarity=0.162  Sum_probs=28.9

Q ss_pred             HHHHHHHHhhhcCChHHHHHHHHhC-CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 041384          472 HYACYVDLLGKSGKIEDACKVVSTM-PMK-PSTRILSSLVSACRIHGRLEVAEMLAHQLIE  530 (580)
Q Consensus       472 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  530 (580)
                      ++..++..+...|+.+.+.+.++++ ... -+...|..++.+|.+.|+...|+..|+++.+
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~  215 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKK  215 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHH
Confidence            3444455555555555555555544 122 2444555555555555555555555555443

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.16  E-value=7.6  Score=39.68  Aligned_cols=141  Identities=9%  Similarity=0.078  Sum_probs=74.1

Q ss_pred             hHHHhHHHHHhHhcCCHHHHHHHHhcCCCCCeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcC
Q 041384          165 VFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAEL  244 (580)
Q Consensus       165 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  244 (580)
                      ..+...+++.+...|++++|-...-.|...+..-|...+..+...++......++   .......+...|..++..+.. 
T Consensus       392 ~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn~~~eWe~~V~~f~e~~~l~~Ia~~l---Pt~~~rL~p~vYemvLve~L~-  467 (846)
T KOG2066|consen  392 KKVGKTYIDHLLFEGKYDEAASLCPKMLGNNAAEWELWVFKFAELDQLTDIAPYL---PTGPPRLKPLVYEMVLVEFLA-  467 (846)
T ss_pred             HHHHHHHHHHHHhcchHHHHHhhhHHHhcchHHHHHHHHHHhccccccchhhccC---CCCCcccCchHHHHHHHHHHH-
Confidence            3456667777777788888877777777777777777776666666655443332   221122345567767666655 


Q ss_pred             CCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHHHhCCChhHHHHHHHHH
Q 041384          245 RDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRM  324 (580)
Q Consensus       245 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m  324 (580)
                      .+.   ..+++...+.  +++......++++          ...-+++..+ +...-..|+..|...+++..|+.++-..
T Consensus       468 ~~~---~~F~e~i~~W--p~~Lys~l~iisa----------~~~q~~q~Se-~~~L~e~La~LYl~d~~Y~~Al~~ylkl  531 (846)
T KOG2066|consen  468 SDV---KGFLELIKEW--PGHLYSVLTIISA----------TEPQIKQNSE-STALLEVLAHLYLYDNKYEKALPIYLKL  531 (846)
T ss_pred             HHH---HHHHHHHHhC--ChhhhhhhHHHhh----------cchHHHhhcc-chhHHHHHHHHHHHccChHHHHHHHHhc
Confidence            222   2222222221  1111111111111          1111111111 2222334788888899999998888776


Q ss_pred             H
Q 041384          325 R  325 (580)
Q Consensus       325 ~  325 (580)
                      +
T Consensus       532 k  532 (846)
T KOG2066|consen  532 Q  532 (846)
T ss_pred             c
Confidence            5

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=94.14  E-value=0.8  Score=40.19  Aligned_cols=97  Identities=10%  Similarity=0.065  Sum_probs=63.5

Q ss_pred             CCCeehHHHHHHHHHh-----cCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCC----------------CchhHH
Q 041384          193 IRNEVSWTAMISGCID-----SQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELR----------------DLRNGK  251 (580)
Q Consensus       193 ~~~~~~~~~li~~~~~-----~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~----------------~~~~a~  251 (580)
                      ++|..+|-..+..+..     .+.++-...-++.|.+-|+.-|..+|..|+..+-+..                +-+-+.
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I  143 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAI  143 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHH
Confidence            3455566666655543     2445555566777788888888888888887765432                234466


Q ss_pred             HHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHH
Q 041384          252 AIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARII  289 (580)
Q Consensus       252 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~  289 (580)
                      .++++|...|+-||..+-..+++++++.+-......++
T Consensus       144 ~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm  181 (406)
T KOG3941|consen  144 KVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRM  181 (406)
T ss_pred             HHHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHH
Confidence            77788888888888877777777777766544444443

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=94.01  E-value=2.6  Score=33.69  Aligned_cols=42  Identities=12%  Similarity=0.234  Sum_probs=20.2

Q ss_pred             HHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhc
Q 041384          339 ILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKC  381 (580)
Q Consensus       339 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  381 (580)
                      ++..+...+.......+++.+...+ ..++...+.++..|++.
T Consensus        13 vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~   54 (140)
T smart00299       13 VVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKY   54 (140)
T ss_pred             HHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHH
Confidence            3333444444555555555555444 24444555555555543

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=93.87  E-value=0.13  Score=28.84  Aligned_cols=30  Identities=17%  Similarity=0.148  Sum_probs=25.8

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 041384          537 ANYTLLSMVCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       537 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      ..+..++.++...|++++|++.+++..+..
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l~   31 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALELD   31 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHC
Confidence            568899999999999999999999987754

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 ....

>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=93.73  E-value=0.61  Score=37.46  Aligned_cols=82  Identities=18%  Similarity=0.159  Sum_probs=59.2

Q ss_pred             HHHHHHHHh---hhcCChHHHHHHHHhCC-CCCCHHHHH-HHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHH
Q 041384          472 HYACYVDLL---GKSGKIEDACKVVSTMP-MKPSTRILS-SLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVC  546 (580)
Q Consensus       472 ~~~~l~~~~---~~~g~~~~A~~~~~~~~-~~p~~~~~~-~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  546 (580)
                      +.+.|++.+   .+.++.+++..+++.+. ..|...... .-...+...|++.+|+++|+.+.+..|..+..-..++.++
T Consensus         9 iv~gLie~~~~al~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL   88 (160)
T PF09613_consen    9 IVGGLIEVLSVALRLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYAKALLALCL   88 (160)
T ss_pred             HHHHHHHHHHHHHccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHH
Confidence            445555443   46778889988888883 556554332 3344567889999999999998888888888888888888


Q ss_pred             HhcCChH
Q 041384          547 SESGNWL  553 (580)
Q Consensus       547 ~~~g~~~  553 (580)
                      ...|+.+
T Consensus        89 ~~~~D~~   95 (160)
T PF09613_consen   89 YALGDPS   95 (160)
T ss_pred             HHcCChH
Confidence            7777654

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=93.73  E-value=0.49  Score=37.25  Aligned_cols=72  Identities=15%  Similarity=0.171  Sum_probs=41.2

Q ss_pred             hcCChHHHHHHHHhCC-CCCCHHHH-HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChH
Q 041384          482 KSGKIEDACKVVSTMP-MKPSTRIL-SSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWL  553 (580)
Q Consensus       482 ~~g~~~~A~~~~~~~~-~~p~~~~~-~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  553 (580)
                      ..++++++..+++.+. ..|+..-. ..-...+...|++.+|.++++.+.+..+..+..-..++.++.-.|+.+
T Consensus        22 ~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~~~~p~~kAL~A~CL~al~Dp~   95 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVLRPNLKELDMFDGWLLIARGNYDEAARILRELLSSAGAPPYGKALLALCLNAKGDAE   95 (153)
T ss_pred             hcCCHHHHHHHHHHHHHhCCCccccchhHHHHHHHcCCHHHHHHHHHhhhccCCCchHHHHHHHHHHHhcCChH
Confidence            4566666666666662 34433222 122333456677777777777776666666665666666666666543

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>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=93.58  E-value=3.5  Score=33.77  Aligned_cols=135  Identities=12%  Similarity=0.069  Sum_probs=70.8

Q ss_pred             HHHHHHHHhCCCCChhHHHHHHHHHHcCCCchHHHHhhccCCCCCccchHHHHHHHHhCCChhHHHHHHHHHHHCCCCCC
Q 041384           49 QLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLK  128 (580)
Q Consensus        49 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~  128 (580)
                      +.+..+.+.+++|+...+..+++.+.+.|++.....++..-.-+|.......+-.+..  ....+.++=-+|..      
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~qllq~~Vi~DSk~lA~~LLs~~~--~~~~~~Ql~lDMLk------   86 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQLLQYHVIPDSKPLACQLLSLGN--QYPPAYQLGLDMLK------   86 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHhhcccCCcHHHHHHHHHhHc--cChHHHHHHHHHHH------
Confidence            4455555677888888888888888888887777766655443333332222221111  11222222222211      


Q ss_pred             HhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCCCCeehHHHHHHHHHh
Q 041384          129 AELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCID  208 (580)
Q Consensus       129 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~  208 (580)
                                               ++.         ..+..+++.+...|++-+|.++.+.....+......++.+..+
T Consensus        87 -------------------------RL~---------~~~~~iievLL~~g~vl~ALr~ar~~~~~~~~~~~~fLeAA~~  132 (167)
T PF07035_consen   87 -------------------------RLG---------TAYEEIIEVLLSKGQVLEALRYARQYHKVDSVPARKFLEAAAN  132 (167)
T ss_pred             -------------------------Hhh---------hhHHHHHHHHHhCCCHHHHHHHHHHcCCcccCCHHHHHHHHHH
Confidence                                     110         0123344455566666666666666544444455556666666


Q ss_pred             cCChhHHHHHHHHHHHc
Q 041384          209 SQNYDTGIDLFRAMQRE  225 (580)
Q Consensus       209 ~~~~~~a~~~~~~m~~~  225 (580)
                      .++...-..+++-..++
T Consensus       133 ~~D~~lf~~V~~ff~~~  149 (167)
T PF07035_consen  133 SNDDQLFYAVFRFFEER  149 (167)
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            66655555555554443

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=93.56  E-value=3.4  Score=39.40  Aligned_cols=67  Identities=12%  Similarity=0.064  Sum_probs=54.5

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC----CCchHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 041384          500 PSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEP----ENAANYTLLSMVCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       500 p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      ....+|..++..+++.|.++.|...+.++...++    ..+.+...-++.+...|+.++|...++...+..
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~~  214 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKCR  214 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            3456788889999999999999999999887652    256667777888889999999999998887733

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=93.54  E-value=0.14  Score=29.28  Aligned_cols=27  Identities=26%  Similarity=0.207  Sum_probs=20.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 041384          504 ILSSLVSACRIHGRLEVAEMLAHQLIE  530 (580)
Q Consensus       504 ~~~~l~~~~~~~~~~~~A~~~~~~~~~  530 (580)
                      +|..|...|.+.|++++|++++++++.
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~   27 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALA   27 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            467788888888888888888888554

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=93.53  E-value=0.16  Score=28.57  Aligned_cols=30  Identities=17%  Similarity=0.128  Sum_probs=26.1

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 041384          537 ANYTLLSMVCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       537 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      .+|..++.+|...|++++|++.+++.++..
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~   31 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELD   31 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHC
Confidence            568999999999999999999999988754

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 ....

>KOG0890 consensus Protein kinase of the PI-3 kinase family involved in mitotic growth, DNA repair and meiotic recombination [Signal transduction mechanisms; Chromatin structure and dynamics; Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=93.43  E-value=20  Score=42.06  Aligned_cols=248  Identities=12%  Similarity=0.039  Sum_probs=132.0

Q ss_pred             HHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHH
Q 041384          306 RGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSIT  385 (580)
Q Consensus       306 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  385 (580)
                      .-....|++..|..-|+.+.+.+ ++...+++.++......+.++...-..+-.....-+-....++.-+.+-.+.++++
T Consensus      1457 l~~e~~g~~~da~~Cye~~~q~~-p~~~~~~~g~l~sml~~~~l~t~i~~~dg~~~~~se~~~~~~s~~~eaaW~l~qwD 1535 (2382)
T KOG0890|consen 1457 LEHEASGNWADAAACYERLIQKD-PDKEKHHSGVLKSMLAIQHLSTEILHLDGLIINRSEEVDELNSLGVEAAWRLSQWD 1535 (2382)
T ss_pred             HHHHhhccHHHHHHHHHHhhcCC-CccccchhhHHHhhhcccchhHHHhhhcchhhccCHHHHHHHHHHHHHHhhhcchh
Confidence            34556788888999999888664 33366777777777777777766654443333221111222233344446677777


Q ss_pred             HHHHHHhcCCCCCcchHHHH--HHHHHhcC--ChHHHHHHHHHHHHcCCCC--------C-HHHHHHHHHHHhccCCHHH
Q 041384          386 SSHQIFNEMAARDFVSWTTL--ISGYGFHG--YGEEALQLFLEMQESGVEP--------D-AITVLAILSACNHAGLVKE  452 (580)
Q Consensus       386 ~A~~~~~~~~~~~~~~~~~l--~~~~~~~~--~~~~a~~~~~~~~~~g~~p--------~-~~~~~~l~~~~~~~~~~~~  452 (580)
                      .......   ..+..+|...  +..+.+..  +.-.-.+..+.+++.-+.|        + ...|..++..+.-.. .+ 
T Consensus      1536 ~~e~~l~---~~n~e~w~~~~~g~~ll~~~~kD~~~~~~~i~~~r~~~i~~lsa~s~~~Sy~~~Y~~~~kLH~l~e-l~- 1610 (2382)
T KOG0890|consen 1536 LLESYLS---DRNIEYWSVESIGKLLLRNKKKDEIATLDLIENSRELVIENLSACSIEGSYVRSYEILMKLHLLLE-LE- 1610 (2382)
T ss_pred             hhhhhhh---cccccchhHHHHHHHHHhhcccchhhHHHHHHHHHHHhhhhHHHhhccchHHHHHHHHHHHHHHHH-HH-
Confidence            7766665   4444555544  22222222  2111222333333321121        0 022333333222110 01 


Q ss_pred             HHHHHHHHHHhhCCCCC------hhHHHHHHHHhhhcCChHHHHHHHHhC----CCCC-----CHHHHHHHHHHHHhcCC
Q 041384          453 AETLFNNVMKEKKIALA------IEHYACYVDLLGKSGKIEDACKVVSTM----PMKP-----STRILSSLVSACRIHGR  517 (580)
Q Consensus       453 a~~~~~~~~~~~~~~~~------~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~p-----~~~~~~~l~~~~~~~~~  517 (580)
                        ...+.   ..++.++      ...|..-+..-....+..+-+--+++.    ...|     -..+|....+..+..|.
T Consensus      1611 --~~~~~---l~~~s~~~~s~~~sd~W~~Rl~~tq~s~~~~epILa~RRs~l~~~~~~~~~~~~ge~wLqsAriaR~aG~ 1685 (2382)
T KOG0890|consen 1611 --NSIEE---LKKVSYDEDSANNSDNWKNRLERTQPSFRIKEPILAFRRSMLDLRMRSNLKSRLGECWLQSARIARLAGH 1685 (2382)
T ss_pred             --HHHHH---hhccCccccccccchhHHHHHHHhchhHHHHhHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHhccc
Confidence              11111   1122222      222222222212222223322222222    1122     24578899999999999


Q ss_pred             HHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 041384          518 LEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       518 ~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      ++.|...+-.+.+.+  -+.++...+..+...|+...|..++++..+..
T Consensus      1686 ~q~A~nall~A~e~r--~~~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~~ 1732 (2382)
T KOG0890|consen 1686 LQRAQNALLNAKESR--LPEIVLERAKLLWQTGDELNALSVLQEILSKN 1732 (2382)
T ss_pred             HHHHHHHHHhhhhcc--cchHHHHHHHHHHhhccHHHHHHHHHHHHHhh
Confidence            999999888887777  45667888899999999999999999988654

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.42  E-value=11  Score=39.01  Aligned_cols=146  Identities=14%  Similarity=0.142  Sum_probs=81.1

Q ss_pred             hHHHHHhHhcCCHHHHHHHHhcCCCCCeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCch
Q 041384          169 TALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLR  248 (580)
Q Consensus       169 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~  248 (580)
                      ....+-+.+.|++++|...+-+-..--..  ..+|.-|....+...-..+++.+.+.|+. +...-..|+.+|.+.++.+
T Consensus       372 ~kYgd~Ly~Kgdf~~A~~qYI~tI~~le~--s~Vi~kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~  448 (933)
T KOG2114|consen  372 RKYGDYLYGKGDFDEATDQYIETIGFLEP--SEVIKKFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVE  448 (933)
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHcccCCh--HHHHHHhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchH
Confidence            33445556778888887776554322111  24566677777777777888888888763 5555667888888888888


Q ss_pred             hHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHHHhCCChhHHHHHHHHHH
Q 041384          249 NGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMR  325 (580)
Q Consensus       249 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  325 (580)
                      +-.++.+...+.....|..+   .+..+.+.+= .+.|..+-..... +......+   +-..+++++|++.+..+.
T Consensus       449 kL~efI~~~~~g~~~fd~e~---al~Ilr~sny-l~~a~~LA~k~~~-he~vl~il---le~~~ny~eAl~yi~slp  517 (933)
T KOG2114|consen  449 KLTEFISKCDKGEWFFDVET---ALEILRKSNY-LDEAELLATKFKK-HEWVLDIL---LEDLHNYEEALRYISSLP  517 (933)
T ss_pred             HHHHHHhcCCCcceeeeHHH---HHHHHHHhCh-HHHHHHHHHHhcc-CHHHHHHH---HHHhcCHHHHHHHHhcCC
Confidence            77666655431111112221   2222222222 3333333222222 22222223   334577888888887763

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.27  E-value=1.2  Score=36.91  Aligned_cols=54  Identities=11%  Similarity=-0.028  Sum_probs=23.9

Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 041384          512 CRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       512 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      ....|.+++|...++...+.+- .+.....-++++...|+-++|+.-|++....+
T Consensus       136 q~q~~k~D~AL~~L~t~~~~~w-~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         136 QLQQKKADAALKTLDTIKEESW-AAIVAELRGDILLAKGDKQEARAAYEKALESD  189 (207)
T ss_pred             HHHhhhHHHHHHHHhccccccH-HHHHHHHhhhHHHHcCchHHHHHHHHHHHHcc
Confidence            3444555555554444322111 12223344455555555555555555554443

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=93.15  E-value=5.6  Score=34.89  Aligned_cols=218  Identities=21%  Similarity=0.133  Sum_probs=140.7

Q ss_pred             ChhHHHHHHHHHHHCCCC-CCHHHHHHHHHHhhccCChHHHHHHHHHHHHh-CCCCchhHHHHHHHHhHhcCCHHHHHHH
Q 041384          313 DLSEAMKLFSRMRLERIE-PNSVTLLAILSSCTRQSFLSHGLGVHCYIMKA-GLNFDVSIGNALMNMYSKCGSITSSHQI  390 (580)
Q Consensus       313 ~~~~a~~~~~~m~~~~~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~  390 (580)
                      ....+...+......... .....+......+...+....+...+...... ........+......+...++...+...
T Consensus        38 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  117 (291)
T COG0457          38 ELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALEL  117 (291)
T ss_pred             hHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHH
Confidence            344444444444433211 12445555666666666666666666665543 3334445555555666666777777777


Q ss_pred             HhcCCCC--Cc-chHHHHHH-HHHhcCChHHHHHHHHHHHHcCCCC----CHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 041384          391 FNEMAAR--DF-VSWTTLIS-GYGFHGYGEEALQLFLEMQESGVEP----DAITVLAILSACNHAGLVKEAETLFNNVMK  462 (580)
Q Consensus       391 ~~~~~~~--~~-~~~~~l~~-~~~~~~~~~~a~~~~~~~~~~g~~p----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  462 (580)
                      +......  +. ........ .+...|+++.|...+.+...  ..|    ....+......+...++.+.+...+...++
T Consensus       118 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  195 (291)
T COG0457         118 LEKALALDPDPDLAEALLALGALYELGDYEEALELYEKALE--LDPELNELAEALLALGALLEALGRYEEALELLEKALK  195 (291)
T ss_pred             HHHHHcCCCCcchHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHh
Confidence            7766552  21 22333333 67888999999999998855  333    234444444456778899999999998665


Q ss_pred             hhCCCC-ChhHHHHHHHHhhhcCChHHHHHHHHhCC-CCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 041384          463 EKKIAL-AIEHYACYVDLLGKSGKIEDACKVVSTMP-MKPS-TRILSSLVSACRIHGRLEVAEMLAHQLIEAEPE  534 (580)
Q Consensus       463 ~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  534 (580)
                        ..+. ....+..+...+...++++.|...+.... ..|+ ...+..+...+...+..+.+...+.+.....|.
T Consensus       196 --~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  268 (291)
T COG0457         196 --LNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELDPD  268 (291)
T ss_pred             --hCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence              2223 46677788888889999999999988873 3444 455555666666777899999999999998887

>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=92.96  E-value=1.7  Score=34.95  Aligned_cols=119  Identities=14%  Similarity=0.105  Sum_probs=72.0

Q ss_pred             HHHHHHHHHH---HhccCCHHHHHHHHHHHHHhhCCCCChhHHH-HHHHHhhhcCChHHHHHHHHhCC-CCCCHHHHHHH
Q 041384          434 AITVLAILSA---CNHAGLVKEAETLFNNVMKEKKIALAIEHYA-CYVDLLGKSGKIEDACKVVSTMP-MKPSTRILSSL  508 (580)
Q Consensus       434 ~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~g~~~~A~~~~~~~~-~~p~~~~~~~l  508 (580)
                      ..+.+.|+..   -...++.+.+..++..+.   -..|...... .-...+.+.|++.+|+.+|+++. ..|....-..|
T Consensus         7 ~~iv~gLie~~~~al~~~~~~D~e~lL~ALr---vLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kAL   83 (160)
T PF09613_consen    7 DEIVGGLIEVLSVALRLGDPDDAEALLDALR---VLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYAKAL   83 (160)
T ss_pred             HHHHHHHHHHHHHHHccCChHHHHHHHHHHH---HhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHHHHH
Confidence            3445555544   456889999999999843   3455533222 23345678999999999999995 34555556666


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHH
Q 041384          509 VSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEE  557 (580)
Q Consensus       509 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  557 (580)
                      +..|....+-..=....+++.+.++ ++.+ ..++..+........|.+
T Consensus        84 lA~CL~~~~D~~Wr~~A~evle~~~-d~~a-~~Lv~~Ll~~~~~~~a~~  130 (160)
T PF09613_consen   84 LALCLYALGDPSWRRYADEVLESGA-DPDA-RALVRALLARADLEPAHE  130 (160)
T ss_pred             HHHHHHHcCChHHHHHHHHHHhcCC-ChHH-HHHHHHHHHhccccchhh
Confidence            6666655444444555566666554 3332 234444445455444444

>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=92.86  E-value=0.24  Score=27.78  Aligned_cols=29  Identities=21%  Similarity=0.149  Sum_probs=15.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 041384          505 LSSLVSACRIHGRLEVAEMLAHQLIEAEP  533 (580)
Q Consensus       505 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  533 (580)
                      |..+...|...|++++|...+++..+.+|
T Consensus         4 ~~~lg~~y~~~~~~~~A~~~~~~a~~~~~   32 (34)
T PF13181_consen    4 YYNLGKIYEQLGDYEEALEYFEKALELNP   32 (34)
T ss_dssp             HHHHHHHHHHTTSHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            44444555555555555555555555544

...

>PRK09687 putative lyase; Provisional

Probab=92.50  E-value=8.2  Score=35.17  Aligned_cols=137  Identities=11%  Similarity=-0.038  Sum_probs=64.3

Q ss_pred             CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccC-CHHHHHHHHHHHHHhhCCCCChhHHHH
Q 041384          397 RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAG-LVKEAETLFNNVMKEKKIALAIEHYAC  475 (580)
Q Consensus       397 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~  475 (580)
                      ++..+-...+.++.+.++ ..++..+-.+.+   .+|...-...+.++.+.+ +...+...+..++.    .++..+...
T Consensus       140 ~~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~---d~~~~VR~~A~~aLg~~~~~~~~~~~~L~~~L~----D~~~~VR~~  211 (280)
T PRK09687        140 KSTNVRFAVAFALSVIND-EAAIPLLINLLK---DPNGDVRNWAAFALNSNKYDNPDIREAFVAMLQ----DKNEEIRIE  211 (280)
T ss_pred             CCHHHHHHHHHHHhccCC-HHHHHHHHHHhc---CCCHHHHHHHHHHHhcCCCCCHHHHHHHHHHhc----CCChHHHHH
Confidence            344444444555555554 345555555444   234444444444444432 12334444444332    234444555


Q ss_pred             HHHHhhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHH
Q 041384          476 YVDLLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVC  546 (580)
Q Consensus       476 l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  546 (580)
                      .+.++.+.|+. .|+..+-+.-..++  .....+.++...|+. +|+..+.++.+.+| |..+-....+++
T Consensus       212 A~~aLg~~~~~-~av~~Li~~L~~~~--~~~~a~~ALg~ig~~-~a~p~L~~l~~~~~-d~~v~~~a~~a~  277 (280)
T PRK09687        212 AIIGLALRKDK-RVLSVLIKELKKGT--VGDLIIEAAGELGDK-TLLPVLDTLLYKFD-DNEIITKAIDKL  277 (280)
T ss_pred             HHHHHHccCCh-hHHHHHHHHHcCCc--hHHHHHHHHHhcCCH-hHHHHHHHHHhhCC-ChhHHHHHHHHH
Confidence            55666666653 33333333311223  223455666666664 56666777666665 444444444443

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=92.35  E-value=9.1  Score=35.32  Aligned_cols=125  Identities=12%  Similarity=0.116  Sum_probs=73.8

Q ss_pred             HHHHHhhccCChHHHHHHHHHHHHhC-----CCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCC-------CCcc-----
Q 041384          338 AILSSCTRQSFLSHGLGVHCYIMKAG-----LNFDVSIGNALMNMYSKCGSITSSHQIFNEMAA-------RDFV-----  400 (580)
Q Consensus       338 ~ll~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~~~~-----  400 (580)
                      ++-.++...+.++++++.|+...+..     ......++..|...|.+..+.++|.-+..+..+       .|..     
T Consensus       127 ~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~  206 (518)
T KOG1941|consen  127 SMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRA  206 (518)
T ss_pred             hHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHH
Confidence            35556666677777877777766521     122355677777778777777776655443322       2322     


Q ss_pred             -hHHHHHHHHHhcCChHHHHHHHHHHHH----cCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 041384          401 -SWTTLISGYGFHGYGEEALQLFLEMQE----SGVEPD-AITVLAILSACNHAGLVKEAETLFNNVMK  462 (580)
Q Consensus       401 -~~~~l~~~~~~~~~~~~a~~~~~~~~~----~g~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  462 (580)
                       ....|..++...|+...|.+.-++..+    .|-+|- ......+.+.|...|+.+.|..-|+.++.
T Consensus       207 ~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~Am~  274 (518)
T KOG1941|consen  207 MSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQAMG  274 (518)
T ss_pred             HHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHHHH
Confidence             222344556667777777776666543    233332 13344566677778888887777777554

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=92.10  E-value=9.6  Score=35.01  Aligned_cols=133  Identities=11%  Similarity=0.104  Sum_probs=78.3

Q ss_pred             hhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc--CC----CchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHH
Q 041384          212 YDTGIDLFRAMQREGVKPTRVTLTIVLLACAE--LR----DLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHP  285 (580)
Q Consensus       212 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~--~~----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  285 (580)
                      +++.+++++.|.+.|++-+..+|.+.......  ..    ....+..+++.|++.-+-.+                    
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLT--------------------  137 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLT--------------------  137 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCcccc--------------------
Confidence            34566788899999998888887664443333  22    23456666666666533211                    


Q ss_pred             HHHHHhhCCCCChhhHHHHHHHHHhCCC----hhHHHHHHHHHHHCCCCCCH--HHHHHHHHHhhccCC--hHHHHHHHH
Q 041384          286 ARIIFERTKVKDVVIWSSIIRGYSQSGD----LSEAMKLFSRMRLERIEPNS--VTLLAILSSCTRQSF--LSHGLGVHC  357 (580)
Q Consensus       286 a~~~~~~~~~~~~~~~~~l~~~~~~~~~----~~~a~~~~~~m~~~~~~p~~--~~~~~ll~~~~~~~~--~~~a~~~~~  357 (580)
                               .++-..+..++..  ..++    .+.++..|+.+.+.|+..+.  ...+.++..+.....  ..++.++++
T Consensus       138 ---------s~~D~~~a~lLA~--~~~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~  206 (297)
T PF13170_consen  138 ---------SPEDYPFAALLAM--TSEDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYN  206 (297)
T ss_pred             ---------CccchhHHHHHhc--ccccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHH
Confidence                     1122233333322  2222    35677788888887766543  344455544433333  447888888


Q ss_pred             HHHHhCCCCchhHHHHHH
Q 041384          358 YIMKAGLNFDVSIGNALM  375 (580)
Q Consensus       358 ~~~~~~~~~~~~~~~~l~  375 (580)
                      .+.+.|+++....|..+.
T Consensus       207 ~l~~~~~kik~~~yp~lG  224 (297)
T PF13170_consen  207 ALKKNGVKIKYMHYPTLG  224 (297)
T ss_pred             HHHHcCCccccccccHHH
Confidence            999999888877766554

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=91.85  E-value=0.38  Score=26.59  Aligned_cols=25  Identities=16%  Similarity=0.127  Sum_probs=12.1

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHh
Q 041384          540 TLLSMVCSESGNWLGAEEVWRVMRA  564 (580)
Q Consensus       540 ~~l~~~~~~~g~~~~A~~~~~~~~~  564 (580)
                      ..++.++.+.|++++|.+.|+++++
T Consensus         4 ~~~a~~~~~~g~~~~A~~~~~~~~~   28 (33)
T PF13174_consen    4 YRLARCYYKLGDYDEAIEYFQRLIK   28 (33)
T ss_dssp             HHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHH
Confidence            3444444445555555555554444

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=91.85  E-value=4.4  Score=33.86  Aligned_cols=96  Identities=13%  Similarity=0.045  Sum_probs=54.0

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHhccCCHHHHHHHHHHHHHhh--CCCCChhHHHHH
Q 041384          401 SWTTLISGYGFHGYGEEALQLFLEMQESGVEPDA--ITVLAILSACNHAGLVKEAETLFNNVMKEK--KIALAIEHYACY  476 (580)
Q Consensus       401 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~l  476 (580)
                      .+..+..-|.+.|+.+.|++.|.++.+....|..  ..+..+++.....+++..+.....++-...  +-.++...--..
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk~  117 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLKV  117 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHHH
Confidence            4555666777777777777777777766444433  345566667777777777777766632211  111111111111


Q ss_pred             HH--HhhhcCChHHHHHHHHhC
Q 041384          477 VD--LLGKSGKIEDACKVVSTM  496 (580)
Q Consensus       477 ~~--~~~~~g~~~~A~~~~~~~  496 (580)
                      ..  .+...+++.+|-+.|-+.
T Consensus       118 ~~gL~~l~~r~f~~AA~~fl~~  139 (177)
T PF10602_consen  118 YEGLANLAQRDFKEAAELFLDS  139 (177)
T ss_pred             HHHHHHHHhchHHHHHHHHHcc
Confidence            11  223466777777777665

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.

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=91.83  E-value=6.8  Score=32.73  Aligned_cols=114  Identities=10%  Similarity=0.031  Sum_probs=70.6

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHH--HHHHHHhccCCHHHHHHHHHHHHHhhCCCCC----hhHHHHHHHHhhhcCChHHHH
Q 041384          417 EALQLFLEMQESGVEPDAITVL--AILSACNHAGLVKEAETLFNNVMKEKKIALA----IEHYACYVDLLGKSGKIEDAC  490 (580)
Q Consensus       417 ~a~~~~~~~~~~g~~p~~~~~~--~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~  490 (580)
                      +.....+.+....-....-++.  .+...+...+++++|...++..+.   .+.|    ...--.|.......|.+++|+
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 KSIAAAEKFVQANGKTIYAVLAALELAKAEVEANNLDKAEAQLKQALA---QTKDENLKALAALRLARVQLQQKKADAAL  146 (207)
T ss_pred             hhHHHHHHHHhhccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHc---cchhHHHHHHHHHHHHHHHHHhhhHHHHH
Confidence            4455555565531111112222  233456778889999888887543   1122    111223556677889999999


Q ss_pred             HHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 041384          491 KVVSTMPMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEP  533 (580)
Q Consensus       491 ~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  533 (580)
                      ..++....+- .......-.+.+...|+-++|...|+++.+.++
T Consensus       147 ~~L~t~~~~~w~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~~  190 (207)
T COG2976         147 KTLDTIKEESWAAIVAELRGDILLAKGDKQEARAAYEKALESDA  190 (207)
T ss_pred             HHHhccccccHHHHHHHHhhhHHHHcCchHHHHHHHHHHHHccC
Confidence            9998775221 222344456678899999999999999998873

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=91.78  E-value=7.4  Score=34.70  Aligned_cols=61  Identities=15%  Similarity=0.152  Sum_probs=53.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 041384          504 ILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRA  564 (580)
Q Consensus       504 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (580)
                      +++.....|...|.+.+|.++-++++..+|-+...+-.+...+...|+--.|.+.++++.+
T Consensus       281 llgkva~~yle~g~~neAi~l~qr~ltldpL~e~~nk~lm~~la~~gD~is~~khyerya~  341 (361)
T COG3947         281 LLGKVARAYLEAGKPNEAIQLHQRALTLDPLSEQDNKGLMASLATLGDEISAIKHYERYAE  341 (361)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHhhcChhhhHHHHHHHHHHHHhccchhhhhHHHHHHH
Confidence            4555667789999999999999999999999999999999999999998888888877643

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.37  E-value=1.9  Score=38.57  Aligned_cols=103  Identities=16%  Similarity=0.162  Sum_probs=72.0

Q ss_pred             hCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCCC-Cc-----chHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH
Q 041384          362 AGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAAR-DF-----VSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAI  435 (580)
Q Consensus       362 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~  435 (580)
                      .|.+.+..+...++..-....+++.+...+-++... +.     .+-...++.+. .-++++++.++..=+.-|+-||..
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irlll-ky~pq~~i~~l~npIqYGiF~dqf  136 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLLL-KYDPQKAIYTLVNPIQYGIFPDQF  136 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHHHH-ccChHHHHHHHhCcchhccccchh
Confidence            455555555566666666667777777777766642 11     11112222222 336788999988888999999999


Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHhhC
Q 041384          436 TVLAILSACNHAGLVKEAETLFNNVMKEKK  465 (580)
Q Consensus       436 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  465 (580)
                      ++..+++.+.+.+++.+|.++...++...-
T Consensus       137 ~~c~l~D~flk~~n~~~aa~vvt~~~~qe~  166 (418)
T KOG4570|consen  137 TFCLLMDSFLKKENYKDAASVVTEVMMQEA  166 (418)
T ss_pred             hHHHHHHHHHhcccHHHHHHHHHHHHHHHH
Confidence            999999999999999999999888776443

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=91.22  E-value=7.1  Score=31.83  Aligned_cols=118  Identities=10%  Similarity=0.078  Sum_probs=63.8

Q ss_pred             hHhcCCHHHHHHHHhcCCCCCcchHHHHH-----HHHHhcCChHHHHHHHHHHHHcCCCCCHH-HHHHH--HHHHhccCC
Q 041384          378 YSKCGSITSSHQIFNEMAARDFVSWTTLI-----SGYGFHGYGEEALQLFLEMQESGVEPDAI-TVLAI--LSACNHAGL  449 (580)
Q Consensus       378 ~~~~g~~~~A~~~~~~~~~~~~~~~~~l~-----~~~~~~~~~~~a~~~~~~~~~~g~~p~~~-~~~~l--~~~~~~~~~  449 (580)
                      +.+.++.++|+.-|..+.+.+.-.|..|.     ......|+...|...|++.-...-.|-.. -...|  .-.+...|.
T Consensus        68 lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gs  147 (221)
T COG4649          68 LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGS  147 (221)
T ss_pred             HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhcccc
Confidence            34556667777777776666555555443     23455666777777777766542223221 11111  123445666


Q ss_pred             HHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC
Q 041384          450 VKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM  496 (580)
Q Consensus       450 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  496 (580)
                      ++......+. +...+-+.-...-..|.-+-.+.|++.+|.+.|..+
T Consensus       148 y~dV~srvep-La~d~n~mR~sArEALglAa~kagd~a~A~~~F~qi  193 (221)
T COG4649         148 YDDVSSRVEP-LAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQI  193 (221)
T ss_pred             HHHHHHHhhh-ccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHH
Confidence            6666666665 322333333334445555556677777777777665

>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=91.08  E-value=0.37  Score=25.09  Aligned_cols=24  Identities=21%  Similarity=0.087  Sum_probs=16.6

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHH
Q 041384          537 ANYTLLSMVCSESGNWLGAEEVWR  560 (580)
Q Consensus       537 ~~~~~l~~~~~~~g~~~~A~~~~~  560 (580)
                      .....++.++...|+.++|..+++
T Consensus         2 ~a~~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    2 RARLALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHh
Confidence            345667777777777777777664

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

>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=90.98  E-value=0.047  Score=44.01  Aligned_cols=85  Identities=13%  Similarity=0.285  Sum_probs=61.6

Q ss_pred             HHHHHhhcccchhHHHHHHHHHHHHhCCCCChhHHHHHHHHHHcCCCchHHHHhhccCCCCCccchHHHHHHHHhCCChh
Q 041384           32 SVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYV  111 (580)
Q Consensus        32 ~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~  111 (580)
                      .+++.+...+.. ......++.+...+...+....+.++..|++.++.+...++++...   ..-...++..+.+.|.++
T Consensus        12 ~vi~~~~~~~~~-~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~---~yd~~~~~~~c~~~~l~~   87 (143)
T PF00637_consen   12 EVISAFEERNQP-EELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSN---NYDLDKALRLCEKHGLYE   87 (143)
T ss_dssp             CCHHHCTTTT-G-GGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSS---SS-CTHHHHHHHTTTSHH
T ss_pred             HHHHHHHhCCCH-HHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHccccc---ccCHHHHHHHHHhcchHH
Confidence            345556666666 7777888888877766778899999999999988899999888433   244456777777777777


Q ss_pred             HHHHHHHHH
Q 041384          112 RSLEMFREM  120 (580)
Q Consensus       112 ~a~~~~~~m  120 (580)
                      .+.-++.++
T Consensus        88 ~a~~Ly~~~   96 (143)
T PF00637_consen   88 EAVYLYSKL   96 (143)
T ss_dssp             HHHHHHHCC
T ss_pred             HHHHHHHHc
Confidence            777777665

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=90.96  E-value=0.38  Score=26.62  Aligned_cols=31  Identities=23%  Similarity=0.241  Sum_probs=27.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 041384          505 LSSLVSACRIHGRLEVAEMLAHQLIEAEPEN  535 (580)
Q Consensus       505 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~  535 (580)
                      +-.+..++.+.|++++|.+.++++.+..|++
T Consensus         3 ~~~~a~~~~~~g~~~~A~~~~~~~~~~~P~s   33 (33)
T PF13174_consen    3 LYRLARCYYKLGDYDEAIEYFQRLIKRYPDS   33 (33)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHCcCC
Confidence            4457788889999999999999999999874

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=90.90  E-value=13  Score=34.19  Aligned_cols=62  Identities=18%  Similarity=0.267  Sum_probs=36.1

Q ss_pred             HHHHHHHHHHHHcCCCCCH--HHHHHHHHHHhccCC--HHHHHHHHHHHHHhhCCCCChhHHHHHHH
Q 041384          416 EEALQLFLEMQESGVEPDA--ITVLAILSACNHAGL--VKEAETLFNNVMKEKKIALAIEHYACYVD  478 (580)
Q Consensus       416 ~~a~~~~~~~~~~g~~p~~--~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  478 (580)
                      +.+..+|+.+.+.|+..+.  .....++..+.....  ...+..+++. +++.++++....|..+.-
T Consensus       160 ~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~-l~~~~~kik~~~yp~lGl  225 (297)
T PF13170_consen  160 ERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNA-LKKNGVKIKYMHYPTLGL  225 (297)
T ss_pred             HHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHH-HHHcCCccccccccHHHH
Confidence            5566777777777776633  333333333322222  4467777777 556788877766665543

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=90.87  E-value=0.63  Score=25.96  Aligned_cols=29  Identities=17%  Similarity=0.194  Sum_probs=25.9

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 041384          537 ANYTLLSMVCSESGNWLGAEEVWRVMRAK  565 (580)
Q Consensus       537 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (580)
                      .+|..++.+|...|++++|.+.|++..+.
T Consensus         2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~~   30 (34)
T PF13181_consen    2 EAYYNLGKIYEQLGDYEEALEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTTSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            46889999999999999999999998764

...

>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=90.72  E-value=8.2  Score=31.64  Aligned_cols=41  Identities=17%  Similarity=0.242  Sum_probs=19.7

Q ss_pred             CChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHH
Q 041384          296 KDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAIL  340 (580)
Q Consensus       296 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll  340 (580)
                      ++...+..++..+.+.|++.    .+..+...++-+|+......+
T Consensus        27 ~~~~L~~lli~lLi~~~~~~----~L~qllq~~Vi~DSk~lA~~L   67 (167)
T PF07035_consen   27 VQHELYELLIDLLIRNGQFS----QLHQLLQYHVIPDSKPLACQL   67 (167)
T ss_pred             CCHHHHHHHHHHHHHcCCHH----HHHHHHhhcccCCcHHHHHHH
Confidence            34444555555555555433    233444445555555544443

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=90.67  E-value=0.53  Score=27.81  Aligned_cols=28  Identities=14%  Similarity=0.099  Sum_probs=22.3

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 041384          537 ANYTLLSMVCSESGNWLGAEEVWRVMRA  564 (580)
Q Consensus       537 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (580)
                      .++..|+.+|...|++++|..++++..+
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            4678888888889999999988888765

>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=90.61  E-value=13  Score=33.89  Aligned_cols=157  Identities=13%  Similarity=0.055  Sum_probs=77.3

Q ss_pred             hHHHHHHHHHhcCCh---HHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHH
Q 041384          401 SWTTLISGYGFHGYG---EEALQLFLEMQESGVEPD-AITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACY  476 (580)
Q Consensus       401 ~~~~l~~~~~~~~~~---~~a~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  476 (580)
                      +...++.+|...+..   ++|..+++.+...  .|+ +..+..-+..+.+.++.+.+.+.+.+|+...+  .....+..+
T Consensus        86 iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e--~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~--~~e~~~~~~  161 (278)
T PF08631_consen   86 ILRLLANAYLEWDTYESVEKALNALRLLESE--YGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSVD--HSESNFDSI  161 (278)
T ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHHHHHh--CCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhcc--cccchHHHH
Confidence            445566666665543   3455566666543  343 34555556666667788888888888776333  122233333


Q ss_pred             HHHh---hhcCChHHHHHHHHhC---CCCCCHH-HHH-HHH---HHHHhcCC------HHHHHHHHHHHHhc--CCCCch
Q 041384          477 VDLL---GKSGKIEDACKVVSTM---PMKPSTR-ILS-SLV---SACRIHGR------LEVAEMLAHQLIEA--EPENAA  537 (580)
Q Consensus       477 ~~~~---~~~g~~~~A~~~~~~~---~~~p~~~-~~~-~l~---~~~~~~~~------~~~A~~~~~~~~~~--~~~~~~  537 (580)
                      +..+   .... ...|...++.+   ...|... ... .++   ....+.++      .+...++++.+.+.  .|-++.
T Consensus       162 l~~i~~l~~~~-~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~~  240 (278)
T PF08631_consen  162 LHHIKQLAEKS-PELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLSAE  240 (278)
T ss_pred             HHHHHHHHhhC-cHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCCHH
Confidence            3333   3222 33444444444   1233222 111 111   11122222      34444445533332  233333


Q ss_pred             H---HHH----HHHHHHhcCChHHHHHHHHHH
Q 041384          538 N---YTL----LSMVCSESGNWLGAEEVWRVM  562 (580)
Q Consensus       538 ~---~~~----l~~~~~~~g~~~~A~~~~~~~  562 (580)
                      +   ...    -+..+++.++|++|.+.++-.
T Consensus       241 ~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~a  272 (278)
T PF08631_consen  241 AASAIHTLLWNKGKKHYKAKNYDEAIEWYELA  272 (278)
T ss_pred             HHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHH
Confidence            3   222    244567899999999998754

It is also involved in sporulation [].

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.57  E-value=11  Score=32.80  Aligned_cols=61  Identities=11%  Similarity=0.050  Sum_probs=38.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcC------CCCchHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 041384          504 ILSSLVSACRIHGRLEVAEMLAHQLIEAE------PENAANYTLLSMVCSESGNWLGAEEVWRVMRA  564 (580)
Q Consensus       504 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (580)
                      .+..+.+.+.+...+.+|-..+.+-....      +.--..+...+-+|....++..|...++.--.
T Consensus       152 l~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~q  218 (308)
T KOG1585|consen  152 LYGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQ  218 (308)
T ss_pred             HHHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhc
Confidence            34455567777788877766655543221      33333466666677778899999988876433

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=90.50  E-value=20  Score=35.69  Aligned_cols=120  Identities=18%  Similarity=0.100  Sum_probs=68.6

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHH-
Q 041384          435 ITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP--MKPSTRILSSLVSA-  511 (580)
Q Consensus       435 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~-  511 (580)
                      .+|...++--...|+.+.+.-+|+..+-  ....-...|-..+.-....|+.+-|..++....  ..|+......+-.+ 
T Consensus       298 ~nw~~yLdf~i~~g~~~~~~~l~ercli--~cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f  375 (577)
T KOG1258|consen  298 KNWRYYLDFEITLGDFSRVFILFERCLI--PCALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEARF  375 (577)
T ss_pred             HHHHHHhhhhhhcccHHHHHHHHHHHHh--HHhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHHH
Confidence            5666666666777777777777776432  111223345555555555677777776666552  22222222222222 


Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHH
Q 041384          512 CRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAE  556 (580)
Q Consensus       512 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  556 (580)
                      +-..|+++.|..+++...+.-|....+-..-+....+.|+.+.+.
T Consensus       376 ~e~~~n~~~A~~~lq~i~~e~pg~v~~~l~~~~~e~r~~~~~~~~  420 (577)
T KOG1258|consen  376 EESNGNFDDAKVILQRIESEYPGLVEVVLRKINWERRKGNLEDAN  420 (577)
T ss_pred             HHhhccHHHHHHHHHHHHhhCCchhhhHHHHHhHHHHhcchhhhh
Confidence            233567777777777777666665555555555556677777666

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=90.46  E-value=17  Score=34.94  Aligned_cols=127  Identities=7%  Similarity=0.011  Sum_probs=83.0

Q ss_pred             HHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCC---CCeehHHHHHHHHHhcCCh
Q 041384          136 ISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVI---RNEVSWTAMISGCIDSQNY  212 (580)
Q Consensus       136 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~  212 (580)
                      |.-....||+-.|-+-+...++.-+-.|+..  ......+...|+++.+...+.....   ....+...+++...+.|++
T Consensus       296 i~k~~~~gd~~aas~~~~~~lr~~~~~p~~i--~l~~~i~~~lg~ye~~~~~~s~~~~~~~s~~~~~~~~~r~~~~l~r~  373 (831)
T PRK15180        296 ITKQLADGDIIAASQQLFAALRNQQQDPVLI--QLRSVIFSHLGYYEQAYQDISDVEKIIGTTDSTLRCRLRSLHGLARW  373 (831)
T ss_pred             HHHHhhccCHHHHHHHHHHHHHhCCCCchhh--HHHHHHHHHhhhHHHHHHHhhchhhhhcCCchHHHHHHHhhhchhhH
Confidence            3334456777766555555554431334433  3334456778999999998877633   3666778889999999999


Q ss_pred             hHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCCc
Q 041384          213 DTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFD  265 (580)
Q Consensus       213 ~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  265 (580)
                      +.|..+-.-|....+. +...........-..|-++++...|+++...+.+.+
T Consensus       374 ~~a~s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~~~~~  425 (831)
T PRK15180        374 REALSTAEMMLSNEIE-DEEVLTVAAGSADALQLFDKSYHYWKRVLLLNPETQ  425 (831)
T ss_pred             HHHHHHHHHHhccccC-ChhheeeecccHHHHhHHHHHHHHHHHHhccCChhc
Confidence            9999999988877654 333333333334455778888888888876554433

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=90.43  E-value=10  Score=32.27  Aligned_cols=26  Identities=15%  Similarity=0.211  Sum_probs=15.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHH
Q 041384          538 NYTLLSMVCSESGNWLGAEEVWRVMR  563 (580)
Q Consensus       538 ~~~~l~~~~~~~g~~~~A~~~~~~~~  563 (580)
                      +|..|++.+...|+.++|..+|+-.+
T Consensus       239 tyFYL~K~~l~~G~~~~A~~LfKLai  264 (297)
T COG4785         239 TYFYLGKYYLSLGDLDEATALFKLAV  264 (297)
T ss_pred             HHHHHHHHHhccccHHHHHHHHHHHH
Confidence            35556666666666666666665443

>PRK09687 putative lyase; Provisional

Probab=90.43  E-value=14  Score=33.75  Aligned_cols=121  Identities=12%  Similarity=-0.010  Sum_probs=56.9

Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcC-ChHHHHHHHHhCCCCCCHHHHHHHHHH
Q 041384          433 DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSG-KIEDACKVVSTMPMKPSTRILSSLVSA  511 (580)
Q Consensus       433 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~p~~~~~~~l~~~  511 (580)
                      +..+-...+.++.+.++ ..+...+-.+++    .++..+-..-+.++.+.+ +..++...+..+-..++..+-...+.+
T Consensus       141 ~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~----d~~~~VR~~A~~aLg~~~~~~~~~~~~L~~~L~D~~~~VR~~A~~a  215 (280)
T PRK09687        141 STNVRFAVAFALSVIND-EAAIPLLINLLK----DPNGDVRNWAAFALNSNKYDNPDIREAFVAMLQDKNEEIRIEAIIG  215 (280)
T ss_pred             CHHHHHHHHHHHhccCC-HHHHHHHHHHhc----CCCHHHHHHHHHHHhcCCCCCHHHHHHHHHHhcCCChHHHHHHHHH
Confidence            44444455555555554 334444444343    233334444444444432 133444444444335555555556666


Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 041384          512 CRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRA  564 (580)
Q Consensus       512 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (580)
                      +.+.|+ ..|+..+-+..+.+.    .....+.++.+.|.- +|...+.++.+
T Consensus       216 Lg~~~~-~~av~~Li~~L~~~~----~~~~a~~ALg~ig~~-~a~p~L~~l~~  262 (280)
T PRK09687        216 LALRKD-KRVLSVLIKELKKGT----VGDLIIEAAGELGDK-TLLPVLDTLLY  262 (280)
T ss_pred             HHccCC-hhHHHHHHHHHcCCc----hHHHHHHHHHhcCCH-hHHHHHHHHHh
Confidence            666555 344444444433221    234455555566653 45555555554

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=90.39  E-value=0.91  Score=41.01  Aligned_cols=100  Identities=14%  Similarity=-0.021  Sum_probs=66.6

Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHhhCCCC-ChhHHHHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcC
Q 041384          440 ILSACNHAGLVKEAETLFNNVMKEKKIAL-AIEHYACYVDLLGKSGKIEDACKVVSTMP--MKPSTRILSSLVSACRIHG  516 (580)
Q Consensus       440 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~  516 (580)
                      -.+-|.++|.+++|+..|...+.   ..| +..++..-..+|.+..++..|+.=.+...  ...-...|..-+.+-...|
T Consensus       103 ~GN~yFKQgKy~EAIDCYs~~ia---~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~Y~KAYSRR~~AR~~Lg  179 (536)
T KOG4648|consen  103 RGNTYFKQGKYEEAIDCYSTAIA---VYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKLYVKAYSRRMQARESLG  179 (536)
T ss_pred             hhhhhhhccchhHHHHHhhhhhc---cCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHh
Confidence            35678899999999999998664   334 66666667778888888876665444432  1111223444444444567


Q ss_pred             CHHHHHHHHHHHHhcCCCCchHHHHH
Q 041384          517 RLEVAEMLAHQLIEAEPENAANYTLL  542 (580)
Q Consensus       517 ~~~~A~~~~~~~~~~~~~~~~~~~~l  542 (580)
                      ...+|.+-++.++++.|.+...--.+
T Consensus       180 ~~~EAKkD~E~vL~LEP~~~ELkK~~  205 (536)
T KOG4648|consen  180 NNMEAKKDCETVLALEPKNIELKKSL  205 (536)
T ss_pred             hHHHHHHhHHHHHhhCcccHHHHHHH
Confidence            88888888899999999866543333

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=90.31  E-value=10  Score=32.21  Aligned_cols=164  Identities=14%  Similarity=0.039  Sum_probs=90.1

Q ss_pred             hhHHHHHHHHhHhcCCHHHHHHHHhcCCCCCcc-hHHHHHH--HHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 041384          368 VSIGNALMNMYSKCGSITSSHQIFNEMAARDFV-SWTTLIS--GYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSAC  444 (580)
Q Consensus       368 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~l~~--~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~  444 (580)
                      +.+||-+.-.+...|+++.|.+.|+...+-|+. -|..+=+  ++--.|++.-|.+-+...-..  .|+...-...+-.-
T Consensus        99 ~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~~YY~gR~~LAq~d~~~fYQ~--D~~DPfR~LWLYl~  176 (297)
T COG4785          99 PEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRYKLAQDDLLAFYQD--DPNDPFRSLWLYLN  176 (297)
T ss_pred             HHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccceeeeecCchHhhHHHHHHHHhc--CCCChHHHHHHHHH
Confidence            567777777778889999999999888775442 2322222  233457888888777776654  33222111111112


Q ss_pred             hccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHH-HhhhcCChHHHHHHHHhCCC------CCCHHHHHHHHHHHHhcCC
Q 041384          445 NHAGLVKEAETLFNNVMKEKKIALAIEHYACYVD-LLGKSGKIEDACKVVSTMPM------KPSTRILSSLVSACRIHGR  517 (580)
Q Consensus       445 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~-~~~~~g~~~~A~~~~~~~~~------~p~~~~~~~l~~~~~~~~~  517 (580)
                      ...-++.+|..-+.+-.    ...+..-|...+- .|.-.=..+.+.+-...-..      +.=..+|.-+.+-+...|+
T Consensus       177 E~k~dP~~A~tnL~qR~----~~~d~e~WG~~iV~~yLgkiS~e~l~~~~~a~a~~n~~~Ae~LTEtyFYL~K~~l~~G~  252 (297)
T COG4785         177 EQKLDPKQAKTNLKQRA----EKSDKEQWGWNIVEFYLGKISEETLMERLKADATDNTSLAEHLTETYFYLGKYYLSLGD  252 (297)
T ss_pred             HhhCCHHHHHHHHHHHH----HhccHhhhhHHHHHHHHhhccHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHhcccc
Confidence            23446666665554411    1233333433332 22211112222222211110      0113567778888999999


Q ss_pred             HHHHHHHHHHHHhcCCCCch
Q 041384          518 LEVAEMLAHQLIEAEPENAA  537 (580)
Q Consensus       518 ~~~A~~~~~~~~~~~~~~~~  537 (580)
                      .++|..+|+-+...+.-|-.
T Consensus       253 ~~~A~~LfKLaiannVynfV  272 (297)
T COG4785         253 LDEATALFKLAVANNVYNFV  272 (297)
T ss_pred             HHHHHHHHHHHHHHhHHHHH
Confidence            99999999999887654433

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=90.04  E-value=0.63  Score=28.03  Aligned_cols=27  Identities=26%  Similarity=0.286  Sum_probs=21.9

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCC
Q 041384          540 TLLSMVCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       540 ~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      ..|+.+|...|+.+.|++++++....|
T Consensus         3 LdLA~ayie~Gd~e~Ar~lL~evl~~~   29 (44)
T TIGR03504         3 LDLARAYIEMGDLEGARELLEEVIEEG   29 (44)
T ss_pred             hHHHHHHHHcCChHHHHHHHHHHHHcC
Confidence            357888888999999999988888654

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.

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=90.04  E-value=6.6  Score=37.55  Aligned_cols=123  Identities=15%  Similarity=0.138  Sum_probs=71.1

Q ss_pred             HHhcCChHHHHHHH-HHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChH
Q 041384          409 YGFHGYGEEALQLF-LEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIE  487 (580)
Q Consensus       409 ~~~~~~~~~a~~~~-~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  487 (580)
                      ....|+...|-+-+ ..++...-.|+......  ..+...|+++.+.+.+..+ + .-+.....+...+++...+.|+++
T Consensus       299 ~~~~gd~~aas~~~~~~lr~~~~~p~~i~l~~--~i~~~lg~ye~~~~~~s~~-~-~~~~s~~~~~~~~~r~~~~l~r~~  374 (831)
T PRK15180        299 QLADGDIIAASQQLFAALRNQQQDPVLIQLRS--VIFSHLGYYEQAYQDISDV-E-KIIGTTDSTLRCRLRSLHGLARWR  374 (831)
T ss_pred             HhhccCHHHHHHHHHHHHHhCCCCchhhHHHH--HHHHHhhhHHHHHHHhhch-h-hhhcCCchHHHHHHHhhhchhhHH
Confidence            34456666555443 33444322333333322  3345678888887777763 2 233445556777777777788888


Q ss_pred             HHHHHHHhCC-CC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 041384          488 DACKVVSTMP-MK-PSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPEN  535 (580)
Q Consensus       488 ~A~~~~~~~~-~~-p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~  535 (580)
                      +|...-.-|. .+ .++.............|-++++...++++..++|+.
T Consensus       375 ~a~s~a~~~l~~eie~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~~~~  424 (831)
T PRK15180        375 EALSTAEMMLSNEIEDEEVLTVAAGSADALQLFDKSYHYWKRVLLLNPET  424 (831)
T ss_pred             HHHHHHHHHhccccCChhheeeecccHHHHhHHHHHHHHHHHHhccCChh
Confidence            8877776662 11 233333333344455677778888888888777653

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=90.00  E-value=3.9  Score=32.39  Aligned_cols=93  Identities=10%  Similarity=0.173  Sum_probs=55.3

Q ss_pred             HHHHHHHHHH---HhccCCHHHHHHHHHHHHHhhCCCCC---hhHHHHHHHHhhhcCChHHHHHHHHhCCCCC-CHHHHH
Q 041384          434 AITVLAILSA---CNHAGLVKEAETLFNNVMKEKKIALA---IEHYACYVDLLGKSGKIEDACKVVSTMPMKP-STRILS  506 (580)
Q Consensus       434 ~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p-~~~~~~  506 (580)
                      ....+.|++.   -...++.+++..++..+-   -+.|.   ..++.  ...+...|++.+|+++|++....+ ....-.
T Consensus         7 ~~iv~gLi~~~~~aL~~~d~~D~e~lLdALr---vLrP~~~e~d~~d--g~l~i~rg~w~eA~rvlr~l~~~~~~~p~~k   81 (153)
T TIGR02561         7 NRLLGGLIEVLMYALRSADPYDAQAMLDALR---VLRPNLKELDMFD--GWLLIARGNYDEAARILRELLSSAGAPPYGK   81 (153)
T ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH---HhCCCccccchhH--HHHHHHcCCHHHHHHHHHhhhccCCCchHHH
Confidence            3444555543   345889999999999843   34454   44443  345678999999999999996443 444444


Q ss_pred             HHHHHHHhc-CCHHHHHHHHHHHHhcC
Q 041384          507 SLVSACRIH-GRLEVAEMLAHQLIEAE  532 (580)
Q Consensus       507 ~l~~~~~~~-~~~~~A~~~~~~~~~~~  532 (580)
                      .|...|... ||. .=......+.+.+
T Consensus        82 AL~A~CL~al~Dp-~Wr~~A~~~le~~  107 (153)
T TIGR02561        82 ALLALCLNAKGDA-EWHVHADEVLARD  107 (153)
T ss_pred             HHHHHHHHhcCCh-HHHHHHHHHHHhC
Confidence            555445443 433 3333344444433

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=89.91  E-value=1.5  Score=37.09  Aligned_cols=73  Identities=16%  Similarity=0.112  Sum_probs=52.7

Q ss_pred             HHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCc---hHHHHHHH
Q 041384          472 HYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENA---ANYTLLSM  544 (580)
Q Consensus       472 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~---~~~~~l~~  544 (580)
                      +.+..+..+.+.+.+++|+...+.- +.+| |...-..++..+|-.|++++|..-++-+-+..|...   ..|..++.
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkakPtda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir   80 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAKPTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIR   80 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcCCccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHH
Confidence            3445566777888888888877654 4455 556677788888999999999888888888877643   34555554

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=89.47  E-value=11  Score=31.68  Aligned_cols=92  Identities=17%  Similarity=0.050  Sum_probs=54.3

Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCCH-----HHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCC-hhHHHHHHHHh
Q 041384          407 SGYGFHGYGEEALQLFLEMQESGVEPDA-----ITVLAILSACNHAGLVKEAETLFNNVMKEKKIALA-IEHYACYVDLL  480 (580)
Q Consensus       407 ~~~~~~~~~~~a~~~~~~~~~~g~~p~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~  480 (580)
                      .-+...|++++|..-|.+.++. ++|..     ..|..-..++.+.+.++.|+.-..+.++   +.|+ ......-..+|
T Consensus       103 N~~F~ngdyeeA~skY~~Ale~-cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaie---l~pty~kAl~RRAeay  178 (271)
T KOG4234|consen  103 NELFKNGDYEEANSKYQEALES-CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIE---LNPTYEKALERRAEAY  178 (271)
T ss_pred             HHhhhcccHHHHHHHHHHHHHh-CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHh---cCchhHHHHHHHHHHH
Confidence            4466778888888888887775 33322     2233333456677777777777766554   3333 11222234466


Q ss_pred             hhcCChHHHHHHHHhC-CCCCCH
Q 041384          481 GKSGKIEDACKVVSTM-PMKPST  502 (580)
Q Consensus       481 ~~~g~~~~A~~~~~~~-~~~p~~  502 (580)
                      .+...+++|+.=|.++ ...|..
T Consensus       179 ek~ek~eealeDyKki~E~dPs~  201 (271)
T KOG4234|consen  179 EKMEKYEEALEDYKKILESDPSR  201 (271)
T ss_pred             HhhhhHHHHHHHHHHHHHhCcch
Confidence            7777777777777666 344543

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=89.40  E-value=2.6  Score=30.32  Aligned_cols=62  Identities=19%  Similarity=0.221  Sum_probs=45.5

Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHH
Q 041384          415 GEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVD  478 (580)
Q Consensus       415 ~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  478 (580)
                      .-++.+-++.+....+.|++......+++|.+.+++..|.++++- ++ .....+...|..+++
T Consensus        23 ~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~-vK-~K~~~~~~~y~~~lq   84 (103)
T cd00923          23 GWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEA-IK-DKCGAHKEIYPYILQ   84 (103)
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHH-HH-HHccCchhhHHHHHH
Confidence            335556667777777899999999999999999999999999997 44 122224445665553

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.

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=89.37  E-value=4.3  Score=36.45  Aligned_cols=77  Identities=8%  Similarity=0.085  Sum_probs=59.8

Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHH-----hCCCCchhHHHHH
Q 041384          300 IWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMK-----AGLNFDVSIGNAL  374 (580)
Q Consensus       300 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~l  374 (580)
                      ++..++..+...|+.+.+...++++.... +-+...|..++.+|.+.|+...|+..|+.+.+     .|+.|.+.+....
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y  233 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALY  233 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHH
Confidence            45667778888888888888888888764 55777888888888888888888888887765     6788887766555


Q ss_pred             HHH
Q 041384          375 MNM  377 (580)
Q Consensus       375 ~~~  377 (580)
                      ...
T Consensus       234 ~~~  236 (280)
T COG3629         234 EEI  236 (280)
T ss_pred             HHH
Confidence            444

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=89.22  E-value=0.54  Score=26.47  Aligned_cols=31  Identities=16%  Similarity=0.045  Sum_probs=21.2

Q ss_pred             HHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHH
Q 041384          153 ALVIVDGSFELSVFVSTALLDLYSKCHHWLIAL  185 (580)
Q Consensus       153 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  185 (580)
                      ++.++..  |.+...|+.+...|...|++++|+
T Consensus         3 ~kAie~~--P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    3 KKAIELN--PNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             HHHHHHC--CCCHHHHHHHHHHHHHCcCHHhhc
Confidence            3344443  667777888888888888877775

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=89.20  E-value=3.3  Score=29.83  Aligned_cols=47  Identities=13%  Similarity=0.301  Sum_probs=37.6

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHH
Q 041384          497 PMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLS  543 (580)
Q Consensus       497 ~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~  543 (580)
                      ..-|++....+.+++|++.+|+..|+++++-....-..+...|..+.
T Consensus        37 DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~~~~~y~~~l   83 (103)
T cd00923          37 DLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGAHKEIYPYIL   83 (103)
T ss_pred             ccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccCchhhHHHHH
Confidence            46799999999999999999999999999988865544445565554

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.

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=88.96  E-value=2.4  Score=30.90  Aligned_cols=60  Identities=15%  Similarity=0.157  Sum_probs=41.3

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHH
Q 041384          417 EALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVD  478 (580)
Q Consensus       417 ~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  478 (580)
                      +..+-++.+....+.|++......+++|.+.+++..|.++++-+....+  +....|..+++
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            4555666677777899999999999999999999999999998433333  33436776664

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 ....

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=88.75  E-value=3.7  Score=29.96  Aligned_cols=48  Identities=15%  Similarity=0.292  Sum_probs=35.1

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHH
Q 041384          497 PMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSM  544 (580)
Q Consensus       497 ~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  544 (580)
                      -.-|++.+..+.+++|++.+|+..|+++++-+...-.+....|..+++
T Consensus        40 DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~~~~~Y~~~lq   87 (108)
T PF02284_consen   40 DLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGNKKEIYPYILQ   87 (108)
T ss_dssp             SB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT-TTHHHHHHH
T ss_pred             ccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccChHHHHHHHHH
Confidence            467999999999999999999999999999998766554446666553

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 ....

>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=88.72  E-value=1.3  Score=36.26  Aligned_cols=31  Identities=13%  Similarity=0.044  Sum_probs=14.2

Q ss_pred             HHHHHHHHHHHhcCCCCchHHHHHHHHHHhc
Q 041384          519 EVAEMLAHQLIEAEPENAANYTLLSMVCSES  549 (580)
Q Consensus       519 ~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~  549 (580)
                      ++|+.-|++++.++|+...++..++.+|...
T Consensus        52 edAisK~eeAL~I~P~~hdAlw~lGnA~ts~   82 (186)
T PF06552_consen   52 EDAISKFEEALKINPNKHDALWCLGNAYTSL   82 (186)
T ss_dssp             HHHHHHHHHHHHH-TT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCchHHHHHHHHHHHHHH
Confidence            3444444444455555555555555555443

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.

>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=88.71  E-value=13  Score=31.45  Aligned_cols=75  Identities=15%  Similarity=0.123  Sum_probs=53.7

Q ss_pred             hhhcCChHHHHHHHHhCCCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC----CCCchHHHHHHHHHHhcCCh
Q 041384          480 LGKSGKIEDACKVVSTMPMKP---STRILSSLVSACRIHGRLEVAEMLAHQLIEAE----PENAANYTLLSMVCSESGNW  552 (580)
Q Consensus       480 ~~~~g~~~~A~~~~~~~~~~p---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~----~~~~~~~~~l~~~~~~~g~~  552 (580)
                      ..+.|+ ++|.+.|-.++..|   ++.....|+ .|....|.++++.++-+++++.    ..|+.++..|+..+.+.|++
T Consensus       117 Wsr~~d-~~A~~~fL~~E~~~~l~t~elq~aLA-tyY~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~  194 (203)
T PF11207_consen  117 WSRFGD-QEALRRFLQLEGTPELETAELQYALA-TYYTKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNY  194 (203)
T ss_pred             hhccCc-HHHHHHHHHHcCCCCCCCHHHHHHHH-HHHHccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcch
Confidence            344555 56777777764333   334444444 4445678999999999999875    33789999999999999999


Q ss_pred             HHHH
Q 041384          553 LGAE  556 (580)
Q Consensus       553 ~~A~  556 (580)
                      +.|-
T Consensus       195 e~AY  198 (203)
T PF11207_consen  195 EQAY  198 (203)
T ss_pred             hhhh
Confidence            9874

>PRK11619 lytic murein transglycosylase; Provisional

Probab=88.32  E-value=35  Score=35.53  Aligned_cols=233  Identities=6%  Similarity=-0.122  Sum_probs=104.1

Q ss_pred             CCChhHHHHHHHHHHHCC-CCCCHH--HHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHH
Q 041384          311 SGDLSEAMKLFSRMRLER-IEPNSV--TLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSS  387 (580)
Q Consensus       311 ~~~~~~a~~~~~~m~~~~-~~p~~~--~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  387 (580)
                      ..+.+.|..++....... ..+...  ....+.......+..+++...+.......  .+......-+....+.++++.+
T Consensus       254 r~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~~~--~~~~~~e~r~r~Al~~~dw~~~  331 (644)
T PRK11619        254 RQDAENARLMIPSLVRAQKLNEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIMRS--QSTSLLERRVRMALGTGDRRGL  331 (644)
T ss_pred             HhCHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHhccccc--CCcHHHHHHHHHHHHccCHHHH
Confidence            344566777776653332 222221  22222222222222444544444433221  2333334444444566777777


Q ss_pred             HHHHhcCCCC---CcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHH-HHHHHHHHHh
Q 041384          388 HQIFNEMAAR---DFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEA-ETLFNNVMKE  463 (580)
Q Consensus       388 ~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a-~~~~~~~~~~  463 (580)
                      ...+..|...   ...-..-+..++...|+.++|...|+.+..   ..+  .|..|...  +.|..-.- ......... 
T Consensus       332 ~~~i~~L~~~~~~~~rw~YW~aRa~~~~g~~~~A~~~~~~~a~---~~~--fYG~LAa~--~Lg~~~~~~~~~~~~~~~-  403 (644)
T PRK11619        332 NTWLARLPMEAKEKDEWRYWQADLLLEQGRKAEAEEILRQLMQ---QRG--FYPMVAAQ--RLGEEYPLKIDKAPKPDS-  403 (644)
T ss_pred             HHHHHhcCHhhccCHhhHHHHHHHHHHcCCHHHHHHHHHHHhc---CCC--cHHHHHHH--HcCCCCCCCCCCCCchhh-
Confidence            7777666541   222333455565556777777777776532   111  22222211  11110000 000000000 


Q ss_pred             hCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC---CCCchHHH
Q 041384          464 KKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAE---PENAANYT  540 (580)
Q Consensus       464 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~  540 (580)
                       .+...  .--.-+..+...|+...|...+..+....+......+.....+.|..+.++....+....+   -.-|..|.
T Consensus       404 -~~~~~--~~~~ra~~L~~~g~~~~a~~ew~~~~~~~~~~~~~~la~~A~~~g~~~~ai~~~~~~~~~~~~~~rfp~~~~  480 (644)
T PRK11619        404 -ALTQG--PEMARVRELMYWNMDNTARSEWANLVASRSKTEQAQLARYAFNQQWWDLSVQATIAGKLWDHLEERFPLAWN  480 (644)
T ss_pred             -hhccC--hHHHHHHHHHHCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCHHHHHHHHhhchhHHHHHHhCCcchH
Confidence             00000  0112234556678888888777766434555555666666667777777776665443211   01122344


Q ss_pred             HHHHHHHhcCChHHHH
Q 041384          541 LLSMVCSESGNWLGAE  556 (580)
Q Consensus       541 ~l~~~~~~~g~~~~A~  556 (580)
                      ..+..+.+.-.++.+.
T Consensus       481 ~~~~~~a~~~~v~~~l  496 (644)
T PRK11619        481 DEFRRYTSGKGIPQSY  496 (644)
T ss_pred             HHHHHHHHHcCCCHHH
Confidence            4444444444455444

>PRK10941 hypothetical protein; Provisional

Probab=88.18  E-value=3.6  Score=36.95  Aligned_cols=63  Identities=14%  Similarity=0.104  Sum_probs=50.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 041384          504 ILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       504 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      ..+.+-.+|.+.++++.|+++.+.+....|+++.-+...+-+|.+.|.+..|..=++...+.-
T Consensus       183 ml~nLK~~~~~~~~~~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c~~~A~~DL~~fl~~~  245 (269)
T PRK10941        183 LLDTLKAALMEEKQMELALRASEALLQFDPEDPYEIRDRGLIYAQLDCEHVALSDLSYFVEQC  245 (269)
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHhC
Confidence            345566677888888888888888888888888888888888888888888888777776644

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=87.51  E-value=19  Score=31.67  Aligned_cols=73  Identities=12%  Similarity=0.027  Sum_probs=46.9

Q ss_pred             HHHhCCChhHHHHHHHHHHHCC--CCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhH
Q 041384          307 GYSQSGDLSEAMKLFSRMRLER--IEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYS  379 (580)
Q Consensus       307 ~~~~~~~~~~a~~~~~~m~~~~--~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  379 (580)
                      .-.+.|++++|...|+.+..+.  -+-...+...++.++.+.++.+.|....++..+.-......-|...|.+++
T Consensus        43 ~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgLs  117 (254)
T COG4105          43 TELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLS  117 (254)
T ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHHH
Confidence            3457788999999998887653  122345566667777788888888888888777433333333444444443

>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B

Probab=87.06  E-value=2.8  Score=30.30  Aligned_cols=52  Identities=17%  Similarity=0.054  Sum_probs=26.2

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC--CchHHHHHHHHHHhcCCh
Q 041384          501 STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPE--NAANYTLLSMVCSESGNW  552 (580)
Q Consensus       501 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~  552 (580)
                      |......+...+...|+++.|.+.+-.+.+.++.  +...-..++.++...|.-
T Consensus        21 D~~ar~~lA~~~~~~g~~e~Al~~Ll~~v~~dr~~~~~~ar~~ll~~f~~lg~~   74 (90)
T PF14561_consen   21 DLDARYALADALLAAGDYEEALDQLLELVRRDRDYEDDAARKRLLDIFELLGPG   74 (90)
T ss_dssp             -HHHHHHHHHHHHHTT-HHHHHHHHHHHHCC-TTCCCCHHHHHHHHHHHHH-TT
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccccccHHHHHHHHHHHHcCCC
Confidence            4445555555566666666666666666555533  344455555555555543

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=86.85  E-value=19  Score=35.91  Aligned_cols=44  Identities=14%  Similarity=0.005  Sum_probs=21.2

Q ss_pred             ccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC
Q 041384          446 HAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM  496 (580)
Q Consensus       446 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  496 (580)
                      +.|+++.|.++..+.       .+..-|..|.++....|++..|.+-|.+.
T Consensus       649 ~lgrl~iA~~la~e~-------~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a  692 (794)
T KOG0276|consen  649 KLGRLDIAFDLAVEA-------NSEVKWRQLGDAALSAGELPLASECFLRA  692 (794)
T ss_pred             hcCcHHHHHHHHHhh-------cchHHHHHHHHHHhhcccchhHHHHHHhh
Confidence            445555555544431       12233555555555555555555555443

>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=86.71  E-value=8.7  Score=32.14  Aligned_cols=63  Identities=22%  Similarity=0.172  Sum_probs=50.0

Q ss_pred             hhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCH--HHHHHHHHHhhccCChHHHHHHHHHHHH
Q 041384          299 VIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNS--VTLLAILSSCTRQSFLSHGLGVHCYIMK  361 (580)
Q Consensus       299 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~  361 (580)
                      ..+..+...|++.|+.+.|++.|.++.+....|..  ..+-.+|..+.-.+++..+.....+...
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~  101 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAES  101 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            35777888999999999999999999887655544  3466778888888888888888777665

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.

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=86.63  E-value=2  Score=38.53  Aligned_cols=102  Identities=6%  Similarity=0.026  Sum_probs=72.6

Q ss_pred             hCCCCChhHHHHHHHHHHcCCCchHHHHhhccCC-CCC-----ccchHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHh
Q 041384           57 SGSDADPVISNSLISMYAKFSKPESAYQLFDEMP-YRD-----TISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAE  130 (580)
Q Consensus        57 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~  130 (580)
                      .|.+.+..+...++..-....+++.+...+-++. .|+     ..+-.+.++.+. .-++++++.++..=.+.|+-||..
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irlll-ky~pq~~i~~l~npIqYGiF~dqf  136 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLLL-KYDPQKAIYTLVNPIQYGIFPDQF  136 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHHHH-ccChHHHHHHHhCcchhccccchh
Confidence            3455566666666666666778888888776665 221     112222333333 346778888888888889999999


Q ss_pred             hHHHHHHHhhccCCcHHHHHHHHHHHHhC
Q 041384          131 LLAGIISLCSQIGELELGRQIHALVIVDG  159 (580)
Q Consensus       131 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  159 (580)
                      +++.+|+.+.+.+++..|.++...|+...
T Consensus       137 ~~c~l~D~flk~~n~~~aa~vvt~~~~qe  165 (418)
T KOG4570|consen  137 TFCLLMDSFLKKENYKDAASVVTEVMMQE  165 (418)
T ss_pred             hHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            99999999999999999888888887765

>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=86.00  E-value=2  Score=27.16  Aligned_cols=34  Identities=26%  Similarity=0.301  Sum_probs=27.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHH
Q 041384          507 SLVSACRIHGRLEVAEMLAHQLIEAEPENAANYT  540 (580)
Q Consensus       507 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  540 (580)
                      .+.-++.+.|++++|.+..+.+++..|.|..+-.
T Consensus         6 ~lAig~ykl~~Y~~A~~~~~~lL~~eP~N~Qa~~   39 (53)
T PF14853_consen    6 YLAIGHYKLGEYEKARRYCDALLEIEPDNRQAQS   39 (53)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHHHHTTS-HHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHhhCCCcHHHHH
Confidence            4566788999999999999999999999988543

>smart00028 TPR Tetratricopeptide repeats

Probab=85.85  E-value=1.9  Score=22.99  Aligned_cols=27  Identities=15%  Similarity=0.048  Sum_probs=14.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHh
Q 041384          538 NYTLLSMVCSESGNWLGAEEVWRVMRA  564 (580)
Q Consensus       538 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (580)
                      .+..++.++...|++++|...+++..+
T Consensus         3 ~~~~~a~~~~~~~~~~~a~~~~~~~~~   29 (34)
T smart00028        3 ALYNLGNAYLKLGDYDEALEYYEKALE   29 (34)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            344555555555555555555555443

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.

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=85.68  E-value=3.2  Score=35.69  Aligned_cols=56  Identities=13%  Similarity=0.004  Sum_probs=32.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHH
Q 041384          507 SLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVM  562 (580)
Q Consensus       507 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  562 (580)
                      .=+-.+.+.++++.+..--.++++..|+.......++........+++|+..+++.
T Consensus        49 nralchlk~~~~~~v~~dcrralql~~N~vk~h~flg~~~l~s~~~~eaI~~Lqra  104 (284)
T KOG4642|consen   49 NRALCHLKLKHWEPVEEDCRRALQLDPNLVKAHYFLGQWLLQSKGYDEAIKVLQRA  104 (284)
T ss_pred             hHHHHHHHhhhhhhhhhhHHHHHhcChHHHHHHHHHHHHHHhhccccHHHHHHHHH
Confidence            33334445555666666666666666666666666666666666666666666555

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=85.49  E-value=2.1  Score=25.11  Aligned_cols=29  Identities=34%  Similarity=0.423  Sum_probs=22.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 041384          503 RILSSLVSACRIHGRLEVAEMLAHQLIEA  531 (580)
Q Consensus       503 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  531 (580)
                      .+++.+...|...|++++|+.+++++.+.
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            46778888888888888888888887753

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=85.10  E-value=11  Score=37.39  Aligned_cols=118  Identities=14%  Similarity=0.089  Sum_probs=53.5

Q ss_pred             CCCchHHHHhhccCCCCCccchHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHHHH
Q 041384           76 FSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALV  155 (580)
Q Consensus        76 ~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~  155 (580)
                      .|+++.|-.++-.++++   ..+.+++.+-++|..++|+++-         +|+.--   .....+.|+++.|.++..+.
T Consensus       599 rrd~~~a~~vLp~I~k~---~rt~va~Fle~~g~~e~AL~~s---------~D~d~r---Felal~lgrl~iA~~la~e~  663 (794)
T KOG0276|consen  599 RRDLEVADGVLPTIPKE---IRTKVAHFLESQGMKEQALELS---------TDPDQR---FELALKLGRLDIAFDLAVEA  663 (794)
T ss_pred             hccccccccccccCchh---hhhhHHhHhhhccchHhhhhcC---------CChhhh---hhhhhhcCcHHHHHHHHHhh
Confidence            45566665555555422   3334444444555555555431         122111   12223445555555544331


Q ss_pred             HHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCCCCeehHHHHHHHHHhcCChhHHHHHHH
Q 041384          156 IVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFR  220 (580)
Q Consensus       156 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  220 (580)
                             .+..-|..|.++....+++..|.+.|.....     |..|+-.+...|+-+....+-.
T Consensus       664 -------~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d-----~~~LlLl~t~~g~~~~l~~la~  716 (794)
T KOG0276|consen  664 -------NSEVKWRQLGDAALSAGELPLASECFLRARD-----LGSLLLLYTSSGNAEGLAVLAS  716 (794)
T ss_pred             -------cchHHHHHHHHHHhhcccchhHHHHHHhhcc-----hhhhhhhhhhcCChhHHHHHHH
Confidence                   2333455555555555555555555554322     3344444444444443333333

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=84.72  E-value=53  Score=34.11  Aligned_cols=65  Identities=12%  Similarity=-0.007  Sum_probs=42.8

Q ss_pred             CccchHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCc-------HHHHHHHHHHHHh
Q 041384           93 DTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGEL-------ELGRQIHALVIVD  158 (580)
Q Consensus        93 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~-------~~a~~~~~~~~~~  158 (580)
                      |...-=.+|-.+.+.|++++|.++..+.... .......|...+..+....+.       +....-+++..+.
T Consensus       110 ~~~p~Wa~Iyy~LR~G~~~~A~~~~~~~~~~-~~~~~~~f~~~l~~~~~s~~~~l~~~~~~~l~~ey~~~~r~  181 (613)
T PF04097_consen  110 NGDPIWALIYYCLRCGDYDEALEVANENRNQ-FQKIERSFPTYLKAYASSPDRRLPPELRDKLKLEYNQRIRN  181 (613)
T ss_dssp             TTEEHHHHHHHHHTTT-HHHHHHHHHHTGGG-S-TTTTHHHHHHHHCTTTTSS---TCCCHHHHHHHHHHTTT
T ss_pred             CCCccHHHHHHHHhcCCHHHHHHHHHHhhhh-hcchhHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHhcC
Confidence            3334445788899999999999999665543 556677888889988876432       2444555555444

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.

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=84.71  E-value=0.72  Score=37.06  Aligned_cols=53  Identities=9%  Similarity=0.121  Sum_probs=30.1

Q ss_pred             HHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHh
Q 041384          340 LSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFN  392 (580)
Q Consensus       340 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  392 (580)
                      +..+.+.+.+.....+++.+...+...+....+.++..|++.++.++..++++
T Consensus        14 i~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~   66 (143)
T PF00637_consen   14 ISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLK   66 (143)
T ss_dssp             HHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTT
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcc
Confidence            44455555666666666666655545556666666666666655555555555

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.

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=84.38  E-value=14  Score=27.02  Aligned_cols=84  Identities=13%  Similarity=0.100  Sum_probs=57.0

Q ss_pred             HHHHHHHHHHHHhCCCCChhHHHHHHHHHHcCCCchHHHHhhccCCCCCccchHHHHHHHHhCCChhHHHHHHHHHHHCC
Q 041384           45 HFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREMYLCG  124 (580)
Q Consensus        45 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  124 (580)
                      ++|.-+-+++...+-. ...+--.-+..+...|++++|..+.+....||...|-+|-..  +.|-.+.+..-+.+|..+|
T Consensus        22 qEA~tIAdwL~~~~~~-~E~v~lIRlsSLmNrG~Yq~Al~l~~~~~~pdlepw~ALce~--rlGl~s~l~~rl~rla~sg   98 (115)
T TIGR02508        22 QEANTIADWLHLKGES-EEAVQLIRLSSLMNRGDYQSALQLGNKLCYPDLEPWLALCEW--RLGLGSALESRLNRLAASG   98 (115)
T ss_pred             HHHHHHHHHHhcCCch-HHHHHHHHHHHHHccchHHHHHHhcCCCCCchHHHHHHHHHH--hhccHHHHHHHHHHHHhCC
Confidence            7777777777665422 222222334557888999999999999999999998887663  5666666666677776665


Q ss_pred             CCCCHhhH
Q 041384          125 FVLKAELL  132 (580)
Q Consensus       125 ~~~~~~~~  132 (580)
                       .|....|
T Consensus        99 -~p~lq~F  105 (115)
T TIGR02508        99 -DPRLQTF  105 (115)
T ss_pred             -CHHHHHH
Confidence             3333333

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.

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=84.20  E-value=56  Score=33.95  Aligned_cols=47  Identities=19%  Similarity=0.401  Sum_probs=25.9

Q ss_pred             eehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcC
Q 041384          196 EVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAEL  244 (580)
Q Consensus       196 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  244 (580)
                      ...| ++|-.|.+.|++++|.++..+.... .......+...+..+...
T Consensus       112 ~p~W-a~Iyy~LR~G~~~~A~~~~~~~~~~-~~~~~~~f~~~l~~~~~s  158 (613)
T PF04097_consen  112 DPIW-ALIYYCLRCGDYDEALEVANENRNQ-FQKIERSFPTYLKAYASS  158 (613)
T ss_dssp             EEHH-HHHHHHHTTT-HHHHHHHHHHTGGG-S-TTTTHHHHHHHHCTTT
T ss_pred             CccH-HHHHHHHhcCCHHHHHHHHHHhhhh-hcchhHHHHHHHHHHHhC
Confidence            3344 3455667777777777777444332 344445566666666554

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.

>smart00028 TPR Tetratricopeptide repeats

Probab=84.18  E-value=2.2  Score=22.67  Aligned_cols=31  Identities=23%  Similarity=0.202  Sum_probs=26.7

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 041384          503 RILSSLVSACRIHGRLEVAEMLAHQLIEAEP  533 (580)
Q Consensus       503 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  533 (580)
                      ..+..+...+...|+++.|...+++..+..|
T Consensus         2 ~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~   32 (34)
T smart00028        2 EALYNLGNAYLKLGDYDEALEYYEKALELDP   32 (34)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHHccCC
Confidence            3567788889999999999999999988765

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.

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=84.15  E-value=20  Score=28.62  Aligned_cols=91  Identities=10%  Similarity=0.149  Sum_probs=63.0

Q ss_pred             HHHhCCCCChh--HHHHHHHHHHcCCCchHHHHhhccCC---------CCCccchHHHHHHHHhCCC-hhHHHHHHHHHH
Q 041384           54 ALKSGSDADPV--ISNSLISMYAKFSKPESAYQLFDEMP---------YRDTISWNSIINCFTQNGF-YVRSLEMFREMY  121 (580)
Q Consensus        54 ~~~~~~~~~~~--~~~~l~~~~~~~g~~~~A~~~~~~~~---------~~~~~~~~~li~~~~~~~~-~~~a~~~~~~m~  121 (580)
                      |.+.+..++..  ..|+++.-....+++....++++.+.         ..+..+|++++.+..+... --.+..+|..|.
T Consensus        28 ~~~~~~~~~~k~~fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk  107 (145)
T PF13762_consen   28 MQEENASQSTKTIFINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLK  107 (145)
T ss_pred             hhhcccChhHHHHHHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHH
Confidence            34444444442  44677777777777777777777664         2356678888888866555 345678888888


Q ss_pred             HCCCCCCHhhHHHHHHHhhccCC
Q 041384          122 LCGFVLKAELLAGIISLCSQIGE  144 (580)
Q Consensus       122 ~~~~~~~~~~~~~ll~~~~~~~~  144 (580)
                      +.+.++++.-|..++.++.+...
T Consensus       108 ~~~~~~t~~dy~~li~~~l~g~~  130 (145)
T PF13762_consen  108 KNDIEFTPSDYSCLIKAALRGYF  130 (145)
T ss_pred             HcCCCCCHHHHHHHHHHHHcCCC
Confidence            87888888888888888776533

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=83.77  E-value=25  Score=29.80  Aligned_cols=79  Identities=16%  Similarity=0.186  Sum_probs=56.1

Q ss_pred             HHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHH---hCCCCchhHHHHHHHHhHhcCCH
Q 041384          308 YSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMK---AGLNFDVSIGNALMNMYSKCGSI  384 (580)
Q Consensus       308 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~g~~  384 (580)
                      ..+.|+ +.|...|-.+...+.--++.... .+..|....+.+++.+++....+   .+-.+|+..+.+|+..|.+.|++
T Consensus       117 Wsr~~d-~~A~~~fL~~E~~~~l~t~elq~-aLAtyY~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~  194 (203)
T PF11207_consen  117 WSRFGD-QEALRRFLQLEGTPELETAELQY-ALATYYTKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNY  194 (203)
T ss_pred             hhccCc-HHHHHHHHHHcCCCCCCCHHHHH-HHHHHHHccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcch
Confidence            344444 67888888887777554444444 44445557888899988888776   33367888889999999888888


Q ss_pred             HHHH
Q 041384          385 TSSH  388 (580)
Q Consensus       385 ~~A~  388 (580)
                      +.|.
T Consensus       195 e~AY  198 (203)
T PF11207_consen  195 EQAY  198 (203)
T ss_pred             hhhh
Confidence            8774

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=83.55  E-value=56  Score=33.45  Aligned_cols=249  Identities=14%  Similarity=0.072  Sum_probs=135.1

Q ss_pred             HHhCCChhHHHHHHHHHHH-------CCCCCCHHHHHHHHHHhhccC-----ChHHHHHHHHHHHHhCCCCchhHHHHHH
Q 041384          308 YSQSGDLSEAMKLFSRMRL-------ERIEPNSVTLLAILSSCTRQS-----FLSHGLGVHCYIMKAGLNFDVSIGNALM  375 (580)
Q Consensus       308 ~~~~~~~~~a~~~~~~m~~-------~~~~p~~~~~~~ll~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~  375 (580)
                      +....+.+.|+..|+....       .|.++   ....+..+|.+..     +.+.|..++....+.|. |+....-..+
T Consensus       259 ~g~~~d~e~a~~~l~~aa~~~~~~a~~~~~~---a~~~lg~~Y~~g~~~~~~d~~~A~~~~~~aA~~g~-~~a~~~lg~~  334 (552)
T KOG1550|consen  259 YGVTQDLESAIEYLKLAAESFKKAATKGLPP---AQYGLGRLYLQGLGVEKIDYEKALKLYTKAAELGN-PDAQYLLGVL  334 (552)
T ss_pred             ccccccHHHHHHHHHHHHHHHHHHHhhcCCc---cccHHHHHHhcCCCCccccHHHHHHHHHHHHhcCC-chHHHHHHHH
Confidence            4456677888888877765       44222   3344444554432     56678888888877773 4433332222


Q ss_pred             HHhHh-cCCHHHHHHHHhcCCCC-CcchHHHHHHHHH----hcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCC
Q 041384          376 NMYSK-CGSITSSHQIFNEMAAR-DFVSWTTLISGYG----FHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGL  449 (580)
Q Consensus       376 ~~~~~-~g~~~~A~~~~~~~~~~-~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~  449 (580)
                      ..... ..+...|.++|...... ....+-.+...|.    ...+...|..++.+.-+.| .|-...-...+..+.. ++
T Consensus       335 ~~~g~~~~d~~~A~~yy~~Aa~~G~~~A~~~la~~y~~G~gv~r~~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~  412 (552)
T KOG1550|consen  335 YETGTKERDYRRAFEYYSLAAKAGHILAIYRLALCYELGLGVERNLELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GR  412 (552)
T ss_pred             HHcCCccccHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCcCCCHHHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-cc
Confidence            22222 24567888888876653 3333333333332    2347788888888888877 4443332333333444 66


Q ss_pred             HHHHHHHHHHHHHhhCCCCChhHHHHHHHHh---hh----cCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhc----CCH
Q 041384          450 VKEAETLFNNVMKEKKIALAIEHYACYVDLL---GK----SGKIEDACKVVSTMPMKPSTRILSSLVSACRIH----GRL  518 (580)
Q Consensus       450 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~---~~----~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~----~~~  518 (580)
                      ++.+.-.+.. .+..+.......-..+....   ..    ..+.+.+...+.+...+-+......+...|..-    .++
T Consensus       413 ~~~~~~~~~~-~a~~g~~~~q~~a~~l~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~g~~~a~~~lgd~y~~g~g~~~d~  491 (552)
T KOG1550|consen  413 YDTALALYLY-LAELGYEVAQSNAAYLLDQSEEDLFSRGVISTLERAFSLYSRAAAQGNADAILKLGDYYYYGLGTGRDP  491 (552)
T ss_pred             ccHHHHHHHH-HHHhhhhHHhhHHHHHHHhccccccccccccchhHHHHHHHHHHhccCHHHHhhhcceeeecCCCCCCh
Confidence            6665555554 22233332222111122111   11    224556666666665455555555555554332    357


Q ss_pred             HHHHHHHHHHHhcCCCCchHHHHHHHHHHhc---CChHHHHHHHHHHHhCC
Q 041384          519 EVAEMLAHQLIEAEPENAANYTLLSMVCSES---GNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       519 ~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~~~A~~~~~~~~~~~  566 (580)
                      +.|...+.++....   +.....++..+-..   ..+..|.+++++..+.+
T Consensus       492 ~~a~~~y~~a~~~~---~~~~~nlg~~~e~g~g~~~~~~a~~~~~~~~~~~  539 (552)
T KOG1550|consen  492 EKAAAQYARASEQG---AQALFNLGYMHEHGEGIKVLHLAKRYYDQASEED  539 (552)
T ss_pred             HHHHHHHHHHHHhh---hHHHhhhhhHHhcCcCcchhHHHHHHHHHHHhcC
Confidence            77888888777766   66666666655332   12677888887776643

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=83.35  E-value=15  Score=26.78  Aligned_cols=87  Identities=14%  Similarity=0.073  Sum_probs=58.9

Q ss_pred             CcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCCCCeehHHHHHHHHHhcCChhHHHHHHHHHH
Q 041384          144 ELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQ  223 (580)
Q Consensus       144 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  223 (580)
                      ..++|..|-+.+...+  .....+-.+-+..+...|++++|..+.+.+..||...|-+|...  +.|-.+.+..-+.+|.
T Consensus        20 cHqEA~tIAdwL~~~~--~~~E~v~lIRlsSLmNrG~Yq~Al~l~~~~~~pdlepw~ALce~--rlGl~s~l~~rl~rla   95 (115)
T TIGR02508        20 CHQEANTIADWLHLKG--ESEEAVQLIRLSSLMNRGDYQSALQLGNKLCYPDLEPWLALCEW--RLGLGSALESRLNRLA   95 (115)
T ss_pred             HHHHHHHHHHHHhcCC--chHHHHHHHHHHHHHccchHHHHHHhcCCCCCchHHHHHHHHHH--hhccHHHHHHHHHHHH
Confidence            4566777777766554  22333444455667888999999999999988898888776543  5666677777777776


Q ss_pred             HcCCCCCHHHHH
Q 041384          224 REGVKPTRVTLT  235 (580)
Q Consensus       224 ~~~~~p~~~~~~  235 (580)
                      ..|- |...+|.
T Consensus        96 ~sg~-p~lq~Fa  106 (115)
T TIGR02508        96 ASGD-PRLQTFV  106 (115)
T ss_pred             hCCC-HHHHHHH
Confidence            6653 4444443

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.

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=83.11  E-value=7.2  Score=30.31  Aligned_cols=72  Identities=14%  Similarity=0.139  Sum_probs=47.4

Q ss_pred             CCChhHHHHHHHHhhhcCC---hHHHHHHHHhCC--CCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchH
Q 041384          467 ALAIEHYACYVDLLGKSGK---IEDACKVVSTMP--MKPS--TRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAAN  538 (580)
Q Consensus       467 ~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~--~~p~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~  538 (580)
                      .++..+--.+..++.+..+   ..+.+.+++++-  -.|+  ....--|.-++.+.++++.++++.+.+++..|+|..+
T Consensus        29 ~~s~~s~f~lAwaLV~S~~~~dv~~GI~iLe~l~~~~~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~~e~~n~Qa  107 (149)
T KOG3364|consen   29 DVSKQSQFNLAWALVRSRDTEDVQEGIVILEDLLKSAHPERRRECLYYLAVGHYRLKEYSKSLRYVDALLETEPNNRQA  107 (149)
T ss_pred             cchHHHHHHHHHHHHcccchHHHHHhHHHHHHHhhhcCcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHhhCCCcHHH
Confidence            5666666667777776655   445566776662  2232  2234455667788888888888888888888887763

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=81.60  E-value=6.5  Score=35.85  Aligned_cols=78  Identities=15%  Similarity=0.075  Sum_probs=57.1

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhc
Q 041384          405 LISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKS  483 (580)
Q Consensus       405 l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  483 (580)
                      -..-|.+.|.+++|+..|.+....  .| |++++..-..+|.+..++..|..=...++.     .    -...+.+|.+.
T Consensus       103 ~GN~yFKQgKy~EAIDCYs~~ia~--~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~Aia-----L----d~~Y~KAYSRR  171 (536)
T KOG4648|consen  103 RGNTYFKQGKYEEAIDCYSTAIAV--YPHNPVYHINRALAYLKQKSFAQAEEDCEAAIA-----L----DKLYVKAYSRR  171 (536)
T ss_pred             hhhhhhhccchhHHHHHhhhhhcc--CCCCccchhhHHHHHHHHHHHHHHHHhHHHHHH-----h----hHHHHHHHHHH
Confidence            466789999999999999998874  67 889998888999999999888877776543     1    13355666665


Q ss_pred             CChHHHHHHH
Q 041384          484 GKIEDACKVV  493 (580)
Q Consensus       484 g~~~~A~~~~  493 (580)
                      +.-.+++...
T Consensus       172 ~~AR~~Lg~~  181 (536)
T KOG4648|consen  172 MQARESLGNN  181 (536)
T ss_pred             HHHHHHHhhH
Confidence            5444443333

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=80.93  E-value=37  Score=29.53  Aligned_cols=25  Identities=12%  Similarity=0.011  Sum_probs=15.9

Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCch
Q 041384          513 RIHGRLEVAEMLAHQLIEAEPENAA  537 (580)
Q Consensus       513 ~~~~~~~~A~~~~~~~~~~~~~~~~  537 (580)
                      ...+++.+|+.+|++.....-+|+.
T Consensus       165 a~leqY~~Ai~iyeqva~~s~~n~L  189 (288)
T KOG1586|consen  165 AQLEQYSKAIDIYEQVARSSLDNNL  189 (288)
T ss_pred             HHHHHHHHHHHHHHHHHHHhccchH
Confidence            4556777777777777665544433

>smart00386 HAT HAT (Half-A-TPR) repeats

Probab=80.92  E-value=4.4  Score=21.92  Aligned_cols=30  Identities=17%  Similarity=0.248  Sum_probs=24.6

Q ss_pred             CCHHHHHHHHHHHHhcCCCCchHHHHHHHH
Q 041384          516 GRLEVAEMLAHQLIEAEPENAANYTLLSMV  545 (580)
Q Consensus       516 ~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  545 (580)
                      |+.+.|..+++++....|.++..|...+..
T Consensus         1 ~~~~~~r~i~e~~l~~~~~~~~~W~~y~~~   30 (33)
T smart00386        1 GDIERARKIYERALEKFPKSVELWLKYAEF   30 (33)
T ss_pred             CcHHHHHHHHHHHHHHCCCChHHHHHHHHH
Confidence            567888999999999888888888877653

Present in several RNA-binding proteins. Structurally and sequentially thought to be similar to TPRs.

---

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	580
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	5e-12
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-07
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	8e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-06
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	5e-04

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 67.9 bits (164), Expect = 5e-12
 Identities = 30/251 (11%), Positives = 69/251 (27%), Gaps = 10/251 (3%)

Query: 317 AMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMN 376
           A  L    R     P    L  +L     +  L           +A L+       A   
Sbjct: 76  AGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFK 135

Query: 377 MYSKCGSITSSHQIFNEMAAR-------DFVSWTTLISGYGFHGYGEEALQLFLEMQESG 429
                  +  +H +      +           +  ++ G+   G  +E + +   ++++G
Sbjct: 136 CCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAG 195

Query: 430 VEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDA 489
           + PD ++  A L                   M ++ + L     A  +    ++  ++  
Sbjct: 196 LTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAV 255

Query: 490 CKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSES 549
            KV    P       L   V+  ++   +   +          P           +  E 
Sbjct: 256 HKV---KPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFEKQLHMEL 312

Query: 550 GNWLGAEEVWR 560
            + +    V +
Sbjct: 313 ASRVCVVSVEK 323

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 52.9 bits (125), Expect = 2e-07
 Identities = 46/388 (11%), Positives = 107/388 (27%), Gaps = 41/388 (10%)

Query: 217 DLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMY 276
            L    ++    P    L  +L        L   +A  G               A     
Sbjct: 78  CLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCC 137

Query: 277 CEC------TEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIE 330
                       L       ++ K+  + ++++++ G+++ G   E + +   ++   + 
Sbjct: 138 LLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLT 197

Query: 331 PNSVTLLAILSSCTRQS-----------------FLSHGLGVHCYI---MKAGLNFDVSI 370
           P+ ++  A L    RQ                       L     +    +A +   V  
Sbjct: 198 PDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHK 257

Query: 371 GNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQ---- 426
                ++  +     ++ ++  ++ A+D       +             QL +E+     
Sbjct: 258 VKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFEKQLHMELASRVC 317

Query: 427 ---------ESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYV 477
                     S     A   L  L       L +      N + +E            ++
Sbjct: 318 VVSVEKPTLPSKEVKHARKTLKTLRDQWEKALCRALRETKNRLEREVYEGRF--SLYPFL 375

Query: 478 DLLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAA 537
            LL +   +    +V+  +P +  +    +   + R   R  V        ++A   +  
Sbjct: 376 CLLDEREVVRMLLQVLQALPAQGESFTTLARELSARTFSRHVVQRQRVSGQVQALQNHYR 435

Query: 538 NYTLLSMVCSESGNWLGAEEVWRVMRAK 565
            Y  L    +E        + W  + A 
Sbjct: 436 KYLCLLASDAEVPEPCLPRQYWEALGAP 463

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 47.9 bits (112), Expect = 8e-06
 Identities = 26/168 (15%), Positives = 57/168 (33%), Gaps = 7/168 (4%)

Query: 21  SGLYSNTAILPSVIKACAYAQTHQ--HFGLQLHCTALKSGSDADPVISNSLISMYAKFSK 78
           + L      L +  K C         H  L +H    +        + N+++  +A+   
Sbjct: 121 AQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGA 180

Query: 79  PESAYQLFDEMPYR----DTISWNSIINCFTQNGFYVRSLE-MFREMYLCGFVLKAELLA 133
            +    +   +       D +S+ + + C  +      ++E    +M   G  L+A   A
Sbjct: 181 FKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTA 240

Query: 134 GIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHW 181
            ++S   +   L+   ++     +       V  S  L D+Y+K    
Sbjct: 241 VLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRV 288

>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 = 48.7 bits (115), Expect = 4e-06
 Identities = 81/559 (14%), Positives = 152/559 (27%), Gaps = 164/559 (29%)

Query: 5   HFYEQTLHLYKQELHPSGLYSNTAILPSVIKACAYAQTHQHFGLQLHCT----ALK---S 57
           H +   +     E      Y    IL     A         F     C       K   S
Sbjct: 1   HHHHHHMDFETGEHQ----YQYKDILSVFEDA---------FVDNFDCKDVQDMPKSILS 47

Query: 58  GSDADPVI--SNSLISMYAKF----SKPESAYQLFDEMPYRDTISW--NSIINCFTQNGF 109
             + D +I   +++      F    SK E   Q F E   R    +  + I     Q   
Sbjct: 48  KEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSM 107

Query: 110 YVRSLEMFRE-------MYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDG--S 160
             R     R+       ++    V + +    +     +   LEL  +    V++DG   
Sbjct: 108 MTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKL-----RQALLEL--RPAKNVLIDGVLG 160

Query: 161 FELSVFVSTALLDLYSKCH-----HWL---------IALRVFEQMVIRNEVSWTAMISGC 206
              +       L    +C       WL           L + ++++ + + +WT+     
Sbjct: 161 SGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHS 220

Query: 207 ID-SQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFD 265
            +      +     R + +   KP    L +       L +++N KA +       F+  
Sbjct: 221 SNIKLRIHSIQAELRRLLKS--KPYENCLLV-------LLNVQNAKAWN------AFNL- 264

Query: 266 HHLSAALMHMYCECTEALHPARIIF-ERTK-VKDVVIWSSIIRGYSQSGDLS------EA 317
                        C       +I+   R K V D +  S+    +      S      E 
Sbjct: 265 ------------SC-------KILLTTRFKQVTDFL--SAATTTHISLDHHSMTLTPDEV 303

Query: 318 MKLFSR---MRLE-------RIEPNSVTLLAILSS---CTRQSFLSHGLGVHCYIMKAGL 364
             L  +    R +          P  ++++A        T  ++          I+++ L
Sbjct: 304 KSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSL 363

Query: 365 NFDVSIGNALM-NMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLF- 422
           N    +  A    M+ +         +F              I            L L  
Sbjct: 364 N---VLEPAEYRKMFDRLS-------VFPP----S-----AHIP--------TILLSLIW 396

Query: 423 LEMQESGVEPDAITVLAILSACN----------HAGLVKEAETLFNNVMKEKKIALAIEH 472
            ++ +S V    +  L   S              +  ++    L N     + I   ++H
Sbjct: 397 FDVIKSDVM-VVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSI---VDH 452

Query: 473 YA---CYVDLLGKSGKIED 488
           Y     + D         D
Sbjct: 453 YNIPKTF-DSDDLIPPYLD 470

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus} Length = 291

 Score = 41.3 bits (96), Expect = 5e-04
 Identities = 23/154 (14%), Positives = 51/154 (33%), Gaps = 8/154 (5%)

Query: 409 YGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIAL 468
           Y +    + AL+   +          + +L  L        +  A      +  + + A 
Sbjct: 111 YFYDQNPDAALRTLHQGDSLECMAMTVQILLKL------DRLDLARKELKKMQDQDEDAT 164

Query: 469 AIEHYACYVDLLGKSGKIEDACKVVSTMPMK--PSTRILSSLVSACRIHGRLEVAEMLAH 526
             +    +V L     K++DA  +   M  K  P+  +L+   +     GR E AE +  
Sbjct: 165 LTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQ 224

Query: 527 QLIEAEPENAANYTLLSMVCSESGNWLGAEEVWR 560
           + ++ +  +      L ++    G        + 
Sbjct: 225 EALDKDSGHPETLINLVVLSQHLGKPPEVTNRYL 258

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	580
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.97
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.96
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.96
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.96
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.94
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.93
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.93
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.92
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.9
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.89
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.86
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.85
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.84
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.83
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.82
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.82
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.81
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.8
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.8
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.79
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.78
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.78
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.77
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.77
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.77
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.77
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.76
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.75
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.74
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.74
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.68
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.67
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.67
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.66
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.66
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.66
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.65
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.64
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.62
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.6
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.6
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.6
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.59
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.57
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.56
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.56
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.55
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.55
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.55
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.55
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.54
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.54
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.54
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.53
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.53
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.53
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.52
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.51
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.5
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.48
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.47
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.45
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.42
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.42
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.4
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.39
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.39
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.39
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.38
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.38
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.38
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.36
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.36
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.34
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.33
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.31
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.31
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.29
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.28
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.22
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.2
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.17
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.16
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.15
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.14
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.12
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.1
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.1
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.09
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.08
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.07
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.04
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.03
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.02
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.02
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.0
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.98
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.98
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.98
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.96
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.95
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.92
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.92
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.91
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.9
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.88
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.88
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.87
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.87
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.87
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.86
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.85
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.83
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.83
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.82
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.8
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.8
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.8
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.77
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.76
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.74
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.74
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.74
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.73
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.73
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.73
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.72
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.72
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.72
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.7
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.7
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.7
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.69
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.63
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.63
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.62
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.61
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.61
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.61
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.59
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.59
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.59
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.58
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.58
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.58
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.58
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.57
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.56
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.53
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.51
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.51
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.49
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.49
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.48
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.47
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.46
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.45
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.44
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.42
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.41
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.4
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.39
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.39
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.38
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.37
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.36
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.36
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.35
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.34
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.33
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.32
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.27
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.25
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.25
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.24
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.24
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.23
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.22
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.22
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.2
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.2
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.17
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.15
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.15
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.14
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.13
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.12
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	98.09
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.08
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.07
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.06
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.02
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.02
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.97
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.97
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.97
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.96
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.9
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.86
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.84
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.76
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.75
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.69
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.53
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.51
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.51
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	97.5
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.44
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	97.41
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.41
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.33
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.22
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	97.21
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.18
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.14
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.12
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.07
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.06
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.05
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.9
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.89
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.55
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.51
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.46
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.39
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	96.38
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.21
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.13
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.05
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.63
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	95.43
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	95.26
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.24
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	95.14
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.09
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	95.09
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	94.86
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	94.79
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	94.25
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	94.17
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	93.86
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	93.27
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	92.06
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	91.9
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	91.69
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	91.32
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	90.81
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	90.63
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	90.6
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	90.53
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	90.53
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	90.23
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	90.18
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	89.29
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	89.05
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	88.73
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	87.98
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	87.26
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	87.21
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	86.8
2p58_C	116	Putative type III secretion protein YSCG; type III	86.52
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	86.02
2p58_C	116	Putative type III secretion protein YSCG; type III	85.65
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	85.54
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	84.61
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	83.66
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	83.03
4a1g_A	152	Mitotic checkpoint serine/threonine-protein kinas;	82.17
3ltm_A	211	Alpha-REP4; protein engineering, heat-like repeat,	80.56
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	80.13

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=1.9e-41  Score=348.04  Aligned_cols=483  Identities=8%  Similarity=-0.069  Sum_probs=402.5

Q ss_pred             HHcCCCchHHHHhhccCCCCCccchHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHH
Q 041384           73 YAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIH  152 (580)
Q Consensus        73 ~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~  152 (580)
                      +.+.|....+...+..++.++...|+.++..+.+.|++++|+.+|++|..  ..|+..++..+...+.+.|+++.|..++
T Consensus        63 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~A~~~~  140 (597)
T 2xpi_A           63 TSTDGSFLKERNAQNTDSLSREDYLRLWRHDALMQQQYKCAAFVGEKVLD--ITGNPNDAFWLAQVYCCTGDYARAKCLL  140 (597)
T ss_dssp             -------------------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HHCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccccCccCCCCCccccchHHHHHHHHHHHHHHHHccCchHHHHHHHHHHh--hCCCchHHHHHHHHHHHcCcHHHHHHHH
Confidence            45677788888888888888999999999999999999999999999985  5678899999999999999999999999


Q ss_pred             HHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCCC-------------------CeehHHHHHHHHHhcCChh
Q 041384          153 ALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIR-------------------NEVSWTAMISGCIDSQNYD  213 (580)
Q Consensus       153 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------------------~~~~~~~li~~~~~~~~~~  213 (580)
                      +.+..   .+++..+++.++.+|.+.|++++|.++|+++...                   +..+|+.++.+|.+.|+++
T Consensus       141 ~~~~~---~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  217 (597)
T 2xpi_A          141 TKEDL---YNRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFD  217 (597)
T ss_dssp             HHTCG---GGTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHhc---cccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHH
Confidence            98865   3678899999999999999999999999965433                   3778999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCC-HHHHHHHHHHHhcCCCchhHH--HH-HHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHH
Q 041384          214 TGIDLFRAMQREGVKPT-RVTLTIVLLACAELRDLRNGK--AI-HGYAYCCGFDFDHHLSAALMHMYCECTEALHPARII  289 (580)
Q Consensus       214 ~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~--~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~  289 (580)
                      +|.++|++|.+.+  |+ ...+..+...+...+..+.+.  .+ +..+...+..+...++..++..|.+.|+ ++.|..+
T Consensus       218 ~A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~-~~~A~~~  294 (597)
T 2xpi_A          218 RAKECYKEALMVD--AKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDE-LRRAEDY  294 (597)
T ss_dssp             HHHHHHHHHHHHC--TTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHH-HHHHHHH
T ss_pred             HHHHHHHHHHHhC--chhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcch-HHHHHHH
Confidence            9999999999864  43 444555544444333222211  11 4444444555556667777888888999 9999999


Q ss_pred             HhhCCC--CChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCc
Q 041384          290 FERTKV--KDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFD  367 (580)
Q Consensus       290 ~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  367 (580)
                      |+.+..  ++..+|+.++.+|.+.|++++|..+|+++.+.+ +.+..++..++.++...|++++|..+++.+.+.. +.+
T Consensus       295 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~  372 (597)
T 2xpi_A          295 LSSINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEK  372 (597)
T ss_dssp             HHTSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTS
T ss_pred             HHHhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-ccc
Confidence            999887  789999999999999999999999999998775 4467789999999999999999999999999664 567


Q ss_pred             hhHHHHHHHHhHhcCCHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 041384          368 VSIGNALMNMYSKCGSITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSAC  444 (580)
Q Consensus       368 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~  444 (580)
                      ..+++.++.+|.+.|++++|.++|+++.+   .+..+|+.++.+|.+.|++++|+++|+++.+.+ +.+..++..++.+|
T Consensus       373 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~  451 (597)
T 2xpi_A          373 AVTWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQH  451 (597)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHH
Confidence            88999999999999999999999998764   467799999999999999999999999999863 44779999999999


Q ss_pred             hccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-------CCCCC--HHHHHHHHHHHHhc
Q 041384          445 NHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-------PMKPS--TRILSSLVSACRIH  515 (580)
Q Consensus       445 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p~--~~~~~~l~~~~~~~  515 (580)
                      .+.|++++|.++|+++++.  .+.+..+|..++..|.+.|++++|.++|+++       +..|+  ..+|..++.+|.+.
T Consensus       452 ~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~  529 (597)
T 2xpi_A          452 MQLGNILLANEYLQSSYAL--FQYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKL  529 (597)
T ss_dssp             HHHTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHT
T ss_pred             HHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHh
Confidence            9999999999999997753  3446788999999999999999999999988       33676  68999999999999


Q ss_pred             CCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCCc
Q 041384          516 GRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGLS  568 (580)
Q Consensus       516 ~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  568 (580)
                      |++++|++.++++.+.+|+++.+|..++.+|.+.|++++|.+.++++.+..+.
T Consensus       530 g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p~  582 (597)
T 2xpi_A          530 KMYDAAIDALNQGLLLSTNDANVHTAIALVYLHKKIPGLAITHLHESLAISPN  582 (597)
T ss_dssp             TCHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             cCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCC
Confidence            99999999999999999999999999999999999999999999999886543

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=3.7e-40  Score=338.49  Aligned_cols=484  Identities=10%  Similarity=-0.004  Sum_probs=326.3

Q ss_pred             CCcchHHHHHHhhcccchhHHHHHHHHHHHHhCCCCChhHHHHHHHHHHcCCCchHHHHhhccCC--CCCccchHHHHHH
Q 041384           26 NTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEMP--YRDTISWNSIINC  103 (580)
Q Consensus        26 ~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~  103 (580)
                      +...++.++..+.+.|++ +.|..+++.+.+.  .|+..++..++.+|.+.|++++|..+|+.+.  +++..+++.++.+
T Consensus        83 ~~~~~~~~~~~~~~~g~~-~~A~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~  159 (597)
T 2xpi_A           83 REDYLRLWRHDALMQQQY-KCAAFVGEKVLDI--TGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLYNRSSACRYLAAFC  159 (597)
T ss_dssp             HHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHH--HCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGGGTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccCc-hHHHHHHHHHHhh--CCCchHHHHHHHHHHHcCcHHHHHHHHHHHhccccchhHHHHHHHH
Confidence            344455555555555555 5555555555533  3444555555555555555555555555552  4455555555555


Q ss_pred             HHhCCChhHHHHHHHHHHHC---------------CCCCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHH
Q 041384          104 FTQNGFYVRSLEMFREMYLC---------------GFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVS  168 (580)
Q Consensus       104 ~~~~~~~~~a~~~~~~m~~~---------------~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  168 (580)
                      |.+.|++++|+.+|+++...               +..++..+|+.++.++.+.|++++|.+.|+++.+.+  +.+...+
T Consensus       160 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~  237 (597)
T 2xpi_A          160 LVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVD--AKCYEAF  237 (597)
T ss_dssp             HHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHH
T ss_pred             HHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--chhhHHH
Confidence            55555555555555532111               111223444444444444444444444444444433  2233333


Q ss_pred             hHHHHHhHhcCCHHHHHHHHhcCCCCCeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCch
Q 041384          169 TALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLR  248 (580)
Q Consensus       169 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~  248 (580)
                      ..+...+...+..+.+.  ...+.                          +..+...+..+...+|+.++..|.+.|+++
T Consensus       238 ~~l~~~~~~~~~~~~~~--~~~l~--------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~  289 (597)
T 2xpi_A          238 DQLVSNHLLTADEEWDL--VLKLN--------------------------YSTYSKEDAAFLRSLYMLKLNKTSHEDELR  289 (597)
T ss_dssp             HHHHHTTCSCHHHHHHH--HHHSC--------------------------THHHHGGGHHHHHHHHHTTSCTTTTHHHHH
T ss_pred             HHHHHhhcccchhHHHH--HHhcC--------------------------CcccccchHHHHHHHHHHHHHHHcCcchHH
Confidence            33333222221111110  00000                          222222222333333444444444444555


Q ss_pred             hHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCC---CCChhhHHHHHHHHHhCCChhHHHHHHHHHH
Q 041384          249 NGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTK---VKDVVIWSSIIRGYSQSGDLSEAMKLFSRMR  325 (580)
Q Consensus       249 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  325 (580)
                      +|.++++.+.+.  +++..++..++..+.+.|+ .+.|..+|+++.   ..+..+++.++.++.+.|++++|..+++++.
T Consensus       290 ~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~-~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  366 (597)
T 2xpi_A          290 RAEDYLSSINGL--EKSSDLLLCKADTLFVRSR-FIDVLAITTKILEIDPYNLDVYPLHLASLHESGEKNKLYLISNDLV  366 (597)
T ss_dssp             HHHHHHHTSTTG--GGCHHHHHHHHHHHHHTTC-HHHHHHHHHHHHHHCTTCCTTHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhcC--CchHHHHHHHHHHHHHhcC-HHHHHHHHHHHHHcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            555554444433  2444444445555555555 555544444432   2366788889999999999999999999998


Q ss_pred             HCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCC---CCcchH
Q 041384          326 LERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAA---RDFVSW  402 (580)
Q Consensus       326 ~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~  402 (580)
                      +.. +.+..++..++..|.+.|++++|.++|+.+.+.. +.+..+|+.++.+|.+.|++++|.++|+++.+   .+..+|
T Consensus       367 ~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  444 (597)
T 2xpi_A          367 DRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQGTHLPY  444 (597)
T ss_dssp             HHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTTTCSHHH
T ss_pred             hhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHH
Confidence            654 5578889999999999999999999999998864 44678999999999999999999999998764   477899


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhh---CCCCC--hhHHHHHH
Q 041384          403 TTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEK---KIALA--IEHYACYV  477 (580)
Q Consensus       403 ~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~--~~~~~~l~  477 (580)
                      +.++.+|.+.|++++|.++|+++.+.. +.+..+|..++..|.+.|++++|.++|+++++..   +..|+  ..+|..++
T Consensus       445 ~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~  523 (597)
T 2xpi_A          445 LFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLG  523 (597)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHH
Confidence            999999999999999999999999863 4478999999999999999999999999977632   66777  78999999


Q ss_pred             HHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHh
Q 041384          478 DLLGKSGKIEDACKVVSTMP--MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSE  548 (580)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~  548 (580)
                      .+|.+.|++++|.++++++.  .+.+..+|..++.+|.+.|++++|.+.++++.+.+|.++..+..++.+|..
T Consensus       524 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~  596 (597)
T 2xpi_A          524 HAYRKLKMYDAAIDALNQGLLLSTNDANVHTAIALVYLHKKIPGLAITHLHESLAISPNEIMASDLLKRALEE  596 (597)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTC-
T ss_pred             HHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHhc
Confidence            99999999999999999982  344889999999999999999999999999999999999999999987743

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.97  E-value=1e-26  Score=224.78  Aligned_cols=374  Identities=14%  Similarity=0.113  Sum_probs=247.0

Q ss_pred             HHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCC
Q 041384          101 INCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHH  180 (580)
Q Consensus       101 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  180 (580)
                      ...+.+.|++++|+..++.+.+.. +.+...+..+...+...|+++.|...++...+..  |.+..++..+...+.+.|+
T Consensus         6 a~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~--p~~~~~~~~lg~~~~~~g~   82 (388)
T 1w3b_A            6 AHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN--PLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHHCCC
Confidence            344556666666666666665542 1233344444455555666666666666655553  4455555555555555555


Q ss_pred             HHHHHHHHhcCC--CC-CeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHH
Q 041384          181 WLIALRVFEQMV--IR-NEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYA  257 (580)
Q Consensus       181 ~~~a~~~~~~~~--~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  257 (580)
                      +++|...|+++.  .| +..+|..+..++.+.|++++|.+.|+++.+.  .|+                           
T Consensus        83 ~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~---------------------------  133 (388)
T 1w3b_A           83 LQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQY--NPD---------------------------  133 (388)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHH--CTT---------------------------
T ss_pred             HHHHHHHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCC---------------------------
Confidence            555555555441  12 2334444555555555555555555544433  122                           


Q ss_pred             HHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHH
Q 041384          258 YCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLL  337 (580)
Q Consensus       258 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~  337 (580)
                                                             +...+..+...+...|++++|...|+++.+.. +.+..++.
T Consensus       134 ---------------------------------------~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~  173 (388)
T 1w3b_A          134 ---------------------------------------LYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWS  173 (388)
T ss_dssp             ---------------------------------------CTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             ---------------------------------------cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHH
Confidence                                                   12223334444555555666666666555442 22345555


Q ss_pred             HHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCC
Q 041384          338 AILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAA---RDFVSWTTLISGYGFHGY  414 (580)
Q Consensus       338 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~  414 (580)
                      .+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...+++...   .+..++..+...+...|+
T Consensus       174 ~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~  252 (388)
T 1w3b_A          174 NLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGL  252 (388)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCC
Confidence            56666666666666666666666543 23455566666666777777777777665543   245677788888888899


Q ss_pred             hHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHH
Q 041384          415 GEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVV  493 (580)
Q Consensus       415 ~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  493 (580)
                      +++|+..++++.+.  .| +..++..+...+.+.|++++|...++++++.  .+.+..++..++..+.+.|++++|.+.+
T Consensus       253 ~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~  328 (388)
T 1w3b_A          253 IDLAIDTYRRAIEL--QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRL--CPTHADSLNNLANIKREQGNIEEAVRLY  328 (388)
T ss_dssp             HHHHHHHHHHHHHT--CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcccHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            99999999998885  45 5678888999999999999999999997763  4556788889999999999999999999


Q ss_pred             HhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCC
Q 041384          494 STM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGN  551 (580)
Q Consensus       494 ~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  551 (580)
                      +++ ...| +..++..++..+.+.|++++|...++++.+..|.++.++..++.++...|+
T Consensus       329 ~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~~~~a~~~lg~~~~~~~~  388 (388)
T 1w3b_A          329 RKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHhHHHHHHHccC
Confidence            887 3334 577899999999999999999999999999999999999999998877664

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.96  E-value=8.6e-29  Score=242.42  Aligned_cols=184  Identities=14%  Similarity=0.194  Sum_probs=173.4

Q ss_pred             hhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCC---------hHHHHHHHHHHHHhCCCCchh
Q 041384          299 VIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSF---------LSHGLGVHCYIMKAGLNFDVS  369 (580)
Q Consensus       299 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~---------~~~a~~~~~~~~~~~~~~~~~  369 (580)
                      ..++.+|.+|++.|++++|+++|++|.+.|+.||..||+.+|.+|++.+.         ++.|.++|++|.+.|+.||..
T Consensus        27 ~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~  106 (501)
T 4g26_A           27 ALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEA  106 (501)
T ss_dssp             HHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHH
Confidence            45788899999999999999999999999999999999999999987654         688999999999999999999


Q ss_pred             HHHHHHHHhHhcCCHHHHHHHHhcCCC----CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 041384          370 IGNALMNMYSKCGSITSSHQIFNEMAA----RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACN  445 (580)
Q Consensus       370 ~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~  445 (580)
                      +|+++|.+|++.|++++|.++|++|.+    ||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..||++|+.+|+
T Consensus       107 tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~  186 (501)
T 4g26_A          107 TFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSM  186 (501)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHh
Confidence            999999999999999999999999975    6999999999999999999999999999999999999999999999999


Q ss_pred             ccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhc
Q 041384          446 HAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKS  483 (580)
Q Consensus       446 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  483 (580)
                      +.|++++|.+++++ |++.+..|+..||+.++..++..
T Consensus       187 ~~g~~d~A~~ll~~-Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          187 DTKNADKVYKTLQR-LRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HTTCHHHHHHHHHH-HHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             hCCCHHHHHHHHHH-HHHhCCCcCHHHHHHHHHHHhcC
Confidence            99999999999999 56699999999999999988763

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.96  E-value=6.6e-29  Score=243.24  Aligned_cols=209  Identities=14%  Similarity=0.125  Sum_probs=165.5

Q ss_pred             HHHHHHHHHccCCCCCCC-cchHHHHHHhhcccchhHHHHHHHHHHHHhCCCCChhHHHHHHHHHHcCCCchHHHHhhcc
Q 041384           10 TLHLYKQELHPSGLYSNT-AILPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDE   88 (580)
Q Consensus        10 a~~~~~~~~~~~g~~~~~-~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~   88 (580)
                      +..+. +.+.+.++.+.+ ..++.+|.+|++.|++ +.|.++|++|.+.|+.||..+||+||.+|++.+...++      
T Consensus         9 ~e~L~-~~~~~k~~~~spe~~l~~~id~c~k~G~~-~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~------   80 (501)
T 4g26_A            9 SENLS-RKAKKKAIQQSPEALLKQKLDMCSKKGDV-LEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATES------   80 (501)
T ss_dssp             ----------------CHHHHHHHHHHHTTTSCCH-HHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSS------
T ss_pred             HHHHH-HHHHHhcccCCCHHHHHHHHHHHHhCCCH-HHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhh------
Confidence            33444 777777766554 4688899999999999 99999999999999999999999999999988765432      


Q ss_pred             CCCCCccchHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHH
Q 041384           89 MPYRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVS  168 (580)
Q Consensus        89 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  168 (580)
                                      .+.++++.|.++|++|.+.|+.||..||+++|.+|++.|+++.|.++++.|.+.| +.||..+|
T Consensus        81 ----------------~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g-~~Pd~~ty  143 (501)
T 4g26_A           81 ----------------SPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFG-IQPRLRSY  143 (501)
T ss_dssp             ----------------SCCHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-CCCCHHHH
T ss_pred             ----------------hhcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCCcccee
Confidence                            2345578899999999999999999999999999999999999999999999999 88888888


Q ss_pred             hHHHHHhHhcCCHHHHHHHHhcC----CCCCeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 041384          169 TALLDLYSKCHHWLIALRVFEQM----VIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAE  243 (580)
Q Consensus       169 ~~l~~~~~~~~~~~~a~~~~~~~----~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  243 (580)
                      +.+|.+|++.|++++|.++|++|    ..||..+|++||.+|++.|+.++|.++|++|.+.|+.|+..||+.++..++.
T Consensus       144 n~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          144 GPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             hHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            88888888888888888888777    5567778888888888888888888888888888888888888887777765

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.96  E-value=1e-25  Score=217.77  Aligned_cols=328  Identities=13%  Similarity=0.055  Sum_probs=262.1

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHH
Q 041384          199 WTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCE  278 (580)
Q Consensus       199 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  278 (580)
                      +..+...+...|++++|...++...+.. +.+..+|..+...+.+.|++++|...++.+.+..                 
T Consensus        36 ~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-----------------   97 (388)
T 1w3b_A           36 LLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLK-----------------   97 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-----------------
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-----------------
Confidence            3334444455555555555555544431 2344455555555555555555555555544322                 


Q ss_pred             cCCCHHHHHHHHhhCCCCChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHH
Q 041384          279 CTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCY  358 (580)
Q Consensus       279 ~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  358 (580)
                                      +.+...|..+..++...|++++|...|+++.+.. +.+...+..+...+...|++++|.+.|+.
T Consensus        98 ----------------p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  160 (388)
T 1w3b_A           98 ----------------PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLK  160 (388)
T ss_dssp             ----------------TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             ----------------cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence                            1244567778888889999999999999998764 23445677788888999999999999999


Q ss_pred             HHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CH
Q 041384          359 IMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEP-DA  434 (580)
Q Consensus       359 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~  434 (580)
                      +.+.. +.+..++..+...+...|++++|...|+++.+   .+...|..+...+...|++++|+..+++....  .| +.
T Consensus       161 al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~  237 (388)
T 1w3b_A          161 AIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSL--SPNHA  237 (388)
T ss_dssp             HHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHH--CTTCH
T ss_pred             HHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcCCH
Confidence            99874 44678889999999999999999999998875   34567888999999999999999999999885  55 56


Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHH
Q 041384          435 ITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP--MKPSTRILSSLVSAC  512 (580)
Q Consensus       435 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~  512 (580)
                      .++..+...+...|++++|...++++++.  .+.+..++..++..+.+.|++++|.+.++++.  .+.+..++..+...+
T Consensus       238 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~  315 (388)
T 1w3b_A          238 VVHGNLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIK  315 (388)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHH
Confidence            88899999999999999999999997762  23346789999999999999999999999983  456788999999999


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 041384          513 RIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       513 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      .+.|++++|+..++++.+..|+++.++..++.+|.+.|++++|.+.++++.+..
T Consensus       316 ~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  369 (388)
T 1w3b_A          316 REQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS  369 (388)
T ss_dssp             HTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTC
T ss_pred             HHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            999999999999999999999999999999999999999999999999998754

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.94  E-value=7.7e-24  Score=212.96  Aligned_cols=439  Identities=9%  Similarity=-0.030  Sum_probs=258.5

Q ss_pred             chHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHh
Q 041384           96 SWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLY  175 (580)
Q Consensus        96 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  175 (580)
                      .+......+.+.|++++|+..|+++.+.+  |+..++..+..++...|+++.|...++.+++.+  |.+..++..+..++
T Consensus         8 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~   83 (514)
T 2gw1_A            8 ALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK--PDYSKVLLRRASAN   83 (514)
T ss_dssp             HHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC--hHHHHHHHHHHHHH
Confidence            45556677777888888888888887754  677778778888888888888888888887765  55667777777777


Q ss_pred             HhcCCHHHHHHHHhcCCC---CCeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHH
Q 041384          176 SKCHHWLIALRVFEQMVI---RNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKA  252 (580)
Q Consensus       176 ~~~~~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~  252 (580)
                      .+.|++++|...|+++..   .+......++..+........+.+.+..+...+..|+...+..-.........      
T Consensus        84 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~------  157 (514)
T 2gw1_A           84 EGLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQEN------  157 (514)
T ss_dssp             HHTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------C------
T ss_pred             HHHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccC------
Confidence            788888888777776622   23333344444443333333333333332222222222211110000000000      


Q ss_pred             HHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCC-ChhhHHHHHHHHHh---CCChhHHHHHHHHHHH--
Q 041384          253 IHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVK-DVVIWSSIIRGYSQ---SGDLSEAMKLFSRMRL--  326 (580)
Q Consensus       253 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~l~~~~~~---~~~~~~a~~~~~~m~~--  326 (580)
                                .|+.......+..+..... .       .....| +...+......+..   .|++++|...|+++.+  
T Consensus       158 ----------~~~~~~~~~~~~~~~~~~~-~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~  219 (514)
T 2gw1_A          158 ----------LPSVTSMASFFGIFKPELT-F-------ANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLF  219 (514)
T ss_dssp             ----------CCCHHHHHHHHTTSCCCCC-C-------SSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHH
T ss_pred             ----------CchhHHHHHHHhhcCHHHH-H-------HHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHh
Confidence                      1111100000000000000 0       000001 12233333333333   6777777777777765  


Q ss_pred             ---CCCC--------CCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCC
Q 041384          327 ---ERIE--------PNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMA  395 (580)
Q Consensus       327 ---~~~~--------p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  395 (580)
                         ..-.        .+..++..+...+...|++++|...++.+.+....  ...+..+..++...|++++|...++++.
T Consensus       220 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~  297 (514)
T 2gw1_A          220 EEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKAL  297 (514)
T ss_dssp             HHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHH
T ss_pred             hhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHh
Confidence               2111        12345666666777777777777777777766533  6666777777777777777777777655


Q ss_pred             C---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhH
Q 041384          396 A---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEH  472 (580)
Q Consensus       396 ~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  472 (580)
                      .   .+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++++.  .+.+...
T Consensus       298 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~  374 (514)
T 2gw1_A          298 KLDSNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRK--FPEAPEV  374 (514)
T ss_dssp             TTCTTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHH--STTCSHH
T ss_pred             hcCcCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--cccCHHH
Confidence            4   245567777777777777777777777777642 224566777777777777777777777776542  2234556


Q ss_pred             HHHHHHHhhhcCChHHHHHHHHhCC----CCCC----HHHHHHHHHHHHh---cCCHHHHHHHHHHHHhcCCCCchHHHH
Q 041384          473 YACYVDLLGKSGKIEDACKVVSTMP----MKPS----TRILSSLVSACRI---HGRLEVAEMLAHQLIEAEPENAANYTL  541 (580)
Q Consensus       473 ~~~l~~~~~~~g~~~~A~~~~~~~~----~~p~----~~~~~~l~~~~~~---~~~~~~A~~~~~~~~~~~~~~~~~~~~  541 (580)
                      +..++..+.+.|++++|...++++.    ..++    ...+..+...+..   .|++++|...++++.+..|.++.++..
T Consensus       375 ~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~  454 (514)
T 2gw1_A          375 PNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIG  454 (514)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHH
Confidence            7777777777777777777777662    1122    3367777777777   777777777777777777777777777


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          542 LSMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       542 l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      ++.+|.+.|++++|.+.++++.+...
T Consensus       455 la~~~~~~g~~~~A~~~~~~a~~~~~  480 (514)
T 2gw1_A          455 LAQMKLQQEDIDEAITLFEESADLAR  480 (514)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCS
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHhcc
Confidence            77777777777777777777766543

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.93  E-value=2e-23  Score=209.85  Aligned_cols=406  Identities=7%  Similarity=-0.096  Sum_probs=277.3

Q ss_pred             hhHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCC---CCCeehHHHHHHHH
Q 041384          130 ELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMV---IRNEVSWTAMISGC  206 (580)
Q Consensus       130 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~li~~~  206 (580)
                      ..+......+.+.|+++.|...++.+++..   |+..++..+..++.+.|++++|...|+++.   ..+..+|..+..++
T Consensus         7 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~   83 (514)
T 2gw1_A            7 LALKDKGNQFFRNKKYDDAIKYYNWALELK---EDPVFYSNLSACYVSVGDLKKVVEMSTKALELKPDYSKVLLRRASAN   83 (514)
T ss_dssp             HHHHHHHHHHHHTSCHHHHHHHHHHHHHHC---CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhcC---ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccChHHHHHHHHHHHHH
Confidence            345556667778888888888888888865   477788888888888888888888888762   23556777788888


Q ss_pred             HhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHH
Q 041384          207 IDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPA  286 (580)
Q Consensus       207 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a  286 (580)
                      ...|++++|...|+++...+. ++......++..+........+.+.+..+...+..|+........             
T Consensus        84 ~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~-------------  149 (514)
T 2gw1_A           84 EGLGKFADAMFDLSVLSLNGD-FNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAK-------------  149 (514)
T ss_dssp             HHTTCHHHHHHHHHHHHHSSS-CCGGGTHHHHHHHHHHHHHHHHTTC---------------------------------
T ss_pred             HHHhhHHHHHHHHHHHHhcCC-CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhh-------------
Confidence            888888888888888777642 333333333333322222222222221111111111110000000             


Q ss_pred             HHHHhhC-CCCChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhh---ccCChHHHHHHHHHHHH-
Q 041384          287 RIIFERT-KVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCT---RQSFLSHGLGVHCYIMK-  361 (580)
Q Consensus       287 ~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~---~~~~~~~a~~~~~~~~~-  361 (580)
                       ...... ..|+.....    .+...........      ...-+.+...+......+.   +.|++++|...++.+.+ 
T Consensus       150 -~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  218 (514)
T 2gw1_A          150 -ERKDKQENLPSVTSMA----SFFGIFKPELTFA------NYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARL  218 (514)
T ss_dssp             --------CCCCHHHHH----HHHTTSCCCCCCS------SCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHH
T ss_pred             -HHHhhccCCchhHHHH----HHHhhcCHHHHHH------HhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHH
Confidence             000000 011111111    1111111000000      0000122344444444444   48999999999999988 


Q ss_pred             ----hCC--------CCchhHHHHHHHHhHhcCCHHHHHHHHhcCCC--CCcchHHHHHHHHHhcCChHHHHHHHHHHHH
Q 041384          362 ----AGL--------NFDVSIGNALMNMYSKCGSITSSHQIFNEMAA--RDFVSWTTLISGYGFHGYGEEALQLFLEMQE  427 (580)
Q Consensus       362 ----~~~--------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  427 (580)
                          ...        +.+..++..+...+...|++++|...++++.+  |+...+..+...+...|++++|...++++.+
T Consensus       219 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  298 (514)
T 2gw1_A          219 FEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELFPRVNSYIYMALIMADRNDSTEYYNYFDKALK  298 (514)
T ss_dssp             HHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHTSSCCTTGGGHHHHHHT
T ss_pred             hhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCccHHHHHHHHHHHHHCCCHHHHHHHHHHHhh
Confidence                311        23466788889999999999999999998765  4466788899999999999999999999988


Q ss_pred             cCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHH
Q 041384          428 SGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP--MKPSTRIL  505 (580)
Q Consensus       428 ~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~  505 (580)
                      .. +.+...+..+...+...|++++|...++++++  ..+.+...+..++..+...|++++|...++++.  .+.+...+
T Consensus       299 ~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~  375 (514)
T 2gw1_A          299 LD-SNNSSVYYHRGQMNFILQNYDQAGKDFDKAKE--LDPENIFPYIQLACLAYRENKFDDCETLFSEAKRKFPEAPEVP  375 (514)
T ss_dssp             TC-TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHH--TCSSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHSTTCSHHH
T ss_pred             cC-cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHH--hChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcccCHHHH
Confidence            52 33668888999999999999999999999775  233457788999999999999999999999882  34467889


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCch------HHHHHHHHHHh---cCChHHHHHHHHHHHhCC
Q 041384          506 SSLVSACRIHGRLEVAEMLAHQLIEAEPENAA------NYTLLSMVCSE---SGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       506 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~------~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~  566 (580)
                      ..+...+...|++++|...++++.+..|.++.      .+..++.++..   .|++++|.+.++++.+..
T Consensus       376 ~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~  445 (514)
T 2gw1_A          376 NFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD  445 (514)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC
Confidence            99999999999999999999999999888765      89999999999   999999999999998754

>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=2.5e-22  Score=203.08  Aligned_cols=430  Identities=11%  Similarity=0.030  Sum_probs=211.7

Q ss_pred             ccchHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHH
Q 041384           94 TISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLD  173 (580)
Q Consensus        94 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  173 (580)
                      ...|..+...+.+.|++++|+..|+++.+.. +.++.++..+..++...|+++.|.+.++.+++..  |.+..++..+..
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~la~  101 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIK--PDHSKALLRRAS  101 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CchHHHHHHHHH
Confidence            4456777788888888888888888888764 3367788888888888888888888888888876  667788888888


Q ss_pred             HhHhcCCHHHHHHHHhcCCCCCeehHHHHHHHHHhcCChhHHHHHHHHHHHc------CCCCCHHHHHHHHHHHhcCCCc
Q 041384          174 LYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQRE------GVKPTRVTLTIVLLACAELRDL  247 (580)
Q Consensus       174 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~~p~~~~~~~ll~~~~~~~~~  247 (580)
                      ++...|++++|...|+.+ ..+....+..+..+...+....|...++.+...      ...|+.......+    ...+.
T Consensus       102 ~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~----~~~~~  176 (537)
T 3fp2_A          102 ANESLGNFTDAMFDLSVL-SLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFF----GIFDS  176 (537)
T ss_dssp             HHHHHTCHHHHHHHHHHH-C-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHH----HTSCH
T ss_pred             HHHHcCCHHHHHHHHHHH-hcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHH----HhcCh
Confidence            888889999998888644 222222233344555566667788888887543      1234443333222    22222


Q ss_pred             hhHHHHHHHHHHhcCCCchh-HHHHHHHHHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHHHhCCChhHHHHHHHHHHH
Q 041384          248 RNGKAIHGYAYCCGFDFDHH-LSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRL  326 (580)
Q Consensus       248 ~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  326 (580)
                      +.+...+....  ...+... ....+...+...+.                        ......|++++|..+++++.+
T Consensus       177 ~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~------------------------~~~~a~~~~~~A~~~~~~~l~  230 (537)
T 3fp2_A          177 HLEVSSVNTSS--NYDTAYALLSDALQRLYSATDE------------------------GYLVANDLLTKSTDMYHSLLS  230 (537)
T ss_dssp             HHHHHTSCCCC--SSCSSHHHHHHHHHHHHTCSHH------------------------HHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHhhcc--ccccHHHHHHHHHHHHHHhhhh------------------------hhHHHHHHHHHHHHHHHHHHH
Confidence            22111110000  0000000 11111111100000                        000011234444444444443


Q ss_pred             CCCCCC--------HHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCC--
Q 041384          327 ERIEPN--------SVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAA--  396 (580)
Q Consensus       327 ~~~~p~--------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--  396 (580)
                      ..  |+        ..++..+...+...|++++|...++...+..  |+...+..+...+...|++++|...++++.+  
T Consensus       231 ~~--p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  306 (537)
T 3fp2_A          231 AN--TVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLN  306 (537)
T ss_dssp             ----CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC
T ss_pred             HC--CCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC
Confidence            31  22        1123333334444455555555555544432  2244444444445555555555555544432  


Q ss_pred             -CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHH
Q 041384          397 -RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYAC  475 (580)
Q Consensus       397 -~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  475 (580)
                       .+..++..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++++.  .+.+...+..
T Consensus       307 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~  383 (537)
T 3fp2_A          307 PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLK--FPTLPEVPTF  383 (537)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTHHHHH
T ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHH
Confidence             233344445555555555555555555554431 112344444555555555555555555554431  1222334444


Q ss_pred             HHHHhhhcCChHHHHHHHHhCC-C---C----CCHHHHHHHHHHHHhc----------CCHHHHHHHHHHHHhcCCCCch
Q 041384          476 YVDLLGKSGKIEDACKVVSTMP-M---K----PSTRILSSLVSACRIH----------GRLEVAEMLAHQLIEAEPENAA  537 (580)
Q Consensus       476 l~~~~~~~g~~~~A~~~~~~~~-~---~----p~~~~~~~l~~~~~~~----------~~~~~A~~~~~~~~~~~~~~~~  537 (580)
                      +...+...|++++|...++++. .   .    .....+..+...+...          |++++|+..++++.+..|.++.
T Consensus       384 l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~  463 (537)
T 3fp2_A          384 FAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQ  463 (537)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHH
Confidence            5555555555555555554431 0   0    0111122333344444          5555555555555555555555


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHh
Q 041384          538 NYTLLSMVCSESGNWLGAEEVWRVMRA  564 (580)
Q Consensus       538 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (580)
                      ++..++.+|.+.|++++|.+.+++..+
T Consensus       464 ~~~~l~~~~~~~g~~~~A~~~~~~al~  490 (537)
T 3fp2_A          464 AKIGLAQLKLQMEKIDEAIELFEDSAI  490 (537)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            555555555555555555555555444

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.92  E-value=5.1e-22  Score=196.01  Aligned_cols=337  Identities=11%  Similarity=0.017  Sum_probs=247.8

Q ss_pred             CeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHH
Q 041384          195 NEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMH  274 (580)
Q Consensus       195 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  274 (580)
                      +...+..+...+.+.|++++|+.+|+++.+.. +.+..++..+..++...|++++|...++.+.+.+..           
T Consensus        25 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-----------   92 (450)
T 2y4t_A           25 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMD-----------   92 (450)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-----------
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-----------
Confidence            34456666667777777777777777766542 235666666677777777777777777666554321           


Q ss_pred             HHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCH----HHHHHH-----------
Q 041384          275 MYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNS----VTLLAI-----------  339 (580)
Q Consensus       275 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~~l-----------  339 (580)
                                            +...+..+...|...|++++|...|+++.+.  .|+.    ..+..+           
T Consensus        93 ----------------------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~  148 (450)
T 2y4t_A           93 ----------------------FTAARLQRGHLLLKQGKLDEAEDDFKKVLKS--NPSENEEKEAQSQLIKSDEMQRLRS  148 (450)
T ss_dssp             ----------------------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ----------------------cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCChhhHHHHHHHHHHHHHHHHHH
Confidence                                  3344555666666777777777777777654  3332    333333           


Q ss_pred             -HHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCCh
Q 041384          340 -LSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYG  415 (580)
Q Consensus       340 -l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~  415 (580)
                       ...+...|++++|...++.+.+.. +.+..++..+..+|.+.|++++|...|+++.+   .+..+|..+...|...|++
T Consensus       149 ~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  227 (450)
T 2y4t_A          149 QALNAFGSGDYTAAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDH  227 (450)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH
Confidence             344777888888888888888764 45677788888888999999999988888764   4667888899999999999


Q ss_pred             HHHHHHHHHHHHcCCCCCH-HHHHHH------------HHHHhccCCHHHHHHHHHHHHHhhCCCCC--hhHHHHHHHHh
Q 041384          416 EEALQLFLEMQESGVEPDA-ITVLAI------------LSACNHAGLVKEAETLFNNVMKEKKIALA--IEHYACYVDLL  480 (580)
Q Consensus       416 ~~a~~~~~~~~~~g~~p~~-~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~  480 (580)
                      ++|+..++++...  .|+. ..+..+            ...|...|++++|...|+++++.....|.  ...+..++.++
T Consensus       228 ~~A~~~~~~~~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~l~~~~  305 (450)
T 2y4t_A          228 ELSLSEVRECLKL--DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSIAEYTVRSKERICHCF  305 (450)
T ss_dssp             HHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh--CCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHH
Confidence            9999999999875  4543 444444            78889999999999999997763222221  44788899999


Q ss_pred             hhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHH------------HH
Q 041384          481 GKSGKIEDACKVVSTM-P-MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSM------------VC  546 (580)
Q Consensus       481 ~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~------------~~  546 (580)
                      .+.|++++|+..++++ . .+.+...|..++.+|...|++++|...++++.+..|.++.++..++.            .|
T Consensus       306 ~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~~~y  385 (450)
T 2y4t_A          306 SKDEKPVEAIRVCSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRLLKQSQKRDYY  385 (450)
T ss_dssp             HTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHHHSCCSG
T ss_pred             HHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHhhcccchhHH
Confidence            9999999999999987 3 34478899999999999999999999999999999999999999984            45


Q ss_pred             HhcC-----ChHHHHHHHHH-HHhCCCccC
Q 041384          547 SESG-----NWLGAEEVWRV-MRAKGLSKS  570 (580)
Q Consensus       547 ~~~g-----~~~~A~~~~~~-~~~~~~~~~  570 (580)
                      ...|     +.+++.+.+++ ..+..+.+.
T Consensus       386 ~~lg~~~~~~~~~~~~~y~~~~l~~~pd~~  415 (450)
T 2y4t_A          386 KILGVKRNAKKQEIIKAYRKLALQWHPDNF  415 (450)
T ss_dssp             GGSCSSTTCCTTHHHHHHHHHHHHSCGGGC
T ss_pred             HHhCCCccCCHHHHHHHHHHHHHHhCCCCC
Confidence            5555     66677888776 455444433

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.90  E-value=3.8e-21  Score=189.77  Aligned_cols=366  Identities=10%  Similarity=-0.023  Sum_probs=236.1

Q ss_pred             CCchHHHhHHHHHhHhcCCHHHHHHHHhcCC---CCCeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHH
Q 041384          162 ELSVFVSTALLDLYSKCHHWLIALRVFEQMV---IRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVL  238 (580)
Q Consensus       162 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll  238 (580)
                      |.+...+..++..+.+.|++++|..+|+++.   ..+..+|..+..++...|++++|...|+++.+.+ +.+...+..+.
T Consensus        23 p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~  101 (450)
T 2y4t_A           23 MADVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRG  101 (450)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHH
Confidence            3444555555555555566666655555542   2244455555566666666666666666655542 12345555555


Q ss_pred             HHHhcCCCchhHHHHHHHHHHhcCCCch---hHHHHHHHHHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHHHhCCChh
Q 041384          239 LACAELRDLRNGKAIHGYAYCCGFDFDH---HLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLS  315 (580)
Q Consensus       239 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  315 (580)
                      ..+.+.|++++|...++.+.+.... +.   ..+..+...+..                    ..+..+...+...|+++
T Consensus       102 ~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~--------------------~~~~~~a~~~~~~~~~~  160 (450)
T 2y4t_A          102 HLLLKQGKLDEAEDDFKKVLKSNPS-ENEEKEAQSQLIKSDEM--------------------QRLRSQALNAFGSGDYT  160 (450)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTSCCC-HHHHHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCC-ChhhHHHHHHHHHHHHH--------------------HHHHHHHHHHHHcCCHH
Confidence            6666666666666666665543221 11   222222222111                    11223344566778888


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCC
Q 041384          316 EAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMA  395 (580)
Q Consensus       316 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  395 (580)
                      +|...|+++.+.. +.+...+..+..++...|++++|...++.+.+.. +.+..++..+..+|...|++++|...|+++.
T Consensus       161 ~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  238 (450)
T 2y4t_A          161 AAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECL  238 (450)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            8888888877653 4466777778888888888888888888877753 4456777888888888888888888888775


Q ss_pred             C--C-CcchHHHH------------HHHHHhcCChHHHHHHHHHHHHcCCCCC-----HHHHHHHHHHHhccCCHHHHHH
Q 041384          396 A--R-DFVSWTTL------------ISGYGFHGYGEEALQLFLEMQESGVEPD-----AITVLAILSACNHAGLVKEAET  455 (580)
Q Consensus       396 ~--~-~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~g~~p~-----~~~~~~l~~~~~~~~~~~~a~~  455 (580)
                      .  | +...+..+            ...+...|++++|...|+++.+.  .|+     ...+..+...+.+.|++++|..
T Consensus       239 ~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~  316 (450)
T 2y4t_A          239 KLDQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKERICHCFSKDEKPVEAIR  316 (450)
T ss_dssp             HHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHTTTCHHHHHH
T ss_pred             HhCCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHHHCCCHHHHHH
Confidence            4  2 33334333            78888999999999999999885  454     3467788888999999999999


Q ss_pred             HHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHH------------HHhcC-----
Q 041384          456 LFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSA------------CRIHG-----  516 (580)
Q Consensus       456 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~------------~~~~~-----  516 (580)
                      .++++++.  .+.+...+..++.+|...|++++|...++++ ...| +...+..+..+            |...|     
T Consensus       317 ~~~~a~~~--~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~~~y~~lg~~~~~  394 (450)
T 2y4t_A          317 VCSEVLQM--EPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRLLKQSQKRDYYKILGVKRNA  394 (450)
T ss_dssp             HHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHHHSCCSGGGSCSSTTC
T ss_pred             HHHHHHHh--CcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHhhcccchhHHHHhCCCccC
Confidence            99997652  2345788889999999999999999999888 4556 45566655533            22333     


Q ss_pred             CHHHHHHHHHH-HHhcCCCCch----------HHHHHHHHHHhcCChHHH
Q 041384          517 RLEVAEMLAHQ-LIEAEPENAA----------NYTLLSMVCSESGNWLGA  555 (580)
Q Consensus       517 ~~~~A~~~~~~-~~~~~~~~~~----------~~~~l~~~~~~~g~~~~A  555 (580)
                      +.+++.+.+++ ..+..|++..          .+..+..+|...|+.+++
T Consensus       395 ~~~~~~~~y~~~~l~~~pd~~~~~~~~~~a~~~~~~i~~ay~~L~d~~~r  444 (450)
T 2y4t_A          395 KKQEIIKAYRKLALQWHPDNFQNEEEKKKAEKKFIDIAAAKEVLSDPEMR  444 (450)
T ss_dssp             CTTHHHHHHHHHHHHSCGGGCCSHHHHHHHHHHHHHHHHHHHHSSGGGGC
T ss_pred             CHHHHHHHHHHHHHHhCCCCCCCchHHHHHHHHHHHHHHHHHHhCCHHHH
Confidence            55677888876 5666665322          345555555555555443

>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=99.89  E-value=1.2e-20  Score=190.69  Aligned_cols=440  Identities=9%  Similarity=-0.007  Sum_probs=306.7

Q ss_pred             hhHHHHHHHHHHcCCCchHHHHhhccCC---CCCccchHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHh
Q 041384           63 PVISNSLISMYAKFSKPESAYQLFDEMP---YRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLC  139 (580)
Q Consensus        63 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~  139 (580)
                      ...+..+...+.+.|++++|.+.|+++.   +.+...|..+..++.+.|++++|+..|++..+.+ +.+..++..+...+
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~  103 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIELDPNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASAN  103 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHHH
Confidence            3456667777788888888888888764   3467778888888888888888888888887754 23566777778888


Q ss_pred             hccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCCC------CeehHHHHHHHHHhcCChh
Q 041384          140 SQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIR------NEVSWTAMISGCIDSQNYD  213 (580)
Q Consensus       140 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~li~~~~~~~~~~  213 (580)
                      ...|+++.|...++.+ ...   |+.  ....+..+...+....|...++++...      ........+..+....+.+
T Consensus       104 ~~~g~~~~A~~~~~~~-~~~---~~~--~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  177 (537)
T 3fp2_A          104 ESLGNFTDAMFDLSVL-SLN---GDF--DGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSH  177 (537)
T ss_dssp             HHHTCHHHHHHHHHHH-C----------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHH
T ss_pred             HHcCCHHHHHHHHHHH-hcC---CCC--ChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChH
Confidence            8888888888888633 222   111  111233344455556777777776432      2223344455566666666


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHH-HHhcC--------CCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHH
Q 041384          214 TGIDLFRAMQREGVKPTRVTLTIVLL-ACAEL--------RDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALH  284 (580)
Q Consensus       214 ~a~~~~~~m~~~~~~p~~~~~~~ll~-~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  284 (580)
                      .+...+.....  ..|....+...+. .+...        +++++|..+++.+.+.... +...+..+            
T Consensus       178 ~~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~-~~~~~~~~------------  242 (537)
T 3fp2_A          178 LEVSSVNTSSN--YDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTV-DDPLRENA------------  242 (537)
T ss_dssp             HHHHTSCCCCS--SCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CC-CHHHHHHH------------
T ss_pred             HHHHHHhhccc--cccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCC-cchhhHHH------------
Confidence            65554433322  2222222222222 22221        2445555555554433221 11111111            


Q ss_pred             HHHHHHhhCCCCChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCC
Q 041384          285 PARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGL  364 (580)
Q Consensus       285 ~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  364 (580)
                                   ..++..+...+...|++++|...+++..+.  .|+...+..+...+...|++++|...++.+.+.. 
T Consensus       243 -------------~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-  306 (537)
T 3fp2_A          243 -------------ALALCYTGIFHFLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-  306 (537)
T ss_dssp             -------------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-
T ss_pred             -------------HHHHHHHHHHHHhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-
Confidence                         123455666788899999999999999876  5668888899999999999999999999999875 


Q ss_pred             CCchhHHHHHHHHhHhcCCHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 041384          365 NFDVSIGNALMNMYSKCGSITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAIL  441 (580)
Q Consensus       365 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~  441 (580)
                      +.+..++..+...+...|++++|...++++.+   .+...+..+...+...|++++|...++++.+.. +.+...+..+.
T Consensus       307 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~  385 (537)
T 3fp2_A          307 PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNPENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFA  385 (537)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHH
Confidence            44678889999999999999999999998765   356789999999999999999999999999863 33567888999


Q ss_pred             HHHhccCCHHHHHHHHHHHHHhhCCCCC----hhHHHHHHHHhhhc----------CChHHHHHHHHhCC--CCCCHHHH
Q 041384          442 SACNHAGLVKEAETLFNNVMKEKKIALA----IEHYACYVDLLGKS----------GKIEDACKVVSTMP--MKPSTRIL  505 (580)
Q Consensus       442 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~----------g~~~~A~~~~~~~~--~~p~~~~~  505 (580)
                      ..+...|++++|...++++++.....++    ...+..+...+.+.          |++++|...++++.  .+.+...+
T Consensus       386 ~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~  465 (537)
T 3fp2_A          386 EILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQAK  465 (537)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHHHH
Confidence            9999999999999999998764322222    22344556777777          99999999999883  34467889


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHH
Q 041384          506 SSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTL  541 (580)
Q Consensus       506 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  541 (580)
                      ..+...+.+.|++++|...++++.+..|.+......
T Consensus       466 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  501 (537)
T 3fp2_A          466 IGLAQLKLQMEKIDEAIELFEDSAILARTMDEKLQA  501 (537)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--CHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHHH
Confidence            999999999999999999999999999988876543

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.86  E-value=1.2e-18  Score=166.25  Aligned_cols=311  Identities=11%  Similarity=0.024  Sum_probs=181.6

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHH
Q 041384          198 SWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYC  277 (580)
Q Consensus       198 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  277 (580)
                      .+..+...+...|++++|+..|++..+.. +.+...+..+...+...|++++|...++.+.+....              
T Consensus         5 ~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~--------------   69 (359)
T 3ieg_A            5 KHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMD--------------   69 (359)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT--------------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC--------------
Confidence            44555666667777777777777766542 224556666666666677777777666666554211              


Q ss_pred             HcCCCHHHHHHHHhhCCCCChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCC----CHHHHHHH------------HH
Q 041384          278 ECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEP----NSVTLLAI------------LS  341 (580)
Q Consensus       278 ~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p----~~~~~~~l------------l~  341 (580)
                                         +...+..+...+...|++++|...+++..+.  .|    +...+..+            ..
T Consensus        70 -------------------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~  128 (359)
T 3ieg_A           70 -------------------FTAARLQRGHLLLKQGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKADEMQRLRSQAL  128 (359)
T ss_dssp             -------------------CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -------------------cchHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHHHHHHHHHHHHH
Confidence                               2334555555666666677777777666644  33    22222222            35


Q ss_pred             HhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHH
Q 041384          342 SCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEA  418 (580)
Q Consensus       342 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a  418 (580)
                      .+...|++++|...++.+.+.. +.+...+..+...+...|++++|...++++.+   .+...+..+...+...|++++|
T Consensus       129 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  207 (359)
T 3ieg_A          129 DAFDGADYTAAITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHELS  207 (359)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            5566677777777777666654 33455666666666667777777666666544   2445666666666777777777


Q ss_pred             HHHHHHHHHcCCCCC-HHHHH------------HHHHHHhccCCHHHHHHHHHHHHHhhCCCCCh--hHHHHHHHHhhhc
Q 041384          419 LQLFLEMQESGVEPD-AITVL------------AILSACNHAGLVKEAETLFNNVMKEKKIALAI--EHYACYVDLLGKS  483 (580)
Q Consensus       419 ~~~~~~~~~~g~~p~-~~~~~------------~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~  483 (580)
                      ...+++..+.  .|+ ...+.            .+...+...|++++|...++++++.....+..  ..+..+..++...
T Consensus       208 ~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~  285 (359)
T 3ieg_A          208 LSEVRECLKL--DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKD  285 (359)
T ss_dssp             HHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhh--CccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHc
Confidence            7777776664  332 22222            12444666667777777766655422111111  2233455666666


Q ss_pred             CChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHH
Q 041384          484 GKIEDACKVVSTMP--MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCS  547 (580)
Q Consensus       484 g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  547 (580)
                      |++++|...+++..  .+.+...+..+...+...|++++|...++++.+.+|.++.++..+..+..
T Consensus       286 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~  351 (359)
T 3ieg_A          286 EKPVEAIRICSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNENDQQIREGLEKAQR  351 (359)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHH
Confidence            66666666666652  22355566666666666666666666666666666666666666655543

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.85  E-value=2.1e-18  Score=164.47  Aligned_cols=300  Identities=10%  Similarity=0.001  Sum_probs=242.9

Q ss_pred             HHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHHHh
Q 041384          231 RVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQ  310 (580)
Q Consensus       231 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~  310 (580)
                      ...+..+...+...|++++|...++.+.+...                                 .+...+..+...+..
T Consensus         3 ~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p---------------------------------~~~~~~~~~a~~~~~   49 (359)
T 3ieg_A            3 VEKHLELGKKLLAAGQLADALSQFHAAVDGDP---------------------------------DNYIAYYRRATVFLA   49 (359)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT---------------------------------TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc---------------------------------ccHHHHHHHHHHHHH
Confidence            44566667777788888888888777765432                                 245567778888889


Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCC--CchhHHHHH------------HH
Q 041384          311 SGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLN--FDVSIGNAL------------MN  376 (580)
Q Consensus       311 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l------------~~  376 (580)
                      .|++++|...++++.+.. +.+...+..+...+...|++++|...++...+....  .+...+..+            ..
T Consensus        50 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  128 (359)
T 3ieg_A           50 MGKSKAALPDLTKVIALK-MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQAL  128 (359)
T ss_dssp             HTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHhC-CCcchHHHHHHHHHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999998764 346778899999999999999999999999876420  244444444            57


Q ss_pred             HhHhcCCHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHH
Q 041384          377 MYSKCGSITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEA  453 (580)
Q Consensus       377 ~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a  453 (580)
                      .+...|++++|...++++.+   .+...+..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|
T Consensus       129 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A  207 (359)
T 3ieg_A          129 DAFDGADYTAAITFLDKILEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELS  207 (359)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHH
Confidence            88899999999999998765   366788899999999999999999999999862 34678899999999999999999


Q ss_pred             HHHHHHHHHhhCCCCChhHHH------------HHHHHhhhcCChHHHHHHHHhC-CCCCC-H----HHHHHHHHHHHhc
Q 041384          454 ETLFNNVMKEKKIALAIEHYA------------CYVDLLGKSGKIEDACKVVSTM-PMKPS-T----RILSSLVSACRIH  515 (580)
Q Consensus       454 ~~~~~~~~~~~~~~~~~~~~~------------~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~----~~~~~l~~~~~~~  515 (580)
                      ...++++++...  .+...+.            .++..+.+.|++++|...++++ ...|+ .    ..+..+...+...
T Consensus       208 ~~~~~~a~~~~~--~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~  285 (359)
T 3ieg_A          208 LSEVRECLKLDQ--DHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKD  285 (359)
T ss_dssp             HHHHHHHHHHCT--TCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhhCc--cchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHc
Confidence            999999776322  2222222            2366789999999999999987 23343 3    2355678889999


Q ss_pred             CCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          516 GRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       516 ~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      |++++|...++++.+..|.++.++..++.++...|++++|.+.++++.+..+
T Consensus       286 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p  337 (359)
T 3ieg_A          286 EKPVEAIRICSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNE  337 (359)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT
T ss_pred             cCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            9999999999999999999999999999999999999999999999988654

>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=99.84  E-value=3.8e-18  Score=160.64  Aligned_cols=250  Identities=12%  Similarity=0.022  Sum_probs=174.3

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccC-ChHHHHHHHHHHHHhCCCCchhHHHHHHHHhH
Q 041384          301 WSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQS-FLSHGLGVHCYIMKAGLNFDVSIGNALMNMYS  379 (580)
Q Consensus       301 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  379 (580)
                      +..++..+...|++++|..+++++.+.. +.+...+..+...+...| ++++|...++...+.. +.+...+..+...+.
T Consensus        59 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~  136 (330)
T 3hym_B           59 LPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFA  136 (330)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHH
Confidence            3334444455555666666665555442 223445555555555555 5666666666555443 234555666666677


Q ss_pred             hcCCHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHH
Q 041384          380 KCGSITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETL  456 (580)
Q Consensus       380 ~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~  456 (580)
                      ..|++++|...++++.+   .+...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...
T Consensus       137 ~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~  215 (330)
T 3hym_B          137 VESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKW  215 (330)
T ss_dssp             HHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHH
Confidence            77777777777766554   234566667778888888888888888888752 33567788888888889999999999


Q ss_pred             HHHHHHhhC-------CCCChhHHHHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 041384          457 FNNVMKEKK-------IALAIEHYACYVDLLGKSGKIEDACKVVSTMP--MKPSTRILSSLVSACRIHGRLEVAEMLAHQ  527 (580)
Q Consensus       457 ~~~~~~~~~-------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~  527 (580)
                      ++++++...       .+....++..+..+|...|++++|...+++..  .+.+...+..+...+...|++++|...+++
T Consensus       216 ~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  295 (330)
T 3hym_B          216 FLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHT  295 (330)
T ss_dssp             HHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHT
T ss_pred             HHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHH
Confidence            888766321       13345678888889999999999999888872  334677888899999999999999999999


Q ss_pred             HHhcCCCCchHHHHHHHHH-HhcCChH
Q 041384          528 LIEAEPENAANYTLLSMVC-SESGNWL  553 (580)
Q Consensus       528 ~~~~~~~~~~~~~~l~~~~-~~~g~~~  553 (580)
                      +.+..|.++..+..++.++ ...|+.+
T Consensus       296 al~~~p~~~~~~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          296 ALGLRRDDTFSVTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             TTTTCSCCHHHHHHHHHHHHTTTTC--
T ss_pred             HHccCCCchHHHHHHHHHHHHHhCchh
Confidence            9999999999999999888 4556544

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.83  E-value=5.4e-18  Score=159.54  Aligned_cols=266  Identities=13%  Similarity=0.062  Sum_probs=229.8

Q ss_pred             CChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHH
Q 041384          296 KDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALM  375 (580)
Q Consensus       296 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  375 (580)
                      .+...+..+...+...|++++|..+++++.+.. +.+...+..++.++...|++++|...++.+.+.. +.+...+..+.
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~   97 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVG   97 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHH
Confidence            356677788888999999999999999998764 3445566677788899999999999999999865 45677888899


Q ss_pred             HHhHhcC-CHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHH
Q 041384          376 NMYSKCG-SITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVK  451 (580)
Q Consensus       376 ~~~~~~g-~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~  451 (580)
                      ..+...| ++++|...|+++.+   .+...|..+...+...|++++|+..++++.+.. +.+...+..+...+...|+++
T Consensus        98 ~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~  176 (330)
T 3hym_B           98 CYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNSK  176 (330)
T ss_dssp             HHHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhHH
Confidence            9999999 99999999998765   356789999999999999999999999999863 334577778899999999999


Q ss_pred             HHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC-C----------CCCHHHHHHHHHHHHhcCCHHH
Q 041384          452 EAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP-M----------KPSTRILSSLVSACRIHGRLEV  520 (580)
Q Consensus       452 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~----------~p~~~~~~~l~~~~~~~~~~~~  520 (580)
                      +|...++++++  ..+.+...+..++..+...|++++|...++++. .          +.+..++..+...+...|++++
T Consensus       177 ~A~~~~~~al~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  254 (330)
T 3hym_B          177 LAERFFSQALS--IAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAE  254 (330)
T ss_dssp             HHHHHHHHHHT--TCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHH--hCCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHH
Confidence            99999999765  234457788999999999999999999998772 1          3346789999999999999999


Q ss_pred             HHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 041384          521 AEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       521 A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      |+..++++.+..|.++.++..++.++...|++++|.+.++++.+..
T Consensus       255 A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  300 (330)
T 3hym_B          255 ALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLR  300 (330)
T ss_dssp             HHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTC
T ss_pred             HHHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHccC
Confidence            9999999999999999999999999999999999999999876654

>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=99.82  E-value=1.3e-15  Score=158.31  Aligned_cols=383  Identities=10%  Similarity=0.080  Sum_probs=275.1

Q ss_pred             CHhhHHHHHHHhhccCCcHHHHHHHHHHHHhCC-CCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCCCCeehHHHHHHHH
Q 041384          128 KAELLAGIISLCSQIGELELGRQIHALVIVDGS-FELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGC  206 (580)
Q Consensus       128 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~  206 (580)
                      ++.-.....++|...|.+.++.+++++++-.+. +..+....+.++.+..+. +..+...+..+...-+   ...+...+
T Consensus       984 ~PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~d---~~eIA~Ia 1059 (1630)
T 1xi4_A          984 DPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNYD---APDIANIA 1059 (1630)
T ss_pred             CHHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhcc---HHHHHHHH
Confidence            444456667778888888888888888875432 223455666677666666 4455666655554222   45567778


Q ss_pred             HhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHH
Q 041384          207 IDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPA  286 (580)
Q Consensus       207 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a  286 (580)
                      ...|.+++|..+|++..     -.....+.++   ...+++++|.++.++.      .++.+|..+..++...|+ +++|
T Consensus      1060 i~lglyEEAf~IYkKa~-----~~~~A~~VLi---e~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~-~kEA 1124 (1630)
T 1xi4_A         1060 ISNELFEEAFAIFRKFD-----VNTSAVQVLI---EHIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGM-VKEA 1124 (1630)
T ss_pred             HhCCCHHHHHHHHHHcC-----CHHHHHHHHH---HHHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCC-HHHH
Confidence            88888899988888752     1112222222   2567788887777654      346778888888888888 8888


Q ss_pred             HHHHhhCCCCChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCC
Q 041384          287 RIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNF  366 (580)
Q Consensus       287 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  366 (580)
                      ...|.+.  .|...|..++.++.+.|++++|.+.|...++..  +++...+.++.+|++.++++....+.    +   .+
T Consensus      1125 IdsYiKA--dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~---~~ 1193 (1630)
T 1xi4_A         1125 IDSYIKA--DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N---GP 1193 (1630)
T ss_pred             HHHHHhc--CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---CC
Confidence            8888765  567778888889999999999999988776654  33333345888888888877544432    1   34


Q ss_pred             chhHHHHHHHHhHhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 041384          367 DVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNH  446 (580)
Q Consensus       367 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~  446 (580)
                      +...+..+...|...|++++|..+|...     ..|..+...|.+.|++++|.+.+++.      .+..+|.-+..+|..
T Consensus      1194 n~ad~~~iGd~le~eg~YeeA~~~Y~kA-----~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve 1262 (1630)
T 1xi4_A         1194 NNAHIQQVGDRCYDEKMYDAAKLLYNNV-----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVD 1262 (1630)
T ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHhh-----hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhh
Confidence            5566667888888899999999999885     48888999999999999999888876      355788888888888


Q ss_pred             cCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhc--CCHHHHH
Q 041384          447 AGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIH--GRLEVAE  522 (580)
Q Consensus       447 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~--~~~~~A~  522 (580)
                      .|++..|......      +..++..+..++..|.+.|.+++|+.+++.. ...| ....|..+...|.+.  ++..++.
T Consensus      1263 ~~Ef~LA~~cgl~------Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiLyaKy~peklmEhl 1336 (1630)
T 1xi4_A         1263 GKEFRLAQMCGLH------IVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHL 1336 (1630)
T ss_pred             hhHHHHHHHHHHh------hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHHHHhCCHHHHHHHH
Confidence            8888888876553      3345666778999999999999999999776 3333 445666666666654  4566666


Q ss_pred             HHHHHHHhcCC-----CCchHHHHHHHHHHhcCChHHHHH
Q 041384          523 MLAHQLIEAEP-----ENAANYTLLSMVCSESGNWLGAEE  557 (580)
Q Consensus       523 ~~~~~~~~~~~-----~~~~~~~~l~~~~~~~g~~~~A~~  557 (580)
                      +.|..-....|     .++..|..++-.|.+.|+++.|..
T Consensus      1337 k~f~~rini~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~ 1376 (1630)
T 1xi4_A         1337 ELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII 1376 (1630)
T ss_pred             HHHHHhcccchHhHHHHHHHHHHHHHHHHHhcccHHHHHH
Confidence            66665555444     577889999999999999999884

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.82  E-value=2.2e-16  Score=156.95  Aligned_cols=366  Identities=11%  Similarity=-0.004  Sum_probs=247.3

Q ss_pred             CHhhHHHHHHHhhc----cCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHh----cCCHHHHHHHHhcCCCC-Ceeh
Q 041384          128 KAELLAGIISLCSQ----IGELELGRQIHALVIVDGSFELSVFVSTALLDLYSK----CHHWLIALRVFEQMVIR-NEVS  198 (580)
Q Consensus       128 ~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~-~~~~  198 (580)
                      ++..+..+-..+..    .++++.|...+++..+.|    +...+..|...|..    .++.++|...|++.... +...
T Consensus        38 ~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~----~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a  113 (490)
T 2xm6_A           38 EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG----YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKGLPQA  113 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT----CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHH
T ss_pred             CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC----CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHH
Confidence            44444444444444    566666666666665544    33455555555555    56666666666655332 4445


Q ss_pred             HHHHHHHHHh----cCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc----CCCchhHHHHHHHHHHhcCCCchhHHH
Q 041384          199 WTAMISGCID----SQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAE----LRDLRNGKAIHGYAYCCGFDFDHHLSA  270 (580)
Q Consensus       199 ~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  270 (580)
                      +..|...|..    .+++++|+..|++..+.|   +...+..+...|..    .++.++|...++...+.|         
T Consensus       114 ~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---------  181 (490)
T 2xm6_A          114 QQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---------  181 (490)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---------
T ss_pred             HHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---------
Confidence            5555555655    566777777777666553   34445555555544    556666666666555432         


Q ss_pred             HHHHHHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHHHh----CCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhc-
Q 041384          271 ALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQ----SGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTR-  345 (580)
Q Consensus       271 ~l~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~-  345 (580)
                                                +...+..+...|..    .++.++|...|++..+.|   +...+..+...+.. 
T Consensus       182 --------------------------~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g  232 (490)
T 2xm6_A          182 --------------------------NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFG  232 (490)
T ss_dssp             --------------------------CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHT
T ss_pred             --------------------------CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcC
Confidence                                      33334444445554    677888888888777654   44555566666654 


Q ss_pred             ---cCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHh----cCCHHHHHHHHhcCCC-CCcchHHHHHHHHHhc-----
Q 041384          346 ---QSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSK----CGSITSSHQIFNEMAA-RDFVSWTTLISGYGFH-----  412 (580)
Q Consensus       346 ---~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~l~~~~~~~-----  412 (580)
                         .++.++|..+++...+.+   ++..+..+...|..    .++.++|...|++..+ .+...+..+...|...     
T Consensus       233 ~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~~~~g~~  309 (490)
T 2xm6_A          233 IGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQGNSDGQYYLAHLYDKGAEGVA  309 (490)
T ss_dssp             SSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHCBTTBC
T ss_pred             CCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHcCCCCCc
Confidence               678888888888777654   34455566666666    7888888888887765 3556777777777776     


Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccC---CHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhh----cCC
Q 041384          413 GYGEEALQLFLEMQESGVEPDAITVLAILSACNHAG---LVKEAETLFNNVMKEKKIALAIEHYACYVDLLGK----SGK  485 (580)
Q Consensus       413 ~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~  485 (580)
                      +++++|+..+++..+.|   +...+..+...+...|   ++++|.+.|++..+ .   .+...+..+...|..    .++
T Consensus       310 ~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~-~---~~~~a~~~Lg~~y~~g~g~~~~  382 (490)
T 2xm6_A          310 KNREQAISWYTKSAEQG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAA-K---GEKAAQFNLGNALLQGKGVKKD  382 (490)
T ss_dssp             CCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHH-T---TCHHHHHHHHHHHHHTSSSCCC
T ss_pred             CCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHH-C---CCHHHHHHHHHHHHcCCCCCCC
Confidence            89999999999998864   4556666777776655   78999999999765 2   356678888888888    889


Q ss_pred             hHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhcCCC---CchHHHHHHHHHHh
Q 041384          486 IEDACKVVSTMPMKPSTRILSSLVSACRI----HGRLEVAEMLAHQLIEAEPE---NAANYTLLSMVCSE  548 (580)
Q Consensus       486 ~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~---~~~~~~~l~~~~~~  548 (580)
                      +++|...|++.....++..+..+...|..    .++.++|...++++.+.+|+   ++.....++..+..
T Consensus       383 ~~~A~~~~~~A~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~~a~~~l~~~~~~  452 (490)
T 2xm6_A          383 EQQAAIWMRKAAEQGLSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTNDMNLFGTENRNITEKKLTAK  452 (490)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHHCCHHHHHHHHHHHTTSCHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCCCcCCHHHHHHHHhcCHh
Confidence            99999999988434567788888888887    89999999999999999854   77777777765543

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.81  E-value=3.9e-16  Score=156.82  Aligned_cols=422  Identities=8%  Similarity=-0.011  Sum_probs=285.8

Q ss_pred             HHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCC--C
Q 041384          117 FREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVI--R  194 (580)
Q Consensus       117 ~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~  194 (580)
                      |++..+.. +-+...|..++.. .+.|+++.|..+++++++..  |.+...|..++..+.+.|++++|..+|++...  |
T Consensus         2 le~al~~~-P~~~~~w~~l~~~-~~~~~~~~a~~~~e~al~~~--P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~p   77 (530)
T 2ooe_A            2 AEKKLEEN-PYDLDAWSILIRE-AQNQPIDKARKTYERLVAQF--PSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKVL   77 (530)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHH-HHSSCHHHHHHHHHHHHTTC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTCC
T ss_pred             hhhHhhhC-CCCHHHHHHHHHH-HHhCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Confidence            34444432 2367788888874 67899999999999998874  77888899999999999999999999998744  4


Q ss_pred             CeehHHHHHHHH-HhcCChhHHHH----HHHHHHHc-CCCC-CHHHHHHHHHHHhc---------CCCchhHHHHHHHHH
Q 041384          195 NEVSWTAMISGC-IDSQNYDTGID----LFRAMQRE-GVKP-TRVTLTIVLLACAE---------LRDLRNGKAIHGYAY  258 (580)
Q Consensus       195 ~~~~~~~li~~~-~~~~~~~~a~~----~~~~m~~~-~~~p-~~~~~~~ll~~~~~---------~~~~~~a~~~~~~~~  258 (580)
                      +...|..++... ...|+.+.|.+    +|+..... |..| +...|...+.....         .|+++.|..+|+..+
T Consensus        78 ~~~lw~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al  157 (530)
T 2ooe_A           78 HIDLWKCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGC  157 (530)
T ss_dssp             CHHHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHT
T ss_pred             ChHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHH
Confidence            555666666433 34677777665    66665543 5444 34455555554433         567888888888887


Q ss_pred             HhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHHHhCCChhHHHHHHHHH------HHCC---C
Q 041384          259 CCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRM------RLER---I  329 (580)
Q Consensus       259 ~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m------~~~~---~  329 (580)
                      +.........+..........+.  ..+..+               +.  ...+++..|..++..+      .+..   +
T Consensus       158 ~~P~~~~~~~~~~~~~~e~~~~~--~~~~~~---------------l~--~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~  218 (530)
T 2ooe_A          158 VNPMINIEQLWRDYNKYEEGINI--HLAKKM---------------IE--DRSRDYMNARRVAKEYETVMKGLDRNAPSV  218 (530)
T ss_dssp             TSCCTTHHHHHHHHHHHHHHHCH--HHHHHH---------------HH--TTHHHHHHHHHHHHHHHHHHHHCCSSSCCC
T ss_pred             hchhhhHHHHHHHHHHHHHhhch--hHHHHH---------------HH--HhhHHHHHHHHHHHHHHHHHHHhccccccC
Confidence            73111111222222111111110  011111               10  1234456666666552      2211   2


Q ss_pred             CCCH--------HHHHHHHHHhhc----cCCh----HHHHHHHHHHHHhCCCCchhHHHHHHHHhHh-------cCCHH-
Q 041384          330 EPNS--------VTLLAILSSCTR----QSFL----SHGLGVHCYIMKAGLNFDVSIGNALMNMYSK-------CGSIT-  385 (580)
Q Consensus       330 ~p~~--------~~~~~ll~~~~~----~~~~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~g~~~-  385 (580)
                      +|+.        ..|...+.....    .++.    .++..+|+...... +.++..|..++..+.+       .|+++ 
T Consensus       219 ~p~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~  297 (530)
T 2ooe_A          219 PPQNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNN  297 (530)
T ss_dssp             CCC--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHH
T ss_pred             CCCCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhh
Confidence            4431        334443332221    1232    36777888888753 4567788888887775       68887 


Q ss_pred             ------HHHHHHhcCCC---C-CcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-H-HHHHHHHHHHhccCCHHHH
Q 041384          386 ------SSHQIFNEMAA---R-DFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPD-A-ITVLAILSACNHAGLVKEA  453 (580)
Q Consensus       386 ------~A~~~~~~~~~---~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~-~-~~~~~l~~~~~~~~~~~~a  453 (580)
                            +|..+|++..+   | +...|..++..+.+.|++++|..+|+++.+.  .|+ . ..|..++..+.+.|++++|
T Consensus       298 a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A  375 (530)
T 2ooe_A          298 AKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSG  375 (530)
T ss_dssp             HHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHH
Confidence                  89999998764   3 4668889999999999999999999999984  664 3 4788888888889999999


Q ss_pred             HHHHHHHHHhhCCCCChhHHHHHHHH-hhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 041384          454 ETLFNNVMKEKKIALAIEHYACYVDL-LGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIE  530 (580)
Q Consensus       454 ~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  530 (580)
                      ..+|+++++..  +.+...+...+.. +...|+.++|..+|++. ...| ++..|..++..+.+.|+.++|..+|+++..
T Consensus       376 ~~~~~~Al~~~--~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~  453 (530)
T 2ooe_A          376 RMIFKKAREDA--RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLT  453 (530)
T ss_dssp             HHHHHHHHTCT--TCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcc--CCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHh
Confidence            99999977532  2223333332222 34689999999999987 3334 678899999999999999999999999999


Q ss_pred             cCCCCch----HHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 041384          531 AEPENAA----NYTLLSMVCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       531 ~~~~~~~----~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      ..|.++.    +|...+......|+.+.+..+.+++.+.-
T Consensus       454 ~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~~  493 (530)
T 2ooe_A          454 SGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAF  493 (530)
T ss_dssp             SCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHT
T ss_pred             ccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            8876655    78888888888999999999999887643

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.80  E-value=8e-16  Score=152.89  Aligned_cols=362  Identities=12%  Similarity=0.017  Sum_probs=283.4

Q ss_pred             HHHHHHHHHhCCCCCchHHHhHHHHHhHh----cCCHHHHHHHHhcCCC-CCeehHHHHHHHHHh----cCChhHHHHHH
Q 041384          149 RQIHALVIVDGSFELSVFVSTALLDLYSK----CHHWLIALRVFEQMVI-RNEVSWTAMISGCID----SQNYDTGIDLF  219 (580)
Q Consensus       149 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~-~~~~~~~~li~~~~~----~~~~~~a~~~~  219 (580)
                      ...+....+.|    +...+..+...|..    .+++++|...|++..+ .+..++..|...|..    .+++++|.+.|
T Consensus        27 ~~~~~~~a~~g----~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~  102 (490)
T 2xm6_A           27 LEQLKQKAESG----EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQGYTPAEYVLGLRYMNGEGVPQDYAQAVIWY  102 (490)
T ss_dssp             HHHHHHHHHTT----CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHH
T ss_pred             HHHHHHHHHCC----CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHH
Confidence            34444444433    56667777777777    7888889888887643 356677778888887    88888899888


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHhc----CCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCC
Q 041384          220 RAMQREGVKPTRVTLTIVLLACAE----LRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKV  295 (580)
Q Consensus       220 ~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~  295 (580)
                      ++..+.|   +...+..+...|..    .+++++|...++...+.|                                  
T Consensus       103 ~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~----------------------------------  145 (490)
T 2xm6_A          103 KKAALKG---LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG----------------------------------  145 (490)
T ss_dssp             HHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT----------------------------------
T ss_pred             HHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC----------------------------------
Confidence            8887764   45556666666666    677888888877766553                                  


Q ss_pred             CChhhHHHHHHHHHh----CCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhc----cCChHHHHHHHHHHHHhCCCCc
Q 041384          296 KDVVIWSSIIRGYSQ----SGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTR----QSFLSHGLGVHCYIMKAGLNFD  367 (580)
Q Consensus       296 ~~~~~~~~l~~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~  367 (580)
                       +...+..+...|..    .++.++|...|++..+.|   +...+..+...+..    .++.++|..+++...+.+   +
T Consensus       146 -~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~  218 (490)
T 2xm6_A          146 -RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---D  218 (490)
T ss_dssp             -CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---C
T ss_pred             -CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---C
Confidence             23334445555555    778999999999998875   56777777777776    899999999999998875   4


Q ss_pred             hhHHHHHHHHhHh----cCCHHHHHHHHhcCCC-CCcchHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCCCHHHHH
Q 041384          368 VSIGNALMNMYSK----CGSITSSHQIFNEMAA-RDFVSWTTLISGYGF----HGYGEEALQLFLEMQESGVEPDAITVL  438 (580)
Q Consensus       368 ~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~g~~p~~~~~~  438 (580)
                      +..+..+...|..    .++.++|...|++..+ .+...+..+...|..    .+++++|+..|++..+.|   +...+.
T Consensus       219 ~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~  295 (490)
T 2xm6_A          219 ELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQGNSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQY  295 (490)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHH
Confidence            5667777777876    8899999999998766 466677778888887    899999999999998764   456666


Q ss_pred             HHHHHHhcc-----CCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcC---ChHHHHHHHHhCCCCCCHHHHHHHHH
Q 041384          439 AILSACNHA-----GLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSG---KIEDACKVVSTMPMKPSTRILSSLVS  510 (580)
Q Consensus       439 ~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~p~~~~~~~l~~  510 (580)
                      .+...+...     +++++|...+++..+ .+   +...+..+...|...|   +.++|++.|++.....++..+..+..
T Consensus       296 ~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~-~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~  371 (490)
T 2xm6_A          296 YLAHLYDKGAEGVAKNREQAISWYTKSAE-QG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAKGEKAAQFNLGN  371 (490)
T ss_dssp             HHHHHHHHCBTTBCCCHHHHHHHHHHHHH-TT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHcCCCCCcCCHHHHHHHHHHHHh-cC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            777777776     899999999999765 33   3456777888887766   78999999998854467888999999


Q ss_pred             HHHh----cCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHh----cCChHHHHHHHHHHHhCCC
Q 041384          511 ACRI----HGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSE----SGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       511 ~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~  567 (580)
                      .|..    .+++++|...++++.+.+  ++.++..|+..|..    .+++++|...|++..+.+.
T Consensus       372 ~y~~g~g~~~~~~~A~~~~~~A~~~~--~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~  434 (490)
T 2xm6_A          372 ALLQGKGVKKDEQQAAIWMRKAAEQG--LSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTNDM  434 (490)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHHC
T ss_pred             HHHcCCCCCCCHHHHHHHHHHHHhCC--CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCC
Confidence            9988    899999999999999865  68889999999998    8999999999999988774

>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=99.80  E-value=1.3e-14  Score=151.00  Aligned_cols=469  Identities=12%  Similarity=0.093  Sum_probs=327.8

Q ss_pred             hHHHHHHhhcccchhHHHHHHHHHHHHhCCCCChhHHHHHHHHHHcCCC-chHHHHh---hccC------CCCCcc----
Q 041384           30 LPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSK-PESAYQL---FDEM------PYRDTI----   95 (580)
Q Consensus        30 ~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-~~~A~~~---~~~~------~~~~~~----   95 (580)
                      ...++..+-+..++ .....+++.-...| ..++.++|+|...|...++ ++.-+.-   ++..      .++|+.    
T Consensus       842 ~~~lv~~~ekrnrL-kll~p~LE~~~~~g-~~~~~~hnalakiyid~n~npe~fL~~n~~yd~~~vgkyce~rDp~la~i  919 (1630)
T 1xi4_A          842 TDELVAEVEKRNRL-KLLLPWLEARIHEG-CEEPATHNALAKIYIDSNNNPERFLRENPYYDSRVVGKYCEKRDPHLACV  919 (1630)
T ss_pred             HHHHHHHHHHHHHH-HHHHHHHHHHHhCC-CCCHHHHHHHHHHHhccCCCHHHHhhccCcccHHHHHHHHHhcCcchHHH
Confidence            34444444455555 55566667666666 6788999999999987654 3332210   0000      011111    


Q ss_pred             ------chHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCC--CCchHH
Q 041384           96 ------SWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSF--ELSVFV  167 (580)
Q Consensus        96 ------~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~  167 (580)
                            .-.-||+..-+++-+...-+.+   .++   -|+..|..++.     .+-+.-+++.++..... +  ..++.-
T Consensus       920 ay~~g~~d~eli~vt~~n~l~k~~aryl---v~r---~d~~lW~~vl~-----~~n~~RR~Lidqv~a~a-L~e~~~Pee  987 (1630)
T 1xi4_A          920 AYERGQCDLELINVCNENSLFKSLSRYL---VRR---KDPELWGSVLL-----ESNPYRRPLIDQVVQTA-LSETQDPEE  987 (1630)
T ss_pred             HhcccCCcHHHHHHHhcchhHHHHHHHH---HHh---cCHHHHHHHhc-----CCcHHHHHHHHHHHHhh-cccccCHHH
Confidence                  1223444444444433221111   111   25555655552     12223334555544332 1  223444


Q ss_pred             HhHHHHHhHhcCCHHHHHHHHhcCCCC------CeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 041384          168 STALLDLYSKCHHWLIALRVFEQMVIR------NEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLAC  241 (580)
Q Consensus       168 ~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  241 (580)
                      ....+..|...|.+.+|++++++..-.      +...-+.++.+..+. +..+..+...++...    +   ...+...+
T Consensus       988 Vs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~----d---~~eIA~Ia 1059 (1630)
T 1xi4_A          988 VSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNY----D---APDIANIA 1059 (1630)
T ss_pred             hHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhc----c---HHHHHHHH
Confidence            566778888999999999999998432      234566677777777 567777777665522    1   23366778


Q ss_pred             hcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHHHhCCChhHHHHHH
Q 041384          242 AELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLF  321 (580)
Q Consensus       242 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  321 (580)
                      ...|.+++|..+|++..     ......+.++.   ..++ ++.|.++.++.  .+..+|..+..++...|++++|...|
T Consensus      1060 i~lglyEEAf~IYkKa~-----~~~~A~~VLie---~i~n-ldrAiE~Aerv--n~p~vWsqLAKAql~~G~~kEAIdsY 1128 (1630)
T 1xi4_A         1060 ISNELFEEAFAIFRKFD-----VNTSAVQVLIE---HIGN-LDRAYEFAERC--NEPAVWSQLAKAQLQKGMVKEAIDSY 1128 (1630)
T ss_pred             HhCCCHHHHHHHHHHcC-----CHHHHHHHHHH---HHhh-HHHHHHHHHhc--CCHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            88999999999999852     11222233333   4455 88888888766  35778999999999999999999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCCCCcch
Q 041384          322 SRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVS  401 (580)
Q Consensus       322 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  401 (580)
                      .+.      -|...|..++.+|.+.|++++|.+++...++..  +++...+.++.+|++.+++++...+.   ..++...
T Consensus      1129 iKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI---~~~n~ad 1197 (1630)
T 1xi4_A         1129 IKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI---NGPNNAH 1197 (1630)
T ss_pred             Hhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH---hCCCHHH
Confidence            663      567788899999999999999999999888765  33333445889999999999755554   3456677


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhh
Q 041384          402 WTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLG  481 (580)
Q Consensus       402 ~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  481 (580)
                      |..+...|...|++++|...|...         ..|..+...+.+.|+++.|.+.++++       .+..+|..+..+|.
T Consensus      1198 ~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA-------~n~~aWkev~~acv 1261 (1630)
T 1xi4_A         1198 IQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA-------NSTRTWKEVCFACV 1261 (1630)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh-------CCHHHHHHHHHHHh
Confidence            888999999999999999999985         47899999999999999999999984       34578999999999


Q ss_pred             hcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhc--CChHHHHHHH
Q 041384          482 KSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSES--GNWLGAEEVW  559 (580)
Q Consensus       482 ~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~--g~~~~A~~~~  559 (580)
                      ..|++..|......+  ..++..+..++..|.+.|.+++|+.+++..+.++|.+...|..++.+|.+.  ++..++.++|
T Consensus      1262 e~~Ef~LA~~cgl~I--iv~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiLyaKy~peklmEhlk~f 1339 (1630)
T 1xi4_A         1262 DGKEFRLAQMCGLHI--VVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLELF 1339 (1630)
T ss_pred             hhhHHHHHHHHHHhh--hcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            999999999877753  456667779999999999999999999999999999999998888887764  3555555555


Q ss_pred             H
Q 041384          560 R  560 (580)
Q Consensus       560 ~  560 (580)
                      .
T Consensus      1340 ~ 1340 (1630)
T 1xi4_A         1340 W 1340 (1630)
T ss_pred             H
Confidence            4

>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=99.79  E-value=5.8e-17  Score=151.03  Aligned_cols=371  Identities=12%  Similarity=0.101  Sum_probs=134.7

Q ss_pred             HcCCCchHHHHhhccCCCCCccchHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHH
Q 041384           74 AKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHA  153 (580)
Q Consensus        74 ~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~  153 (580)
                      .+.|+.++|.+.++++..|  ..|..|..++.+.|++++|++.|.+.      +|..+|..++.++...|++++|...++
T Consensus        14 ~~~~~ld~A~~fae~~~~~--~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~yl~   85 (449)
T 1b89_A           14 EHIGNLDRAYEFAERCNEP--AVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQ   85 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHccCHHHHHHHHHhCCCh--HHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            3567788888888888655  48888888888888888888888642      577788888888888888888888777


Q ss_pred             HHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCCCCeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHH
Q 041384          154 LVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVT  233 (580)
Q Consensus       154 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~  233 (580)
                      ...+.   .+++.+.+.++.+|.+.|+++++.++++.   |+..+|+.+...|...|.+++|...|..+         ..
T Consensus        86 ~ark~---~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~---pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n  150 (449)
T 1b89_A           86 MARKK---ARESYVETELIFALAKTNRLAELEEFING---PNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SN  150 (449)
T ss_dssp             --------------------------CHHHHTTTTTC---C----------------CTTTHHHHHHHT---------TC
T ss_pred             HHHHh---CccchhHHHHHHHHHHhCCHHHHHHHHcC---CcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hh
Confidence            76664   34477788888889999998888877753   66678888888888888888888888866         46


Q ss_pred             HHHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHHHhCCC
Q 041384          234 LTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGD  313 (580)
Q Consensus       234 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~  313 (580)
                      |..+..++.+.|++++|.+.+.++      .++.+|..++.+|...|+ ++.|......+. .++.....++..|.+.|+
T Consensus       151 ~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~e-f~lA~~~~l~L~-~~ad~l~~lv~~Yek~G~  222 (449)
T 1b89_A          151 FGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKE-FRLAQMCGLHIV-VHADELEELINYYQDRGY  222 (449)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTC-HHHHHHTTTTTT-TCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCc-HHHHHHHHHHHH-hCHhhHHHHHHHHHHCCC
Confidence            788888888888888887777665      134444444455554444 444433333222 222223334445555555


Q ss_pred             hhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHh--cCCHHHHHHHH
Q 041384          314 LSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSK--CGSITSSHQIF  391 (580)
Q Consensus       314 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~g~~~~A~~~~  391 (580)
                      +++|..+++...                                   ... +....+|+-+.-+|++  .+++.+..+.|
T Consensus       223 ~eEai~lLe~aL-----------------------------------~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~  266 (449)
T 1b89_A          223 FEELITMLEAAL-----------------------------------GLE-RAHMGMFTELAILYSKFKPQKMREHLELF  266 (449)
T ss_dssp             HHHHHHHHHHHT-----------------------------------TST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh-----------------------------------CCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            555555555444                                   322 2233333333333332  23333444444


Q ss_pred             hcCCC--------CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHH---HHHHHHHHH
Q 041384          392 NEMAA--------RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVK---EAETLFNNV  460 (580)
Q Consensus       392 ~~~~~--------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~---~a~~~~~~~  460 (580)
                      ..-..        .+...|.-+...|...++++.|..   .|.+.  +|+...-....+...+..+.+   +|..++-. 
T Consensus       267 ~~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~---tm~~h--~~~a~~~~~f~~~~~kv~n~elyYkai~fyl~-  340 (449)
T 1b89_A          267 WSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII---TMMNH--PTDAWKEGQFKDIITKVANVELYYRAIQFYLE-  340 (449)
T ss_dssp             STTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHH---HHHHS--TTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHH-
T ss_pred             HHHhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHH---HHHhC--ChhhhhhHHHHHHHhchhHHHHHHHHHHHHHh-
Confidence            32221        145677777778888888887765   34443  233222222223333333333   23333221 


Q ss_pred             HHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC-------------CCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 041384          461 MKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP-------------MKPSTRILSSLVSACRIHGRLEVAEML  524 (580)
Q Consensus       461 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------------~~p~~~~~~~l~~~~~~~~~~~~A~~~  524 (580)
                           ..|.  .++.|+.++...=+...+..+|++..             ...+..+-.++-..|....|++.-...
T Consensus       341 -----~~p~--~l~~ll~~l~~~ld~~r~v~~~~~~~~l~l~~~yl~~v~~~n~~~vnealn~l~ieeed~~~lr~s  410 (449)
T 1b89_A          341 -----FKPL--LLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHNNKSVNESLNNLFITEEDYQALRTS  410 (449)
T ss_dssp             -----HCGG--GHHHHHHHHGGGCCHHHHHHHHHHTTCTTTTHHHHHHHHTTCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             -----cCHH--HHHHHHHHHHhccCcHHHHHHHHHcCCcHHHHHHHHHHHHhhHHHHHHHHHHHHHhhhhHHHHHHH
Confidence                 1222  25556666665666666666666553             112233334455555666666544433

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.78  E-value=1.9e-17  Score=154.23  Aligned_cols=286  Identities=10%  Similarity=0.008  Sum_probs=128.4

Q ss_pred             hcCCHHHHHHHHhcCCCCCeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHH
Q 041384          177 KCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGY  256 (580)
Q Consensus       177 ~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  256 (580)
                      +.|++++|.++++++..|+  +|..++.++.+.|++++|++.|.+      .+|..+|..++.++...|++++|..+++.
T Consensus        15 ~~~~ld~A~~fae~~~~~~--vWs~La~A~l~~g~~~eAIdsfik------a~D~~~y~~V~~~ae~~g~~EeAi~yl~~   86 (449)
T 1b89_A           15 HIGNLDRAYEFAERCNEPA--VWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVKYLQM   86 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCCChH--HHHHHHHHHHHcCCHHHHHHHHHc------CCCHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            5566777777777775443  777788888888888888877754      25666777777788778888888887766


Q ss_pred             HHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHH
Q 041384          257 AYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTL  336 (580)
Q Consensus       257 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~  336 (580)
                      ..+.  .+++.+...++.+|.+.|+ +..+.++++.   |+..+|+.+...|...|.+++|...|..+         ..|
T Consensus        87 ark~--~~~~~i~~~Li~~Y~Klg~-l~e~e~f~~~---pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~  151 (449)
T 1b89_A           87 ARKK--ARESYVETELIFALAKTNR-LAELEEFING---PNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNF  151 (449)
T ss_dssp             ------------------------C-HHHHTTTTTC---C----------------CTTTHHHHHHHT---------TCH
T ss_pred             HHHh--CccchhHHHHHHHHHHhCC-HHHHHHHHcC---CcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhH
Confidence            6653  3346667777788888877 7777766653   56668888888899999999999998876         368


Q ss_pred             HHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHhcCChH
Q 041384          337 LAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGE  416 (580)
Q Consensus       337 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  416 (580)
                      ..+..++.+.|++++|.+.+..+      .++.+|..++.+|...|+++.|......+. .++.-...++..|.+.|+++
T Consensus       152 ~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-~~ad~l~~lv~~Yek~G~~e  224 (449)
T 1b89_A          152 GRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-VHADELEELINYYQDRGYFE  224 (449)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-TCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-hCHhhHHHHHHHHHHCCCHH
Confidence            88888889999999988888877      367888888899999999999977766654 44444556888889999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHhc--cCCHHHHHHHHHHHHHhhCCCC------ChhHHHHHHHHhhhcCChHH
Q 041384          417 EALQLFLEMQESGVEPDAITVLAILSACNH--AGLVKEAETLFNNVMKEKKIAL------AIEHYACYVDLLGKSGKIED  488 (580)
Q Consensus       417 ~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~------~~~~~~~l~~~~~~~g~~~~  488 (580)
                      +|+.+++...... +-....|+-+.-++++  .++..+.++.|..   +-+++|      +...|..++..|...++++.
T Consensus       225 Eai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~~---~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~  300 (449)
T 1b89_A          225 ELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWS---RVNIPKVLRAAEQAHLWAELVFLYDKYEEYDN  300 (449)
T ss_dssp             HHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHST---TSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH---HhcCcHHHHHHHHHHHHHHHHHHHHhhchHHH
Confidence            9999998887643 3344556655555554  4455555555543   234555      46678888888899999998


Q ss_pred             HHHHHHhC
Q 041384          489 ACKVVSTM  496 (580)
Q Consensus       489 A~~~~~~~  496 (580)
                      |....-+-
T Consensus       301 A~~tm~~h  308 (449)
T 1b89_A          301 AIITMMNH  308 (449)
T ss_dssp             HHHHHHHS
T ss_pred             HHHHHHhC
Confidence            88766554

>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=99.78  E-value=3e-17  Score=157.06  Aligned_cols=260  Identities=13%  Similarity=-0.008  Sum_probs=217.2

Q ss_pred             ChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 041384          297 DVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMN  376 (580)
Q Consensus       297 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  376 (580)
                      +...+..+...+...|++++|...|+++.+.. +.+..++..+..++...|++++|...++.+.+.. +.+..++..+..
T Consensus        63 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~  140 (368)
T 1fch_A           63 DHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAV  140 (368)
T ss_dssp             TCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            34567788888999999999999999998774 4567788888889999999999999999988875 456778888899


Q ss_pred             HhHhcCCHHHHHHHHhcCCCC---CcchHHH---------------HHHHHHhcCChHHHHHHHHHHHHcCCCC---CHH
Q 041384          377 MYSKCGSITSSHQIFNEMAAR---DFVSWTT---------------LISGYGFHGYGEEALQLFLEMQESGVEP---DAI  435 (580)
Q Consensus       377 ~~~~~g~~~~A~~~~~~~~~~---~~~~~~~---------------l~~~~~~~~~~~~a~~~~~~~~~~g~~p---~~~  435 (580)
                      +|...|++++|...++++...   +...+..               .+..+...|++++|...++++.+.  .|   +..
T Consensus       141 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~  218 (368)
T 1fch_A          141 SFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRL--DPTSIDPD  218 (368)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHH--STTSCCHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHh--CcCcccHH
Confidence            999999999999999877652   2222211               133344889999999999999986  44   478


Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHH
Q 041384          436 TVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-P-MKPSTRILSSLVSACR  513 (580)
Q Consensus       436 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~  513 (580)
                      ++..+...+...|++++|...++++++.  .+.+...+..++..+...|++++|+..++++ . .+.+...+..+...+.
T Consensus       219 ~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~  296 (368)
T 1fch_A          219 VQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCI  296 (368)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            8999999999999999999999997763  2345778999999999999999999999987 2 3446788999999999


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCC-----------chHHHHHHHHHHhcCChHHHHHHHHHH
Q 041384          514 IHGRLEVAEMLAHQLIEAEPEN-----------AANYTLLSMVCSESGNWLGAEEVWRVM  562 (580)
Q Consensus       514 ~~~~~~~A~~~~~~~~~~~~~~-----------~~~~~~l~~~~~~~g~~~~A~~~~~~~  562 (580)
                      +.|++++|...++++.+..|.+           ..+|..++.+|...|++++|..++++.
T Consensus       297 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  356 (368)
T 1fch_A          297 NLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADARD  356 (368)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTTC
T ss_pred             HCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHHHH
Confidence            9999999999999999998877           889999999999999999999987643

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.77  E-value=3.1e-17  Score=156.72  Aligned_cols=261  Identities=11%  Similarity=-0.018  Sum_probs=215.9

Q ss_pred             ChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 041384          297 DVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMN  376 (580)
Q Consensus       297 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  376 (580)
                      +...+..+...+.+.|++++|...|+++.+.. +.+..++..+...+...|++++|...++.+.+.. +.+..++..+..
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~  141 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAV  141 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            45568888899999999999999999998775 4577889999999999999999999999999875 456788999999


Q ss_pred             HhHhcCCHHHHHHHHhcCCCCC-------------cchHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-CCHHHHHHHHH
Q 041384          377 MYSKCGSITSSHQIFNEMAARD-------------FVSWTTLISGYGFHGYGEEALQLFLEMQESGVE-PDAITVLAILS  442 (580)
Q Consensus       377 ~~~~~g~~~~A~~~~~~~~~~~-------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~-p~~~~~~~l~~  442 (580)
                      +|...|++++|...|+++.+.+             ...+..+...+...|++++|+..++++.+.... ++..++..+..
T Consensus       142 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~  221 (365)
T 4eqf_A          142 SYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGV  221 (365)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHH
T ss_pred             HHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHH
Confidence            9999999999999999886521             123344578899999999999999999986321 15788999999


Q ss_pred             HHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHH
Q 041384          443 ACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEV  520 (580)
Q Consensus       443 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~  520 (580)
                      .+...|++++|...++++++.  .+.+..++..++.+|...|++++|+..|+++ ...| +..++..+...|...|++++
T Consensus       222 ~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~  299 (365)
T 4eqf_A          222 LFHLSGEFNRAIDAFNAALTV--RPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAYRE  299 (365)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHH
Confidence            999999999999999998763  3445778999999999999999999999988 3344 57889999999999999999


Q ss_pred             HHHHHHHHHhcCCC------------CchHHHHHHHHHHhcCChHHHHHHHHH
Q 041384          521 AEMLAHQLIEAEPE------------NAANYTLLSMVCSESGNWLGAEEVWRV  561 (580)
Q Consensus       521 A~~~~~~~~~~~~~------------~~~~~~~l~~~~~~~g~~~~A~~~~~~  561 (580)
                      |...++++.+..|.            +..+|..++.++...|+.+.+..+.++
T Consensus       300 A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          300 AVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            99999999998866            477899999999999999999887765

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.77  E-value=8.8e-16  Score=152.24  Aligned_cols=356  Identities=10%  Similarity=-0.049  Sum_probs=176.2

Q ss_pred             HHHhHHHHHhHhcCCHHHHHHHHhcC-------CCC----CeehHHHHHHHHHh--cCChhHHHHHHHHHHHcCCCCCH-
Q 041384          166 FVSTALLDLYSKCHHWLIALRVFEQM-------VIR----NEVSWTAMISGCID--SQNYDTGIDLFRAMQREGVKPTR-  231 (580)
Q Consensus       166 ~~~~~l~~~~~~~~~~~~a~~~~~~~-------~~~----~~~~~~~li~~~~~--~~~~~~a~~~~~~m~~~~~~p~~-  231 (580)
                      .+|+.+..+|...|++++|...+++.       ..+    ...++..+..++..  .+++++|++.|++..+.  .|+. 
T Consensus        95 ~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~--~p~~~  172 (472)
T 4g1t_A           95 VTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEK--KPKNP  172 (472)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--STTCH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHh--CCCCH
Confidence            34555555555555555555555433       111    12234333334433  34567777777776654  3332 


Q ss_pred             HHHHHHHHH---HhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHH
Q 041384          232 VTLTIVLLA---CAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGY  308 (580)
Q Consensus       232 ~~~~~ll~~---~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~  308 (580)
                      ..+..+..+   +...++.++|...+++.++.... +..++..+...+...                            +
T Consensus       173 ~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~-~~~~~~~l~~~~~~~----------------------------~  223 (472)
T 4g1t_A          173 EFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPD-NQYLKVLLALKLHKM----------------------------R  223 (472)
T ss_dssp             HHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSS-CHHHHHHHHHHHHHC----------------------------C
T ss_pred             HHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCc-chHHHHHHHHHHHHH----------------------------H
Confidence            222222222   33445556666666655554322 111121121111111                            1


Q ss_pred             HhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHH
Q 041384          309 SQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSH  388 (580)
Q Consensus       309 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  388 (580)
                      ...+++++|...+++..... +.+...+..+...+...|++++|...++...+.. +-+..++..+..+|...+....+ 
T Consensus       224 ~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~y~~~~~~~~~-  300 (472)
T 4g1t_A          224 EEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHCQIGCCYRAKVFQVMN-  300 (472)
T ss_dssp             ------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHH-
T ss_pred             hhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHHHHHHHHHHHHHHhhh-
Confidence            13355666777776665543 3445566667777777777777777777766653 23444455554444322111110 


Q ss_pred             HHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCC
Q 041384          389 QIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIAL  468 (580)
Q Consensus       389 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  468 (580)
                          .. .      ..........+.++.|...+++..+.. +.+..++..+...+...|++++|...|+++++ ....+
T Consensus       301 ----~~-~------~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~-~~~~~  367 (472)
T 4g1t_A          301 ----LR-E------NGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKEFS-KELTP  367 (472)
T ss_dssp             ----C-------------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHH-SCCCH
T ss_pred             ----HH-H------HHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHHHh-cCCCC
Confidence                00 0      000001111223567777777777642 22445667777788888888888888888665 22222


Q ss_pred             Ch--hHHHHHHH-HhhhcCChHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHH
Q 041384          469 AI--EHYACYVD-LLGKSGKIEDACKVVSTM-PMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSM  544 (580)
Q Consensus       469 ~~--~~~~~l~~-~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  544 (580)
                      ..  ..+..+.. .+...|+.++|+..|++. .+.|+.....         +....+..++++..+.+|.++.+|..++.
T Consensus       368 ~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~~~~---------~~~~~l~~~~~~~l~~~p~~~~~~~~LG~  438 (472)
T 4g1t_A          368 VAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSREKE---------KMKDKLQKIAKMRLSKNGADSEALHVLAF  438 (472)
T ss_dssp             HHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCHHHH---------HHHHHHHHHHHHHHHHCC-CTTHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHH---------HHHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            11  12222322 234678888888888776 4556543322         22345667788888999999999999999


Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCccCCceeEEE
Q 041384          545 VCSESGNWLGAEEVWRVMRAKGLSKSYGFSRIE  577 (580)
Q Consensus       545 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  577 (580)
                      +|...|++++|++.+++.++.+.......+|++
T Consensus       439 ~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~~G  471 (472)
T 4g1t_A          439 LQELNEKMQQADEDSERGLESGSLIPSASSWNG  471 (472)
T ss_dssp             HHHHHHHCC------------------------
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCCCcHhhcCC
Confidence            999999999999999999998877666677763

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.77  E-value=4.2e-17  Score=153.19  Aligned_cols=262  Identities=8%  Similarity=-0.078  Sum_probs=217.1

Q ss_pred             ChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 041384          297 DVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMN  376 (580)
Q Consensus       297 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  376 (580)
                      +...+..+...+...|++++|..+|+++.+.. +.+...+..+..++...|++++|...++.+.+.. +.+...+..+..
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~   97 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAV   97 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHH
Confidence            34456677788889999999999999988764 4467788888889999999999999999998874 446778888899


Q ss_pred             HhHhcCCHHHHHHHHhcCCCC---CcchHHHH--------------HH-HHHhcCChHHHHHHHHHHHHcCCCCCHHHHH
Q 041384          377 MYSKCGSITSSHQIFNEMAAR---DFVSWTTL--------------IS-GYGFHGYGEEALQLFLEMQESGVEPDAITVL  438 (580)
Q Consensus       377 ~~~~~g~~~~A~~~~~~~~~~---~~~~~~~l--------------~~-~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~  438 (580)
                      .|...|++++|...++++...   +...+..+              .. .+...|++++|...++++.+.. +.+...+.
T Consensus        98 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  176 (327)
T 3cv0_A           98 SHTNEHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHA  176 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHH
Confidence            999999999999999887652   22333333              22 3677889999999999999863 33678899


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcC
Q 041384          439 AILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-P-MKPSTRILSSLVSACRIHG  516 (580)
Q Consensus       439 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~~  516 (580)
                      .+...+...|++++|...++++++.  .+.+...+..++..+...|++++|...++++ . .+.+...+..+...+...|
T Consensus       177 ~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g  254 (327)
T 3cv0_A          177 SLGVLYNLSNNYDSAAANLRRAVEL--RPDDAQLWNKLGATLANGNRPQEALDAYNRALDINPGYVRVMYNMAVSYSNMS  254 (327)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhc
Confidence            9999999999999999999997763  2345778899999999999999999999987 2 3446788999999999999


Q ss_pred             CHHHHHHHHHHHHhcCCC------------CchHHHHHHHHHHhcCChHHHHHHHHHHH
Q 041384          517 RLEVAEMLAHQLIEAEPE------------NAANYTLLSMVCSESGNWLGAEEVWRVMR  563 (580)
Q Consensus       517 ~~~~A~~~~~~~~~~~~~------------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  563 (580)
                      ++++|...++++.+..|.            ++..+..++.++...|++++|..++++..
T Consensus       255 ~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l  313 (327)
T 3cv0_A          255 QYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNV  313 (327)
T ss_dssp             CHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCS
T ss_pred             cHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            999999999999999998            78899999999999999999999987543

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.77  E-value=4e-15  Score=149.42  Aligned_cols=203  Identities=12%  Similarity=0.064  Sum_probs=124.5

Q ss_pred             ChhhHHHHHHHHHh-------CCChh-------HHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHh
Q 041384          297 DVVIWSSIIRGYSQ-------SGDLS-------EAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKA  362 (580)
Q Consensus       297 ~~~~~~~l~~~~~~-------~~~~~-------~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  362 (580)
                      +...|......+.+       .|+++       +|..+|++..+.-.+.+...+..++..+.+.|++++|..+|+.+.+.
T Consensus       271 ~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~  350 (530)
T 2ooe_A          271 HPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI  350 (530)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             CHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc
Confidence            45566666665554       67766       67777776664211223455555555555666666666666665553


Q ss_pred             CCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHH
Q 041384          363 GLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAIL  441 (580)
Q Consensus       363 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~  441 (580)
                        .|+..                             ...|..++..+.+.|++++|..+|++..+.  .| +...|....
T Consensus       351 --~p~~~-----------------------------~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~--~~~~~~~~~~~a  397 (530)
T 2ooe_A          351 --EDIDP-----------------------------TLVYIQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAA  397 (530)
T ss_dssp             --SSSCH-----------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHTC--TTCCTHHHHHHH
T ss_pred             --cccCc-----------------------------hHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--cCCchHHHHHHH
Confidence              22110                             024444555555566666677777666654  23 223332222


Q ss_pred             HH-HhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC----CCCC--HHHHHHHHHHHHh
Q 041384          442 SA-CNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP----MKPS--TRILSSLVSACRI  514 (580)
Q Consensus       442 ~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~p~--~~~~~~l~~~~~~  514 (580)
                      .. +...|++++|..+|+.+++..  +.+...|..++..+.+.|+.++|..+|++..    ..|+  ...|...+.....
T Consensus       398 ~~~~~~~~~~~~A~~~~e~al~~~--p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~  475 (530)
T 2ooe_A          398 LMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESN  475 (530)
T ss_dssp             HHHHHHTCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCChhHHHHHHHHHHHHC--CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHH
Confidence            22 234778888888888877643  2346677778888888888888888887762    1221  3377777777888


Q ss_pred             cCCHHHHHHHHHHHHhcCCC
Q 041384          515 HGRLEVAEMLAHQLIEAEPE  534 (580)
Q Consensus       515 ~~~~~~A~~~~~~~~~~~~~  534 (580)
                      .|+.+.+..+.+++.+..|.
T Consensus       476 ~G~~~~~~~~~~r~~~~~p~  495 (530)
T 2ooe_A          476 IGDLASILKVEKRRFTAFRE  495 (530)
T ss_dssp             SSCHHHHHHHHHHHHHHTHH
T ss_pred             cCCHHHHHHHHHHHHHHCch
Confidence            89999998888888888774

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.76  E-value=5.1e-17  Score=148.69  Aligned_cols=270  Identities=10%  Similarity=-0.002  Sum_probs=207.0

Q ss_pred             HHHHHcCCCHHHHHHHHhhCCCCCh----hhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCCh
Q 041384          274 HMYCECTEALHPARIIFERTKVKDV----VIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFL  349 (580)
Q Consensus       274 ~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~  349 (580)
                      .-....|. ...+....+.....++    .....+.++|...|+++.|+..++..    -+|+..++..+...+...++.
T Consensus         7 ~~~~~~g~-y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~~----~~~~~~a~~~la~~~~~~~~~   81 (291)
T 3mkr_A            7 KNAFYIGS-YQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKPS----SAPELQAVRMFAEYLASHSRR   81 (291)
T ss_dssp             HHHHHTTC-HHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCTT----SCHHHHHHHHHHHHHHCSTTH
T ss_pred             HHHHHHHH-HHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhccc----CChhHHHHHHHHHHHcCCCcH
Confidence            34455677 8888888877654432    23455678999999999998866542    356777888888899999999


Q ss_pred             HHHHHHHHHHHHhCCCC-chhHHHHHHHHhHhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 041384          350 SHGLGVHCYIMKAGLNF-DVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQES  428 (580)
Q Consensus       350 ~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  428 (580)
                      ++|.+.++.+...+..| ++..+..+...+...|++++|.+.+++  ..+...+..++..+.+.|++++|...++++.+.
T Consensus        82 ~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~--~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~  159 (291)
T 3mkr_A           82 DAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ--GDSLECMAMTVQILLKLDRLDLARKELKKMQDQ  159 (291)
T ss_dssp             HHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT--CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh
Confidence            99999999998877545 566677777889999999999999998  456778888899999999999999999999886


Q ss_pred             CCCCCHHHH---HHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHH
Q 041384          429 GVEPDAITV---LAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STR  503 (580)
Q Consensus       429 g~~p~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~  503 (580)
                        .|+....   ..++..+...|++++|..+|+++++.  .+.+...++.+..++.+.|++++|...++++ ...| ++.
T Consensus       160 --~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~~~  235 (291)
T 3mkr_A          160 --DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK--CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPE  235 (291)
T ss_dssp             --CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH
T ss_pred             --CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHH
Confidence              4654322   12334445668999999999997763  4567788888999999999999999999887 3344 677


Q ss_pred             HHHHHHHHHHhcCCHHH-HHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHH
Q 041384          504 ILSSLVSACRIHGRLEV-AEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEV  558 (580)
Q Consensus       504 ~~~~l~~~~~~~~~~~~-A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  558 (580)
                      ++..++..+...|+.++ +.++++++.+.+|+++.+..    ...+.+.++++..-
T Consensus       236 ~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P~~~~~~d----~~~~~~~fd~~~~~  287 (291)
T 3mkr_A          236 TLINLVVLSQHLGKPPEVTNRYLSQLKDAHRSHPFIKE----YRAKENDFDRLVLQ  287 (291)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHH----HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCCChHHHH----HHHHHHHHHHHHHH
Confidence            88888888888888865 57888999999999888654    34455555555543

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.75  E-value=1.2e-15  Score=139.60  Aligned_cols=248  Identities=10%  Similarity=0.076  Sum_probs=200.5

Q ss_pred             HHHHHhCCChhHHHHHHHHHHHCCCCCCH--HHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcC
Q 041384          305 IRGYSQSGDLSEAMKLFSRMRLERIEPNS--VTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCG  382 (580)
Q Consensus       305 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  382 (580)
                      ++-....|++..|+..++.....  .|+.  .....+.+++...|+++.|...++.    .-+|+..++..+...+...+
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~~--~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~   79 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKPS--SPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHS   79 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCCC--SHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCST
T ss_pred             HHHHHHHHHHHHHHHHHHhcccC--CchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCC
Confidence            34556789999999988876533  4443  3556678899999999999976654    24667888888999999999


Q ss_pred             CHHHHHHHHhcCCC----C-CcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHH
Q 041384          383 SITSSHQIFNEMAA----R-DFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLF  457 (580)
Q Consensus       383 ~~~~A~~~~~~~~~----~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~  457 (580)
                      +.++|.+.++++..    | +...+..+...+...|++++|++.+++      +.+...+..++..+.+.|++++|.+.+
T Consensus        80 ~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l  153 (291)
T 3mkr_A           80 RRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKEL  153 (291)
T ss_dssp             THHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            99999999998642    3 455677778899999999999999987      457788888999999999999999999


Q ss_pred             HHHHHhhCCCCChhHH---HHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 041384          458 NNVMKEKKIALAIEHY---ACYVDLLGKSGKIEDACKVVSTMP--MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAE  532 (580)
Q Consensus       458 ~~~~~~~~~~~~~~~~---~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  532 (580)
                      +++++.   .|+....   ..++..+...|++++|..+|+++.  .+.+...++.+..++.+.|++++|+..++++.+.+
T Consensus       154 ~~~~~~---~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~  230 (291)
T 3mkr_A          154 KKMQDQ---DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD  230 (291)
T ss_dssp             HHHHHH---CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhh---CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            997763   2553211   223344556689999999999983  45678899999999999999999999999999999


Q ss_pred             CCCchHHHHHHHHHHhcCChHH-HHHHHHHHHhCCC
Q 041384          533 PENAANYTLLSMVCSESGNWLG-AEEVWRVMRAKGL  567 (580)
Q Consensus       533 ~~~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~~~~~  567 (580)
                      |.++.++..++.++...|+.++ +.++++++.+..+
T Consensus       231 p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P  266 (291)
T 3mkr_A          231 SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAHR  266 (291)
T ss_dssp             TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT
T ss_pred             CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCC
Confidence            9999999999999999999976 5788898887654

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.74  E-value=1.1e-16  Score=152.78  Aligned_cols=232  Identities=9%  Similarity=0.002  Sum_probs=196.2

Q ss_pred             CHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCC---CCcchHHHHHHH
Q 041384          332 NSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAA---RDFVSWTTLISG  408 (580)
Q Consensus       332 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~  408 (580)
                      +...+..+...+.+.|++++|...++.+.+.. +.+..++..+..+|...|++++|...|+++.+   .+...+..+...
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~  142 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAVS  142 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            34457788889999999999999999999875 45788899999999999999999999998875   356789999999


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCH-----------HHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHH
Q 041384          409 YGFHGYGEEALQLFLEMQESGVEPDA-----------ITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYV  477 (580)
Q Consensus       409 ~~~~~~~~~a~~~~~~~~~~g~~p~~-----------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  477 (580)
                      |...|++++|+..++++.+.  .|+.           ..+..+...+...|++++|...++++++.....++..++..++
T Consensus       143 ~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~  220 (365)
T 4eqf_A          143 YTNTSHQQDACEALKNWIKQ--NPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLG  220 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHH
T ss_pred             HHccccHHHHHHHHHHHHHh--CccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHH
Confidence            99999999999999999885  3432           2233457788999999999999999887543333688899999


Q ss_pred             HHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHH
Q 041384          478 DLLGKSGKIEDACKVVSTMP--MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGA  555 (580)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  555 (580)
                      ..|...|++++|++.++++.  .+.+..+|..+...|...|++++|+..++++.+..|.++.++..++.+|...|++++|
T Consensus       221 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A  300 (365)
T 4eqf_A          221 VLFHLSGEFNRAIDAFNAALTVRPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAYREA  300 (365)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHHH
Confidence            99999999999999999882  3457889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhCC
Q 041384          556 EEVWRVMRAKG  566 (580)
Q Consensus       556 ~~~~~~~~~~~  566 (580)
                      .+.++++.+..
T Consensus       301 ~~~~~~al~~~  311 (365)
T 4eqf_A          301 VSNFLTALSLQ  311 (365)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhC
Confidence            99999987754

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.74  E-value=1.1e-16  Score=153.01  Aligned_cols=256  Identities=11%  Similarity=0.038  Sum_probs=204.0

Q ss_pred             HHhCCChhHHHH-HHHHHHHCCC-CC--CHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCC
Q 041384          308 YSQSGDLSEAMK-LFSRMRLERI-EP--NSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGS  383 (580)
Q Consensus       308 ~~~~~~~~~a~~-~~~~m~~~~~-~p--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  383 (580)
                      +...|++++|.. .+++...... .|  +...+..+...+...|++++|...++.+.+.. +.+...+..+..++...|+
T Consensus        35 ~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~  113 (368)
T 1fch_A           35 HPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQ  113 (368)
T ss_dssp             -----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcC
Confidence            445578888888 7776543321 11  34567788889999999999999999999875 4577888999999999999


Q ss_pred             HHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHH---------------HHHHH
Q 041384          384 ITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDA-ITVLA---------------ILSAC  444 (580)
Q Consensus       384 ~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~-~~~~~---------------l~~~~  444 (580)
                      +++|...|+++.+   .+..++..+...+...|++++|...++++.+.  .|+. ..+..               .+..+
T Consensus       114 ~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  191 (368)
T 1fch_A          114 ELLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRY--TPAYAHLVTPAEEGAGGAGLGPSKRILGSL  191 (368)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--STTTGGGCC---------------CTTHHH
T ss_pred             HHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCcHHHHHHHHHHhhhhcccHHHHHHHHH
Confidence            9999999998765   46678999999999999999999999999985  3433 22211               23334


Q ss_pred             hccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHH
Q 041384          445 NHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP--MKPSTRILSSLVSACRIHGRLEVAE  522 (580)
Q Consensus       445 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~A~  522 (580)
                      ...|++++|...++++++.....++..++..++..|.+.|++++|+..++++.  .+.+...+..++..+...|++++|+
T Consensus       192 ~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~  271 (368)
T 1fch_A          192 LSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAV  271 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             hhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHcCCHHHHH
Confidence            48899999999999987744333357889999999999999999999999872  3446789999999999999999999


Q ss_pred             HHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 041384          523 MLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       523 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      ..++++.+..|.++.++..++.+|.+.|++++|.+.++++.+..
T Consensus       272 ~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  315 (368)
T 1fch_A          272 AAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQ  315 (368)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            99999999999999999999999999999999999999987754

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.68  E-value=6.4e-15  Score=132.99  Aligned_cols=216  Identities=12%  Similarity=-0.005  Sum_probs=143.5

Q ss_pred             HHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCC--C-C-------cchHHHHHH
Q 041384          338 AILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAA--R-D-------FVSWTTLIS  407 (580)
Q Consensus       338 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~-------~~~~~~l~~  407 (580)
                      .+...+...|++++|...++...+..  .+...+..+..+|...|++++|...+++..+  | +       ...+..+..
T Consensus        10 ~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~   87 (258)
T 3uq3_A           10 AEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGN   87 (258)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHH
Confidence            33334444444444444444444433  3344444444444444444444444444332  1 1       345666777


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChH
Q 041384          408 GYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIE  487 (580)
Q Consensus       408 ~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  487 (580)
                      .+...|++++|...+++..+.  .|+..       .+...|++++|...++++++  ..+.+...+..+...+...|+++
T Consensus        88 ~~~~~~~~~~A~~~~~~a~~~--~~~~~-------~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~  156 (258)
T 3uq3_A           88 AYHKLGDLKKTIEYYQKSLTE--HRTAD-------ILTKLRNAEKELKKAEAEAY--VNPEKAEEARLEGKEYFTKSDWP  156 (258)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CCCHH-------HHHHHHHHHHHHHHHHHHHH--CCHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHcccHHHHHHHHHHHHhc--CchhH-------HHHHHhHHHHHHHHHHHHHH--cCcchHHHHHHHHHHHHHhcCHH
Confidence            777777777777777777774  45532       34556777888888887554  22334566777788888888888


Q ss_pred             HHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 041384          488 DACKVVSTMP--MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAK  565 (580)
Q Consensus       488 ~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (580)
                      +|...+++..  .+.+...+..+...+...|++++|+..++++.+..|.++..+..++.++...|++++|.+.+++..+.
T Consensus       157 ~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  236 (258)
T 3uq3_A          157 NAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLDAARTK  236 (258)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            8888888772  34467788888888888899999999999998888888888888999998999999999888887664


Q ss_pred             C
Q 041384          566 G  566 (580)
Q Consensus       566 ~  566 (580)
                      .
T Consensus       237 ~  237 (258)
T 3uq3_A          237 D  237 (258)
T ss_dssp             H
T ss_pred             C
Confidence            4

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.67  E-value=2.9e-15  Score=130.86  Aligned_cols=195  Identities=13%  Similarity=0.003  Sum_probs=155.2

Q ss_pred             CCchhHHHHHHHHhHhcCCHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHH
Q 041384          365 NFDVSIGNALMNMYSKCGSITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAI  440 (580)
Q Consensus       365 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l  440 (580)
                      +++...+..+...+.+.|++++|...|++..+   .+...+..+...+...|++++|+..+++..+.  .| +...+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVAR--TPRYLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHH
Confidence            56677778888888999999999999998765   35567888899999999999999999999986  45 56788888


Q ss_pred             HHHHhcc-----------CCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC-CCCCHHHHHHH
Q 041384          441 LSACNHA-----------GLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP-MKPSTRILSSL  508 (580)
Q Consensus       441 ~~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~~~~~~~l  508 (580)
                      ...+...           |++++|+..++++++.  .+-+...+..+..+|...|++++|+..|++.. ...++..+..+
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~l  157 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAERV--NPRYAPLHLQRGLVYALLGERDKAEASLKQALALEDTPEIRSAL  157 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHH
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcccchHHHHHH
Confidence            8889999           9999999999997762  22346778889999999999999999999872 12788899999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHH
Q 041384          509 VSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMR  563 (580)
Q Consensus       509 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  563 (580)
                      ...+...|++++|+..++++.+.+|.++.++..++.++...|++++|++.+++..
T Consensus       158 a~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          158 AELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999999999999999999998753

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.67  E-value=1.8e-14  Score=135.16  Aligned_cols=265  Identities=9%  Similarity=-0.067  Sum_probs=175.4

Q ss_pred             CccchHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHHH
Q 041384           93 DTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALL  172 (580)
Q Consensus        93 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  172 (580)
                      +...+..+...+...|++++|+.+|+++.+.. +.+...+..+...+...|+++.|...++.+.+..  +.+..++..+.
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~la   96 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD--PKDIAVHAALA   96 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--cCCHHHHHHHH
Confidence            44556677777888888888888888887753 2356677777777888888888888888887765  55667777777


Q ss_pred             HHhHhcCCHHHHHHHHhcCCC--C-CeehHHHH--------------HH-HHHhcCChhHHHHHHHHHHHcCCCCCHHHH
Q 041384          173 DLYSKCHHWLIALRVFEQMVI--R-NEVSWTAM--------------IS-GCIDSQNYDTGIDLFRAMQREGVKPTRVTL  234 (580)
Q Consensus       173 ~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~l--------------i~-~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~  234 (580)
                      ..+...|++++|...++++..  | +...+..+              .. .+...|++++|.+.++++.+.. +.+...+
T Consensus        97 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  175 (327)
T 3cv0_A           97 VSHTNEHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLH  175 (327)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHH
Confidence            777788888888777776522  1 22222222              11 2555666777777777766542 2245566


Q ss_pred             HHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHHHhCCCh
Q 041384          235 TIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDL  314 (580)
Q Consensus       235 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~  314 (580)
                      ..+...+...|++++|...++.+.+...                                 .+...+..+...+...|++
T Consensus       176 ~~la~~~~~~~~~~~A~~~~~~~~~~~~---------------------------------~~~~~~~~l~~~~~~~~~~  222 (327)
T 3cv0_A          176 ASLGVLYNLSNNYDSAAANLRRAVELRP---------------------------------DDAQLWNKLGATLANGNRP  222 (327)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCT---------------------------------TCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhCC---------------------------------CcHHHHHHHHHHHHHcCCH
Confidence            6666666666776666666666544321                                 2344566677777777888


Q ss_pred             hHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCC-----------chhHHHHHHHHhHhcCC
Q 041384          315 SEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNF-----------DVSIGNALMNMYSKCGS  383 (580)
Q Consensus       315 ~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-----------~~~~~~~l~~~~~~~g~  383 (580)
                      ++|...+++..+.. +.+..++..+...+...|++++|...++...+.....           +...+..+..++.+.|+
T Consensus       223 ~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  301 (327)
T 3cv0_A          223 QEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNR  301 (327)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCC
Confidence            88888887776653 3456677777777777888888888887777643221           45666677777777777


Q ss_pred             HHHHHHHHhcCC
Q 041384          384 ITSSHQIFNEMA  395 (580)
Q Consensus       384 ~~~A~~~~~~~~  395 (580)
                      .++|..++++..
T Consensus       302 ~~~A~~~~~~~l  313 (327)
T 3cv0_A          302 PDLVELTYAQNV  313 (327)
T ss_dssp             HHHHHHHTTCCS
T ss_pred             HHHHHHHHHHHH
Confidence            777777776544

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.66  E-value=8.4e-17  Score=162.06  Aligned_cols=150  Identities=10%  Similarity=0.047  Sum_probs=121.9

Q ss_pred             CCchHHHhHHHHHhHhcCCHHHHHHHHhcC-------CCCCeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHH
Q 041384          162 ELSVFVSTALLDLYSKCHHWLIALRVFEQM-------VIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTL  234 (580)
Q Consensus       162 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-------~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~  234 (580)
                      ..-..+|++||++|++.|++++|.++|++|       ..||+.+||+||++|++.|++++|.++|++|.+.|+.||..||
T Consensus       124 ~~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTY  203 (1134)
T 3spa_A          124 SGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSY  203 (1134)
T ss_dssp             CHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHH
T ss_pred             HhHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHH
Confidence            334568999999999999999999999765       4689999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCCCc-hhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCC-----ChhhHHHHHHHH
Q 041384          235 TIVLLACAELRDL-RNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVK-----DVVIWSSIIRGY  308 (580)
Q Consensus       235 ~~ll~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~l~~~~  308 (580)
                      +++|.++++.|+. +.|.+++++|.+.|+.||..+|+.++....+.+- ++..++++.....+     .+.+...|.+.|
T Consensus       204 ntLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~v-L~~Vrkv~P~f~p~~~~~~~~~t~~LL~dl~  282 (1134)
T 3spa_A          204 AAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATV-LKAVHKVKPTFSLPPQLPPPVNTSKLLRDVY  282 (1134)
T ss_dssp             HHHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHH-HHHHGGGCCCCCCCCCCCCCCCCCTTTHHHH
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHH-HHHHHHhCcccCCCCCCcccccchHHHHHHH
Confidence            9999999999885 7889999999999999999999988888777655 56665554444321     133444455566


Q ss_pred             HhCC
Q 041384          309 SQSG  312 (580)
Q Consensus       309 ~~~~  312 (580)
                      .+.+
T Consensus       283 s~d~  286 (1134)
T 3spa_A          283 AKDG  286 (1134)
T ss_dssp             CCCS
T ss_pred             ccCC
Confidence            6544

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.66  E-value=6.5e-14  Score=138.77  Aligned_cols=385  Identities=14%  Similarity=0.015  Sum_probs=197.4

Q ss_pred             chHHHHHHHHhCCChhHHHHHHHHHHHC-----C--CCC-CHhhHHHHHHHhhccCCcHHHHHHHHHHHHhC-----CC-
Q 041384           96 SWNSIINCFTQNGFYVRSLEMFREMYLC-----G--FVL-KAELLAGIISLCSQIGELELGRQIHALVIVDG-----SF-  161 (580)
Q Consensus        96 ~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~--~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----~~-  161 (580)
                      .||.|...+...|++++|++.|++..+.     +  ..| ...+|..+...+...|++++|...++++.+..     .. 
T Consensus        53 ~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~  132 (472)
T 4g1t_A           53 MCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYR  132 (472)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccc
Confidence            3444444444455555555544443221     0  111 23345555555555555555555555544321     00 


Q ss_pred             CCchHHHhHHHHHhHhc--CCHHHHHHHHhcCC--CC-CeehHHHHHHH---HHhcCChhHHHHHHHHHHHcCCCCCHHH
Q 041384          162 ELSVFVSTALLDLYSKC--HHWLIALRVFEQMV--IR-NEVSWTAMISG---CIDSQNYDTGIDLFRAMQREGVKPTRVT  233 (580)
Q Consensus       162 ~~~~~~~~~l~~~~~~~--~~~~~a~~~~~~~~--~~-~~~~~~~li~~---~~~~~~~~~a~~~~~~m~~~~~~p~~~~  233 (580)
                      .....++..+..++...  +++++|+..|++..  .| +...+..+..+   +...++.++|++.+++..+.+. .+...
T Consensus       133 ~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p-~~~~~  211 (472)
T 4g1t_A          133 IESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNP-DNQYL  211 (472)
T ss_dssp             CCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCS-SCHHH
T ss_pred             hhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCC-cchHH
Confidence            11233444444444333  35667777776652  23 33333333333   3456777888888888776532 23444


Q ss_pred             HHHHHHHHh----cCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHHH
Q 041384          234 LTIVLLACA----ELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYS  309 (580)
Q Consensus       234 ~~~ll~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~  309 (580)
                      +..+...+.    ..++.++|.+.++...+...                                 .+...+..+...|.
T Consensus       212 ~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~---------------------------------~~~~~~~~lg~~~~  258 (472)
T 4g1t_A          212 KVLLALKLHKMREEGEEEGEGEKLVEEALEKAP---------------------------------GVTDVLRSAAKFYR  258 (472)
T ss_dssp             HHHHHHHHHHCC------CHHHHHHHHHHHHCS---------------------------------SCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCc---------------------------------cHHHHHHHHHHHHH
Confidence            444444433    34566777777766655432                                 24456677778888


Q ss_pred             hCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHH
Q 041384          310 QSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQ  389 (580)
Q Consensus       310 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  389 (580)
                      ..|++++|...+++..+.. +-+..++..+..++...+..         ..... .      ..........+..+.|..
T Consensus       259 ~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~y~~~~~~---------~~~~~-~------~~~~~~~~~~~~~~~A~~  321 (472)
T 4g1t_A          259 RKDEPDKAIELLKKALEYI-PNNAYLHCQIGCCYRAKVFQ---------VMNLR-E------NGMYGKRKLLELIGHAVA  321 (472)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHH---------HHHC-------------CHHHHHHHHHHHHH
T ss_pred             HcCchHHHHHHHHHHHHhC-CChHHHHHHHHHHHHHHHHH---------hhhHH-H------HHHHHHHHHHhhHHHHHH
Confidence            8999999999999887663 33445555554444221110         00000 0      000001111233566777


Q ss_pred             HHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH--HHHHHHHH-HHhccCCHHHHHHHHHHHHHh
Q 041384          390 IFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDA--ITVLAILS-ACNHAGLVKEAETLFNNVMKE  463 (580)
Q Consensus       390 ~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~--~~~~~l~~-~~~~~~~~~~a~~~~~~~~~~  463 (580)
                      .+++..+   .+...+..+...+...|++++|+..|++..+....|..  ..+..+.. .....|++++|+..|+++++ 
T Consensus       322 ~~~~a~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~-  400 (472)
T 4g1t_A          322 HLKKADEANDNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVK-  400 (472)
T ss_dssp             HHHHHHHHCTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHH-
T ss_pred             HHHHHhhcCCchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh-
Confidence            7766543   45678889999999999999999999999885433222  12233332 23578999999999999775 


Q ss_pred             hCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHH
Q 041384          464 KKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-P-MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTL  541 (580)
Q Consensus       464 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  541 (580)
                        +.|+........         ..+.++++.. . .+.++.+|..+...|...|++++|++.++++++.+|.+|.+...
T Consensus       401 --i~~~~~~~~~~~---------~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~  469 (472)
T 4g1t_A          401 --INQKSREKEKMK---------DKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSW  469 (472)
T ss_dssp             --SCCCCHHHHHHH---------HHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC----------------------
T ss_pred             --cCcccHHHHHHH---------HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhc
Confidence              455543322222         2233333333 1 34577899999999999999999999999999999988887665


Q ss_pred             HH
Q 041384          542 LS  543 (580)
Q Consensus       542 l~  543 (580)
                      ++
T Consensus       470 ~G  471 (472)
T 4g1t_A          470 NG  471 (472)
T ss_dssp             --
T ss_pred             CC
Confidence            54

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.66  E-value=6.2e-17  Score=163.01  Aligned_cols=147  Identities=7%  Similarity=-0.007  Sum_probs=123.9

Q ss_pred             hhHHHHHHHHHHcCCCchHHHHhhccCC-------CCCccchHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHH
Q 041384           63 PVISNSLISMYAKFSKPESAYQLFDEMP-------YRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGI  135 (580)
Q Consensus        63 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l  135 (580)
                      ..+||+||++|++.|++++|.++|+.|.       .||+.|||+||.+|++.|++++|.++|++|.+.|+.||..||+++
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntL  206 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAA  206 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHH
Confidence            4589999999999999999999997653       689999999999999999999999999999999999999999999


Q ss_pred             HHHhhccCCc-HHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCCC-----CeehHHHHHHHHHhc
Q 041384          136 ISLCSQIGEL-ELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIR-----NEVSWTAMISGCIDS  209 (580)
Q Consensus       136 l~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~li~~~~~~  209 (580)
                      |.++++.|.. +.|.+++++|.+.| +.||..+|+.++....+.+-++.+.++...+..+     ...+.+.|.+.|.+.
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG-~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~f~p~~~~~~~~~t~~LL~dl~s~d  285 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEG-LKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKD  285 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHT-CCSHHHHHHSCCCHHHHHHHHHHHGGGCCCCCCCCCCCCCCCCCTTTHHHHCCC
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcC-CCCChhhcccccChhhHHHHHHHHHHhCcccCCCCCCcccccchHHHHHHHccC
Confidence            9999999985 78999999999999 9999999999998877765555555554444221     233444555666554


Q ss_pred             C
Q 041384          210 Q  210 (580)
Q Consensus       210 ~  210 (580)
                      +
T Consensus       286 ~  286 (1134)
T 3spa_A          286 G  286 (1134)
T ss_dssp             S
T ss_pred             C
Confidence            4

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.65  E-value=9.7e-15  Score=131.80  Aligned_cols=236  Identities=10%  Similarity=-0.032  Sum_probs=198.6

Q ss_pred             hhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCC--CCc----hhHHH
Q 041384          299 VIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGL--NFD----VSIGN  372 (580)
Q Consensus       299 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~~  372 (580)
                      ..+..+...+...|++++|...|++..+..  .+...+..+..++...|++++|...++...+...  .++    ..++.
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            456778888999999999999999998887  7788999999999999999999999999887432  122    57888


Q ss_pred             HHHHHhHhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHH
Q 041384          373 ALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVK  451 (580)
Q Consensus       373 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~  451 (580)
                      .+...|...|++++|...|++..+.+..     ...+...|++++|...++++...  .| +...+..+...+...|+++
T Consensus        84 ~l~~~~~~~~~~~~A~~~~~~a~~~~~~-----~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~  156 (258)
T 3uq3_A           84 RIGNAYHKLGDLKKTIEYYQKSLTEHRT-----ADILTKLRNAEKELKKAEAEAYV--NPEKAEEARLEGKEYFTKSDWP  156 (258)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCC-----HHHHHHHHHHHHHHHHHHHHHHC--CHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhcCch-----hHHHHHHhHHHHHHHHHHHHHHc--CcchHHHHHHHHHHHHHhcCHH
Confidence            8999999999999999999988763222     34566778899999999999985  45 4477888889999999999


Q ss_pred             HHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 041384          452 EAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP--MKPSTRILSSLVSACRIHGRLEVAEMLAHQLI  529 (580)
Q Consensus       452 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  529 (580)
                      +|...++++++.  .+.+...+..+..+|...|++++|...+++..  .+.+...+..+...+...|++++|...++++.
T Consensus       157 ~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~  234 (258)
T 3uq3_A          157 NAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLDAAR  234 (258)
T ss_dssp             HHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhc--CcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            999999997763  23457788999999999999999999999882  34467889999999999999999999999999


Q ss_pred             hcC------CCCchHHHHHHHH
Q 041384          530 EAE------PENAANYTLLSMV  545 (580)
Q Consensus       530 ~~~------~~~~~~~~~l~~~  545 (580)
                      +..      |.+..++..+..+
T Consensus       235 ~~~~~~~~~p~~~~~~~~l~~~  256 (258)
T 3uq3_A          235 TKDAEVNNGSSAREIDQLYYKA  256 (258)
T ss_dssp             HHHHHHHTTTTHHHHHHHHHHT
T ss_pred             HhChhhcCCCchHHHHHHHHHh
Confidence            998      8888877776654

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.64  E-value=2.3e-13  Score=132.94  Aligned_cols=376  Identities=10%  Similarity=0.015  Sum_probs=201.4

Q ss_pred             HHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCH---HHHHHHHhcCCCCCeehHHHHHHHHHhcC-
Q 041384          135 IISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHW---LIALRVFEQMVIRNEVSWTAMISGCIDSQ-  210 (580)
Q Consensus       135 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~li~~~~~~~-  210 (580)
                      +...+.+.|++++|.+++.+..+.|    +...+..|...|...|+.   ++|...|++..+.+...+..+...+...+ 
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g----~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~~~~A~~~Lg~~~~~~~~   84 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELG----YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADTSPRAQARLGRLLAAKPG   84 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHT----CCTGGGTCC----------------------------CHHHHHHHHHTC--
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCC----CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHhCCC
Confidence            3445556678888888888877766    233445566666667777   88888888886666677777777555555 


Q ss_pred             ----ChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCch---hHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCC--
Q 041384          211 ----NYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLR---NGKAIHGYAYCCGFDFDHHLSAALMHMYCECTE--  281 (580)
Q Consensus       211 ----~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--  281 (580)
                          ++++|+..|++..+.|...   .+..+...|...+..+   .+.+.+....+.|.   ......+...|...+.  
T Consensus        85 ~~~~~~~~A~~~~~~Aa~~g~~~---A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~---~~a~~~Lg~~y~~~~~~~  158 (452)
T 3e4b_A           85 ATEAEHHEAESLLKKAFANGEGN---TLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGY---PEAGLAQVLLYRTQGTYD  158 (452)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCSS---CHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTC---TTHHHHHHHHHHHHTCGG
T ss_pred             CCCcCHHHHHHHHHHHHHCCCHH---HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCC---HHHHHHHHHHHHcCCCcc
Confidence                6788999998888865432   4445555555444333   33333333333332   2222222222222221  


Q ss_pred             -CHHHHHHHHhhCCCCChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccC---ChHHHHHHHH
Q 041384          282 -ALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQS---FLSHGLGVHC  357 (580)
Q Consensus       282 -~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~---~~~~a~~~~~  357 (580)
                       ..+.+..++......++.                                   .+..+...+...|   +.++|...|+
T Consensus       159 ~~~~~a~~~~~~a~~~~~~-----------------------------------a~~~Lg~~~~~~g~~~~~~~A~~~~~  203 (452)
T 3e4b_A          159 QHLDDVERICKAALNTTDI-----------------------------------CYVELATVYQKKQQPEQQAELLKQME  203 (452)
T ss_dssp             GGHHHHHHHHHHHTTTCTT-----------------------------------HHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHcCCHH-----------------------------------HHHHHHHHHHHcCCcccHHHHHHHHH
Confidence             122222233333322333                                   4444444444455   5555555555


Q ss_pred             HHHHhCCCCchhHHHHHHHHhHhc----CCHHHHHHHHhcCCCCCcchHHHHHHH-H--HhcCChHHHHHHHHHHHHcCC
Q 041384          358 YIMKAGLNFDVSIGNALMNMYSKC----GSITSSHQIFNEMAARDFVSWTTLISG-Y--GFHGYGEEALQLFLEMQESGV  430 (580)
Q Consensus       358 ~~~~~~~~~~~~~~~~l~~~~~~~----g~~~~A~~~~~~~~~~~~~~~~~l~~~-~--~~~~~~~~a~~~~~~~~~~g~  430 (580)
                      ...+.| +++...+..+...|...    ++.++|...|++....++..+..|... +  ...+++++|+..|++..+.| 
T Consensus       204 ~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g-  281 (452)
T 3e4b_A          204 AGVSRG-TVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIAPGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD-  281 (452)
T ss_dssp             HHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHGGGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT-
T ss_pred             HHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC-
Confidence            555554 23333333344444333    566667766666553344555556555 3  35678888888888887765 


Q ss_pred             CCCHHHHHHHHHHHhccC-----CHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhh----cCChHHHHHHHHhCCCCCC
Q 041384          431 EPDAITVLAILSACNHAG-----LVKEAETLFNNVMKEKKIALAIEHYACYVDLLGK----SGKIEDACKVVSTMPMKPS  501 (580)
Q Consensus       431 ~p~~~~~~~l~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~p~  501 (580)
                        +......|...|. .|     ++++|...|++..     +-+......|...|..    ..+.++|...|++....-+
T Consensus       282 --~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-----~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  353 (452)
T 3e4b_A          282 --QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-----GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQ  353 (452)
T ss_dssp             --CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-----TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTC
T ss_pred             --CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-----CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhCh
Confidence              5556666666665 44     8888888888743     3445566667766665    3478888888887743445


Q ss_pred             HHHHHHHHHHHHh----cCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 041384          502 TRILSSLVSACRI----HGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAK  565 (580)
Q Consensus       502 ~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (580)
                      ......|...|..    ..+.++|...++++.+.+++.+......+......++.++|..+.++..+.
T Consensus       354 ~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~~~a~~~l~~l~~~~~~~~~~~a~~~~~~~~~~  421 (452)
T 3e4b_A          354 NSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDTPEANDLATQLEAPLTPAQRAEGQRLVQQELAA  421 (452)
T ss_dssp             TTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCCHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHh
Confidence            5566666666653    457888888888888877655544444443334455777777777766553

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.62  E-value=4.7e-14  Score=128.65  Aligned_cols=242  Identities=9%  Similarity=-0.041  Sum_probs=194.7

Q ss_pred             HhCCChhHHHHHHHHHHHCCCC---CCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHH
Q 041384          309 SQSGDLSEAMKLFSRMRLERIE---PNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSIT  385 (580)
Q Consensus       309 ~~~~~~~~a~~~~~~m~~~~~~---p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  385 (580)
                      ...|++++|+..++++.+....   .+..++..+...+...|++++|...++.+.+.. +.+...+..+...|...|+++
T Consensus        16 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~   94 (275)
T 1xnf_A           16 QPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFD   94 (275)
T ss_dssp             CCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHH
T ss_pred             CccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHH
Confidence            3457899999999999876421   135678888889999999999999999999875 446788899999999999999


Q ss_pred             HHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 041384          386 SSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMK  462 (580)
Q Consensus       386 ~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  462 (580)
                      +|...|+++.+   .+...+..+...+...|++++|...++++.+.  .|+.......+..+...|++++|...+++.+.
T Consensus        95 ~A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  172 (275)
T 1xnf_A           95 AAYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFE  172 (275)
T ss_dssp             HHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHh
Confidence            99999998775   36778999999999999999999999999985  56655555555666778999999999988766


Q ss_pred             hhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC-CCCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCc
Q 041384          463 EKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP-MKPS-----TRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENA  536 (580)
Q Consensus       463 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~-----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~  536 (580)
                      .  .+++...+ .++..+...++.++|...+++.. ..|+     ...+..+...+...|++++|...++++.+.+|.+.
T Consensus       173 ~--~~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~  249 (275)
T 1xnf_A          173 K--SDKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNF  249 (275)
T ss_dssp             H--SCCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTC
T ss_pred             c--CCcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchhH
Confidence            3  33444444 47777888888999999998873 2232     57888999999999999999999999999999886


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHH
Q 041384          537 ANYTLLSMVCSESGNWLGAEEVW  559 (580)
Q Consensus       537 ~~~~~l~~~~~~~g~~~~A~~~~  559 (580)
                      ..+   +.++...|++++|++.+
T Consensus       250 ~~~---~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          250 VEH---RYALLELSLLGQDQDDL  269 (275)
T ss_dssp             HHH---HHHHHHHHHHHHC----
T ss_pred             HHH---HHHHHHHHHHHhhHHHH
Confidence            654   56777889999998876

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.60  E-value=6.1e-14  Score=127.70  Aligned_cols=246  Identities=9%  Similarity=-0.043  Sum_probs=173.2

Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCc--hhHHHHHHHH
Q 041384          300 IWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFD--VSIGNALMNM  377 (580)
Q Consensus       300 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~  377 (580)
                      .+......+...|++++|...|++..+.. +.+...+..+..++...|++++|...++...+.+..++  ...+..+...
T Consensus         5 ~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~   83 (272)
T 3u4t_A            5 VEFRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKI   83 (272)
T ss_dssp             CHHHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHH
Confidence            34455667778888888888888887663 23344677777788888888888888888877332222  2346777888


Q ss_pred             hHhcCCHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHH
Q 041384          378 YSKCGSITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEA  453 (580)
Q Consensus       378 ~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a  453 (580)
                      +...|++++|...|++..+   .+...+..+...|...|++++|+..+++..+.  .| +...+..+...+...+++++|
T Consensus        84 ~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A  161 (272)
T 3u4t_A           84 LMKKGQDSLAIQQYQAAVDRDTTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRP--TTTDPKVFYELGQAYYYNKEYVKA  161 (272)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCS--SCCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHccCHHHHHHHHHHHhhc--CCCcHHHHHHHHHHHHHHHHHHHH
Confidence            8888888888888887654   35567888888888888888888888888775  44 455666666344445588888


Q ss_pred             HHHHHHHHHhhCCCCChhHHHHHHHHhhhcCC---hHHHHHHHHhCC----CCCC------HHHHHHHHHHHHhcCCHHH
Q 041384          454 ETLFNNVMKEKKIALAIEHYACYVDLLGKSGK---IEDACKVVSTMP----MKPS------TRILSSLVSACRIHGRLEV  520 (580)
Q Consensus       454 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~----~~p~------~~~~~~l~~~~~~~~~~~~  520 (580)
                      ...++++++.  .+.+...+..+..++...|+   +++|...+++..    ..|+      ...+..+...|...|++++
T Consensus       162 ~~~~~~a~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  239 (272)
T 3u4t_A          162 DSSFVKVLEL--KPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVK  239 (272)
T ss_dssp             HHHHHHHHHH--STTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHh--CccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHH
Confidence            8888887652  22335666677777777777   666777766651    1233      2467778888889999999


Q ss_pred             HHHHHHHHHhcCCCCchHHHHHHHHHHhcC
Q 041384          521 AEMLAHQLIEAEPENAANYTLLSMVCSESG  550 (580)
Q Consensus       521 A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  550 (580)
                      |...++++.+.+|.++.++..+.......+
T Consensus       240 A~~~~~~al~~~p~~~~a~~~l~~~~~~~~  269 (272)
T 3u4t_A          240 ADAAWKNILALDPTNKKAIDGLKMKLEHHH  269 (272)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHC-------
T ss_pred             HHHHHHHHHhcCccHHHHHHHhhhhhcccc
Confidence            999999999999999998888877665443

>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=99.60  E-value=5.7e-13  Score=121.26  Aligned_cols=225  Identities=11%  Similarity=-0.047  Sum_probs=141.4

Q ss_pred             ChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhc----cCChHHHHHHHHHHHHhCCCCchhHHH
Q 041384          297 DVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTR----QSFLSHGLGVHCYIMKAGLNFDVSIGN  372 (580)
Q Consensus       297 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  372 (580)
                      +..++..+...+...|++++|...|++..+.   .+...+..+...+..    .+++++|...++...+.+         
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---------   72 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---------   72 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---------
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---------
Confidence            3444555555555666666666666655542   223344444444444    455555555555444433         


Q ss_pred             HHHHHhHhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc--
Q 041384          373 ALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGF----HGYGEEALQLFLEMQESGVEPDAITVLAILSACNH--  446 (580)
Q Consensus       373 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~--  446 (580)
                                               +...+..+...|..    .+++++|+..|++..+.+   +...+..+...+..  
T Consensus        73 -------------------------~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~  124 (273)
T 1ouv_A           73 -------------------------YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGK  124 (273)
T ss_dssp             -------------------------CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCS
T ss_pred             -------------------------CHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCC
Confidence                                     33444555555555    666666777766666643   55666666666666  


Q ss_pred             --cCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhh----cCChHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cC
Q 041384          447 --AGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGK----SGKIEDACKVVSTMPMKPSTRILSSLVSACRI----HG  516 (580)
Q Consensus       447 --~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~~  516 (580)
                        .+++++|...+++.++ .+   +...+..+...|..    .+++++|...|++.....+...+..+...|..    .+
T Consensus       125 ~~~~~~~~A~~~~~~a~~-~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~  200 (273)
T 1ouv_A          125 VVTRDFKKAVEYFTKACD-LN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATK  200 (273)
T ss_dssp             SSCCCHHHHHHHHHHHHH-TT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCC
T ss_pred             CcccCHHHHHHHHHHHHh-cC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCc
Confidence              7777777777777554 22   34455666666666    77777777777766323355667777777777    78


Q ss_pred             CHHHHHHHHHHHHhcCCCCchHHHHHHHHHHh----cCChHHHHHHHHHHHhCCC
Q 041384          517 RLEVAEMLAHQLIEAEPENAANYTLLSMVCSE----SGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       517 ~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~  567 (580)
                      ++++|...++++.+.+|  +..+..++.+|..    .|++++|.+.+++..+.|.
T Consensus       201 ~~~~A~~~~~~a~~~~~--~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~~  253 (273)
T 1ouv_A          201 NFKEALARYSKACELEN--GGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGA  253 (273)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             cHHHHHHHHHHHHhCCC--HHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcCC
Confidence            88888888888887765  6677788888887    7888888888888777654

>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=99.60  E-value=1.1e-13  Score=124.47  Aligned_cols=196  Identities=8%  Similarity=-0.105  Sum_probs=126.9

Q ss_pred             HHHHHHHHhHhcCCHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 041384          370 IGNALMNMYSKCGSITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNH  446 (580)
Q Consensus       370 ~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~  446 (580)
                      .+..+...+...|++++|...|+++.+   .+...+..+...+...|++++|.+.++++.+.. +.+...+..+...+..
T Consensus        39 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~  117 (252)
T 2ho1_A           39 AYIQLGLGYLQRGNTEQAKVPLRKALEIDPSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFLYE  117 (252)
T ss_dssp             HHHHHHHHHHHTTCTGGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHH
Confidence            334444444555555555555554432   233455556666666667777777777666642 2245666666677777


Q ss_pred             cCCHHHHHHHHHHHHHhhCCCC-ChhHHHHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHH
Q 041384          447 AGLVKEAETLFNNVMKEKKIAL-AIEHYACYVDLLGKSGKIEDACKVVSTMP--MKPSTRILSSLVSACRIHGRLEVAEM  523 (580)
Q Consensus       447 ~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~A~~  523 (580)
                      .|++++|..+++++++ .+..| +...+..++..+...|++++|...++++.  .+.+...+..++..+...|++++|..
T Consensus       118 ~g~~~~A~~~~~~~~~-~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  196 (252)
T 2ho1_A          118 QKRYEEAYQRLLEASQ-DTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRNQPSVALEMADLLYKEREYVPARQ  196 (252)
T ss_dssp             TTCHHHHHHHHHHHTT-CTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhHHHHHHHHHHHHHh-CccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCCHHHHHH
Confidence            7777777777777554 22333 35556667777777777777777777662  23356667777777777788888888


Q ss_pred             HHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          524 LAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       524 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      .++++.+..|.+...+..++.++...|++++|.++++++.+...
T Consensus       197 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p  240 (252)
T 2ho1_A          197 YYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLYP  240 (252)
T ss_dssp             HHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCC
Confidence            88887777777777777777777778888888887777766543

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.59  E-value=1.8e-13  Score=120.44  Aligned_cols=197  Identities=12%  Similarity=0.015  Sum_probs=143.5

Q ss_pred             hhHHHHHHHHhHhcCCHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 041384          368 VSIGNALMNMYSKCGSITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSAC  444 (580)
Q Consensus       368 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~  444 (580)
                      ...+..+...+...|++++|...++++.+   .+...+..+...+...|++++|.+.++++.+.. +.+..++..+...+
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~   86 (225)
T 2vq2_A            8 SNIKTQLAMEYMRGQDYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWFL   86 (225)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHHH
Confidence            44455555566666666666666665443   234466667777777788888888888777652 33566777777888


Q ss_pred             hcc-CCHHHHHHHHHHHHHhhCCCCC-hhHHHHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHH
Q 041384          445 NHA-GLVKEAETLFNNVMKEKKIALA-IEHYACYVDLLGKSGKIEDACKVVSTMP--MKPSTRILSSLVSACRIHGRLEV  520 (580)
Q Consensus       445 ~~~-~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~  520 (580)
                      ... |++++|...++++++ .+..|+ ...+..++.++...|++++|...++++.  .+.+...+..++..+...|++++
T Consensus        87 ~~~~~~~~~A~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~  165 (225)
T 2vq2_A           87 CGRLNRPAESMAYFDKALA-DPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQFPPAFKELARTKMLAGQLGD  165 (225)
T ss_dssp             HTTTCCHHHHHHHHHHHHT-STTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHhcCcHHHHHHHHHHHHc-CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHH
Confidence            888 888888888888665 222232 5667778888888888888888887762  23356778888888888888888


Q ss_pred             HHHHHHHHHhcCC-CCchHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 041384          521 AEMLAHQLIEAEP-ENAANYTLLSMVCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       521 A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      |...++++.+..| .++..+..++..+...|+.++|..+++.+.+..
T Consensus       166 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  212 (225)
T 2vq2_A          166 ADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANF  212 (225)
T ss_dssp             HHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC
Confidence            8888888888888 888888888888888888888888888876544

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.57  E-value=7.4e-14  Score=124.72  Aligned_cols=196  Identities=14%  Similarity=0.064  Sum_probs=113.3

Q ss_pred             hhHHHHHHHHhHhcCCHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 041384          368 VSIGNALMNMYSKCGSITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSAC  444 (580)
Q Consensus       368 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~  444 (580)
                      ...+..+...+...|++++|...|+++.+   .+...+..+...+...|++++|+..++++.+.. +.+...+..+...+
T Consensus        23 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~  101 (243)
T 2q7f_A           23 SMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNVY  101 (243)
T ss_dssp             -------------------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHHH
Confidence            33444445555555666665555555443   234455556666666666666666666666542 22455666666666


Q ss_pred             hccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHH
Q 041384          445 NHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP--MKPSTRILSSLVSACRIHGRLEVAE  522 (580)
Q Consensus       445 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~A~  522 (580)
                      ...|++++|...++++++.  .+.+...+..++..+...|++++|...++++.  .+.+...+..+...+...|++++|+
T Consensus       102 ~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  179 (243)
T 2q7f_A          102 VVKEMYKEAKDMFEKALRA--GMENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNENDTEARFQFGMCLANEGMLDEAL  179 (243)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--TCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHHH
T ss_pred             HHhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHcCCHHHHH
Confidence            6677777777777765542  22345556666666777777777777766652  2335566666777777777777777


Q ss_pred             HHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 041384          523 MLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       523 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      ..++++.+..|.++.++..++.+|...|++++|.+.++++.+..
T Consensus       180 ~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  223 (243)
T 2q7f_A          180 SQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQ  223 (243)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC
T ss_pred             HHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccC
Confidence            77777777777777777777777777777777777777766544

>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=99.56  E-value=1e-12  Score=118.05  Aligned_cols=209  Identities=13%  Similarity=0.002  Sum_probs=142.3

Q ss_pred             hhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 041384          298 VVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNM  377 (580)
Q Consensus       298 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  377 (580)
                      ...|..+...+...|++++|...|+++.+.. +.+...+..+...+...|++++|.+.++.+.+.. +            
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~------------  102 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASD-S------------  102 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T------------
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-c------------
Confidence            3445555666666666666666666665442 2234445555555555555555555555544432 1            


Q ss_pred             hHhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHH
Q 041384          378 YSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETL  456 (580)
Q Consensus       378 ~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~  456 (580)
                                         .+...+..+...+...|++++|.+.++++.+.+..| +...+..+...+...|++++|...
T Consensus       103 -------------------~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  163 (252)
T 2ho1_A          103 -------------------RNARVLNNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEY  163 (252)
T ss_dssp             -------------------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             -------------------CcHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHH
Confidence                               233455566666777777777777777776633345 346677777788888888888888


Q ss_pred             HHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 041384          457 FNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-P-MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPE  534 (580)
Q Consensus       457 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  534 (580)
                      ++++++..  +.+...+..++..+...|++++|...++++ . .+.+...+..+...+...|+.++|.+.++++.+..|.
T Consensus       164 ~~~~~~~~--~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~  241 (252)
T 2ho1_A          164 FEKSLRLN--RNQPSVALEMADLLYKEREYVPARQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLYPG  241 (252)
T ss_dssp             HHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHhcC--cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCC
Confidence            88866532  334667788888888889999998888887 2 3346677888888899999999999999999999999


Q ss_pred             CchHHHH
Q 041384          535 NAANYTL  541 (580)
Q Consensus       535 ~~~~~~~  541 (580)
                      ++.....
T Consensus       242 ~~~~~~~  248 (252)
T 2ho1_A          242 SLEYQEF  248 (252)
T ss_dssp             SHHHHHH
T ss_pred             CHHHHHH
Confidence            8876543

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.56  E-value=2.1e-12  Score=126.08  Aligned_cols=213  Identities=10%  Similarity=0.002  Sum_probs=117.6

Q ss_pred             HHHHhhcccchhHHHHHHHHHHHHhCCCCChhHHHHHHHHHHcCCCc---hHHHHhhccCCCCCccchHHHHHHHHhCC-
Q 041384           33 VIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKP---ESAYQLFDEMPYRDTISWNSIINCFTQNG-  108 (580)
Q Consensus        33 ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~---~~A~~~~~~~~~~~~~~~~~li~~~~~~~-  108 (580)
                      +...+.+.|++ +.|..+|+...+.|.   +..+..|...|...|+.   ++|.+.|++....+...+..|...+...+ 
T Consensus         9 la~~~~~~g~~-~~A~~~~~~aa~~g~---~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~~~~A~~~Lg~~~~~~~~   84 (452)
T 3e4b_A            9 LANEALKRGDT-VTAQQNYQQLAELGY---SEAQVGLADIQVGTRDPAQIKQAEATYRAAADTSPRAQARLGRLLAAKPG   84 (452)
T ss_dssp             HHHHHHHHHHH-HHHHHHHHHHHHHTC---CTGGGTCC----------------------------CHHHHHHHHHTC--
T ss_pred             HHHHHHhCCCH-HHHHHHHHHHHHCCC---HHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHhCCC
Confidence            44556678899 999999999988873   33444555666667877   89999999887667777887777566655 


Q ss_pred             ----ChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCc---HHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCC-
Q 041384          109 ----FYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGEL---ELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHH-  180 (580)
Q Consensus       109 ----~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-  180 (580)
                          ++++|+..|++..+.|..   ..+..+-..|...+..   ..+.+.+......|    +......|...|...+. 
T Consensus        85 ~~~~~~~~A~~~~~~Aa~~g~~---~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g----~~~a~~~Lg~~y~~~~~~  157 (452)
T 3e4b_A           85 ATEAEHHEAESLLKKAFANGEG---NTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG----YPEAGLAQVLLYRTQGTY  157 (452)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCS---SCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT----CTTHHHHHHHHHHHHTCG
T ss_pred             CCCcCHHHHHHHHHHHHHCCCH---HHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC----CHHHHHHHHHHHHcCCCc
Confidence                678999999999887643   3555666666554443   33455555555444    34455566666666663 


Q ss_pred             ---HHHHHHHHhcCCCCCeehHHHHHHHHHhcC---ChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcC----CCchhH
Q 041384          181 ---WLIALRVFEQMVIRNEVSWTAMISGCIDSQ---NYDTGIDLFRAMQREGVKPTRVTLTIVLLACAEL----RDLRNG  250 (580)
Q Consensus       181 ---~~~a~~~~~~~~~~~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~----~~~~~a  250 (580)
                         .+.+..+++.....+..++..|...|...|   +.++|++.|++..+.|. ++...+..+...|...    ++.++|
T Consensus       158 ~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~-~~a~~~~~Lg~~y~~g~~~~~d~~~A  236 (452)
T 3e4b_A          158 DQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGT-VTAQRVDSVARVLGDATLGTPDEKTA  236 (452)
T ss_dssp             GGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTC-SCHHHHHHHHHHHTCGGGSSCCHHHH
T ss_pred             ccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHhCCCCCCCCHHHH
Confidence               444555555555555667777777777777   77778888777777653 3333333344444332    345555


Q ss_pred             HHHHHHH
Q 041384          251 KAIHGYA  257 (580)
Q Consensus       251 ~~~~~~~  257 (580)
                      ...|+..
T Consensus       237 ~~~~~~a  243 (452)
T 3e4b_A          237 QALLEKI  243 (452)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5554444

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.55  E-value=1.8e-12  Score=117.85  Aligned_cols=232  Identities=11%  Similarity=-0.059  Sum_probs=162.4

Q ss_pred             chhHHHHHHHHHHHcCCCHHHHHHHHhhCCCC-ChhhHHHHHHHHHh----CCChhHHHHHHHHHHHCCCCCCHHHHHHH
Q 041384          265 DHHLSAALMHMYCECTEALHPARIIFERTKVK-DVVIWSSIIRGYSQ----SGDLSEAMKLFSRMRLERIEPNSVTLLAI  339 (580)
Q Consensus       265 ~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~l~~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~l  339 (580)
                      +...+..+...+...++ .+.|...|++...+ +...+..+...|..    .+++++|...|++..+.+   +...+..+
T Consensus         5 ~~~a~~~lg~~~~~~~~-~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l   80 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKD-FTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLL   80 (273)
T ss_dssp             CHHHHHHHHHHHHHTTC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             ChHHHHHHHHHHHhCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHH
Confidence            45667778888888898 99999999876644 56678888889999    999999999999998876   67777777


Q ss_pred             HHHhhc----cCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHhcCCh
Q 041384          340 LSSCTR----QSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYG  415 (580)
Q Consensus       340 l~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~  415 (580)
                      ...+..    .+++++|...++...+.+   +...+..+...|...                           ....+++
T Consensus        81 g~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~---------------------------~~~~~~~  130 (273)
T 1ouv_A           81 GNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDG---------------------------KVVTRDF  130 (273)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHC---------------------------SSSCCCH
T ss_pred             HHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcC---------------------------CCcccCH
Confidence            777877    888888888888777654   334444444444330                           0005566


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc----cCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhh----cCChH
Q 041384          416 EEALQLFLEMQESGVEPDAITVLAILSACNH----AGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGK----SGKIE  487 (580)
Q Consensus       416 ~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~  487 (580)
                      ++|+..+++..+.+   +...+..+...+..    .+++++|...+++..+ .+   +...+..+...|..    .++++
T Consensus       131 ~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~-~~---~~~a~~~lg~~~~~g~~~~~~~~  203 (273)
T 1ouv_A          131 KKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACD-LK---DSPGCFNAGNMYHHGEGATKNFK  203 (273)
T ss_dssp             HHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH-TT---CHHHHHHHHHHHHHTCSSCCCHH
T ss_pred             HHHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHH-CC---CHHHHHHHHHHHHcCCCCCccHH
Confidence            66666666666643   44555555566655    6777777777777554 22   34556667777777    77777


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhcCCCCch
Q 041384          488 DACKVVSTMPMKPSTRILSSLVSACRI----HGRLEVAEMLAHQLIEAEPENAA  537 (580)
Q Consensus       488 ~A~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~  537 (580)
                      +|...+++.....+...+..+...|..    .+++++|...++++.+.+|+++.
T Consensus       204 ~A~~~~~~a~~~~~~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~  257 (273)
T 1ouv_A          204 EALARYSKACELENGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAKGAC  257 (273)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcCCHHHH
Confidence            777777766322235667777777777    78888888888888888876544

>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=99.55  E-value=6.6e-13  Score=125.46  Aligned_cols=246  Identities=9%  Similarity=0.015  Sum_probs=202.3

Q ss_pred             hhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCC-hHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 041384          298 VVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSF-LSHGLGVHCYIMKAGLNFDVSIGNALMN  376 (580)
Q Consensus       298 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~  376 (580)
                      ...|+.+...+...|++++|+..+++..... +-+...|..+..++...|+ +++|+..++...+.. +-+...|..+..
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~  174 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRV  174 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
Confidence            3467778888899999999999999998774 3456788888889999996 999999999999876 447788899999


Q ss_pred             HhHhcCCHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhc-cCCHH
Q 041384          377 MYSKCGSITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNH-AGLVK  451 (580)
Q Consensus       377 ~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~-~~~~~  451 (580)
                      ++...|++++|...|+++.+   .+...|..+..++...|++++|+..++++++.  .| +...|..+..++.. .|..+
T Consensus       175 ~~~~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l--~P~~~~a~~~lg~~l~~l~~~~~  252 (382)
T 2h6f_A          175 LVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISNTTGYND  252 (382)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHHccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCcch
Confidence            99999999999999998876   46678999999999999999999999999986  45 66888888888888 56657


Q ss_pred             HH-----HHHHHHHHHhhCCCCChhHHHHHHHHhhhcC--ChHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcC-------
Q 041384          452 EA-----ETLFNNVMKEKKIALAIEHYACYVDLLGKSG--KIEDACKVVSTMPMKP-STRILSSLVSACRIHG-------  516 (580)
Q Consensus       452 ~a-----~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~p-~~~~~~~l~~~~~~~~-------  516 (580)
                      +|     +..++++++.  .+-+...|..+..++...|  ++++|++.+.++...| +...+..++..|.+.|       
T Consensus       253 eA~~~~el~~~~~Al~l--~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~~~~p~~~~al~~La~~~~~~~~~~~~~~  330 (382)
T 2h6f_A          253 RAVLEREVQYTLEMIKL--VPHNESAWNYLKGILQDRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNK  330 (382)
T ss_dssp             HHHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSH
T ss_pred             HHHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHccCccchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHhcccccch
Confidence            77     5788887752  2334667888888888888  6899999988875444 5677888888888764       


Q ss_pred             --CHHHHHHHHHHH-HhcCCCCchHHHHHHHHHHhc
Q 041384          517 --RLEVAEMLAHQL-IEAEPENAANYTLLSMVCSES  549 (580)
Q Consensus       517 --~~~~A~~~~~~~-~~~~~~~~~~~~~l~~~~~~~  549 (580)
                        ..++|+.+++++ .+.+|.....|..++..+...
T Consensus       331 ~~~~~~A~~~~~~l~~~~DP~r~~~w~~~~~~l~~~  366 (382)
T 2h6f_A          331 EDILNKALELCEILAKEKDTIRKEYWRYIGRSLQSK  366 (382)
T ss_dssp             HHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHH
Confidence              258999999999 899999999999888776543

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.55  E-value=4.3e-13  Score=122.00  Aligned_cols=230  Identities=10%  Similarity=-0.027  Sum_probs=187.1

Q ss_pred             HHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCC--CCcc----hHHHHHHH
Q 041384          335 TLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAA--RDFV----SWTTLISG  408 (580)
Q Consensus       335 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~----~~~~l~~~  408 (580)
                      .+......+...|++++|...++...+.. +.+...+..+..+|...|++++|...+++..+  ++..    .|..+...
T Consensus         5 ~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~   83 (272)
T 3u4t_A            5 VEFRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKI   83 (272)
T ss_dssp             CHHHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHH
Confidence            44556778889999999999999999865 34555788888899999999999999998766  3333    38889999


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHH
Q 041384          409 YGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIED  488 (580)
Q Consensus       409 ~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  488 (580)
                      +...|++++|+..+++..+.. +.+...+..+...+...|++++|...++++++.  .+.+...+..+...+...+++++
T Consensus        84 ~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~  160 (272)
T 3u4t_A           84 LMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRP--TTTDPKVFYELGQAYYYNKEYVK  160 (272)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCS--SCCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhc--CCCcHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999863 335688999999999999999999999996652  33446677777734445569999


Q ss_pred             HHHHHHhC-CCCC-CHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhcC---CCC-----chHHHHHHHHHHhcCChHHH
Q 041384          489 ACKVVSTM-PMKP-STRILSSLVSACRIHGR---LEVAEMLAHQLIEAE---PEN-----AANYTLLSMVCSESGNWLGA  555 (580)
Q Consensus       489 A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~---~~~A~~~~~~~~~~~---~~~-----~~~~~~l~~~~~~~g~~~~A  555 (580)
                      |.+.|+++ ...| +...+..+...+...|+   +++|...++++.+..   |+.     ..++..++.+|...|++++|
T Consensus       161 A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  240 (272)
T 3u4t_A          161 ADSSFVKVLELKPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKA  240 (272)
T ss_dssp             HHHHHHHHHHHSTTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHhCccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHH
Confidence            99999988 3344 56788888888888888   888999999998765   432     25788999999999999999


Q ss_pred             HHHHHHHHhCCCc
Q 041384          556 EEVWRVMRAKGLS  568 (580)
Q Consensus       556 ~~~~~~~~~~~~~  568 (580)
                      .+.++++.+..+.
T Consensus       241 ~~~~~~al~~~p~  253 (272)
T 3u4t_A          241 DAAWKNILALDPT  253 (272)
T ss_dssp             HHHHHHHHHHCTT
T ss_pred             HHHHHHHHhcCcc
Confidence            9999999886643

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.55  E-value=1.1e-13  Score=123.45  Aligned_cols=216  Identities=11%  Similarity=0.062  Sum_probs=138.9

Q ss_pred             hhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 041384          298 VVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNM  377 (580)
Q Consensus       298 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  377 (580)
                      ...|..+...+...|++++|...|+++.+.. +.+...+..+...+...|++++|...++.+.+.. +            
T Consensus        23 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~------------   88 (243)
T 2q7f_A           23 SMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELD-S------------   88 (243)
T ss_dssp             -------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T------------
T ss_pred             HHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-C------------
Confidence            3445555566666666666666666665432 2234445455555555555555555555444432 1            


Q ss_pred             hHhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHH
Q 041384          378 YSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLF  457 (580)
Q Consensus       378 ~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~  457 (580)
                                         .+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...+
T Consensus        89 -------------------~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~  148 (243)
T 2q7f_A           89 -------------------SAATAYYGAGNVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYL  148 (243)
T ss_dssp             -------------------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHH
T ss_pred             -------------------cchHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHH
Confidence                               234456666677777788888888888877753 335677778888888889999999998


Q ss_pred             HHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 041384          458 NNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP--MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPEN  535 (580)
Q Consensus       458 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~  535 (580)
                      +++++.  .+.+...+..++..+...|++++|...++++.  .+.+..++..+...+...|++++|...++++.+..|.+
T Consensus       149 ~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~  226 (243)
T 2q7f_A          149 QRAVEL--NENDTEARFQFGMCLANEGMLDEALSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQPDH  226 (243)
T ss_dssp             HHHHHH--CTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCTTC
T ss_pred             HHHHHh--CCccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccCcch
Confidence            887653  23456678888888999999999999988872  34467788999999999999999999999999999999


Q ss_pred             chHHHHHHHHHHhc
Q 041384          536 AANYTLLSMVCSES  549 (580)
Q Consensus       536 ~~~~~~l~~~~~~~  549 (580)
                      +..+..+.......
T Consensus       227 ~~~~~~~~~l~~~~  240 (243)
T 2q7f_A          227 MLALHAKKLLGHHH  240 (243)
T ss_dssp             HHHHHHHTC-----
T ss_pred             HHHHHHHHHHHhhc
Confidence            99888776654433

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.54  E-value=3.6e-13  Score=130.48  Aligned_cols=266  Identities=13%  Similarity=0.008  Sum_probs=192.8

Q ss_pred             hhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCC----HHHHHHHHHHhhccCChHHHHHHHHHHHHh----CCCC-ch
Q 041384          298 VVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPN----SVTLLAILSSCTRQSFLSHGLGVHCYIMKA----GLNF-DV  368 (580)
Q Consensus       298 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~  368 (580)
                      ...+......+...|++++|...|++..+.+ +.+    ...+..+...+...|++++|...++.....    +..| ..
T Consensus         9 ~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~   87 (406)
T 3sf4_A            9 CLELALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEA   87 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHH
Confidence            3345556667788888888888888887763 223    245667777888888888888888876652    2122 25


Q ss_pred             hHHHHHHHHhHhcCCHHHHHHHHhcCCC-----CC----cchHHHHHHHHHhcCC--------------------hHHHH
Q 041384          369 SIGNALMNMYSKCGSITSSHQIFNEMAA-----RD----FVSWTTLISGYGFHGY--------------------GEEAL  419 (580)
Q Consensus       369 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~l~~~~~~~~~--------------------~~~a~  419 (580)
                      .++..+...|...|++++|...+++..+     ++    ..++..+...+...|+                    +++|.
T Consensus        88 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~  167 (406)
T 3sf4_A           88 KASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAV  167 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHH
Confidence            5667777888888899888888887654     12    2367778888888888                    88888


Q ss_pred             HHHHHHHHc----CCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCC----hhHHHHHHHHhhhcCChHHHH
Q 041384          420 QLFLEMQES----GVEPD-AITVLAILSACNHAGLVKEAETLFNNVMKEKKIALA----IEHYACYVDLLGKSGKIEDAC  490 (580)
Q Consensus       420 ~~~~~~~~~----g~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~  490 (580)
                      ..+++..+.    +..|. ..++..+...+...|++++|...++++++...-.++    ..++..+...|...|++++|.
T Consensus       168 ~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  247 (406)
T 3sf4_A          168 DFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETAS  247 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHH
Confidence            888776542    11121 246777778888899999999998887653222222    336778888888999999998


Q ss_pred             HHHHhCC----CCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC------chHHHHHHHHHHhcCChHHHH
Q 041384          491 KVVSTMP----MKPS----TRILSSLVSACRIHGRLEVAEMLAHQLIEAEPEN------AANYTLLSMVCSESGNWLGAE  556 (580)
Q Consensus       491 ~~~~~~~----~~p~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~------~~~~~~l~~~~~~~g~~~~A~  556 (580)
                      ..+++..    ..++    ..++..+...+...|++++|...++++.+..+..      ..++..++.+|...|++++|.
T Consensus       248 ~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  327 (406)
T 3sf4_A          248 EYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAM  327 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            8888762    1112    4567788888889999999999999888765332      567888899999999999999


Q ss_pred             HHHHHHHh
Q 041384          557 EVWRVMRA  564 (580)
Q Consensus       557 ~~~~~~~~  564 (580)
                      +.+++..+
T Consensus       328 ~~~~~al~  335 (406)
T 3sf4_A          328 HFAEKHLE  335 (406)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99888755

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.54  E-value=8.9e-13  Score=111.93  Aligned_cols=166  Identities=12%  Similarity=0.047  Sum_probs=143.0

Q ss_pred             CcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHH
Q 041384          398 DFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACY  476 (580)
Q Consensus       398 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  476 (580)
                      +...|..+...|...|++++|++.|++..+.  .| +..++..+..++...|++++|...+..+...  .+.+...+..+
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~   79 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKA--DPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVL--DTTSAEAYYIL   79 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CchhHHHHHHH
Confidence            4557888889999999999999999998885  45 5678888889999999999999999986652  33446667778


Q ss_pred             HHHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHH
Q 041384          477 VDLLGKSGKIEDACKVVSTMP--MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLG  554 (580)
Q Consensus       477 ~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  554 (580)
                      ...+...++++.|...+.+..  .+.+...+..+...+.+.|++++|++.++++.+.+|.++.++..++.+|.+.|++++
T Consensus        80 ~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           80 GSANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHH
Confidence            888999999999999998872  344678889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhCCC
Q 041384          555 AEEVWRVMRAKGL  567 (580)
Q Consensus       555 A~~~~~~~~~~~~  567 (580)
                      |++.+++.++..+
T Consensus       160 A~~~~~~al~~~p  172 (184)
T 3vtx_A          160 AVKYFKKALEKEE  172 (184)
T ss_dssp             HHHHHHHHHHTTH
T ss_pred             HHHHHHHHHhCCc
Confidence            9999999987653

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.54  E-value=6.2e-13  Score=115.99  Aligned_cols=205  Identities=17%  Similarity=0.086  Sum_probs=107.0

Q ss_pred             ChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 041384          297 DVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMN  376 (580)
Q Consensus       297 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  376 (580)
                      +...+..+...+.+.|++++|...|++..+.. +.+...+..+...+...|++++|...++...+.. +.+...+..+..
T Consensus         4 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~   81 (217)
T 2pl2_A            4 AEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLSE   81 (217)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHH
Confidence            45566667777777888888888888777553 3455667777777777777777777777777654 334555555665


Q ss_pred             HhHhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHH
Q 041384          377 MYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAET  455 (580)
Q Consensus       377 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~  455 (580)
                      ++...+..           ...         .+...|++++|+..+++..+.  .| +...+..+..++...|++++|+.
T Consensus        82 ~~~~~~~~-----------~~~---------~~~~~g~~~~A~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~  139 (217)
T 2pl2_A           82 AYVALYRQ-----------AED---------RERGKGYLEQALSVLKDAERV--NPRYAPLHLQRGLVYALLGERDKAEA  139 (217)
T ss_dssp             HHHHHHHT-----------CSS---------HHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHhhhh-----------hhh---------hcccccCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChHHHHH
Confidence            55555000           000         001115555555555555553  33 33445555555555555555555


Q ss_pred             HHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 041384          456 LFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQL  528 (580)
Q Consensus       456 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~  528 (580)
                      .|+++++. .  .+...+..+..+|...|++++|+..|++. ...| +...+..+...+...|++++|+..+++.
T Consensus       140 ~~~~al~~-~--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          140 SLKQALAL-E--DTPEIRSALAELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHHHH-C--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC--------------
T ss_pred             HHHHHHhc-c--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            55554442 2  34445555555555555555555555554 1222 4445555555555555655555555543

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.53  E-value=2e-12  Score=113.68  Aligned_cols=200  Identities=12%  Similarity=-0.030  Sum_probs=130.6

Q ss_pred             HHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCC---CCcchHHHHHHHHHhc-CCh
Q 041384          340 LSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAA---RDFVSWTTLISGYGFH-GYG  415 (580)
Q Consensus       340 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~-~~~  415 (580)
                      ...+...|++++|...++.+.+.. +.+...+..+...|...|++++|...++++.+   .+...+..+...+... |++
T Consensus        15 ~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~   93 (225)
T 2vq2_A           15 AMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIKPDSAEINNNYGWFLCGRLNRP   93 (225)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCCH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCcH
Confidence            333333444444444444333322 12233444444444455555555555544432   2344566667777777 788


Q ss_pred             HHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHH
Q 041384          416 EEALQLFLEMQESGVEPD-AITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVS  494 (580)
Q Consensus       416 ~~a~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  494 (580)
                      ++|...++++.+.+..|+ ...+..+...+...|++++|...++++++.  .+.+...+..++..+...|++++|...++
T Consensus        94 ~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~  171 (225)
T 2vq2_A           94 AESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAA--QPQFPPAFKELARTKMLAGQLGDADYYFK  171 (225)
T ss_dssp             HHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCchHHHHHHHHHHHcCCHHHHHHHHH
Confidence            888888887776333443 466777778888888888888888886652  23346677788888888888888888888


Q ss_pred             hCC--CC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHH
Q 041384          495 TMP--MK-PSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLL  542 (580)
Q Consensus       495 ~~~--~~-p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l  542 (580)
                      ++.  .+ .+...+..+...+...|+.+.|..+++.+.+..|.++.....+
T Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  222 (225)
T 2vq2_A          172 KYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANFPYSEELQTVL  222 (225)
T ss_dssp             HHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHh
Confidence            772  23 4666777777788899999999999999999999988866544

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.53  E-value=1.3e-13  Score=133.91  Aligned_cols=263  Identities=11%  Similarity=-0.023  Sum_probs=204.7

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCH----HHHHHHHHHhhccCChHHHHHHHHHHHHh----C-CCCchhHH
Q 041384          301 WSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNS----VTLLAILSSCTRQSFLSHGLGVHCYIMKA----G-LNFDVSIG  371 (580)
Q Consensus       301 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~  371 (580)
                      +..+...+...|++++|...|++..+.+ +.+.    ..+..+...+...|++++|...+++..+.    + .+.....+
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            4445667889999999999999988764 2233    46777888889999999999999987763    1 12245677


Q ss_pred             HHHHHHhHhcCCHHHHHHHHhcCCCC---------CcchHHHHHHHHHhcCC-----------------hHHHHHHHHHH
Q 041384          372 NALMNMYSKCGSITSSHQIFNEMAAR---------DFVSWTTLISGYGFHGY-----------------GEEALQLFLEM  425 (580)
Q Consensus       372 ~~l~~~~~~~g~~~~A~~~~~~~~~~---------~~~~~~~l~~~~~~~~~-----------------~~~a~~~~~~~  425 (580)
                      ..+...|...|++++|...+++..+-         ...++..+...|...|+                 +++|++.+++.
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            78888999999999999998876541         23477888889999999                 99999998887


Q ss_pred             HHc----CCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCC----hhHHHHHHHHhhhcCChHHHHHHHHhC
Q 041384          426 QES----GVEP-DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALA----IEHYACYVDLLGKSGKIEDACKVVSTM  496 (580)
Q Consensus       426 ~~~----g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~  496 (580)
                      .+.    +..| ...++..+...+...|++++|...++++++...-.++    ..++..+...|...|++++|...+++.
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    2122 2256778888899999999999999997663222222    337788999999999999999999877


Q ss_pred             C-CC---C----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC------CchHHHHHHHHHHhcCChHHHHHHHHHH
Q 041384          497 P-MK---P----STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPE------NAANYTLLSMVCSESGNWLGAEEVWRVM  562 (580)
Q Consensus       497 ~-~~---p----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~------~~~~~~~l~~~~~~~g~~~~A~~~~~~~  562 (580)
                      . ..   .    ...++..+...+...|++++|...++++.+..+.      ...++..++.+|...|++++|.+++++.
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            2 11   1    2467788899999999999999999999886533      3457889999999999999999999988


Q ss_pred             Hh
Q 041384          563 RA  564 (580)
Q Consensus       563 ~~  564 (580)
                      .+
T Consensus       370 l~  371 (411)
T 4a1s_A          370 LQ  371 (411)
T ss_dssp             HH
T ss_pred             HH
Confidence            65

>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=1.4e-10  Score=117.07  Aligned_cols=226  Identities=10%  Similarity=-0.028  Sum_probs=163.8

Q ss_pred             hHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHH-HHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhc
Q 041384          315 SEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGL-GVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNE  393 (580)
Q Consensus       315 ~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  393 (580)
                      +.+..+|++..... +-+...|...+.-+...|+.+.|. .+++..... ++.+...+...+....+.|+++.|.++|+.
T Consensus       326 ~Rv~~~Ye~aL~~~-p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek  403 (679)
T 4e6h_A          326 ARMTYVYMQAAQHV-CFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILS  403 (679)
T ss_dssp             HHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            34556777776542 345666767777777788888886 999888764 345666777788888888999999999887


Q ss_pred             CCC-------------CC------------cchHHHHHHHHHhcCChHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHhc-
Q 041384          394 MAA-------------RD------------FVSWTTLISGYGFHGYGEEALQLFLEMQES-GVEPDAITVLAILSACNH-  446 (580)
Q Consensus       394 ~~~-------------~~------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-g~~p~~~~~~~l~~~~~~-  446 (580)
                      +..             |+            ...|...+....+.|+.+.|..+|.+..+. + .+....|...+..-.+ 
T Consensus       404 ~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~-~~~~~lyi~~A~lE~~~  482 (679)
T 4e6h_A          404 CIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKK-LVTPDIYLENAYIEYHI  482 (679)
T ss_dssp             HHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGG-GSCTHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHh
Confidence            764             21            235777788888889999999999999875 2 1223334333222223 


Q ss_pred             cCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC-CCC----CHHHHHHHHHHHHhcCCHHHH
Q 041384          447 AGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP-MKP----STRILSSLVSACRIHGRLEVA  521 (580)
Q Consensus       447 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p----~~~~~~~l~~~~~~~~~~~~A  521 (580)
                      .++.+.|.++|+..++.  .+.+...+..+++.....|+.+.|..+|++.. ..|    ....|...+.--.+.|+.+.+
T Consensus       483 ~~d~e~Ar~ife~~Lk~--~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~  560 (679)
T 4e6h_A          483 SKDTKTACKVLELGLKY--FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSV  560 (679)
T ss_dssp             TSCCHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHH
T ss_pred             CCCHHHHHHHHHHHHHH--CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            35589999999998875  34455667788888888999999999999873 223    335788888888899999999


Q ss_pred             HHHHHHHHhcCCCCchHHHHHHHHH
Q 041384          522 EMLAHQLIEAEPENAANYTLLSMVC  546 (580)
Q Consensus       522 ~~~~~~~~~~~~~~~~~~~~l~~~~  546 (580)
                      ..+.+++.+..|+++. ...+++-|
T Consensus       561 ~~v~~R~~~~~P~~~~-~~~f~~ry  584 (679)
T 4e6h_A          561 RTLEKRFFEKFPEVNK-LEEFTNKY  584 (679)
T ss_dssp             HHHHHHHHHHSTTCCH-HHHHHHHT
T ss_pred             HHHHHHHHHhCCCCcH-HHHHHHHh
Confidence            9999999999998765 33334333

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.52  E-value=2.9e-13  Score=127.35  Aligned_cols=265  Identities=13%  Similarity=0.016  Sum_probs=203.5

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHCCCCCC----HHHHHHHHHHhhccCChHHHHHHHHHHHHh----CCCC-chhHH
Q 041384          301 WSSIIRGYSQSGDLSEAMKLFSRMRLERIEPN----SVTLLAILSSCTRQSFLSHGLGVHCYIMKA----GLNF-DVSIG  371 (580)
Q Consensus       301 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~  371 (580)
                      +......+...|++++|...|++..+.. +.+    ...+..+...+...|++++|...++...+.    +..+ ...++
T Consensus         8 l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~   86 (338)
T 3ro2_A            8 LALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKAS   86 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHH
Confidence            3344567788999999999999988764 223    356778888889999999999999887652    2222 35677


Q ss_pred             HHHHHHhHhcCCHHHHHHHHhcCCC-----CC----cchHHHHHHHHHhcCC--------------------hHHHHHHH
Q 041384          372 NALMNMYSKCGSITSSHQIFNEMAA-----RD----FVSWTTLISGYGFHGY--------------------GEEALQLF  422 (580)
Q Consensus       372 ~~l~~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~l~~~~~~~~~--------------------~~~a~~~~  422 (580)
                      ..+...|...|++++|...+++..+     ++    ..++..+...+...|+                    +++|...+
T Consensus        87 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~  166 (338)
T 3ro2_A           87 GNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLY  166 (338)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHH
Confidence            7888889999999999999887654     12    2377888888999999                    99999998


Q ss_pred             HHHHHc----CCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCC----hhHHHHHHHHhhhcCChHHHHHHH
Q 041384          423 LEMQES----GVEP-DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALA----IEHYACYVDLLGKSGKIEDACKVV  493 (580)
Q Consensus       423 ~~~~~~----g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~  493 (580)
                      ++..+.    +..| ....+..+...+...|++++|...++++++.....++    ..++..+...+...|++++|...+
T Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  246 (338)
T 3ro2_A          167 EENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYY  246 (338)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            886542    2122 1246777888899999999999999987653222222    347788899999999999999999


Q ss_pred             HhCC----CCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC------CchHHHHHHHHHHhcCChHHHHHHH
Q 041384          494 STMP----MKPS----TRILSSLVSACRIHGRLEVAEMLAHQLIEAEPE------NAANYTLLSMVCSESGNWLGAEEVW  559 (580)
Q Consensus       494 ~~~~----~~p~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~------~~~~~~~l~~~~~~~g~~~~A~~~~  559 (580)
                      ++..    ..++    ..++..+...+...|++++|...++++.+..+.      ...++..++.+|...|++++|.+.+
T Consensus       247 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  326 (338)
T 3ro2_A          247 KKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFA  326 (338)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHH
Confidence            8762    1122    457788889999999999999999999876533      2457889999999999999999999


Q ss_pred             HHHHhCC
Q 041384          560 RVMRAKG  566 (580)
Q Consensus       560 ~~~~~~~  566 (580)
                      ++..+..
T Consensus       327 ~~a~~~~  333 (338)
T 3ro2_A          327 EKHLEIS  333 (338)
T ss_dssp             HHHHHC-
T ss_pred             HHHHHHH
Confidence            9987753

>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=99.51  E-value=8.2e-13  Score=124.82  Aligned_cols=227  Identities=7%  Similarity=0.031  Sum_probs=192.8

Q ss_pred             HHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCC-HHHHHHHHhcCCC---CCcchHHHHHHHH
Q 041384          334 VTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGS-ITSSHQIFNEMAA---RDFVSWTTLISGY  409 (580)
Q Consensus       334 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-~~~A~~~~~~~~~---~~~~~~~~l~~~~  409 (580)
                      ..|..+...+...|++++|+..++.+.+.. +-+...|+.+..++...|+ +++|...|+++..   .+...|..+..++
T Consensus        98 ~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~~~  176 (382)
T 2h6f_A           98 DVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLV  176 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Confidence            456777778889999999999999999875 4567888999999999997 9999999998876   3667899999999


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhh-cCChH
Q 041384          410 GFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGK-SGKIE  487 (580)
Q Consensus       410 ~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~  487 (580)
                      ...|++++|+..|+++.+.  .| +...|..+..++...|++++|+..++++++.  .+-+...|+.+..+|.+ .|..+
T Consensus       177 ~~~g~~~eAl~~~~kal~l--dP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l--~P~~~~a~~~lg~~l~~l~~~~~  252 (382)
T 2h6f_A          177 EWLRDPSQELEFIADILNQ--DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISNTTGYND  252 (382)
T ss_dssp             HHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHccCHHHHHHHHHHHHHh--CccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCcch
Confidence            9999999999999999996  55 6788999999999999999999999998862  23357788999999998 66657


Q ss_pred             HH-----HHHHHhC-CCCC-CHHHHHHHHHHHHhcC--CHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcC--------
Q 041384          488 DA-----CKVVSTM-PMKP-STRILSSLVSACRIHG--RLEVAEMLAHQLIEAEPENAANYTLLSMVCSESG--------  550 (580)
Q Consensus       488 ~A-----~~~~~~~-~~~p-~~~~~~~l~~~~~~~~--~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--------  550 (580)
                      +|     +..+++. ...| +...|..+...+...|  ++++|++.++++ +.+|+++.++..++++|.+.|        
T Consensus       253 eA~~~~el~~~~~Al~l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~p~~~~al~~La~~~~~~~~~~~~~~~  331 (382)
T 2h6f_A          253 RAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPSHSSPYLIAFLVDIYEDMLENQCDNKE  331 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTTCCCHHHHHHHHHHHHHHHHTTCSSHH
T ss_pred             HHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccCCCCHHHHHHHHHHHHHHhcccccchH
Confidence            77     4777766 3445 6778999999998888  689999999998 888999999999999999975        


Q ss_pred             -ChHHHHHHHHHH-HhCC
Q 041384          551 -NWLGAEEVWRVM-RAKG  566 (580)
Q Consensus       551 -~~~~A~~~~~~~-~~~~  566 (580)
                       .+++|+++++++ .+.+
T Consensus       332 ~~~~~A~~~~~~l~~~~D  349 (382)
T 2h6f_A          332 DILNKALELCEILAKEKD  349 (382)
T ss_dssp             HHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHhC
Confidence             358999999998 5544

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.50  E-value=5.6e-13  Score=121.46  Aligned_cols=219  Identities=11%  Similarity=-0.068  Sum_probs=179.5

Q ss_pred             hccCChHHHHHHHHHHHHhCC---CCchhHHHHHHHHhHhcCCHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHH
Q 041384          344 TRQSFLSHGLGVHCYIMKAGL---NFDVSIGNALMNMYSKCGSITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEE  417 (580)
Q Consensus       344 ~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~  417 (580)
                      ...|++++|...++.+.+...   +.+..++..+...+...|++++|...|+++.+   .+...|..+...+...|++++
T Consensus        16 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~   95 (275)
T 1xnf_A           16 QPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDA   95 (275)
T ss_dssp             CCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHH
T ss_pred             CccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHccCHHH
Confidence            456889999999999998632   12567888899999999999999999998765   356789999999999999999


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-
Q 041384          418 ALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-  496 (580)
Q Consensus       418 a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-  496 (580)
                      |+..++++.+.. +.+...+..+...+...|++++|...++++++   ..|+..........+...|++++|...+++. 
T Consensus        96 A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~---~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  171 (275)
T 1xnf_A           96 AYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQ---DDPNDPFRSLWLYLAEQKLDEKQAKEVLKQHF  171 (275)
T ss_dssp             HHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHH---hCCCChHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            999999999862 33678899999999999999999999999776   2344444444555667789999999999776 


Q ss_pred             C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC----CchHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          497 P-MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPE----NAANYTLLSMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       497 ~-~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      . .+++...+ .++..+...++.++|...++++.+..|.    ++..+..++.+|...|++++|...++++.+..+
T Consensus       172 ~~~~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p  246 (275)
T 1xnf_A          172 EKSDKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNV  246 (275)
T ss_dssp             HHSCCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             hcCCcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCc
Confidence            2 33444444 4777778888999999999999887764    478899999999999999999999999988654

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.48  E-value=4.9e-13  Score=131.52  Aligned_cols=191  Identities=7%  Similarity=-0.076  Sum_probs=152.3

Q ss_pred             chhHHHHHHHHhHhcCCH-HHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 041384          367 DVSIGNALMNMYSKCGSI-TSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILS  442 (580)
Q Consensus       367 ~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~  442 (580)
                      +...+..+...|...|++ ++|...|++..+   .+...|..+...|...|++++|.+.|++..+.  .|+...+..+..
T Consensus       101 ~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~lg~  178 (474)
T 4abn_A          101 EAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSGALTH--CKNKVSLQNLSM  178 (474)
T ss_dssp             CHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--CCCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCHHHHHHHHH
Confidence            444555555555555666 666666555443   23456777778888888888888888888874  577788888888


Q ss_pred             HHhcc---------CCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhc--------CChHHHHHHHHhCC-CCC----
Q 041384          443 ACNHA---------GLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKS--------GKIEDACKVVSTMP-MKP----  500 (580)
Q Consensus       443 ~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------g~~~~A~~~~~~~~-~~p----  500 (580)
                      .+...         |++++|+..++++++.  .+.+...+..+..+|...        |++++|+..|++.. ..|    
T Consensus       179 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~  256 (474)
T 4abn_A          179 VLRQLQTDSGDEHSRHVMDSVRQAKLAVQM--DVLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKASS  256 (474)
T ss_dssp             HHTTCCCSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGGG
T ss_pred             HHHHhccCChhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCccc
Confidence            88888         9999999999997763  234467788888888888        89999999998883 344    


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHH
Q 041384          501 STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRV  561 (580)
Q Consensus       501 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  561 (580)
                      +...|..+...|...|++++|+..++++.+.+|.++.++..++.++...|++++|.+.+++
T Consensus       257 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          257 NPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            7788999999999999999999999999999999999999999999999999999976543

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.47  E-value=4.9e-10  Score=113.12  Aligned_cols=216  Identities=10%  Similarity=0.005  Sum_probs=164.2

Q ss_pred             HHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHH-HHHhcCCC--C-CcchHHHHHHHHHhcCChHHHHHHHHHHH
Q 041384          351 HGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSH-QIFNEMAA--R-DFVSWTTLISGYGFHGYGEEALQLFLEMQ  426 (580)
Q Consensus       351 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~-~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  426 (580)
                      .+..+|++....- +....+|...+..+...|+.++|. .+|++...  | +...|...+....+.|++++|.++|+++.
T Consensus       327 Rv~~~Ye~aL~~~-p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l  405 (679)
T 4e6h_A          327 RMTYVYMQAAQHV-CFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQCIPNSAVLAFSLSEQYELNTKIPEIETTILSCI  405 (679)
T ss_dssp             HHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            4556677777653 457788888888888899998996 99988765  3 44567778888889999999999999998


Q ss_pred             HcCC---------CCC------------HHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhc-C
Q 041384          427 ESGV---------EPD------------AITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKS-G  484 (580)
Q Consensus       427 ~~g~---------~p~------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g  484 (580)
                      ....         .|+            ...|...+....+.|+.+.|.++|..+++.. ..+....|...+..-.+. +
T Consensus       406 ~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~-~~~~~~lyi~~A~lE~~~~~  484 (679)
T 4e6h_A          406 DRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLK-KLVTPDIYLENAYIEYHISK  484 (679)
T ss_dssp             HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTG-GGSCTHHHHHHHHHHHTTTS
T ss_pred             HHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc-CCCChHHHHHHHHHHHHhCC
Confidence            6410         142            2357777777778899999999999987641 112334444444443444 4


Q ss_pred             ChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC---CchHHHHHHHHHHhcCChHHHHHHH
Q 041384          485 KIEDACKVVSTMP--MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPE---NAANYTLLSMVCSESGNWLGAEEVW  559 (580)
Q Consensus       485 ~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~  559 (580)
                      +.+.|.++|+...  .+.+...|...+......|+.+.|..+|+++....|+   ....|..++..-.+.|+.+.+.++.
T Consensus       485 d~e~Ar~ife~~Lk~~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~  564 (679)
T 4e6h_A          485 DTKTACKVLELGLKYFATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLE  564 (679)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            5999999999882  3446677788888888899999999999999998873   5677888888888999999999999


Q ss_pred             HHHHhCCCc
Q 041384          560 RVMRAKGLS  568 (580)
Q Consensus       560 ~~~~~~~~~  568 (580)
                      +++.+.-+.
T Consensus       565 ~R~~~~~P~  573 (679)
T 4e6h_A          565 KRFFEKFPE  573 (679)
T ss_dssp             HHHHHHSTT
T ss_pred             HHHHHhCCC
Confidence            999886553

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.45  E-value=1e-12  Score=127.27  Aligned_cols=153  Identities=13%  Similarity=-0.042  Sum_probs=109.7

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCC----hh
Q 041384          401 SWTTLISGYGFHGYGEEALQLFLEMQESGV-EPD----AITVLAILSACNHAGLVKEAETLFNNVMKEKKIALA----IE  471 (580)
Q Consensus       401 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~-~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~  471 (580)
                      ++..+...+...|++++|...+++..+... .++    ..++..+...+...|++++|...++++++...-.++    ..
T Consensus       189 ~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  268 (406)
T 3sf4_A          189 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ  268 (406)
T ss_dssp             HHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHH
Confidence            566677777777888888877777664310 122    236777778888888999998888886652211111    45


Q ss_pred             HHHHHHHHhhhcCChHHHHHHHHhCC----CCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC------CCCch
Q 041384          472 HYACYVDLLGKSGKIEDACKVVSTMP----MKPS----TRILSSLVSACRIHGRLEVAEMLAHQLIEAE------PENAA  537 (580)
Q Consensus       472 ~~~~l~~~~~~~g~~~~A~~~~~~~~----~~p~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~------~~~~~  537 (580)
                      ++..+...|...|++++|...+++..    ..++    ..++..+...|...|++++|...++++.+..      +....
T Consensus       269 ~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  348 (406)
T 3sf4_A          269 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISREVGDKSGELT  348 (406)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCcchhH
Confidence            67788888889999999988887762    1122    4577788889999999999999999988763      33466


Q ss_pred             HHHHHHHHHHhcCChH
Q 041384          538 NYTLLSMVCSESGNWL  553 (580)
Q Consensus       538 ~~~~l~~~~~~~g~~~  553 (580)
                      ++..++.++...|+..
T Consensus       349 ~~~~l~~~~~~~g~~~  364 (406)
T 3sf4_A          349 ARLNLSDLQMVLGLSY  364 (406)
T ss_dssp             HHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHHHHhhHhH
Confidence            7888899998888763

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.42  E-value=5.2e-12  Score=121.13  Aligned_cols=224  Identities=11%  Similarity=-0.048  Sum_probs=144.7

Q ss_pred             HHhhccCChHHHHHHHHHHHHh----CCCC-chhHHHHHHHHhHhcCCHHHHHHHHhcCCC-----CC-----cchHHHH
Q 041384          341 SSCTRQSFLSHGLGVHCYIMKA----GLNF-DVSIGNALMNMYSKCGSITSSHQIFNEMAA-----RD-----FVSWTTL  405 (580)
Q Consensus       341 ~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~-----~~~~~~l  405 (580)
                      ..+...|++++|...++...+.    +-.+ ...++..+...|...|+++.|...+++..+     ++     ..+++.+
T Consensus       111 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~l  190 (383)
T 3ulq_A          111 MYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLF  190 (383)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHH
Confidence            3344556666666666655542    1111 234555556666666666666666555432     11     2356677


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCC-CCCH----HHHHHHHHHHhccCCHHHHHHHHHHHHHh---hCC-CCChhHHHHH
Q 041384          406 ISGYGFHGYGEEALQLFLEMQESGV-EPDA----ITVLAILSACNHAGLVKEAETLFNNVMKE---KKI-ALAIEHYACY  476 (580)
Q Consensus       406 ~~~~~~~~~~~~a~~~~~~~~~~g~-~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~-~~~~~~~~~l  476 (580)
                      ...|...|++++|+..+++..+..- .++.    .++..+...|...|++++|...++++++-   .+. +....++..+
T Consensus       191 g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l  270 (383)
T 3ulq_A          191 ATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLI  270 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHH
Confidence            7777888888888888777664310 1111    46777778888888888888888886652   133 3335667788


Q ss_pred             HHHhhhcCChHHHHHHHHhCC------CCC-CHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhcCCCCchHHHHHHHHH
Q 041384          477 VDLLGKSGKIEDACKVVSTMP------MKP-STRILSSLVSACRIHGR---LEVAEMLAHQLIEAEPENAANYTLLSMVC  546 (580)
Q Consensus       477 ~~~~~~~g~~~~A~~~~~~~~------~~p-~~~~~~~l~~~~~~~~~---~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  546 (580)
                      ...|.+.|++++|...+++..      ..| ....+..+...+...|+   .++|+.++++. ...|.....+..++.+|
T Consensus       271 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~la~~y  349 (383)
T 3ulq_A          271 TQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK-MLYADLEDFAIDVAKYY  349 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC-cCHHHHHHHHHHHHHHH
Confidence            888888888888888887762      112 12234667777778888   67777777765 22344566788899999


Q ss_pred             HhcCChHHHHHHHHHHHhC
Q 041384          547 SESGNWLGAEEVWRVMRAK  565 (580)
Q Consensus       547 ~~~g~~~~A~~~~~~~~~~  565 (580)
                      ...|++++|.+.+++..+.
T Consensus       350 ~~~g~~~~A~~~~~~al~~  368 (383)
T 3ulq_A          350 HERKNFQKASAYFLKVEQV  368 (383)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHH
Confidence            9999999999999888653

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.42  E-value=4.2e-13  Score=124.72  Aligned_cols=237  Identities=13%  Similarity=0.055  Sum_probs=129.7

Q ss_pred             hhhHHHHHHHHHhCCChhHHHHHHHHHHHC-------CCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHh------CC
Q 041384          298 VVIWSSIIRGYSQSGDLSEAMKLFSRMRLE-------RIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKA------GL  364 (580)
Q Consensus       298 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-------~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~~  364 (580)
                      ..++..+...+...|++++|..+++++.+.       ........+..+...+...|++++|...++...+.      +-
T Consensus        27 ~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  106 (311)
T 3nf1_A           27 LRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKD  106 (311)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCC
Confidence            346677777888888888888888887652       11223345666666777777777777777766543      11


Q ss_pred             CC-chhHHHHHHHHhHhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHc------CCCC-CHHH
Q 041384          365 NF-DVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQES------GVEP-DAIT  436 (580)
Q Consensus       365 ~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------g~~p-~~~~  436 (580)
                      .| ...++..+...|...|                               ++++|...+++..+.      +-.| ....
T Consensus       107 ~~~~~~~~~~l~~~~~~~g-------------------------------~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~  155 (311)
T 3nf1_A          107 HPAVAATLNNLAVLYGKRG-------------------------------KYKEAEPLCKRALEIREKVLGKDHPDVAKQ  155 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTT-------------------------------CHHHHHHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHcC-------------------------------cHHHHHHHHHHHHHHHHHhcCCCChHHHHH
Confidence            11 2333444444444444                               444444444444432      1112 2244


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHHhh-----C-CCCChhHHHHHHHHhhhcCChHHHHHHHHhCC----------CCC
Q 041384          437 VLAILSACNHAGLVKEAETLFNNVMKEK-----K-IALAIEHYACYVDLLGKSGKIEDACKVVSTMP----------MKP  500 (580)
Q Consensus       437 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----------~~p  500 (580)
                      +..+...+...|++++|..+++++++..     + .+....++..+..+|...|++++|.+.++++.          ..+
T Consensus       156 ~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  235 (311)
T 3nf1_A          156 LNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDD  235 (311)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCc
Confidence            5555566666666666666666654420     1 11123445566666666666666666665541          011


Q ss_pred             CH-------HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 041384          501 ST-------RILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAK  565 (580)
Q Consensus       501 ~~-------~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (580)
                      ..       ..+..+...+...+.+.++...++......|..+.++..++.+|...|++++|.+++++..+.
T Consensus       236 ~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  307 (311)
T 3nf1_A          236 ENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRS  307 (311)
T ss_dssp             --CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            11       112222233344556666777777777777888888999999999999999999999887653

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.40  E-value=4.9e-11  Score=114.33  Aligned_cols=229  Identities=7%  Similarity=0.002  Sum_probs=177.2

Q ss_pred             HHHHHHhCCChhHHHHHHHHHHHCC-CCCC----HHHHHHHHHHhhccCChHHHHHHHHHHHHh--CCC----CchhHHH
Q 041384          304 IIRGYSQSGDLSEAMKLFSRMRLER-IEPN----SVTLLAILSSCTRQSFLSHGLGVHCYIMKA--GLN----FDVSIGN  372 (580)
Q Consensus       304 l~~~~~~~~~~~~a~~~~~~m~~~~-~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~----~~~~~~~  372 (580)
                      ....+...|++++|...+++..+.- -.++    ..++..+...+...|+++.|...+.+..+.  ...    ....+++
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            4456778899999999999886531 1122    356778888889999999999999988862  111    1245677


Q ss_pred             HHHHHhHhcCCHHHHHHHHhcCCC-----CCc----chHHHHHHHHHhcCChHHHHHHHHHHHHc----CCCC-CHHHHH
Q 041384          373 ALMNMYSKCGSITSSHQIFNEMAA-----RDF----VSWTTLISGYGFHGYGEEALQLFLEMQES----GVEP-DAITVL  438 (580)
Q Consensus       373 ~l~~~~~~~g~~~~A~~~~~~~~~-----~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----g~~p-~~~~~~  438 (580)
                      .+...|...|++++|...+++..+     ++.    .++..+...|...|++++|+..+++..+.    +..| ...++.
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            888899999999999999987764     111    37888999999999999999999998762    3324 347788


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHhhC---CCCChhHHHHHHHHhhhcCC---hHHHHHHHHhCCCCCC-HHHHHHHHHH
Q 041384          439 AILSACNHAGLVKEAETLFNNVMKEKK---IALAIEHYACYVDLLGKSGK---IEDACKVVSTMPMKPS-TRILSSLVSA  511 (580)
Q Consensus       439 ~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~p~-~~~~~~l~~~  511 (580)
                      .+...+...|++++|...+++.++-..   .+.....+..+...|...|+   +++|+.++++....|+ ...+..+...
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~~  348 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKMLYADLEDFAIDVAKY  348 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence            899999999999999999999776322   22223346778888999999   9999999999864443 3467789999


Q ss_pred             HHhcCCHHHHHHHHHHHHhcC
Q 041384          512 CRIHGRLEVAEMLAHQLIEAE  532 (580)
Q Consensus       512 ~~~~~~~~~A~~~~~~~~~~~  532 (580)
                      |...|++++|...++++.+..
T Consensus       349 y~~~g~~~~A~~~~~~al~~~  369 (383)
T 3ulq_A          349 YHERKNFQKASAYFLKVEQVR  369 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHH
Confidence            999999999999999998754

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.39  E-value=1.2e-11  Score=104.87  Aligned_cols=168  Identities=13%  Similarity=0.056  Sum_probs=135.5

Q ss_pred             chhHHHHHHHHhHhcCCHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 041384          367 DVSIGNALMNMYSKCGSITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSA  443 (580)
Q Consensus       367 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~  443 (580)
                      ++.+|..+...|.+.|++++|...|++..+   .+...+..+...|...|++++|+..++...... +.+...+..+...
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~   82 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGSA   82 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHHH
Confidence            456677777888888888888888887654   355678888888889999999999998888752 3355677777788


Q ss_pred             HhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CC-CCCHHHHHHHHHHHHhcCCHHHH
Q 041384          444 CNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PM-KPSTRILSSLVSACRIHGRLEVA  521 (580)
Q Consensus       444 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~~~~~~A  521 (580)
                      +...++++.|...+.++.+.  .+.+...+..+..+|.+.|++++|++.|++. .. +.+..+|..+...|.+.|++++|
T Consensus        83 ~~~~~~~~~a~~~~~~a~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~A  160 (184)
T 3vtx_A           83 NFMIDEKQAAIDALQRAIAL--NTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDEA  160 (184)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHHH
Confidence            88899999999999986652  3345677888999999999999999999887 33 44678899999999999999999


Q ss_pred             HHHHHHHHhcCCCCch
Q 041384          522 EMLAHQLIEAEPENAA  537 (580)
Q Consensus       522 ~~~~~~~~~~~~~~~~  537 (580)
                      +..++++++.+|.++.
T Consensus       161 ~~~~~~al~~~p~~a~  176 (184)
T 3vtx_A          161 VKYFKKALEKEEKKAK  176 (184)
T ss_dssp             HHHHHHHHHTTHHHHH
T ss_pred             HHHHHHHHhCCccCHH
Confidence            9999999999987653

>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=99.39  E-value=9.4e-12  Score=105.60  Aligned_cols=163  Identities=12%  Similarity=0.030  Sum_probs=111.1

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhh
Q 041384          402 WTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLG  481 (580)
Q Consensus       402 ~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  481 (580)
                      +..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++++.  .+.+...+..++..+.
T Consensus        11 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~   87 (186)
T 3as5_A           11 YRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLAD--APDNVKVATVLGLTYV   87 (186)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHH
Confidence            3344445555555555555555554431 224455555666666666666666666665442  2233455566666666


Q ss_pred             hcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHH
Q 041384          482 KSGKIEDACKVVSTMP--MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVW  559 (580)
Q Consensus       482 ~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  559 (580)
                      ..|++++|.+.++++.  .+.+...+..+...+...|++++|...++++.+..|.++.++..++.++...|++++|.+.+
T Consensus        88 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~  167 (186)
T 3as5_A           88 QVQKYDLAVPLLIKVAEANPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEALPHF  167 (186)
T ss_dssp             HHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhcCcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHHHHH
Confidence            6677777766666652  23466777888888889999999999999999999999999999999999999999999999


Q ss_pred             HHHHhCCC
Q 041384          560 RVMRAKGL  567 (580)
Q Consensus       560 ~~~~~~~~  567 (580)
                      +++.+...
T Consensus       168 ~~~~~~~~  175 (186)
T 3as5_A          168 KKANELDE  175 (186)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHcCC
Confidence            98876543

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.39  E-value=1.2e-11  Score=119.87  Aligned_cols=276  Identities=12%  Similarity=0.020  Sum_probs=163.8

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC-H----HHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHH
Q 041384          199 WTAMISGCIDSQNYDTGIDLFRAMQREGVKPT-R----VTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALM  273 (580)
Q Consensus       199 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  273 (580)
                      +..+...+...|++++|...|++..+.+  |+ .    ..+..+...+...|++++|...++++.+..            
T Consensus        51 l~~~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~------------  116 (411)
T 4a1s_A           51 LALEGERLCNAGDCRAGVAFFQAAIQAG--TEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLA------------  116 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH------------
T ss_pred             HHHHHHHHHHhCcHHHHHHHHHHHHHhc--ccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH------------
Confidence            3345566777888888888888877752  33 2    356666777777788888877776654321            


Q ss_pred             HHHHHcCCCHHHHHHHHhhCC--CCChhhHHHHHHHHHhCCChhHHHHHHHHHHHC----CC-CCCHHHHHHHHHHhhcc
Q 041384          274 HMYCECTEALHPARIIFERTK--VKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLE----RI-EPNSVTLLAILSSCTRQ  346 (580)
Q Consensus       274 ~~~~~~~~~~~~a~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~----~~-~p~~~~~~~ll~~~~~~  346 (580)
                                       ....  ......+..+...|...|++++|...+++..+.    +- .....++..+...+...
T Consensus       117 -----------------~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~  179 (411)
T 4a1s_A          117 -----------------KSMNDRLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAK  179 (411)
T ss_dssp             -----------------HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHH
T ss_pred             -----------------HHccCchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHc
Confidence                             0000  012234666677788888888888888776543    11 11223455566666666


Q ss_pred             CC-----------------hHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCCC--CcchHHHHHH
Q 041384          347 SF-----------------LSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAAR--DFVSWTTLIS  407 (580)
Q Consensus       347 ~~-----------------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~l~~  407 (580)
                      |+                 +++|...+++..+.                            ......+  ....+..+..
T Consensus       180 g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~----------------------------~~~~~~~~~~~~~~~~la~  231 (411)
T 4a1s_A          180 GKHLGQRNPGKFGDDVKEALTRAVEFYQENLKL----------------------------MRDLGDRGAQGRACGNLGN  231 (411)
T ss_dssp             HHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHH----------------------------HHHHTCHHHHHHHHHHHHH
T ss_pred             CcccccccchhhhhhhhHHHHHHHHHHHHHHHH----------------------------HHHcCCHHHHHHHHHHHHH
Confidence            66                 55555555544321                            0000000  1124455555


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCC----ChhHHHHHHH
Q 041384          408 GYGFHGYGEEALQLFLEMQESGV-EPD----AITVLAILSACNHAGLVKEAETLFNNVMKEKKIAL----AIEHYACYVD  478 (580)
Q Consensus       408 ~~~~~~~~~~a~~~~~~~~~~g~-~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~~l~~  478 (580)
                      .+...|++++|+..+++..+... .++    ...+..+...+...|++++|...++++++...-..    ...++..+..
T Consensus       232 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~  311 (411)
T 4a1s_A          232 TYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGN  311 (411)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            66666666666666666544210 011    12566667777777777777777776554221111    1455667777


Q ss_pred             HhhhcCChHHHHHHHHhCC-C---CC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 041384          479 LLGKSGKIEDACKVVSTMP-M---KP----STRILSSLVSACRIHGRLEVAEMLAHQLIEAEP  533 (580)
Q Consensus       479 ~~~~~g~~~~A~~~~~~~~-~---~p----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  533 (580)
                      .|...|++++|...+++.. .   .+    ...++..+...|...|++++|...++++.+..+
T Consensus       312 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~  374 (411)
T 4a1s_A          312 TYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQLAX  374 (411)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHh
Confidence            7777888888777777662 0   01    134667778888888888888888888887664

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.38  E-value=1.2e-10  Score=107.80  Aligned_cols=219  Identities=11%  Similarity=0.030  Sum_probs=148.2

Q ss_pred             hHHHHHHHHHHHCCCCCCHHHHHHHHHHhh-------ccCCh-------HHHHHHHHHHHHhCCCCchhHHHHHHHHhHh
Q 041384          315 SEAMKLFSRMRLERIEPNSVTLLAILSSCT-------RQSFL-------SHGLGVHCYIMKAGLNFDVSIGNALMNMYSK  380 (580)
Q Consensus       315 ~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~-------~~~~~-------~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  380 (580)
                      ++|...|++..... +-+...|..+...+.       ..|++       ++|..+|+...+.-.+-+...|..++..+.+
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            56777888777653 345556666655554       34665       7788888777763223355677777778888


Q ss_pred             cCCHHHHHHHHhcCCC--C-Ccc-hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH-hccCCHHHHHH
Q 041384          381 CGSITSSHQIFNEMAA--R-DFV-SWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSAC-NHAGLVKEAET  455 (580)
Q Consensus       381 ~g~~~~A~~~~~~~~~--~-~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~-~~~~~~~~a~~  455 (580)
                      .|++++|..+|+++.+  | +.. .|..++..+.+.|++++|..+|++..+.. +++...|....... ...|++++|..
T Consensus       112 ~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A~~  190 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFK  190 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHHHH
Confidence            8888888888887665  2 233 67777777778888888888888887752 22334444333322 23688888888


Q ss_pred             HHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC----CCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 041384          456 LFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP----MKP--STRILSSLVSACRIHGRLEVAEMLAHQLI  529 (580)
Q Consensus       456 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~p--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  529 (580)
                      +|+++++..  +.+...|..++..+.+.|++++|..+|++..    .+|  ....|..++..+.+.|+.+.|..+++++.
T Consensus       191 ~~~~al~~~--p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~  268 (308)
T 2ond_A          191 IFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  268 (308)
T ss_dssp             HHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            888876633  2346667777777888888888888887772    244  34577777777777888888888888888


Q ss_pred             hcCCCCch
Q 041384          530 EAEPENAA  537 (580)
Q Consensus       530 ~~~~~~~~  537 (580)
                      +..|++..
T Consensus       269 ~~~p~~~~  276 (308)
T 2ond_A          269 TAFREEYE  276 (308)
T ss_dssp             HHTTTTTS
T ss_pred             HHcccccc
Confidence            88776543

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.38  E-value=6e-11  Score=109.75  Aligned_cols=214  Identities=8%  Similarity=0.015  Sum_probs=171.3

Q ss_pred             HHHHHHHHHHHHhCCCCchhHHHHHHHHhH-------hcCCH-------HHHHHHHhcCCC---C-CcchHHHHHHHHHh
Q 041384          350 SHGLGVHCYIMKAGLNFDVSIGNALMNMYS-------KCGSI-------TSSHQIFNEMAA---R-DFVSWTTLISGYGF  411 (580)
Q Consensus       350 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-------~~g~~-------~~A~~~~~~~~~---~-~~~~~~~l~~~~~~  411 (580)
                      ++|...|+...... +.++..|..++..+.       +.|++       ++|..+|++...   | +...|..++..+..
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            57778888888753 556777877777765       35886       899999998765   2 44589999999999


Q ss_pred             cCChHHHHHHHHHHHHcCCCCC-HH-HHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhh-hcCChHH
Q 041384          412 HGYGEEALQLFLEMQESGVEPD-AI-TVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLG-KSGKIED  488 (580)
Q Consensus       412 ~~~~~~a~~~~~~~~~~g~~p~-~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~g~~~~  488 (580)
                      .|++++|..+|++..+  +.|+ .. .|..++..+.+.|++++|..+|+++++.  .+++...|...+.... ..|+.++
T Consensus       112 ~~~~~~A~~~~~~al~--~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~a~~~~~~~~~~~~  187 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLA--IEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAALMEYYCSKDKSV  187 (308)
T ss_dssp             TTCHHHHHHHHHHHHT--SSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTS--TTCCTHHHHHHHHHHHHTSCCHHH
T ss_pred             cCCHHHHHHHHHHHHh--ccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHHcCCHHH
Confidence            9999999999999998  4664 33 7888999999999999999999997752  2334445544433322 3799999


Q ss_pred             HHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc---CCC-CchHHHHHHHHHHhcCChHHHHHHHHHH
Q 041384          489 ACKVVSTMP--MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEA---EPE-NAANYTLLSMVCSESGNWLGAEEVWRVM  562 (580)
Q Consensus       489 A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~  562 (580)
                      |.++|++..  .+.+...|..++..+.+.|++++|..+|+++.+.   .|. +..+|..++..+.+.|+.++|..+++++
T Consensus       188 A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a  267 (308)
T 2ond_A          188 AFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            999999882  3346788999999999999999999999999996   343 6778999999999999999999999999


Q ss_pred             HhCCCc
Q 041384          563 RAKGLS  568 (580)
Q Consensus       563 ~~~~~~  568 (580)
                      .+..+.
T Consensus       268 ~~~~p~  273 (308)
T 2ond_A          268 FTAFRE  273 (308)
T ss_dssp             HHHTTT
T ss_pred             HHHccc
Confidence            876553

>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=99.38  E-value=1.1e-11  Score=126.68  Aligned_cols=162  Identities=17%  Similarity=0.178  Sum_probs=140.0

Q ss_pred             cchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHH
Q 041384          399 FVSWTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYV  477 (580)
Q Consensus       399 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  477 (580)
                      ...|+.|...|.+.|++++|++.|++..+.  .| +...+..+..++.+.|++++|+..|+++++-  .+-+...|..+.
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~l--~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l--~P~~~~a~~nLg   84 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNMG   84 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            356778888888889999999999988885  56 4578888899999999999999999997762  123367888899


Q ss_pred             HHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHH
Q 041384          478 DLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGA  555 (580)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  555 (580)
                      .+|.+.|++++|++.|++. ...| +...|..+..+|...|++++|+..++++++++|+++.++..++.+|...|++++|
T Consensus        85 ~~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~~A  164 (723)
T 4gyw_A           85 NTLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWTDY  164 (723)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCTTH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHHHH
Confidence            9999999999999999887 3444 6788999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHh
Q 041384          556 EEVWRVMRA  564 (580)
Q Consensus       556 ~~~~~~~~~  564 (580)
                      .+.++++.+
T Consensus       165 ~~~~~kal~  173 (723)
T 4gyw_A          165 DERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999988765

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.36  E-value=6.5e-10  Score=106.10  Aligned_cols=261  Identities=12%  Similarity=-0.041  Sum_probs=178.1

Q ss_pred             HHHHHHhCCChhHHHHHHHHHHHCCCCCCHH----HHHHHHHHhhccCChHHHHHHHHHHHHhCC-CCc----hhHHHHH
Q 041384          304 IIRGYSQSGDLSEAMKLFSRMRLERIEPNSV----TLLAILSSCTRQSFLSHGLGVHCYIMKAGL-NFD----VSIGNAL  374 (580)
Q Consensus       304 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~----~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l  374 (580)
                      ....+...|++++|...+++........+..    .+..+...+...|++++|...+++..+... ..+    ..++..+
T Consensus        20 ~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l   99 (373)
T 1hz4_A           20 RAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQ   99 (373)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            3345667888888888888877654222322    345556677788899999888888775211 111    2234566


Q ss_pred             HHHhHhcCCHHHHHHHHhcCCC-----CC------cchHHHHHHHHHhcCChHHHHHHHHHHHHcCCC--C--CHHHHHH
Q 041384          375 MNMYSKCGSITSSHQIFNEMAA-----RD------FVSWTTLISGYGFHGYGEEALQLFLEMQESGVE--P--DAITVLA  439 (580)
Q Consensus       375 ~~~~~~~g~~~~A~~~~~~~~~-----~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~--p--~~~~~~~  439 (580)
                      ...+...|++++|...+++...     .+      ...+..+...+...|++++|...+++..+....  +  ...++..
T Consensus       100 a~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  179 (373)
T 1hz4_A          100 SEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAM  179 (373)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHH
Confidence            7778888999988888887653     11      124566777888899999999999888764221  1  1356677


Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHH-----HHHHHhhhcCChHHHHHHHHhCC-CCCC-----HHHHHHH
Q 041384          440 ILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYA-----CYVDLLGKSGKIEDACKVVSTMP-MKPS-----TRILSSL  508 (580)
Q Consensus       440 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-----~l~~~~~~~g~~~~A~~~~~~~~-~~p~-----~~~~~~l  508 (580)
                      +...+...|++++|...+++.............+.     ..+..+...|++++|...+++.. ..|.     ...+..+
T Consensus       180 la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~l  259 (373)
T 1hz4_A          180 LIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNI  259 (373)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHH
Confidence            77888889999999999988665322211111121     23344778899999999998873 2221     2245677


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCC------CchHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 041384          509 VSACRIHGRLEVAEMLAHQLIEAEPE------NAANYTLLSMVCSESGNWLGAEEVWRVMRA  564 (580)
Q Consensus       509 ~~~~~~~~~~~~A~~~~~~~~~~~~~------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (580)
                      ...+...|++++|...++++.+..+.      ...++..++.++...|+.++|...+++...
T Consensus       260 a~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          260 ARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            78888899999999999988765422      123677788889999999999998887754

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.36  E-value=2.7e-11  Score=113.73  Aligned_cols=278  Identities=12%  Similarity=0.005  Sum_probs=166.1

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHcCCCCC-----HHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHH
Q 041384          200 TAMISGCIDSQNYDTGIDLFRAMQREGVKPT-----RVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMH  274 (580)
Q Consensus       200 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  274 (580)
                      ......+...|++++|...|++..+.+  |+     ...+..+...+...|++++|...++...+....           
T Consensus         9 ~~~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~-----------   75 (338)
T 3ro2_A            9 ALEGERLCKSGDCRAGVSFFEAAVQVG--TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLART-----------   75 (338)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH-----------
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhhC--cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhc-----------
Confidence            344566777888888888888887753  33     355667777778888888888877765432100           


Q ss_pred             HHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCC-CCC----HHHHHHHHHHhhccCC-
Q 041384          275 MYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERI-EPN----SVTLLAILSSCTRQSF-  348 (580)
Q Consensus       275 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~-~p~----~~~~~~ll~~~~~~~~-  348 (580)
                          .++ .           ......+..+...+...|++++|...+++..+... .++    ..++..+...+...|+ 
T Consensus        76 ----~~~-~-----------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  139 (338)
T 3ro2_A           76 ----IGD-Q-----------LGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKS  139 (338)
T ss_dssp             ----HTC-H-----------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHT
T ss_pred             ----ccc-c-----------HHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcc
Confidence                000 0           00123456667778888888888888877653210 112    2255556666666666 


Q ss_pred             -------------------hHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCC--CCcchHHHHHH
Q 041384          349 -------------------LSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAA--RDFVSWTTLIS  407 (580)
Q Consensus       349 -------------------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~l~~  407 (580)
                                         +++|...++...+.                            ......  .....+..+..
T Consensus       140 ~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~----------------------------~~~~~~~~~~~~~~~~l~~  191 (338)
T 3ro2_A          140 FGCPGPQDTGEFPEDVRNALQAAVDLYEENLSL----------------------------VTALGDRAAQGRAFGNLGN  191 (338)
T ss_dssp             SSSSSCC----CCHHHHHHHHHHHHHHHHHHHH----------------------------HHHHTCHHHHHHHHHHHHH
T ss_pred             cccchhhhhhhhhhhHHHHHHHHHHHHHHHHHH----------------------------HHhcCCHHHHHHHHHHHHH
Confidence                               55555555544321                            000000  01124445555


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCC----hhHHHHHHH
Q 041384          408 GYGFHGYGEEALQLFLEMQESGV-EPD----AITVLAILSACNHAGLVKEAETLFNNVMKEKKIALA----IEHYACYVD  478 (580)
Q Consensus       408 ~~~~~~~~~~a~~~~~~~~~~g~-~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~  478 (580)
                      .+...|++++|...+++..+... .++    ..++..+...+...|++++|...+++.++...-..+    ..++..+..
T Consensus       192 ~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~  271 (338)
T 3ro2_A          192 THYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGN  271 (338)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHH
Confidence            56666666666666666543200 011    235666677777788888888887776542211111    456677777


Q ss_pred             HhhhcCChHHHHHHHHhCC-C---CC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 041384          479 LLGKSGKIEDACKVVSTMP-M---KP----STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPE  534 (580)
Q Consensus       479 ~~~~~g~~~~A~~~~~~~~-~---~p----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  534 (580)
                      .|...|++++|...+++.. .   .+    ...++..+...+...|++++|...++++.+..+.
T Consensus       272 ~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~  335 (338)
T 3ro2_A          272 TYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISRE  335 (338)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC---
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHh
Confidence            8888888888888877662 0   11    1346778888889999999999999998887653

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.34  E-value=4.8e-11  Score=105.12  Aligned_cols=193  Identities=13%  Similarity=-0.008  Sum_probs=92.5

Q ss_pred             chhHHHHHHHHhHhcCCHHHHHHHHhcCCC----CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHH
Q 041384          367 DVSIGNALMNMYSKCGSITSSHQIFNEMAA----RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPD-AITVLAIL  441 (580)
Q Consensus       367 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~-~~~~~~l~  441 (580)
                      ++..+......+...|++++|...|++..+    ++...+..+..++...|++++|+..+++..+.  .|+ ...+..+.
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~   83 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKK--NYNLANAYIGKS   83 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TCSHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHh--CcchHHHHHHHH
Confidence            334445555555555555555555554432    23334444555555555555555555555543  332 24444555


Q ss_pred             HHHhccCCHHHHHHHHHHHHHhhCCCCCh-----hHHHHHHHHhhhcCChHHHHHHHHhC-CCCCC---HHHHHHHHHHH
Q 041384          442 SACNHAGLVKEAETLFNNVMKEKKIALAI-----EHYACYVDLLGKSGKIEDACKVVSTM-PMKPS---TRILSSLVSAC  512 (580)
Q Consensus       442 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~---~~~~~~l~~~~  512 (580)
                      ..+...|++++|...++++++...-.+..     ..|..+...+...|++++|++.|++. ...|+   ...+..+...+
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~  163 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAVPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTSKKWKTDALYSLGVLF  163 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCCCcccHHHHHHHHHHH
Confidence            55555555555555555544321111111     23444444455555555555555544 22333   23344444444


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCCc
Q 041384          513 RIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGLS  568 (580)
Q Consensus       513 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  568 (580)
                      ...|     ...++++....+.+...+....  ....|.+++|...+++..+..+.
T Consensus       164 ~~~~-----~~~~~~a~~~~~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~  212 (228)
T 4i17_A          164 YNNG-----ADVLRKATPLASSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPN  212 (228)
T ss_dssp             HHHH-----HHHHHHHGGGTTTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHH-----HHHHHHHHhcccCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCC
Confidence            3222     2333444444444333332222  22334459999999998876543

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.33  E-value=4.8e-12  Score=117.50  Aligned_cols=238  Identities=14%  Similarity=0.089  Sum_probs=153.6

Q ss_pred             chhHHHHHHHHHHHcCCCHHHHHHHHhhCCC--------C---ChhhHHHHHHHHHhCCChhHHHHHHHHHHHC------
Q 041384          265 DHHLSAALMHMYCECTEALHPARIIFERTKV--------K---DVVIWSSIIRGYSQSGDLSEAMKLFSRMRLE------  327 (580)
Q Consensus       265 ~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~--------~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~------  327 (580)
                      ...++..+...+...|+ .+.|...++....        .   ....+..+...|...|++++|...+++....      
T Consensus        26 ~~~~~~~l~~~~~~~g~-~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  104 (311)
T 3nf1_A           26 RLRTLHNLVIQYASQGR-YEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLG  104 (311)
T ss_dssp             HHHHHHHHHHHHHHTTC-HHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHcCC-HHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhC
Confidence            45677888889999999 9999998887653        1   3456788889999999999999999998754      


Q ss_pred             CCCC-CHHHHHHHHHHhhccCChHHHHHHHHHHHHh------CCCC-chhHHHHHHHHhHhcCCHHHHHHHHhcCCCCCc
Q 041384          328 RIEP-NSVTLLAILSSCTRQSFLSHGLGVHCYIMKA------GLNF-DVSIGNALMNMYSKCGSITSSHQIFNEMAARDF  399 (580)
Q Consensus       328 ~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  399 (580)
                      +-.| ...++..+...+...|++++|...++...+.      +..| ...                              
T Consensus       105 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~------------------------------  154 (311)
T 3nf1_A          105 KDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAK------------------------------  154 (311)
T ss_dssp             TTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHH------------------------------
T ss_pred             CCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHH------------------------------
Confidence            2223 3457888889999999999999999988763      1111 122                              


Q ss_pred             chHHHHHHHHHhcCChHHHHHHHHHHHHc------CCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHHHHhh------CC
Q 041384          400 VSWTTLISGYGFHGYGEEALQLFLEMQES------GVEPD-AITVLAILSACNHAGLVKEAETLFNNVMKEK------KI  466 (580)
Q Consensus       400 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------g~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~  466 (580)
                       .+..+...+...|++++|++.++++.+.      +..|+ ..++..+...+...|++++|...++++++..      ..
T Consensus       155 -~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  233 (311)
T 3nf1_A          155 -QLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSV  233 (311)
T ss_dssp             -HHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC--
T ss_pred             -HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCC
Confidence             3444555555566666666666655543      11232 3466677778888888888888888866421      11


Q ss_pred             CCC-hhH------HHHHHHHhhhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 041384          467 ALA-IEH------YACYVDLLGKSGKIEDACKVVSTMP-MKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPE  534 (580)
Q Consensus       467 ~~~-~~~------~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  534 (580)
                      .+. ...      +..+...+...+.+.++...+.... ..| ...++..+...|.+.|++++|...++++.+..|.
T Consensus       234 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~~~  310 (311)
T 3nf1_A          234 DDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSRKQ  310 (311)
T ss_dssp             ----CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-
T ss_pred             CcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhc
Confidence            111 111      2222233334455555555665553 233 4567889999999999999999999999887664

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.31  E-value=3.7e-11  Score=118.14  Aligned_cols=179  Identities=13%  Similarity=-0.034  Sum_probs=156.3

Q ss_pred             HHHHHHHHhcCCC---CCcchHHHHHHHHHhcCCh-HHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHH
Q 041384          384 ITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYG-EEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETLFN  458 (580)
Q Consensus       384 ~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~  458 (580)
                      ++++...+++...   .+...+..+...+...|++ ++|++.|++..+.  .| +...+..+...|...|++++|...|+
T Consensus        84 ~~~al~~l~~~~~~~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           84 MEKTLQQMEEVLGSAQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKL--EPELVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            4556666665443   3567888899999999999 9999999999986  45 57889999999999999999999999


Q ss_pred             HHHHhhCCCCChhHHHHHHHHhhhc---------CChHHHHHHHHhC-CC-CCCHHHHHHHHHHHHhc--------CCHH
Q 041384          459 NVMKEKKIALAIEHYACYVDLLGKS---------GKIEDACKVVSTM-PM-KPSTRILSSLVSACRIH--------GRLE  519 (580)
Q Consensus       459 ~~~~~~~~~~~~~~~~~l~~~~~~~---------g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~--------~~~~  519 (580)
                      ++++   ..|+...+..+...|...         |++++|++.+++. .. +.+...|..+..+|...        |+++
T Consensus       162 ~al~---~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~  238 (474)
T 4abn_A          162 GALT---HCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVLDGRSWYILGNAYLSLYFNTGQNPKISQ  238 (474)
T ss_dssp             HHHT---TCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHHh---hCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHhhccccchHH
Confidence            9765   457778899999999999         9999999999988 33 44678999999999998        9999


Q ss_pred             HHHHHHHHHHhcCC---CCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          520 VAEMLAHQLIEAEP---ENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       520 ~A~~~~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      +|+..++++.+.+|   .++..|..++.+|...|++++|.+.+++..+...
T Consensus       239 ~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p  289 (474)
T 4abn_A          239 QALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDP  289 (474)
T ss_dssp             HHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            99999999999999   9999999999999999999999999999887653

>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=99.31  E-value=1.4e-10  Score=102.04  Aligned_cols=205  Identities=11%  Similarity=0.039  Sum_probs=161.6

Q ss_pred             CCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCCC---CcchHHHHH
Q 041384          330 EPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAAR---DFVSWTTLI  406 (580)
Q Consensus       330 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~l~  406 (580)
                      ..|+..+......+...|++++|...|+...+...+++...+..+..++...|++++|...+++..+.   +...|..+.
T Consensus         4 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~   83 (228)
T 4i17_A            4 TTDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGKS   83 (228)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHHH
Confidence            34667888888999999999999999999999875577777777999999999999999999988763   445788899


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCC-CH-------HHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCC---hhHHHH
Q 041384          407 SGYGFHGYGEEALQLFLEMQESGVEP-DA-------ITVLAILSACNHAGLVKEAETLFNNVMKEKKIALA---IEHYAC  475 (580)
Q Consensus       407 ~~~~~~~~~~~a~~~~~~~~~~g~~p-~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~  475 (580)
                      ..+...|++++|+..+++..+.  .| +.       ..|..+...+...|++++|+..|+++++   ..|+   ...+..
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~~~  158 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKA--VPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATD---VTSKKWKTDALYS  158 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTT---SSCHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHh---cCCCcccHHHHHH
Confidence            9999999999999999999985  45 44       4577778888999999999999999765   3444   567778


Q ss_pred             HHHHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHH
Q 041384          476 YVDLLGKSGKIEDACKVVSTMP--MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVC  546 (580)
Q Consensus       476 l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  546 (580)
                      +..+|...|+.     .++++.  ...+...+....  ....+.+++|+..++++.+.+|.++.+...+..+.
T Consensus       159 l~~~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~~~~~~~~l~~i~  224 (228)
T 4i17_A          159 LGVLFYNNGAD-----VLRKATPLASSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPNRTEIKQMQDQVK  224 (228)
T ss_dssp             HHHHHHHHHHH-----HHHHHGGGTTTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHH-----HHHHHHhcccCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHHH
Confidence            88888766543     223321  122344443333  34457789999999999999999999888877654

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.29  E-value=1.3e-10  Score=111.16  Aligned_cols=221  Identities=14%  Similarity=-0.004  Sum_probs=138.2

Q ss_pred             hhccCChHHHHHHHHHHHHhCC-CC----chhHHHHHHHHhHhcCCHHHHHHHHhcCCC-----CC-----cchHHHHHH
Q 041384          343 CTRQSFLSHGLGVHCYIMKAGL-NF----DVSIGNALMNMYSKCGSITSSHQIFNEMAA-----RD-----FVSWTTLIS  407 (580)
Q Consensus       343 ~~~~~~~~~a~~~~~~~~~~~~-~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~-----~~~~~~l~~  407 (580)
                      +...|++++|...+++..+... .+    ...++..+...|...|+++.|...+++..+     ++     ..+++.+..
T Consensus       111 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~  190 (378)
T 3q15_A          111 EFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAG  190 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHH
T ss_pred             HHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHH
Confidence            3455566666666655554210 01    233455555666666666666665554432     11     235666777


Q ss_pred             HHHhcCChHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHh---hCCCCChhHHHHHHHH
Q 041384          408 GYGFHGYGEEALQLFLEMQES----GVEP-DAITVLAILSACNHAGLVKEAETLFNNVMKE---KKIALAIEHYACYVDL  479 (580)
Q Consensus       408 ~~~~~~~~~~a~~~~~~~~~~----g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~~l~~~  479 (580)
                      .|...|++++|++.+++..+.    +-.+ ...++..+...+...|++++|...++++++-   .+.+....++..+...
T Consensus       191 ~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~  270 (378)
T 3q15_A          191 NYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWT  270 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHH
Confidence            777778888888777776542    1111 1245667777888888888888888886641   1333336667778888


Q ss_pred             hhhcCChHHHHHHHHhCC----C--CCC-HHHHHHHHHHHHhcCC---HHHHHHHHHHHHhcCCCCchHHHHHHHHHHhc
Q 041384          480 LGKSGKIEDACKVVSTMP----M--KPS-TRILSSLVSACRIHGR---LEVAEMLAHQLIEAEPENAANYTLLSMVCSES  549 (580)
Q Consensus       480 ~~~~g~~~~A~~~~~~~~----~--~p~-~~~~~~l~~~~~~~~~---~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~  549 (580)
                      |.+.|++++|...+++..    .  .|. ...+..+...+...++   ..+|+..+++. ...|.....+..++..|...
T Consensus       271 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~la~~y~~~  349 (378)
T 3q15_A          271 LCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK-NLHAYIEACARSAAAVFESS  349 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC-CChhHHHHHHHHHHHHHHHC
Confidence            888888888888887761    1  122 2344555555666777   66777766652 12244555677888999999


Q ss_pred             CChHHHHHHHHHHHh
Q 041384          550 GNWLGAEEVWRVMRA  564 (580)
Q Consensus       550 g~~~~A~~~~~~~~~  564 (580)
                      |++++|.+.+++..+
T Consensus       350 g~~~~A~~~~~~al~  364 (378)
T 3q15_A          350 CHFEQAAAFYRKVLK  364 (378)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHH
Confidence            999999998888754

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.28  E-value=2.7e-10  Score=96.46  Aligned_cols=168  Identities=11%  Similarity=0.007  Sum_probs=142.2

Q ss_pred             hhHHHHHHHHhHhcCCHHHHHHHHhcCCCC---CcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 041384          368 VSIGNALMNMYSKCGSITSSHQIFNEMAAR---DFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSAC  444 (580)
Q Consensus       368 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~  444 (580)
                      ...+..+...+...|++++|...++++.+.   +...+..+...+...|++++|...++++.+.. +.+...+..+...+
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~   86 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTY   86 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            345566778888999999999999988763   55678888999999999999999999998862 34678888889999


Q ss_pred             hccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHH
Q 041384          445 NHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP--MKPSTRILSSLVSACRIHGRLEVAE  522 (580)
Q Consensus       445 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~A~  522 (580)
                      ...|++++|...++++++.  .+.+...+..+...+...|++++|...++++.  .+.+...+..+...+...|++++|.
T Consensus        87 ~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  164 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEA--NPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEAL  164 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhc--CcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHH
Confidence            9999999999999997763  34467788889999999999999999999872  3446788999999999999999999


Q ss_pred             HHHHHHHhcCCCCchH
Q 041384          523 MLAHQLIEAEPENAAN  538 (580)
Q Consensus       523 ~~~~~~~~~~~~~~~~  538 (580)
                      ..++++.+..|.++..
T Consensus       165 ~~~~~~~~~~~~~~~~  180 (186)
T 3as5_A          165 PHFKKANELDEGASVE  180 (186)
T ss_dssp             HHHHHHHHHHHCCCGG
T ss_pred             HHHHHHHHcCCCchhh
Confidence            9999999988877653

>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=99.22  E-value=1.8e-10  Score=105.16  Aligned_cols=222  Identities=13%  Similarity=0.063  Sum_probs=154.8

Q ss_pred             hccCChHHHHHHHHHHHHh-------CCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCCC-----------CcchHHHH
Q 041384          344 TRQSFLSHGLGVHCYIMKA-------GLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAAR-----------DFVSWTTL  405 (580)
Q Consensus       344 ~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----------~~~~~~~l  405 (580)
                      ...|++++|...+++..+.       ..+....++..+...|...|++++|...++++.+.           ...++..+
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            4678888888888877762       22335677888889999999999999998876531           23478888


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHc------CCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhh-----C-CCCChhH
Q 041384          406 ISGYGFHGYGEEALQLFLEMQES------GVEP-DAITVLAILSACNHAGLVKEAETLFNNVMKEK-----K-IALAIEH  472 (580)
Q Consensus       406 ~~~~~~~~~~~~a~~~~~~~~~~------g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~-~~~~~~~  472 (580)
                      ...|...|++++|...+++..+.      .-.| ...++..+...+...|++++|...++++++..     + .+....+
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            89999999999999999988764      1123 34677888888999999999999999877631     1 2223567


Q ss_pred             HHHHHHHhhhcCChHHHHHHHHhCC----------CCC-CHHHHHHHHHHHHhcC------CHHHHHHHHHHHHhcCCCC
Q 041384          473 YACYVDLLGKSGKIEDACKVVSTMP----------MKP-STRILSSLVSACRIHG------RLEVAEMLAHQLIEAEPEN  535 (580)
Q Consensus       473 ~~~l~~~~~~~g~~~~A~~~~~~~~----------~~p-~~~~~~~l~~~~~~~~------~~~~A~~~~~~~~~~~~~~  535 (580)
                      +..+..+|...|++++|...+++..          ..+ ....+..+...+...+      .+..+...++......|..
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            8888899999999999999988762          122 2233333333333322      2334444444443444667


Q ss_pred             chHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 041384          536 AANYTLLSMVCSESGNWLGAEEVWRVMRAK  565 (580)
Q Consensus       536 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (580)
                      +.++..++.+|...|++++|.+++++..+.
T Consensus       252 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          252 NTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            778999999999999999999999988753

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.20  E-value=5.8e-09  Score=99.56  Aligned_cols=227  Identities=8%  Similarity=0.037  Sum_probs=172.3

Q ss_pred             HHHHHhCCChhHHHHHHHHHHHCC-CCCC----HHHHHHHHHHhhccCChHHHHHHHHHHHHh--CC---CC-chhHHHH
Q 041384          305 IRGYSQSGDLSEAMKLFSRMRLER-IEPN----SVTLLAILSSCTRQSFLSHGLGVHCYIMKA--GL---NF-DVSIGNA  373 (580)
Q Consensus       305 ~~~~~~~~~~~~a~~~~~~m~~~~-~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~---~~-~~~~~~~  373 (580)
                      ...+...|++++|...|++..+.. -.++    ..++..+...+...|+++.|...+.+..+.  ..   .+ ...+++.
T Consensus       108 g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  187 (378)
T 3q15_A          108 GMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFV  187 (378)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHH
T ss_pred             HHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHH
Confidence            345678899999999998886542 1133    346777888888999999999999887762  11   11 2456778


Q ss_pred             HHHHhHhcCCHHHHHHHHhcCCC-----CC----cchHHHHHHHHHhcCChHHHHHHHHHHHHc----CCCCCHHHHHHH
Q 041384          374 LMNMYSKCGSITSSHQIFNEMAA-----RD----FVSWTTLISGYGFHGYGEEALQLFLEMQES----GVEPDAITVLAI  440 (580)
Q Consensus       374 l~~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----g~~p~~~~~~~l  440 (580)
                      +..+|...|++++|...|++..+     ++    ..++..+...|...|++++|+..+++..+.    +.+....++..+
T Consensus       188 lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l  267 (378)
T 3q15_A          188 IAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGL  267 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHH
Confidence            88889999999999998887654     12    246778889999999999999999998761    222235778888


Q ss_pred             HHHHhccCCHHHHHHHHHHHHHhhCCCCC---hhHHHHHHHHhhhcCC---hHHHHHHHHhCCCCCC-HHHHHHHHHHHH
Q 041384          441 LSACNHAGLVKEAETLFNNVMKEKKIALA---IEHYACYVDLLGKSGK---IEDACKVVSTMPMKPS-TRILSSLVSACR  513 (580)
Q Consensus       441 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~p~-~~~~~~l~~~~~  513 (580)
                      ...+.+.|++++|...+++.++...-..+   ...+..+...+...|+   +.+|+..+++....|+ ...+..+...|.
T Consensus       268 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~~y~  347 (378)
T 3q15_A          268 SWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKNLHAYIEACARSAAAVFE  347 (378)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHH
Confidence            99999999999999999998764332222   3456677777888888   9999999998754443 346678889999


Q ss_pred             hcCCHHHHHHHHHHHHhc
Q 041384          514 IHGRLEVAEMLAHQLIEA  531 (580)
Q Consensus       514 ~~~~~~~A~~~~~~~~~~  531 (580)
                      ..|++++|...++++.+.
T Consensus       348 ~~g~~~~A~~~~~~al~~  365 (378)
T 3q15_A          348 SSCHFEQAAAFYRKVLKA  365 (378)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHH
Confidence            999999999999998764

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.17  E-value=6.1e-09  Score=93.12  Aligned_cols=161  Identities=11%  Similarity=0.029  Sum_probs=79.6

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCC-----ChhHHH
Q 041384          401 SWTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIAL-----AIEHYA  474 (580)
Q Consensus       401 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~  474 (580)
                      .+..+..++...|++++|++++.+.+..|-.+ +...+..++..+.+.|+.+.|.+.+++|.+   ..|     +..+..
T Consensus       102 ~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~---~~~d~~~~~d~~l~  178 (310)
T 3mv2_B          102 ELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTN---AIEDTVSGDNEMIL  178 (310)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCccccccchHHHH
Confidence            33445555555566666666666554433212 234455555556666666666666665322   223     123333


Q ss_pred             HHHHH--hhhcC--ChHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc----------CCCCchHH
Q 041384          475 CYVDL--LGKSG--KIEDACKVVSTMP-MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEA----------EPENAANY  539 (580)
Q Consensus       475 ~l~~~--~~~~g--~~~~A~~~~~~~~-~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----------~~~~~~~~  539 (580)
                      .|+.+  ....|  +..+|..+|+++. ..|+..+-..+..++.+.|++++|++.++.+.+.          +|.++.++
T Consensus       179 ~Laea~v~l~~g~~~~q~A~~~f~El~~~~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~p~~~~k~~~~p~~~~~L  258 (310)
T 3mv2_B          179 NLAESYIKFATNKETATSNFYYYEELSQTFPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDYYSVEQKENAVLYKPTFL  258 (310)
T ss_dssp             HHHHHHHHHHHTCSTTTHHHHHHHHHHTTSCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHHHHTTTCHHHHSSHHHHH
T ss_pred             HHHHHHHHHHhCCccHHHHHHHHHHHHHhCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccccccCCCCCHHHH
Confidence            33333  22222  5666666666652 2233222223333555566666666666655443          35556655


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCC
Q 041384          540 TLLSMVCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       540 ~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      ..++.+....|+  +|.++++++.+..
T Consensus       259 aN~i~l~~~lgk--~a~~l~~qL~~~~  283 (310)
T 3mv2_B          259 ANQITLALMQGL--DTEDLTNQLVKLD  283 (310)
T ss_dssp             HHHHHHHHHTTC--TTHHHHHHHHHTT
T ss_pred             HHHHHHHHHhCh--HHHHHHHHHHHhC
Confidence            555444445554  5556665555543

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.16  E-value=3.2e-09  Score=92.95  Aligned_cols=64  Identities=13%  Similarity=0.105  Sum_probs=56.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCc---hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCccC
Q 041384          507 SLVSACRIHGRLEVAEMLAHQLIEAEPENA---ANYTLLSMVCSESGNWLGAEEVWRVMRAKGLSKS  570 (580)
Q Consensus       507 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  570 (580)
                      .+...+.+.|++++|+..++++++..|+++   .++..++.+|.+.|++++|++.++++...+....
T Consensus       152 ~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~~~  218 (225)
T 2yhc_A          152 SVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSNTL  218 (225)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSCCC
T ss_pred             HHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCch
Confidence            456678899999999999999999999876   5699999999999999999999999988776543

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.15  E-value=1.5e-09  Score=97.65  Aligned_cols=183  Identities=9%  Similarity=-0.058  Sum_probs=99.2

Q ss_pred             hhHHHHHHHHhHhcCCHHHHHHHHhcCCCC---C---cchHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CCC-HHHHHH
Q 041384          368 VSIGNALMNMYSKCGSITSSHQIFNEMAAR---D---FVSWTTLISGYGFHGYGEEALQLFLEMQESGV-EPD-AITVLA  439 (580)
Q Consensus       368 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~-~p~-~~~~~~  439 (580)
                      ...+..+...+.+.|++++|...|+++.+.   +   ...+..+..+|...|++++|+..|++..+... .|. ...+..
T Consensus        15 ~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~   94 (261)
T 3qky_A           15 PQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYE   94 (261)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHH
Confidence            444444555555566666666666655441   1   23444555555556666666666666555311 111 233444


Q ss_pred             HHHHHhc--------cCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCCCCCCHHHHHHHHHH
Q 041384          440 ILSACNH--------AGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRILSSLVSA  511 (580)
Q Consensus       440 l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~  511 (580)
                      +..++..        .|++++|...|+++++...-  +......+.......++.               ...+..+...
T Consensus        95 lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~--~~~~~~a~~~~~~~~~~~---------------~~~~~~la~~  157 (261)
T 3qky_A           95 RAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPN--HELVDDATQKIRELRAKL---------------ARKQYEAARL  157 (261)
T ss_dssp             HHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTT--CTTHHHHHHHHHHHHHHH---------------HHHHHHHHHH
T ss_pred             HHHHHHHhcccccccchhHHHHHHHHHHHHHHCcC--chhHHHHHHHHHHHHHHH---------------HHHHHHHHHH
Confidence            4444544        55556666655554442211  111111110000000000               0113556777


Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCC---chHHHHHHHHHHhc----------CChHHHHHHHHHHHhCCC
Q 041384          512 CRIHGRLEVAEMLAHQLIEAEPEN---AANYTLLSMVCSES----------GNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       512 ~~~~~~~~~A~~~~~~~~~~~~~~---~~~~~~l~~~~~~~----------g~~~~A~~~~~~~~~~~~  567 (580)
                      |.+.|++++|+..++++.+..|.+   +..+..++.+|...          |++++|...++++.+..+
T Consensus       158 ~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p  226 (261)
T 3qky_A          158 YERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFP  226 (261)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCC
Confidence            888888888888888888888774   44677888888766          788888888888877543

>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=99.14  E-value=1.6e-09  Score=86.10  Aligned_cols=127  Identities=16%  Similarity=0.125  Sum_probs=85.6

Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhc
Q 041384          438 LAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP--MKPSTRILSSLVSACRIH  515 (580)
Q Consensus       438 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~  515 (580)
                      ..+...+...|++++|..+++++++.  .+.+...+..++..+...|++++|...++++.  .+.+...+..+...+...
T Consensus         5 ~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~   82 (136)
T 2fo7_A            5 YNLGNAYYKQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQ   82 (136)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCcHHHHHHHHHHHHHc--CCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHh
Confidence            34444455555555555555554431  12234444555555555566666665555541  233556677778888888


Q ss_pred             CCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 041384          516 GRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       516 ~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      |++++|...++++.+..|.++..+..++.++...|++++|...++++.+..
T Consensus        83 ~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  133 (136)
T 2fo7_A           83 GDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD  133 (136)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHS
T ss_pred             cCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccC
Confidence            889999999998888888888888889999999999999999988887654

>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=99.12  E-value=3.3e-09  Score=96.57  Aligned_cols=208  Identities=15%  Similarity=0.094  Sum_probs=124.8

Q ss_pred             ChhhHHHHHHHHHhCCChhHHHHHHHHHHHC------CCCC-CHHHHHHHHHHhhccCChHHHHHHHHHHHHhC----CC
Q 041384          297 DVVIWSSIIRGYSQSGDLSEAMKLFSRMRLE------RIEP-NSVTLLAILSSCTRQSFLSHGLGVHCYIMKAG----LN  365 (580)
Q Consensus       297 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~------~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~----~~  365 (580)
                      ...++..+...|...|++++|...+++..+.      +-.| ...++..+...+...|++++|...+....+..    .+
T Consensus        42 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~  121 (283)
T 3edt_B           42 VATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGK  121 (283)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCC
Confidence            3456777778888888888888888887644      2122 23456667777777777777777777665421    00


Q ss_pred             CchhHHHHHHHHhHhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHc------CCCC-CHHHHH
Q 041384          366 FDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQES------GVEP-DAITVL  438 (580)
Q Consensus       366 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------g~~p-~~~~~~  438 (580)
                      .++                            .....+..+...+...|++++|...+++..+.      +-.| ...++.
T Consensus       122 ~~~----------------------------~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  173 (283)
T 3edt_B          122 FHP----------------------------DVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKN  173 (283)
T ss_dssp             TCH----------------------------HHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             CCh----------------------------HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHH
Confidence            000                            01124455556666666666666666666553      1133 235677


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHhh------CCCC-ChhHHHHHHHHhhhcC------ChHHHHHHHHhCC-CCC-CHH
Q 041384          439 AILSACNHAGLVKEAETLFNNVMKEK------KIAL-AIEHYACYVDLLGKSG------KIEDACKVVSTMP-MKP-STR  503 (580)
Q Consensus       439 ~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~-~~~~~~~l~~~~~~~g------~~~~A~~~~~~~~-~~p-~~~  503 (580)
                      .+...+...|++++|...++++++..      ...+ ....+..+...+...+      .+.++...++... ..| ...
T Consensus       174 ~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  253 (283)
T 3edt_B          174 NLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVNT  253 (283)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHHH
Confidence            88888889999999999998876531      1122 2333444443333322      3444555555553 223 345


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 041384          504 ILSSLVSACRIHGRLEVAEMLAHQLIEAE  532 (580)
Q Consensus       504 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  532 (580)
                      ++..+...|...|++++|...++++.+..
T Consensus       254 ~~~~la~~~~~~g~~~~A~~~~~~al~~~  282 (283)
T 3edt_B          254 TLRSLGALYRRQGKLEAAHTLEDCASRNR  282 (283)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhh
Confidence            78889999999999999999999988653

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.10  E-value=9.4e-10  Score=100.71  Aligned_cols=201  Identities=8%  Similarity=-0.033  Sum_probs=133.3

Q ss_pred             ChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCCC-----C----cchHHHHHHHHHhcCChHHH
Q 041384          348 FLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAAR-----D----FVSWTTLISGYGFHGYGEEA  418 (580)
Q Consensus       348 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~----~~~~~~l~~~~~~~~~~~~a  418 (580)
                      ++++|...+...               ...|...|++++|...|++...-     +    ..+|+.+...|...|++++|
T Consensus        32 ~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A   96 (292)
T 1qqe_A           32 KFEEAADLCVQA---------------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNA   96 (292)
T ss_dssp             HHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             cHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHH
Confidence            366666666554               33566677777777777655431     1    34677788888888888888


Q ss_pred             HHHHHHHHHcCC---CCC--HHHHHHHHHHHhcc-CCHHHHHHHHHHHHHhhCCCCC----hhHHHHHHHHhhhcCChHH
Q 041384          419 LQLFLEMQESGV---EPD--AITVLAILSACNHA-GLVKEAETLFNNVMKEKKIALA----IEHYACYVDLLGKSGKIED  488 (580)
Q Consensus       419 ~~~~~~~~~~g~---~p~--~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~  488 (580)
                      +..+++..+...   .+.  ..++..+...|... |++++|+..|+++++-..-..+    ..++..+...|.+.|++++
T Consensus        97 ~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~  176 (292)
T 1qqe_A           97 VDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIE  176 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHH
Confidence            888887765310   111  34677788888885 9999999999987753211111    3467788889999999999


Q ss_pred             HHHHHHhCC-CCCCH--------HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchH-----HHHHHHHHH--hcCCh
Q 041384          489 ACKVVSTMP-MKPST--------RILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAAN-----YTLLSMVCS--ESGNW  552 (580)
Q Consensus       489 A~~~~~~~~-~~p~~--------~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~-----~~~l~~~~~--~~g~~  552 (580)
                      |+..|++.. ..|+.        ..+..+...+...|++++|+..++++.+..|.....     +..++.++.  ..+++
T Consensus       177 A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~  256 (292)
T 1qqe_A          177 ASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQL  256 (292)
T ss_dssp             HHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTH
T ss_pred             HHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHH
Confidence            999998872 22221        146777788888999999999999999988875442     344555554  35678


Q ss_pred             HHHHHHHHHHH
Q 041384          553 LGAEEVWRVMR  563 (580)
Q Consensus       553 ~~A~~~~~~~~  563 (580)
                      ++|+..++++.
T Consensus       257 ~~A~~~~~~~~  267 (292)
T 1qqe_A          257 SEHCKEFDNFM  267 (292)
T ss_dssp             HHHHHHHTTSS
T ss_pred             HHHHHHhccCC
Confidence            88888776543

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.10  E-value=2.2e-09  Score=98.20  Aligned_cols=201  Identities=8%  Similarity=-0.065  Sum_probs=133.7

Q ss_pred             HhhccCChHHHHHHHHHHHHh----CCCCc-hhHHHHHHHHhHhcCCHHHHHHHHhcCCCC-----C----cchHHHHHH
Q 041384          342 SCTRQSFLSHGLGVHCYIMKA----GLNFD-VSIGNALMNMYSKCGSITSSHQIFNEMAAR-----D----FVSWTTLIS  407 (580)
Q Consensus       342 ~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~----~~~~~~l~~  407 (580)
                      .+...|++++|...+....+.    |-+++ ..+|+.+..+|.+.|++++|...+++..+-     +    ..+++.+..
T Consensus        46 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~  125 (292)
T 1qqe_A           46 IYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGE  125 (292)
T ss_dssp             HHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344556666666666655542    21111 345666666777777777777666655431     1    236777888


Q ss_pred             HHHhc-CChHHHHHHHHHHHHcCCCC---C----HHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCCh-----hHHH
Q 041384          408 GYGFH-GYGEEALQLFLEMQESGVEP---D----AITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAI-----EHYA  474 (580)
Q Consensus       408 ~~~~~-~~~~~a~~~~~~~~~~g~~p---~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-----~~~~  474 (580)
                      .|... |++++|+..|++..+.  .|   +    ..++..+...+...|++++|+..|+++++...-.+..     ..+.
T Consensus       126 ~~~~~lg~~~~A~~~~~~Al~~--~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  203 (292)
T 1qqe_A          126 ILENDLHDYAKAIDCYELAGEW--YAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFL  203 (292)
T ss_dssp             HHHHTTCCHHHHHHHHHHHHHH--HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHH
T ss_pred             HHHHhhcCHHHHHHHHHHHHHH--HHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHH
Confidence            88886 9999999999988764  22   1    3567788889999999999999999977633222222     1567


Q ss_pred             HHHHHhhhcCChHHHHHHHHhC-CCCCCHH------HHHHHHHHHH--hcCCHHHHHHHHHHHHhcCCCCchHHHHHHH
Q 041384          475 CYVDLLGKSGKIEDACKVVSTM-PMKPSTR------ILSSLVSACR--IHGRLEVAEMLAHQLIEAEPENAANYTLLSM  544 (580)
Q Consensus       475 ~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~------~~~~l~~~~~--~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  544 (580)
                      .+..++...|++++|...|++. ...|+..      .+..++.++.  ..+++++|+..++++...+|.+...+..+-.
T Consensus       204 ~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~l~~~~~~~~~~~k~  282 (292)
T 1qqe_A          204 KKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDKWKITILNKIKE  282 (292)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCccHHHHHHHHHHHHH
Confidence            7888899999999999999988 3445322      3445556664  4567889999988888887766554444433

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.09  E-value=2.7e-09  Score=95.97  Aligned_cols=205  Identities=12%  Similarity=0.046  Sum_probs=145.6

Q ss_pred             CCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCC--chhHHHHHHHHhHhcCCHHHHHHHHhcCCC--C-C---cch
Q 041384          330 EPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNF--DVSIGNALMNMYSKCGSITSSHQIFNEMAA--R-D---FVS  401 (580)
Q Consensus       330 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~---~~~  401 (580)
                      +.+...+......+...|++++|...|+.+.+.....  ....+..+..+|.+.|++++|...|+++.+  | +   ...
T Consensus        12 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a   91 (261)
T 3qky_A           12 HSSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQA   91 (261)
T ss_dssp             CSSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHH
Confidence            3456777788888999999999999999999864221  166788889999999999999999998876  3 2   235


Q ss_pred             HHHHHHHHHh--------cCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhH
Q 041384          402 WTTLISGYGF--------HGYGEEALQLFLEMQESGVEPDA-ITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEH  472 (580)
Q Consensus       402 ~~~l~~~~~~--------~~~~~~a~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  472 (580)
                      +..+..++..        .|++++|+..|+++.+.  .|+. .....+...       ....   .. .        ...
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~~-------~~~~---~~-~--------~~~  150 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR--YPNHELVDDATQKI-------RELR---AK-L--------ARK  150 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH--CTTCTTHHHHHHHH-------HHHH---HH-H--------HHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHH--CcCchhHHHHHHHH-------HHHH---HH-H--------HHH
Confidence            6777888888        99999999999999985  4543 222111110       0000   00 0        112


Q ss_pred             HHHHHHHhhhcCChHHHHHHHHhC-CCCCC----HHHHHHHHHHHHhc----------CCHHHHHHHHHHHHhcCCCCch
Q 041384          473 YACYVDLLGKSGKIEDACKVVSTM-PMKPS----TRILSSLVSACRIH----------GRLEVAEMLAHQLIEAEPENAA  537 (580)
Q Consensus       473 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~----------~~~~~A~~~~~~~~~~~~~~~~  537 (580)
                      +..+...|.+.|++++|+..|+++ ...|+    ...+..+..+|...          |++++|+..++++.+..|+++.
T Consensus       151 ~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~  230 (261)
T 3qky_A          151 QYEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDSPL  230 (261)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTCTH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCChH
Confidence            456777888888888888888877 22333    34667777777765          8999999999999999999865


Q ss_pred             H---HHHHHHHHHhcCChHHH
Q 041384          538 N---YTLLSMVCSESGNWLGA  555 (580)
Q Consensus       538 ~---~~~l~~~~~~~g~~~~A  555 (580)
                      .   ...+..++...|+++++
T Consensus       231 ~~~a~~~l~~~~~~~~~~~~~  251 (261)
T 3qky_A          231 LRTAEELYTRARQRLTELEGD  251 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHHHhhhh
Confidence            3   44555555555555443

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.08  E-value=6.8e-08  Score=91.98  Aligned_cols=88  Identities=14%  Similarity=0.133  Sum_probs=40.8

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHhccCCHHHHHHHHHHHHHh---hCCCCCh-hHHHHHHHHhh
Q 041384          409 YGFHGYGEEALQLFLEMQESGVEPD---AITVLAILSACNHAGLVKEAETLFNNVMKE---KKIALAI-EHYACYVDLLG  481 (580)
Q Consensus       409 ~~~~~~~~~a~~~~~~~~~~g~~p~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~-~~~~~l~~~~~  481 (580)
                      +...|++++|...+++.......++   ...+..+...+...|++++|...+++++..   .+..++. ..+..+..++.
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            3444555555555544443211110   123344445555556666666555554331   1111122 24445555566


Q ss_pred             hcCChHHHHHHHHhC
Q 041384          482 KSGKIEDACKVVSTM  496 (580)
Q Consensus       482 ~~g~~~~A~~~~~~~  496 (580)
                      ..|+.++|...+++.
T Consensus       305 ~~g~~~~A~~~l~~a  319 (373)
T 1hz4_A          305 QAGRKSDAQRVLLDA  319 (373)
T ss_dssp             HHTCHHHHHHHHHHH
T ss_pred             HhCCHHHHHHHHHHH
Confidence            666666666665554

>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=99.07  E-value=1.3e-09  Score=111.44  Aligned_cols=162  Identities=16%  Similarity=0.117  Sum_probs=130.0

Q ss_pred             chhHHHHHHHHhHhcCCHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHH
Q 041384          367 DVSIGNALMNMYSKCGSITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILS  442 (580)
Q Consensus       367 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~  442 (580)
                      +...++.+..+|.+.|++++|.+.|++..+   .+...|..+..+|.+.|++++|++.|++..+.  .| +...|..+..
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l--~P~~~~a~~nLg~   85 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence            456677778888888888888888887664   34567888888888899999999999988885  56 4578888888


Q ss_pred             HHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHH
Q 041384          443 ACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEV  520 (580)
Q Consensus       443 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~  520 (580)
                      ++...|++++|++.|+++++-  .+-+...+..+..+|...|++++|++.|++. ...| +...+..+...+...|++++
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l--~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~~  163 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQI--NPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWTD  163 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCTT
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHHH
Confidence            899999999999999987762  1234677888999999999999999999887 3455 56788889999999999999


Q ss_pred             HHHHHHHHHhcC
Q 041384          521 AEMLAHQLIEAE  532 (580)
Q Consensus       521 A~~~~~~~~~~~  532 (580)
                      |.+.++++.+..
T Consensus       164 A~~~~~kal~l~  175 (723)
T 4gyw_A          164 YDERMKKLVSIV  175 (723)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC
Confidence            999888887654

>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=99.04  E-value=1.6e-09  Score=111.37  Aligned_cols=168  Identities=10%  Similarity=-0.054  Sum_probs=99.3

Q ss_pred             HhcCCHHHHHHHHhcCC--------C---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhc
Q 041384          379 SKCGSITSSHQIFNEMA--------A---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNH  446 (580)
Q Consensus       379 ~~~g~~~~A~~~~~~~~--------~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~  446 (580)
                      ...|++++|.+.+++..        +   .+...+..+...+...|++++|+..+++..+.  .| +...+..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAER--VGWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--HCCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhcc--CcchHHHHHHHHHHHHH
Confidence            44566666666665554        1   23445566666666666666666666666654  33 44556666666666


Q ss_pred             cCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHH
Q 041384          447 AGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEML  524 (580)
Q Consensus       447 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~  524 (580)
                      .|++++|...|+++++..  +.+...+..+..+|.+.|++++ ++.|++. ...| +...|..+..++.+.|++++|+..
T Consensus       480 ~g~~~~A~~~~~~al~l~--P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTF--PGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHS--TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            666666666666655421  2234556666666666666666 6666655 2223 455666666666666666666666


Q ss_pred             HHHHHhcCCCCchHHHHHHHHHHhcCC
Q 041384          525 AHQLIEAEPENAANYTLLSMVCSESGN  551 (580)
Q Consensus       525 ~~~~~~~~~~~~~~~~~l~~~~~~~g~  551 (580)
                      ++++.+.+|.+..++..++.++...|+
T Consensus       557 ~~~al~l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          557 LDEVPPTSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHTSCTTSTTHHHHHHHHHHHTC----
T ss_pred             HHhhcccCcccHHHHHHHHHHHHccCC
Confidence            666666666666666666666655443

>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=99.03  E-value=3.3e-10  Score=91.89  Aligned_cols=139  Identities=9%  Similarity=-0.005  Sum_probs=90.1

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChH
Q 041384          409 YGFHGYGEEALQLFLEMQESGVEPD-AITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIE  487 (580)
Q Consensus       409 ~~~~~~~~~a~~~~~~~~~~g~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  487 (580)
                      +...|++++|+..++.....  .|+ ...+..+...|...|++++|+..|+++++.  .+-+..+|..+..+|.+.|+++
T Consensus         7 ~~~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~~~~~   82 (150)
T 4ga2_A            7 RRSKADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINV--QERDPKAHRFLGLLYELEENTD   82 (150)
T ss_dssp             CCCHHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHcChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCchH
Confidence            33445666666666665442  332 234445666666777777777777765542  1223556666777777777777


Q ss_pred             HHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHH-HHHHHHhcCCCCchHHHHHHHHHHhcCC
Q 041384          488 DACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEM-LAHQLIEAEPENAANYTLLSMVCSESGN  551 (580)
Q Consensus       488 ~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~-~~~~~~~~~~~~~~~~~~l~~~~~~~g~  551 (580)
                      +|+..|++. ...| +...+..+...|.+.|++++|.+ .++++.+.+|.++.+|......+...|+
T Consensus        83 ~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           83 KAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCc
Confidence            777777665 2344 56677778888888888766554 4588888888888888888887777764

>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=99.02  E-value=1.2e-08  Score=80.87  Aligned_cols=132  Identities=17%  Similarity=0.167  Sum_probs=106.4

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHh
Q 041384          401 SWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLL  480 (580)
Q Consensus       401 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  480 (580)
                      .|..+...+...|++++|..+++++.+.+ +.+...+..+...+...|++++|..+++++++.  .+.+...+..++..+
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            46677788888889999999998888753 335677778888888899999999999986652  234566778888899


Q ss_pred             hhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 041384          481 GKSGKIEDACKVVSTMP--MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPEN  535 (580)
Q Consensus       481 ~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~  535 (580)
                      ...|++++|.+.++++.  .+.+...+..++..+...|++++|...++++.+..|.+
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~  136 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRS  136 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSTTC
T ss_pred             HHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccCCCC
Confidence            99999999999998872  34467788889999999999999999999999888753

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.02  E-value=8e-09  Score=94.11  Aligned_cols=176  Identities=9%  Similarity=-0.026  Sum_probs=139.4

Q ss_pred             HHHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 041384          384 ITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETLFNNVMK  462 (580)
Q Consensus       384 ~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  462 (580)
                      .+.....+......+...+..+...+...|++++|...|++..+.  .| +...+..+...+...|++++|...++++..
T Consensus       102 ~~~l~~~l~~~lp~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~  179 (287)
T 3qou_A          102 EEAIRALLDXVLPREEELXAQQAMQLMQESNYTDALPLLXDAWQL--SNQNGEIGLLLAETLIALNRSEDAEAVLXTIPL  179 (287)
T ss_dssp             HHHHHHHHHHHSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCG
T ss_pred             HHHHHHHHHHHcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCcchhHHHHHHHHHHHCCCHHHHHHHHHhCch
Confidence            344445555544445556677788888999999999999999885  55 567888889999999999999999998654


Q ss_pred             hhCCCCChhHHH-HHHHHhhhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC--ch
Q 041384          463 EKKIALAIEHYA-CYVDLLGKSGKIEDACKVVSTM-P-MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPEN--AA  537 (580)
Q Consensus       463 ~~~~~~~~~~~~-~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~--~~  537 (580)
                         ..|+..... .....+...++.++|+..+++. . .+.+...+..+...+...|++++|+..++++.+.+|.+  ..
T Consensus       180 ---~~p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~  256 (287)
T 3qou_A          180 ---QDQDTRYQGLVAQIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQ  256 (287)
T ss_dssp             ---GGCSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGH
T ss_pred             ---hhcchHHHHHHHHHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccch
Confidence               234433322 2233466778888888888877 2 34477889999999999999999999999999999987  88


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHh
Q 041384          538 NYTLLSMVCSESGNWLGAEEVWRVMRA  564 (580)
Q Consensus       538 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (580)
                      .+..++.++...|+.++|...+++...
T Consensus       257 a~~~l~~~~~~~g~~~~a~~~~r~al~  283 (287)
T 3qou_A          257 TRXTFQEILAALGTGDALASXYRRQLY  283 (287)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHH
Confidence            999999999999999999999887653

>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=99.00  E-value=3.7e-08  Score=85.11  Aligned_cols=162  Identities=11%  Similarity=-0.045  Sum_probs=128.2

Q ss_pred             CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccC----CHHHHHHHHHHHHHhhCCCCChhH
Q 041384          397 RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAG----LVKEAETLFNNVMKEKKIALAIEH  472 (580)
Q Consensus       397 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~  472 (580)
                      .++..+..+...|...+++++|+..|++..+.|   ++..+..+...|.. +    ++++|..+|++..+ .+   +...
T Consensus        16 g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~-~g---~~~a   87 (212)
T 3rjv_A           16 GDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVE-AG---SKSG   87 (212)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHH-TT---CHHH
T ss_pred             CCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHH-CC---CHHH
Confidence            355666777777777888888888888888764   56667777777777 6    89999999998654 32   4556


Q ss_pred             HHHHHHHhhh----cCChHHHHHHHHhCC-CCCC---HHHHHHHHHHHHh----cCCHHHHHHHHHHHHhcCCCCchHHH
Q 041384          473 YACYVDLLGK----SGKIEDACKVVSTMP-MKPS---TRILSSLVSACRI----HGRLEVAEMLAHQLIEAEPENAANYT  540 (580)
Q Consensus       473 ~~~l~~~~~~----~g~~~~A~~~~~~~~-~~p~---~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~  540 (580)
                      +..|...|..    .+++++|+++|++.. ..|+   +..+..|...|..    .++.++|+..++++.+. |.++..+.
T Consensus        88 ~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~-~~~~~a~~  166 (212)
T 3rjv_A           88 EIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL-SRTGYAEY  166 (212)
T ss_dssp             HHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT-SCTTHHHH
T ss_pred             HHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc-CCCHHHHH
Confidence            7778888876    789999999998884 3343   7788888888888    78999999999999988 66777899


Q ss_pred             HHHHHHHhc-C-----ChHHHHHHHHHHHhCCC
Q 041384          541 LLSMVCSES-G-----NWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       541 ~l~~~~~~~-g-----~~~~A~~~~~~~~~~~~  567 (580)
                      .|+..|... |     ++++|.+.+++..+.|.
T Consensus       167 ~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          167 WAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            999988764 3     89999999999888774

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.98  E-value=9.1e-09  Score=104.06  Aligned_cols=159  Identities=14%  Similarity=0.064  Sum_probs=118.9

Q ss_pred             cCCHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHH
Q 041384          381 CGSITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETL  456 (580)
Q Consensus       381 ~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~  456 (580)
                      .|++++|...+++..+   .+...+..+...+...|++++|.+.+++..+.  .| +...+..+...+...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLAL--HPGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--STTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            4788899999988775   24567888889999999999999999999885  45 567888888899999999999999


Q ss_pred             HHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCC-CCHHHHHHHHHHHHhc---CCHHHHHHHHHHHHhc
Q 041384          457 FNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMK-PSTRILSSLVSACRIH---GRLEVAEMLAHQLIEA  531 (580)
Q Consensus       457 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~---~~~~~A~~~~~~~~~~  531 (580)
                      ++++++.  .+.+...+..+..+|.+.|++++|.+.+++. ... .+...+..+...+...   |+.++|.+.++++.+.
T Consensus        80 ~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           80 LQQASDA--APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            9997763  2334677888999999999999999999887 233 4667888888899888   9999999999999999


Q ss_pred             CCCCchHHHHHH
Q 041384          532 EPENAANYTLLS  543 (580)
Q Consensus       532 ~~~~~~~~~~l~  543 (580)
                      +|.+...+..++
T Consensus       158 ~p~~~~~~~~l~  169 (568)
T 2vsy_A          158 GVGAVEPFAFLS  169 (568)
T ss_dssp             TCCCSCHHHHTT
T ss_pred             CCcccChHHHhC
Confidence            999888887776

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.98  E-value=1.1e-09  Score=88.89  Aligned_cols=125  Identities=9%  Similarity=-0.062  Sum_probs=103.6

Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHhhCCCCC-hhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcC
Q 041384          440 ILSACNHAGLVKEAETLFNNVMKEKKIALA-IEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHG  516 (580)
Q Consensus       440 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~  516 (580)
                      |...+...|++++|+..++....   ..|+ ...+..+...|.+.|++++|++.|++. ...| +...|..+...+.+.|
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~---~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~   79 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTP---SPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQERDPKAHRFLGLLYELEE   79 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSC---SHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             hHHHHHHcChHHHHHHHHHHhcc---cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcC
Confidence            45566778999999999998543   3333 445667899999999999999999988 3444 7789999999999999


Q ss_pred             CHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHH-HHHHHhCCC
Q 041384          517 RLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEV-WRVMRAKGL  567 (580)
Q Consensus       517 ~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~-~~~~~~~~~  567 (580)
                      ++++|+..++++.+.+|.++.++..++.+|.+.|++++|.+. +++..+..+
T Consensus        80 ~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P  131 (150)
T 4ga2_A           80 NTDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFP  131 (150)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHST
T ss_pred             chHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCc
Confidence            999999999999999999999999999999999999887765 588777554

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.98  E-value=1.6e-08  Score=90.32  Aligned_cols=182  Identities=12%  Similarity=0.026  Sum_probs=127.9

Q ss_pred             HHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCCC-----CcchHHHHHHHHHhcCChHHHHHHHHHHH
Q 041384          352 GLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAAR-----DFVSWTTLISGYGFHGYGEEALQLFLEMQ  426 (580)
Q Consensus       352 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  426 (580)
                      +...+++..+.+ .++...+..+..++...|++++|.+++.+....     +...+..++..+.+.|+.+.|.+.+++|.
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~  163 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYT  163 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            556666655544 444455557777888888888888888876443     33466777888899999999999999998


Q ss_pred             HcCCCC-----CHHHHHHHHHH--HhccC--CHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC
Q 041384          427 ESGVEP-----DAITVLAILSA--CNHAG--LVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP  497 (580)
Q Consensus       427 ~~g~~p-----~~~~~~~l~~~--~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  497 (580)
                      +.  .|     +..+...+..+  ....|  ++..|..+|+++..   ..|+..+...+..++.+.|++++|.+.++.+.
T Consensus       164 ~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~---~~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~  238 (310)
T 3mv2_B          164 NA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQ---TFPTWKTQLGLLNLHLQQRNIAEAQGIVELLL  238 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHT---TSCSHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHH---hCCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            74  66     35555556555  33334  89999999999543   23442233344448889999999999987652


Q ss_pred             -C-----------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHH
Q 041384          498 -M-----------KPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTL  541 (580)
Q Consensus       498 -~-----------~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  541 (580)
                       .           +.++.++..++......|+  +|.++++++.+..|+++.+...
T Consensus       239 ~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~hp~i~d~  292 (310)
T 3mv2_B          239 SDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHEHAFIKHH  292 (310)
T ss_dssp             SHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCCHHHHHH
T ss_pred             HhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCChHHHHH
Confidence             1           2355666566666666787  8899999999999999986543

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.96  E-value=9.8e-09  Score=85.90  Aligned_cols=158  Identities=14%  Similarity=0.051  Sum_probs=106.0

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHH-
Q 041384          402 WTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDL-  479 (580)
Q Consensus       402 ~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-  479 (580)
                      +..+...+...|++++|+..+++..+.  .| +...+..+...+...|++++|...++++++..   |+...+..+... 
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~---p~~~~~~~~~~~~   83 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDE--LQSRGDVKLAKADCLLETKQFELAQELLATIPLEY---QDNSYKSLIAKLE   83 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHH--HHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG---CCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc---CChHHHHHHHHHH
Confidence            334455566666666676666666553  34 44556666666677777777777777654322   222222222111 


Q ss_pred             hhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC--chHHHHHHHHHHhcCChHHH
Q 041384          480 LGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPEN--AANYTLLSMVCSESGNWLGA  555 (580)
Q Consensus       480 ~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A  555 (580)
                      +...+...+|+..+++. ...| +...+..+...+...|++++|+..++++.+.+|..  +..+..++.++...|+.++|
T Consensus        84 ~~~~~~~~~a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A  163 (176)
T 2r5s_A           84 LHQQAAESPELKRLEQELAANPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAI  163 (176)
T ss_dssp             HHHHHTSCHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHH
T ss_pred             HHhhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcH
Confidence            11222223456666665 2344 67888999999999999999999999999999874  66899999999999999999


Q ss_pred             HHHHHHHHh
Q 041384          556 EEVWRVMRA  564 (580)
Q Consensus       556 ~~~~~~~~~  564 (580)
                      ...+++...
T Consensus       164 ~~~y~~al~  172 (176)
T 2r5s_A          164 ASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999988754

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.95  E-value=4.1e-09  Score=84.89  Aligned_cols=98  Identities=12%  Similarity=0.070  Sum_probs=80.7

Q ss_pred             hhHHHHHHHHhhhcCChHHHHHHHHhC-CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHH
Q 041384          470 IEHYACYVDLLGKSGKIEDACKVVSTM-PMK-PSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCS  547 (580)
Q Consensus       470 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  547 (580)
                      ...+..+...+.+.|++++|+..|++. ... .++..|..+..+|...|++++|+..|+++.+.+|+++..|..++.+|.
T Consensus        36 ~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~lg~~~~  115 (151)
T 3gyz_A           36 MDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFHTGQCQL  115 (151)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHH
Confidence            445666777777788888888888777 233 467788888899999999999999999999999999999999999999


Q ss_pred             hcCChHHHHHHHHHHHhCCC
Q 041384          548 ESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       548 ~~g~~~~A~~~~~~~~~~~~  567 (580)
                      ..|++++|+..|++..+...
T Consensus       116 ~lg~~~eA~~~~~~al~l~~  135 (151)
T 3gyz_A          116 RLKAPLKAKECFELVIQHSN  135 (151)
T ss_dssp             HTTCHHHHHHHHHHHHHHCC
T ss_pred             HcCCHHHHHHHHHHHHHhCC
Confidence            99999999999998877653

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.92  E-value=1e-08  Score=80.02  Aligned_cols=108  Identities=11%  Similarity=-0.024  Sum_probs=57.4

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CC-CCCHHHHHHHHHHH
Q 041384          435 ITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PM-KPSTRILSSLVSAC  512 (580)
Q Consensus       435 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~  512 (580)
                      ..+......+.+.|++++|+..|+++++.  .+.+...|..+..+|.+.|++++|+..+++. .. +.+...|..+..++
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~   91 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKR--DPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAACL   91 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHHH
Confidence            44555555566666666666666665441  1223444555555555555555555555554 12 22344555555555


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCchHHHHHHH
Q 041384          513 RIHGRLEVAEMLAHQLIEAEPENAANYTLLSM  544 (580)
Q Consensus       513 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  544 (580)
                      ...|++++|+..++++++.+|.++.++..+..
T Consensus        92 ~~~~~~~~A~~~~~~al~l~P~~~~a~~~l~~  123 (126)
T 4gco_A           92 VAMREWSKAQRAYEDALQVDPSNEEAREGVRN  123 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHCcCCHHHHHHHHH
Confidence            55555555555555555555555555554443

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.92  E-value=3.9e-08  Score=85.23  Aligned_cols=129  Identities=16%  Similarity=-0.002  Sum_probs=90.6

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHh
Q 041384          401 SWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLL  480 (580)
Q Consensus       401 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  480 (580)
                      .+..+...+...|++++|+..+++..    .|+...+..+...+...|++++|...++++++.  .+.+...+..+..+|
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~lg~~~   81 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINR--DKHLAVAYFQRGMLY   81 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHH
Confidence            34556667777788888888777663    557777777777788888888888888876652  233456677777777


Q ss_pred             hhcCChHHHHHHHHhCC-CCC-CH----------------HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 041384          481 GKSGKIEDACKVVSTMP-MKP-ST----------------RILSSLVSACRIHGRLEVAEMLAHQLIEAEPEN  535 (580)
Q Consensus       481 ~~~g~~~~A~~~~~~~~-~~p-~~----------------~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~  535 (580)
                      ...|++++|+..|++.. ..| +.                ..+..+...+...|++++|...++++.+..|.+
T Consensus        82 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~  154 (213)
T 1hh8_A           82 YQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  154 (213)
T ss_dssp             HHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             HHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCccc
Confidence            77888888877777662 122 22                566777777777778888888888777777765

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.91  E-value=1.1e-06  Score=86.27  Aligned_cols=203  Identities=9%  Similarity=-0.039  Sum_probs=125.9

Q ss_pred             hHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHH-HHHHhc
Q 041384          315 SEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSS-HQIFNE  393 (580)
Q Consensus       315 ~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A-~~~~~~  393 (580)
                      +.+..+|+++.... +.+...|...+.-+...|+.+.|..+++.....  +.+...+..    |....+.++. ..+.+.
T Consensus       196 ~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~~----y~~~~e~~~~~~~l~~~  268 (493)
T 2uy1_A          196 SRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSLY----YGLVMDEEAVYGDLKRK  268 (493)
T ss_dssp             HHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHH----HHHHTTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHHH----HHhhcchhHHHHHHHHH
Confidence            34566777766543 344556666666667778888888888888877  334333322    2211111111 111211


Q ss_pred             CC------------CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc-cCCHHHHHHHHHHH
Q 041384          394 MA------------ARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNH-AGLVKEAETLFNNV  460 (580)
Q Consensus       394 ~~------------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~-~~~~~~a~~~~~~~  460 (580)
                      ..            ......|...+..+.+.++.+.|..+|++. .. ..++...|......-.. .++.+.|..+|+..
T Consensus       269 ~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~a  346 (493)
T 2uy1_A          269 YSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSG  346 (493)
T ss_dssp             TC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHH
T ss_pred             HHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHH
Confidence            10            001235666667776778899999999988 32 12233444322222112 33689999999998


Q ss_pred             HHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 041384          461 MKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIE  530 (580)
Q Consensus       461 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  530 (580)
                      ++..+-  +...+...++...+.|+.+.|..+|+++.  .....|...+.--...|+.+.+..++++..+
T Consensus       347 l~~~~~--~~~~~~~yid~e~~~~~~~~aR~l~er~~--k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          347 LLKHPD--STLLKEEFFLFLLRIGDEENARALFKRLE--KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHCTT--CHHHHHHHHHHHHHHTCHHHHHHHHHHSC--CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHH--HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            774432  34456667777788899999999999983  3567788888877888999999888888774

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.90  E-value=2e-08  Score=78.41  Aligned_cols=102  Identities=10%  Similarity=-0.010  Sum_probs=90.7

Q ss_pred             CCCC-hhHHHHHHHHhhhcCChHHHHHHHHhC-CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHH
Q 041384          466 IALA-IEHYACYVDLLGKSGKIEDACKVVSTM-PM-KPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLL  542 (580)
Q Consensus       466 ~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l  542 (580)
                      +.|+ ...+......|.+.|++++|++.|++. .. +.+...|..+..++.+.|++++|+..++++++.+|.++.+|..+
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l   87 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRK   87 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHH
Confidence            4444 456777889999999999999999987 33 44788999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          543 SMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       543 ~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      +.+|...|++++|++.|++..+..+
T Consensus        88 g~~~~~~~~~~~A~~~~~~al~l~P  112 (126)
T 4gco_A           88 AACLVAMREWSKAQRAYEDALQVDP  112 (126)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHCc
Confidence            9999999999999999999988654

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.88  E-value=4.1e-08  Score=90.46  Aligned_cols=219  Identities=11%  Similarity=-0.005  Sum_probs=143.5

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhc-cCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHH
Q 041384          311 SGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTR-QSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQ  389 (580)
Q Consensus       311 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  389 (580)
                      .|++++|..++++..+..- ..          +.. .++++.|...|...               ...|...|++++|..
T Consensus         4 ~~~~~eA~~~~~~a~k~~~-~~----------~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~   57 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLK-TS----------FMKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKD   57 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-CC----------SSSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHcc-cc----------ccCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHH
Confidence            3566777777776654311 10          111 45666666665543               345666677777777


Q ss_pred             HHhcCCCC-----C----cchHHHHHHHHHhcCChHHHHHHHHHHHHcCC---CCC--HHHHHHHHHHHhccCCHHHHHH
Q 041384          390 IFNEMAAR-----D----FVSWTTLISGYGFHGYGEEALQLFLEMQESGV---EPD--AITVLAILSACNHAGLVKEAET  455 (580)
Q Consensus       390 ~~~~~~~~-----~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~---~p~--~~~~~~l~~~~~~~~~~~~a~~  455 (580)
                      .|.+..+-     +    ..+|+.+...|...|++++|+..+++..+.-.   .|.  ..++..+...|.. |++++|+.
T Consensus        58 ~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~  136 (307)
T 2ifu_A           58 AYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVH  136 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHH
Confidence            66655431     1    23677778888888899999888888765311   121  2567777788888 99999999


Q ss_pred             HHHHHHHhhCCC---C-ChhHHHHHHHHhhhcCChHHHHHHHHhCC-C---CCC----HHHHHHHHHHHHhcCCHHHHHH
Q 041384          456 LFNNVMKEKKIA---L-AIEHYACYVDLLGKSGKIEDACKVVSTMP-M---KPS----TRILSSLVSACRIHGRLEVAEM  523 (580)
Q Consensus       456 ~~~~~~~~~~~~---~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~---~p~----~~~~~~l~~~~~~~~~~~~A~~  523 (580)
                      .|+++++-..-.   + ...++..+...|.+.|++++|+..|++.. .   .++    ...+..++..+...|++++|..
T Consensus       137 ~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~  216 (307)
T 2ifu_A          137 LYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQK  216 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            999876532111   1 14567888899999999999999998772 1   111    2256666677778899999999


Q ss_pred             HHHHHHhcCCCCch-----HHHHHHHHHHhcCChHHHHHH
Q 041384          524 LAHQLIEAEPENAA-----NYTLLSMVCSESGNWLGAEEV  558 (580)
Q Consensus       524 ~~~~~~~~~~~~~~-----~~~~l~~~~~~~g~~~~A~~~  558 (580)
                      .++++. ..|....     ....++.++ ..|+.+.+.++
T Consensus       217 ~~~~al-~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~~  254 (307)
T 2ifu_A          217 CVRESY-SIPGFSGSEDCAALEDLLQAY-DEQDEEQLLRV  254 (307)
T ss_dssp             HHHHHT-TSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHHH
T ss_pred             HHHHHh-CCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHHH
Confidence            999999 8876433     244455555 56777666653

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.88  E-value=1.4e-08  Score=93.59  Aligned_cols=197  Identities=9%  Similarity=-0.044  Sum_probs=149.4

Q ss_pred             ccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHH
Q 041384          345 RQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLE  424 (580)
Q Consensus       345 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  424 (580)
                      ..|++++|.+++++..+.... .         .+...++++.|...|.+           ....|...|++++|...+.+
T Consensus         3 ~~~~~~eA~~~~~~a~k~~~~-~---------~~~~~~~~~~A~~~~~~-----------a~~~~~~~g~~~~A~~~~~~   61 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYLKT-S---------FMKWKPDYDSAASEYAK-----------AAVAFKNAKQLEQAKDAYLQ   61 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCC-C---------SSSCSCCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHccc-c---------ccCCCCCHHHHHHHHHH-----------HHHHHHHcCCHHHHHHHHHH
Confidence            357788899988887764221 1         12225788999888765           46678889999999999988


Q ss_pred             HHHc----CCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHHHHhh---CCCC-ChhHHHHHHHHhhhcCChHHHHHHHHh
Q 041384          425 MQES----GVEPD-AITVLAILSACNHAGLVKEAETLFNNVMKEK---KIAL-AIEHYACYVDLLGKSGKIEDACKVVST  495 (580)
Q Consensus       425 ~~~~----g~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~  495 (580)
                      ..+.    |-.+. ..+|..+...|...|++++|+..+++.++-.   +... ...++..+...|.. |++++|+..+++
T Consensus        62 al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~  140 (307)
T 2ifu_A           62 EAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQ  140 (307)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHH
Confidence            7653    11111 3578888889999999999999999876532   1111 24577888999988 999999999988


Q ss_pred             CC-CCC-------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCc------hHHHHHHHHHHhcCChHHHHHHHHH
Q 041384          496 MP-MKP-------STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENA------ANYTLLSMVCSESGNWLGAEEVWRV  561 (580)
Q Consensus       496 ~~-~~p-------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~------~~~~~l~~~~~~~g~~~~A~~~~~~  561 (580)
                      .. ..|       ...++..+...+.+.|++++|+..++++.+..|.+.      ..+..++.++...|++++|...+++
T Consensus       141 Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~  220 (307)
T 2ifu_A          141 AAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRE  220 (307)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            72 111       145788899999999999999999999998765432      3577788888889999999999999


Q ss_pred             HH
Q 041384          562 MR  563 (580)
Q Consensus       562 ~~  563 (580)
                      ..
T Consensus       221 al  222 (307)
T 2ifu_A          221 SY  222 (307)
T ss_dssp             HT
T ss_pred             Hh
Confidence            87

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.87  E-value=1.1e-07  Score=86.99  Aligned_cols=162  Identities=6%  Similarity=-0.029  Sum_probs=116.9

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH------HHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCC----hh
Q 041384          402 WTTLISGYGFHGYGEEALQLFLEMQESGVEPDA------ITVLAILSACNHAGLVKEAETLFNNVMKEKKIALA----IE  471 (580)
Q Consensus       402 ~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~  471 (580)
                      +...+..+...|++++|.+.+++..+.... ..      ..+..+...+...|++++|...++++++......+    ..
T Consensus        78 l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  156 (293)
T 2qfc_A           78 FKDQVIMLCKQKRYKEIYNKVWNELKKEEY-HPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCC-CHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhccccC-ChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHH
Confidence            344566777888888888888877764211 22      12334555667788999999998887642211112    44


Q ss_pred             HHHHHHHHhhhcCChHHHHHHHHhCC----CCCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC------Cc
Q 041384          472 HYACYVDLLGKSGKIEDACKVVSTMP----MKPS-----TRILSSLVSACRIHGRLEVAEMLAHQLIEAEPE------NA  536 (580)
Q Consensus       472 ~~~~l~~~~~~~g~~~~A~~~~~~~~----~~p~-----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~------~~  536 (580)
                      +++.+...|...|++++|+..+++..    ..|+     ..++..+...|...|++++|+..++++.+..+.      -+
T Consensus       157 ~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~  236 (293)
T 2qfc_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIG  236 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            77888888999999999988887762    1222     257888899999999999999999998876422      26


Q ss_pred             hHHHHHHHHHHhcCChHHH-HHHHHHHHh
Q 041384          537 ANYTLLSMVCSESGNWLGA-EEVWRVMRA  564 (580)
Q Consensus       537 ~~~~~l~~~~~~~g~~~~A-~~~~~~~~~  564 (580)
                      .+|..++.+|...|++++| ...+++...
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            6789999999999999999 777877643

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.87  E-value=9.3e-09  Score=105.80  Aligned_cols=152  Identities=11%  Similarity=0.024  Sum_probs=133.3

Q ss_pred             HhcCChHHHHHHHHHHH--------HcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHh
Q 041384          410 GFHGYGEEALQLFLEMQ--------ESGVEP-DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLL  480 (580)
Q Consensus       410 ~~~~~~~~a~~~~~~~~--------~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  480 (580)
                      ...|++++|++.+++..        +  ..| +...+..+..++...|++++|...++++++..  +.+...+..+..+|
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~--~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~  477 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGV--DFSESVELPLMEVRALLDLGDVAKATRKLDDLAERV--GWRWRLVWYRAVAE  477 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC---------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH--CCCHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccc--ccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC--cchHHHHHHHHHHH
Confidence            77899999999999998        4  345 55788888999999999999999999987632  33567888999999


Q ss_pred             hhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHH
Q 041384          481 GKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEV  558 (580)
Q Consensus       481 ~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  558 (580)
                      ...|++++|++.|++. ...| +...+..+..++.+.|++++ +..++++.+.+|.++.++..++.++.+.|++++|++.
T Consensus       478 ~~~g~~~~A~~~~~~al~l~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          478 LLTGDYDSATKHFTEVLDTFPGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HHHTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            9999999999999998 3444 67889999999999999999 9999999999999999999999999999999999999


Q ss_pred             HHHHHhCC
Q 041384          559 WRVMRAKG  566 (580)
Q Consensus       559 ~~~~~~~~  566 (580)
                      +++..+.+
T Consensus       557 ~~~al~l~  564 (681)
T 2pzi_A          557 LDEVPPTS  564 (681)
T ss_dssp             HHTSCTTS
T ss_pred             HHhhcccC
Confidence            99866544

>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=98.87  E-value=3.7e-07  Score=83.44  Aligned_cols=160  Identities=6%  Similarity=0.000  Sum_probs=118.2

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcC-CCCCHH----HHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCC----hhHHHH
Q 041384          405 LISGYGFHGYGEEALQLFLEMQESG-VEPDAI----TVLAILSACNHAGLVKEAETLFNNVMKEKKIALA----IEHYAC  475 (580)
Q Consensus       405 l~~~~~~~~~~~~a~~~~~~~~~~g-~~p~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~  475 (580)
                      .+..+...|++++|...+++..+.. ..|+..    .+..+...+...|++++|...++++++...-.++    ..+++.
T Consensus        81 ~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~  160 (293)
T 3u3w_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENA  160 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHH
Confidence            4566778888888888888887642 112211    2334566677788999999999987762222223    336888


Q ss_pred             HHHHhhhcCChHHHHHHHHhCC-----C---CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC------CchHHH
Q 041384          476 YVDLLGKSGKIEDACKVVSTMP-----M---KP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPE------NAANYT  540 (580)
Q Consensus       476 l~~~~~~~g~~~~A~~~~~~~~-----~---~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~------~~~~~~  540 (580)
                      +...|...|++++|+..++++.     .   .+ ...++..+...|.+.|++++|+..++++.+..+.      -+.+|.
T Consensus       161 lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~  240 (293)
T 3u3w_A          161 IANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYY  240 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence            8889999999999988888762     1   11 1247788999999999999999999999876533      267899


Q ss_pred             HHHHHHHhcCC-hHHHHHHHHHHHh
Q 041384          541 LLSMVCSESGN-WLGAEEVWRVMRA  564 (580)
Q Consensus       541 ~l~~~~~~~g~-~~~A~~~~~~~~~  564 (580)
                      .++.+|.+.|+ +++|.+.+++...
T Consensus       241 ~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          241 QRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            99999999995 6999999988754

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.86  E-value=5.4e-08  Score=83.83  Aligned_cols=160  Identities=12%  Similarity=0.038  Sum_probs=108.9

Q ss_pred             HHHHHHHhHhcCCHHHHHHHHhcCCCC---CcchHHH----------------HHHHHHhcCChHHHHHHHHHHHHcCCC
Q 041384          371 GNALMNMYSKCGSITSSHQIFNEMAAR---DFVSWTT----------------LISGYGFHGYGEEALQLFLEMQESGVE  431 (580)
Q Consensus       371 ~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~----------------l~~~~~~~~~~~~a~~~~~~~~~~g~~  431 (580)
                      +......+...|++++|...|++..+.   +...|..                +..+|...|++++|+..|++..+.  .
T Consensus         7 ~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~   84 (208)
T 3urz_A            7 MLQKVSAAIEAGQNGQAVSYFRQTIALNIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQK--A   84 (208)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--C
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--C
Confidence            334455667888888888888887653   3345555                777888888888888888888875  4


Q ss_pred             C-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCC--hHHHHHHHHhCCCCCCH--HHHH
Q 041384          432 P-DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGK--IEDACKVVSTMPMKPST--RILS  506 (580)
Q Consensus       432 p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~--~~~A~~~~~~~~~~p~~--~~~~  506 (580)
                      | +...+..+...+...|++++|...|+++++.  .+.+...+..+...|...|+  .+.+...++... .|++  ..+.
T Consensus        85 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~a~~  161 (208)
T 3urz_A           85 PNNVDCLEACAEMQVCRGQEKDALRMYEKILQL--EADNLAANIFLGNYYYLTAEQEKKKLETDYKKLS-SPTKMQYARY  161 (208)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC----CCCHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHh-CCCchhHHHH
Confidence            5 5577777888888888888888888887652  22345667777777765553  344555666553 3333  2344


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 041384          507 SLVSACRIHGRLEVAEMLAHQLIEAEPEN  535 (580)
Q Consensus       507 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~  535 (580)
                      ....++...|++++|+..|+++++..|.+
T Consensus       162 ~~g~~~~~~~~~~~A~~~~~~al~l~P~~  190 (208)
T 3urz_A          162 RDGLSKLFTTRYEKARNSLQKVILRFPST  190 (208)
T ss_dssp             HHHHHHHHHHTHHHHHHHHHHHTTTSCCH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHhCCCH
Confidence            45556667788888888888888888763

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.85  E-value=4.7e-08  Score=98.84  Aligned_cols=151  Identities=15%  Similarity=0.005  Sum_probs=94.8

Q ss_pred             CChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHH
Q 041384          413 GYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACK  491 (580)
Q Consensus       413 ~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  491 (580)
                      |++++|+..+++..+.  .| +...+..+...+...|++++|...++++++  -.+.+...+..+..+|...|++++|.+
T Consensus         3 g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~lg~~~~~~g~~~~A~~   78 (568)
T 2vsy_A            3 ADGPRELLQLRAAVRH--RPQDFVAWLMLADAELGMGDTTAGEMAVQRGLA--LHPGHPEAVARLGRVRWTQQRHAEAAV   78 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHT--TSTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             ccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            5667777777777664  34 456677777777777777777777777654  122335667777777777777777777


Q ss_pred             HHHhC-CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhc---CChHHHHHHHHHHHhCC
Q 041384          492 VVSTM-PM-KPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSES---GNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       492 ~~~~~-~~-~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~~~A~~~~~~~~~~~  566 (580)
                      .+++. .. +.+...+..+...+.+.|++++|.+.++++.+.+|.++..+..++.++...   |++++|.+.+++..+.+
T Consensus        79 ~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A           79 LLQQASDAAPEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            77776 22 335567777777777777777777777777777777777777777777777   77777777777776654


Q ss_pred             C
Q 041384          567 L  567 (580)
Q Consensus       567 ~  567 (580)
                      .
T Consensus       159 p  159 (568)
T 2vsy_A          159 V  159 (568)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=98.83  E-value=1.2e-08  Score=82.22  Aligned_cols=94  Identities=14%  Similarity=0.002  Sum_probs=51.8

Q ss_pred             HHHHHHHHhhhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhc
Q 041384          472 HYACYVDLLGKSGKIEDACKVVSTM-P-MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSES  549 (580)
Q Consensus       472 ~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~  549 (580)
                      .+..+...+.+.|++++|+..|++. . .+.+...|..+..++...|++++|+..++++.+.+|.++..+..++.+|...
T Consensus        23 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~  102 (148)
T 2vgx_A           23 QLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHAAECLLQX  102 (148)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHc
Confidence            3444445555555555555555544 1 2224455555555555556666666666666666666666566666666666


Q ss_pred             CChHHHHHHHHHHHhC
Q 041384          550 GNWLGAEEVWRVMRAK  565 (580)
Q Consensus       550 g~~~~A~~~~~~~~~~  565 (580)
                      |++++|.+.|++..+.
T Consensus       103 g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A          103 GELAEAESGLFLAQEL  118 (148)
T ss_dssp             TCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHH
Confidence            6666666665555443

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.83  E-value=8.1e-08  Score=82.71  Aligned_cols=159  Identities=9%  Similarity=-0.003  Sum_probs=106.1

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHH----------------HHHHHhccCCHHHHHHHHHHHHHhhCC
Q 041384          404 TLISGYGFHGYGEEALQLFLEMQESGVEPD-AITVLA----------------ILSACNHAGLVKEAETLFNNVMKEKKI  466 (580)
Q Consensus       404 ~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~-~~~~~~----------------l~~~~~~~~~~~~a~~~~~~~~~~~~~  466 (580)
                      .....+...|++++|+..|++..+.  .|+ ...+..                +..++...|++++|...|+++++.  .
T Consensus         9 ~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~   84 (208)
T 3urz_A            9 QKVSAAIEAGQNGQAVSYFRQTIAL--NIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQK--A   84 (208)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--C
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--C
Confidence            3445566778888888888888774  453 345555                777788888888888888887652  2


Q ss_pred             CCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCC--HHHHHHHHHHHHhcCCCCchHHHHH
Q 041384          467 ALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGR--LEVAEMLAHQLIEAEPENAANYTLL  542 (580)
Q Consensus       467 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~--~~~A~~~~~~~~~~~~~~~~~~~~l  542 (580)
                      +.+...+..+..+|...|++++|+..|++. ...| +...+..+...|...|+  .+.+...++++....| ....+..+
T Consensus        85 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~a~~~~  163 (208)
T 3urz_A           85 PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSSPTK-MQYARYRD  163 (208)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---CCCH-HHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhCCCc-hhHHHHHH
Confidence            334667778888888888888888888877 2334 56677777777765543  3445555555543222 22245566


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          543 SMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       543 ~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      +.++...|++++|+..|++.++..+
T Consensus       164 g~~~~~~~~~~~A~~~~~~al~l~P  188 (208)
T 3urz_A          164 GLSKLFTTRYEKARNSLQKVILRFP  188 (208)
T ss_dssp             HHHHHHHHTHHHHHHHHHHHTTTSC
T ss_pred             HHHHHHccCHHHHHHHHHHHHHhCC
Confidence            7777778888888888888776554

>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=98.82  E-value=9.7e-08  Score=78.82  Aligned_cols=128  Identities=8%  Similarity=-0.082  Sum_probs=98.8

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHH
Q 041384          435 ITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP--MKPSTRILSSLVSAC  512 (580)
Q Consensus       435 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~  512 (580)
                      ..+..+...+...|++++|...++++++.  .+.+...+..+..++...|++++|...+++..  .+.+...+..+...+
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~   91 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASN   91 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            34555666677778888888888876652  23346667777778888888888888887762  334677888899999


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHH--HHhcCChHHHHHHHHHHHh
Q 041384          513 RIHGRLEVAEMLAHQLIEAEPENAANYTLLSMV--CSESGNWLGAEEVWRVMRA  564 (580)
Q Consensus       513 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~A~~~~~~~~~  564 (580)
                      ...|++++|...++++.+..|.+...+..+..+  +...|++++|.+.+++...
T Consensus        92 ~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           92 MALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            999999999999999999999998888555554  8888999999999887644

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.80  E-value=2.9e-07  Score=83.75  Aligned_cols=163  Identities=11%  Similarity=0.055  Sum_probs=114.6

Q ss_pred             CCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCCC--CcchH-HHHH
Q 041384          330 EPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAAR--DFVSW-TTLI  406 (580)
Q Consensus       330 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~-~~l~  406 (580)
                      +.+...+..+...+...|++++|...++...+.. +-+...+..+...+...|++++|...++++...  +.... ....
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~~~~  192 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQDTRYQGLVAQ  192 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCSHHHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhcchHHHHHHHH
Confidence            3344556667777778888888888888887765 345667778888888888889988888888763  32221 1222


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCC
Q 041384          407 SGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGK  485 (580)
Q Consensus       407 ~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  485 (580)
                      ..+...++.++|+..+++..+.  .| +...+..+...+...|++++|...+.++++...-..+...+..++..|...|+
T Consensus       193 ~~l~~~~~~~~a~~~l~~al~~--~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~  270 (287)
T 3qou_A          193 IELLXQAADTPEIQQLQQQVAE--NPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGT  270 (287)
T ss_dssp             HHHHHHHTSCHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCT
T ss_pred             HHHHhhcccCccHHHHHHHHhc--CCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCC
Confidence            3355667777788888888775  44 55777788888888888888888888877643323335667777777777777


Q ss_pred             hHHHHHHHHh
Q 041384          486 IEDACKVVST  495 (580)
Q Consensus       486 ~~~A~~~~~~  495 (580)
                      .++|...+++
T Consensus       271 ~~~a~~~~r~  280 (287)
T 3qou_A          271 GDALASXYRR  280 (287)
T ss_dssp             TCHHHHHHHH
T ss_pred             CCcHHHHHHH
Confidence            7777766654

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.80  E-value=1.3e-06  Score=79.10  Aligned_cols=230  Identities=8%  Similarity=-0.017  Sum_probs=119.0

Q ss_pred             HhCCC-hhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccC--ChHHHHHHHHHHHHhCCCCchhHHHHHHHHh----Hhc
Q 041384          309 SQSGD-LSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQS--FLSHGLGVHCYIMKAGLNFDVSIGNALMNMY----SKC  381 (580)
Q Consensus       309 ~~~~~-~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~  381 (580)
                      .+.|. .++|+.++..+...+ +-+...++.--..+...+  +++++++.++.+.... +-+..+|+.-...+    ...
T Consensus        43 ~~~~e~s~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l  120 (306)
T 3dra_A           43 MKAEEYSERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELN  120 (306)
T ss_dssp             HHTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHT
T ss_pred             HHcCCCCHHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhc
Confidence            34444 457888888887663 223344555555555666  7777777777777654 22333444333333    333


Q ss_pred             ---CCHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChH--HHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCC----
Q 041384          382 ---GSITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGE--EALQLFLEMQESGVEPDAITVLAILSACNHAGL----  449 (580)
Q Consensus       382 ---g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~----  449 (580)
                         ++++++..+++.+.+   +|..+|+.-.-.+.+.|.++  ++++.++++.+.. .-|...++.-...+...+.    
T Consensus       121 ~~~~~~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~~~~  199 (306)
T 3dra_A          121 NNDFDPYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHLATD  199 (306)
T ss_dssp             TTCCCTHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGGCCH
T ss_pred             cccCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccchh
Confidence               556666666665554   23345555555555555555  6666666666542 2244555544444444444    


Q ss_pred             --HHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHH-HHHHHHhCC-C----CCCHHHHHHHHHHHHhcCCHHHH
Q 041384          450 --VKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIED-ACKVVSTMP-M----KPSTRILSSLVSACRIHGRLEVA  521 (580)
Q Consensus       450 --~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~-~----~p~~~~~~~l~~~~~~~~~~~~A  521 (580)
                        ++++++.+++++.  -.+-+...|+.+...+.+.|+..+ +..+..+.. .    ..++..+..++..+.+.|+.++|
T Consensus       200 ~~~~eEl~~~~~aI~--~~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A  277 (306)
T 3dra_A          200 NTIDEELNYVKDKIV--KCPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNES  277 (306)
T ss_dssp             HHHHHHHHHHHHHHH--HCSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHH
T ss_pred             hhHHHHHHHHHHHHH--hCCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHH
Confidence              5555555555443  122334445555555555554322 333444431 1    22444555555555555555555


Q ss_pred             HHHHHHHHh-cCCCCchHHHHHH
Q 041384          522 EMLAHQLIE-AEPENAANYTLLS  543 (580)
Q Consensus       522 ~~~~~~~~~-~~~~~~~~~~~l~  543 (580)
                      +++++.+.+ .+|.....|...+
T Consensus       278 ~~~~~~l~~~~Dpir~~yW~~~~  300 (306)
T 3dra_A          278 RTVYDLLKSKYNPIRSNFWDYQI  300 (306)
T ss_dssp             HHHHHHHHHTTCGGGHHHHHHHH
T ss_pred             HHHHHHHHhccChHHHHHHHHHH
Confidence            555555554 4555555444433

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.80  E-value=1.3e-07  Score=82.67  Aligned_cols=187  Identities=9%  Similarity=-0.040  Sum_probs=104.8

Q ss_pred             HHHHHHHHHhhccCChHHHHHHHHHHHHhCCCC--chhHHHHHHHHhHhcCCHHHHHHHHhcCCC--CC-cc---hHHHH
Q 041384          334 VTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNF--DVSIGNALMNMYSKCGSITSSHQIFNEMAA--RD-FV---SWTTL  405 (580)
Q Consensus       334 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~-~~---~~~~l  405 (580)
                      ..+..+...+...|++++|...|+.+.+.....  ....+..+..+|.+.|++++|...|+++.+  |+ ..   .+..+
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            344455556666777777777777777643221  134555566666667777777776666554  22 11   23333


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCCh---------------
Q 041384          406 ISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAI---------------  470 (580)
Q Consensus       406 ~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---------------  470 (580)
                      ..++...+..     .+            ..|..+...+...|++++|...|+++++...-.+..               
T Consensus        85 g~~~~~~~~~-----~~------------~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~~~~a~~a~~~l~~~~~~~~  147 (225)
T 2yhc_A           85 GLTNMALDDS-----AL------------QGFFGVDRSDRDPQQARAAFSDFSKLVRGYPNSQYTTDATKRLVFLKDRLA  147 (225)
T ss_dssp             HHHHHHHHC-------------------------------CCHHHHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhhh-----hh------------hhhhccchhhcCcHHHHHHHHHHHHHHHHCcCChhHHHHHHHHHHHHHHHH
Confidence            3333321100     00            000001111122344555555555543311111110               


Q ss_pred             hHHHHHHHHhhhcCChHHHHHHHHhCC-CCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCch
Q 041384          471 EHYACYVDLLGKSGKIEDACKVVSTMP-MKPST----RILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAA  537 (580)
Q Consensus       471 ~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~~----~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~  537 (580)
                      .....+...|.+.|++++|+..|+++. ..|+.    ..+..+..++.+.|+.++|+..++.+....|.+..
T Consensus       148 ~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~~~~  219 (225)
T 2yhc_A          148 KYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSNTLE  219 (225)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSCCCC
T ss_pred             HHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCchh
Confidence            011346677889999999999999872 33432    46888899999999999999999999988887654

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.77  E-value=5.4e-06  Score=74.96  Aligned_cols=213  Identities=10%  Similarity=0.066  Sum_probs=166.0

Q ss_pred             ChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcC--CHHHHHHHHhcCCCC---CcchHHHHHHHH----Hhc---CCh
Q 041384          348 FLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCG--SITSSHQIFNEMAAR---DFVSWTTLISGY----GFH---GYG  415 (580)
Q Consensus       348 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~---~~~~~~~l~~~~----~~~---~~~  415 (580)
                      ..++|+...+.+.... +-+..+|+.--.++...|  +++++++.++.+...   +..+|+.-...+    ...   +++
T Consensus        48 ~s~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk~y~aW~~R~~iL~~~~~~l~~~~~~  126 (306)
T 3dra_A           48 YSERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEKNYQIWNYRQLIIGQIMELNNNDFDP  126 (306)
T ss_dssp             CSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHTTTCCCT
T ss_pred             CCHHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHhccccCCH
Confidence            3457888888888765 345566777777777778  999999999988763   445666655555    455   789


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHH--HHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCC------hH
Q 041384          416 EEALQLFLEMQESGVEPDAITVLAILSACNHAGLVK--EAETLFNNVMKEKKIALAIEHYACYVDLLGKSGK------IE  487 (580)
Q Consensus       416 ~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~------~~  487 (580)
                      ++++.+++++.+.. +-|..++..-...+...|.++  ++++.++++++.  .+-+...|+.-...+.+.|+      ++
T Consensus       127 ~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~--d~~N~sAW~~R~~ll~~l~~~~~~~~~~  203 (306)
T 3dra_A          127 YREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDT--DLKNNSAWSHRFFLLFSKKHLATDNTID  203 (306)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHSSGGGCCHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccccchhhhHH
Confidence            99999999999862 336778877777777788888  999999998763  33456677776666777776      89


Q ss_pred             HHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCH-HHHHHHHHHHHhcC---CCCchHHHHHHHHHHhcCChHHHHHHHHH
Q 041384          488 DACKVVSTM-P-MKPSTRILSSLVSACRIHGRL-EVAEMLAHQLIEAE---PENAANYTLLSMVCSESGNWLGAEEVWRV  561 (580)
Q Consensus       488 ~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~~~~-~~A~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  561 (580)
                      ++++.++++ . .+-|...|+.+...+.+.|+. +.+..+.+++.+.+   |.++.++..++.+|.+.|+.++|.++++.
T Consensus       204 eEl~~~~~aI~~~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~  283 (306)
T 3dra_A          204 EELNYVKDKIVKCPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDL  283 (306)
T ss_dssp             HHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHH
Confidence            999998887 3 345888999998888888874 44667888877766   88999999999999999999999999999


Q ss_pred             HHh
Q 041384          562 MRA  564 (580)
Q Consensus       562 ~~~  564 (580)
                      +.+
T Consensus       284 l~~  286 (306)
T 3dra_A          284 LKS  286 (306)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            876

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.76  E-value=2.6e-07  Score=79.97  Aligned_cols=131  Identities=10%  Similarity=-0.065  Sum_probs=100.0

Q ss_pred             HHHHHHHhHhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCH
Q 041384          371 GNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLV  450 (580)
Q Consensus       371 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~  450 (580)
                      +..+...+...|++++|...|++...++...+..+...+...|++++|+..+++..+.. +.+...+..+..++...|++
T Consensus         9 ~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~   87 (213)
T 1hh8_A            9 LWNEGVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKY   87 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHcCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcccH
Confidence            45566677788888888888888887777888888888888888888888888888753 33567788888888888888


Q ss_pred             HHHHHHHHHHHHhhCCCC--------------ChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCCCH
Q 041384          451 KEAETLFNNVMKEKKIAL--------------AIEHYACYVDLLGKSGKIEDACKVVSTM-PMKPST  502 (580)
Q Consensus       451 ~~a~~~~~~~~~~~~~~~--------------~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~  502 (580)
                      ++|...|+++++...-.+              ....+..+..+|...|++++|...|++. ...|+.
T Consensus        88 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~  154 (213)
T 1hh8_A           88 DLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  154 (213)
T ss_dssp             HHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             HHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCccc
Confidence            888888888765222111              1266778888888888888888888877 455654

>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=98.74  E-value=1.4e-07  Score=87.91  Aligned_cols=128  Identities=14%  Similarity=0.035  Sum_probs=95.0

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCC-------------ChhHHHHHHHHhhhcCChHHHHHHHHhC-C-CCC
Q 041384          436 TVLAILSACNHAGLVKEAETLFNNVMKEKKIAL-------------AIEHYACYVDLLGKSGKIEDACKVVSTM-P-MKP  500 (580)
Q Consensus       436 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-------------~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p  500 (580)
                      .+..+...+...|++++|...|+++++.....+             ....+..+..+|.+.|++++|+..+++. . .+.
T Consensus       149 ~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~  228 (336)
T 1p5q_A          149 IVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELDSN  228 (336)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            344444445555555555555555443111110             0356778888888888888888888877 2 334


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHH-HHHHHHHH
Q 041384          501 STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGA-EEVWRVMR  563 (580)
Q Consensus       501 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A-~~~~~~~~  563 (580)
                      +...+..+..+|...|++++|+..|+++++.+|.++.++..++.++...|++++| ...+++|.
T Consensus       229 ~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          229 NEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7788999999999999999999999999999999999999999999999999998 44566654

>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=98.74  E-value=3.8e-08  Score=82.41  Aligned_cols=127  Identities=9%  Similarity=0.078  Sum_probs=81.8

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHH-hhhcCCh-
Q 041384          409 YGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDL-LGKSGKI-  486 (580)
Q Consensus       409 ~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~-  486 (580)
                      +...|++++|+..+++..+.. +.+...+..+...+...|++++|...|+++++..  +.+...+..+..+ +...|++ 
T Consensus        20 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~l~~~~~~~~   96 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR--GENAELYAALATVLYYQASQHM   96 (177)
T ss_dssp             CC-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--CSCHHHHHHHHHHHHHHTTTCC
T ss_pred             hhhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhcCCcc
Confidence            345567777777777777652 3355677777777777888888888888766532  2245556666666 6667776 


Q ss_pred             -HHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchH
Q 041384          487 -EDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAAN  538 (580)
Q Consensus       487 -~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~  538 (580)
                       ++|...+++. ...| +...+..+...+...|++++|...++++.+..|.++..
T Consensus        97 ~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~  151 (177)
T 2e2e_A           97 TAQTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNSPRINR  151 (177)
T ss_dssp             CHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTSCH
T ss_pred             hHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCCccH
Confidence             7777777766 2233 45666677777777777777777777777777776553

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.74  E-value=9.9e-06  Score=79.40  Aligned_cols=202  Identities=10%  Similarity=-0.034  Sum_probs=133.2

Q ss_pred             HHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 041384          350 SHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESG  429 (580)
Q Consensus       350 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g  429 (580)
                      +.+..+|+.+.... +.+..+|...+..+.+.|+++.|..++++.... +..... -..|....+.++.   ++.+.+.-
T Consensus       196 ~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~-P~~~~l-~~~y~~~~e~~~~---~~~l~~~~  269 (493)
T 2uy1_A          196 SRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM-SDGMFL-SLYYGLVMDEEAV---YGDLKRKY  269 (493)
T ss_dssp             HHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CCSSHH-HHHHHHHTTCTHH---HHHHHHHT
T ss_pred             HHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC-CCcHHH-HHHHHhhcchhHH---HHHHHHHH
Confidence            45667888877754 556788888888888999999999999976553 222111 1122222222222   23332210


Q ss_pred             ---------CCC---CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcC-ChHHHHHHHHhC
Q 041384          430 ---------VEP---DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSG-KIEDACKVVSTM  496 (580)
Q Consensus       430 ---------~~p---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~  496 (580)
                               ..+   ....|...+....+.++.+.|..+|+++ +..+  .+...|...+..-...+ +.+.|..+|+..
T Consensus       270 ~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~~--~~~~v~i~~A~lE~~~~~d~~~ar~ife~a  346 (493)
T 2uy1_A          270 SMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNEG--VGPHVFIYCAFIEYYATGSRATPYNIFSSG  346 (493)
T ss_dssp             C----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTSC--CCHHHHHHHHHHHHHHHCCSHHHHHHHHHH
T ss_pred             HhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCCC--CChHHHHHHHHHHHHHCCChHHHHHHHHHH
Confidence                     011   1244566666666788899999999996 3221  34444543333333334 699999999887


Q ss_pred             C--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 041384          497 P--MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRA  564 (580)
Q Consensus       497 ~--~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (580)
                      .  .+.++..|...+.-..+.|+.+.|..+++++    +.+...|...+..-...|+.+.+..++++..+
T Consensus       347 l~~~~~~~~~~~~yid~e~~~~~~~~aR~l~er~----~k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          347 LLKHPDSTLLKEEFFLFLLRIGDEENARALFKRL----EKTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHS----CCBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH----HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            2  3234556677777778899999999999998    34677888888887888999999999888864

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.73  E-value=2.5e-07  Score=71.94  Aligned_cols=115  Identities=17%  Similarity=0.110  Sum_probs=86.0

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHH
Q 041384          434 AITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP--MKPSTRILSSLVSA  511 (580)
Q Consensus       434 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~  511 (580)
                      ...+..+...+...|++++|...++++++.  .+.+...+..++..+.+.|++++|...++++.  .+.+..++..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHH
Confidence            355666667777777788887777776542  22345566777777777888888887777762  23466778888888


Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcC
Q 041384          512 CRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESG  550 (580)
Q Consensus       512 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  550 (580)
                      +...|++++|...++++.+..|.++..+..++.++.+.|
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  125 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQKQG  125 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHC
T ss_pred             HHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhcc
Confidence            889999999999999999999999888888888776554

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.73  E-value=8.1e-08  Score=76.91  Aligned_cols=89  Identities=18%  Similarity=0.015  Sum_probs=42.0

Q ss_pred             HHHHhhhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChH
Q 041384          476 YVDLLGKSGKIEDACKVVSTM-P-MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWL  553 (580)
Q Consensus       476 l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  553 (580)
                      +...+.+.|++++|+..|++. . .+.+...|..+..++.+.|++++|+..++++.+.+|.++..+..++.+|...|+++
T Consensus        24 ~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~  103 (142)
T 2xcb_A           24 LGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECHLQLGDLD  103 (142)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHH
Confidence            333444444444444444443 1 12234444444444555555555555555555555555555555555555555555


Q ss_pred             HHHHHHHHHHh
Q 041384          554 GAEEVWRVMRA  564 (580)
Q Consensus       554 ~A~~~~~~~~~  564 (580)
                      +|.+.+++..+
T Consensus       104 ~A~~~~~~al~  114 (142)
T 2xcb_A          104 GAESGFYSARA  114 (142)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            55555554443

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.73  E-value=1.6e-07  Score=73.70  Aligned_cols=117  Identities=9%  Similarity=-0.004  Sum_probs=91.0

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHH
Q 041384          434 AITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP--MKPSTRILSSLVSA  511 (580)
Q Consensus       434 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~  511 (580)
                      ...+..+...+...|++++|...++++++.  .+.+...+..+...+...|++++|...+++..  .+.+...+..+...
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~   89 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIEL--NPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHH
Confidence            355666667777778888888888776652  23345667777777788888888888777762  23456788888889


Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCCh
Q 041384          512 CRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNW  552 (580)
Q Consensus       512 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  552 (580)
                      +...|++++|...++++.+..|.++..+..++.++...|++
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhcC
Confidence            99999999999999999999999999999999999888875

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.72  E-value=1.7e-07  Score=73.94  Aligned_cols=116  Identities=11%  Similarity=-0.004  Sum_probs=80.9

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHH
Q 041384          434 AITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP--MKPSTRILSSLVSA  511 (580)
Q Consensus       434 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~  511 (580)
                      ...+..+...+...|++++|...++++++  ..+.+...+..+..++...|++++|++.+++..  .+.+...+..+...
T Consensus        16 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~--~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~   93 (133)
T 2lni_A           16 ALMVKNKGNECFQKGDYPQAMKHYTEAIK--RNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAA   93 (133)
T ss_dssp             HHHHHHHHHHHHHTTCSHHHHHHHHHHHT--TCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH--cCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHH
Confidence            34555666666666777777777666543  122345556666666677777777777666652  23356677788888


Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCC
Q 041384          512 CRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGN  551 (580)
Q Consensus       512 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  551 (580)
                      +...|++++|...++++.+..|.+...+..++.++...|+
T Consensus        94 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~  133 (133)
T 2lni_A           94 LEAMKDYTKAMDVYQKALDLDSSCKEAADGYQRCMMAQYN  133 (133)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCGGGTHHHHHHHHHHHHHTC
T ss_pred             HHHHhhHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhcC
Confidence            8888888888888888888888888888888888877664

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.72  E-value=1.1e-07  Score=72.25  Aligned_cols=100  Identities=13%  Similarity=-0.034  Sum_probs=83.7

Q ss_pred             hhHHHHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC--CchHHHHHHHH
Q 041384          470 IEHYACYVDLLGKSGKIEDACKVVSTMP--MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPE--NAANYTLLSMV  545 (580)
Q Consensus       470 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~l~~~  545 (580)
                      ...+..+...+...|++++|...+++..  .+.+...+..+...+...|++++|+..++++.+..|.  +..++..++.+
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~~   85 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKADA   85 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHHH
Confidence            4455667777777888888888777762  2346678888999999999999999999999999999  99999999999


Q ss_pred             HHhc-CChHHHHHHHHHHHhCCCcc
Q 041384          546 CSES-GNWLGAEEVWRVMRAKGLSK  569 (580)
Q Consensus       546 ~~~~-g~~~~A~~~~~~~~~~~~~~  569 (580)
                      +... |++++|.+.+++..+.....
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~p~~  110 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARAKLEHHHH  110 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHHGGGCCCC
T ss_pred             HHHHhCCHHHHHHHHHHHhhcccCC
Confidence            9999 99999999999988876543

>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=98.72  E-value=1.2e-07  Score=74.18  Aligned_cols=94  Identities=16%  Similarity=0.038  Sum_probs=59.4

Q ss_pred             HHHHHHHHhhhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhc
Q 041384          472 HYACYVDLLGKSGKIEDACKVVSTM-P-MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSES  549 (580)
Q Consensus       472 ~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~  549 (580)
                      .+..+...+.+.|++++|+..|++. . .+.+...|..+..++.+.|++++|+..++++.+.+|.++..+..++.++...
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~   85 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAV   85 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHH
Confidence            3444555555666666666666554 1 2234556666666666677777777777777777777776777777777777


Q ss_pred             CChHHHHHHHHHHHhC
Q 041384          550 GNWLGAEEVWRVMRAK  565 (580)
Q Consensus       550 g~~~~A~~~~~~~~~~  565 (580)
                      |++++|.+.+++..+.
T Consensus        86 ~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           86 KEYASALETLDAARTK  101 (126)
T ss_dssp             TCHHHHHHHHHHHHHH
T ss_pred             hCHHHHHHHHHHHHHh
Confidence            7777777776666553

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.70  E-value=1.3e-07  Score=78.98  Aligned_cols=154  Identities=8%  Similarity=-0.035  Sum_probs=95.0

Q ss_pred             HHHHHHHHHcCCCchHHHHhhccCC---CCCccchHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHH-hhc
Q 041384           66 SNSLISMYAKFSKPESAYQLFDEMP---YRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISL-CSQ  141 (580)
Q Consensus        66 ~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~-~~~  141 (580)
                      +..+...+.+.|++++|...|++..   +.+...+..+...+.+.|++++|+..+++..+..  |++..+...... +..
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~   86 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLELHQ   86 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHHHh
Confidence            3445556677777777777777765   3355667777777777777777777777765542  233322221111 112


Q ss_pred             cCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCC--C---CeehHHHHHHHHHhcCChhHHH
Q 041384          142 IGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVI--R---NEVSWTAMISGCIDSQNYDTGI  216 (580)
Q Consensus       142 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~---~~~~~~~li~~~~~~~~~~~a~  216 (580)
                      .+....+...++..++..  |.+...+..+...+...|++++|...|+++..  |   +...+..+...+...|+.++|.
T Consensus        87 ~~~~~~a~~~~~~al~~~--P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~  164 (176)
T 2r5s_A           87 QAAESPELKRLEQELAAN--PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIA  164 (176)
T ss_dssp             HHTSCHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHH
T ss_pred             hcccchHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHH
Confidence            222334566777777664  55667777777777777777777777776632  2   2335666777777777777777


Q ss_pred             HHHHHHH
Q 041384          217 DLFRAMQ  223 (580)
Q Consensus       217 ~~~~~m~  223 (580)
                      ..|++..
T Consensus       165 ~~y~~al  171 (176)
T 2r5s_A          165 SKYRRQL  171 (176)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7776554

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.70  E-value=7e-07  Score=77.02  Aligned_cols=162  Identities=12%  Similarity=-0.049  Sum_probs=103.8

Q ss_pred             hhHHHHHHHHhHhcCCHHHHHHHHhcCCCC-CcchHHHHHHHHHhcC----ChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 041384          368 VSIGNALMNMYSKCGSITSSHQIFNEMAAR-DFVSWTTLISGYGFHG----YGEEALQLFLEMQESGVEPDAITVLAILS  442 (580)
Q Consensus       368 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~~~g~~p~~~~~~~l~~  442 (580)
                      +..+..+...|...+++++|...|++..+. ++..+..|...|.. +    ++++|+++|++..+.|   +...+..|..
T Consensus        18 ~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g---~~~a~~~Lg~   93 (212)
T 3rjv_A           18 RRAQYYLADTWVSSGDYQKAEYWAQKAAAQGDGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAG---SKSGEIVLAR   93 (212)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHH
Confidence            344444555555555555555555554442 34455555555555 4    6777777777776643   5566666666


Q ss_pred             HHhc----cCCHHHHHHHHHHHHHhhCCC-CChhHHHHHHHHhhh----cCChHHHHHHHHhCC-CCCCHHHHHHHHHHH
Q 041384          443 ACNH----AGLVKEAETLFNNVMKEKKIA-LAIEHYACYVDLLGK----SGKIEDACKVVSTMP-MKPSTRILSSLVSAC  512 (580)
Q Consensus       443 ~~~~----~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~-~~p~~~~~~~l~~~~  512 (580)
                      .|..    .+++++|..+|++..+ .+.. .....+..|...|..    .+++++|...|++.. ..++...+..|...|
T Consensus        94 ~y~~g~g~~~d~~~A~~~~~~A~~-~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~a~~~Lg~~y  172 (212)
T 3rjv_A           94 VLVNRQAGATDVAHAITLLQDAAR-DSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSLSRTGYAEYWAGMMF  172 (212)
T ss_dssp             HHTCGGGSSCCHHHHHHHHHHHTS-STTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHTSCTTHHHHHHHHHH
T ss_pred             HHHcCCCCccCHHHHHHHHHHHHH-cCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            6666    7788888888887543 2211 115667777777777    778888888888773 335666677777777


Q ss_pred             Hhc-C-----CHHHHHHHHHHHHhcCCC
Q 041384          513 RIH-G-----RLEVAEMLAHQLIEAEPE  534 (580)
Q Consensus       513 ~~~-~-----~~~~A~~~~~~~~~~~~~  534 (580)
                      ... |     +.++|...++++.+.+.+
T Consensus       173 ~~g~gg~~~~d~~~A~~~~~~A~~~g~~  200 (212)
T 3rjv_A          173 QQGEKGFIEPNKQKALHWLNVSCLEGFD  200 (212)
T ss_dssp             HHCBTTTBCCCHHHHHHHHHHHHHHTCH
T ss_pred             HcCCCCCCCCCHHHHHHHHHHHHHcCCH
Confidence            543 3     788888888888877643

>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=98.70  E-value=4.5e-08  Score=88.75  Aligned_cols=188  Identities=10%  Similarity=-0.026  Sum_probs=124.7

Q ss_pred             hhHHHHHHHHhHhcCCHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHH
Q 041384          368 VSIGNALMNMYSKCGSITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSA  443 (580)
Q Consensus       368 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~  443 (580)
                      ...+..+...+.+.|++++|...|++...   .+...|..+..+|...|++++|+..+++..+.  .| +...+..+..+
T Consensus         4 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~   81 (281)
T 2c2l_A            4 AQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFLGQC   81 (281)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            34555566667777777777777776554   25567777888888888888888888888774  45 55777788888


Q ss_pred             HhccCCHHHHHHHHHHHHHhhCCCC---ChhHHHHHHHHhhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH
Q 041384          444 CNHAGLVKEAETLFNNVMKEKKIAL---AIEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEV  520 (580)
Q Consensus       444 ~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  520 (580)
                      +...|++++|...|+++++...-.+   ....+..+  ...+...+..    ......+++......+.. + ..|+.++
T Consensus        82 ~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~--~~~~~~~~~~----~~~~~~~~~~~i~~~l~~-l-~~~~~~~  153 (281)
T 2c2l_A           82 QLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSAL--RIAKKKRWNS----IEERRIHQESELHSYLTR-L-IAAERER  153 (281)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHH--HHHHHHHHHH----HHHTCCCCCCHHHHHHHH-H-HHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCccchhhHHHHHHHHH--HHHHHHHHHH----HHHHHHhhhHHHHHHHHH-H-HHHHHHH
Confidence            8889999999998888765321111   11111111  1122211211    222233444444444433 3 2688999


Q ss_pred             HHHHHHHHHhcCCCCchHHHHHHHHHHhc-CChHHHHHHHHHHHhC
Q 041384          521 AEMLAHQLIEAEPENAANYTLLSMVCSES-GNWLGAEEVWRVMRAK  565 (580)
Q Consensus       521 A~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~  565 (580)
                      |++.++++.+.+|.+......+...+.+. +.+++|.++|+++.+.
T Consensus       154 A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          154 ELEECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             HHTTTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            99999999999999888888887777776 7889999999987664

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.69  E-value=1e-07  Score=73.69  Aligned_cols=96  Identities=13%  Similarity=-0.006  Sum_probs=82.7

Q ss_pred             HHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhc
Q 041384          472 HYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSES  549 (580)
Q Consensus       472 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~  549 (580)
                      .+..+...+.+.|++++|+..|++. ...| +...|..+..++...|++++|+..++++.+.+|.++..+..++.+|...
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~~   98 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNE   98 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc
Confidence            3455677788899999999999887 2344 7788899999999999999999999999999999999999999999999


Q ss_pred             CChHHHHHHHHHHHhCCC
Q 041384          550 GNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       550 g~~~~A~~~~~~~~~~~~  567 (580)
                      |++++|+..+++..+..+
T Consensus        99 g~~~~A~~~~~~al~~~P  116 (121)
T 1hxi_A           99 HNANAALASLRAWLLSQP  116 (121)
T ss_dssp             HHHHHHHHHHHHHHC---
T ss_pred             CCHHHHHHHHHHHHHhCc
Confidence            999999999999877543

>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=98.63  E-value=3.9e-07  Score=72.30  Aligned_cols=93  Identities=10%  Similarity=-0.081  Sum_probs=45.4

Q ss_pred             HHHHHHHHhhhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhc
Q 041384          472 HYACYVDLLGKSGKIEDACKVVSTM-P-MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSES  549 (580)
Q Consensus       472 ~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~  549 (580)
                      .+..+...+...|++++|+..|++. . .+.+...+..+...+...|++++|+..++++.+.+|.++..+..++.++...
T Consensus        11 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~   90 (137)
T 3q49_B           11 ELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQLEM   90 (137)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHH
Confidence            3334444444444444444444433 1 1223444455555555555555555555555555555555555555555555


Q ss_pred             CChHHHHHHHHHHHh
Q 041384          550 GNWLGAEEVWRVMRA  564 (580)
Q Consensus       550 g~~~~A~~~~~~~~~  564 (580)
                      |++++|...+++..+
T Consensus        91 ~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           91 ESYDEAIANLQRAYS  105 (137)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHH
Confidence            555555555555443

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.63  E-value=5.1e-07  Score=72.53  Aligned_cols=105  Identities=9%  Similarity=0.015  Sum_probs=87.6

Q ss_pred             CCCC-HHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHH
Q 041384          430 VEPD-AITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILS  506 (580)
Q Consensus       430 ~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~  506 (580)
                      +.|+ ...+..+...+...|++++|...|+++++.  .+.+...|..+..+|...|++++|+..|++. ...| ++..|.
T Consensus        31 l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~  108 (151)
T 3gyz_A           31 IPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIY--DFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVF  108 (151)
T ss_dssp             SCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHH
Confidence            4553 356777888899999999999999997762  2345778889999999999999999999988 3344 678899


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCc
Q 041384          507 SLVSACRIHGRLEVAEMLAHQLIEAEPENA  536 (580)
Q Consensus       507 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~  536 (580)
                      .+..+|...|++++|+..|+++.+..|+++
T Consensus       109 ~lg~~~~~lg~~~eA~~~~~~al~l~~~~~  138 (151)
T 3gyz_A          109 HTGQCQLRLKAPLKAKECFELVIQHSNDEK  138 (151)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCCHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCHH
Confidence            999999999999999999999999998765

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.62  E-value=2.7e-07  Score=75.98  Aligned_cols=110  Identities=15%  Similarity=0.025  Sum_probs=91.4

Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHH
Q 041384          433 DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVS  510 (580)
Q Consensus       433 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~  510 (580)
                      +...+..+...+...|++++|+..|+++++..  +.+...+..+..+|.+.|++++|+..+++. ...| +...|..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA--PANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            44677888888999999999999999977632  335778888999999999999999999887 3334 6788899999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHH
Q 041384          511 ACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSM  544 (580)
Q Consensus       511 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  544 (580)
                      ++...|++++|+..++++++..|.++..+...+.
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l  121 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEAEGNGGSDAMKRGL  121 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHSSSCCHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhCCCchHHHHHHHH
Confidence            9999999999999999999999998886655543

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.61  E-value=1.3e-06  Score=79.77  Aligned_cols=161  Identities=10%  Similarity=-0.079  Sum_probs=109.6

Q ss_pred             HHHHHHHhHhcCCHHHHHHHHhcCCCC---Cc------chHHHHHHHHHhcCChHHHHHHHHHHHHcCC---CCC--HHH
Q 041384          371 GNALMNMYSKCGSITSSHQIFNEMAAR---DF------VSWTTLISGYGFHGYGEEALQLFLEMQESGV---EPD--AIT  436 (580)
Q Consensus       371 ~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~---~p~--~~~  436 (580)
                      +...+..+...|++++|.+.+.+..+.   ..      ..+..+...+...|++++|+..+++..+...   .+.  ..+
T Consensus        78 l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  157 (293)
T 2qfc_A           78 FKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYI  157 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHH
Confidence            334555667777777777777644331   11      1233455666777888889888888775321   111  347


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCC-----hhHHHHHHHHhhhcCChHHHHHHHHhCC-CCC-------CHH
Q 041384          437 VLAILSACNHAGLVKEAETLFNNVMKEKKIALA-----IEHYACYVDLLGKSGKIEDACKVVSTMP-MKP-------STR  503 (580)
Q Consensus       437 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-------~~~  503 (580)
                      +..+...|...|++++|...++++++-....|+     ..++..+...|...|++++|+..+++.. ..+       -..
T Consensus       158 ~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~  237 (293)
T 2qfc_A          158 ENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQ  237 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHH
Confidence            778888888899999999999887732111222     2577888888899999999988888762 111       156


Q ss_pred             HHHHHHHHHHhcCCHHHH-HHHHHHHHhc
Q 041384          504 ILSSLVSACRIHGRLEVA-EMLAHQLIEA  531 (580)
Q Consensus       504 ~~~~l~~~~~~~~~~~~A-~~~~~~~~~~  531 (580)
                      ++..+...|.+.|++++| ...++++...
T Consensus       238 ~~~~lg~~y~~~g~~~~Ai~~~~~~Al~~  266 (293)
T 2qfc_A          238 LYYQRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCcHHHHHHHHHHHHHH
Confidence            778888889999999999 7778887653

>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=98.61  E-value=5.1e-07  Score=69.27  Aligned_cols=106  Identities=14%  Similarity=0.054  Sum_probs=49.1

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CC-CCCHHHHHHHHHHHH
Q 041384          436 TVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PM-KPSTRILSSLVSACR  513 (580)
Q Consensus       436 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~  513 (580)
                      .+..+...+...|++++|...+++++..  .+.+...+..+..++...|++++|...+++. .. +.+...+..+...+.
T Consensus         6 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~   83 (118)
T 1elw_A            6 ELKEKGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALE   83 (118)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            3444445555555555555555554431  1123334444444444555555555444444 11 123344444444444


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCchHHHHHH
Q 041384          514 IHGRLEVAEMLAHQLIEAEPENAANYTLLS  543 (580)
Q Consensus       514 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~  543 (580)
                      ..|++++|...++++.+..|.++..+..++
T Consensus        84 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~  113 (118)
T 1elw_A           84 FLNRFEEAKRTYEEGLKHEANNPQLKEGLQ  113 (118)
T ss_dssp             HTTCHHHHHHHHHHHHTTCTTCHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            455555555555555554444444444443

>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=98.61  E-value=7e-06  Score=74.90  Aligned_cols=158  Identities=10%  Similarity=-0.081  Sum_probs=117.6

Q ss_pred             HHHHhHhcCCHHHHHHHHhcCCCCCc---------chHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-CC----HHHHHH
Q 041384          374 LMNMYSKCGSITSSHQIFNEMAARDF---------VSWTTLISGYGFHGYGEEALQLFLEMQESGVE-PD----AITVLA  439 (580)
Q Consensus       374 l~~~~~~~g~~~~A~~~~~~~~~~~~---------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~-p~----~~~~~~  439 (580)
                      .+..+...|++++|..++++......         ..+..+...+...+++++|+..+++..+.... ++    ..+++.
T Consensus        81 ~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~  160 (293)
T 3u3w_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENA  160 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHH
Confidence            35667788899999988887655211         12334666677778999999999999874222 23    236888


Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHhh----CCCCC-hhHHHHHHHHhhhcCChHHHHHHHHhCC-------CCCC-HHHHH
Q 041384          440 ILSACNHAGLVKEAETLFNNVMKEK----KIALA-IEHYACYVDLLGKSGKIEDACKVVSTMP-------MKPS-TRILS  506 (580)
Q Consensus       440 l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~p~-~~~~~  506 (580)
                      +...|...|++++|...++++++..    +..+. ..++..+...|.+.|++++|+..+++..       ..+. ..++.
T Consensus       161 lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~  240 (293)
T 3u3w_A          161 IANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYY  240 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence            8899999999999999999977422    22222 3477889999999999999999988762       1122 56888


Q ss_pred             HHHHHHHhcC-CHHHHHHHHHHHHhc
Q 041384          507 SLVSACRIHG-RLEVAEMLAHQLIEA  531 (580)
Q Consensus       507 ~l~~~~~~~~-~~~~A~~~~~~~~~~  531 (580)
                      .+...+.+.| ++++|...++++...
T Consensus       241 ~lg~~~~~~g~~~~~A~~~~~~Al~i  266 (293)
T 3u3w_A          241 QRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHHH
Confidence            8999999999 569999999998764

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.59  E-value=4.3e-07  Score=71.53  Aligned_cols=101  Identities=13%  Similarity=0.048  Sum_probs=90.4

Q ss_pred             CCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHH
Q 041384          467 ALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSM  544 (580)
Q Consensus       467 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  544 (580)
                      +.+...+..+...+...|++++|...+++. ...| +...+..+...+...|++++|+..++++.+..|.++..+..++.
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~   92 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAA   92 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHH
Confidence            334667888999999999999999999987 3444 77889999999999999999999999999999999999999999


Q ss_pred             HHHhcCChHHHHHHHHHHHhCCC
Q 041384          545 VCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       545 ~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      ++...|++++|.+.+++..+...
T Consensus        93 ~~~~~~~~~~A~~~~~~~~~~~p  115 (133)
T 2lni_A           93 ALEAMKDYTKAMDVYQKALDLDS  115 (133)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCG
T ss_pred             HHHHHhhHHHHHHHHHHHHHhCC
Confidence            99999999999999999887543

>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=98.59  E-value=1.9e-07  Score=72.86  Aligned_cols=93  Identities=8%  Similarity=0.003  Sum_probs=60.4

Q ss_pred             HHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCc-------hHHHHHH
Q 041384          473 YACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENA-------ANYTLLS  543 (580)
Q Consensus       473 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-------~~~~~l~  543 (580)
                      +..+...+.+.|++++|+..|++. ...| +...|..+..+|.+.|++++|+..++++++.+|.+.       .+|..++
T Consensus        11 ~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg   90 (127)
T 4gcn_A           11 EKDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSRAG   90 (127)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHHHH
Confidence            445556666666666666666655 2233 456666777777777777777777777777665543       2466666


Q ss_pred             HHHHhcCChHHHHHHHHHHHhC
Q 041384          544 MVCSESGNWLGAEEVWRVMRAK  565 (580)
Q Consensus       544 ~~~~~~g~~~~A~~~~~~~~~~  565 (580)
                      .++...|++++|++.|++.++.
T Consensus        91 ~~~~~~~~~~~A~~~~~kal~~  112 (127)
T 4gcn_A           91 NAFQKQNDLSLAVQWFHRSLSE  112 (127)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhh
Confidence            7777777777777777776653

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.59  E-value=1.6e-06  Score=74.20  Aligned_cols=153  Identities=11%  Similarity=0.017  Sum_probs=82.0

Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhh---CCCC-ChhHHHHHHHHhhhcCCh
Q 041384          411 FHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEK---KIAL-AIEHYACYVDLLGKSGKI  486 (580)
Q Consensus       411 ~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~-~~~~~~~l~~~~~~~g~~  486 (580)
                      ..|++++|.+.++.+... .......+..+...+...|++++|...+++.++..   +..+ ...++..+...|...|++
T Consensus         4 ~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   82 (203)
T 3gw4_A            4 EAHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNW   82 (203)
T ss_dssp             ---CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             ccccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCH
Confidence            345555555533333221 11123455555555666666666666666544311   1111 133455556666666666


Q ss_pred             HHHHHHHHhCC----CCC-C----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CCC----chHHHHHHHHHHhcCC
Q 041384          487 EDACKVVSTMP----MKP-S----TRILSSLVSACRIHGRLEVAEMLAHQLIEAE--PEN----AANYTLLSMVCSESGN  551 (580)
Q Consensus       487 ~~A~~~~~~~~----~~p-~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~----~~~~~~l~~~~~~~g~  551 (580)
                      ++|.+.+++..    ..+ +    ...+..+...+...|++++|...++++.+..  ..+    ..++..++.++...|+
T Consensus        83 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  162 (203)
T 3gw4_A           83 DAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKN  162 (203)
T ss_dssp             HHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcC
Confidence            66666665541    011 1    2345666667777777777777777776543  111    2235677777777788


Q ss_pred             hHHHHHHHHHHHh
Q 041384          552 WLGAEEVWRVMRA  564 (580)
Q Consensus       552 ~~~A~~~~~~~~~  564 (580)
                      +++|.+.+++..+
T Consensus       163 ~~~A~~~~~~al~  175 (203)
T 3gw4_A          163 LLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            8777777776654

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.58  E-value=8.5e-07  Score=78.23  Aligned_cols=123  Identities=12%  Similarity=-0.028  Sum_probs=57.9

Q ss_pred             HHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcC
Q 041384          441 LSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPST----RILSSLVSACRIHG  516 (580)
Q Consensus       441 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~----~~~~~l~~~~~~~~  516 (580)
                      ...+...|++++|.++|+.+..   ..|+......+...+.+.|++++|+..|+.....|+.    ..+..+..++.+.|
T Consensus       109 A~~L~~~g~y~eA~~~l~~~~~---~~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~d~~~~~~a~~~LG~al~~LG  185 (282)
T 4f3v_A          109 AACEAAQGNYADAMEALEAAPV---AGSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWPDKFLAGAAGVAHGVAAANLA  185 (282)
T ss_dssp             HHHHHHHTCHHHHHHHHTSSCC---TTCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCSCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHCCCHHHHHHHHHHHHh---cCCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccCCcccHHHHHHHHHHHHHHCC
Confidence            3344455555555555554221   1122113334444455555555555555544222221    23444555555555


Q ss_pred             CHHHHHHHHHHHHhcC--CC-CchHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 041384          517 RLEVAEMLAHQLIEAE--PE-NAANYTLLSMVCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       517 ~~~~A~~~~~~~~~~~--~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      ++++|+..|+++....  |. .+.....++.++.+.|+.++|...|+++....
T Consensus       186 ~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~  238 (282)
T 4f3v_A          186 LFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTH  238 (282)
T ss_dssp             CHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             CHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            5555555555554322  22 23344555555555555555555555555443

>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=98.58  E-value=1.7e-07  Score=75.44  Aligned_cols=108  Identities=12%  Similarity=-0.013  Sum_probs=86.0

Q ss_pred             CC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CC-CCCHHHHHH
Q 041384          431 EP-DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PM-KPSTRILSS  507 (580)
Q Consensus       431 ~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~  507 (580)
                      .| +...+..+...+...|++++|...|++++..  .+.+...+..+..+|...|++++|+..|++. .. +.++..+..
T Consensus        17 ~p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~   94 (148)
T 2vgx_A           17 SSDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVL--DHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFH   94 (148)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHH
T ss_pred             CHhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHc--CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHH
Confidence            45 3356666777888889999999999887652  2345667788888889999999999998887 23 346778888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHH
Q 041384          508 LVSACRIHGRLEVAEMLAHQLIEAEPENAANYT  540 (580)
Q Consensus       508 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  540 (580)
                      +..++...|++++|+..++++.+..|.++....
T Consensus        95 lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~  127 (148)
T 2vgx_A           95 AAECLLQXGELAEAESGLFLAQELIANXPEFXE  127 (148)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHTTCGGGHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCcCCCcchH
Confidence            999999999999999999999999998877533

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.58  E-value=6.8e-07  Score=69.35  Aligned_cols=98  Identities=16%  Similarity=0.132  Sum_probs=88.5

Q ss_pred             hhHHHHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHH
Q 041384          470 IEHYACYVDLLGKSGKIEDACKVVSTMP--MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCS  547 (580)
Q Consensus       470 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  547 (580)
                      ...+..+...+...|++++|.+.++++.  .+.+...+..+...+...|++++|+..++++.+..|.++..+..++.++.
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~   88 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYY   88 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHH
Confidence            4567888899999999999999999883  34467888999999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHHHHHHHHhCCC
Q 041384          548 ESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       548 ~~g~~~~A~~~~~~~~~~~~  567 (580)
                      ..|++++|...++++.+...
T Consensus        89 ~~~~~~~A~~~~~~~~~~~~  108 (125)
T 1na0_A           89 KQGDYDEAIEYYQKALELDP  108 (125)
T ss_dssp             HTTCHHHHHHHHHHHHHHCT
T ss_pred             HhcCHHHHHHHHHHHHHhCC
Confidence            99999999999999887654

>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=98.58  E-value=7e-07  Score=76.17  Aligned_cols=96  Identities=17%  Similarity=0.055  Sum_probs=72.7

Q ss_pred             hHHHHHHHHhhhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHh
Q 041384          471 EHYACYVDLLGKSGKIEDACKVVSTM-P-MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSE  548 (580)
Q Consensus       471 ~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~  548 (580)
                      ..+..+..+|...|++++|+..+++. . .+.+...+..+..++...|++++|+..++++.+..|.++.++..++.++..
T Consensus        89 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~  168 (198)
T 2fbn_A           89 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVNK  168 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHH
Confidence            45677777888888888888888776 2 334677888999999999999999999999999999999999999999999


Q ss_pred             cCChHHHH-HHHHHHHhCC
Q 041384          549 SGNWLGAE-EVWRVMRAKG  566 (580)
Q Consensus       549 ~g~~~~A~-~~~~~~~~~~  566 (580)
                      .|+.+++. ..++.+...+
T Consensus       169 ~~~~~~~~~~~~~~~f~~~  187 (198)
T 2fbn_A          169 LKEARKKDKLTFGGMFDKG  187 (198)
T ss_dssp             HHHHHC-------------
T ss_pred             HHHHHHHHHHHHHHHhccc
Confidence            99888887 5566665443

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.57  E-value=8.9e-07  Score=71.23  Aligned_cols=111  Identities=14%  Similarity=0.026  Sum_probs=70.1

Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCC----hhHHHHHHHHhhhcCChHHHHHHHHhC-CCC-CCHHHHH
Q 041384          433 DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALA----IEHYACYVDLLGKSGKIEDACKVVSTM-PMK-PSTRILS  506 (580)
Q Consensus       433 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~  506 (580)
                      +...+..+...+...|++++|...|+++++   ..|+    ...+..+..+|...|++++|+..+++. ... .+...+.
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~---~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  103 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALG---LDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALY  103 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHT---SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHH---HcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHH
Confidence            445666666677777777777777777543   3344    455666666666677777777666655 222 2455666


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHH
Q 041384          507 SLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVC  546 (580)
Q Consensus       507 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  546 (580)
                      .+...+...|++++|...++++.+..|.+...+..+..+.
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~  143 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVSLEPKNKVFQEALRNIS  143 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHH
Confidence            6666666667777777777777766666666665555543

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.56  E-value=7.2e-07  Score=78.67  Aligned_cols=137  Identities=12%  Similarity=-0.026  Sum_probs=97.1

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCC--hhHHHHHHHHh
Q 041384          403 TTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALA--IEHYACYVDLL  480 (580)
Q Consensus       403 ~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~  480 (580)
                      -.+...+...|++++|.++|+.+...  .|+......+...+.+.+++++|+..|+...+ .. .|.  ...+..+..++
T Consensus       106 LayA~~L~~~g~y~eA~~~l~~~~~~--~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~-~~-d~~~~~~a~~~LG~al  181 (282)
T 4f3v_A          106 MGFAACEAAQGNYADAMEALEAAPVA--GSEHLVAWMKAVVYGAAERWTDVIDQVKSAGK-WP-DKFLAGAAGVAHGVAA  181 (282)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHTSSCCT--TCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGG-CS-CHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHcCCHHHHHHHHHHhhc-cC-CcccHHHHHHHHHHHH
Confidence            34556677778888888888777664  35444444555567888888888888876332 11 111  23567788888


Q ss_pred             hhcCChHHHHHHHHhCCCC---CC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHH
Q 041384          481 GKSGKIEDACKVVSTMPMK---PS--TRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSM  544 (580)
Q Consensus       481 ~~~g~~~~A~~~~~~~~~~---p~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  544 (580)
                      .+.|++++|+..|++....   |.  .........++.+.|+.++|...|+++...+|. +.+...|.+
T Consensus       182 ~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~-~~~~~aL~~  249 (282)
T 4f3v_A          182 ANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE-PKVAAALKD  249 (282)
T ss_dssp             HHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC-HHHHHHHHC
T ss_pred             HHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-HHHHHHHhC
Confidence            8899999999888887312   43  346677778888999999999999999999998 776666643

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.53  E-value=1.8e-06  Score=66.17  Aligned_cols=98  Identities=12%  Similarity=0.057  Sum_probs=82.0

Q ss_pred             hhHHHHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHH
Q 041384          470 IEHYACYVDLLGKSGKIEDACKVVSTMP--MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCS  547 (580)
Q Consensus       470 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  547 (580)
                      ...+..++..+...|++++|...+++..  .+.+...+..+...+...|++++|...++++.+..|.++..+..++.++.
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~   83 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALE   83 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            4456777888888999999999888872  33467788888888888999999999999999999988888999999999


Q ss_pred             hcCChHHHHHHHHHHHhCCC
Q 041384          548 ESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       548 ~~g~~~~A~~~~~~~~~~~~  567 (580)
                      ..|++++|.+.+++..+.+.
T Consensus        84 ~~~~~~~A~~~~~~~~~~~~  103 (118)
T 1elw_A           84 FLNRFEEAKRTYEEGLKHEA  103 (118)
T ss_dssp             HTTCHHHHHHHHHHHHTTCT
T ss_pred             HHhhHHHHHHHHHHHHHcCC
Confidence            99999999999988877654

>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=98.51  E-value=1.1e-06  Score=73.39  Aligned_cols=123  Identities=7%  Similarity=0.064  Sum_probs=97.4

Q ss_pred             HhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHH-HHhcCCH--
Q 041384          444 CNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP--MKPSTRILSSLVSA-CRIHGRL--  518 (580)
Q Consensus       444 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~-~~~~~~~--  518 (580)
                      +...|++++|...+++.++.  .+.+...+..+...|...|++++|...|++..  .+.+...+..+... +...|++  
T Consensus        20 ~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             CC-----CCCCHHHHHHHHH--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhhccCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcch
Confidence            35678888898888887653  23456778888999999999999999998872  23466777888888 7788888  


Q ss_pred             HHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCCc
Q 041384          519 EVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGLS  568 (580)
Q Consensus       519 ~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  568 (580)
                      ++|+..++++.+.+|.++..+..++.+|...|++++|...++++.+....
T Consensus        98 ~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~  147 (177)
T 2e2e_A           98 AQTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNSP  147 (177)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCT
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCC
Confidence            99999999999999999999999999999999999999999998887654

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.51  E-value=8e-07  Score=69.65  Aligned_cols=99  Identities=12%  Similarity=0.037  Sum_probs=89.0

Q ss_pred             ChhHHHHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHH
Q 041384          469 AIEHYACYVDLLGKSGKIEDACKVVSTMP--MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVC  546 (580)
Q Consensus       469 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  546 (580)
                      +...+..+...+...|++++|...+++..  .+.+...+..+...+...|++++|+..++++.+..|.++..+..++.++
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   90 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELNPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHHH
Confidence            45667788899999999999999999872  3447788899999999999999999999999999999999999999999


Q ss_pred             HhcCChHHHHHHHHHHHhCCC
Q 041384          547 SESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       547 ~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      ...|++++|.+.+++..+...
T Consensus        91 ~~~~~~~~A~~~~~~~~~~~p  111 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALELDP  111 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHHHST
T ss_pred             HHhCCHHHHHHHHHHHHhcCc
Confidence            999999999999999887654

>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=98.49  E-value=1.4e-06  Score=67.88  Aligned_cols=110  Identities=9%  Similarity=-0.086  Sum_probs=81.3

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCC-CCHHHHHHHHHHH
Q 041384          435 ITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMK-PSTRILSSLVSAC  512 (580)
Q Consensus       435 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~  512 (580)
                      ..+..+...+...|++++|+..|+++++.  .+.+...+..+..+|.+.|++++|+..+++. ... .+...|..+..++
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   82 (126)
T 3upv_A            5 EEARLEGKEYFTKSDWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQ   82 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHH
Confidence            44555666677777777777777776652  2334566777777777888888888777776 223 3567888888899


Q ss_pred             HhcCCHHHHHHHHHHHHhcC------CCCchHHHHHHHHH
Q 041384          513 RIHGRLEVAEMLAHQLIEAE------PENAANYTLLSMVC  546 (580)
Q Consensus       513 ~~~~~~~~A~~~~~~~~~~~------~~~~~~~~~l~~~~  546 (580)
                      ...|++++|+..++++.+.+      |.+..+...+..+.
T Consensus        83 ~~~~~~~~A~~~~~~al~~~p~~~~~p~~~~~~~~l~~~~  122 (126)
T 3upv_A           83 IAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYKAS  122 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHHHHhCcccCCchhHHHHHHHHHHHH
Confidence            99999999999999999988      88887777776654

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.49  E-value=3.4e-06  Score=67.70  Aligned_cols=100  Identities=13%  Similarity=-0.013  Sum_probs=79.1

Q ss_pred             CChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHH
Q 041384          468 LAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKPS----TRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLL  542 (580)
Q Consensus       468 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l  542 (580)
                      .+...+..+...+...|++++|...|++. ...|+    ...+..+...+...|++++|+..++++.+..|.++..+..+
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~  105 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRR  105 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHH
Confidence            34666777778888888888888888877 45565    56777778888888888888888888888888888888888


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          543 SMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       543 ~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      +.++...|++++|.+.+++..+...
T Consensus       106 a~~~~~~~~~~~A~~~~~~al~~~p  130 (148)
T 2dba_A          106 SQALEKLGRLDQAVLDLQRCVSLEP  130 (148)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCS
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCC
Confidence            8888888888888888888776543

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.48  E-value=1e-06  Score=70.35  Aligned_cols=107  Identities=16%  Similarity=0.016  Sum_probs=81.1

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC-C-CCCHHHHHHHHHHH
Q 041384          435 ITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP-M-KPSTRILSSLVSAC  512 (580)
Q Consensus       435 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~-~p~~~~~~~l~~~~  512 (580)
                      ..+..+...+...|++++|...|+++++.  .+.+...|..+..+|.+.|++++|+..|++.. . +.++..+..+..++
T Consensus        19 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   96 (142)
T 2xcb_A           19 EQLYALGFNQYQAGKWDDAQKIFQALCML--DHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECH   96 (142)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHH
Confidence            44555666777888888888888886652  23356667778888888888888888888772 2 34667788888999


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCchHHHHHH
Q 041384          513 RIHGRLEVAEMLAHQLIEAEPENAANYTLLS  543 (580)
Q Consensus       513 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~  543 (580)
                      ...|++++|+..++++.+..|.++.......
T Consensus        97 ~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~  127 (142)
T 2xcb_A           97 LQLGDLDGAESGFYSARALAAAQPAHEALAA  127 (142)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHTCGGGHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCCcchHHHHH
Confidence            9999999999999999999998887655443

>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=98.47  E-value=8.2e-07  Score=70.48  Aligned_cols=107  Identities=12%  Similarity=-0.015  Sum_probs=74.5

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCCC-CCCHHHHHHHHHHHHh
Q 041384          436 TVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPM-KPSTRILSSLVSACRI  514 (580)
Q Consensus       436 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~~~~~~l~~~~~~  514 (580)
                      .+......+...|++++|+..|+++++-..-.|+..                       .... +.+...|..+..++.+
T Consensus        13 ~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~-----------------------a~~~~~~~a~a~~n~g~al~~   69 (159)
T 2hr2_A           13 LALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEE-----------------------AFDHAGFDAFCHAGLAEALAG   69 (159)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTS-----------------------CCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchh-----------------------hhhhccchHHHHHHHHHHHHH
Confidence            344455556667777777777777665322222210                       0000 0123378888888888


Q ss_pred             cCCHHHHHHHHHHHHhc-------CCCCchHH----HHHHHHHHhcCChHHHHHHHHHHHhC
Q 041384          515 HGRLEVAEMLAHQLIEA-------EPENAANY----TLLSMVCSESGNWLGAEEVWRVMRAK  565 (580)
Q Consensus       515 ~~~~~~A~~~~~~~~~~-------~~~~~~~~----~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (580)
                      .|++++|+..++++++.       +|+++..|    ...+.++...|++++|++.|++..+.
T Consensus        70 Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel  131 (159)
T 2hr2_A           70 LRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  131 (159)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            88888888888888888       89998888    99999999999999999999888663

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.46  E-value=2.1e-06  Score=73.47  Aligned_cols=153  Identities=12%  Similarity=-0.029  Sum_probs=93.6

Q ss_pred             hcCCHHHHHH---HHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHhccCCHH
Q 041384          380 KCGSITSSHQ---IFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQES----GVEP-DAITVLAILSACNHAGLVK  451 (580)
Q Consensus       380 ~~g~~~~A~~---~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----g~~p-~~~~~~~l~~~~~~~~~~~  451 (580)
                      ..|++++|.+   .+..-.......+..+...+...|++++|...+++..+.    |..| ...++..+...+...|+++
T Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~   83 (203)
T 3gw4_A            4 EAHDYALAERQAQALLAHPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWD   83 (203)
T ss_dssp             ---CHHHHHHHHHHHHTSTTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             ccccHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHH
Confidence            3455555555   333322223345666666666777777777777666541    1122 2345666777777888888


Q ss_pred             HHHHHHHHHHHhhCCCC-----ChhHHHHHHHHhhhcCChHHHHHHHHhCC----CCCC----HHHHHHHHHHHHhcCCH
Q 041384          452 EAETLFNNVMKEKKIAL-----AIEHYACYVDLLGKSGKIEDACKVVSTMP----MKPS----TRILSSLVSACRIHGRL  518 (580)
Q Consensus       452 ~a~~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~p~----~~~~~~l~~~~~~~~~~  518 (580)
                      +|...+++.++.....+     ....+..+...+...|++++|...+++..    ..++    ..++..+...+...|++
T Consensus        84 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~  163 (203)
T 3gw4_A           84 AARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNL  163 (203)
T ss_dssp             HHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCH
Confidence            88888877655321111     13456677777888888888888777652    1112    23456777888888999


Q ss_pred             HHHHHHHHHHHhcC
Q 041384          519 EVAEMLAHQLIEAE  532 (580)
Q Consensus       519 ~~A~~~~~~~~~~~  532 (580)
                      ++|...++++.+..
T Consensus       164 ~~A~~~~~~al~~~  177 (203)
T 3gw4_A          164 LEAQQHWLRARDIF  177 (203)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            99988888877653

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.45  E-value=1.1e-06  Score=68.78  Aligned_cols=103  Identities=13%  Similarity=0.015  Sum_probs=56.7

Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHhhCCCCC-hhHHHHHHHHhhhcCChHHHHHHHHhC-CCCCC----HHHHHHHHHHHH
Q 041384          440 ILSACNHAGLVKEAETLFNNVMKEKKIALA-IEHYACYVDLLGKSGKIEDACKVVSTM-PMKPS----TRILSSLVSACR  513 (580)
Q Consensus       440 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~  513 (580)
                      +...+...|++++|...|+++++.....+. ...+..+..++.+.|++++|...+++. ...|+    ...+..+...+.
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~~~   87 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQY   87 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHH
Confidence            444556667777777777665542211110 134555666666666666666666655 12222    344555566666


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCchHHHHH
Q 041384          514 IHGRLEVAEMLAHQLIEAEPENAANYTLL  542 (580)
Q Consensus       514 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~l  542 (580)
                      ..|++++|...++++.+..|+++......
T Consensus        88 ~~g~~~~A~~~~~~~~~~~p~~~~~~~a~  116 (129)
T 2xev_A           88 GEGKNTEAQQTLQQVATQYPGSDAARVAQ  116 (129)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTTSHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHHCCCChHHHHHH
Confidence            66666666666666666666655544433

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.44  E-value=2.1e-06  Score=70.52  Aligned_cols=92  Identities=9%  Similarity=-0.086  Sum_probs=46.1

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHH
Q 041384          401 SWTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDL  479 (580)
Q Consensus       401 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  479 (580)
                      .+..+...+...|++++|+..|++..+.  .| +...+..+..++...|++++|+..++++++.  .+.+...+..+..+
T Consensus        13 ~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~   88 (164)
T 3sz7_A           13 KLKSEGNAAMARKEYSKAIDLYTQALSI--APANPIYLSNRAAAYSASGQHEKAAEDAELATVV--DPKYSKAWSRLGLA   88 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            3444455555555555555555555543  23 3444555555555555555555555554431  11224445555555


Q ss_pred             hhhcCChHHHHHHHHhC
Q 041384          480 LGKSGKIEDACKVVSTM  496 (580)
Q Consensus       480 ~~~~g~~~~A~~~~~~~  496 (580)
                      |...|++++|...|++.
T Consensus        89 ~~~~g~~~~A~~~~~~a  105 (164)
T 3sz7_A           89 RFDMADYKGAKEAYEKG  105 (164)
T ss_dssp             HHHTTCHHHHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHH
Confidence            55555555555555544

>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=98.42  E-value=2.6e-06  Score=83.07  Aligned_cols=93  Identities=14%  Similarity=0.098  Sum_probs=74.6

Q ss_pred             hhHHHHHHHHhhhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHH
Q 041384          470 IEHYACYVDLLGKSGKIEDACKVVSTM-P-MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCS  547 (580)
Q Consensus       470 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  547 (580)
                      ...|..+..+|.+.|++++|+..+++. . .+.+...|..+..+|...|++++|+..|+++++++|.+..++..++.++.
T Consensus       317 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~  396 (457)
T 1kt0_A          317 LAAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQK  396 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            356777888888888888888888887 2 33467788999999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHH-HHHHH
Q 041384          548 ESGNWLGAEE-VWRVM  562 (580)
Q Consensus       548 ~~g~~~~A~~-~~~~~  562 (580)
                      +.|++++|.. .+++|
T Consensus       397 ~~~~~~~a~~~~~~~~  412 (457)
T 1kt0_A          397 KAKEHNERDRRIYANM  412 (457)
T ss_dssp             HHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            9999988764 34444

>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=98.41  E-value=0.00024  Score=64.90  Aligned_cols=174  Identities=9%  Similarity=-0.030  Sum_probs=107.9

Q ss_pred             HHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccC-ChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhc-C-C
Q 041384          307 GYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQS-FLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKC-G-S  383 (580)
Q Consensus       307 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g-~  383 (580)
                      .....+..++|+.++.++...+ +-+...++.--..+...+ .+++++.+++.+.... +-+..+|+.-..++.+. + +
T Consensus        63 ~~~~~e~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~  140 (349)
T 3q7a_A           63 IAAKEEKSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQD  140 (349)
T ss_dssp             HHHTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSC
T ss_pred             HHHhCCCCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCC
Confidence            3344555678999999988774 234445555555555566 5888888888888754 34556666655555555 5 7


Q ss_pred             HHHHHHHHhcCCCCC---cchHHHHHHHHHhcCChH--------HHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCC---
Q 041384          384 ITSSHQIFNEMAARD---FVSWTTLISGYGFHGYGE--------EALQLFLEMQESGVEPDAITVLAILSACNHAGL---  449 (580)
Q Consensus       384 ~~~A~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~---  449 (580)
                      ++++.++++++.+.|   ...|+.-.-.+.+.+.++        ++++.++++.+.. .-|...++.....+.+.++   
T Consensus       141 ~~~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~~~  219 (349)
T 3q7a_A          141 PVSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGAET  219 (349)
T ss_dssp             CHHHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTCCC
T ss_pred             hHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcccccc
Confidence            788888888877644   345554444444444444        7788888887753 2356666666666666654   


Q ss_pred             ----HHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCC
Q 041384          450 ----VKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGK  485 (580)
Q Consensus       450 ----~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  485 (580)
                          ++++++.+++++.  -.+-|...|+.+-..+.+.|+
T Consensus       220 ~~~~~~eELe~~~~aI~--~~P~n~SaW~Ylr~Ll~~~~~  257 (349)
T 3q7a_A          220 SSRSLQDELIYILKSIH--LIPHNVSAWNYLRGFLKHFSL  257 (349)
T ss_dssp             CHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTC
T ss_pred             chHHHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHhcCC
Confidence                5677777776654  223344555555555555444

>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=98.40  E-value=2.7e-06  Score=67.32  Aligned_cols=113  Identities=12%  Similarity=-0.069  Sum_probs=84.5

Q ss_pred             CCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHH
Q 041384          432 PDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP--MKPSTRILSSLV  509 (580)
Q Consensus       432 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~  509 (580)
                      .+...+..+...+...|++++|...|+++++.  .+.+...+..+..++...|++++|...+++..  .+.+...+..+.
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~   84 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   84 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhh--CcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHH
Confidence            35567777777788888888888888886652  23346677778888888888888888887762  234677888888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCC-----CchHHHHHHHHH
Q 041384          510 SACRIHGRLEVAEMLAHQLIEAEPE-----NAANYTLLSMVC  546 (580)
Q Consensus       510 ~~~~~~~~~~~A~~~~~~~~~~~~~-----~~~~~~~l~~~~  546 (580)
                      ..+...|++++|+..++++.+..|.     +..+...+..+.
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~l~~~~  126 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALRIAK  126 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCCCTTHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHChhHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999988876     555555555443

>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=98.39  E-value=3.1e-06  Score=69.57  Aligned_cols=97  Identities=14%  Similarity=-0.023  Sum_probs=87.3

Q ss_pred             hHHHHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHh
Q 041384          471 EHYACYVDLLGKSGKIEDACKVVSTMP--MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSE  548 (580)
Q Consensus       471 ~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~  548 (580)
                      ..+..+...+...|++++|...|++..  .+.+...+..+...+...|++++|+..++++.+..|.++..+..++.++..
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~   93 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMA   93 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence            456778888999999999999999872  344778899999999999999999999999999999999999999999999


Q ss_pred             cCChHHHHHHHHHHHhCCC
Q 041384          549 SGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       549 ~g~~~~A~~~~~~~~~~~~  567 (580)
                      .|++++|.+.+++..+...
T Consensus        94 ~~~~~~A~~~~~~a~~~~p  112 (166)
T 1a17_A           94 LGKFRAALRDYETVVKVKP  112 (166)
T ss_dssp             TTCHHHHHHHHHHHHHHST
T ss_pred             hccHHHHHHHHHHHHHhCC
Confidence            9999999999999987654

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.39  E-value=4e-07  Score=69.93  Aligned_cols=90  Identities=14%  Similarity=0.103  Sum_probs=40.4

Q ss_pred             cCCHHHHHHHHHHHHHhhC--CCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CC-CCCHHHHHHHHHHHHhcCCHHHHH
Q 041384          447 AGLVKEAETLFNNVMKEKK--IALAIEHYACYVDLLGKSGKIEDACKVVSTM-PM-KPSTRILSSLVSACRIHGRLEVAE  522 (580)
Q Consensus       447 ~~~~~~a~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~~~~~~A~  522 (580)
                      .|++++|+..|+++++ .+  .+.+...+..+..+|...|++++|+..|++. .. +.+...+..+..++...|++++|+
T Consensus         3 ~g~~~~A~~~~~~al~-~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIA-SGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHS-SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHH-cCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHH
Confidence            3555555566655443 11  1122334444555555555555555555544 11 223444444555555555555555


Q ss_pred             HHHHHHHhcCCCCch
Q 041384          523 MLAHQLIEAEPENAA  537 (580)
Q Consensus       523 ~~~~~~~~~~~~~~~  537 (580)
                      ..++++.+..|.++.
T Consensus        82 ~~~~~al~~~p~~~~   96 (117)
T 3k9i_A           82 ELLLKIIAETSDDET   96 (117)
T ss_dssp             HHHHHHHHHHCCCHH
T ss_pred             HHHHHHHHhCCCcHH
Confidence            555555555554444

>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=98.38  E-value=4e-05  Score=70.07  Aligned_cols=213  Identities=9%  Similarity=0.040  Sum_probs=152.1

Q ss_pred             CChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcC-CHHHHHHHHhcCCCC---CcchHHHHHHHHHhc-C-ChHHHHH
Q 041384          347 SFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCG-SITSSHQIFNEMAAR---DFVSWTTLISGYGFH-G-YGEEALQ  420 (580)
Q Consensus       347 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~-~-~~~~a~~  420 (580)
                      +..++|+++++.+.... +-+..+|+.--..+...| .+++++.+++.+...   +..+|+.-...+... + +++++++
T Consensus        68 e~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPKny~aW~hR~wlL~~l~~~~~~~EL~  146 (349)
T 3q7a_A           68 EKSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLKSYQVWHHRLLLLDRISPQDPVSEIE  146 (349)
T ss_dssp             CCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHCCSCCHHHHH
T ss_pred             CCCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCCChHHHHH
Confidence            34567888888888765 345566676666677777 599999999988764   445677666666665 6 8899999


Q ss_pred             HHHHHHHcCCCC-CHHHHHHHHHHHhccCCHH--------HHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCC------
Q 041384          421 LFLEMQESGVEP-DAITVLAILSACNHAGLVK--------EAETLFNNVMKEKKIALAIEHYACYVDLLGKSGK------  485 (580)
Q Consensus       421 ~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~------  485 (580)
                      .++++.+.  .| |...+..-...+.+.|.++        ++++.++++++.  .+-+...|+.....+.+.++      
T Consensus       147 ~~~k~L~~--dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~--dp~N~SAW~~R~~lL~~l~~~~~~~~  222 (349)
T 3q7a_A          147 YIHGSLLP--DPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRV--DGRNNSAWGWRWYLRVSRPGAETSSR  222 (349)
T ss_dssp             HHHHHTSS--CTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHTTSTTCCCCHH
T ss_pred             HHHHHHHh--CCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccccccchH
Confidence            99999985  44 6667666555555555555        899999987762  34466778888888888776      


Q ss_pred             -hHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCH--------------------HHHHHHHHHHHhcC------CCCc
Q 041384          486 -IEDACKVVSTM-P-MKPSTRILSSLVSACRIHGRL--------------------EVAEMLAHQLIEAE------PENA  536 (580)
Q Consensus       486 -~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~~~~--------------------~~A~~~~~~~~~~~------~~~~  536 (580)
                       ++++++.++++ . .+-|...|+.+-..+.+.|+.                    ....+....+....      +.++
T Consensus       223 ~~~eELe~~~~aI~~~P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~  302 (349)
T 3q7a_A          223 SLQDELIYILKSIHLIPHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVP  302 (349)
T ss_dssp             HHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSCCH
T ss_pred             HHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCCcH
Confidence             68888888777 3 344778888877777776653                    33444444444332      5788


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 041384          537 ANYTLLSMVCSESGNWLGAEEVWRVMRA  564 (580)
Q Consensus       537 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (580)
                      .++..++++|...|+.++|.++++.+.+
T Consensus       303 ~al~~l~d~~~~~~~~~~a~~~~~~l~~  330 (349)
T 3q7a_A          303 LALEYLADSFIEQNRVDDAAKVFEKLSS  330 (349)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHh
Confidence            8899999999999999999999999864

>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=98.37  E-value=1.6e-06  Score=67.94  Aligned_cols=109  Identities=3%  Similarity=-0.037  Sum_probs=75.7

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC-C----CCC----HHHH
Q 041384          435 ITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP-M----KPS----TRIL  505 (580)
Q Consensus       435 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~----~p~----~~~~  505 (580)
                      ..+..+...+...|++++|...++++++.  .+.+...+..+...|...|++++|...+++.. .    .++    ...+
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   82 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAY   82 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHH
Confidence            45666777778888888888888886652  23345667777777778888888888777762 1    122    5567


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHH
Q 041384          506 SSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVC  546 (580)
Q Consensus       506 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  546 (580)
                      ..+...+...|++++|...++++.+..| ++.....+..+.
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~  122 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAEHR-TPDVLKKCQQAE  122 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCC-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhCC-CHHHHHHHHHHH
Confidence            7777777788888888888888877776 565555555544

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.36  E-value=1.5e-06  Score=71.28  Aligned_cols=103  Identities=17%  Similarity=0.070  Sum_probs=63.8

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHHHhhC----------------CCCChhHHHHHHHHhhhcCChHHHHHHHHhC-
Q 041384          434 AITVLAILSACNHAGLVKEAETLFNNVMKEKK----------------IALAIEHYACYVDLLGKSGKIEDACKVVSTM-  496 (580)
Q Consensus       434 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----------------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-  496 (580)
                      ...+......+.+.|++++|+..|.+++....                .+.....|..+..+|.+.|++++|+..+++. 
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            35567777888889999999999988765310                0111344555666666666666666666555 


Q ss_pred             CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCc
Q 041384          497 PM-KPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENA  536 (580)
Q Consensus       497 ~~-~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~  536 (580)
                      .. +.+...|..+..++...|++++|+..++++++.+|.++
T Consensus        91 ~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~~  131 (162)
T 3rkv_A           91 KREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAAA  131 (162)
T ss_dssp             HHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGH
T ss_pred             hcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCCH
Confidence            22 23455566666666666666666666666666666655

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.36  E-value=2.1e-06  Score=70.25  Aligned_cols=130  Identities=12%  Similarity=-0.068  Sum_probs=80.3

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCC----hhHHHHHHHHhhhcCChHHHHHHHHhCC----CCC----CHH
Q 041384          436 TVLAILSACNHAGLVKEAETLFNNVMKEKKIALA----IEHYACYVDLLGKSGKIEDACKVVSTMP----MKP----STR  503 (580)
Q Consensus       436 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~p----~~~  503 (580)
                      ++..+...+...|++++|...++++++...-.++    ..++..+...+...|++++|.+.+++..    ..+    ...
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            3444444555555555555555554432111111    1245555556666666666666665541    011    134


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCC------CCchHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 041384          504 ILSSLVSACRIHGRLEVAEMLAHQLIEAEP------ENAANYTLLSMVCSESGNWLGAEEVWRVMRAK  565 (580)
Q Consensus       504 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~------~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (580)
                      .+..+...+...|++++|...++++.+..+      ....++..++.++...|++++|.+.+++..+.
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  158 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  158 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            566777788888888888888888876531      23456888999999999999999999887653

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.35  E-value=1.2e-05  Score=78.18  Aligned_cols=163  Identities=9%  Similarity=-0.054  Sum_probs=114.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCCH----HHHHHHHHHHhccCCHHHHHHHHHHHHHh---hCCCCC-hhH
Q 041384          402 WTTLISGYGFHGYGEEALQLFLEMQESG-VEPDA----ITVLAILSACNHAGLVKEAETLFNNVMKE---KKIALA-IEH  472 (580)
Q Consensus       402 ~~~l~~~~~~~~~~~~a~~~~~~~~~~g-~~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~-~~~  472 (580)
                      +..+...|...|++++|.+.+..+...- -.++.    ...+.+...+...|+++.|..+++..+..   .+..+. ..+
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            5667778888888888888887765421 11222    12333444455678899999888876542   222222 456


Q ss_pred             HHHHHHHhhhcCChHHHHHHHHhCC-------CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC---CCC----ch
Q 041384          473 YACYVDLLGKSGKIEDACKVVSTMP-------MKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAE---PEN----AA  537 (580)
Q Consensus       473 ~~~l~~~~~~~g~~~~A~~~~~~~~-------~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~---~~~----~~  537 (580)
                      +..++..|...|++++|..++++..       .++ ...++..++..|...|++++|...++++....   +.+    ..
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            7788899999999999999888761       112 23577888899999999999999999988654   222    34


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHh
Q 041384          538 NYTLLSMVCSESGNWLGAEEVWRVMRA  564 (580)
Q Consensus       538 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (580)
                      .+..++..+...|++++|...+.+..+
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            577788888899999999988877654

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.34  E-value=1.1e-06  Score=81.91  Aligned_cols=151  Identities=12%  Similarity=-0.024  Sum_probs=81.9

Q ss_pred             chHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHH
Q 041384          400 VSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDL  479 (580)
Q Consensus       400 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  479 (580)
                      ..+..+...+.+.|++++|+..|++..+.  .|+...       +...++.+++...+.           ...|..+..+
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l~-----------~~~~~nla~~  239 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAVK-----------NPCHLNIAAC  239 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHHH-----------THHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHHH-----------HHHHHHHHHH
Confidence            35666667777788888888888887764  454332       223344444332221           1367888999


Q ss_pred             hhhcCChHHHHHHHHhC-CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHH-HHhcCChHHHH
Q 041384          480 LGKSGKIEDACKVVSTM-PMK-PSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMV-CSESGNWLGAE  556 (580)
Q Consensus       480 ~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~~~A~  556 (580)
                      |.+.|++++|+..+++. ... .+...|..+..+|...|++++|+..|+++.+.+|.++.++..+..+ ....+..+++.
T Consensus       240 ~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a~  319 (338)
T 2if4_A          240 LIKLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQK  319 (338)
T ss_dssp             HHTTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC---------------------------
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999887 333 4678899999999999999999999999999999999999998887 44567788889


Q ss_pred             HHHHHHHhCCCccC
Q 041384          557 EVWRVMRAKGLSKS  570 (580)
Q Consensus       557 ~~~~~~~~~~~~~~  570 (580)
                      ..++++........
T Consensus       320 ~~~~~~l~~~p~~~  333 (338)
T 2if4_A          320 EMYKGIFKGKDEGG  333 (338)
T ss_dssp             --------------
T ss_pred             HHHHHhhCCCCCCC
Confidence            99998877655433

>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=98.33  E-value=1.6e-06  Score=84.97  Aligned_cols=117  Identities=7%  Similarity=-0.066  Sum_probs=92.3

Q ss_pred             HHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHH
Q 041384          442 SACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLE  519 (580)
Q Consensus       442 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~  519 (580)
                      ..+.+.|++++|.+.++++++.  .+.+...+..+..+|.+.|++++|++.+++. ...| +...+..+..+|...|+++
T Consensus        14 ~~~~~~g~~~~A~~~~~~Al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~~   91 (477)
T 1wao_1           14 NDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFR   91 (477)
T ss_dssp             SSTTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHH
Confidence            3456778888888888887652  2334667788888888888888888888877 2344 6778899999999999999


Q ss_pred             HHHHHHHHHHhcCCCCchHHHHHHHH--HHhcCChHHHHHHHH
Q 041384          520 VAEMLAHQLIEAEPENAANYTLLSMV--CSESGNWLGAEEVWR  560 (580)
Q Consensus       520 ~A~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~A~~~~~  560 (580)
                      +|+..++++.+..|.++..+..++.+  +.+.|++++|++.++
T Consensus        92 eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           92 AALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            99999999999999999999999888  888999999999988

>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=98.32  E-value=4.6e-06  Score=75.44  Aligned_cols=111  Identities=12%  Similarity=-0.083  Sum_probs=85.1

Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHH
Q 041384          433 DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVS  510 (580)
Q Consensus       433 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~  510 (580)
                      +...+..+...+...|++++|...|+++++.  .+.+...+..+..+|.+.|++++|+..+++. ...| +...+..+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            4566777888888899999999999987763  2335677888888888899999999888886 3444 5677888888


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHH
Q 041384          511 ACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMV  545 (580)
Q Consensus       511 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  545 (580)
                      ++...|++++|+..++++.+.+|.++..+...++.
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~  115 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPS  115 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCccchhhHHHHHHH
Confidence            88888999999999999888887765444434433

>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=98.27  E-value=3.7e-06  Score=65.75  Aligned_cols=94  Identities=13%  Similarity=0.011  Sum_probs=44.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCC-CCC----hhHHHHH
Q 041384          402 WTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKI-ALA----IEHYACY  476 (580)
Q Consensus       402 ~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~----~~~~~~l  476 (580)
                      +..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...++++++.... .++    ..++..+
T Consensus         7 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~l   85 (131)
T 1elr_A            7 EKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHH
Confidence            4444445555555555555555555431 223344444555555555555555555554432111 111    3344445


Q ss_pred             HHHhhhcCChHHHHHHHHhC
Q 041384          477 VDLLGKSGKIEDACKVVSTM  496 (580)
Q Consensus       477 ~~~~~~~g~~~~A~~~~~~~  496 (580)
                      ..++...|++++|.+.|++.
T Consensus        86 a~~~~~~~~~~~A~~~~~~~  105 (131)
T 1elr_A           86 GNSYFKEEKYKDAIHFYNKS  105 (131)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHH
Confidence            55555555555555555544

>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=98.25  E-value=8.1e-06  Score=76.85  Aligned_cols=89  Identities=15%  Similarity=0.006  Sum_probs=78.5

Q ss_pred             hhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHH
Q 041384          470 IEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCS  547 (580)
Q Consensus       470 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  547 (580)
                      ...|..+..+|.+.|++++|+..+++. ...| +...+..+..+|...|++++|+..++++.+..|.+..++..+..++.
T Consensus       273 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~~  352 (370)
T 1ihg_A          273 LSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQ  352 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            567888889999999999999999887 4445 67788999999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHHH
Q 041384          548 ESGNWLGAEEV  558 (580)
Q Consensus       548 ~~g~~~~A~~~  558 (580)
                      ..|+.+++.+.
T Consensus       353 ~~~~~~~a~k~  363 (370)
T 1ihg_A          353 KIKAQKDKEKA  363 (370)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHHHH
Confidence            98888887654

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.25  E-value=5.9e-06  Score=62.46  Aligned_cols=99  Identities=13%  Similarity=0.038  Sum_probs=55.6

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC---CHHHHHHHHHH
Q 041384          436 TVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKP---STRILSSLVSA  511 (580)
Q Consensus       436 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p---~~~~~~~l~~~  511 (580)
                      .+..+...+...|++++|...++++++.  .+.+...+..+...+...|++++|...+++. ...|   +...+..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~~   85 (112)
T 2kck_A            8 EYYLEGVLQYDAGNYTESIDLFEKAIQL--DPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKADA   85 (112)
T ss_dssp             GGGGHHHHHHSSCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHHH
Confidence            3344444555555555555555554431  1223444555555555566666666655554 1222   35566666666


Q ss_pred             HHhc-CCHHHHHHHHHHHHhcCCCCc
Q 041384          512 CRIH-GRLEVAEMLAHQLIEAEPENA  536 (580)
Q Consensus       512 ~~~~-~~~~~A~~~~~~~~~~~~~~~  536 (580)
                      +... |++++|.+.++++....|.++
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~p~~~  111 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARAKLEHHHHH  111 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHHGGGCCCCC
T ss_pred             HHHHhCCHHHHHHHHHHHhhcccCCC
Confidence            7777 777777777777777766543

>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=98.24  E-value=1.1e-05  Score=68.73  Aligned_cols=65  Identities=12%  Similarity=-0.024  Sum_probs=60.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          503 RILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       503 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      ..+..+...+...|++++|+..++++.+..|.++.++..++.+|...|++++|.+.+++..+...
T Consensus        89 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p  153 (198)
T 2fbn_A           89 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNP  153 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC
Confidence            67888899999999999999999999999999999999999999999999999999999887643

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.24  E-value=2.3e-05  Score=61.02  Aligned_cols=92  Identities=17%  Similarity=0.154  Sum_probs=63.5

Q ss_pred             HHHHHhhhcCChHHHHHHHHhCC-CCCC-H---HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC---chHHHHHHHHH
Q 041384          475 CYVDLLGKSGKIEDACKVVSTMP-MKPS-T---RILSSLVSACRIHGRLEVAEMLAHQLIEAEPEN---AANYTLLSMVC  546 (580)
Q Consensus       475 ~l~~~~~~~g~~~~A~~~~~~~~-~~p~-~---~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~---~~~~~~l~~~~  546 (580)
                      .+...+...|++++|...|++.. ..|+ .   ..+..+...+...|++++|+..++++.+..|.+   +.++..++.++
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~~   86 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQ   86 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHH
Confidence            45566667777777777777662 2232 2   366667777777777777777777777777777   66677777777


Q ss_pred             HhcCChHHHHHHHHHHHhCC
Q 041384          547 SESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       547 ~~~g~~~~A~~~~~~~~~~~  566 (580)
                      ...|++++|...++++.+..
T Consensus        87 ~~~g~~~~A~~~~~~~~~~~  106 (129)
T 2xev_A           87 YGEGKNTEAQQTLQQVATQY  106 (129)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS
T ss_pred             HHcCCHHHHHHHHHHHHHHC
Confidence            77777777777777776644

>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=98.23  E-value=5e-06  Score=77.39  Aligned_cols=98  Identities=9%  Similarity=-0.079  Sum_probs=88.5

Q ss_pred             hhHHHHHHHHhhhcCChHHHHHHHHhC-CCCCC----------------HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 041384          470 IEHYACYVDLLGKSGKIEDACKVVSTM-PMKPS----------------TRILSSLVSACRIHGRLEVAEMLAHQLIEAE  532 (580)
Q Consensus       470 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----------------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  532 (580)
                      ...+..+...|.+.|++++|+..|++. ...|+                ...|..+...+.+.|++++|+..++++++.+
T Consensus       147 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  226 (336)
T 1p5q_A          147 STIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD  226 (336)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            556788899999999999999999987 33343                4789999999999999999999999999999


Q ss_pred             CCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          533 PENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       533 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      |.++.++..++.+|...|++++|+..|+++.+..+
T Consensus       227 p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P  261 (336)
T 1p5q_A          227 SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYP  261 (336)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS
T ss_pred             CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCC
Confidence            99999999999999999999999999999987654

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.22  E-value=6.8e-06  Score=63.27  Aligned_cols=96  Identities=11%  Similarity=0.016  Sum_probs=59.8

Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcC
Q 041384          439 AILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHG  516 (580)
Q Consensus       439 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~  516 (580)
                      .+...+.+.|++++|...++++++.  .+.+...+..+..++...|++++|+..|++. ...| +...+..+..++...|
T Consensus        22 ~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~~g   99 (121)
T 1hxi_A           22 EEGLSMLKLANLAEAALAFEAVCQK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEH   99 (121)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcC
Confidence            3445556666777777777665542  2234555666666677777777777777665 2333 5567777778888888


Q ss_pred             CHHHHHHHHHHHHhcCCCCc
Q 041384          517 RLEVAEMLAHQLIEAEPENA  536 (580)
Q Consensus       517 ~~~~A~~~~~~~~~~~~~~~  536 (580)
                      ++++|+..++++++.+|.++
T Consensus       100 ~~~~A~~~~~~al~~~P~~~  119 (121)
T 1hxi_A          100 NANAALASLRAWLLSQPQYE  119 (121)
T ss_dssp             HHHHHHHHHHHHHC------
T ss_pred             CHHHHHHHHHHHHHhCcCCC
Confidence            88888888888888777654

>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=98.22  E-value=1.9e-05  Score=61.40  Aligned_cols=59  Identities=10%  Similarity=-0.076  Sum_probs=34.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 041384          402 WTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETLFNNVMK  462 (580)
Q Consensus       402 ~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  462 (580)
                      +..+...+.+.|++++|++.|++..+.  .| +...|..+..+|...|++++|+..++++++
T Consensus        11 ~~~lG~~~~~~~~~~~A~~~y~~Al~~--~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~   70 (127)
T 4gcn_A           11 EKDLGNAAYKQKDFEKAHVHYDKAIEL--DPSNITFYNNKAAVYFEEKKFAECVQFCEKAVE   70 (127)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHH
Confidence            444555666666666666666666653  33 345555566666666666666666666543

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.20  E-value=1.8e-06  Score=66.23  Aligned_cols=85  Identities=18%  Similarity=0.105  Sum_probs=65.4

Q ss_pred             hcCChHHHHHHHHhC-CC---CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHH
Q 041384          482 KSGKIEDACKVVSTM-PM---KP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAE  556 (580)
Q Consensus       482 ~~g~~~~A~~~~~~~-~~---~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  556 (580)
                      ..|++++|+..|++. ..   .| +...+..+...|...|++++|+..++++.+.+|.++.++..++.++...|++++|.
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            357788888888877 33   24 44677888888888899999999999998888888888888888888899999999


Q ss_pred             HHHHHHHhCC
Q 041384          557 EVWRVMRAKG  566 (580)
Q Consensus       557 ~~~~~~~~~~  566 (580)
                      +.+++..+..
T Consensus        82 ~~~~~al~~~   91 (117)
T 3k9i_A           82 ELLLKIIAET   91 (117)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhC
Confidence            8888877653

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.20  E-value=6.1e-06  Score=67.58  Aligned_cols=94  Identities=12%  Similarity=0.011  Sum_probs=63.8

Q ss_pred             HHHHHHHhhhcCChHHHHHHHHhCC-C------------------CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 041384          473 YACYVDLLGKSGKIEDACKVVSTMP-M------------------KP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAE  532 (580)
Q Consensus       473 ~~~l~~~~~~~g~~~~A~~~~~~~~-~------------------~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  532 (580)
                      +......+.+.|++++|+..|++.. .                  .| +...|..+..+|.+.|++++|+..++++++.+
T Consensus        14 ~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~~   93 (162)
T 3rkv_A           14 LRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKRE   93 (162)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcC
Confidence            3445566667777777777776651 1                  11 22456667777777777777777777777777


Q ss_pred             CCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 041384          533 PENAANYTLLSMVCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       533 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      |.++.+|..++.+|...|++++|...+++..+..
T Consensus        94 p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  127 (162)
T 3rkv_A           94 ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNH  127 (162)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcC
Confidence            7777777777777777777777777777766654

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.17  E-value=1.1e-05  Score=59.55  Aligned_cols=66  Identities=15%  Similarity=0.097  Sum_probs=57.2

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 041384          500 PSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAK  565 (580)
Q Consensus       500 p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (580)
                      .+...+..+...+...|++++|+..++++.+.+|.++.+|..++.+|...|++++|++.+++..+.
T Consensus         5 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l   70 (100)
T 3ma5_A            5 EDPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEV   70 (100)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            356778888888889999999999999999999999999999999999999999999998887653

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.15  E-value=6e-06  Score=80.19  Aligned_cols=123  Identities=14%  Similarity=0.122  Sum_probs=91.4

Q ss_pred             HhccCCHHHHHHHHHHHHHhhC--CCC----ChhHHHHHHHHhhhcCChHHHHHHHHhCC---------CCCCH-HHHHH
Q 041384          444 CNHAGLVKEAETLFNNVMKEKK--IAL----AIEHYACYVDLLGKSGKIEDACKVVSTMP---------MKPST-RILSS  507 (580)
Q Consensus       444 ~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---------~~p~~-~~~~~  507 (580)
                      +..+|++++|+.++++.++...  +.|    ...+++.|+..|...|++++|+.++++..         ..|+. .+++.
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            4567888888888877665321  112    25567788888888888888888777651         22332 46788


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHh-----cCCCCchH---HHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 041384          508 LVSACRIHGRLEVAEMLAHQLIE-----AEPENAAN---YTLLSMVCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       508 l~~~~~~~~~~~~A~~~~~~~~~-----~~~~~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      |...|...|++++|+.+++++++     .+|+++.+   ...+..++...|.+++|..+++++++.-
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~~  465 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREAA  465 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999886     35666554   5678888889999999999999998754

>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=98.15  E-value=0.00061  Score=61.99  Aligned_cols=129  Identities=12%  Similarity=0.045  Sum_probs=66.4

Q ss_pred             HhCCChh-HHHHHHHHHHHCCCCCCHHH-HHHHHHHhhccCC----------hHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 041384          309 SQSGDLS-EAMKLFSRMRLERIEPNSVT-LLAILSSCTRQSF----------LSHGLGVHCYIMKAGLNFDVSIGNALMN  376 (580)
Q Consensus       309 ~~~~~~~-~a~~~~~~m~~~~~~p~~~~-~~~ll~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~  376 (580)
                      .+.|.++ +|+.++..+...  .|+..| ++.--..+...+.          +++++.+++.+.... +-+..+|+.-.-
T Consensus        40 ~~~~e~s~eaL~~t~~~L~~--nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~w  116 (331)
T 3dss_A           40 RQAGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCW  116 (331)
T ss_dssp             HHTTCCSHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHcCCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            3455544 788888888865  454433 3322222211111          455666666666543 334555555444


Q ss_pred             HhHhcC--CHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCC-hHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 041384          377 MYSKCG--SITSSHQIFNEMAA---RDFVSWTTLISGYGFHGY-GEEALQLFLEMQESGVEPDAITVLAIL  441 (580)
Q Consensus       377 ~~~~~g--~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~g~~p~~~~~~~l~  441 (580)
                      ++.+.+  .++++..+++.+.+   .|...|+.-.-.+...|. ++++++.++++.+.. +-|...|+...
T Consensus       117 lL~~l~~~~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~-p~N~SAW~~R~  186 (331)
T 3dss_A          117 LLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRS  186 (331)
T ss_dssp             HHHHCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-SCCHHHHHHHH
T ss_pred             HHhccCcccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC-CCCHHHHHHHH
Confidence            454555  35666666666554   244455555555555555 366666666666642 22444444433

>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=98.14  E-value=0.00052  Score=62.42  Aligned_cols=214  Identities=10%  Similarity=-0.011  Sum_probs=147.1

Q ss_pred             HHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCC----------HHHHHHHHhcCCC---CCcchHHHHHHHHHhcC--C
Q 041384          350 SHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGS----------ITSSHQIFNEMAA---RDFVSWTTLISGYGFHG--Y  414 (580)
Q Consensus       350 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----------~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~--~  414 (580)
                      ++|+...+.+.... +-+..+|+.--..+...+.          ++++..+++.+..   ++..+|+.-.-.+...+  .
T Consensus        47 ~eaL~~t~~~L~~n-P~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PKny~aW~hR~wlL~~l~~~~  125 (331)
T 3dss_A           47 ESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPN  125 (331)
T ss_dssp             HHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHCSSCC
T ss_pred             HHHHHHHHHHHHHC-chhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHhccCccc
Confidence            46777777777554 2233344433333322222          5778888887765   35567777777777777  4


Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCC-HHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhc----------
Q 041384          415 GEEALQLFLEMQESGVEPDAITVLAILSACNHAGL-VKEAETLFNNVMKEKKIALAIEHYACYVDLLGKS----------  483 (580)
Q Consensus       415 ~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------  483 (580)
                      +++++..++++.+.. +-|...|+.-...+...|. ++++++.++++++.  .+-+...|+.....+.+.          
T Consensus       126 ~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~--~p~N~SAW~~R~~ll~~l~~~~~~~~~~  202 (331)
T 3dss_A          126 WARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITR--NFSNYSSWHYRSCLLPQLHPQPDSGPQG  202 (331)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHHSCCC------
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHhhhcccccccc
Confidence            899999999999863 3366777777777777787 68999999998763  344566676666555544          


Q ss_pred             ----CChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhc-----------CCHHHHHHHHHHHHhcCCCCchHHHHHHHHH
Q 041384          484 ----GKIEDACKVVSTM-P-MKPSTRILSSLVSACRIH-----------GRLEVAEMLAHQLIEAEPENAANYTLLSMVC  546 (580)
Q Consensus       484 ----g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~-----------~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  546 (580)
                          +.++++++.+.+. . .+-|...|+-+-..+.+.           +.++++++.++++.+..|++.-++..++...
T Consensus       203 ~~~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~pd~~w~l~~~~~~~  282 (331)
T 3dss_A          203 RLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLM  282 (331)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhCcccchHHHHHHHHH
Confidence                4578888888877 2 344777887666666554           4578999999999999999866554444322


Q ss_pred             ---HhcCChHHHHHHHHHHHhCCC
Q 041384          547 ---SESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       547 ---~~~g~~~~A~~~~~~~~~~~~  567 (580)
                         -..|..++....++++.+.++
T Consensus       283 ~~~~~~~~~~~~~~~l~~l~~~Dp  306 (331)
T 3dss_A          283 RALDPLLYEKETLQYFSTLKAVDP  306 (331)
T ss_dssp             HHHCTTTTHHHHHHHHHHHHHHCG
T ss_pred             HhhcccccHHHHHHHHHHHHHhCc
Confidence               246788899999999887553

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.13  E-value=1.6e-06  Score=65.71  Aligned_cols=92  Identities=13%  Similarity=-0.038  Sum_probs=73.7

Q ss_pred             hhHHHHHHHHhhhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC------chHHHH
Q 041384          470 IEHYACYVDLLGKSGKIEDACKVVSTM-P-MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPEN------AANYTL  541 (580)
Q Consensus       470 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~------~~~~~~  541 (580)
                      ...+..+...+...|++++|++.|++. . .+.+...+..+..++...|++++|+..++++.+..|.+      ...+..
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~   83 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEHVAIRSKLQYR   83 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccHHHHHHHHHHH
Confidence            445666777777888888888887776 2 23467788889999999999999999999999999998      778888


Q ss_pred             HHHHHHhcCChHHHHHHHHH
Q 041384          542 LSMVCSESGNWLGAEEVWRV  561 (580)
Q Consensus       542 l~~~~~~~g~~~~A~~~~~~  561 (580)
                      ++.++...|++++|.+.+++
T Consensus        84 ~~~~~~~~~~~~~a~~~~~~  103 (111)
T 2l6j_A           84 LELAQGAVGSVQIPVVEVDE  103 (111)
T ss_dssp             HHHHHHHHHCCCCCSSSSSS
T ss_pred             HHHHHHHHHhHhhhHhHHHH
Confidence            88888888888877765543

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.12  E-value=6.1e-05  Score=73.08  Aligned_cols=158  Identities=11%  Similarity=0.009  Sum_probs=116.1

Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCC----------------HHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCCh
Q 041384          407 SGYGFHGYGEEALQLFLEMQESGVEPD----------------AITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAI  470 (580)
Q Consensus       407 ~~~~~~~~~~~a~~~~~~~~~~g~~p~----------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  470 (580)
                      ..+...|++++|++.|..+.+......                ...+..+...|...|++++|.+++..+++-.+..++.
T Consensus        12 ~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~   91 (434)
T 4b4t_Q           12 RRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKS   91 (434)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccch
Confidence            345566777777777777776421110                1246778899999999999999999876643333322


Q ss_pred             ----hHHHHHHHHhhhcCChHHHHHHHHhC-------CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC------
Q 041384          471 ----EHYACYVDLLGKSGKIEDACKVVSTM-------PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAE------  532 (580)
Q Consensus       471 ----~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~------  532 (580)
                          .+.+.+...+...|+.++|..++++.       ...+ ...++..++..+...|++++|..+++++...-      
T Consensus        92 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~  171 (434)
T 4b4t_Q           92 KTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDK  171 (434)
T ss_dssp             HHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCS
T ss_pred             HHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccc
Confidence                23444555667789999999988765       1222 34677889999999999999999999987542      


Q ss_pred             CCCchHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 041384          533 PENAANYTLLSMVCSESGNWLGAEEVWRVMRA  564 (580)
Q Consensus       533 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (580)
                      |....++..++..|...|++++|..++++...
T Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~  203 (434)
T 4b4t_Q          172 PSLVDVHLLESKVYHKLRNLAKSKASLTAART  203 (434)
T ss_dssp             THHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Confidence            33456789999999999999999999998765

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=98.09  E-value=2.5e-05  Score=56.26  Aligned_cols=73  Identities=15%  Similarity=0.162  Sum_probs=63.9

Q ss_pred             CCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCCccCCc
Q 041384          499 KPSTRILSSLVSACRIHGR---LEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGLSKSYG  572 (580)
Q Consensus       499 ~p~~~~~~~l~~~~~~~~~---~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  572 (580)
                      ++++..+..+..++...++   .++|..+++++++.+|.++.....++..+.+.|++++|+.+|+++.+.... +|.
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~-~~~   78 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP-NLD   78 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT-TCC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-Ccc
Confidence            4577788888888865554   699999999999999999999999999999999999999999999998766 554

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.08  E-value=1.4e-05  Score=60.94  Aligned_cols=64  Identities=16%  Similarity=0.235  Sum_probs=35.6

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 041384          501 STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRA  564 (580)
Q Consensus       501 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (580)
                      +...+..+...+...|++++|+..++++.+.+|.++..+..++.+|...|++++|...+++..+
T Consensus        18 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A           18 NMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3445555555555555555555555555555555555555555555555555555555555443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.07  E-value=2.2e-05  Score=63.96  Aligned_cols=132  Identities=14%  Similarity=-0.009  Sum_probs=82.3

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CCCH----HHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCC----hh
Q 041384          401 SWTTLISGYGFHGYGEEALQLFLEMQESGV-EPDA----ITVLAILSACNHAGLVKEAETLFNNVMKEKKIALA----IE  471 (580)
Q Consensus       401 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~-~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~  471 (580)
                      ++..+...+...|++++|+..+++..+... .++.    .++..+...+...|++++|...++++++.....++    ..
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            344555556666666666666666554210 0111    35566666777777777777777775542211111    34


Q ss_pred             HHHHHHHHhhhcCChHHHHHHHHhCC----CCC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 041384          472 HYACYVDLLGKSGKIEDACKVVSTMP----MKP----STRILSSLVSACRIHGRLEVAEMLAHQLIEAE  532 (580)
Q Consensus       472 ~~~~l~~~~~~~g~~~~A~~~~~~~~----~~p----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  532 (580)
                      .+..+...+...|++++|.+.+++..    ...    ....+..+...+...|++++|...++++.+..
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            56667777777888888877776651    011    13456777888888999999999998887654

>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=98.06  E-value=1.3e-05  Score=63.51  Aligned_cols=112  Identities=13%  Similarity=-0.064  Sum_probs=80.9

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC--------H-----HHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCC
Q 041384          401 SWTTLISGYGFHGYGEEALQLFLEMQESGVEPD--------A-----ITVLAILSACNHAGLVKEAETLFNNVMKEKKIA  467 (580)
Q Consensus       401 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~--------~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  467 (580)
                      .+......+...|++++|+..|++..+.  .|+        .     ..|..+..++.+.|++++|+..++++++-    
T Consensus        13 ~~~~~G~~l~~~g~~eeAi~~Y~kAL~l--~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l----   86 (159)
T 2hr2_A           13 LALSDAQRQLVAGEYDEAAANCRRAMEI--SHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHY----   86 (159)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH--HTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhh--CCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh----
Confidence            4566777888999999999999999985  454        1     25555666666666666666666664431    


Q ss_pred             CChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCCC-HHHH----HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHH
Q 041384          468 LAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKPS-TRIL----SSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTL  541 (580)
Q Consensus       468 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~----~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  541 (580)
                                               |++. +..|+ ...|    .....++...|++++|+..|++++++.|.+..+...
T Consensus        87 -------------------------~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~~~~  141 (159)
T 2hr2_A           87 -------------------------FNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPG  141 (159)
T ss_dssp             -------------------------HHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCCTT
T ss_pred             -------------------------hhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHH
Confidence                                     2111 23564 4567    888899999999999999999999999988875544


Q ss_pred             HH
Q 041384          542 LS  543 (580)
Q Consensus       542 l~  543 (580)
                      +.
T Consensus       142 ~~  143 (159)
T 2hr2_A          142 KE  143 (159)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.02  E-value=2.7e-05  Score=56.13  Aligned_cols=80  Identities=18%  Similarity=0.152  Sum_probs=56.3

Q ss_pred             hHHHHHHHHhhhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHh
Q 041384          471 EHYACYVDLLGKSGKIEDACKVVSTM-P-MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSE  548 (580)
Q Consensus       471 ~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~  548 (580)
                      ..+..+...+...|++++|+..+++. . .+.+...+..+...+...|++++|+..++++.+.+|.++..+..++.++..
T Consensus        10 ~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~   89 (91)
T 1na3_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQK   89 (91)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHh
Confidence            34555566666666666666666655 1 233556677777788888888888888888888888888888888877765


Q ss_pred             cC
Q 041384          549 SG  550 (580)
Q Consensus       549 ~g  550 (580)
                      .|
T Consensus        90 ~g   91 (91)
T 1na3_A           90 QG   91 (91)
T ss_dssp             HC
T ss_pred             cC
Confidence            44

>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=98.02  E-value=0.00023  Score=70.89  Aligned_cols=167  Identities=5%  Similarity=-0.086  Sum_probs=129.8

Q ss_pred             HHHHHHHHhcCCCC---CcchHHHHHHHHHhcCC----------hHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccC-
Q 041384          384 ITSSHQIFNEMAAR---DFVSWTTLISGYGFHGY----------GEEALQLFLEMQESGVEP-DAITVLAILSACNHAG-  448 (580)
Q Consensus       384 ~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~-  448 (580)
                      -++|.+.++++...   +...|+.-...+...++          ++++++.++++.+.  .| +..+|..-...+.+.+ 
T Consensus        45 ~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~--~pK~y~aW~hR~w~l~~l~~  122 (567)
T 1dce_A           45 DESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV--NPKSYGTWHHRCWLLSRLPE  122 (567)
T ss_dssp             SHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTCSS
T ss_pred             CHHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHccc
Confidence            45667777766652   33456655555555555          89999999999885  45 6678888777888888 


Q ss_pred             -CHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcC-ChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhc---------
Q 041384          449 -LVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSG-KIEDACKVVSTM-PMKP-STRILSSLVSACRIH---------  515 (580)
Q Consensus       449 -~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~---------  515 (580)
                       ++++++..++++++.  .+-+...|+.-...+.+.| .++++++.++++ ...| +...|+.....+.+.         
T Consensus       123 ~~~~~el~~~~k~l~~--d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~~~  200 (567)
T 1dce_A          123 PNWARELELCARFLEA--DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQ  200 (567)
T ss_dssp             CCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSC
T ss_pred             ccHHHHHHHHHHHHhh--ccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhccccccccc
Confidence             779999999998763  3445777887777788888 899999999888 3444 778888887777663         


Q ss_pred             -----CCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHH
Q 041384          516 -----GRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLG  554 (580)
Q Consensus       516 -----~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  554 (580)
                           +.++++++.++++...+|.+..+|..+.+.+.+.|++++
T Consensus       201 ~~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          201 GRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             CSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCCSC
T ss_pred             ccccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhcCCCccc
Confidence                 557999999999999999999999999999999888655

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=97.97  E-value=2.7e-05  Score=75.88  Aligned_cols=114  Identities=6%  Similarity=-0.053  Sum_probs=83.5

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 041384          435 ITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRI  514 (580)
Q Consensus       435 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~  514 (580)
                      ..+..+...+.+.|++++|...|+++++.....++..              -+...+ ..    +.....|..+..+|.+
T Consensus       269 ~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~--------------~~~~~~-~~----~~~~~~~~nla~~~~~  329 (457)
T 1kt0_A          269 AIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLS--------------EKESKA-SE----SFLLAAFLNLAMCYLK  329 (457)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCC--------------HHHHHH-HH----HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCC--------------hHHHHH-HH----HHHHHHHHHHHHHHHH
Confidence            4566666667777777777777777655322221100              000000 00    0124678889999999


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          515 HGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       515 ~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      .|++++|+..++++++.+|.++.+|..++.+|...|++++|+..|+++.+...
T Consensus       330 ~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P  382 (457)
T 1kt0_A          330 LREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNP  382 (457)
T ss_dssp             TTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-
T ss_pred             hcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC
Confidence            99999999999999999999999999999999999999999999999988654

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=97.97  E-value=7.3e-06  Score=64.88  Aligned_cols=85  Identities=7%  Similarity=-0.052  Sum_probs=52.2

Q ss_pred             cCChHHHHHHHHhC-CC-CCCHHHHHHHHHHHHhcCC----------HHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcC
Q 041384          483 SGKIEDACKVVSTM-PM-KPSTRILSSLVSACRIHGR----------LEVAEMLAHQLIEAEPENAANYTLLSMVCSESG  550 (580)
Q Consensus       483 ~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~~~----------~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  550 (580)
                      .+.+++|++.+++. .. +.+...|..+..++...++          +++|+..|+++++++|++..+|..++.+|...|
T Consensus        15 ~~~feeA~~~~~~Ai~l~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~lg   94 (158)
T 1zu2_A           15 ILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSFA   94 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhc
Confidence            33444555544444 12 2244455555555554443          457777777777777777777777777777664


Q ss_pred             -----------ChHHHHHHHHHHHhCCC
Q 041384          551 -----------NWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       551 -----------~~~~A~~~~~~~~~~~~  567 (580)
                                 ++++|++.|++.++..+
T Consensus        95 ~l~P~~~~a~g~~~eA~~~~~kAl~l~P  122 (158)
T 1zu2_A           95 FLTPDETEAKHNFDLATQFFQQAVDEQP  122 (158)
T ss_dssp             HHCCCHHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             ccCcchhhhhccHHHHHHHHHHHHHhCC
Confidence                       67777777777766543

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.97  E-value=1.3e-05  Score=74.64  Aligned_cols=117  Identities=13%  Similarity=-0.008  Sum_probs=91.0

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 041384          434 AITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACR  513 (580)
Q Consensus       434 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~  513 (580)
                      ...+..+...+.+.|++++|...|+++++.   .|+..       .+...|+.+++...+.       ...|..+..+|.
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~---~p~~~-------~~~~~~~~~~~~~~l~-------~~~~~nla~~~~  241 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAY---MGDDF-------MFQLYGKYQDMALAVK-------NPCHLNIAACLI  241 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHH---SCHHH-------HHTCCHHHHHHHHHHH-------THHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH---hccch-------hhhhcccHHHHHHHHH-------HHHHHHHHHHHH
Confidence            456777778888899999999999987652   23321       1234445555544332       247888999999


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          514 IHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       514 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      +.|++++|+..++++++.+|.+..++..++.+|...|++++|...|++..+...
T Consensus       242 ~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p  295 (338)
T 2if4_A          242 KLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAP  295 (338)
T ss_dssp             TTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC---
T ss_pred             HcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCC
Confidence            999999999999999999999999999999999999999999999999766543

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=97.96  E-value=2.7e-05  Score=73.28  Aligned_cols=115  Identities=10%  Similarity=-0.008  Sum_probs=86.9

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCCCCC-CHHHHHHHHHHH
Q 041384          434 AITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKP-STRILSSLVSAC  512 (580)
Q Consensus       434 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p-~~~~~~~l~~~~  512 (580)
                      ...+..+...+.+.|++++|+..|+++++.....+             .....+++..      ..| +...|..+...|
T Consensus       223 a~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~-------------~~~~~~~~~~------~~~~~~~~~~nla~~~  283 (370)
T 1ihg_A          223 SEDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSR-------------AAAEDADGAK------LQPVALSCVLNIGACK  283 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHH-------------HHSCHHHHGG------GHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCc-------------cccChHHHHH------HHHHHHHHHHHHHHHH
Confidence            34566777778888888888888888665210000             0001111110      122 456888999999


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          513 RIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       513 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      .+.|++++|+..++++++.+|.++.++..++.+|...|++++|++.+++..+...
T Consensus       284 ~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P  338 (370)
T 1ihg_A          284 LKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAP  338 (370)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC
Confidence            9999999999999999999999999999999999999999999999999887653

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.90  E-value=5.3e-05  Score=57.01  Aligned_cols=68  Identities=18%  Similarity=0.103  Sum_probs=62.8

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCCc
Q 041384          501 STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGLS  568 (580)
Q Consensus       501 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  568 (580)
                      +...+..+...+...|++++|+..++++.+..|.++.++..++.++...|++++|++.+++..+....
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~   70 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTST   70 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSS
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC
Confidence            45678888999999999999999999999999999999999999999999999999999999876543

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.86  E-value=0.00018  Score=56.72  Aligned_cols=90  Identities=10%  Similarity=-0.103  Sum_probs=56.3

Q ss_pred             HHHHhhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHh---
Q 041384          476 YVDLLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRI----HGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSE---  548 (580)
Q Consensus       476 l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~---  548 (580)
                      |...|...+.+++|.+.|++....-++.....|...|..    .+++++|...++++.+.  .++.....|+..|..   
T Consensus        31 lg~~y~~g~~~~~A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~--g~~~a~~~Lg~~y~~G~g  108 (138)
T 1klx_A           31 LSLVSNSQINKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGL--NDQDGCLILGYKQYAGKG  108 (138)
T ss_dssp             HHHHTCTTSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT--TCHHHHHHHHHHHHHTSS
T ss_pred             HHHHHHcCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHcC--CCHHHHHHHHHHHHCCCC
Confidence            444444444555555555554323455555566666655    56777777777777665  456667777777777   


Q ss_pred             -cCChHHHHHHHHHHHhCCC
Q 041384          549 -SGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       549 -~g~~~~A~~~~~~~~~~~~  567 (580)
                       .+++++|.+.+++..+.|.
T Consensus       109 ~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A          109 VVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             SCCCHHHHHHHHHHHHHTTC
T ss_pred             CCcCHHHHHHHHHHHHHCCC
Confidence             6777777777777776654

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=97.84  E-value=6.8e-05  Score=73.32  Aligned_cols=93  Identities=15%  Similarity=0.019  Sum_probs=83.5

Q ss_pred             HHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCCh
Q 041384          475 CYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNW  552 (580)
Q Consensus       475 ~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  552 (580)
                      .+...+.+.|++++|++.+++. ...| +...|..+..+|.+.|++++|+..++++.+.+|.++.++..++.+|...|++
T Consensus        11 ~lg~~~~~~g~~~~A~~~~~~Al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~   90 (477)
T 1wao_1           11 TQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKF   90 (477)
T ss_dssp             SSSSSTTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH
Confidence            3455677899999999999988 3344 6789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhCCC
Q 041384          553 LGAEEVWRVMRAKGL  567 (580)
Q Consensus       553 ~~A~~~~~~~~~~~~  567 (580)
                      ++|.+.+++..+...
T Consensus        91 ~eA~~~~~~al~~~p  105 (477)
T 1wao_1           91 RAALRDYETVVKVKP  105 (477)
T ss_dssp             HHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHhCC
Confidence            999999999988654

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.76  E-value=0.00012  Score=52.59  Aligned_cols=67  Identities=19%  Similarity=0.178  Sum_probs=61.5

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          501 STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       501 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      +...+..+...+...|++++|+..++++.+..|.++..+..++.++...|++++|.+.+++..+...
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p   74 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP   74 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC
Confidence            3567788889999999999999999999999999999999999999999999999999999887653

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=97.75  E-value=0.00092  Score=66.61  Aligned_cols=153  Identities=10%  Similarity=0.016  Sum_probs=123.7

Q ss_pred             cCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCC----------HHHHHHHHHHHHHhhCCCCChhHHHHHHHHh
Q 041384          412 HGYGEEALQLFLEMQESGVEPDA-ITVLAILSACNHAGL----------VKEAETLFNNVMKEKKIALAIEHYACYVDLL  480 (580)
Q Consensus       412 ~~~~~~a~~~~~~~~~~g~~p~~-~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  480 (580)
                      ....++|++.++++...  .|+. ..|+.--.++...|+          +++++..++.+++  ..+-+..+|..-..++
T Consensus        42 ~~~~eeal~~~~~~l~~--nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~--~~pK~y~aW~hR~w~l  117 (567)
T 1dce_A           42 GELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLR--VNPKSYGTWHHRCWLL  117 (567)
T ss_dssp             TCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHH--hCCCCHHHHHHHHHHH
Confidence            33557889999999985  5654 556655555656666          8999999999876  3345567788777888


Q ss_pred             hhcC--ChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhc------
Q 041384          481 GKSG--KIEDACKVVSTM-P-MKPSTRILSSLVSACRIHG-RLEVAEMLAHQLIEAEPENAANYTLLSMVCSES------  549 (580)
Q Consensus       481 ~~~g--~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~~-~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~------  549 (580)
                      .+.|  +++++++.++++ . .+.+...|+.-...+.+.| .++++++.++++.+.+|.|..+|...+.++.+.      
T Consensus       118 ~~l~~~~~~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~  197 (567)
T 1dce_A          118 SRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDS  197 (567)
T ss_dssp             HTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCS
T ss_pred             HHcccccHHHHHHHHHHHHhhccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhcccccc
Confidence            8889  779999999998 2 4458889999888888999 899999999999999999999999999998774      


Q ss_pred             --------CChHHHHHHHHHHHhCCCc
Q 041384          550 --------GNWLGAEEVWRVMRAKGLS  568 (580)
Q Consensus       550 --------g~~~~A~~~~~~~~~~~~~  568 (580)
                              +.++++.+.++++....+.
T Consensus       198 ~~~~~~~~~~~~eel~~~~~ai~~~P~  224 (567)
T 1dce_A          198 GPQGRLPENVLLKELELVQNAFFTDPN  224 (567)
T ss_dssp             SSCCSSCHHHHHHHHHHHHHHHHHCSS
T ss_pred             cccccccHHHHHHHHHHHHHHHhhCCC
Confidence                    6679999999988775543

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.69  E-value=0.0002  Score=69.59  Aligned_cols=125  Identities=14%  Similarity=-0.027  Sum_probs=86.0

Q ss_pred             HHHhcCChHHHHHHHHHHHHc---CCCC---CH-HHHHHHHHHHhccCCHHHHHHHHHHHHHhh----C--CCCChhHHH
Q 041384          408 GYGFHGYGEEALQLFLEMQES---GVEP---DA-ITVLAILSACNHAGLVKEAETLFNNVMKEK----K--IALAIEHYA  474 (580)
Q Consensus       408 ~~~~~~~~~~a~~~~~~~~~~---g~~p---~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~--~~~~~~~~~  474 (580)
                      .+...|++++|+.++++..+.   -+.|   +. .+++.|..+|...|++++|..++++++.-.    |  .+....+++
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            345667777777777766543   1222   22 567788888888888888888888765421    1  112256688


Q ss_pred             HHHHHhhhcCChHHHHHHHHhCC------CC---CCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 041384          475 CYVDLLGKSGKIEDACKVVSTMP------MK---PST-RILSSLVSACRIHGRLEVAEMLAHQLIEAE  532 (580)
Q Consensus       475 ~l~~~~~~~g~~~~A~~~~~~~~------~~---p~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  532 (580)
                      .|...|...|++++|+.++++..      .-   |+. .+.+.+..++...+.+++|+.++.++++..
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~~  465 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREAA  465 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88888889999998888887761      22   333 244566667778889999999999987643

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.53  E-value=0.00033  Score=51.26  Aligned_cols=79  Identities=18%  Similarity=0.153  Sum_probs=60.8

Q ss_pred             HHHHhhhcCChHHHHHHHHhC-CCCC-CHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCCh
Q 041384          476 YVDLLGKSGKIEDACKVVSTM-PMKP-STR-ILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNW  552 (580)
Q Consensus       476 l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~-~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  552 (580)
                      ....+.+.|++++|+..+++. ...| +.. .+..+...+...|++++|+..++++.+.+|.++..+..        +.+
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~--------~~~   77 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPALQAR--------KMV   77 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHH--------HHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHH--------HHH
Confidence            456778889999999999887 2334 566 78888888999999999999999999999988886632        455


Q ss_pred             HHHHHHHHHH
Q 041384          553 LGAEEVWRVM  562 (580)
Q Consensus       553 ~~A~~~~~~~  562 (580)
                      .++...+++.
T Consensus        78 ~~a~~~~~~~   87 (99)
T 2kc7_A           78 MDILNFYNKD   87 (99)
T ss_dssp             HHHHHHHCCT
T ss_pred             HHHHHHHHHH
Confidence            5666665543

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.51  E-value=0.00056  Score=51.73  Aligned_cols=65  Identities=8%  Similarity=-0.097  Sum_probs=40.3

Q ss_pred             hhHHHHHHHHhhhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 041384          470 IEHYACYVDLLGKSGKIEDACKVVSTM-P-MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPE  534 (580)
Q Consensus       470 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  534 (580)
                      ...+..+...|...|++++|+..|++. . .+.+...|..+...+...|++++|...++++.+..|.
T Consensus        19 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~   85 (115)
T 2kat_A           19 MLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLAAAQS   85 (115)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccc
Confidence            444555555555666666666655554 1 2234556667777777777777777777777776653

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.51  E-value=0.002  Score=50.59  Aligned_cols=112  Identities=9%  Similarity=-0.112  Sum_probs=90.4

Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhh----cCChHH
Q 041384          413 GYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGK----SGKIED  488 (580)
Q Consensus       413 ~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~  488 (580)
                      +++++|++.|++..+.| .|+..    +...|...+.+++|.+.|++..+ .   -+......|...|..    .+++++
T Consensus         9 ~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~-~---g~~~a~~~Lg~~y~~G~g~~~d~~~   79 (138)
T 1klx_A            9 KDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACE-L---NSGNGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHH-T---TCHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             cCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHc-C---CCHHHHHHHHHHHHcCCCCCccHHH
Confidence            46788999999999887 44444    66777777888899999998665 3   355667778888877    789999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhcCC
Q 041384          489 ACKVVSTMPMKPSTRILSSLVSACRI----HGRLEVAEMLAHQLIEAEP  533 (580)
Q Consensus       489 A~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~  533 (580)
                      |.++|++....-++.....|...|..    .++.++|...++++.+.+.
T Consensus        80 A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           80 AAQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            99999988545677888889888988    8899999999999988764

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=97.50  E-value=1.3e-05  Score=74.32  Aligned_cols=238  Identities=10%  Similarity=0.101  Sum_probs=163.8

Q ss_pred             ChhHHHHHHHHHHcCCCchHHHHhhccCCCCCccchHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhc
Q 041384           62 DPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQ  141 (580)
Q Consensus        62 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~  141 (580)
                      .+.+|..|..+..+.+++.+|++-|-+  ..|+..|..+|.+..+.|.+++-+..+...++..-  ++..=+.|+-+|++
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsyIk--A~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~k--e~~IDteLi~ayAk  128 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSYIK--ADDPSSYMEVVQAANTSGNWEELVKYLQMARKKAR--ESYVETELIFALAK  128 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSSCC--CSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCC--STTTTHHHHHHHHT
T ss_pred             CccHHHHHHHHHHccCchHHHHHHHHh--CCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhc--ccccHHHHHHHHHh
Confidence            456788899999999999999876654  45788899999999999999999998887766533  44555678889999


Q ss_pred             cCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCC------------------------CCCee
Q 041384          142 IGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMV------------------------IRNEV  197 (580)
Q Consensus       142 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~------------------------~~~~~  197 (580)
                      .+++.+-++++.        .|+..-.....+-|...|.++.|.-+|..+.                        ..++.
T Consensus       129 ~~rL~elEefl~--------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~k  200 (624)
T 3lvg_A          129 TNRLAELEEFIN--------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTR  200 (624)
T ss_dssp             SCSSSTTTSTTS--------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSC
T ss_pred             hCcHHHHHHHHc--------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChh
Confidence            888776555432        3555555566677777777777777766551                        23778


Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHH
Q 041384          198 SWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYC  277 (580)
Q Consensus       198 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  277 (580)
                      +|..+-.+|...+.+.-|.-+--.+.-.   ||  ....++..|...|.+++-..+++.-+.. -......|+.|.-.|+
T Consensus       201 tWKeV~~ACvd~~EfrLAqicGLniIvh---ad--eL~elv~~YE~~G~f~ELIsLlEaglgl-ErAHmGmFTELaILYs  274 (624)
T 3lvg_A          201 TWKEVCFACVDGKEFRLAQMCGLHIVVH---AD--ELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYS  274 (624)
T ss_dssp             SHHHHTHHHHHSCTTTTTTHHHHHHHCC---SS--CCSGGGSSSSTTCCCTTSTTTHHHHTTS-TTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCchHHHHHHHhcchhccc---HH--HHHHHHHHHHhCCCHHHHHHHHHHHhCC-CchhHHHHHHHHHHHH
Confidence            9999999999999998886665554422   21  2233566688889999888887766521 1345667777887888


Q ss_pred             HcCCCHHHHHHHHh----hCCCC-------ChhhHHHHHHHHHhCCChhHHHH
Q 041384          278 ECTEALHPARIIFE----RTKVK-------DVVIWSSIIRGYSQSGDLSEAMK  319 (580)
Q Consensus       278 ~~~~~~~~a~~~~~----~~~~~-------~~~~~~~l~~~~~~~~~~~~a~~  319 (580)
                      +-..  +...+.++    ++.-|       ....|.-++-.|++-.+++.|..
T Consensus       275 KY~P--eKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~l  325 (624)
T 3lvg_A          275 KFKP--QKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII  325 (624)
T ss_dssp             SSCT--THHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHH
T ss_pred             hcCH--HHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHH
Confidence            7542  22222222    22222       34567777777777777776643

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=97.44  E-value=0.00018  Score=56.97  Aligned_cols=74  Identities=15%  Similarity=0.205  Sum_probs=46.7

Q ss_pred             HHHHHHHHhC-CCCC-CHHHHHHHHHHHHhc-----------CCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChH
Q 041384          487 EDACKVVSTM-PMKP-STRILSSLVSACRIH-----------GRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWL  553 (580)
Q Consensus       487 ~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~-----------~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  553 (580)
                      ++|+..|++. .+.| +...|..+..+|.+.           |++++|+..|+++++++|++......+-       ..+
T Consensus        63 ~eAi~~le~AL~ldP~~~~A~~~LG~ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~P~~~~y~~al~-------~~~  135 (158)
T 1zu2_A           63 QEAITKFEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPDNTHYLKSLE-------MTA  135 (158)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHH-------HHH
T ss_pred             HHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhcccCcchhhhhccHHHHHHHHHHHHHhCCCCHHHHHHHH-------HHH
Confidence            4555555554 2333 445566666666554           5899999999999999999876433332       234


Q ss_pred             HHHHHHHHHHhCCC
Q 041384          554 GAEEVWRVMRAKGL  567 (580)
Q Consensus       554 ~A~~~~~~~~~~~~  567 (580)
                      +|.++.-.+...+.
T Consensus       136 ka~el~~~~~~~~~  149 (158)
T 1zu2_A          136 KAPQLHAEAYKQGL  149 (158)
T ss_dssp             THHHHHHHHHHSSS
T ss_pred             hCHhccCccccccc
Confidence            56666655555443

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=97.41  E-value=0.022  Score=42.68  Aligned_cols=141  Identities=11%  Similarity=0.131  Sum_probs=103.3

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHH
Q 041384          409 YGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIED  488 (580)
Q Consensus       409 ~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  488 (580)
                      +.-.|..++..++..+....   .+..-|+.++.-....-+-+-..++++.+=+    ..|.          ..+|++..
T Consensus        17 ~ildG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGk----iFDi----------s~C~NlKr   79 (172)
T 1wy6_A           17 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGS----YFDL----------DKCQNLKS   79 (172)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGG----GSCG----------GGCSCTHH
T ss_pred             HHHhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhh----hcCc----------HhhhcHHH
Confidence            34567888888888888763   4566677777766677777777777777322    2222          23444444


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCCc
Q 041384          489 ACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGLS  568 (580)
Q Consensus       489 A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  568 (580)
                      ...-+-.+  ..+...++..+..+..+|.-++-..++..+....++++....-++.+|.+.|+..+|.+++.++=+.|++
T Consensus        80 Vi~C~~~~--n~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           80 VVECGVIN--NTLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             HHHHHHHT--TCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHh--cchHHHHHHHHHHHHHhccHhHHHHHHHHHhccCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            44444443  2355566777888899999999999999987788899999999999999999999999999999998875

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.41  E-value=0.00019  Score=52.62  Aligned_cols=58  Identities=17%  Similarity=0.290  Sum_probs=34.8

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCch-HHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 041384          509 VSACRIHGRLEVAEMLAHQLIEAEPENAA-NYTLLSMVCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       509 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      ...+...|++++|+..++++.+.+|.++. .+..++.+|...|++++|.+.+++..+..
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~   65 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN   65 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            34455556666666666666666666665 66666666666666666666666655543

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.33  E-value=0.00093  Score=48.98  Aligned_cols=63  Identities=19%  Similarity=0.154  Sum_probs=41.8

Q ss_pred             CcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 041384          398 DFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETLFNNVMK  462 (580)
Q Consensus       398 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  462 (580)
                      +...+..+...|...|++++|+..|++..+.  .| +...|..+..++...|++++|...+++.++
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVET--DPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3445666666677777777777777777664  33 445666677777777777777777776554

>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=97.22  E-value=0.00058  Score=65.14  Aligned_cols=82  Identities=10%  Similarity=0.052  Sum_probs=60.0

Q ss_pred             cCChHHHHHHHHhCC------CC---CC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhc-----CCCCc---hHHHHHHH
Q 041384          483 SGKIEDACKVVSTMP------MK---PS-TRILSSLVSACRIHGRLEVAEMLAHQLIEA-----EPENA---ANYTLLSM  544 (580)
Q Consensus       483 ~g~~~~A~~~~~~~~------~~---p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-----~~~~~---~~~~~l~~  544 (580)
                      .|++++|+.++++..      ..   |+ ..+++.|..+|...|++++|+.+++++++.     +|+++   ..++.|+.
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            456666666655440      12   22 246788888899999999999999888753     34444   45888999


Q ss_pred             HHHhcCChHHHHHHHHHHHh
Q 041384          545 VCSESGNWLGAEEVWRVMRA  564 (580)
Q Consensus       545 ~~~~~g~~~~A~~~~~~~~~  564 (580)
                      +|..+|++++|..++++..+
T Consensus       391 ~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHHH
Confidence            99999999999999988765

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=97.21  E-value=3e-05  Score=71.98  Aligned_cols=237  Identities=9%  Similarity=0.098  Sum_probs=153.0

Q ss_pred             chHHHhHHHHHhHhcCCHHHHHHHHhcCCCCCeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 041384          164 SVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACAE  243 (580)
Q Consensus       164 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  243 (580)
                      ...+|..|..+..+.+++.+|+..|-+  ..|...|..+|.+..+.|.+++-+..+...++..-.|  ..=+.++-+|++
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsyIk--A~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~ke~--~IDteLi~ayAk  128 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSYIK--ADDPSSYMEVVQAANTSGNWEELVKYLQMARKKARES--YVETELIFALAK  128 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSSCC--CSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCCST--TTTHHHHHHHHT
T ss_pred             CccHHHHHHHHHHccCchHHHHHHHHh--CCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhccc--ccHHHHHHHHHh
Confidence            456788888888888888887776643  3455677888888888888888888887666553333  333467778888


Q ss_pred             CCCchhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCC------------------------CCChh
Q 041384          244 LRDLRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTK------------------------VKDVV  299 (580)
Q Consensus       244 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~------------------------~~~~~  299 (580)
                      .++..+-++++.       .|+..-...+.+-|...|. ++.|+-+|..+.                        ..++.
T Consensus       129 ~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~l-YeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~k  200 (624)
T 3lvg_A          129 TNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKM-YDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTR  200 (624)
T ss_dssp             SCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCC-STTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSC
T ss_pred             hCcHHHHHHHHc-------CCCcccHHHHHHHHHHccC-HHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChh
Confidence            887766544432       3455455556666666666 666666665543                        13667


Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhH
Q 041384          300 IWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYS  379 (580)
Q Consensus       300 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  379 (580)
                      +|-.+-.+|...+++.-|.-.--.+.-   .||  ....++..|...|.+++-+.+++.-.... .....+|+-|.-.|+
T Consensus       201 tWKeV~~ACvd~~EfrLAqicGLniIv---had--eL~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELaILYs  274 (624)
T 3lvg_A          201 TWKEVCFACVDGKEFRLAQMCGLHIVV---HAD--ELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYS  274 (624)
T ss_dssp             SHHHHTHHHHHSCTTTTTTHHHHHHHC---CSS--CCSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCchHHHHHHHhcchhcc---cHH--HHHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHHHHH
Confidence            888888888888887766544333321   111  12334556777788888777777665321 346677777777776


Q ss_pred             hcCCHHHHHHHHhcCCC----C-------CcchHHHHHHHHHhcCChHHHH
Q 041384          380 KCGSITSSHQIFNEMAA----R-------DFVSWTTLISGYGFHGYGEEAL  419 (580)
Q Consensus       380 ~~g~~~~A~~~~~~~~~----~-------~~~~~~~l~~~~~~~~~~~~a~  419 (580)
                      +- ++++..+.++..-.    |       ....|.-++-.|.+-.+++.|.
T Consensus       275 KY-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~  324 (624)
T 3lvg_A          275 KF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI  324 (624)
T ss_dssp             SS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHH
T ss_pred             hc-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHH
Confidence            64 45555555544332    2       4567888888888888887665

>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=97.18  E-value=0.012  Score=53.87  Aligned_cols=64  Identities=17%  Similarity=0.115  Sum_probs=31.9

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 041384          501 STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAK  565 (580)
Q Consensus       501 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (580)
                      ++.++..+...+...|++++|...++++.+++| +...|..++.++.-.|++++|.+.+++....
T Consensus       276 ~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~-s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL  339 (372)
T 3ly7_A          276 LSIIYQIKAVSALVKGKTDESYQAINTGIDLEM-SWLNYVLLGKVYEMKGMNREAADAYLTAFNL  339 (372)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            444444444444444555555555555555553 3344445555555555555555555554443

>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=97.14  E-value=0.006  Score=55.73  Aligned_cols=150  Identities=13%  Similarity=0.026  Sum_probs=102.1

Q ss_pred             HHHHHHHhcCCCCCcchHHHHHHHHH--hcC---ChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhc---cC--CHHHH
Q 041384          385 TSSHQIFNEMAARDFVSWTTLISGYG--FHG---YGEEALQLFLEMQESGVEPDA-ITVLAILSACNH---AG--LVKEA  453 (580)
Q Consensus       385 ~~A~~~~~~~~~~~~~~~~~l~~~~~--~~~---~~~~a~~~~~~~~~~g~~p~~-~~~~~l~~~~~~---~~--~~~~a  453 (580)
                      .+....... ...+...|...+.+..  ..+   ...+|..+|++..+.  .|+- ..+..+..++..   .+  .....
T Consensus       181 ~e~~r~~~~-~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l--DP~~a~A~A~la~a~~~~~~~~~~~~~~~  257 (372)
T 3ly7_A          181 RMQETLQKI-LPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS--SPEFTYARAEKALVDIVRHSQHPLDEKQL  257 (372)
T ss_dssp             HHHHHHHHH-SCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCCCHHHH
T ss_pred             HHHHHHhcc-CCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhccCCCchhhH
Confidence            344343333 3347778888876653  333   457899999999995  6754 566655555431   11  11111


Q ss_pred             H---HHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 041384          454 E---TLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKPSTRILSSLVSACRIHGRLEVAEMLAHQLI  529 (580)
Q Consensus       454 ~---~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  529 (580)
                      .   ..+.........+.+..++..+...+...|++++|...++++ ...|+...|..+...+...|++++|.+.++++.
T Consensus       258 ~~l~~a~~a~~a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s~~a~~llG~~~~~~G~~~eA~e~~~~Al  337 (372)
T 3ly7_A          258 AALNTEIDNIVTLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMSWLNYVLLGKVYEMKGMNREAADAYLTAF  337 (372)
T ss_dssp             HHHHHHHHHHHTCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            1   122221111233566778888887788889999999999998 356888888888999999999999999999999


Q ss_pred             hcCCCCch
Q 041384          530 EAEPENAA  537 (580)
Q Consensus       530 ~~~~~~~~  537 (580)
                      .++|..+.
T Consensus       338 rL~P~~~t  345 (372)
T 3ly7_A          338 NLRPGANT  345 (372)
T ss_dssp             HHSCSHHH
T ss_pred             hcCCCcCh
Confidence            99997754

>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=97.12  E-value=0.0011  Score=63.31  Aligned_cols=87  Identities=16%  Similarity=0.156  Sum_probs=62.3

Q ss_pred             HHhhhcCChHHHHHHHHhCC------CCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhc-----CCCCc---hHH
Q 041384          478 DLLGKSGKIEDACKVVSTMP------MKPS----TRILSSLVSACRIHGRLEVAEMLAHQLIEA-----EPENA---ANY  539 (580)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~~------~~p~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-----~~~~~---~~~  539 (580)
                      ..+.+.|++++|+.++++..      ..|+    ..+++.++.+|...|++++|+.+++++++.     +|.++   ..+
T Consensus       295 e~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l  374 (429)
T 3qwp_A          295 EELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQV  374 (429)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHH
T ss_pred             HHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHH
Confidence            33456667777777666541      1222    246788888888889999998888888753     34444   448


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHh
Q 041384          540 TLLSMVCSESGNWLGAEEVWRVMRA  564 (580)
Q Consensus       540 ~~l~~~~~~~g~~~~A~~~~~~~~~  564 (580)
                      +.|+.+|...|++++|..++++..+
T Consensus       375 ~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          375 MKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            8889999999999999999888755

>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=97.07  E-value=0.0027  Score=55.48  Aligned_cols=88  Identities=14%  Similarity=0.055  Sum_probs=66.0

Q ss_pred             hHHHHHHHHhC-CCCCC---HHHHHHHHHHHHh-----cCCHHHHHHHHHHHHhcCCC-CchHHHHHHHHHHhc-CChHH
Q 041384          486 IEDACKVVSTM-PMKPS---TRILSSLVSACRI-----HGRLEVAEMLAHQLIEAEPE-NAANYTLLSMVCSES-GNWLG  554 (580)
Q Consensus       486 ~~~A~~~~~~~-~~~p~---~~~~~~l~~~~~~-----~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~-g~~~~  554 (580)
                      ...|...+++. .+.|+   ...|..+...|.+     -|+.++|.+.|+++++++|+ +...+..+++.++.. |+.++
T Consensus       179 l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~  258 (301)
T 3u64_A          179 VHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAG  258 (301)
T ss_dssp             HHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHH
T ss_pred             HHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHH
Confidence            34455555544 34555   4567777777777     48999999999999999996 488899999988884 88999


Q ss_pred             HHHHHHHHHhCCCccCCce
Q 041384          555 AEEVWRVMRAKGLSKSYGF  573 (580)
Q Consensus       555 A~~~~~~~~~~~~~~~~~~  573 (580)
                      |.+++++.+...+...|+.
T Consensus       259 a~~~L~kAL~a~p~~~P~~  277 (301)
T 3u64_A          259 FDEALDRALAIDPESVPHN  277 (301)
T ss_dssp             HHHHHHHHHHCCGGGCSSC
T ss_pred             HHHHHHHHHcCCCCCCCCh
Confidence            9999999888777655653

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.06  E-value=0.0019  Score=50.46  Aligned_cols=92  Identities=15%  Similarity=0.079  Sum_probs=65.3

Q ss_pred             CCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcC---ChHHHHHHHHhCC-CC-C--CHHHHHHHHHHHHhcCCHHH
Q 041384          448 GLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSG---KIEDACKVVSTMP-MK-P--STRILSSLVSACRIHGRLEV  520 (580)
Q Consensus       448 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~-~~-p--~~~~~~~l~~~~~~~~~~~~  520 (580)
                      .....+.+.|.+..+ .+ +++..+...+..++++.+   +.++++.++++.- .. |  +...+-.+.-++.+.|++++
T Consensus        12 ~~l~~~~~~y~~e~~-~~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~   89 (152)
T 1pc2_A           12 EDLLKFEKKFQSEKA-AG-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEK   89 (152)
T ss_dssp             HHHHHHHHHHHHHHH-TT-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHH
T ss_pred             HHHHHHHHHHHHHHc-cC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHH
Confidence            345666777776443 22 367777777888888877   5668888888772 22 4  34556667777888889999


Q ss_pred             HHHHHHHHHhcCCCCchHHHH
Q 041384          521 AEMLAHQLIEAEPENAANYTL  541 (580)
Q Consensus       521 A~~~~~~~~~~~~~~~~~~~~  541 (580)
                      |.+.++.+++.+|.|..+...
T Consensus        90 A~~y~~~lL~ieP~n~QA~~L  110 (152)
T 1pc2_A           90 ALKYVRGLLQTEPQNNQAKEL  110 (152)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHHHHHHhcCCCCHHHHHH
Confidence            999999999888888775443

>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=97.05  E-value=0.0049  Score=58.79  Aligned_cols=94  Identities=9%  Similarity=-0.101  Sum_probs=65.7

Q ss_pred             ccCCHHHHHHHHHHHHHhh--CCCCC----hhHHHHHHHHhhhcCChHHHHHHHHhCC---------CCCCH-HHHHHHH
Q 041384          446 HAGLVKEAETLFNNVMKEK--KIALA----IEHYACYVDLLGKSGKIEDACKVVSTMP---------MKPST-RILSSLV  509 (580)
Q Consensus       446 ~~~~~~~a~~~~~~~~~~~--~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~---------~~p~~-~~~~~l~  509 (580)
                      ..|++++|+.++++.++..  -+.|+    ..+++.|..+|...|++++|+.++++..         ..|+. .+++.|.
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  389 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLG  389 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence            3567777777777765532  12222    4567778888888888888887777651         22333 4688899


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhc-----CCCCchHH
Q 041384          510 SACRIHGRLEVAEMLAHQLIEA-----EPENAANY  539 (580)
Q Consensus       510 ~~~~~~~~~~~A~~~~~~~~~~-----~~~~~~~~  539 (580)
                      ..|...|++++|+.+++++++.     +|+++.+-
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~i~~~~lG~~Hp~~~  424 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIAIMEVAHGKDHPYIS  424 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHHHHHHHcCCCChHHH
Confidence            9999999999999999998763     57776643

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=96.90  E-value=0.007  Score=57.80  Aligned_cols=98  Identities=9%  Similarity=0.022  Sum_probs=64.9

Q ss_pred             HHhccCCHHHHHHHHHHHHHhh--CCCCC----hhHHHHHHHHhhhcCChHHHHHHHHhCC---------CCCCH-HHHH
Q 041384          443 ACNHAGLVKEAETLFNNVMKEK--KIALA----IEHYACYVDLLGKSGKIEDACKVVSTMP---------MKPST-RILS  506 (580)
Q Consensus       443 ~~~~~~~~~~a~~~~~~~~~~~--~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~---------~~p~~-~~~~  506 (580)
                      .+.+.|++++|+.++++.++..  -+.|+    ..+++.++..|...|++++|+.++++..         ..|+. .+++
T Consensus       296 ~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~  375 (429)
T 3qwp_A          296 ELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVM  375 (429)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHH
T ss_pred             HHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHH
Confidence            3445667777777777655421  11222    4466677777777777777777776551         22332 4678


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHh-----cCCCCchHHH
Q 041384          507 SLVSACRIHGRLEVAEMLAHQLIE-----AEPENAANYT  540 (580)
Q Consensus       507 ~l~~~~~~~~~~~~A~~~~~~~~~-----~~~~~~~~~~  540 (580)
                      .|...|...|++++|+.+++++.+     .+|+++.+-.
T Consensus       376 nLa~~~~~~g~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~  414 (429)
T 3qwp_A          376 KVGKLQLHQGMFPQAMKNLRLAFDIMRVTHGREHSLIED  414 (429)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHH
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHHHhcCCCChHHHH
Confidence            888999999999999999998876     3577776544

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.89  E-value=0.029  Score=59.15  Aligned_cols=191  Identities=13%  Similarity=0.109  Sum_probs=114.4

Q ss_pred             HHHHhCCChhHHHH-HHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCH
Q 041384          306 RGYSQSGDLSEAMK-LFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSI  384 (580)
Q Consensus       306 ~~~~~~~~~~~a~~-~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  384 (580)
                      ......++++.|.+ ++..      .|+......++..+.+.|..+.|.++.+.-            ..-.......|++
T Consensus       607 ~~~~~~~~~~~a~~~~l~~------i~~~~~~~~~~~~l~~~~~~~~a~~~~~~~------------~~~f~~~l~~~~~  668 (814)
T 3mkq_A          607 QTLTLRGEIEEAIENVLPN------VEGKDSLTKIARFLEGQEYYEEALNISPDQ------------DQKFELALKVGQL  668 (814)
T ss_dssp             HHHHHTTCHHHHHHHTGGG------CCCHHHHHHHHHHHHHTTCHHHHHHHCCCH------------HHHHHHHHHHTCH
T ss_pred             hHHHHhCCHHHHHHHHHhc------CCchHHHHHHHHHHHhCCChHHheecCCCc------------chheehhhhcCCH
Confidence            33446778888766 4422      121223366677777788888877665321            1113345677999


Q ss_pred             HHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhh
Q 041384          385 TSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEK  464 (580)
Q Consensus       385 ~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  464 (580)
                      +.|.++.+.+.  +...|..+...+.+.++++.|.+.|.++.+         |..+...+...|+.+...++-+.... .
T Consensus       669 ~~A~~~~~~~~--~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~-~  736 (814)
T 3mkq_A          669 TLARDLLTDES--AEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAET-T  736 (814)
T ss_dssp             HHHHHHHTTCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHH-T
T ss_pred             HHHHHHHHhhC--cHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHH-c
Confidence            99999887664  557899999999999999999999988754         33444445556666665555544322 2


Q ss_pred             CCCCChhHHHHHHHHhhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC---chHHHH
Q 041384          465 KIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPEN---AANYTL  541 (580)
Q Consensus       465 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~---~~~~~~  541 (580)
                      |.      ++.-..+|.+.|++++|++++.+                   .+++++|..+.+.   .+|..   +.+...
T Consensus       737 ~~------~~~A~~~~~~~g~~~~a~~~~~~-------------------~~~~~~A~~lA~~---~~~~~~~i~~~~~~  788 (814)
T 3mkq_A          737 GK------FNLAFNAYWIAGDIQGAKDLLIK-------------------SQRFSEAAFLGST---YGLGDNEVNDIVTK  788 (814)
T ss_dssp             TC------HHHHHHHHHHHTCHHHHHHHHHH-------------------TTCHHHHHHHHHH---TTCCHHHHHHHHHH
T ss_pred             Cc------hHHHHHHHHHcCCHHHHHHHHHH-------------------cCChHHHHHHHHH---hCCChHHHHHHHHH
Confidence            21      23344455667777777766554                   4566666665543   23322   233444


Q ss_pred             HHHHHHhcCChHH
Q 041384          542 LSMVCSESGNWLG  554 (580)
Q Consensus       542 l~~~~~~~g~~~~  554 (580)
                      +...+...|+.+.
T Consensus       789 ~~~~L~~~~~~~~  801 (814)
T 3mkq_A          789 WKENLILNGKNTV  801 (814)
T ss_dssp             HHHHHHTTTCHHH
T ss_pred             HHHHHHhccchhH
Confidence            4455555665433

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.55  E-value=0.013  Score=42.99  Aligned_cols=75  Identities=17%  Similarity=0.123  Sum_probs=60.8

Q ss_pred             ChhHHHHHHHHhhhcCChHHHHHHHHhCC---------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHH
Q 041384          469 AIEHYACYVDLLGKSGKIEDACKVVSTMP---------MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANY  539 (580)
Q Consensus       469 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---------~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~  539 (580)
                      +..-...+...+.+.|++..|...|+...         ..+....+..+..++.+.|+++.|...++++.+..|.++.+.
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            44455678888999999999999988762         113456788999999999999999999999999999998876


Q ss_pred             HHHH
Q 041384          540 TLLS  543 (580)
Q Consensus       540 ~~l~  543 (580)
                      ..+.
T Consensus        84 ~n~~   87 (104)
T 2v5f_A           84 GNLK   87 (104)
T ss_dssp             HHHH
T ss_pred             hhHH
Confidence            6554

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.51  E-value=0.021  Score=40.79  Aligned_cols=68  Identities=15%  Similarity=0.083  Sum_probs=49.3

Q ss_pred             CChhHHHHHHHHhhhcCC---hHHHHHHHHhC-CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 041384          468 LAIEHYACYVDLLGKSGK---IEDACKVVSTM-PMK-PSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPEN  535 (580)
Q Consensus       468 ~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~  535 (580)
                      .+...+..+..++...++   .++|..++++. ... -++..+..+...+.+.|++++|+..|+++.+.+|++
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~~   76 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDPN   76 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCTT
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCC
Confidence            455566666666654443   67777777776 233 466777788888888899999999999998888873

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.46  E-value=0.015  Score=45.40  Aligned_cols=66  Identities=11%  Similarity=-0.041  Sum_probs=34.9

Q ss_pred             CCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhcC-C-CCchHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 041384          500 PSTRILSSLVSACRIHG---RLEVAEMLAHQLIEAE-P-ENAANYTLLSMVCSESGNWLGAEEVWRVMRAK  565 (580)
Q Consensus       500 p~~~~~~~l~~~~~~~~---~~~~A~~~~~~~~~~~-~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (580)
                      ++..+...+..++++.+   +.++++.+++...+.+ | .+...+..|+-+|++.|++++|+++++.+.+.
T Consensus        30 ~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~~~lL~i  100 (152)
T 1pc2_A           30 VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQT  100 (152)
T ss_dssp             CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            44555555555555554   3445555555555554 3 24455555555555555555555555555443

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.39  E-value=0.027  Score=41.32  Aligned_cols=69  Identities=7%  Similarity=0.101  Sum_probs=45.0

Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhC-----CCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCCC
Q 041384          433 DAITVLAILSACNHAGLVKEAETLFNNVMKEKK-----IALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKPS  501 (580)
Q Consensus       433 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~  501 (580)
                      +..-+..+...+...|+++.|...++.+++...     -.+...++..|..+|.+.|++++|..+++++ ...|+
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~   78 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPE   78 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCC
Confidence            344455666777777778888877777665331     1233556777777777788888877777776 24453

>1qsa_A Protein (soluble lytic transglycosylase SLT70); alpha-superhelix, transferase; HET: GOL; 1.65A {Escherichia coli} SCOP: a.118.5.1 d.2.1.6 PDB: 1qte_A* 1sly_A*

Probab=96.38  E-value=0.93  Score=45.21  Aligned_cols=113  Identities=12%  Similarity=0.057  Sum_probs=58.1

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHH----HHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHH
Q 041384          414 YGEEALQLFLEMQESGVEPDAIT----VLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDA  489 (580)
Q Consensus       414 ~~~~a~~~~~~~~~~g~~p~~~~----~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  489 (580)
                      +.+.|...+......+ ..+...    ...+.......+...++...+.....   ..++.......+....+.|+++.|
T Consensus       229 d~~~A~~~~~~~~~~~-~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~e~~~r~Alr~~d~~~a  304 (618)
T 1qsa_A          229 DAENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIM---RSQSTSLIERRVRMALGTGDRRGL  304 (618)
T ss_dssp             CHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHH---TCCCHHHHHHHHHHHHHHTCHHHH
T ss_pred             CHHHHHHHHHhhhhcc-CCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhccc---cCCChHHHHHHHHHHHHCCCHHHH
Confidence            6677777777765432 222222    22233333344423445555554322   122322233344444466777777


Q ss_pred             HHHHHhCCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 041384          490 CKVVSTMPMKP--STRILSSLVSACRIHGRLEVAEMLAHQLIE  530 (580)
Q Consensus       490 ~~~~~~~~~~p--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  530 (580)
                      ...|+.+...+  ...-.-=+.+++...|+.++|..+|+.+..
T Consensus       305 ~~~~~~l~~~~~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          305 NTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHccccccccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            77777775332  222223344556667777777777777764

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.21  E-value=0.046  Score=57.64  Aligned_cols=130  Identities=14%  Similarity=0.014  Sum_probs=70.8

Q ss_pred             HHHHHHhHhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHH
Q 041384          372 NALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVK  451 (580)
Q Consensus       372 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~  451 (580)
                      ..++..+.+.|..+.|.++.+.-        ..-.......|+++.|.++.+.      ..+...|..+...+.+.++++
T Consensus       633 ~~~~~~l~~~~~~~~a~~~~~~~--------~~~f~~~l~~~~~~~A~~~~~~------~~~~~~W~~la~~al~~~~~~  698 (814)
T 3mkq_A          633 TKIARFLEGQEYYEEALNISPDQ--------DQKFELALKVGQLTLARDLLTD------ESAEMKWRALGDASLQRFNFK  698 (814)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCCCH--------HHHHHHHHHHTCHHHHHHHHTT------CCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHhCCChHHheecCCCc--------chheehhhhcCCHHHHHHHHHh------hCcHhHHHHHHHHHHHcCCHH
Confidence            55666666677777776655321        1112234456777777766432      235566777777777777777


Q ss_pred             HHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 041384          452 EAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQL  528 (580)
Q Consensus       452 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~  528 (580)
                      .|.+.|.+ +++         |..+...|...|+.+...++-+......+   ++.....|.+.|++++|++++.++
T Consensus       699 ~A~~~y~~-~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~~~---~~~A~~~~~~~g~~~~a~~~~~~~  762 (814)
T 3mkq_A          699 LAIEAFTN-AHD---------LESLFLLHSSFNNKEGLVTLAKDAETTGK---FNLAFNAYWIAGDIQGAKDLLIKS  762 (814)
T ss_dssp             HHHHHHHH-HTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHTTC---HHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHHHH-ccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHcCc---hHHHHHHHHHcCCHHHHHHHHHHc
Confidence            77777776 221         34455555556665554444333221111   222333455566666666666553

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.13  E-value=0.37  Score=38.65  Aligned_cols=102  Identities=10%  Similarity=0.103  Sum_probs=52.4

Q ss_pred             hHhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHH
Q 041384          378 YSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLF  457 (580)
Q Consensus       378 ~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~  457 (580)
                      ....|+++.|.++.+++  .+...|..|.......|+++-|.+.|.+..+         +..+.-.|...|+.+...++-
T Consensus        15 AL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~kla   83 (177)
T 3mkq_B           15 ALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLSKMQ   83 (177)
T ss_dssp             HHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHHHHH
Confidence            34556666666665544  3445666666666666666666666665443         222333344455555444433


Q ss_pred             HHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC
Q 041384          458 NNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP  497 (580)
Q Consensus       458 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  497 (580)
                      +.... .|      -++.-...+.-.|+++++.++|.+..
T Consensus        84 ~iA~~-~g------~~n~af~~~l~lGdv~~~i~lL~~~~  116 (177)
T 3mkq_B           84 NIAQT-RE------DFGSMLLNTFYNNSTKERSSIFAEGG  116 (177)
T ss_dssp             HHHHH-TT------CHHHHHHHHHHHTCHHHHHHHHHHTT
T ss_pred             HHHHH-Cc------cHHHHHHHHHHcCCHHHHHHHHHHCC
Confidence            33211 11      13333444555666666666666554

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.05  E-value=0.31  Score=36.61  Aligned_cols=68  Identities=12%  Similarity=-0.043  Sum_probs=53.8

Q ss_pred             ChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCC
Q 041384          297 DVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLN  365 (580)
Q Consensus       297 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  365 (580)
                      +....+..+..+..+|.-++-.+++..+.. +.+|++.....+..+|.+.|+..++.+++.+..+.|++
T Consensus        90 ~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           90 LNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            455566677888888998888888888644 33788888888899999999999999998888888754

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.63  E-value=0.56  Score=37.65  Aligned_cols=130  Identities=13%  Similarity=0.062  Sum_probs=88.6

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCC
Q 041384          406 ISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGK  485 (580)
Q Consensus       406 ~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  485 (580)
                      .......|+++.|.++.+.+      .+...|..|.......|+++-|...|.+ .+         -+..+.-.|...|+
T Consensus        12 F~LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~-~~---------D~~~L~~Ly~~tg~   75 (177)
T 3mkq_B           12 FDLALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQT-QH---------SFDKLSFLYLVTGD   75 (177)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHH-TT---------CHHHHHHHHHHHTC
T ss_pred             HHHHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHH-hC---------CHHHHHHHHHHhCC
Confidence            34456788999999887664      4678899999999999999999999988 32         15566667777888


Q ss_pred             hHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHH
Q 041384          486 IEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVM  562 (580)
Q Consensus       486 ~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  562 (580)
                      .+.-.++-+.....-   -++.....+.-.|+++++.+++.+.-+        +..-+-.....|-.+.|.++.+++
T Consensus        76 ~e~L~kla~iA~~~g---~~n~af~~~l~lGdv~~~i~lL~~~~r--------~~eA~~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           76 VNKLSKMQNIAQTRE---DFGSMLLNTFYNNSTKERSSIFAEGGS--------LPLAYAVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHHHHHHHTT---CHHHHHHHHHHHTCHHHHHHHHHHTTC--------HHHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHCc---cHHHHHHHHHHcCCHHHHHHHHHHCCC--------hHHHHHHHHHcCcHHHHHHHHHHh
Confidence            777665544432121   234444556678999999998876432        222222222357778888888776

>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=95.43  E-value=0.06  Score=41.41  Aligned_cols=109  Identities=9%  Similarity=0.065  Sum_probs=68.5

Q ss_pred             CHHHHHHHHHHHhccCCH------HHHHHHHHHHHHhhCCCCChh-HHHHHHHH------hhhcCChHHHHHHHHhCC--
Q 041384          433 DAITVLAILSACNHAGLV------KEAETLFNNVMKEKKIALAIE-HYACYVDL------LGKSGKIEDACKVVSTMP--  497 (580)
Q Consensus       433 ~~~~~~~l~~~~~~~~~~------~~a~~~~~~~~~~~~~~~~~~-~~~~l~~~------~~~~g~~~~A~~~~~~~~--  497 (580)
                      |..++-..+....+.|++      ++.+++|++++.  .++|+.. .+...+..      +...++.++|.++|+.+.  
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia--~~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~   89 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIE--ALPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARAN   89 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHH--HSCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHH--cCCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            667888888877777888      888888888764  4555521 12222211      223467777777777661  


Q ss_pred             -CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHH
Q 041384          498 -MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSM  544 (580)
Q Consensus       498 -~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  544 (580)
                       .+- ...|.....--.++|+.+.|..++.+++...|.+...+...+.
T Consensus        90 hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~~le~a~~  136 (161)
T 4h7y_A           90 CKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPLEMLEIALR  136 (161)
T ss_dssp             CTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHHHHHHHHH
T ss_pred             hHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcHHHHHHHHH
Confidence             112 5556666666667777777777777777777766665544443

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=95.26  E-value=3.4  Score=43.04  Aligned_cols=282  Identities=9%  Similarity=-0.040  Sum_probs=139.6

Q ss_pred             HHHcCCCHHHHHHHHhhCCC----CChh--hHHHHHHHHHhCCChhHHHHHHHHHHHCCC--C-----CCHHHHHHHHHH
Q 041384          276 YCECTEALHPARIIFERTKV----KDVV--IWSSIIRGYSQSGDLSEAMKLFSRMRLERI--E-----PNSVTLLAILSS  342 (580)
Q Consensus       276 ~~~~~~~~~~a~~~~~~~~~----~~~~--~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~--~-----p~~~~~~~ll~~  342 (580)
                      ....|+ .+.+..+++....    .+..  .=..+.-+....|..+++..++.......-  .     +....-..+.-+
T Consensus       384 lIh~g~-~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLG  462 (963)
T 4ady_A          384 VIHKGN-LLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIG  462 (963)
T ss_dssp             HHTSSC-TTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHH
T ss_pred             hhccCc-hHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHH
Confidence            334555 5666666665543    1222  222233345566666677777777654321  1     111112222223


Q ss_pred             hhccCC-hHHHHHHHHHHHHhCCCCchh--HHHHHHHHhHhcCCHHHHHHHHhcCCCC-CcchHHHHH--HHHHhcCChH
Q 041384          343 CTRQSF-LSHGLGVHCYIMKAGLNFDVS--IGNALMNMYSKCGSITSSHQIFNEMAAR-DFVSWTTLI--SGYGFHGYGE  416 (580)
Q Consensus       343 ~~~~~~-~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~l~--~~~~~~~~~~  416 (580)
                      .+..|. -+++.+.+..+....- +...  .--++...+.-.|+.+....++..+.+. +......+.  -++...|+.+
T Consensus       463 la~~GS~~eev~e~L~~~L~dd~-~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~~e~vrR~aalgLGll~~g~~e  541 (963)
T 4ady_A          463 LAAMGSANIEVYEALKEVLYNDS-ATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQHGNITRGLAVGLALINYGRQE  541 (963)
T ss_dssp             HHSTTCCCHHHHHHHHHHHHTCC-HHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCGG
T ss_pred             HHhcCCCCHHHHHHHHHHHhcCC-HHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhhhCCChH
Confidence            333332 2345555555554321 1111  1122333455667777777777655432 222333333  3444678888


Q ss_pred             HHHHHHHHHHHcCCCCCH-HHHH---HHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHH
Q 041384          417 EALQLFLEMQESGVEPDA-ITVL---AILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKV  492 (580)
Q Consensus       417 ~a~~~~~~~~~~g~~p~~-~~~~---~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  492 (580)
                      .+..+++.+...   .++ .-|.   .+.-+|+..|+.....+++..+..  ....++.-...+.-++...|+.+.+.++
T Consensus       542 ~~~~li~~L~~~---~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~--d~~d~VRraAViaLGlI~~g~~e~v~rl  616 (963)
T 4ady_A          542 LADDLITKMLAS---DESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVS--DSNDDVRRAAVIALGFVLLRDYTTVPRI  616 (963)
T ss_dssp             GGHHHHHHHHHC---SCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH--CSCHHHHHHHHHHHHHHTSSSCSSHHHH
T ss_pred             HHHHHHHHHHhC---CCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhcc--CCcHHHHHHHHHHHHhhccCCHHHHHHH
Confidence            888888887763   333 2232   344567788888777778887554  2223333333333444456666666666


Q ss_pred             HHhCCCC--CCHHHHHHHHHHHHhcCCH-HHHHHHHHHHHhcCCCCchH-HHHHHHHHHhcCChHH----HHHHHHHHHh
Q 041384          493 VSTMPMK--PSTRILSSLVSACRIHGRL-EVAEMLAHQLIEAEPENAAN-YTLLSMVCSESGNWLG----AEEVWRVMRA  564 (580)
Q Consensus       493 ~~~~~~~--p~~~~~~~l~~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~-~~~l~~~~~~~g~~~~----A~~~~~~~~~  564 (580)
                      ++.+...  |..+.-..+.-+....|.. .++...+..+.. ++++... -...+-+..-.|..+.    ..++++++.+
T Consensus       617 v~~L~~~~d~~VR~gAalALGli~aGn~~~~aid~L~~L~~-D~d~~Vrq~Ai~ALG~Ig~gtnna~~~rva~~l~~L~~  695 (963)
T 4ady_A          617 VQLLSKSHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK-DPVDFVRQAAMIALSMILIQQTEKLNPQVADINKNFLS  695 (963)
T ss_dssp             TTTGGGCSCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT-CSSHHHHHHHHHHHHHHSTTCCTTTCTTHHHHHHHHHH
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc-CCCHHHHHHHHHHHHHHhcCCccccchHHHHHHHHHHH
Confidence            6655323  3333333344444444443 577778888764 3332222 1222333444454443    6666666654


Q ss_pred             C
Q 041384          565 K  565 (580)
Q Consensus       565 ~  565 (580)
                      .
T Consensus       696 ~  696 (963)
T 4ady_A          696 V  696 (963)
T ss_dssp             H
T ss_pred             H
Confidence            3

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.24  E-value=0.052  Score=40.70  Aligned_cols=98  Identities=13%  Similarity=0.043  Sum_probs=66.0

Q ss_pred             HHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHH---HHHHHHhCC-CC-C--CHHHHHHHHHHHHh
Q 041384          442 SACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIED---ACKVVSTMP-MK-P--STRILSSLVSACRI  514 (580)
Q Consensus       442 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~---A~~~~~~~~-~~-p--~~~~~~~l~~~~~~  514 (580)
                      ..-........+.+-|.+... .+. ++..+--.+..++.+..+..+   ++.+++++- .. |  .....-.|.-++.+
T Consensus         9 ~~~~~~~~l~~~~~~y~~e~~-~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yk   86 (126)
T 1nzn_A            9 NELVSVEDLLKFEKKFQSEKA-AGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYR   86 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH-HSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHH
T ss_pred             hccCCHHHHHHHHHHHHHHhc-cCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHH
Confidence            333344455566666666443 233 666677777788888776655   888888773 22 3  22345567777888


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCchHHHH
Q 041384          515 HGRLEVAEMLAHQLIEAEPENAANYTL  541 (580)
Q Consensus       515 ~~~~~~A~~~~~~~~~~~~~~~~~~~~  541 (580)
                      .|++++|.+.++.+++..|.|..+...
T Consensus        87 lg~Y~~A~~~~~~lL~~eP~n~QA~~L  113 (126)
T 1nzn_A           87 LKEYEKALKYVRGLLQTEPQNNQAKEL  113 (126)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHhCCCCHHHHHH
Confidence            999999999999999999988875443

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=95.14  E-value=0.039  Score=48.28  Aligned_cols=76  Identities=14%  Similarity=0.163  Sum_probs=35.7

Q ss_pred             HHHHHHHHHHHHcCCCCC---HHHHHHHHHHHhcc-----CCHHHHHHHHHHHHHhhCCCC--ChhHHHHHHHHhhhc-C
Q 041384          416 EEALQLFLEMQESGVEPD---AITVLAILSACNHA-----GLVKEAETLFNNVMKEKKIAL--AIEHYACYVDLLGKS-G  484 (580)
Q Consensus       416 ~~a~~~~~~~~~~g~~p~---~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~-g  484 (580)
                      ..|...+++..+  +.|+   ...|..+...|...     |+.++|.+.|++.++   +.|  +..++..+.+.+++. |
T Consensus       180 ~~A~a~lerAle--LDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~---LnP~~~id~~v~YA~~l~~~~g  254 (301)
T 3u64_A          180 HAAVMMLERACD--LWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTR---YCSAHDPDHHITYADALCIPLN  254 (301)
T ss_dssp             HHHHHHHHHHHH--HCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHH---HCCTTCSHHHHHHHHHTTTTTT
T ss_pred             HHHHHHHHHHHH--hCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHH---hCCCCCchHHHHHHHHHHHhcC
Confidence            344555555555  2444   23455555555552     555555555555444   222  133344444444442 4


Q ss_pred             ChHHHHHHHHhC
Q 041384          485 KIEDACKVVSTM  496 (580)
Q Consensus       485 ~~~~A~~~~~~~  496 (580)
                      +.+++.+.+++.
T Consensus       255 d~~~a~~~L~kA  266 (301)
T 3u64_A          255 NRAGFDEALDRA  266 (301)
T ss_dssp             CHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHH
Confidence            444444444443

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.09  E-value=0.27  Score=36.87  Aligned_cols=65  Identities=11%  Similarity=-0.074  Sum_probs=33.1

Q ss_pred             CCHHHHHHHHHHHHhcCCHHH---HHHHHHHHHhcC-C-CCchHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 041384          500 PSTRILSSLVSACRIHGRLEV---AEMLAHQLIEAE-P-ENAANYTLLSMVCSESGNWLGAEEVWRVMRA  564 (580)
Q Consensus       500 p~~~~~~~l~~~~~~~~~~~~---A~~~~~~~~~~~-~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (580)
                      |+..+-..+.+++.+.++...   ++.+++.+.+.+ | .+......|+-++++.|+|++|+++++.+++
T Consensus        33 ~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~~~lL~  102 (126)
T 1nzn_A           33 VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQ  102 (126)
T ss_dssp             CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            444444555555555444333   555555555544 2 2444455555555555555555555555544

>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=95.09  E-value=0.17  Score=39.01  Aligned_cols=51  Identities=10%  Similarity=-0.051  Sum_probs=22.4

Q ss_pred             CCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 041384          516 GRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       516 ~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      +|.++|.++|+.++.....-+.+|...+..-.++|+...|++++.+.+..+
T Consensus        74 ~D~d~aR~vy~~a~~~hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~  124 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERG  124 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             cCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccC
Confidence            444444444444443332233344444444444444444444444444433

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=94.86  E-value=0.5  Score=48.08  Aligned_cols=54  Identities=13%  Similarity=0.020  Sum_probs=49.6

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHH
Q 041384          509 VSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVM  562 (580)
Q Consensus       509 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  562 (580)
                      ..-|...|+++-|+.+.+++...-|.+-.+|..|+.+|...|+|+.|+-.+..+
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            455677899999999999999999999999999999999999999999988766

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=94.79  E-value=0.42  Score=36.52  Aligned_cols=73  Identities=21%  Similarity=0.175  Sum_probs=45.4

Q ss_pred             CCChhHHHHHHHHhhhcCCh---HHHHHHHHhC-CCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHH
Q 041384          467 ALAIEHYACYVDLLGKSGKI---EDACKVVSTM-PMKP--STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANY  539 (580)
Q Consensus       467 ~~~~~~~~~l~~~~~~~g~~---~~A~~~~~~~-~~~p--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~  539 (580)
                      .|+..+--.+..++.+..+.   .+++.+++++ ...|  .....-.|.-++.+.|++++|.+..+.+++..|.|..+.
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP~n~QA~  114 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQVG  114 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCCCCHHHH
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHH
Confidence            56666666666666666643   4566666665 1223  223444566667777777777777777777777776643

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=94.25  E-value=6.1  Score=41.22  Aligned_cols=250  Identities=12%  Similarity=-0.001  Sum_probs=110.7

Q ss_pred             HHHhCCChhHHHHHHHHHHHCCCCCCHHHHH--HHHHHhhccCChHHHHHHHHHHHHhCC-------CCchhHHHHH--H
Q 041384          307 GYSQSGDLSEAMKLFSRMRLERIEPNSVTLL--AILSSCTRQSFLSHGLGVHCYIMKAGL-------NFDVSIGNAL--M  375 (580)
Q Consensus       307 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~--~ll~~~~~~~~~~~a~~~~~~~~~~~~-------~~~~~~~~~l--~  375 (580)
                      +....|+.++++.++......+...+..+-.  .+.-+....|..+.+..++.......-       .+....-.++  .
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            3455666666666666544321122333222  222334455555556666665554321       0111111222  2


Q ss_pred             HHhHhcCCHHHHHHHHhcC-CCCCcch--HH--HHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHH--HHHhccC
Q 041384          376 NMYSKCGSITSSHQIFNEM-AARDFVS--WT--TLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAIL--SACNHAG  448 (580)
Q Consensus       376 ~~~~~~g~~~~A~~~~~~~-~~~~~~~--~~--~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~--~~~~~~~  448 (580)
                      -+|.-.++- ++.+.+..+ ...+...  ..  .|...+.-.|+.+....+++.+.+.   .+......+.  -++...|
T Consensus       463 la~~GS~~e-ev~e~L~~~L~dd~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~---~~e~vrR~aalgLGll~~g  538 (963)
T 4ady_A          463 LAAMGSANI-EVYEALKEVLYNDSATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQET---QHGNITRGLAVGLALINYG  538 (963)
T ss_dssp             HHSTTCCCH-HHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHC---SCHHHHHHHHHHHHHHTTT
T ss_pred             HHhcCCCCH-HHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhcc---CcHHHHHHHHHHHHhhhCC
Confidence            222333443 333333333 2333221  11  1222334456666666666665552   2222222222  2344567


Q ss_pred             CHHHHHHHHHHHHHhhCCCCChhHHH--HHHHHhhhcCChHHHHHHHHhCCCCCCHHHHHHHH--HHHHhcCCHHHHHHH
Q 041384          449 LVKEAETLFNNVMKEKKIALAIEHYA--CYVDLLGKSGKIEDACKVVSTMPMKPSTRILSSLV--SACRIHGRLEVAEML  524 (580)
Q Consensus       449 ~~~~a~~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~--~~~~~~~~~~~A~~~  524 (580)
                      +.+.+..+.+.+..  ...|....-.  .+.-+|+-.|+.....+++..+...++..+-...+  -++...|+.+.+.++
T Consensus       539 ~~e~~~~li~~L~~--~~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~~d~VRraAViaLGlI~~g~~e~v~rl  616 (963)
T 4ady_A          539 RQELADDLITKMLA--SDESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDSNDDVRRAAVIALGFVLLRDYTTVPRI  616 (963)
T ss_dssp             CGGGGHHHHHHHHH--CSCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTSSSCSSHHHH
T ss_pred             ChHHHHHHHHHHHh--CCCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCCcHHHHHHHHHHHHhhccCCHHHHHHH
Confidence            77777777666332  2223322222  33445667777666666776664333333332222  233345555555555


Q ss_pred             HHHHHhcCCCCchHHHH--HHHHHHhcCCh-HHHHHHHHHHHh
Q 041384          525 AHQLIEAEPENAANYTL--LSMVCSESGNW-LGAEEVWRVMRA  564 (580)
Q Consensus       525 ~~~~~~~~~~~~~~~~~--l~~~~~~~g~~-~~A~~~~~~~~~  564 (580)
                      ++.+.+-.  ++.+-..  ++.+....|+- .+|..++..+..
T Consensus       617 v~~L~~~~--d~~VR~gAalALGli~aGn~~~~aid~L~~L~~  657 (963)
T 4ady_A          617 VQLLSKSH--NAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK  657 (963)
T ss_dssp             TTTGGGCS--CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT
T ss_pred             HHHHHhcC--CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc
Confidence            55444433  3333332  22233333332 567777777754

>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=94.17  E-value=0.28  Score=36.94  Aligned_cols=74  Identities=20%  Similarity=0.174  Sum_probs=39.2

Q ss_pred             CCCCChhHHHHHHHHhhhcCCh---HHHHHHHHhC-CCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchH
Q 041384          465 KIALAIEHYACYVDLLGKSGKI---EDACKVVSTM-PMKP--STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAAN  538 (580)
Q Consensus       465 ~~~~~~~~~~~l~~~~~~~g~~---~~A~~~~~~~-~~~p--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~  538 (580)
                      +-.|+..+--.+..++.+..+.   .+++.+++++ ...|  ....+-.|.-++.+.|++++|.+..+.+++..|.|..+
T Consensus        35 ~~~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           35 GPTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQV  114 (134)
T ss_dssp             GGGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCTTCHHH
T ss_pred             CCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCCHHH
Confidence            3344555544555555555443   3455555554 1223  22344455556666666666666666666666666553

>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=93.86  E-value=0.16  Score=47.67  Aligned_cols=69  Identities=16%  Similarity=0.061  Sum_probs=53.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHh-----CCCccCCc
Q 041384          504 ILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRA-----KGLSKSYG  572 (580)
Q Consensus       504 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~  572 (580)
                      ....++.++...|++++|+..+..+...+|-+...+..++.+|.+.|+..+|.+.|+++.+     .|+.|.|.
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~  246 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPT  246 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHH
Confidence            3445666777888888888888888888888888888888888888888888888877644     37766654

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=93.27  E-value=0.49  Score=37.27  Aligned_cols=62  Identities=15%  Similarity=0.131  Sum_probs=33.6

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHhhCC-----------------------CCChhHHHHHHHHhhhcCChHHHHHH
Q 041384          436 TVLAILSACNHAGLVKEAETLFNNVMKEKKI-----------------------ALAIEHYACYVDLLGKSGKIEDACKV  492 (580)
Q Consensus       436 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----------------------~~~~~~~~~l~~~~~~~g~~~~A~~~  492 (580)
                      ++..+.+++...+++..|...|+++++....                       ..+.+.-..+..+|.+.|++++|+.+
T Consensus        65 ~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~~~~~~~~ss~p~s~~~~~e~Elkykia~C~~~l~~~~~Ai~~  144 (167)
T 3ffl_A           65 LLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKVRPSTGNSASTPQSQCLPSEIEVKYKLAECYTVLKQDKDAIAI  144 (167)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC--------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCccccccccCCCcccccccchHHHHHHHHHHHHHHCCHHHHHHH
Confidence            3444555556666666666666654432221                       11223334456666666777777766


Q ss_pred             HHhCC
Q 041384          493 VSTMP  497 (580)
Q Consensus       493 ~~~~~  497 (580)
                      ++.++
T Consensus       145 Le~Ip  149 (167)
T 3ffl_A          145 LDGIP  149 (167)
T ss_dssp             HHTSC
T ss_pred             HhcCC
Confidence            66664

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=92.06  E-value=6.3  Score=35.15  Aligned_cols=170  Identities=8%  Similarity=0.010  Sum_probs=104.5

Q ss_pred             hHHHHHHHHHHcCCCchHHHHhhccCCCCCccchHHHHHHHHhCCChhHHHHH----HHHHHHCCCCCCHhhHHHHHHHh
Q 041384           64 VISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEM----FREMYLCGFVLKAELLAGIISLC  139 (580)
Q Consensus        64 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~----~~~m~~~~~~~~~~~~~~ll~~~  139 (580)
                      ..|.++..-|.+.+++++|++++..           -...+.+.|+...|-++    .+-..+.+++++......++..+
T Consensus        34 Q~~Rtl~~Ry~~~~~~~eAidlL~~-----------ga~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~l~  102 (312)
T 2wpv_A           34 QTLRTIANRYVRSKSYEHAIELISQ-----------GALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRLI  102 (312)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            4566677778889999999987654           24556677887666554    55566678999998888888877


Q ss_pred             hccCCc-----HHHHHHHHHHHHhCC-CCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCCCCeehHHHHHHHHHhc---C
Q 041384          140 SQIGEL-----ELGRQIHALVIVDGS-FELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDS---Q  210 (580)
Q Consensus       140 ~~~~~~-----~~a~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~---~  210 (580)
                      .....-     +-..+...+-.+.|. ..-+......+...|.+.|++.+|...|-.-...+...+..++.-+...   |
T Consensus       103 ~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~~~~s~~~~a~~l~~w~~~~~~~  182 (312)
T 2wpv_A          103 AELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLGTHDSMIKYVDLLWDWLCQVDDI  182 (312)
T ss_dssp             TTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHTSCHHHHHHHHHHHHHHHHHTTCC
T ss_pred             HHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHhCCCccHHHHHHHHHHHHHhcCCC
Confidence            664321     223334444444442 2347788899999999999999999887532211334444444333333   3


Q ss_pred             ChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHHH
Q 041384          211 NYDTGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYC  259 (580)
Q Consensus       211 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  259 (580)
                      ...++-              ...-..+ --|...++...|..+++...+
T Consensus       183 ~~~e~d--------------lf~~RaV-L~yL~l~n~~~A~~~~~~f~~  216 (312)
T 2wpv_A          183 EDSTVA--------------EFFSRLV-FNYLFISNISFAHESKDIFLE  216 (312)
T ss_dssp             CHHHHH--------------HHHHHHH-HHHHHTTBHHHHHHHHHHHHH
T ss_pred             CcchHH--------------HHHHHHH-HHHHHhcCHHHHHHHHHHHHH
Confidence            332221              1111122 234456788888887776543

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=91.90  E-value=0.85  Score=35.95  Aligned_cols=122  Identities=11%  Similarity=0.042  Sum_probs=61.3

Q ss_pred             CCCCCH--HHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCCh-------hHHHHHHHHhhhcCChHHHHHHHHhCC--
Q 041384          429 GVEPDA--ITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAI-------EHYACYVDLLGKSGKIEDACKVVSTMP--  497 (580)
Q Consensus       429 g~~p~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~~--  497 (580)
                      |+.|..  .++..-+..+...|.++.|+-+...++.-.+..|+.       .++..+.+++...|++..|...|++.-  
T Consensus        13 ~~~~~~~~~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~   92 (167)
T 3ffl_A           13 GLVPRGSHMNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQ   92 (167)
T ss_dssp             --------CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCCCCccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHH
Confidence            445533  334444566677777887777777644433333332       244556666667777777776666530  


Q ss_pred             ---CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHH
Q 041384          498 ---MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVM  562 (580)
Q Consensus       498 ---~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  562 (580)
                         +.........+.    .......       -.. .+.+..+-..++.+|.+.|++++|+.+++.+
T Consensus        93 ~k~l~k~~s~~~~~~----~~ss~p~-------s~~-~~~e~Elkykia~C~~~l~~~~~Ai~~Le~I  148 (167)
T 3ffl_A           93 KKALSKTSKVRPSTG----NSASTPQ-------SQC-LPSEIEVKYKLAECYTVLKQDKDAIAILDGI  148 (167)
T ss_dssp             HHCC-------------------------------C-CCCHHHHHHHHHHHHHHTTCHHHHHHHHHTS
T ss_pred             HHHHhcCCCcccccc----ccCCCcc-------ccc-ccchHHHHHHHHHHHHHHCCHHHHHHHHhcC
Confidence               010100000000    0000000       000 1223456677999999999999999998854

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=91.69  E-value=6.2  Score=37.67  Aligned_cols=202  Identities=12%  Similarity=0.070  Sum_probs=127.6

Q ss_pred             CChhHHHHHHHHHHHC-----CCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHH-hCCCCchhHHHHHHH----HhHhc
Q 041384          312 GDLSEAMKLFSRMRLE-----RIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMK-AGLNFDVSIGNALMN----MYSKC  381 (580)
Q Consensus       312 ~~~~~a~~~~~~m~~~-----~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~----~~~~~  381 (580)
                      |+++.|++.+..+.+.     ...........++..|...++++...+.+..+.+ +|..+.  ....+++    .....
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~--ai~~~V~~~~~~l~~~  107 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKL--SIQYMIQKVMEYLKSS  107 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHH--HHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHH--HHHHHHHHHHHHHhcC
Confidence            7789999888776543     2455677788899999999999999888776665 333222  2233333    22233


Q ss_pred             CCH--HHHHHHHhcCCC---CCc-------chHHHHHHHHHhcCChHHHHHHHHHHHHc--CCCCCH---HHHHHHHHHH
Q 041384          382 GSI--TSSHQIFNEMAA---RDF-------VSWTTLISGYGFHGYGEEALQLFLEMQES--GVEPDA---ITVLAILSAC  444 (580)
Q Consensus       382 g~~--~~A~~~~~~~~~---~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--g~~p~~---~~~~~l~~~~  444 (580)
                      ...  +.-..+.+.+..   .-.       .....|...+...|++.+|..++..+...  |..+..   ..+..-++.|
T Consensus       108 ~~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~  187 (445)
T 4b4t_P          108 KSLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELS  187 (445)
T ss_dssp             CTTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHH
T ss_pred             CchhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            332  233344444433   111       12356788899999999999999998643  222221   4566677889


Q ss_pred             hccCCHHHHHHHHHHHHHh-hCC--CCC--hhHHHHHHHHhhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHH
Q 041384          445 NHAGLVKEAETLFNNVMKE-KKI--ALA--IEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLE  519 (580)
Q Consensus       445 ~~~~~~~~a~~~~~~~~~~-~~~--~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  519 (580)
                      ...+++..|..++.++... ...  +|+  ...+...+..+...+++.+|.+.|.++            ...+...++..
T Consensus       188 l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~------------~~~~~~~~d~~  255 (445)
T 4b4t_P          188 ILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEI------------YQTDAIKSDEA  255 (445)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHH------------HHHHHHHSCHH
T ss_pred             HHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHH------------HhcccccCCHH
Confidence            9999999999999985321 112  222  345667777888889999888776554            34444555555


Q ss_pred             HHHHHHHH
Q 041384          520 VAEMLAHQ  527 (580)
Q Consensus       520 ~A~~~~~~  527 (580)
                      ....++..
T Consensus       256 ~~~~~L~~  263 (445)
T 4b4t_P          256 KWKPVLSH  263 (445)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            44444444

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=91.32  E-value=1.5  Score=33.06  Aligned_cols=68  Identities=6%  Similarity=0.041  Sum_probs=41.9

Q ss_pred             CCCHHHHHHHHHHHHhcCCH---HHHHHHHHHHHhcCCC-CchHHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 041384          499 KPSTRILSSLVSACRIHGRL---EVAEMLAHQLIEAEPE-NAANYTLLSMVCSESGNWLGAEEVWRVMRAKG  566 (580)
Q Consensus       499 ~p~~~~~~~l~~~~~~~~~~---~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (580)
                      .|+..+-..+.+++.+..+.   .+++.+++.+.+.+|. ....+..|+-++.+.|++++|+++.+.+.+..
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~e  108 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHE  108 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTC
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhC
Confidence            45556656666666655543   4566666666666653 45556666666777777777777776666543

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=90.81  E-value=4.3  Score=31.05  Aligned_cols=69  Identities=6%  Similarity=0.029  Sum_probs=47.9

Q ss_pred             CCCHHHHHHHHHHHHhcCCH---HHHHHHHHHHHhcCCC-CchHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          499 KPSTRILSSLVSACRIHGRL---EVAEMLAHQLIEAEPE-NAANYTLLSMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       499 ~p~~~~~~~l~~~~~~~~~~---~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      .|+..+-..+.+++.+..+.   .+++.+++.+.+..|. .......|+-++++.|+|++|+++.+.+++..+
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP  108 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHER  108 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCC
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCC
Confidence            46666666777777766543   4677777777776663 555666777777888888888887777776543

>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=90.63  E-value=1.2  Score=31.35  Aligned_cols=63  Identities=17%  Similarity=0.166  Sum_probs=48.0

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHH
Q 041384          414 YGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVD  478 (580)
Q Consensus       414 ~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  478 (580)
                      +.-+..+-++.+....+.|++......+++|.+.+++..|.++++- ++. ...+...+|..+++
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~-iK~-K~~~~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEV-VKD-KAGPHKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHH-HHH-HTTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHH-HHH-HhcCchhhHHHHHH
Confidence            3445666677777778899999999999999999999999999998 442 23333556777654

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=90.60  E-value=9.3  Score=34.36  Aligned_cols=170  Identities=9%  Similarity=-0.010  Sum_probs=104.0

Q ss_pred             hHHHHHHHHHHcCCCchHHHHhhccCCCCCccchHHHHHHHHhCCChhHHHHHH----HHHHHCCCCCCHhhHHHHHHHh
Q 041384           64 VISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMF----REMYLCGFVLKAELLAGIISLC  139 (580)
Q Consensus        64 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~----~~m~~~~~~~~~~~~~~ll~~~  139 (580)
                      ..|.++..-|.+.+++++|++++-.           -...+.+.|....|-++-    +-+.+.++++|......++..+
T Consensus        36 Q~~RTi~~Ry~~~k~y~eAidLL~~-----------GA~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~  104 (336)
T 3lpz_A           36 QETRLVAARYSKQGNWAAAVDILAS-----------VSQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCL  104 (336)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            4667777888999999999987654           245666777776665554    5566678999998888888888


Q ss_pred             hccCCcH-HHHHHH----HHHHHhCC-CCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCCCCeehHHHHHHHHHhcCChh
Q 041384          140 SQIGELE-LGRQIH----ALVIVDGS-FELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYD  213 (580)
Q Consensus       140 ~~~~~~~-~a~~~~----~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~  213 (580)
                      .....-+ .-..+.    .+-.+.|. ..-|......+...|.+.+++.+|...|-.-..+....|..++.-+...+...
T Consensus       105 ~~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~ilg~~~s~~~~a~mL~ew~~~~~~~  184 (336)
T 3lpz_A          105 RLFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLVLGTKESPEVLARMEYEWYKQDESH  184 (336)
T ss_dssp             TTSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHTTSCTTHHHHHHHHHHHHHHTSCGG
T ss_pred             HhCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHhcCCchHHHHHHHHHHHHHhcCCc
Confidence            7665422 122233    33334331 33567778888899999999999998884222222245544444443333322


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHhcCCCchhHHHHHHHHHH
Q 041384          214 TGIDLFRAMQREGVKPTRVTLTIVLLACAELRDLRNGKAIHGYAYC  259 (580)
Q Consensus       214 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  259 (580)
                      ++              |...-..++ -|...+++..|..+++...+
T Consensus       185 e~--------------dlfiaRaVL-~yL~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          185 TA--------------PLYCARAVL-PYLLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             GH--------------HHHHHHHHH-HHHHTTCHHHHHHHHHHHHH
T ss_pred             cH--------------HHHHHHHHH-HHHHhCCHHHHHHHHHHHHH
Confidence            22              122222222 34556677777776665543

>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=90.53  E-value=2  Score=30.39  Aligned_cols=58  Identities=16%  Similarity=0.243  Sum_probs=44.6

Q ss_pred             HHHHHHHHhC---CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHH
Q 041384          487 EDACKVVSTM---PMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSM  544 (580)
Q Consensus       487 ~~A~~~~~~~---~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  544 (580)
                      =+..+-++.+   ..-|++....+.+++|++.+|+..|+++++-+...-.+...+|..+++
T Consensus        27 ~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~~~~~iY~~~lq   87 (109)
T 1v54_E           27 WELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVIQ   87 (109)
T ss_dssp             HHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCchhhHHHHHH
Confidence            3444444444   467999999999999999999999999999998776555666766653

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=90.53  E-value=9.1  Score=34.15  Aligned_cols=149  Identities=15%  Similarity=0.087  Sum_probs=88.9

Q ss_pred             cHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCCCCeehHHHHHHHHHhcCChhHHHHH----HH
Q 041384          145 LELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDL----FR  220 (580)
Q Consensus       145 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~----~~  220 (580)
                      +++..+-++.-++.|.+---...|.++..=|.+.+++++|++++..           -...+.+.|+...|-++    ++
T Consensus        13 ~~r~l~rl~~~I~~G~yYEAhQ~~Rtl~~Ry~~~~~~~eAidlL~~-----------ga~~ll~~~Q~~sa~DLa~llve   81 (312)
T 2wpv_A           13 LAKTLQRFENKIKAGDYYEAHQTLRTIANRYVRSKSYEHAIELISQ-----------GALSFLKAKQGGSGTDLIFYLLE   81 (312)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHH
Confidence            3444444444455552323344666777778888999998887633           23455667887666654    55


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHhcCCCc-hhHHHHHHHHHH----hc--CCCchhHHHHHHHHHHHcCCCHHHHHHHHhhC
Q 041384          221 AMQREGVKPTRVTLTIVLLACAELRDL-RNGKAIHGYAYC----CG--FDFDHHLSAALMHMYCECTEALHPARIIFERT  293 (580)
Q Consensus       221 ~m~~~~~~p~~~~~~~ll~~~~~~~~~-~~a~~~~~~~~~----~~--~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~  293 (580)
                      ...+.+++++......++..+..-..- ..-..+++.+++    .|  ...++.....+...|.+.++ +..|+..|-..
T Consensus        82 v~~~~~~~~~~~~~~rl~~l~~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~-~~~A~~H~i~~  160 (312)
T 2wpv_A           82 VYDLAEVKVDDISVARLVRLIAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDF-VYEAERYFMLG  160 (312)
T ss_dssp             HHHHTTCCCSHHHHHHHHHHHTTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTC-HHHHHHHHHTS
T ss_pred             HHHHcCCCCCHHHHHHHHHHHHHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCC-HHHHHHHHHhC
Confidence            556678889988888888877664322 223444444443    22  22466777777777888777 77777665533


Q ss_pred             CCCChhhHHHHH
Q 041384          294 KVKDVVIWSSII  305 (580)
Q Consensus       294 ~~~~~~~~~~l~  305 (580)
                      ...+...+..++
T Consensus       161 ~~~s~~~~a~~l  172 (312)
T 2wpv_A          161 THDSMIKYVDLL  172 (312)
T ss_dssp             CHHHHHHHHHHH
T ss_pred             CCccHHHHHHHH
Confidence            322333443333

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=90.23  E-value=10  Score=34.16  Aligned_cols=150  Identities=15%  Similarity=0.062  Sum_probs=88.0

Q ss_pred             HHHHHHHHHHHHhCCC---CCchHHHhHHHHHhHhcCCHHHHHHHHhcCCCCCeehHHHHHHHHHhcCChhHHHHHH---
Q 041384          146 ELGRQIHALVIVDGSF---ELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLF---  219 (580)
Q Consensus       146 ~~a~~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~---  219 (580)
                      ++..+-++.-++.|.+   ---..++.++..=|.+.+++++|++++-.           -...+.+.|+...|-++-   
T Consensus        13 ~~~i~rl~~~I~~G~y~~~YEAHQ~~RTi~~Ry~~~k~y~eAidLL~~-----------GA~~ll~~~Q~~sg~DL~~ll   81 (336)
T 3lpz_A           13 ERIIARLQRRIAEGQPEEQYEAAQETRLVAARYSKQGNWAAAVDILAS-----------VSQTLLRSGQGGSGGDLAVLL   81 (336)
T ss_dssp             HHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCccccHHHHHHHHHHHHHHhhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHH
Confidence            3334444444445422   12234566677778889999999987632           234566677776665554   


Q ss_pred             -HHHHHcCCCCCHHHHHHHHHHHhcCCCch-hHHHHHHHHHH----hc--CCCchhHHHHHHHHHHHcCCCHHHHHHHHh
Q 041384          220 -RAMQREGVKPTRVTLTIVLLACAELRDLR-NGKAIHGYAYC----CG--FDFDHHLSAALMHMYCECTEALHPARIIFE  291 (580)
Q Consensus       220 -~~m~~~~~~p~~~~~~~ll~~~~~~~~~~-~a~~~~~~~~~----~~--~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~  291 (580)
                       +.+.+.++++|..+...++..+.....-+ .-..+++.+++    .|  ..-++.....+...|.+.++ +..|+..|-
T Consensus        82 vevy~~~~~~~~~~~~~rL~~L~~~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~-~~~Ae~H~i  160 (336)
T 3lpz_A           82 VDTFRQAGQRVDGASRGKLLGCLRLFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGE-FEAAEKHLV  160 (336)
T ss_dssp             HHHHHHHTCCCCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTC-HHHHHHHHT
T ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCC-HHHHHHHHH
Confidence             55566788999988888888877655322 22334444433    23  33456666677777777777 777766664


Q ss_pred             hCCCCChhhHHHHHHH
Q 041384          292 RTKVKDVVIWSSIIRG  307 (580)
Q Consensus       292 ~~~~~~~~~~~~l~~~  307 (580)
                      ....++...+..++.-
T Consensus       161 lg~~~s~~~~a~mL~e  176 (336)
T 3lpz_A          161 LGTKESPEVLARMEYE  176 (336)
T ss_dssp             TSCTTHHHHHHHHHHH
T ss_pred             hcCCchHHHHHHHHHH
Confidence            4333333444444433

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=90.18  E-value=22  Score=38.78  Aligned_cols=139  Identities=6%  Similarity=0.009  Sum_probs=84.9

Q ss_pred             HHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCCC----C---------------
Q 041384          135 IISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIR----N---------------  195 (580)
Q Consensus       135 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~---------------  195 (580)
                      ++..+...+..+.+.++...      .+.+....-.+..+|...|++++|..+|.+....    +               
T Consensus       818 l~~~l~~~~~~~~~~~l~~~------~~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~~  891 (1139)
T 4fhn_B          818 LVEKLFLFKQYNACMQLIGW------LNSDPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAEK  891 (1139)
T ss_dssp             HHHHHHHHSCTTHHHHHHHH------SCCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHHT
T ss_pred             HHHHHHHhhhHHHHHHHhhh------ccCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhccccccccc
Confidence            44445555666666555443      2334444445667788899999999999876211    0               


Q ss_pred             -------eehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCC----HHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCC
Q 041384          196 -------EVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPT----RVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDF  264 (580)
Q Consensus       196 -------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  264 (580)
                             ..-|..++..+-+.+.++.+.++-+...+..-.-+    ...|..+.+++...+++++|...+-.+....  .
T Consensus       892 ~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~--~  969 (1139)
T 4fhn_B          892 YHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTP--L  969 (1139)
T ss_dssp             TTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSS--S
T ss_pred             ccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHH--H
Confidence                   01255666777777777777777666554321111    1246677777888888888877776665433  2


Q ss_pred             chhHHHHHHHHHHHcCC
Q 041384          265 DHHLSAALMHMYCECTE  281 (580)
Q Consensus       265 ~~~~~~~l~~~~~~~~~  281 (580)
                      ...+...++..+|..+.
T Consensus       970 r~~cLr~LV~~lce~~~  986 (1139)
T 4fhn_B          970 KKSCLLDFVNQLTKQGK  986 (1139)
T ss_dssp             CHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHHHhCCC
Confidence            34566667766666665

>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=89.29  E-value=19  Score=35.95  Aligned_cols=339  Identities=8%  Similarity=-0.055  Sum_probs=158.6

Q ss_pred             CchHHHhHHHHHhHhcCCHHHHHHHHhcCCCCCeehHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 041384          163 LSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVKPTRVTLTIVLLACA  242 (580)
Q Consensus       163 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  242 (580)
                      .....-..-+..+.+.+++.....++.. ...+...-.....+....|+..+|......+=..|- ........++..+.
T Consensus        70 ~~~~Lr~~~l~~l~~~~~w~~~l~~~~~-~p~~~~~~c~~~~A~~~~G~~~~a~~~~~~lW~~~~-~~p~~c~~l~~~~~  147 (618)
T 1qsa_A           70 PARTLQSRFVNELARREDWRGLLAFSPE-KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGK-SQPNACDKLFSVWR  147 (618)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHCCS-CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSS-CCCTHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCCHHHHHHhccC-CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHhCCC-CCcHHHHHHHHHHH
Confidence            3334445556666667777777776665 322333333455566667776666655555443331 22344455555555


Q ss_pred             cCCCchh--HHHHHHHHHHhc-----------CCCchhH-HHHHHHHHHHcCCCHHHHHHHHhhCCCCChh---hHHHHH
Q 041384          243 ELRDLRN--GKAIHGYAYCCG-----------FDFDHHL-SAALMHMYCECTEALHPARIIFERTKVKDVV---IWSSII  305 (580)
Q Consensus       243 ~~~~~~~--a~~~~~~~~~~~-----------~~~~~~~-~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~l~  305 (580)
                      +.|.+..  ...-+..+...|           ++++... ...++..+.+    ...+....... .++..   .+...+
T Consensus       148 ~~g~lt~~~~~~R~~~al~~~~~~~a~~l~~~l~~~~~~~a~~~~al~~~----p~~~~~~~~~~-~~~~~~~~~~~~~~  222 (618)
T 1qsa_A          148 ASGKQDPLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANN----PNTVLTFARTT-GATDFTRQMAAVAF  222 (618)
T ss_dssp             HTTCSCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHC----GGGHHHHHHHS-CCCHHHHHHHHHHH
T ss_pred             HCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHhCCHHHHHHHHHHHHHHhC----hHhHHHHHhcc-CCChhhHHHHHHHH
Confidence            5444332  222222222222           1122111 1122221111    11111221111 11111   111122


Q ss_pred             HHHHhCCChhHHHHHHHHHHHCCCCCCHHHH----HHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhc
Q 041384          306 RGYSQSGDLSEAMKLFSRMRLERIEPNSVTL----LAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKC  381 (580)
Q Consensus       306 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~----~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  381 (580)
                      .-+.+ .+.+.|...+....... ..+....    ..+.......+...++...+.......  .+.....-.+....+.
T Consensus       223 ~rlar-~d~~~A~~~~~~~~~~~-~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~e~~~r~Alr~  298 (618)
T 1qsa_A          223 ASVAR-QDAENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGT  298 (618)
T ss_dssp             HHHHH-HCHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHH
T ss_pred             HHHHh-cCHHHHHHHHHhhhhcc-CCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhccccC--CChHHHHHHHHHHHHC
Confidence            23333 36788888887776543 2233222    222333344443555666666544332  3333334444445567


Q ss_pred             CCHHHHHHHHhcCCCCC---cchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHH
Q 041384          382 GSITSSHQIFNEMAARD---FVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFN  458 (580)
Q Consensus       382 g~~~~A~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  458 (580)
                      |+++.|...|+.|....   .....-+..++...|+.++|..+|+.+...   .+  .|..+..  .+.|..-.      
T Consensus       299 ~d~~~a~~~~~~l~~~~~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~~---~~--fYg~lAa--~~Lg~~~~------  365 (618)
T 1qsa_A          299 GDRRGLNTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQQ---RG--FYPMVAA--QRIGEEYE------  365 (618)
T ss_dssp             TCHHHHHHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS---CS--HHHHHHH--HHTTCCCC------
T ss_pred             CCHHHHHHHHHHccccccccHhHHHHHHHHHHHcCCHHHHHHHHHHHhcC---CC--hHHHHHH--HHcCCCCC------
Confidence            88888888888887632   223344566777788888888888887641   11  2333221  11121000      


Q ss_pred             HHHHhhCCCCC-hh-----HHHHHHHHhhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 041384          459 NVMKEKKIALA-IE-----HYACYVDLLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQ  527 (580)
Q Consensus       459 ~~~~~~~~~~~-~~-----~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~  527 (580)
                        .......+. ..     ....-+..+...|....|...|.......+......+.......|..+.++....+
T Consensus       366 --~~~~~~~~~~~~~~~~~~~~~r~~~L~~~g~~~~a~~ew~~~~~~~~~~~~~~la~~a~~~~~~~~~v~~~~~  438 (618)
T 1qsa_A          366 --LKIDKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKSKSKTEQAQLARYAFNNQWWDLSVQATIA  438 (618)
T ss_dssp             --CCCCCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             --CCCCCCChhHHhhhccChHHHHHHHHHHCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCChHHHHHHHHH
Confidence              000000000 00     01123445667788888877777663233444444555555667777777655544

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=89.05  E-value=0.65  Score=40.02  Aligned_cols=59  Identities=22%  Similarity=0.250  Sum_probs=39.8

Q ss_pred             HhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCch
Q 041384          479 LLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAA  537 (580)
Q Consensus       479 ~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~  537 (580)
                      .+.+.|++++|++....- +..| |...-..++..+|-.|++++|..-++...+++|....
T Consensus         6 ~ll~~g~L~~al~~~~~~VR~~P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l~p~~~~   66 (273)
T 1zbp_A            6 NALSEGQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLP   66 (273)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhhH
Confidence            445677777777766544 3334 6666667777777777777777777777777776444

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=88.73  E-value=4.7  Score=28.30  Aligned_cols=79  Identities=14%  Similarity=0.069  Sum_probs=59.6

Q ss_pred             cchhHHHHHHHHHHHHhCCCCChhHHHHHHHHHHcCCCchHHHHhhccCCCCCccchHHHHHHHHhCCChhHHHHHHHHH
Q 041384           41 QTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREM  120 (580)
Q Consensus        41 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  120 (580)
                      ... ++|.-+-+++...|.  ...+--.-+..+...|++++|..+.+....||...|-+|-.  .+.|-.+++..-+.++
T Consensus        20 H~H-qEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~l   94 (115)
T 2uwj_G           20 HCH-EEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALCE--WHLGLGAALDRRLAGL   94 (115)
T ss_dssp             TCH-HHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHH--HHTTCHHHHHHHHHHH
T ss_pred             hHH-HHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHH
Confidence            344 888888888887764  32232333455788999999999999999999999988766  4677777777777777


Q ss_pred             HHCC
Q 041384          121 YLCG  124 (580)
Q Consensus       121 ~~~~  124 (580)
                      ..+|
T Consensus        95 a~sg   98 (115)
T 2uwj_G           95 GGSS   98 (115)
T ss_dssp             HTCS
T ss_pred             HhCC
Confidence            7665

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=87.98  E-value=8.9  Score=33.08  Aligned_cols=119  Identities=18%  Similarity=0.143  Sum_probs=68.6

Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCC----hhHHHHHHHHhhhc
Q 041384          408 GYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALA----IEHYACYVDLLGKS  483 (580)
Q Consensus       408 ~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~  483 (580)
                      .+.+.|++++|++.+..-++.. +-|...-..++..+|-.|++++|.+-++...+   ..|+    ...|..+|.+    
T Consensus         6 ~ll~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~---l~p~~~~~a~~yr~lI~a----   77 (273)
T 1zbp_A            6 NALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIK---LFPEYLPGASQLRHLVKA----   77 (273)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH---HCGGGHHHHHHHHHHHHH----
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH---hCchhhHHHHHHHHHHHH----
Confidence            3456778888888777777652 33666667778888888888888887776443   2333    2233333332    


Q ss_pred             CChHHHH-HHHHhCC----CCCCHHHHHHHHHHH--HhcCCHHHHHHHHHHHHhcCCCCch
Q 041384          484 GKIEDAC-KVVSTMP----MKPSTRILSSLVSAC--RIHGRLEVAEMLAHQLIEAEPENAA  537 (580)
Q Consensus       484 g~~~~A~-~~~~~~~----~~p~~~~~~~l~~~~--~~~~~~~~A~~~~~~~~~~~~~~~~  537 (580)
                         +... ++|.--.    ......-...++.+.  ...|+.++|.++-.++.+..|..+.
T Consensus        78 ---E~~R~~vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e~ap~~~G  135 (273)
T 1zbp_A           78 ---AQARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGF  135 (273)
T ss_dssp             ---HHHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCE
T ss_pred             ---HHHHHHHHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCcccCC
Confidence               1111 1222211    111222334444444  3458888888888888877766544

>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=87.26  E-value=8  Score=31.66  Aligned_cols=51  Identities=10%  Similarity=0.072  Sum_probs=27.8

Q ss_pred             CHHHHHHHHHHHHhcC--CCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          517 RLEVAEMLAHQLIEAE--PENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       517 ~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      +...+..+|..+...+  ..-+..|...+..+...|++.+|.++++.-++.+-
T Consensus        94 ~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A  146 (202)
T 3esl_A           94 NFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENNC  146 (202)
T ss_dssp             CHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             ccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC
Confidence            3455555555555433  34555555555556666666666666655544443

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=87.21  E-value=5.4  Score=28.02  Aligned_cols=87  Identities=9%  Similarity=-0.070  Sum_probs=63.0

Q ss_pred             CCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCCCCeehHHHHHHHHHhcCChhHHHHHHHHH
Q 041384          143 GELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAM  222 (580)
Q Consensus       143 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  222 (580)
                      ...++|..|-+.+...+  . ...+-.+-+..+...|++++|..+.+.+..||...|-+|..  .+.|--+++..-+.++
T Consensus        20 H~HqEA~tIAdwL~~~~--~-~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~l   94 (115)
T 2uwj_G           20 HCHEEALCIAEWLERLG--Q-DEAARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALCE--WHLGLGAALDRRLAGL   94 (115)
T ss_dssp             TCHHHHHHHHHHHHHTT--C-HHHHHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHH--HHTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCC--c-HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHH
Confidence            45678888888887776  2 44444455566788999999999999999999998887765  4678778887777777


Q ss_pred             HHcCCCCCHHHHH
Q 041384          223 QREGVKPTRVTLT  235 (580)
Q Consensus       223 ~~~~~~p~~~~~~  235 (580)
                      ...|- |....|.
T Consensus        95 a~sg~-p~~q~Fa  106 (115)
T 2uwj_G           95 GGSSD-PALADFA  106 (115)
T ss_dssp             HTCSS-HHHHHHH
T ss_pred             HhCCC-HHHHHHH
Confidence            76643 4444443

>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=86.80  E-value=20  Score=33.32  Aligned_cols=163  Identities=10%  Similarity=-0.022  Sum_probs=91.8

Q ss_pred             HHHHHHHHHhhccCChHHHHHHHHHHHH-hCCCC---chhHHHHHHHHhHhc-CCHHHHHHHHhcCCC---CCcchH---
Q 041384          334 VTLLAILSSCTRQSFLSHGLGVHCYIMK-AGLNF---DVSIGNALMNMYSKC-GSITSSHQIFNEMAA---RDFVSW---  402 (580)
Q Consensus       334 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~-~~~~~---~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~---~~~~~~---  402 (580)
                      .....+...|.+.|+.++..+++..... .+.-|   .......+++.+... +..+.-.++..+..+   .+-.+|   
T Consensus        20 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~~~r~flr~   99 (394)
T 3txn_A           20 QGILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAKQEKRTFLRQ   99 (394)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4556677778888888888777776654 11111   233445566666553 333333333333332   122333   


Q ss_pred             ---HHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-----HHHHHHHHHHhccCCHHHHHHHHHHHHHhhC-CCCChhHH
Q 041384          403 ---TTLISGYGFHGYGEEALQLFLEMQESGVEPDA-----ITVLAILSACNHAGLVKEAETLFNNVMKEKK-IALAIEHY  473 (580)
Q Consensus       403 ---~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~  473 (580)
                         ..++..|...|++.+|.+++.++.+.=-..|.     ..+..-+..|...+++.++...+.......+ +.+++...
T Consensus       100 ~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~  179 (394)
T 3txn_A          100 SLEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQ  179 (394)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHH
Confidence               24677788888888888888777764112121     3355556667778888888888877544322 22333222


Q ss_pred             H----HHHHHhh-hcCChHHHHHHHHhC
Q 041384          474 A----CYVDLLG-KSGKIEDACKVVSTM  496 (580)
Q Consensus       474 ~----~l~~~~~-~~g~~~~A~~~~~~~  496 (580)
                      .    .-+..+. ..+++.+|...|-+.
T Consensus       180 a~i~~~~Gi~~l~~~rdyk~A~~~F~ea  207 (394)
T 3txn_A          180 GALDLQSGILHAADERDFKTAFSYFYEA  207 (394)
T ss_dssp             HHHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHhccCHHHHHHHHHHH
Confidence            1    1223344 677888887776553

>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=86.52  E-value=5  Score=28.20  Aligned_cols=79  Identities=13%  Similarity=0.069  Sum_probs=57.8

Q ss_pred             cchhHHHHHHHHHHHHhCCCCChhHHHHHHHHHHcCCCchHHHHhhccCCCCCccchHHHHHHHHhCCChhHHHHHHHHH
Q 041384           41 QTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCFTQNGFYVRSLEMFREM  120 (580)
Q Consensus        41 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  120 (580)
                      ... ++|.-+-+++...|.  ...+--.-+..+...|++++|..+.+....||...|-+|-..  +.|-.+++..-+.++
T Consensus        21 H~H-qEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce~--rlGl~s~le~rL~~l   95 (116)
T 2p58_C           21 HYH-EEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLAYPDLEPWLALCEY--RLGLGSALESRLNRL   95 (116)
T ss_dssp             TCH-HHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHHH--HHTCHHHHHHHHHHH
T ss_pred             hHH-HHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHHH--hcccHHHHHHHHHHH
Confidence            344 888888888887764  222322334557888999999999999999999999887664  566667777777677


Q ss_pred             HHCC
Q 041384          121 YLCG  124 (580)
Q Consensus       121 ~~~~  124 (580)
                      ..+|
T Consensus        96 a~sg   99 (116)
T 2p58_C           96 ARSQ   99 (116)
T ss_dssp             TTCC
T ss_pred             HhCC
Confidence            6665

>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=86.02  E-value=3.6  Score=38.50  Aligned_cols=70  Identities=10%  Similarity=0.105  Sum_probs=57.3

Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHH-----hCCCCchhHHH
Q 041384          302 SSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMK-----AGLNFDVSIGN  372 (580)
Q Consensus       302 ~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~  372 (580)
                      ..++..+...|+++++...+..+.... +.+...+..+|.++...|+..+|++.|+.+.+     .|+.|++.+-.
T Consensus       175 ~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~  249 (388)
T 2ff4_A          175 TAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  249 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            346677888999999999888887664 55788999999999999999999999988765     58999877543

>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=85.65  E-value=7.5  Score=27.37  Aligned_cols=88  Identities=15%  Similarity=0.058  Sum_probs=63.5

Q ss_pred             cCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcCCHHHHHHHHhcCCCCCeehHHHHHHHHHhcCChhHHHHHHHH
Q 041384          142 IGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRA  221 (580)
Q Consensus       142 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  221 (580)
                      ....++|..|-+.+...+  . ...+-.+-+..+...|++++|..+.+.+..||...|-+|...  +.|--+++..-+.+
T Consensus        20 ~H~HqEA~tIAdwL~~~~--~-~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce~--rlGl~s~le~rL~~   94 (116)
T 2p58_C           20 NHYHEEANCIAEWLHLKG--E-EEAVQLIRLSSLMNRGDYASALQQGNKLAYPDLEPWLALCEY--RLGLGSALESRLNR   94 (116)
T ss_dssp             TTCHHHHHHHHHHHHHTT--C-HHHHHHHHHHHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHHH--HHTCHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHhCC--c-HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHHH--hcccHHHHHHHHHH
Confidence            345678888888887776  2 444444555678889999999999999999999998877654  67777777777777


Q ss_pred             HHHcCCCCCHHHHH
Q 041384          222 MQREGVKPTRVTLT  235 (580)
Q Consensus       222 m~~~~~~p~~~~~~  235 (580)
                      +...| .|....|.
T Consensus        95 la~sg-~p~~q~Fa  107 (116)
T 2p58_C           95 LARSQ-DPRIQTFV  107 (116)
T ss_dssp             HTTCC-CHHHHHHH
T ss_pred             HHhCC-CHHHHHHH
Confidence            76654 34444443

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=85.54  E-value=4.1  Score=30.56  Aligned_cols=61  Identities=18%  Similarity=0.172  Sum_probs=47.1

Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHH
Q 041384          416 EEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVD  478 (580)
Q Consensus       416 ~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  478 (580)
                      -+..+-++.+....+-|++......+++|.+.+++..|.++++- ++ .+..+...+|..+++
T Consensus        70 wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~-vK-~K~~~~~~iY~y~lq  130 (152)
T 2y69_E           70 WELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEV-VK-DKAGPHKEIYPYVIQ  130 (152)
T ss_dssp             HHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHH-HH-HHTTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHH-HH-HhcCCchhhHHHHHH
Confidence            34556666777778899999999999999999999999999998 54 233444666777764

>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=84.61  E-value=10  Score=28.47  Aligned_cols=48  Identities=15%  Similarity=0.274  Sum_probs=40.8

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHH
Q 041384          497 PMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSM  544 (580)
Q Consensus       497 ~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  544 (580)
                      ..-|++....+.+++|.+.+|+..|+++++-++..-.+...+|..+++
T Consensus        83 DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~~~~~~iY~y~lq  130 (152)
T 2y69_E           83 DLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVIQ  130 (152)
T ss_dssp             SBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHHH
T ss_pred             ccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhcCCchhhHHHHHH
Confidence            467999999999999999999999999999998876555666776653

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=83.66  E-value=38  Score=34.59  Aligned_cols=60  Identities=10%  Similarity=-0.059  Sum_probs=37.8

Q ss_pred             ChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcC---------CHHHHHHHHHHH
Q 041384          469 AIEHYACYVDLLGKSGKIEDACKVVSTM-PMKPSTRILSSLVSACRIHG---------RLEVAEMLAHQL  528 (580)
Q Consensus       469 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~~---------~~~~A~~~~~~~  528 (580)
                      +..=|..|.....|.+++++|.+.|+.. ..+-++..+..|+..|.+.+         +.+..+.+.-++
T Consensus       612 s~lEWEiLGlla~RL~h~~EA~~a~~~~l~~RFs~ka~~kLLeiY~~~~~~~~~~~~~d~~~il~~~ikl  681 (754)
T 4gns_B          612 SGLEWELLGLIMLRTWHWEDAVACLRTSIVARFDPVSCQQLLKIYLQPPKNIQEVTLLDTDTIISLLIKK  681 (754)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHSCCSSSCSCCSSCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcCccccccccCCHHHHHHHHHHH
Confidence            3444666777777777777777777665 34566777777777776655         555555544444

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=83.03  E-value=12  Score=40.85  Aligned_cols=60  Identities=10%  Similarity=-0.072  Sum_probs=33.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC-Cc----hHHHHHHHHHHhcCChHHHHHHHHHHH
Q 041384          504 ILSSLVSACRIHGRLEVAEMLAHQLIEAEPE-NA----ANYTLLSMVCSESGNWLGAEEVWRVMR  563 (580)
Q Consensus       504 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~  563 (580)
                      .|..++..+.+.|.++.+.++.+.+.+..++ +.    ..|..+...+...|++++|-..+-.+-
T Consensus       901 YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~p  965 (1139)
T 4fhn_B          901 YYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLS  965 (1139)
T ss_dssp             HHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCC
Confidence            4455555666666666666666665554322 21    135555666666666666665554443

>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=82.17  E-value=15  Score=28.46  Aligned_cols=49  Identities=10%  Similarity=-0.029  Sum_probs=35.2

Q ss_pred             HHHHHHHHHhcC--CCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCCcc
Q 041384          521 AEMLAHQLIEAE--PENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGLSK  569 (580)
Q Consensus       521 A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  569 (580)
                      +..+|..+...+  ..-+..|...+..+...|++.+|.++++.-++.+-+|
T Consensus        84 p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~Gi~~~A~P  134 (152)
T 4a1g_A           84 LHQFFEFLYNHGIGTLSSPLYIAWAGHLEAQGELQHASAVLQRGIQNQAEP  134 (152)
T ss_dssp             HHHHHHHHHTTTTTTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBS
T ss_pred             HHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcc
Confidence            677777777654  5566677778888888888888888887766665443

>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic}

Probab=80.56  E-value=23  Score=29.23  Aligned_cols=18  Identities=17%  Similarity=0.040  Sum_probs=7.5

Q ss_pred             CCHHHHHHHHHHHhccCC
Q 041384          432 PDAITVLAILSACNHAGL  449 (580)
Q Consensus       432 p~~~~~~~l~~~~~~~~~  449 (580)
                      ++...-...+.++...+.
T Consensus       155 ~~~~vr~~a~~aL~~~~~  172 (211)
T 3ltm_A          155 EDGWVRQSAADALGEIGG  172 (211)
T ss_dssp             SSHHHHHHHHHHHHHHCS
T ss_pred             CCHHHHHHHHHHHHHhCc
Confidence            344443444444444443

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=80.13  E-value=27  Score=30.34  Aligned_cols=19  Identities=11%  Similarity=0.153  Sum_probs=10.4

Q ss_pred             HHHHHcCCCchHHHHhhcc
Q 041384           70 ISMYAKFSKPESAYQLFDE   88 (580)
Q Consensus        70 ~~~~~~~g~~~~A~~~~~~   88 (580)
                      +...+..|+.+-+..+++.
T Consensus        43 L~~A~~~g~~~~v~~Ll~~   61 (285)
T 1wdy_A           43 LHNAVQMSREDIVELLLRH   61 (285)
T ss_dssp             HHHHHHTTCHHHHHHHHHT
T ss_pred             HHHHHHcCCHHHHHHHHHc
Confidence            3344555666665555554

---

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	580
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	7e-05
d1zbpa1	264	e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {V	0.004
d2onda1	308	a.118.8.7 (A:242-549) Cleavage stimulation factor	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 = 42.7 bits (99), Expect = 7e-05
 Identities = 32/198 (16%), Positives = 66/198 (33%), Gaps = 6/198 (3%)

Query: 367 DVSIGNALMNMYSKCGSITSSHQIFN---EMAARDFVSWTTLISGYGFHGYGEEALQLFL 423
                + L  +++  G I  +   F     +      ++  L +        + A+  +L
Sbjct: 168 FAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYL 227

Query: 424 EMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEK-KIALAIEHYACYVDLLGK 482
                     A+    +       GL+  A   +   ++ +     A  + A  +   G 
Sbjct: 228 RALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKGS 286

Query: 483 SGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLL 542
             + ED                L++L +  R  G +E A  L  + +E  PE AA ++ L
Sbjct: 287 VAEAEDCYNTAL-RLCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNL 345

Query: 543 SMVCSESGNWLGAEEVWR 560
           + V  + G    A   ++
Sbjct: 346 ASVLQQQGKLQEALMHYK 363

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]} Length = 264

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]

 Score = 36.9 bits (85), Expect = 0.004
 Identities = 11/49 (22%), Positives = 23/49 (46%)

Query: 516 GRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRA 564
           G+L+ A  L  + I+A P++A+  +    +    G++  A+E       
Sbjct: 10  GQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSIK 58

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]} Length = 308

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 37.3 bits (85), Expect = 0.004
 Identities = 25/167 (14%), Positives = 54/167 (32%), Gaps = 11/167 (6%)

Query: 169 TALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREGVK 228
            A  D       +     ++ +++   ++  T +    +       GI   R + ++  +
Sbjct: 103 FAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARE 162

Query: 229 PTRVTLTIVLLACAELRDLRNGKAIHGYAYCCG---FDFDHHLSAALMHMYCECTEALHP 285
             R    + + A          K++    +  G   +        A +       E  + 
Sbjct: 163 DARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNE-DNN 221

Query: 286 ARIIFER-------TKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMR 325
            R++FER          K   IW+  +   S  GDL+  +K+  R  
Sbjct: 222 TRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF 268

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	580
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.92
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.89
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.63
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.58
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.25
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.07
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.07
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.05
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.04
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.04
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.02
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.01
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.01
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.89
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.78
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.76
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.7
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.7
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.64
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.62
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.62
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.59
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.58
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.56
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.53
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.52
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.43
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.36
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.35
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.33
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.31
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.31
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.27
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.27
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.18
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.18
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.1
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.1
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.03
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.01
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.94
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.89
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.84
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.84
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.82
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.75
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.71
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.64
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.54
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.49
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.41
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.37
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.37
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	97.03
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	96.77
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	96.37
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	96.14
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.89
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	95.89
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	94.91
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	94.51
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	92.0
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	89.7
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	88.05

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.92  E-value=4.6e-21  Score=182.68  Aligned_cols=242  Identities=16%  Similarity=0.125  Sum_probs=186.7

Q ss_pred             HHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCC
Q 041384          304 IIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGS  383 (580)
Q Consensus       304 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  383 (580)
                      ........+....+...+....... +.+...+..+...+...|+.+.|...++...+.. +-+...+..+...+...|+
T Consensus       141 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~  218 (388)
T d1w3ba_         141 LGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARI  218 (388)
T ss_dssp             HHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTC
T ss_pred             ccccccccchhhhhHHHHHHhhccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhcccc
Confidence            3344445555666666665555442 3344556666667777777777777777766653 3345666777777778888


Q ss_pred             HHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHH
Q 041384          384 ITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETLFNN  459 (580)
Q Consensus       384 ~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~  459 (580)
                      +++|...+++...   .+...+..+...+.+.|++++|+..|++..+.  .| +..++..+...+...|++++|.+.++.
T Consensus       219 ~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~  296 (388)
T d1w3ba_         219 FDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANALKEKGSVAEAEDCYNT  296 (388)
T ss_dssp             TTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHHHHHHSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHh
Confidence            8888877776554   34456777888888899999999999998885  55 567888889999999999999999998


Q ss_pred             HHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCch
Q 041384          460 VMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAA  537 (580)
Q Consensus       460 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~  537 (580)
                      +..  ..+.+...+..+...+...|++++|++.|++. ...| +..++..+...+.+.|++++|+..++++++.+|+++.
T Consensus       297 ~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~P~~~~  374 (388)
T d1w3ba_         297 ALR--LCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFAD  374 (388)
T ss_dssp             HHH--HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCHH
T ss_pred             hhc--cCCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHH
Confidence            664  34556778888999999999999999999986 4455 5678889999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCC
Q 041384          538 NYTLLSMVCSESGN  551 (580)
Q Consensus       538 ~~~~l~~~~~~~g~  551 (580)
                      +|..++.+|.+.|+
T Consensus       375 a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         375 AYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHcCC
Confidence            99999999988875

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.89  E-value=6.4e-20  Score=174.62  Aligned_cols=250  Identities=14%  Similarity=0.076  Sum_probs=201.9

Q ss_pred             ChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHh
Q 041384          313 DLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFN  392 (580)
Q Consensus       313 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  392 (580)
                      ....+........... .................+....+...+....... +.+...+..+...+...|++++|...++
T Consensus       116 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~  193 (388)
T d1w3ba_         116 DMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFE  193 (388)
T ss_dssp             CSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             cccccccccccccccc-cccccccccccccccccchhhhhHHHHHHhhccC-cchhHHHHhhcccccccCcHHHHHHHHH
Confidence            3334444444333333 3333344445555667777777777777777654 4456677888889999999999999999


Q ss_pred             cCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCC
Q 041384          393 EMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALA  469 (580)
Q Consensus       393 ~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  469 (580)
                      +..+   .+...|..+...+...|++++|+..+++....+ +.+...+..+...+.+.|++++|...|+++++  -.+.+
T Consensus       194 ~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~--~~p~~  270 (388)
T d1w3ba_         194 KAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIE--LQPHF  270 (388)
T ss_dssp             HHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--TCSSC
T ss_pred             HHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCC
Confidence            7664   355678889999999999999999999998863 44667788889999999999999999999775  23344


Q ss_pred             hhHHHHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHH
Q 041384          470 IEHYACYVDLLGKSGKIEDACKVVSTMP--MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCS  547 (580)
Q Consensus       470 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  547 (580)
                      ..++..+...+...|++++|++.++...  .+.+...+..+...+...|++++|+..++++.+..|+++.++..++.+|.
T Consensus       271 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~  350 (388)
T d1w3ba_         271 PDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQ  350 (388)
T ss_dssp             HHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            6788899999999999999999998872  45677889999999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHHHHHHHHhCCC
Q 041384          548 ESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       548 ~~g~~~~A~~~~~~~~~~~~  567 (580)
                      +.|++++|++.+++.++..+
T Consensus       351 ~~g~~~~A~~~~~~al~l~P  370 (388)
T d1w3ba_         351 QQGKLQEALMHYKEAIRISP  370 (388)
T ss_dssp             TTTCCHHHHHHHHHHHTTCT
T ss_pred             HcCCHHHHHHHHHHHHHhCC
Confidence            99999999999999887643

>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=99.63  E-value=2.1e-14  Score=132.14  Aligned_cols=241  Identities=13%  Similarity=0.043  Sum_probs=157.9

Q ss_pred             HHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcC
Q 041384          303 SIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCG  382 (580)
Q Consensus       303 ~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  382 (580)
                      .....+.+.|++++|...|+++.+.. +-+..++..+..++...|+++.|...+....+.. +-+...+..+...|...|
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccc
Confidence            34556778899999999999888764 3356678888888888888888888888887764 335666677777777777


Q ss_pred             CHHHHHHHHhcCCCCCcch---HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHH
Q 041384          383 SITSSHQIFNEMAARDFVS---WTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNN  459 (580)
Q Consensus       383 ~~~~A~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  459 (580)
                      ++++|.+.++.....++..   +.......                    ...+.......+..+...+.+.+|...+.+
T Consensus       102 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~--------------------~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  161 (323)
T d1fcha_         102 LQRQACEILRDWLRYTPAYAHLVTPAEEGA--------------------GGAGLGPSKRILGSLLSDSLFLEVKELFLA  161 (323)
T ss_dssp             CHHHHHHHHHHHHHTSTTTGGGCC-----------------------------------CTTHHHHHHHHHHHHHHHHHH
T ss_pred             cccccccchhhHHHhccchHHHHHhhhhhh--------------------hhcccccchhhHHHHHHhhHHHHHHHHHHH
Confidence            7777777777654321110   00000000                    000000011111222334556667777776


Q ss_pred             HHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCch
Q 041384          460 VMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMK-PSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAA  537 (580)
Q Consensus       460 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~  537 (580)
                      +++.....++..++..+...+...|++++|+..+++. ... -+...|..+...+...|++++|++.++++.+.+|.++.
T Consensus       162 al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~  241 (323)
T d1fcha_         162 AVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIR  241 (323)
T ss_dssp             HHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH
T ss_pred             HHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccccccccchhhhhhcccccccchhHHHHHHHHHHHhhccHH
Confidence            6554444445566777777777778888888777776 223 35667777777888888888888888888888888888


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 041384          538 NYTLLSMVCSESGNWLGAEEVWRVMRAK  565 (580)
Q Consensus       538 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (580)
                      ++..++.+|.+.|++++|++.|++.++.
T Consensus       242 a~~~lg~~~~~~g~~~~A~~~~~~al~l  269 (323)
T d1fcha_         242 SRYNLGISCINLGAHREAVEHFLEALNM  269 (323)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            8888888888888888888888877663

>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=99.58  E-value=3e-13  Score=124.32  Aligned_cols=267  Identities=13%  Similarity=0.061  Sum_probs=193.5

Q ss_pred             HHHHHHHHcCCCHHHHHHHHhhCCC---CChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccC
Q 041384          271 ALMHMYCECTEALHPARIIFERTKV---KDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQS  347 (580)
Q Consensus       271 ~l~~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~  347 (580)
                      .....+.+.|+ ++.|...|+....   .+..+|..+..++...|++++|...|.+..+.. +-+...+..+...+...|
T Consensus        24 ~~g~~~~~~g~-~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          24 EEGLRRLQEGD-LPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHHHTTC-HHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCC-HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccc
Confidence            45566778999 9999999997653   356789999999999999999999999988764 345678888889999999


Q ss_pred             ChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHH
Q 041384          348 FLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQE  427 (580)
Q Consensus       348 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  427 (580)
                      ++++|.+.++......... ........... .               ..+.......+..+...+.+.+|.+.+.+..+
T Consensus       102 ~~~~A~~~~~~~~~~~~~~-~~~~~~~~~~~-~---------------~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~  164 (323)
T d1fcha_         102 LQRQACEILRDWLRYTPAY-AHLVTPAEEGA-G---------------GAGLGPSKRILGSLLSDSLFLEVKELFLAAVR  164 (323)
T ss_dssp             CHHHHHHHHHHHHHTSTTT-GGGCC-------------------------------CTTHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccccccchhhHHHhccch-HHHHHhhhhhh-h---------------hcccccchhhHHHHHHhhHHHHHHHHHHHHHH
Confidence            9999999999988743211 10000000000 0               00001111122233445567788888888776


Q ss_pred             cCC-CCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHH
Q 041384          428 SGV-EPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRI  504 (580)
Q Consensus       428 ~g~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~  504 (580)
                      ... .++...+..+...+...|++++|+..+++++..  .+-+...+..+..+|...|++++|++.|++. ...| +...
T Consensus       165 ~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a  242 (323)
T d1fcha_         165 LDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRS  242 (323)
T ss_dssp             HSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             HhhcccccccchhhHHHHHHHHHHhhhhccccccccc--ccccccchhhhhhcccccccchhHHHHHHHHHHHhhccHHH
Confidence            422 235677888888899999999999999997753  2334677889999999999999999999987 3444 6778


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchH-----------HHHHHHHHHhcCChHHHHHH
Q 041384          505 LSSLVSACRIHGRLEVAEMLAHQLIEAEPENAAN-----------YTLLSMVCSESGNWLGAEEV  558 (580)
Q Consensus       505 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~-----------~~~l~~~~~~~g~~~~A~~~  558 (580)
                      |..++.+|.+.|++++|+..|+++++..|.+...           +..+..++...|+.+.+...
T Consensus       243 ~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~~~  307 (323)
T d1fcha_         243 RYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAA  307 (323)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            9999999999999999999999999988776553           45667777777877765543

>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=99.25  E-value=1.2e-09  Score=101.34  Aligned_cols=261  Identities=12%  Similarity=-0.036  Sum_probs=188.3

Q ss_pred             HHHHHHhCCChhHHHHHHHHHHHCCCCCC----HHHHHHHHHHhhccCChHHHHHHHHHHHHhCC--CC---chhHHHHH
Q 041384          304 IIRGYSQSGDLSEAMKLFSRMRLERIEPN----SVTLLAILSSCTRQSFLSHGLGVHCYIMKAGL--NF---DVSIGNAL  374 (580)
Q Consensus       304 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~---~~~~~~~l  374 (580)
                      ....+...|++++|+.++++..+.....+    ...+..+...+...|++++|...++...+...  ..   ....+..+
T Consensus        18 rA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~   97 (366)
T d1hz4a_          18 RAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQ   97 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHH
Confidence            34567789999999999999876532212    23566677788899999999999998876211  11   23345566


Q ss_pred             HHHhHhcCCHHHHHHHHhcCCC-------CC----cchHHHHHHHHHhcCChHHHHHHHHHHHHcCCC----CCHHHHHH
Q 041384          375 MNMYSKCGSITSSHQIFNEMAA-------RD----FVSWTTLISGYGFHGYGEEALQLFLEMQESGVE----PDAITVLA  439 (580)
Q Consensus       375 ~~~~~~~g~~~~A~~~~~~~~~-------~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~----p~~~~~~~  439 (580)
                      ...+...|++..+...+.....       +.    ...+..+...+...|+++.+...+.........    ....++..
T Consensus        98 ~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  177 (366)
T d1hz4a_          98 SEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAM  177 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHH
Confidence            6778888999988888776542       11    124556777888999999999999888764222    12345566


Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHhhCCCCC-----hhHHHHHHHHhhhcCChHHHHHHHHhCC-CCC-----CHHHHHHH
Q 041384          440 ILSACNHAGLVKEAETLFNNVMKEKKIALA-----IEHYACYVDLLGKSGKIEDACKVVSTMP-MKP-----STRILSSL  508 (580)
Q Consensus       440 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-----~~~~~~~l  508 (580)
                      ....+...++...+...+.+..........     ...+..+...+...|++++|...+++.. ..|     ....+..+
T Consensus       178 ~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l  257 (366)
T d1hz4a_         178 LIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNI  257 (366)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHH
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHH
Confidence            667778889999998888875543222111     2345666778889999999999998873 221     23456678


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhc------CCCCchHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 041384          509 VSACRIHGRLEVAEMLAHQLIEA------EPENAANYTLLSMVCSESGNWLGAEEVWRVMRA  564 (580)
Q Consensus       509 ~~~~~~~~~~~~A~~~~~~~~~~------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (580)
                      ...+...|++++|...++++...      .|....++..++.+|...|++++|.+.+++..+
T Consensus       258 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         258 ARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            88899999999999999988743      255677889999999999999999999988755

>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=99.07  E-value=2.3e-09  Score=96.76  Aligned_cols=225  Identities=8%  Similarity=0.048  Sum_probs=163.6

Q ss_pred             HHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcC-CHHHHHHHHhcCCC---CCcchHHHHHHHH
Q 041384          334 VTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCG-SITSSHQIFNEMAA---RDFVSWTTLISGY  409 (580)
Q Consensus       334 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~---~~~~~~~~l~~~~  409 (580)
                      ..++.+-..+.+.+..++|++.++.+++.. +-+...|+....++...| ++++|...++...+   .+..+|..+...+
T Consensus        44 ~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~  122 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLV  122 (315)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHHH
Confidence            355566667778888999999999998875 446667777777777766 48899988887765   3566888888888


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCC---
Q 041384          410 GFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGK---  485 (580)
Q Consensus       410 ~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---  485 (580)
                      .+.|++++|++.++++.+.  .| +...|..+...+...|++++|+..++++++.  .+.+...|+.+..++.+.+.   
T Consensus       123 ~~l~~~~eAl~~~~kal~~--dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~--~p~n~~a~~~r~~~l~~~~~~~~  198 (315)
T d2h6fa1         123 EWLRDPSQELEFIADILNQ--DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISNTTGYND  198 (315)
T ss_dssp             HHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HhhccHHHHHHHHhhhhhh--hhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHH--CCccHHHHHHHHHHHHHccccch
Confidence            8899999999999998885  45 5688888888888899999999999987762  22345567766666655554   


Q ss_pred             ---hHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC--CchHHHHHHHHHHhc--CChHHHH
Q 041384          486 ---IEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPE--NAANYTLLSMVCSES--GNWLGAE  556 (580)
Q Consensus       486 ---~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~l~~~~~~~--g~~~~A~  556 (580)
                         +++|++.+.+. ...| +...|..+...+.. ...+++...++.+.+..|.  ++..+..++.+|...  +..+.+.
T Consensus       199 ~~~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~  277 (315)
T d2h6fa1         199 RAVLEREVQYTLEMIKLVPHNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKE  277 (315)
T ss_dssp             HHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHH
T ss_pred             hhhhHHhHHHHHHHHHhCCCchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHHH
Confidence               56777777765 3344 66677777665544 4457788888888877765  455566677776553  6667777


Q ss_pred             HHHHHHHh
Q 041384          557 EVWRVMRA  564 (580)
Q Consensus       557 ~~~~~~~~  564 (580)
                      ..+++..+
T Consensus       278 ~~~~ka~~  285 (315)
T d2h6fa1         278 DILNKALE  285 (315)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            77776544

>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=99.07  E-value=2e-09  Score=94.57  Aligned_cols=221  Identities=10%  Similarity=0.004  Sum_probs=132.0

Q ss_pred             ChhHHHHHHHHHHHCCCCCC---HHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhHhcCCHHHHHH
Q 041384          313 DLSEAMKLFSRMRLERIEPN---SVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMNMYSKCGSITSSHQ  389 (580)
Q Consensus       313 ~~~~a~~~~~~m~~~~~~p~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  389 (580)
                      +.+.++.-+.+........+   ..++..+..++.+.|++++|...|+...+.. +-++.+|..+..+|.+.|++++|..
T Consensus        14 ~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~   92 (259)
T d1xnfa_          14 QQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYE   92 (259)
T ss_dssp             HHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhh
Confidence            34455555566554321111   2355556667777888888888888877764 3456777778888888888888888


Q ss_pred             HHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhC
Q 041384          390 IFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETLFNNVMKEKK  465 (580)
Q Consensus       390 ~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  465 (580)
                      .|+++.+   .+..++..+..++...|++++|...+++..+.  .| +......+...+.+.+..+.+..+... ...  
T Consensus        93 ~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~--  167 (259)
T d1xnfa_          93 AFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQH-FEK--  167 (259)
T ss_dssp             HHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHH-HHH--
T ss_pred             hhhHHHHHHhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhh--ccccHHHHHHHHHHHHHhhhHHHHHHHHHH-hhc--
Confidence            8887765   24557777888888888888888888888775  34 344433344444555555555444444 221  


Q ss_pred             CCCChhHHHHHHHHhhhcCC----hHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHH
Q 041384          466 IALAIEHYACYVDLLGKSGK----IEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANY  539 (580)
Q Consensus       466 ~~~~~~~~~~l~~~~~~~g~----~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~  539 (580)
                      ..+....++. +..+.....    .+.+...+... ...| ...+|..+...+...|++++|...+++++..+|.+...|
T Consensus       168 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  246 (259)
T d1xnfa_         168 SDKEQWGWNI-VEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFVEH  246 (259)
T ss_dssp             SCCCSTHHHH-HHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCHHH
T ss_pred             cchhhhhhhH-HHHHHHHHHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHH
Confidence            2222222222 222222212    22222221111 0112 224566677888888888888888888888888876555


Q ss_pred             H
Q 041384          540 T  540 (580)
Q Consensus       540 ~  540 (580)
                      .
T Consensus       247 ~  247 (259)
T d1xnfa_         247 R  247 (259)
T ss_dssp             H
T ss_pred             H
Confidence            4

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=99.05  E-value=8e-10  Score=97.22  Aligned_cols=215  Identities=12%  Similarity=-0.049  Sum_probs=148.8

Q ss_pred             hHHHHHHHHHHHHhCC-CC--chhHHHHHHHHhHhcCCHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHH
Q 041384          349 LSHGLGVHCYIMKAGL-NF--DVSIGNALMNMYSKCGSITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLF  422 (580)
Q Consensus       349 ~~~a~~~~~~~~~~~~-~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~  422 (580)
                      .+.++..+++...... .+  ...++..+..+|.+.|++++|...|++..+   .++.+|+.+..++...|++++|+..|
T Consensus        15 ~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~~   94 (259)
T d1xnfa_          15 QEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAF   94 (259)
T ss_dssp             HHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhhh
Confidence            4455555556554321 11  234667778899999999999999998775   46678999999999999999999999


Q ss_pred             HHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC-CCC
Q 041384          423 LEMQESGVEP-DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP-MKP  500 (580)
Q Consensus       423 ~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p  500 (580)
                      +++.+.  .| +..++..+..++...|++++|...++..++..  +.+......+...+.+.+..+.+..+..... ..+
T Consensus        95 ~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  170 (259)
T d1xnfa_          95 DSVLEL--DPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDK  170 (259)
T ss_dssp             HHHHHH--CTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCC
T ss_pred             hHHHHH--HhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc--cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccch
Confidence            999985  55 45788889999999999999999999977632  2334444444455556665555544444332 122


Q ss_pred             CHHHHHHHHHHHH----hcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCCc
Q 041384          501 STRILSSLVSACR----IHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGLS  568 (580)
Q Consensus       501 ~~~~~~~l~~~~~----~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  568 (580)
                      +...+. ++..+.    ..+..+.+...+.......|....++..++.+|...|++++|.+.|++.+...+.
T Consensus       171 ~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~  241 (259)
T d1xnfa_         171 EQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVH  241 (259)
T ss_dssp             CSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCT
T ss_pred             hhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC
Confidence            222222 222222    1223444444444445555667778999999999999999999999999876654

>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=99.04  E-value=2.1e-08  Score=90.24  Aligned_cols=219  Identities=12%  Similarity=0.043  Sum_probs=110.7

Q ss_pred             hhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccC--------------ChHHHHHHHHHHHHhCCCCchhHHHHHHHHhH
Q 041384          314 LSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQS--------------FLSHGLGVHCYIMKAGLNFDVSIGNALMNMYS  379 (580)
Q Consensus       314 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~--------------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  379 (580)
                      .+++..+|+++...- +-+...|...+.-+...+              ..+++..+++...+...+.+...+...+..+.
T Consensus        32 ~~Rv~~vyerAl~~~-~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~  110 (308)
T d2onda1          32 TKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            455666777766542 233444433333332221              13445555555554433444455555555566


Q ss_pred             hcCCHHHHHHHHhcCCCC---Cc-chHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH-HhccCCHHHHH
Q 041384          380 KCGSITSSHQIFNEMAAR---DF-VSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSA-CNHAGLVKEAE  454 (580)
Q Consensus       380 ~~g~~~~A~~~~~~~~~~---~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~-~~~~~~~~~a~  454 (580)
                      +.|+++.|..+|+++.+.   +. ..|...+..+.+.|+.+.|.++|+++.+.+ +.+...|...... +...|+.+.|.
T Consensus       111 ~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~-~~~~~~~~~~a~~e~~~~~~~~~a~  189 (308)
T d2onda1         111 SRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAF  189 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHH
T ss_pred             hcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhccCHHHHH
Confidence            666666666666654431   11 245555555666666666666666665542 1122333222221 23345666666


Q ss_pred             HHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC----CCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 041384          455 TLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP----MKPS--TRILSSLVSACRIHGRLEVAEMLAHQL  528 (580)
Q Consensus       455 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~p~--~~~~~~l~~~~~~~~~~~~A~~~~~~~  528 (580)
                      .+|+.+++.  .+.+...+..+++.+.+.|+++.|..+|++..    ..|+  ...|...+.--...|+.+.+..+.+++
T Consensus       190 ~i~e~~l~~--~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~  267 (308)
T d2onda1         190 KIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             HHHHHHHHH--HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHh--hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            666665542  22334455556666666666666666665541    1221  234555555555556666666666666


Q ss_pred             HhcCCCCc
Q 041384          529 IEAEPENA  536 (580)
Q Consensus       529 ~~~~~~~~  536 (580)
                      .+..|...
T Consensus       268 ~~~~~~~~  275 (308)
T d2onda1         268 FTAFREEY  275 (308)
T ss_dssp             HHHTTTTT
T ss_pred             HHHCcccc
Confidence            66555443

>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=99.04  E-value=1.8e-08  Score=92.99  Aligned_cols=236  Identities=10%  Similarity=-0.000  Sum_probs=140.1

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCCchhHHHHH
Q 041384          198 SWTAMISGCIDSQNYDTGIDLFRAMQREGV-KPT----RVTLTIVLLACAELRDLRNGKAIHGYAYCCGFDFDHHLSAAL  272 (580)
Q Consensus       198 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  272 (580)
                      +++.+...+...|++++|...|++..+... .++    ...+..+...+...|++..+...+......            
T Consensus        53 a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~------------  120 (366)
T d1hz4a_          53 ATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQL------------  120 (366)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------
Confidence            344555666667777777777766544210 111    223444555566677777777665554321            


Q ss_pred             HHHHHHcCCCHHHHHHHHhhCCCC----ChhhHHHHHHHHHhCCChhHHHHHHHHHHHCC----CCCCHHHHHHHHHHhh
Q 041384          273 MHMYCECTEALHPARIIFERTKVK----DVVIWSSIIRGYSQSGDLSEAMKLFSRMRLER----IEPNSVTLLAILSSCT  344 (580)
Q Consensus       273 ~~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~----~~p~~~~~~~ll~~~~  344 (580)
                                       ......+    ....+..+...+...|+++.+...+.......    ......++......+.
T Consensus       121 -----------------~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  183 (366)
T d1hz4a_         121 -----------------INEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSL  183 (366)
T ss_dssp             -----------------HHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHH
T ss_pred             -----------------hHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHH
Confidence                             1111111    11234445667778888999988888776542    2223345555666677


Q ss_pred             ccCChHHHHHHHHHHHHhC--CCC----chhHHHHHHHHhHhcCCHHHHHHHHhcCCCC----C---cchHHHHHHHHHh
Q 041384          345 RQSFLSHGLGVHCYIMKAG--LNF----DVSIGNALMNMYSKCGSITSSHQIFNEMAAR----D---FVSWTTLISGYGF  411 (580)
Q Consensus       345 ~~~~~~~a~~~~~~~~~~~--~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~---~~~~~~l~~~~~~  411 (580)
                      ..++...+...+.......  ...    ....+..+...+...|++++|...++.....    +   ...+..+...+..
T Consensus       184 ~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~  263 (366)
T d1hz4a_         184 ARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQIL  263 (366)
T ss_dssp             HHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHH
T ss_pred             hhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHH
Confidence            7888888887777666521  111    1233455556677778888888888766542    1   1234556677777


Q ss_pred             cCChHHHHHHHHHHHH----cCCCCCH-HHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 041384          412 HGYGEEALQLFLEMQE----SGVEPDA-ITVLAILSACNHAGLVKEAETLFNNVMK  462 (580)
Q Consensus       412 ~~~~~~a~~~~~~~~~----~g~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~  462 (580)
                      .|++++|...+++...    .+..|+. ..+..+...+...|++++|.+.+++.++
T Consensus       264 ~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         264 LGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            8888888887777653    2333432 4566666777778888888877777544

>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=99.02  E-value=8.4e-09  Score=92.91  Aligned_cols=224  Identities=8%  Similarity=0.028  Sum_probs=162.3

Q ss_pred             hhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccC-ChHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 041384          299 VIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQS-FLSHGLGVHCYIMKAGLNFDVSIGNALMNM  377 (580)
Q Consensus       299 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  377 (580)
                      ..|+.+-..+.+.+.+++|+.+++++++.+ +-+...|.....++...| ++++|+..++...+.. +-+..+|..+...
T Consensus        44 ~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~  121 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVL  121 (315)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHH
Confidence            356667778889999999999999999874 345556777777777766 5899999999998876 4568888888999


Q ss_pred             hHhcCCHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCC----
Q 041384          378 YSKCGSITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGL----  449 (580)
Q Consensus       378 ~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~----  449 (580)
                      +.+.|++++|...++++.+   .+...|..+...+...|++++|++.++++.+.  .| +...|+.+...+.+.+.    
T Consensus       122 ~~~l~~~~eAl~~~~kal~~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~--~p~n~~a~~~r~~~l~~~~~~~~~  199 (315)
T d2h6fa1         122 VEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISNTTGYNDR  199 (315)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHhhccHHHHHHHHhhhhhhhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHH--CCccHHHHHHHHHHHHHccccchh
Confidence            9999999999999998876   46678999999999999999999999999996  45 56777766665554443    


Q ss_pred             --HHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC----CCCCCHHHHHHHHHHHHhc--CCHHHH
Q 041384          450 --VKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM----PMKPSTRILSSLVSACRIH--GRLEVA  521 (580)
Q Consensus       450 --~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~p~~~~~~~l~~~~~~~--~~~~~A  521 (580)
                        +++|+..+.++++.  .+.+...|..+...+...| .+++.+.++..    +...+...+..++..|...  ++.+.+
T Consensus       200 ~~~~~ai~~~~~al~~--~P~~~~~~~~l~~ll~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~  276 (315)
T d2h6fa1         200 AVLEREVQYTLEMIKL--VPHNESAWNYLKGILQDRG-LSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNK  276 (315)
T ss_dssp             HHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHTTTC-GGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSH
T ss_pred             hhhHHhHHHHHHHHHh--CCCchHHHHHHHHHHHhcC-hHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHH
Confidence              68899999887762  2335666776766665444 45566655544    2223445555565555332  333444


Q ss_pred             HHHHHHHH
Q 041384          522 EMLAHQLI  529 (580)
Q Consensus       522 ~~~~~~~~  529 (580)
                      ...++++.
T Consensus       277 ~~~~~ka~  284 (315)
T d2h6fa1         277 EDILNKAL  284 (315)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            44444443

>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=99.01  E-value=2.7e-08  Score=89.52  Aligned_cols=182  Identities=7%  Similarity=-0.004  Sum_probs=135.7

Q ss_pred             CCHHHHHHHHhcCCC----CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHH
Q 041384          382 GSITSSHQIFNEMAA----RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLF  457 (580)
Q Consensus       382 g~~~~A~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~  457 (580)
                      +..++|..+|++..+    .+...|...+..+...|+++.|..+++++.+.........|..++..+.+.|+.+.|.++|
T Consensus        78 ~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~  157 (308)
T d2onda1          78 LFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHH
Confidence            345778888887553    3455677788888889999999999999887532222356788888888899999999999


Q ss_pred             HHHHHhhCCCCChhHHHHHHHH-hhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 041384          458 NNVMKEKKIALAIEHYACYVDL-LGKSGKIEDACKVVSTMP--MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPE  534 (580)
Q Consensus       458 ~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  534 (580)
                      +++++.  .+.+...|...+.. +...|+.+.|..+|+.+.  .+.+...|...+..+.+.|+.++|..+|+++....|.
T Consensus       158 ~~al~~--~~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~  235 (308)
T d2onda1         158 KKARED--ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  235 (308)
T ss_dssp             HHHHTS--TTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS
T ss_pred             HHHHHh--CCCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC
Confidence            987652  23334444444443 344688899999998883  3456778888899889999999999999999887765


Q ss_pred             Cc----hHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 041384          535 NA----ANYTLLSMVCSESGNWLGAEEVWRVMRAK  565 (580)
Q Consensus       535 ~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (580)
                      ++    ..|...+..-...|+.+.+..+.+++.+.
T Consensus       236 ~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~  270 (308)
T d2onda1         236 PPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             CGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            44    36777887777889999999998887653

>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=99.01  E-value=1.2e-09  Score=100.01  Aligned_cols=231  Identities=8%  Similarity=-0.049  Sum_probs=164.8

Q ss_pred             HhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhcc--CChHHHHHHHHHHHHhCCCCchhH-HHHHHHHhHhcCCHH
Q 041384          309 SQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQ--SFLSHGLGVHCYIMKAGLNFDVSI-GNALMNMYSKCGSIT  385 (580)
Q Consensus       309 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~--~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~g~~~  385 (580)
                      ...|++++|+..++...... +-+...+..+..++...  ++.+++...+..+.+.... +... +......+...+..+
T Consensus        84 ~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~  161 (334)
T d1dcea1          84 ESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPA  161 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHH
T ss_pred             HHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCch-hhhhhhhHHHHHHHhccccH
Confidence            34456778888888887663 33555565555555544  4578899899888887533 3443 344556777889999


Q ss_pred             HHHHHHhcCCCC---CcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 041384          386 SSHQIFNEMAAR---DFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMK  462 (580)
Q Consensus       386 ~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  462 (580)
                      +|...++.+...   +...|+.+...+...|++++|...++...+.  .|+..   .+...+...+..+++...+...+.
T Consensus       162 ~Al~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~---~~~~~~~~l~~~~~a~~~~~~~l~  236 (334)
T d1dcea1         162 EELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLKEL---ELVQNAFFTDPNDQSAWFYHRWLL  236 (334)
T ss_dssp             HHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHHHH---HHHHHHHHHCSSCSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHHHH---HHHHHHHHhcchhHHHHHHHHHHH
Confidence            999999988874   4567888888999999888876665554442  22221   222334455666677777777554


Q ss_pred             hhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHH
Q 041384          463 EKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP-MKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYT  540 (580)
Q Consensus       463 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  540 (580)
                        ..+++...+..++..+...|+.++|...+.+.. ..| +..++..++..+...|+.++|+..++++.+.+|.+...|.
T Consensus       237 --~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~~~y~~  314 (334)
T d1dcea1         237 --GRAEPLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLD  314 (334)
T ss_dssp             --SCCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHHH
T ss_pred             --hCcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcccHHHHH
Confidence              233445456667778888899999999988773 445 4567888899999999999999999999999999999899


Q ss_pred             HHHHHHHh
Q 041384          541 LLSMVCSE  548 (580)
Q Consensus       541 ~l~~~~~~  548 (580)
                      .|...+.-
T Consensus       315 ~L~~~~~~  322 (334)
T d1dcea1         315 DLRSKFLL  322 (334)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHhH
Confidence            88877754

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.89  E-value=2.1e-09  Score=98.42  Aligned_cols=253  Identities=8%  Similarity=-0.082  Sum_probs=177.2

Q ss_pred             HHHHHHhCCChhHHHHHHHHHHHCCCCCCHHH-HH---HHHHHhhc-------cCChHHHHHHHHHHHHhCCCCchhHHH
Q 041384          304 IIRGYSQSGDLSEAMKLFSRMRLERIEPNSVT-LL---AILSSCTR-------QSFLSHGLGVHCYIMKAGLNFDVSIGN  372 (580)
Q Consensus       304 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~-~~---~ll~~~~~-------~~~~~~a~~~~~~~~~~~~~~~~~~~~  372 (580)
                      ++......+..++|+.++.+..+.  .|+..+ |+   .++.....       .|.+++|+.+++...+.. +-+...+.
T Consensus        35 ~~~~~~~~~~~~~al~~~~~~l~~--~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~  111 (334)
T d1dcea1          35 VFQKRQAGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWH  111 (334)
T ss_dssp             HHHHHHTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HHHHHhcccccHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHH
Confidence            333333444568999999998876  465543 32   22233322       345778888888888764 44556666


Q ss_pred             HHHHHhHhcC--CHHHHHHHHhcCCCC---CcchHH-HHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHh
Q 041384          373 ALMNMYSKCG--SITSSHQIFNEMAAR---DFVSWT-TLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACN  445 (580)
Q Consensus       373 ~l~~~~~~~g--~~~~A~~~~~~~~~~---~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~  445 (580)
                      .+..++...+  +.++|...++++.+.   +...+. .....+...+.+++|+..++++.+.  .| +...|..+...+.
T Consensus       112 ~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~--~p~~~~a~~~l~~~~~  189 (334)
T d1dcea1         112 HRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITR--NFSNYSSWHYRSCLLP  189 (334)
T ss_dssp             HHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTT--TCCCHHHHHHHHHHHH
T ss_pred             HhhHHHHHhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHHHHHHHHHHc--CCCCHHHHHHHHHHHH
Confidence            6665655544  588999888887653   344443 3446677788999999999988885  45 5678888888888


Q ss_pred             ccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 041384          446 HAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM--PMKPSTRILSSLVSACRIHGRLEVAEM  523 (580)
Q Consensus       446 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~~~~~~A~~  523 (580)
                      ..|++++|...+...++.   .|.   ...+...+...+..+++...+...  ..+++...+..++..+...|+.++|..
T Consensus       190 ~~~~~~~A~~~~~~~~~~---~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~a~~  263 (334)
T d1dcea1         190 QLHPQPDSGPQGRLPENV---LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGRAEPLFRCELSVEKSTVLQSELESCK  263 (334)
T ss_dssp             HHSCCCCSSSCCSSCHHH---HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCSSSCCCCHHHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHhHHh---HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhCcchhhHHHHHHHHHHHHhhHHHHHH
Confidence            888888776665543331   111   112333445566666777766665  234455566677778888899999999


Q ss_pred             HHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          524 LAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       524 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      .+.+....+|.+..++..++.++...|++++|.++++++.+..+
T Consensus       264 ~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP  307 (334)
T d1dcea1         264 ELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDP  307 (334)
T ss_dssp             HHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCG
T ss_pred             HHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCc
Confidence            99999999999999999999999999999999999999987653

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.78  E-value=4e-08  Score=73.43  Aligned_cols=90  Identities=13%  Similarity=0.078  Sum_probs=56.6

Q ss_pred             HHHhhhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHH
Q 041384          477 VDLLGKSGKIEDACKVVSTM-P-MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLG  554 (580)
Q Consensus       477 ~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  554 (580)
                      ...+.+.|++++|+..|++. . .+.+...|..+..++.+.|++++|+..++++.+.+|.++..|..++.++...|++++
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~~~   89 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRFEE   89 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCHHH
Confidence            44455566666666666655 1 233555666666666666666666666666666666666666666666666666666


Q ss_pred             HHHHHHHHHhCC
Q 041384          555 AEEVWRVMRAKG  566 (580)
Q Consensus       555 A~~~~~~~~~~~  566 (580)
                      |+..+++..+..
T Consensus        90 A~~~~~~a~~~~  101 (117)
T d1elwa_          90 AKRTYEEGLKHE  101 (117)
T ss_dssp             HHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhC
Confidence            666666666544

>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=98.76  E-value=3.1e-08  Score=82.86  Aligned_cols=115  Identities=12%  Similarity=-0.061  Sum_probs=69.8

Q ss_pred             CCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHH
Q 041384          432 PDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLV  509 (580)
Q Consensus       432 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~  509 (580)
                      |+...+......+.+.|++++|+..|+++++.  .+.+...|..+..+|.+.|++++|+..|++. ...| +...|..++
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~--~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHH
Confidence            55666666666777777777777777766542  2334555666666666666666666666665 3344 455666666


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHh
Q 041384          510 SACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSE  548 (580)
Q Consensus       510 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~  548 (580)
                      .+|...|++++|+..++++.+..|.+...+...+..+..
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~l~  118 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALR  118 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence            666666666666666666666665544444444443333

>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=98.70  E-value=4.7e-08  Score=72.37  Aligned_cols=89  Identities=13%  Similarity=0.019  Sum_probs=80.2

Q ss_pred             HHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCCh
Q 041384          475 CYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNW  552 (580)
Q Consensus       475 ~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  552 (580)
                      .+...+.+.|++++|+..|++. ...| ++..|..+..++.+.|++++|+..++++++.+|.++.++..++.+|...|++
T Consensus        21 ~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g~~  100 (112)
T d1hxia_          21 EEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHNA  100 (112)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHCCCH
Confidence            4566788889999999999887 3344 6789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHH
Q 041384          553 LGAEEVWRVMR  563 (580)
Q Consensus       553 ~~A~~~~~~~~  563 (580)
                      ++|.+.+++.+
T Consensus       101 ~~A~~~l~~~l  111 (112)
T d1hxia_         101 NAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999999864

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.70  E-value=1.6e-07  Score=70.06  Aligned_cols=105  Identities=14%  Similarity=0.028  Sum_probs=86.2

Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCC
Q 041384          440 ILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMP--MKPSTRILSSLVSACRIHGR  517 (580)
Q Consensus       440 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~~  517 (580)
                      -...+...|++++|+..|+++++.  .+.+...|..+..+|...|++++|+..+++..  .+.++..|..+..++...|+
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~   86 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNR   86 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhc--CCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccC
Confidence            345677888888888888887762  33446678888888888888888888888872  34577889999999999999


Q ss_pred             HHHHHHHHHHHHhcCCCCchHHHHHHHHH
Q 041384          518 LEVAEMLAHQLIEAEPENAANYTLLSMVC  546 (580)
Q Consensus       518 ~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  546 (580)
                      +++|+..++++.+.+|.++.++..+..+-
T Consensus        87 ~~~A~~~~~~a~~~~p~~~~~~~~l~~l~  115 (117)
T d1elwa_          87 FEEAKRTYEEGLKHEANNPQLKEGLQNME  115 (117)
T ss_dssp             HHHHHHHHHHHHTTCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHh
Confidence            99999999999999999999888887654

>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=98.64  E-value=7.8e-07  Score=72.98  Aligned_cols=139  Identities=9%  Similarity=-0.072  Sum_probs=99.3

Q ss_pred             HHhHhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHH
Q 041384          376 NMYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAE  454 (580)
Q Consensus       376 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~  454 (580)
                      ..+...|+++.|.+.|.++..++..+|..+..+|...|++++|++.|++.++.  .| +...|..+..++.+.|++++|+
T Consensus        13 ~~~~~~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~l--dp~~~~a~~~~g~~~~~~g~~~~A~   90 (192)
T d1hh8a_          13 VLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINR--DKHLAVAYFQRGMLYYQTEKYDLAI   90 (192)
T ss_dssp             HHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHH--hhhhhhhHHHHHHHHHhhccHHHHH
Confidence            45677889999999999888888888888899999999999999999998885  45 5578888888888999999999


Q ss_pred             HHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 041384          455 TLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPS-TRILSSLVSACRIHGRLEVAEMLAHQLIEAEP  533 (580)
Q Consensus       455 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  533 (580)
                      ..|++.+...  +.+...      .+...|.           ..+++ ..++..+..++.+.|++++|.+.++++.+..|
T Consensus        91 ~~~~kAl~~~--~~n~~~------~~~~~~~-----------~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~  151 (192)
T d1hh8a_          91 KDLKEALIQL--RGNQLI------DYKILGL-----------QFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKS  151 (192)
T ss_dssp             HHHHHHHHTT--TTCSEE------ECGGGTB-----------CCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHhC--ccCchH------HHHHhhh-----------hcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            8888866421  111100      0000000           00111 23455677778888888888888888888877


Q ss_pred             CC
Q 041384          534 EN  535 (580)
Q Consensus       534 ~~  535 (580)
                      ..
T Consensus       152 ~~  153 (192)
T d1hh8a_         152 EP  153 (192)
T ss_dssp             SG
T ss_pred             Cc
Confidence            64

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.62  E-value=2.2e-07  Score=76.41  Aligned_cols=88  Identities=16%  Similarity=0.094  Sum_probs=81.9

Q ss_pred             HHHhhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHH
Q 041384          477 VDLLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAE  556 (580)
Q Consensus       477 ~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  556 (580)
                      ...+...|++++|++.|+++. +|++.+|..+...+...|++++|++.|+++++.+|.++.+|..++.+|.+.|++++|.
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~-~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~~~A~   90 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQ-DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDLAI   90 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSS-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhhhhhHHHHHHHHHhhccHHHHH
Confidence            456778999999999999875 6788899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhC
Q 041384          557 EVWRVMRAK  565 (580)
Q Consensus       557 ~~~~~~~~~  565 (580)
                      +.|++....
T Consensus        91 ~~~~kAl~~   99 (192)
T d1hh8a_          91 KDLKEALIQ   99 (192)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHHh
Confidence            999998764

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.62  E-value=4e-07  Score=72.34  Aligned_cols=117  Identities=7%  Similarity=-0.064  Sum_probs=94.8

Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCC
Q 041384          440 ILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGR  517 (580)
Q Consensus       440 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~  517 (580)
                      ....|.+.|++++|+..|+++++.  .+.+...|..+..+|...|++++|+..|++. ...| +...|..++.++...|+
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~   93 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGK   93 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHhhhcccc--chhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCC
Confidence            455678899999999999997763  2345777888899999999999999999887 3344 66899999999999999


Q ss_pred             HHHHHHHHHHHHhcCCCCchHHHHHHHHH--HhcCChHHHHHH
Q 041384          518 LEVAEMLAHQLIEAEPENAANYTLLSMVC--SESGNWLGAEEV  558 (580)
Q Consensus       518 ~~~A~~~~~~~~~~~~~~~~~~~~l~~~~--~~~g~~~~A~~~  558 (580)
                      +++|...++++....|.++.++..+..+.  ...+.+++|...
T Consensus        94 ~~eA~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          94 FRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             HHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            99999999999999999999888877654  344556666654

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.59  E-value=2.4e-07  Score=73.71  Aligned_cols=93  Identities=14%  Similarity=-0.030  Sum_probs=84.2

Q ss_pred             HHHHHhhhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCCh
Q 041384          475 CYVDLLGKSGKIEDACKVVSTM-P-MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNW  552 (580)
Q Consensus       475 ~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  552 (580)
                      .....|.+.|++++|+..|++. . .+.+...|..+...|...|++++|+..++++++.+|.+..+|..++.++...|++
T Consensus        15 ~~gn~~~~~~~y~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~   94 (159)
T d1a17a_          15 TQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKF   94 (159)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHcCCHHHHHHHhhhccccchhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCCH
Confidence            3456788999999999999988 3 3447788999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhCCC
Q 041384          553 LGAEEVWRVMRAKGL  567 (580)
Q Consensus       553 ~~A~~~~~~~~~~~~  567 (580)
                      ++|...+++..+..+
T Consensus        95 ~eA~~~~~~a~~~~p  109 (159)
T d1a17a_          95 RAALRDYETVVKVKP  109 (159)
T ss_dssp             HHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHcCC
Confidence            999999999987654

>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=98.58  E-value=1.1e-07  Score=79.40  Aligned_cols=94  Identities=5%  Similarity=-0.167  Sum_probs=65.6

Q ss_pred             cchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCC-hhHHHHHH
Q 041384          399 FVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALA-IEHYACYV  477 (580)
Q Consensus       399 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~  477 (580)
                      ...+......|.+.|++++|+..|++..+.. +-+...|..+..+|.+.|++++|+..|+++++   +.|+ ...|..++
T Consensus         4 a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~---l~p~~~~a~~~lg   79 (201)
T d2c2la1           4 AQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALE---LDGQSVKAHFFLG   79 (201)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT---SCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHH---hCCCcHHHHHHHH
Confidence            3445556677777778888888887777652 23556677777777778888888888777553   3443 55677777


Q ss_pred             HHhhhcCChHHHHHHHHhC
Q 041384          478 DLLGKSGKIEDACKVVSTM  496 (580)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~  496 (580)
                      .+|.+.|++++|+..|+++
T Consensus        80 ~~~~~l~~~~~A~~~~~~a   98 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRA   98 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHH
Confidence            7777888888887777765

>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=98.56  E-value=7.8e-07  Score=78.83  Aligned_cols=186  Identities=10%  Similarity=-0.032  Sum_probs=94.9

Q ss_pred             HHhHhcCCHHHHHHHHhcCCC-----CC----cchHHHHHHHHHhcCChHHHHHHHHHHHHcCC---CC--CHHHHHHHH
Q 041384          376 NMYSKCGSITSSHQIFNEMAA-----RD----FVSWTTLISGYGFHGYGEEALQLFLEMQESGV---EP--DAITVLAIL  441 (580)
Q Consensus       376 ~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~---~p--~~~~~~~l~  441 (580)
                      ..|...|++++|...|.+..+     .+    ..+|..+..+|.+.|++++|.+.+++..+.-.   .+  ...++..+.
T Consensus        45 ~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~  124 (290)
T d1qqea_          45 TIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELG  124 (290)
T ss_dssp             HHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHH
Confidence            445555555555555554432     11    12455566666666666666666665443200   11  123344445


Q ss_pred             HHHh-ccCCHHHHHHHHHHHHHh---hCCCCC-hhHHHHHHHHhhhcCChHHHHHHHHhCC-CCCC-------H-HHHHH
Q 041384          442 SACN-HAGLVKEAETLFNNVMKE---KKIALA-IEHYACYVDLLGKSGKIEDACKVVSTMP-MKPS-------T-RILSS  507 (580)
Q Consensus       442 ~~~~-~~~~~~~a~~~~~~~~~~---~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~-------~-~~~~~  507 (580)
                      ..|. ..|++++|...++++.+-   .+.++. ..++..++..|...|++++|+..|+++. ..|+       . ..+..
T Consensus       125 ~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (290)
T d1qqea_         125 EILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLK  204 (290)
T ss_dssp             HHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHH
T ss_pred             HhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHH
Confidence            5553 357777777777765431   111111 3345666777777777777777776651 1111       0 12333


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCc-----hHHHHHHHHHHh--cCChHHHHHHHHH
Q 041384          508 LVSACRIHGRLEVAEMLAHQLIEAEPENA-----ANYTLLSMVCSE--SGNWLGAEEVWRV  561 (580)
Q Consensus       508 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-----~~~~~l~~~~~~--~g~~~~A~~~~~~  561 (580)
                      .+..+...|+++.|...++++.+.+|..+     .....++.++..  .+.+++|+..|++
T Consensus       205 ~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~  265 (290)
T d1qqea_         205 KGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDN  265 (290)
T ss_dssp             HHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTT
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            44455566777777777777777765422     223445545433  2346666666554

>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=98.53  E-value=1.4e-06  Score=77.15  Aligned_cols=165  Identities=9%  Similarity=-0.038  Sum_probs=100.4

Q ss_pred             hHHHHHHHHhHhcCCHHHHHHHHhcCCC-----CC----cchHHHHHHHHH-hcCChHHHHHHHHHHHHc----CCCCC-
Q 041384          369 SIGNALMNMYSKCGSITSSHQIFNEMAA-----RD----FVSWTTLISGYG-FHGYGEEALQLFLEMQES----GVEPD-  433 (580)
Q Consensus       369 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~----g~~p~-  433 (580)
                      .+|..+..+|.+.|++++|...+++...     .+    ...+..+...|. ..|++++|++.+++..+.    +..+. 
T Consensus        78 ~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~  157 (290)
T d1qqea_          78 NTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALS  157 (290)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhh
Confidence            3445555556666666666665554432     01    224445555554 458888888888876542    21221 


Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCCh-----hHHHHHHHHhhhcCChHHHHHHHHhCC-CCCC------
Q 041384          434 AITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAI-----EHYACYVDLLGKSGKIEDACKVVSTMP-MKPS------  501 (580)
Q Consensus       434 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~------  501 (580)
                      ..++..+...+...|++++|...|+++.+.....+..     ..+...+..+...|+++.|...+++.. ..|+      
T Consensus       158 ~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre  237 (290)
T d1qqea_         158 NKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRE  237 (290)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------
T ss_pred             hhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHH
Confidence            2457778888999999999999999976532222211     223445556778899999999999873 3332      


Q ss_pred             HHHHHHHHHHHHh--cCCHHHHHHHHHHHHhcCC
Q 041384          502 TRILSSLVSACRI--HGRLEVAEMLAHQLIEAEP  533 (580)
Q Consensus       502 ~~~~~~l~~~~~~--~~~~~~A~~~~~~~~~~~~  533 (580)
                      ......++.++..  .+.+++|+..|+++.+++|
T Consensus       238 ~~~l~~l~~a~~~~d~e~~~eai~~y~~~~~lD~  271 (290)
T d1qqea_         238 SNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDK  271 (290)
T ss_dssp             HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCH
Confidence            2344566666654  2457788887776666543

>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=98.52  E-value=1.5e-06  Score=69.62  Aligned_cols=84  Identities=15%  Similarity=0.042  Sum_probs=71.9

Q ss_pred             HHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhc
Q 041384          472 HYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSES  549 (580)
Q Consensus       472 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~  549 (580)
                      +|..+..+|.+.|++++|+..+++. ...| ++..+..++.+|...|++++|+..|+++.+++|.|+.+...+..+..+.
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~  143 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRI  143 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence            4667888899999999999999887 3344 7889999999999999999999999999999999999999998887766


Q ss_pred             CChHHH
Q 041384          550 GNWLGA  555 (580)
Q Consensus       550 g~~~~A  555 (580)
                      +...+.
T Consensus       144 ~~~~~~  149 (170)
T d1p5qa1         144 RRQLAR  149 (170)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            655543

>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=98.43  E-value=8.3e-07  Score=66.19  Aligned_cols=105  Identities=14%  Similarity=0.082  Sum_probs=78.1

Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCC---hHHHHHHHHhCC-CCCCH---HHHHHHHHH
Q 041384          439 AILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGK---IEDACKVVSTMP-MKPST---RILSSLVSA  511 (580)
Q Consensus       439 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~-~~p~~---~~~~~l~~~  511 (580)
                      .+++.+...+++++|.+.|+++++  --+.+..++..+..++.+.++   +++|+.+++++. ..|++   .++..+..+
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~--~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKA--AGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH--HSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHh--hCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            466677778888888888888765  223456677778888876554   456888888763 33433   367788899


Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHH
Q 041384          512 CRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMV  545 (580)
Q Consensus       512 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  545 (580)
                      |.+.|++++|++.++++++.+|.+..+......+
T Consensus        82 y~~~g~~~~A~~~~~~aL~~~P~~~~A~~l~~~I  115 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQTEPQNNQAKELERLI  115 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHHHHHHhCcCCHHHHHHHHHH
Confidence            9999999999999999999999998876665543

>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=98.36  E-value=8.2e-06  Score=65.07  Aligned_cols=93  Identities=13%  Similarity=0.038  Sum_probs=75.2

Q ss_pred             HHHHHHHHhhhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhc
Q 041384          472 HYACYVDLLGKSGKIEDACKVVSTM-P-MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSES  549 (580)
Q Consensus       472 ~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~  549 (580)
                      +|..+..+|.+.|++++|+..+++. . .+.+...|..+..++...|++++|+..++++++++|+++.+...+..+....
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~  145 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFMCQKKA  145 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence            4566788889999999999999887 2 3557888999999999999999999999999999999999998888887666


Q ss_pred             CChH-HHHHHHHHHHh
Q 041384          550 GNWL-GAEEVWRVMRA  564 (580)
Q Consensus       550 g~~~-~A~~~~~~~~~  564 (580)
                      +... ...+.+.+|-+
T Consensus       146 ~~~~e~~kk~~~~~f~  161 (168)
T d1kt1a1         146 KEHNERDRRTYANMFK  161 (168)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHHHh
Confidence            6554 34555555543

>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=98.35  E-value=2.8e-06  Score=67.99  Aligned_cols=113  Identities=8%  Similarity=-0.034  Sum_probs=82.7

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 041384          436 TVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIH  515 (580)
Q Consensus       436 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~  515 (580)
                      .+......+.+.|++++|+..|+++++-....+....            ........       ....+|+.+..+|.+.
T Consensus        15 ~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~------------~~~~~~~~-------~~~~~~~nla~~y~k~   75 (170)
T d1p5qa1          15 IVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSN------------EEAQKAQA-------LRLASHLNLAMCHLKL   75 (170)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCS------------HHHHHHHH-------HHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccch------------HHHhhhch-------hHHHHHHHHHHHHHhh
Confidence            3445556777788888888888876653221111100            00000000       0123567788889999


Q ss_pred             CCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          516 GRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       516 ~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      |++++|+..++++++.+|.++.++..++.+|...|++++|...|++..+..+
T Consensus        76 ~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P  127 (170)
T d1p5qa1          76 QAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYP  127 (170)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS
T ss_pred             hhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCC
Confidence            9999999999999999999999999999999999999999999999988654

>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=98.33  E-value=6.9e-07  Score=66.63  Aligned_cols=95  Identities=8%  Similarity=-0.068  Sum_probs=79.6

Q ss_pred             HHHHHHhhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhcCCCC--chHHHHHHHHH
Q 041384          474 ACYVDLLGKSGKIEDACKVVSTMP--MKPSTRILSSLVSACRIHG---RLEVAEMLAHQLIEAEPEN--AANYTLLSMVC  546 (580)
Q Consensus       474 ~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~~---~~~~A~~~~~~~~~~~~~~--~~~~~~l~~~~  546 (580)
                      ..++..+...+++++|.+.|++..  .+.++.++..+..++.+.+   ++++|+.+++++.+.+|.+  ..++..++.+|
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y   82 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            456778889999999999999883  3557789999999998755   4567999999999988765  44789999999


Q ss_pred             HhcCChHHHHHHHHHHHhCCCc
Q 041384          547 SESGNWLGAEEVWRVMRAKGLS  568 (580)
Q Consensus       547 ~~~g~~~~A~~~~~~~~~~~~~  568 (580)
                      .+.|++++|+++|+++++..+.
T Consensus        83 ~~~g~~~~A~~~~~~aL~~~P~  104 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQTEPQ  104 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHhhhHHHHHHHHHHHHhCcC
Confidence            9999999999999999886543

>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=98.31  E-value=9.2e-05  Score=64.07  Aligned_cols=150  Identities=11%  Similarity=-0.045  Sum_probs=93.8

Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHH-HHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhh----cCChH
Q 041384          413 GYGEEALQLFLEMQESGVEPDAITVL-AILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGK----SGKIE  487 (580)
Q Consensus       413 ~~~~~a~~~~~~~~~~g~~p~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~  487 (580)
                      .+.+.|...++...+.|..+....+. ..............+...+.....    ..+...+..|...|..    ..+..
T Consensus        88 ~~~~~a~~~~~~a~~~g~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~L~~~~~~~~~~~~~~~  163 (265)
T d1ouva_          88 QNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACD----LNDGDGCTILGSLYDAGRGTPKDLK  163 (265)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHH----TTCHHHHHHHHHHHHHTSSSCCCHH
T ss_pred             hhhHHHHHHHhhhhhhhhhhHHHhhcccccCCCcccchhHHHHHHhhhhhc----ccccchhhhhhhhhccCCCcccccc
Confidence            45666777777766654221111111 111111234456666666665322    2334455556666654    44566


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHh----cCChHHHHHHH
Q 041384          488 DACKVVSTMPMKPSTRILSSLVSACRI----HGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSE----SGNWLGAEEVW  559 (580)
Q Consensus       488 ~A~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~  559 (580)
                      .+...++......+......+...|..    ..+.+.|+..|+++.+.+  ++..+..|+..|.+    ..+.++|.++|
T Consensus       164 ~~~~~~~~a~~~g~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g--~~~a~~~LG~~y~~G~g~~~n~~~A~~~~  241 (265)
T d1ouva_         164 KALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE--NGGGCFNLGAMQYNGEGVTRNEKQAIENF  241 (265)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHTTSSSSCCSTTHHHHH
T ss_pred             cchhhhhccccccccccccchhhhcccCcccccchhhhhhhHhhhhccc--CHHHHHHHHHHHHcCCCCccCHHHHHHHH
Confidence            777777666434566666667666655    568999999999998875  56778889988875    34899999999


Q ss_pred             HHHHhCCCc
Q 041384          560 RVMRAKGLS  568 (580)
Q Consensus       560 ~~~~~~~~~  568 (580)
                      ++..+.|.+
T Consensus       242 ~kAa~~g~~  250 (265)
T d1ouva_         242 KKGCKLGAK  250 (265)
T ss_dssp             HHHHHHTCH
T ss_pred             HHHHHCcCH
Confidence            999887754

>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=98.31  E-value=3.5e-06  Score=67.50  Aligned_cols=84  Identities=14%  Similarity=-0.012  Sum_probs=62.3

Q ss_pred             hhHHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHH
Q 041384          470 IEHYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCS  547 (580)
Q Consensus       470 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  547 (580)
                      ...+..+..+|.+.|++++|+..++++ ...| ++..|..+..++...|++++|+..|+++++.+|++..+...+..+..
T Consensus        77 ~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l~~~~~  156 (169)
T d1ihga1          77 LSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQ  156 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            445666777788888888888888777 3444 66778888888888888888888888888888888887777776665


Q ss_pred             hcCChH
Q 041384          548 ESGNWL  553 (580)
Q Consensus       548 ~~g~~~  553 (580)
                      +.....
T Consensus       157 ~l~~~~  162 (169)
T d1ihga1         157 KIKAQK  162 (169)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            444333

>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=98.27  E-value=6.9e-06  Score=64.28  Aligned_cols=74  Identities=16%  Similarity=0.073  Sum_probs=45.3

Q ss_pred             HHHHHHHHhhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHH
Q 041384          472 HYACYVDLLGKSGKIEDACKVVSTM-PMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMV  545 (580)
Q Consensus       472 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  545 (580)
                      ++..+..+|.+.|++++|++.+++. ...| +...|..++.++...|++++|+..|+++.+++|.|+.+...+..+
T Consensus        69 ~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~~~l~~~  144 (153)
T d2fbna1          69 CNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELC  144 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHhhHHHHHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            4455566666666666666666655 2223 556666666666666666666666666666666666665555443

>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=98.27  E-value=1.6e-06  Score=65.57  Aligned_cols=90  Identities=13%  Similarity=0.072  Sum_probs=48.6

Q ss_pred             HHHHHhhhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCch-------HHHHHHHH
Q 041384          475 CYVDLLGKSGKIEDACKVVSTM-P-MKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAA-------NYTLLSMV  545 (580)
Q Consensus       475 ~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-------~~~~l~~~  545 (580)
                      .+...+.+.|++++|+..|++. . .+.+..++..+..+|.+.|++++|+..++++++.+|.++.       +|..++..
T Consensus         9 ~~G~~~~~~~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~~   88 (128)
T d1elra_           9 ELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNS   88 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHH
Confidence            3444555555555555555554 1 2234555555666666666666666666666665554433       33344445


Q ss_pred             HHhcCChHHHHHHHHHHHh
Q 041384          546 CSESGNWLGAEEVWRVMRA  564 (580)
Q Consensus       546 ~~~~g~~~~A~~~~~~~~~  564 (580)
                      +...|++++|++.+++...
T Consensus        89 ~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          89 YFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHh
Confidence            5555566666666655543

>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=98.18  E-value=6.5e-06  Score=64.45  Aligned_cols=114  Identities=9%  Similarity=-0.078  Sum_probs=82.2

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 041384          436 TVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIH  515 (580)
Q Consensus       436 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~  515 (580)
                      .+..-...+.+.|++.+|+..|++++.-....+...              -........    .....++..+...|.+.
T Consensus        19 ~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~--------------~~~~~~~~~----~~~~~~~~Nla~~~~~l   80 (153)
T d2fbna1          19 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWD--------------DQILLDKKK----NIEISCNLNLATCYNKN   80 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCC--------------CHHHHHHHH----HHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhh--------------hHHHHHhhh----hHHHHHHhhHHHHHHHh
Confidence            344455667777888888888877664221111100              000000000    01234677888999999


Q ss_pred             CCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          516 GRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       516 ~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      |++++|+..++++++.+|.+..+|..++.++...|++++|...|++..+..+
T Consensus        81 ~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P  132 (153)
T d2fbna1          81 KDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNP  132 (153)
T ss_dssp             TCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHST
T ss_pred             cccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            9999999999999999999999999999999999999999999999887654

>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=98.18  E-value=8.1e-06  Score=65.51  Aligned_cols=120  Identities=13%  Similarity=0.053  Sum_probs=85.4

Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHH-HHHHHhCCCCCCHHHHHHHHHHHHhcCCH
Q 041384          440 ILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDA-CKVVSTMPMKPSTRILSSLVSACRIHGRL  518 (580)
Q Consensus       440 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A-~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  518 (580)
                      ........|++++|.+.|.+++.-..-.+-..         ...+.+-.. ..-++    ......+..++..+.+.|++
T Consensus        17 ~g~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~---------~~~~~w~~~~r~~l~----~~~~~a~~~la~~~~~~g~~   83 (179)
T d2ff4a2          17 AGVHAAAAGRFEQASRHLSAALREWRGPVLDD---------LRDFQFVEPFATALV----EDKVLAHTAKAEAEIACGRA   83 (179)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGG---------GTTSTTHHHHHHHHH----HHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCccccccc---------CcchHHHHHHHHHHH----HHHHHHHHHHHHHHHHCCCc
Confidence            34466778999999999998775321111000         001111110 00111    11235677888999999999


Q ss_pred             HHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHh-----CCCccCCc
Q 041384          519 EVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRA-----KGLSKSYG  572 (580)
Q Consensus       519 ~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~  572 (580)
                      ++|+..++++++.+|.+...|..++.+|.+.|++++|++.|+++.+     .|+.|.|+
T Consensus        84 ~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~  142 (179)
T d2ff4a2          84 SAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPT  142 (179)
T ss_dssp             HHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHH
T ss_pred             hHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHH
Confidence            9999999999999999999999999999999999999999998844     58877664

>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=98.10  E-value=6.2e-06  Score=65.99  Aligned_cols=112  Identities=9%  Similarity=-0.019  Sum_probs=81.8

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCCCCC-CHHHHHHHHHHHHhc
Q 041384          437 VLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKP-STRILSSLVSACRIH  515 (580)
Q Consensus       437 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p-~~~~~~~l~~~~~~~  515 (580)
                      +......+...|+++.|+..|+++++-.             ..........+.      ....| ....+..+...+.+.
T Consensus        30 ~~~~~~~~~~~~~y~~Ai~~y~~al~~~-------------~~~~~~~~~~~~------~~~~~~~~~~~~nla~~~~~~   90 (169)
T d1ihga1          30 LKNIGNTFFKSQNWEMAIKKYTKVLRYV-------------EGSRAAAEDADG------AKLQPVALSCVLNIGACKLKM   90 (169)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHH-------------HHHHHHSCHHHH------GGGHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhh-------------hhhhhhhhhHHH------HHhChhhHHHHHHHHHHHHhh
Confidence            4445556677788888888777755410             000000111110      01122 445777888999999


Q ss_pred             CCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          516 GRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       516 ~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      |++++|+..++++++.+|.++.+|..++.+|...|++++|++.|++..+..+
T Consensus        91 ~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p  142 (169)
T d1ihga1          91 SDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAP  142 (169)
T ss_dssp             TCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             cccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCC
Confidence            9999999999999999999999999999999999999999999999988654

>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=98.10  E-value=2.4e-05  Score=62.29  Aligned_cols=114  Identities=7%  Similarity=-0.052  Sum_probs=81.9

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 041384          435 ITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRI  514 (580)
Q Consensus       435 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~  514 (580)
                      ..+.-....+.+.|++++|...|++++.-....+....-            .......       -...+|..+..+|.+
T Consensus        16 ~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~------------~~~~~~~-------~~~~~~~Nla~~~~~   76 (168)
T d1kt1a1          16 AIVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEK------------ESKASES-------FLLAAFLNLAMCYLK   76 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHH------------HHHHHHH-------HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchh------------hhhhcch-------hHHHHHHhHHHHHHH
Confidence            445556666777777777777777755422211111000            0000000       012356678888999


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          515 HGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       515 ~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      .|++++|+..++++++++|.+..+|..++.++...|++++|+..|+++.+..+
T Consensus        77 l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P  129 (168)
T d1kt1a1          77 LREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNP  129 (168)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCT
T ss_pred             hhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            99999999999999999999999999999999999999999999999987654

>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=98.03  E-value=7.4e-07  Score=85.56  Aligned_cols=95  Identities=17%  Similarity=0.084  Sum_probs=46.9

Q ss_pred             hhHHHHHHHHhhhcCChHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHh
Q 041384          470 IEHYACYVDLLGKSGKIEDACKVVSTMPMKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSE  548 (580)
Q Consensus       470 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~  548 (580)
                      ...+..+...+.+.|+.++|...++... .+ ....+..++..+...|++++|+..++++.+..|+++..|+.|+.++..
T Consensus       120 ~~~~~~lg~~~~~~~~~~~A~~~~~~al-~~~~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~~~~~~~~Lg~~~~~  198 (497)
T d1ya0a1         120 RVKSSQLGIISNKQTHTSAIVKPQSSSC-SYICQHCLVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQPYNQLAILASS  198 (497)
T ss_dssp             -----------------------CCHHH-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHHHH
T ss_pred             HHHHHHhHHHHHhCCCHHHHHHHHHHHh-CCCHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCchHHHHHHHHHHHH
Confidence            4445556666666666666665554431 11 123555666667777777777777777777777777777777777777


Q ss_pred             cCChHHHHHHHHHHHhC
Q 041384          549 SGNWLGAEEVWRVMRAK  565 (580)
Q Consensus       549 ~g~~~~A~~~~~~~~~~  565 (580)
                      .|+..+|+..|.+.+..
T Consensus       199 ~~~~~~A~~~y~ral~~  215 (497)
T d1ya0a1         199 KGDHLTTIFYYCRSIAV  215 (497)
T ss_dssp             TTCHHHHHHHHHHHHSS
T ss_pred             cCCHHHHHHHHHHHHhC
Confidence            77777777777666553

>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=98.01  E-value=0.004  Score=54.62  Aligned_cols=163  Identities=8%  Similarity=-0.047  Sum_probs=81.1

Q ss_pred             ChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 041384          297 DVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLNFDVSIGNALMN  376 (580)
Q Consensus       297 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  376 (580)
                      +......++..|-..|.++....++....... .++...++.++..+++.+. +   ++.+.+...+-..+.   ..++.
T Consensus        98 ~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~~-~---kl~e~l~~~s~~y~~---~k~~~  169 (336)
T d1b89a_          98 HADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKP-Q---KMREHLELFWSRVNI---PKVLR  169 (336)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCH-H---HHHHHHHHHSTTSCH---HHHHH
T ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhCh-H---HHHHHHHhccccCCH---HHHHH
Confidence            44445567788888888888888888765332 5566677777777776542 2   333333332222222   22334


Q ss_pred             HhHhcCCHHHHHHHHhcCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHH
Q 041384          377 MYSKCGSITSSHQIFNEMAARDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETL  456 (580)
Q Consensus       377 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~  456 (580)
                      .|.+.+-+++                  ++..|.+.|++++|..+.   .+.  .++..-....+..+.+..+.+...++
T Consensus       170 ~c~~~~l~~e------------------lv~Ly~~~~~~~~A~~~~---i~~--~~~~~~~~~f~e~~~k~~N~e~~~~~  226 (336)
T d1b89a_         170 AAEQAHLWAE------------------LVFLYDKYEEYDNAIITM---MNH--PTDAWKEGQFKDIITKVANVELYYRA  226 (336)
T ss_dssp             HHHTTTCHHH------------------HHHHHHHTTCHHHHHHHH---HHS--TTTTCCHHHHHHHHHHCSSTHHHHHH
T ss_pred             HHHHcCChHH------------------HHHHHHhcCCHHHHHHHH---HHc--chhhhhHHHHHHHHHccCChHHHHHH
Confidence            4444444433                  344445555666555432   221  23333333344445555555554444


Q ss_pred             HHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHh
Q 041384          457 FNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVST  495 (580)
Q Consensus       457 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  495 (580)
                      ....+..   .|  ...+.++......-+..+..+.+++
T Consensus       227 i~~yL~~---~p--~~i~~lL~~v~~~~d~~r~V~~~~k  260 (336)
T d1b89a_         227 IQFYLEF---KP--LLLNDLLMVLSPRLDHTRAVNYFSK  260 (336)
T ss_dssp             HHHHHHH---CG--GGHHHHHHHHGGGCCHHHHHHHHHH
T ss_pred             HHHHHHc---CH--HHHHHHHHHhccCCCHHHHHHHHHh
Confidence            4443321   12  2234444444444444444444443

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=97.94  E-value=3.6e-05  Score=56.23  Aligned_cols=87  Identities=11%  Similarity=-0.140  Sum_probs=45.2

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhc
Q 041384          405 LISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKS  483 (580)
Q Consensus       405 l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  483 (580)
                      +...+.+.|++++|+..|++..+.  .| +...|..+..++.+.|++++|+..++++++-  .+.+...+..+..+|...
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~a~~~la~~y~~~   97 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARML--DPKDIAVHAALAVSHTNE   97 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhccc--ccccchhhhhhhhhhhhhhhHHHhhccccccccc--ccccccchHHHHHHHHHC
Confidence            344455555666666666665553  33 3455555555555566666666666554431  122244445555555555


Q ss_pred             CChHHHHHHHHh
Q 041384          484 GKIEDACKVVST  495 (580)
Q Consensus       484 g~~~~A~~~~~~  495 (580)
                      |++++|++.+++
T Consensus        98 g~~~~A~~~l~~  109 (112)
T d1hxia_          98 HNANAALASLRA  109 (112)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHH
Confidence            555555555443

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.89  E-value=0.0065  Score=53.22  Aligned_cols=136  Identities=17%  Similarity=0.105  Sum_probs=72.9

Q ss_pred             CCCcchHHHHHHhhcccchhHHHHHHHHHHHHhCCCCChhHHHHHHHHHHcCCCchHHHHhhccCCCCCccchHHHHHHH
Q 041384           25 SNTAILPSVIKACAYAQTHQHFGLQLHCTALKSGSDADPVISNSLISMYAKFSKPESAYQLFDEMPYRDTISWNSIINCF  104 (580)
Q Consensus        25 ~~~~~~~~ll~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~  104 (580)
                      ||..-...+..-|...|.+ +.|..++..+         .-|..++..+.+.++++.|.+.+.+..  +..+|..+..++
T Consensus        12 ~n~~d~~~i~~~c~~~~ly-e~A~~lY~~~---------~d~~rl~~~~v~l~~~~~avd~~~k~~--~~~~~k~~~~~l   79 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMY-DAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKAN--STRTWKEVCFAC   79 (336)
T ss_dssp             C----------------CT-TTHHHHHHHT---------TCHHHHHHHHHTTTCHHHHHHHHHHHT--CHHHHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCH-HHHHHHHHhC---------CCHHHHHHHHHhhccHHHHHHHHHHcC--CHHHHHHHHHHH
Confidence            4555555666666677776 6677666642         224556666677777777777666443  455677777777


Q ss_pred             HhCCChhHHHHHHHHHHHCCCCCCHhhHHHHHHHhhccCCcHHHHHHHHHHHHhCCCCCchHHHhHHHHHhHhcC
Q 041384          105 TQNGFYVRSLEMFREMYLCGFVLKAELLAGIISLCSQIGELELGRQIHALVIVDGSFELSVFVSTALLDLYSKCH  179 (580)
Q Consensus       105 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  179 (580)
                      .+.....-+     .+.......++.....++..+-..|..+....+++......  +.+...++.++..|++.+
T Consensus        80 ~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~--~~~~~~~~~L~~lyak~~  147 (336)
T d1b89a_          80 VDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE--RAHMGMFTELAILYSKFK  147 (336)
T ss_dssp             HHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST--TCCHHHHHHHHHHHHTTC
T ss_pred             HhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC--ccchHHHHHHHHHHHHhC
Confidence            666544332     12223334455666667777777777777777777665432  455666777777777654

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=97.84  E-value=0.0066  Score=51.80  Aligned_cols=225  Identities=10%  Similarity=-0.042  Sum_probs=145.0

Q ss_pred             hhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhc----cCChHHHHHHHHHHHHhCCCCchhHHHH
Q 041384          298 VVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTR----QSFLSHGLGVHCYIMKAGLNFDVSIGNA  373 (580)
Q Consensus       298 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~  373 (580)
                      +..+..|-..+.+.+++++|+..|++..+.|   +...+..|-..+..    ..+...+...+....+.+.+   .....
T Consensus         2 p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~~---~a~~~   75 (265)
T d1ouva_           2 PKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNYS---NGCHL   75 (265)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH---HHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccccc---chhhc
Confidence            3445556666777889999999999988776   34444445555544    56788888888887776622   22233


Q ss_pred             HHHHhH----hcCCHHHHHHHHhcCCCCC-cchHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 041384          374 LMNMYS----KCGSITSSHQIFNEMAARD-FVSWTTLISGYGF----HGYGEEALQLFLEMQESGVEPDAITVLAILSAC  444 (580)
Q Consensus       374 l~~~~~----~~g~~~~A~~~~~~~~~~~-~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~  444 (580)
                      +...+.    ...+.+.|...++...+.+ ......+...+..    ......+...+......   .+...+..+...+
T Consensus        76 l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L~~~~  152 (265)
T d1ouva_          76 LGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTILGSLY  152 (265)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHHHHHHH
T ss_pred             cccccccccccchhhHHHHHHHhhhhhhhhhhHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhhhhhhh
Confidence            333332    2467788888888765543 2333334333332    34566777777776663   4556666666666


Q ss_pred             hc----cCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhh----cCChHHHHHHHHhCCCCCCHHHHHHHHHHHHh--
Q 041384          445 NH----AGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGK----SGKIEDACKVVSTMPMKPSTRILSSLVSACRI--  514 (580)
Q Consensus       445 ~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~--  514 (580)
                      ..    ..+...+...++...+ .+   +......+...|..    ..+.++|+..|++....-++..+..|...|..  
T Consensus       153 ~~~~~~~~~~~~~~~~~~~a~~-~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g~~~a~~~LG~~y~~G~  228 (265)
T d1ouva_         153 DAGRGTPKDLKKALASYDKACD-LK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELENGGGCFNLGAMQYNGE  228 (265)
T ss_dssp             HHTSSSCCCHHHHHHHHHHHHH-TT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS
T ss_pred             ccCCCcccccccchhhhhcccc-cc---ccccccchhhhcccCcccccchhhhhhhHhhhhcccCHHHHHHHHHHHHcCC
Confidence            54    5677788888887543 33   44455556655554    56899999999888434466677777777764  


Q ss_pred             --cCCHHHHHHHHHHHHhcCCCC
Q 041384          515 --HGRLEVAEMLAHQLIEAEPEN  535 (580)
Q Consensus       515 --~~~~~~A~~~~~~~~~~~~~~  535 (580)
                        ..+.++|.+.|+++.+.+..+
T Consensus       229 g~~~n~~~A~~~~~kAa~~g~~~  251 (265)
T d1ouva_         229 GVTRNEKQAIENFKKGCKLGAKG  251 (265)
T ss_dssp             SSSCCSTTHHHHHHHHHHHTCHH
T ss_pred             CCccCHHHHHHHHHHHHHCcCHH
Confidence              347888999999988877443

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.84  E-value=0.00012  Score=54.96  Aligned_cols=59  Identities=10%  Similarity=0.022  Sum_probs=36.4

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Q 041384          403 TTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMK  462 (580)
Q Consensus       403 ~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  462 (580)
                      ..+...+.+.|++++|+..|++.++.+ +.+...+..+..+|...|++++|+..++++++
T Consensus         8 k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~   66 (128)
T d1elra_           8 KELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIE   66 (128)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHH
Confidence            345556666666666666666666642 22455666666666666666666666666554

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=97.82  E-value=3.8e-05  Score=59.13  Aligned_cols=127  Identities=17%  Similarity=0.134  Sum_probs=71.4

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccC----------CHHHHHHHHHHHHHhhCCCCChhHHHHHH
Q 041384          409 YGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAG----------LVKEAETLFNNVMKEKKIALAIEHYACYV  477 (580)
Q Consensus       409 ~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~----------~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  477 (580)
                      |-+.+.+++|+..|+...+.  .| +...+..+..++...+          .+++|+..|+++++-  -+.+..+|..+.
T Consensus         7 ~~r~~~fe~A~~~~e~al~~--~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l--~P~~~~a~~~lG   82 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLI--DPKKDEAVWCIG   82 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhh--CCcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHh--cchhhHHHhhHH
Confidence            34455677777777777764  34 4456666665555332          234444444444331  111233333344


Q ss_pred             HHhhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHH
Q 041384          478 DLLGKSGKIEDACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEE  557 (580)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  557 (580)
                      .+|...|++            .++...         ..+++++|.+.|+++.+.+|.+...+..|...       .+|.+
T Consensus        83 ~~y~~~g~~------------~~~~~~---------~~~~~~~A~~~~~kal~l~P~~~~~~~~L~~~-------~ka~~  134 (145)
T d1zu2a1          83 NAYTSFAFL------------TPDETE---------AKHNFDLATQFFQQAVDEQPDNTHYLKSLEMT-------AKAPQ  134 (145)
T ss_dssp             HHHHHHHHH------------CCCHHH---------HHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHH-------HTHHH
T ss_pred             HHHHHcccc------------hhhHHH---------HHHhHHHhhhhhhcccccCCCHHHHHHHHHHH-------HHHHH
Confidence            333332211            011000         11346889999999999999999877777655       46677


Q ss_pred             HHHHHHhCCC
Q 041384          558 VWRVMRAKGL  567 (580)
Q Consensus       558 ~~~~~~~~~~  567 (580)
                      ++.++.+.|+
T Consensus       135 ~~~e~~k~~~  144 (145)
T d1zu2a1         135 LHAEAYKQGL  144 (145)
T ss_dssp             HHHHHHHSSS
T ss_pred             HHHHHHHHhc
Confidence            7777777665

>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=97.75  E-value=6.4e-05  Score=58.84  Aligned_cols=63  Identities=10%  Similarity=-0.081  Sum_probs=49.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCC-------C----CchHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 041384          503 RILSSLVSACRIHGRLEVAEMLAHQLIEAEP-------E----NAANYTLLSMVCSESGNWLGAEEVWRVMRAK  565 (580)
Q Consensus       503 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-------~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (580)
                      ..|+.+..+|...|++++|...++++++..|       .    ...++..++.+|...|++++|.+.|++..+.
T Consensus        56 ~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l  129 (156)
T d2hr2a1          56 FCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  129 (156)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4677788888888888888888888776432       1    2235788899999999999999999987653

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=97.71  E-value=2.1e-05  Score=60.59  Aligned_cols=86  Identities=6%  Similarity=-0.079  Sum_probs=60.2

Q ss_pred             hcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHh----------cCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhc
Q 041384          482 KSGKIEDACKVVSTM-P-MKPSTRILSSLVSACRI----------HGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSES  549 (580)
Q Consensus       482 ~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~----------~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~  549 (580)
                      +.+.+++|+..|+.. . .+.++.++..+..++..          .+.+++|+..++++++++|.++.+|..++.+|...
T Consensus         9 r~~~fe~A~~~~e~al~~~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~~~~a~~~lG~~y~~~   88 (145)
T d1zu2a1           9 RILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSF   88 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHccHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcchhhHHHhhHHHHHHHc
Confidence            334455555555554 1 22244455555544442          34568899999999999999999999999999887


Q ss_pred             CC-----------hHHHHHHHHHHHhCCC
Q 041384          550 GN-----------WLGAEEVWRVMRAKGL  567 (580)
Q Consensus       550 g~-----------~~~A~~~~~~~~~~~~  567 (580)
                      |+           +++|.+.|++..+..+
T Consensus        89 g~~~~~~~~~~~~~~~A~~~~~kal~l~P  117 (145)
T d1zu2a1          89 AFLTPDETEAKHNFDLATQFFQQAVDEQP  117 (145)
T ss_dssp             HHHCCCHHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             ccchhhHHHHHHhHHHhhhhhhcccccCC
Confidence            64           6889999998877554

>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=97.64  E-value=0.00016  Score=50.73  Aligned_cols=71  Identities=17%  Similarity=0.124  Sum_probs=51.1

Q ss_pred             HHHHHhhhcCChHHHHHHHHhCC--------CCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHH
Q 041384          475 CYVDLLGKSGKIEDACKVVSTMP--------MKPS-TRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMV  545 (580)
Q Consensus       475 ~l~~~~~~~g~~~~A~~~~~~~~--------~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  545 (580)
                      .+...+.+.|++++|+..|++..        ..++ ..++..+..++.+.|++++|+..++++++.+|+++.++..+...
T Consensus        10 ~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~~Nl~~~   89 (95)
T d1tjca_          10 ELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGNLKYF   89 (95)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCHHHHHHHHHH
Confidence            34455555555555555554441        1122 45788899999999999999999999999999999988887543

>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=97.54  E-value=0.00014  Score=51.00  Aligned_cols=67  Identities=12%  Similarity=-0.002  Sum_probs=56.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC-------chHHHHHHHHHHhcCChHHHHHHHHHHHhCCCc
Q 041384          502 TRILSSLVSACRIHGRLEVAEMLAHQLIEAEPEN-------AANYTLLSMVCSESGNWLGAEEVWRVMRAKGLS  568 (580)
Q Consensus       502 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~-------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  568 (580)
                      ...+..+...+.+.|++++|+..++++++..|.+       ..++..++.++.+.|++++|+..++++++..+.
T Consensus         5 addc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~   78 (95)
T d1tjca_           5 AEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPE   78 (95)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcC
Confidence            4445578889999999999999999999875432       467999999999999999999999999887643

>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=97.49  E-value=0.00019  Score=61.25  Aligned_cols=125  Identities=16%  Similarity=0.082  Sum_probs=80.4

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCC-hhHHHHHHHHhhhcCChH
Q 041384          410 GFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALA-IEHYACYVDLLGKSGKIE  487 (580)
Q Consensus       410 ~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~  487 (580)
                      .+.|++++|+..+++.++.  .| |...+..+...++..|++++|...++..++   ..|+ ...+..+...+...+..+
T Consensus         7 L~~G~l~eAl~~l~~al~~--~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~---l~P~~~~~~~~l~~ll~a~~~~~   81 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKA--SPKDASLRSSFIELLCIDGDFERADEQLMQSIK---LFPEYLPGASQLRHLVKAAQARK   81 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHT--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH---HCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCcHHHHHHHHHHHHhccccH
Confidence            4568888888888888875  45 567888888888888888888888888665   2343 334444444444444444


Q ss_pred             HHHHHHHhCC--CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHH
Q 041384          488 DACKVVSTMP--MKP-STRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANY  539 (580)
Q Consensus       488 ~A~~~~~~~~--~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~  539 (580)
                      ++..-.....  ..| +...+......+...|+.++|.+.++++.+..|..+..+
T Consensus        82 ~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~~~~~  136 (264)
T d1zbpa1          82 DFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGFLA  136 (264)
T ss_dssp             HHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCEEE
T ss_pred             HHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCCccc
Confidence            4333222211  122 223334445566778888888888888888888766543

>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=97.41  E-value=0.00076  Score=52.41  Aligned_cols=93  Identities=16%  Similarity=0.013  Sum_probs=60.3

Q ss_pred             HHHhccCCHHHHHHHHHHHHHhhCCCCC----------hhHHHHHHHHhhhcCChHHHHHHHHhCC--------CCCC--
Q 041384          442 SACNHAGLVKEAETLFNNVMKEKKIALA----------IEHYACYVDLLGKSGKIEDACKVVSTMP--------MKPS--  501 (580)
Q Consensus       442 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~----------~~~~~~l~~~~~~~g~~~~A~~~~~~~~--------~~p~--  501 (580)
                      ..+...|++++|+..|++.+.-..-.|+          ...|+.+..+|...|++++|...+++..        ..++  
T Consensus        17 ~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~   96 (156)
T d2hr2a1          17 QRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEG   96 (156)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccccccccccccc
Confidence            3445566666666666666553222222          2356667777777777777766665541        1122  


Q ss_pred             ---HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 041384          502 ---TRILSSLVSACRIHGRLEVAEMLAHQLIEAEPE  534 (580)
Q Consensus       502 ---~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  534 (580)
                         ...+..+..+|...|++++|+..|+++.++.|.
T Consensus        97 ~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~~  132 (156)
T d2hr2a1          97 KLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEE  132 (156)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHH
Confidence               225677888999999999999999999887643

>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=97.37  E-value=0.0015  Score=51.80  Aligned_cols=72  Identities=10%  Similarity=0.010  Sum_probs=57.1

Q ss_pred             chHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHHHH----hhCCCCChhHH
Q 041384          400 VSWTTLISGYGFHGYGEEALQLFLEMQESGVEP-DAITVLAILSACNHAGLVKEAETLFNNVMK----EKKIALAIEHY  473 (580)
Q Consensus       400 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~~~  473 (580)
                      ..+..+...+...|++++|+..++++.+.  .| +...|..++.++...|+.++|++.|+++.+    +.|+.|...+-
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~--~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l~  144 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFE--HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLR  144 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             HHHHHHHHHHHHCCCchHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHHH
Confidence            45677888888899999999999998885  55 668888899999999999999988887532    36888876543

>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=97.37  E-value=0.00012  Score=62.47  Aligned_cols=122  Identities=14%  Similarity=0.048  Sum_probs=87.4

Q ss_pred             HhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHH
Q 041384          444 CNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM-PMKPS-TRILSSLVSACRIHGRLEVA  521 (580)
Q Consensus       444 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~~~~~~A  521 (580)
                      ..+.|++++|+..+++.++  ..+.+...+..++..|+..|++++|.+.++.. ...|+ ...+..+...+...+..+++
T Consensus         6 aL~~G~l~eAl~~l~~al~--~~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~~~~~~~~l~~ll~a~~~~~~a   83 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIK--ASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHH--TCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhccccHHH
Confidence            4578999999999999876  34556788999999999999999999999988 35564 44555555555544444433


Q ss_pred             HHHHHHHHhc-CCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          522 EMLAHQLIEA-EPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       522 ~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      ..-....... .|++...+...+..+...|+.++|.+.++++.+...
T Consensus        84 ~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p  130 (264)
T d1zbpa1          84 AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQ  130 (264)
T ss_dssp             TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC
T ss_pred             HHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCC
Confidence            3222221112 244455566677888899999999999999877543

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=97.03  E-value=0.026  Score=39.77  Aligned_cols=141  Identities=11%  Similarity=0.094  Sum_probs=102.5

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhhcCChHH
Q 041384          409 YGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGKSGKIED  488 (580)
Q Consensus       409 ~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  488 (580)
                      +...|..++..+++.+....   .+..-|+.++.-....-+-+...++++.+-+-..+.|-. ....++.++...+    
T Consensus        12 ~ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls~C~-Nlk~vv~C~~~~n----   83 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQ-NLKSVVECGVINN----   83 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCS-CTHHHHHHHHHTT----
T ss_pred             HHHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhhcCchhhh-cHHHHHHHHHHhc----
Confidence            44567888888888888763   466677777777777777788888887743322222211 1233444444333    


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHHHHHHHHHHhCCCc
Q 041384          489 ACKVVSTMPMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGAEEVWRVMRAKGLS  568 (580)
Q Consensus       489 A~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  568 (580)
                                 .+...++..+..+..+|+-++-..+++.+.+.+..+|.....++.+|-+.|...++.+++.+.=+.|++
T Consensus        84 -----------~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          84 -----------TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             -----------CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             -----------chHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence                       345566677788889999999999999988888889999999999999999999999999999888875

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.77  E-value=0.0014  Score=62.15  Aligned_cols=130  Identities=10%  Similarity=-0.079  Sum_probs=70.2

Q ss_pred             cCCHHHHHHHHhcCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHH
Q 041384          381 CGSITSSHQIFNEMAA---RDFVSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLF  457 (580)
Q Consensus       381 ~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~  457 (580)
                      .+.++.+...+.....   ++...+..+...+.+.|+.++|...+......  .| ..++..+...+...|++++|...|
T Consensus        99 ~~~Y~~ai~~l~~~~~l~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~~-~~~~~~LG~l~~~~~~~~~A~~~y  175 (497)
T d1ya0a1          99 SGFYTQLLQELCTVFNVDLPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSY--IC-QHCLVHLGDIARYRNQTSQAESYY  175 (497)
T ss_dssp             HHHHHHHHHHHTC-------------------------------CCHHHHH--HH-HHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCC--CH-HHHHHHHHHHHHHcccHHHHHHHH
Confidence            4556666666665443   34456677777778888888888777666542  11 256667777888888888888888


Q ss_pred             HHHHHhhCCCCChhHHHHHHHHhhhcCChHHHHHHHHhC--CCCCCHHHHHHHHHHHHhc
Q 041384          458 NNVMKEKKIALAIEHYACYVDLLGKSGKIEDACKVVSTM--PMKPSTRILSSLVSACRIH  515 (580)
Q Consensus       458 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~  515 (580)
                      +++++-  .+-+...|+.|+..+...|+..+|+..|.+.  ..+|-+.++..|...+.+.
T Consensus       176 ~~A~~l--~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~~~~~a~~nL~~~~~~~  233 (497)
T d1ya0a1         176 RHAAQL--VPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKFPFPAASTNLQKALSKA  233 (497)
T ss_dssp             HHHHHH--CTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSBCCHHHHHHHHHHHHHH
T ss_pred             HHHHHH--CCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHh
Confidence            886652  2334567888888888888888888888776  2456667777777766543

>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=96.37  E-value=0.0083  Score=42.97  Aligned_cols=71  Identities=21%  Similarity=0.157  Sum_probs=35.2

Q ss_pred             CChhHHHHHHHHhhhcC---ChHHHHHHHHhCC-CCC-CH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchH
Q 041384          468 LAIEHYACYVDLLGKSG---KIEDACKVVSTMP-MKP-ST-RILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAAN  538 (580)
Q Consensus       468 ~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~-~~p-~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~  538 (580)
                      ++..+--.+.-++.+..   +.++++.+++++- ..| +. ..+-.|.-+|.+.|++++|.+.++++++.+|.|..+
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~n~qA  109 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQV  109 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCcHHH
Confidence            33444444444444433   2345555555541 122 22 244455555556666666666666666666665553

>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=96.14  E-value=0.48  Score=43.31  Aligned_cols=53  Identities=8%  Similarity=-0.063  Sum_probs=27.1

Q ss_pred             HHHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHHHhCCChhHHHHHHHHHHHCC
Q 041384          274 HMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRLER  328 (580)
Q Consensus       274 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~  328 (580)
                      ..+.+.++ .......+... ..+...-.....+....|+.+.|...+..+-..|
T Consensus        80 ~~L~~~~~-w~~~~~~~~~~-p~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~  132 (450)
T d1qsaa1          80 NELARRED-WRGLLAFSPEK-PGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTG  132 (450)
T ss_dssp             HHHHHTTC-HHHHHHHCCSC-CSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCS
T ss_pred             HHHHhccC-HHHHHHhccCC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC
Confidence            33444444 44444333322 1234444455666667777777777666654443

>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=95.89  E-value=0.16  Score=35.74  Aligned_cols=68  Identities=12%  Similarity=-0.025  Sum_probs=54.1

Q ss_pred             ChhhHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChHHHHHHHHHHHHhCCC
Q 041384          297 DVVIWSSIIRGYSQSGDLSEAMKLFSRMRLERIEPNSVTLLAILSSCTRQSFLSHGLGVHCYIMKAGLN  365 (580)
Q Consensus       297 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  365 (580)
                      +....+..++.+..+|.-++-.++++.+.+.+ +|++.....+..+|.+.|+..++.+++.+..+.|++
T Consensus        85 ~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          85 LNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            44456667788888999998889988877655 788888888899999999999999888888887753

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=95.89  E-value=0.071  Score=39.28  Aligned_cols=50  Identities=12%  Similarity=-0.018  Sum_probs=35.8

Q ss_pred             CCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHh----cCChHHHHHHHHHHHhCCC
Q 041384          516 GRLEVAEMLAHQLIEAEPENAANYTLLSMVCSE----SGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       516 ~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~  567 (580)
                      .|.++|.+.|++..+.+  ++.....|+..|..    ..+.++|.+++++..+.|.
T Consensus        73 ~d~~~A~~~~~~aa~~g--~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          73 KDLRKAAQYYSKACGLN--DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             CCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             hhhHHHHHHHhhhhccC--cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            46778888888877654  45556677777665    3578888888888877764

>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=94.91  E-value=0.16  Score=36.16  Aligned_cols=69  Identities=6%  Similarity=0.007  Sum_probs=54.0

Q ss_pred             CCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhcCCCCc-hHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 041384          499 KPSTRILSSLVSACRIHG---RLEVAEMLAHQLIEAEPENA-ANYTLLSMVCSESGNWLGAEEVWRVMRAKGL  567 (580)
Q Consensus       499 ~p~~~~~~~l~~~~~~~~---~~~~A~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (580)
                      .|+..+-....+++.+..   +.++++.+++.+.+.+|.+. ..+..|+-+|.+.|++++|.++++++++..+
T Consensus        32 ~~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP  104 (124)
T d2pqrb1          32 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHER  104 (124)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT
T ss_pred             CCCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCC
Confidence            356667777777777654   45688899999888888664 6788888899999999999999998877554

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=94.51  E-value=0.34  Score=35.30  Aligned_cols=112  Identities=10%  Similarity=-0.068  Sum_probs=71.3

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHHhhh----cCChHHH
Q 041384          414 YGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDLLGK----SGKIEDA  489 (580)
Q Consensus       414 ~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A  489 (580)
                      ++++|+++|++..+.|. |..  ...|.  .....+.++|.+++++..+ .|   ++.....|...|..    ..+.++|
T Consensus         8 d~~~A~~~~~kaa~~g~-~~a--~~~l~--~~~~~~~~~a~~~~~~aa~-~g---~~~a~~~Lg~~y~~g~~~~~d~~~A   78 (133)
T d1klxa_           8 DLKKAIQYYVKACELNE-MFG--CLSLV--SNSQINKQKLFQYLSKACE-LN---SGNGCRFLGDFYENGKYVKKDLRKA   78 (133)
T ss_dssp             HHHHHHHHHHHHHHTTC-TTH--HHHHH--TCTTSCHHHHHHHHHHHHH-TT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             CHHHHHHHHHHHHHCCC-hhh--hhhhc--cccccCHHHHHHHHhhhhc-cc---chhhhhhHHHhhhhccccchhhHHH
Confidence            56788888888877662 222  22222  2345678888888887554 33   23344445555543    4567888


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhcCCC
Q 041384          490 CKVVSTMPMKPSTRILSSLVSACRI----HGRLEVAEMLAHQLIEAEPE  534 (580)
Q Consensus       490 ~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~  534 (580)
                      .++|++....-++.....|...|..    ..|.++|.+.++++.+.+.+
T Consensus        79 ~~~~~~aa~~g~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~~  127 (133)
T d1klxa_          79 AQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGSE  127 (133)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHhhhhccCcchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCCH
Confidence            8888887434455566666666655    45788999999998887643

>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=92.00  E-value=4.2  Score=36.70  Aligned_cols=353  Identities=7%  Similarity=-0.028  Sum_probs=190.4

Q ss_pred             HhHHHHHhHhcCCHHHHHHHHhcCCCCCeehHHHHHHHHHhcCChhHHHHHHHHHHHcC-CCCCHHHHHHHHHHHhcCCC
Q 041384          168 STALLDLYSKCHHWLIALRVFEQMVIRNEVSWTAMISGCIDSQNYDTGIDLFRAMQREG-VKPTRVTLTIVLLACAELRD  246 (580)
Q Consensus       168 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~ll~~~~~~~~  246 (580)
                      ....+..+.+.++++.....+..-+ .+...-.....+....|+.+.|...+..+=..| ..|+  ....+...+.+.|.
T Consensus        75 r~~~l~~L~~~~~w~~~~~~~~~~p-~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~~~p~--~c~~l~~~~~~~~~  151 (450)
T d1qsaa1          75 QSRFVNELARREDWRGLLAFSPEKP-GTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKSQPN--ACDKLFSVWRASGK  151 (450)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHCCSCC-SSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSCCCT--HHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHhccCHHHHHHhccCCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCch--HHHHHHHHHHhcCC
Confidence            3444566677788877666554322 233333455667777888888877776654443 2222  22222222222222


Q ss_pred             chhHHHHHHHHHHhcCCCchhHHHHHHHHHHHcCCCHHHHHHHHhhCCCCChhhHHHHHHHHHhCCChhHHHHHHHHHHH
Q 041384          247 LRNGKAIHGYAYCCGFDFDHHLSAALMHMYCECTEALHPARIIFERTKVKDVVIWSSIIRGYSQSGDLSEAMKLFSRMRL  326 (580)
Q Consensus       247 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  326 (580)
                      +                 +......-+......|+ ...+..+...+...........+....+   ...+......   
T Consensus       152 l-----------------t~~~~~~R~~~~l~~~~-~~~a~~l~~~l~~~~~~~~~a~~~l~~~---p~~~~~~~~~---  207 (450)
T d1qsaa1         152 Q-----------------DPLAYLERIRLAMKAGN-TGLVTVLAGQMPADYQTIASAIISLANN---PNTVLTFART---  207 (450)
T ss_dssp             S-----------------CHHHHHHHHHHHHHTTC-HHHHHHHHHTCCGGGHHHHHHHHHHHHC---GGGHHHHHHH---
T ss_pred             C-----------------CHHHHHHHHHHHHHcCC-hhhHHHHHhhCChhHHHHHHHHHHHHhC---hHhHHHHHhc---
Confidence            2                 22222233334444455 7777777766654444444444444332   2222222211   


Q ss_pred             CCCCCCHHHHHHHHHHhhc--cCChHHHHHHHHHHHHhCCCCchhH---HHHHHHHhHhcCCHHHHHHHHhcCCC--CCc
Q 041384          327 ERIEPNSVTLLAILSSCTR--QSFLSHGLGVHCYIMKAGLNFDVSI---GNALMNMYSKCGSITSSHQIFNEMAA--RDF  399 (580)
Q Consensus       327 ~~~~p~~~~~~~ll~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~  399 (580)
                      .  .++......+..++.+  ..+.+.+...+..............   ...+...+...+..+.+...+.....  .+.
T Consensus       208 ~--~~~~~~~~~~~~~l~rla~~d~~~a~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~~  285 (450)
T d1qsaa1         208 T--GATDFTRQMAAVAFASVARQDAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQST  285 (450)
T ss_dssp             S--CCCHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCCCH
T ss_pred             C--CCChhhhHHHHHHHHHHhccChhHHHHHHHhhhhcccccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccccch
Confidence            1  2333333333333333  3567778887777766432222211   11222333445666777666655433  233


Q ss_pred             chHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHHH
Q 041384          400 VSWTTLISGYGFHGYGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVDL  479 (580)
Q Consensus       400 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  479 (580)
                      ....-.+......+++..+...+..|... ......-.--+..++...|+.+.|...|..+..    .++  .|..|...
T Consensus       286 ~~~~w~~~~al~~~~~~~~~~~~~~l~~~-~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~----~~~--fYG~LAa~  358 (450)
T d1qsaa1         286 SLIERRVRMALGTGDRRGLNTWLARLPME-AKEKDEWRYWQADLLLERGREAEAKEILHQLMQ----QRG--FYPMVAAQ  358 (450)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHSCTT-GGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT----SCS--HHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHhcCcc-cccHHHHHHHHHHHHHHcCChhhHHHHHHHHhc----CCC--hHHHHHHH
Confidence            33344555566778999999888877542 111233344567888899999999999998432    233  45544322


Q ss_pred             hhhcCChHHHHHHHHhCCCCCCHH----HHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCChHHH
Q 041384          480 LGKSGKIEDACKVVSTMPMKPSTR----ILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSMVCSESGNWLGA  555 (580)
Q Consensus       480 ~~~~g~~~~A~~~~~~~~~~p~~~----~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  555 (580)
                        +.|..-.. . .......+...    .-..-+..+...|....|...+..+.+..  ++.-...++....+.|.++.|
T Consensus       359 --~Lg~~~~~-~-~~~~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~~--~~~~~~~la~lA~~~g~~~~a  432 (450)
T d1qsaa1         359 --RIGEEYEL-K-IDKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKSK--SKTEQAQLARYAFNNQWWDLS  432 (450)
T ss_dssp             --HTTCCCCC-C-CCCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CHHHHHHHHHHHHHTTCHHHH
T ss_pred             --HcCCCCCC-C-cCCCCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhCC--CHHHHHHHHHHHHHCCChhHH
Confidence              22221000 0 00001111111    11133456778899999999999887643  455677888999999999999


Q ss_pred             HHHHHHH
Q 041384          556 EEVWRVM  562 (580)
Q Consensus       556 ~~~~~~~  562 (580)
                      +....+.
T Consensus       433 I~a~~~~  439 (450)
T d1qsaa1         433 VQATIAG  439 (450)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHHH
Confidence            9877664

>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=89.70  E-value=0.81  Score=30.37  Aligned_cols=63  Identities=17%  Similarity=0.166  Sum_probs=47.6

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHHHHhhCCCCChhHHHHHHH
Q 041384          414 YGEEALQLFLEMQESGVEPDAITVLAILSACNHAGLVKEAETLFNNVMKEKKIALAIEHYACYVD  478 (580)
Q Consensus       414 ~~~~a~~~~~~~~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  478 (580)
                      +.-+..+-++.+....+.|++......+++|.+.+++..|.++++- ++. ...++...|..+++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~-vK~-K~~~~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEV-VKD-KAGPHKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHH-HHH-HTTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHH-HHH-HhcCcHHHHHHHHH
Confidence            3445666677777778899999999999999999999999999998 442 23334556766654

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=88.05  E-value=2.5  Score=28.01  Aligned_cols=59  Identities=15%  Similarity=0.235  Sum_probs=44.3

Q ss_pred             hHHHHHHHHhC---CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCchHHHHHHH
Q 041384          486 IEDACKVVSTM---PMKPSTRILSSLVSACRIHGRLEVAEMLAHQLIEAEPENAANYTLLSM  544 (580)
Q Consensus       486 ~~~A~~~~~~~---~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  544 (580)
                      .=+..+-++.+   ..-|++....+.+++|++.+|+..|+++++-....-..+...|..+.+
T Consensus        22 ~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~~~k~~y~yilq   83 (105)
T d1v54e_          22 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVIQ   83 (105)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            33444444444   467999999999999999999999999999998766445556666553