Citrus Sinensis ID: 047359

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440
Protein Sequence
MIQSCEGRDSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGIYSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQVISGFM
Secondary Structure (PSIPRED)
cccccccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHHcccHHHHHHHHHccccccEEHHHHHHHHHHcccHHHHHHHHHHHHccccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHcHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHcccc
Secondary Structure Prediction (SSPRO)
ccHHHcccccccEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHcccccEEHHHHHHHHHHcccHHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccEEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHccc
Coil and Loop (DISEMBL)
miqscegrdsqSDALSLVLDCyshkglfmdgLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGamvrdgvspnkFTWSLVAQILCRSGKFEVVLGLLDSGIYSSVMYNLVIDFYSKKGDFGAAFDRLNEmcngrnltpgfstyssildgarryekteVSDRIVGLMVEkkllpkhflsgnDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISergitvrdsdYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVasqcgkgkWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLkgsldvatYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMlkmghkpdeatYKQVISGFM
Flexible Loop (DISEMBL)
miqscegrdsqSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGIYSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNgrnltpgfstyssilDGARRYEKTEVSDRIVGLMVekkllpkhflsgNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHlisergitvrDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEklkgsldvatYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDemlkmghkpdeatyKQVISGFM
Low Complexity Region (SEG)
MIQSCEGRDSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGIYSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKvvssssfvivvsRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQVISGFM
Disordered region (IsUnstruct)
**************LSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGIYSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELR*****************************
Disordered Region (DISOPRED)
MI*****RDSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGIYSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQVISGFM
Disordered Region (DISEMBL)
************DALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGIYSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQVISGFM
Disordered Region (DISPRO)
*****EGRDSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGIYSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQVISGFM
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MIQSCEGRDSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGIYSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQVISGFM
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	440	2.2.26 [Sep-21-2011]
O49558	585	Pentatricopeptide repeat-	yes	no	0.947	0.712	0.449	1e-100
Q9LFC5	729	Pentatricopeptide repeat-	no	no	0.968	0.584	0.253	8e-36
Q9CA58	763	Putative pentatricopeptid	no	no	0.984	0.567	0.253	1e-30
Q9LPX2	644	Pentatricopeptide repeat-	no	no	0.927	0.633	0.247	1e-30
Q9CAN0	630	Pentatricopeptide repeat-	no	no	0.956	0.668	0.230	2e-29
Q9LFF1	754	Pentatricopeptide repeat-	no	no	0.829	0.484	0.237	8e-29
Q9ZVX5	743	Pentatricopeptide repeat-	no	no	0.938	0.555	0.247	7e-28
Q9ZQF1	627	Pentatricopeptide repeat-	no	no	0.947	0.665	0.240	1e-27
Q9SH60	666	Pentatricopeptide repeat-	no	no	0.947	0.626	0.229	5e-27
Q9FIX3	747	Pentatricopeptide repeat-	no	no	0.902	0.531	0.231	7e-27

>sp|O49558|PP331_ARATH Pentatricopeptide repeat-containing protein At4g21170 OS=Arabidopsis thaliana GN=At4g21170 PE=3 SV=2

 Score =  366 bits (939), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 190/423 (44%), Positives = 284/423 (67%), Gaps = 6/423 (1%)

Query: 22  YSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPN 81
           Y+ KG   +GLEV+  MR     P+ SA N+LL +L ++N+ R+A CLY AMVR+G+  +
Sbjct: 163 YALKGSHHNGLEVFGFMRRLRLSPSQSAYNSLLGSLVKENQFRVALCLYSAMVRNGIVSD 222

Query: 82  KFTWSLVAQILCRSGKFEVVLGLLDSGIYSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNG 141
           + TW L+AQILC  G+ + V  L+++G+ S  +Y  +++ YS+ G+F A F  ++EM + 
Sbjct: 223 ELTWDLIAQILCEQGRSKSVFKLMETGVESCKIYTNLVECYSRNGEFDAVFSLIHEM-DD 281

Query: 142 RNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKT 201
           + L   F +Y  +LD A R    E  D+++ LMVEKK +     + ND +I++L DMGKT
Sbjct: 282 KKLELSFCSYGCVLDDACRLGDAEFIDKVLCLMVEKKFVTLGDSAVNDKIIERLCDMGKT 341

Query: 202 YAAEMIFKRACD-EKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRD-SDYY 259
           +A+EM+F++AC+ E + L D T GCMLKALS++ R KEA+ +Y +I  +GITV D S Y 
Sbjct: 342 FASEMLFRKACNGETVRLWDSTYGCMLKALSRKKRTKEAVDVYRMICRKGITVLDESCYI 401

Query: 260 AFVNVLCKEHQPEEVCGLLR-DVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLD 318
            F N LC++    E    L  DV++RG++PC  +LS  +AS C K +WK  E+LL +V++
Sbjct: 402 EFANALCRDDNSSEEEEELLVDVIKRGFVPCTHKLSEVLASMCRKRRWKSAEKLLDSVME 461

Query: 319 KGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGR--M 376
             +  DSF C  LME YC + +++KA+ LH KI+K+KGSLDV  Y+ +LD L    +  +
Sbjct: 462 MEVYFDSFACGLLMERYCRSGKLEKALVLHEKIKKMKGSLDVNAYNAVLDRLMMRQKEMV 521

Query: 377 EEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQVI 436
           EEAV +F+YMKE+  V+S SF I++  LC +KE++KAM++HDEML++G KPD  TYK++I
Sbjct: 522 EEAVVVFEYMKEINSVNSKSFTIMIQGLCRVKEMKKAMRSHDEMLRLGLKPDLVTYKRLI 581

Query: 437 SGF 439
            GF
Sbjct: 582 LGF 584

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LFC5|PP360_ARATH Pentatricopeptide repeat-containing protein At5g01110 OS=Arabidopsis thaliana GN=At5g01110 PE=2 SV=1

 Score =  151 bits (382), Expect = 8e-36,   Method: Compositional matrix adjust.
 Identities = 113/446 (25%), Positives = 213/446 (47%), Gaps = 20/446 (4%)

Query: 4   SCEGRDSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEI 63
           +C   DS  D   L++  Y       +  E + ++R  GF  ++ ACNAL+ +L R   +
Sbjct: 160 NCGSNDSVFD---LLIRTYVQARKLREAHEAFTLLRSKGFTVSIDACNALIGSLVRIGWV 216

Query: 64  RLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLL----DSGIYSS-VMYNLV 118
            LA  +Y  + R GV  N +T +++   LC+ GK E V   L    + G+Y   V YN +
Sbjct: 217 ELAWGVYQEISRSGVGINVYTLNIMVNALCKDGKMEKVGTFLSQVQEKGVYPDIVTYNTL 276

Query: 119 IDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKK 178
           I  YS KG    AF+ +N M  G+  +PG  TY+++++G  ++ K E +  +   M+   
Sbjct: 277 ISAYSSKGLMEEAFELMNAM-PGKGFSPGVYTYNTVINGLCKHGKYERAKEVFAEMLRSG 335

Query: 179 LLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTC-GCMLKALSKEGRVK 237
           L P    +    ++ +    G     E +F       + + D  C   M+   ++ G + 
Sbjct: 336 LSPDS--TTYRSLLMEACKKGDVVETEKVFSDMRSRDV-VPDLVCFSSMMSLFTRSGNLD 392

Query: 238 EAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRF- 296
           +A+  ++ + E G+   +  Y   +   C++        L  +++++G   CAM++  + 
Sbjct: 393 KALMYFNSVKEAGLIPDNVIYTILIQGYCRKGMISVAMNLRNEMLQQG---CAMDVVTYN 449

Query: 297 --VASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKL 354
             +   C +    E ++L + + ++ L  DS+  + L++ +C    +  A+ L  K+++ 
Sbjct: 450 TILHGLCKRKMLGEADKLFNEMTERALFPDSYTLTILIDGHCKLGNLQNAMELFQKMKEK 509

Query: 355 KGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSS-SFVIVVSRLCHLKELRKA 413
           +  LDV TY+ LLDG  K G ++ A  I+  M   +++ +  S+ I+V+ LC    L +A
Sbjct: 510 RIRLDVVTYNTLLDGFGKVGDIDTAKEIWADMVSKEILPTPISYSILVNALCSKGHLAEA 569

Query: 414 MKNHDEMLKMGHKPDEATYKQVISGF 439
            +  DEM+    KP       +I G+
Sbjct: 570 FRVWDEMISKNIKPTVMICNSMIKGY 595

Arabidopsis thaliana (taxid: 3702)

>sp|Q9CA58|PP120_ARATH Putative pentatricopeptide repeat-containing protein At1g74580 OS=Arabidopsis thaliana GN=At1g74580 PE=3 SV=1

 Score =  134 bits (338), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 121/478 (25%), Positives = 215/478 (44%), Gaps = 45/478 (9%)

Query: 4   SCEGRDSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEI 63
           S +G +    A   V+  +  +    +G E++  M   G    +S  N LL  L ++ ++
Sbjct: 173 SSQGCEMNVVAYCTVVGGFYEENFKAEGYELFGKMLASGVSLCLSTFNKLLRVLCKKGDV 232

Query: 64  RLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFE----VVLGLLDSGIYSSVM-YNLV 118
           +    L   +++ GV PN FT++L  Q LC+ G+ +    +V  L++ G    V+ YN +
Sbjct: 233 KECEKLLDKVIKRGVLPNLFTYNLFIQGLCQRGELDGAVRMVGCLIEQGPKPDVITYNNL 292

Query: 119 IDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKK 178
           I    K   F  A   L +M N   L P   TY++++ G  +    ++++RIVG  V   
Sbjct: 293 IYGLCKNSKFQEAEVYLGKMVN-EGLEPDSYTYNTLIAGYCKGGMVQLAERIVGDAVFNG 351

Query: 179 LLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKE 238
            +P  F   +  +I  L   G+T  A  +F  A  + I+        ++K LS +G + E
Sbjct: 352 FVPDQFTYRS--LIDGLCHEGETNRALALFNEALGKGIKPNVILYNTLIKGLSNQGMILE 409

Query: 239 AIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVA 298
           A Q+ + +SE+G+      +   VN LCK     +  GL++ ++ +GY P     +  + 
Sbjct: 410 AAQLANEMSEKGLIPEVQTFNILVNGLCKMGCVSDADGLVKVMISKGYFPDIFTFNILIH 469

Query: 299 SQCGKGKWKEVEELLSAVLDKGL---------LLDSFCCSS------------------- 330
               + K +   E+L  +LD G+         LL+  C +S                   
Sbjct: 470 GYSTQLKMENALEILDVMLDNGVDPDVYTYNSLLNGLCKTSKFEDVMETYKTMVEKGCAP 529

Query: 331 -------LMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIF 383
                  L+E  C  R++D+A+ L  +++    + D  T+  L+DG  K+G ++ A  +F
Sbjct: 530 NLFTFNILLESLCRYRKLDEALGLLEEMKNKSVNPDAVTFGTLIDGFCKNGDLDGAYTLF 589

Query: 384 DYMKELKVVSSS--SFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQVISGF 439
             M+E   VSSS  ++ I++        +  A K   EM+     PD  TY+ ++ GF
Sbjct: 590 RKMEEAYKVSSSTPTYNIIIHAFTEKLNVTMAEKLFQEMVDRCLGPDGYTYRLMVDGF 647

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LPX2|PPR39_ARATH Pentatricopeptide repeat-containing protein At1g12775, mitochondrial OS=Arabidopsis thaliana GN=At1g12775 PE=2 SV=1

 Score =  134 bits (337), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 103/417 (24%), Positives = 194/417 (46%), Gaps = 9/417 (2%)

Query: 30  DGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVA 89
           + LE+   M   G  P +   N L++ L    ++  A  L   MV  G  PN+ T+  V 
Sbjct: 176 EALELVDRMVEMGHKPTLITLNTLVNGLCLNGKVSDAVVLIDRMVETGFQPNEVTYGPVL 235

Query: 90  QILCRSGKFEVVLGLL----DSGI-YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNL 144
            ++C+SG+  + + LL    +  I   +V Y+++ID   K G    AF+  NEM   +  
Sbjct: 236 NVMCKSGQTALAMELLRKMEERNIKLDAVKYSIIIDGLCKDGSLDNAFNLFNEM-EIKGF 294

Query: 145 TPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAA 204
                TY++++ G     + +   +++  M+++K+ P   +     +I      GK   A
Sbjct: 295 KADIITYNTLIGGFCNAGRWDDGAKLLRDMIKRKISPN--VVTFSVLIDSFVKEGKLREA 352

Query: 205 EMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNV 264
           + + K      I     T   ++    KE R++EAIQ+  L+  +G       +   +N 
Sbjct: 353 DQLLKEMMQRGIAPNTITYNSLIDGFCKENRLEEAIQMVDLMISKGCDPDIMTFNILING 412

Query: 265 LCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLD 324
            CK ++ ++   L R++  RG I   +  +  V   C  GK +  ++L   ++ + +  D
Sbjct: 413 YCKANRIDDGLELFREMSLRGVIANTVTYNTLVQGFCQSGKLEVAKKLFQEMVSRRVRPD 472

Query: 325 SFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFD 384
                 L++  C N +++KA+ +  KIEK K  LD+  Y +++ G+    ++++A  +F 
Sbjct: 473 IVSYKILLDGLCDNGELEKALEIFGKIEKSKMELDIGIYMIIIHGMCNASKVDDAWDLFC 532

Query: 385 YMKELKV-VSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQVISGFM 440
            +    V + + ++ I++S LC    L KA     +M + GH PDE TY  +I   +
Sbjct: 533 SLPLKGVKLDARAYNIMISELCRKDSLSKADILFRKMTEEGHAPDELTYNILIRAHL 589

Arabidopsis thaliana (taxid: 3702)

>sp|Q9CAN0|PPR99_ARATH Pentatricopeptide repeat-containing protein At1g63130, mitochondrial OS=Arabidopsis thaliana GN=At1g63130 PE=2 SV=1

 Score =  130 bits (326), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 99/430 (23%), Positives = 194/430 (45%), Gaps = 9/430 (2%)

Query: 16  SLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVR 75
           S++++C+  +      L V   M   G+ P +   N+LL+     N I  A  L G MV 
Sbjct: 120 SILINCFCRRSQLSLALAVLAKMMKLGYEPDIVTLNSLLNGFCHGNRISDAVSLVGQMVE 179

Query: 76  DGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGIYSS-----VMYNLVIDFYSKKGDFGA 130
            G  P+ FT++ +   L R  +    + L+D  +        V Y +V++   K+GD   
Sbjct: 180 MGYQPDSFTFNTLIHGLFRHNRASEAVALVDRMVVKGCQPDLVTYGIVVNGLCKRGDIDL 239

Query: 131 AFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDY 190
           A   L +M  G+ + PG   Y++I+D    Y+    +  +   M  K + P   +   + 
Sbjct: 240 ALSLLKKMEQGK-IEPGVVIYNTIIDALCNYKNVNDALNLFTEMDNKGIRPN--VVTYNS 296

Query: 191 VIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERG 250
           +I+ L + G+   A  +     + KI     T   ++ A  KEG++ EA ++Y  + +R 
Sbjct: 297 LIRCLCNYGRWSDASRLLSDMIERKINPNVVTFSALIDAFVKEGKLVEAEKLYDEMIKRS 356

Query: 251 ITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVE 310
           I      Y + +N  C   + +E   +   ++ +   P  +  +  +   C   +  E  
Sbjct: 357 IDPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLIKGFCKAKRVDEGM 416

Query: 311 ELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGL 370
           EL   +  +GL+ ++   ++L+  +   R+ D A  +  ++       D+ TY +LLDGL
Sbjct: 417 ELFREMSQRGLVGNTVTYTTLIHGFFQARECDNAQIVFKQMVSDGVLPDIMTYSILLDGL 476

Query: 371 FKDGRMEEAVRIFDYMKELKVVSS-SSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDE 429
             +G++E A+ +F+Y++  K+     ++ I++  +C   ++         +   G KP+ 
Sbjct: 477 CNNGKVETALVVFEYLQRSKMEPDIYTYNIMIEGMCKAGKVEDGWDLFCSLSLKGVKPNV 536

Query: 430 ATYKQVISGF 439
            TY  ++SGF
Sbjct: 537 VTYTTMMSGF 546

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LFF1|PP281_ARATH Pentatricopeptide repeat-containing protein At3g53700, chloroplastic OS=Arabidopsis thaliana GN=MEE40 PE=2 SV=1

 Score =  128 bits (322), Expect = 8e-29,   Method: Compositional matrix adjust.
 Identities = 97/408 (23%), Positives = 182/408 (44%), Gaps = 43/408 (10%)

Query: 38  MRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGK 97
           M V+G  P VS  N L+ AL R +++R A  +   M   G+ P++ T++ V Q     G 
Sbjct: 180 MSVWGIKPDVSTFNVLIKALCRAHQLRPAILMLEDMPSYGLVPDEKTFTTVMQGYIEEGD 239

Query: 98  FEVVLGLLDSGI-----YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYS 152
            +  L + +  +     +S+V  N+++  + K+G    A + + EM N     P   T++
Sbjct: 240 LDGALRIREQMVEFGCSWSNVSVNVIVHGFCKEGRVEDALNFIQEMSNQDGFFPDQYTFN 299

Query: 153 SILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRAC 212
           ++++G  +    + +  I+ +M+++   P  +                            
Sbjct: 300 TLVNGLCKAGHVKHAIEIMDVMLQEGYDPDVY---------------------------- 331

Query: 213 DEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPE 272
                    T   ++  L K G VKEA+++   +  R  +     Y   ++ LCKE+Q E
Sbjct: 332 ---------TYNSVISGLCKLGEVKEAVEVLDQMITRDCSPNTVTYNTLISTLCKENQVE 382

Query: 273 EVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLM 332
           E   L R +  +G +P     +  +   C     +   EL   +  KG   D F  + L+
Sbjct: 383 EATELARVLTSKGILPDVCTFNSLIQGLCLTRNHRVAMELFEEMRSKGCEPDEFTYNMLI 442

Query: 333 EYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV 392
           +  CS  ++D+A+ +  ++E    +  V TY+ L+DG  K  +  EA  IFD M+   V 
Sbjct: 443 DSLCSKGKLDEALNMLKQMELSGCARSVITYNTLIDGFCKANKTREAEEIFDEMEVHGVS 502

Query: 393 SSS-SFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQVISGF 439
            +S ++  ++  LC  + +  A +  D+M+  G KPD+ TY  +++ F
Sbjct: 503 RNSVTYNTLIDGLCKSRRVEDAAQLMDQMIMEGQKPDKYTYNSLLTHF 550

May be involved in female gametophyte development.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ZVX5|PP156_ARATH Pentatricopeptide repeat-containing protein At2g16880 OS=Arabidopsis thaliana GN=At2g16880 PE=2 SV=1

 Score =  125 bits (314), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 109/441 (24%), Positives = 205/441 (46%), Gaps = 28/441 (6%)

Query: 17  LVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNE---IRLASCLYGAM 73
           + L  Y H+G     L++++ M      P +  CN LL  L R      I  A  ++  M
Sbjct: 136 IALSAYLHEGKPHVALQIFQKMIRLKLKPNLLTCNTLLIGLVRYPSSFSISSAREVFDDM 195

Query: 74  VRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGIYS------SVMYNLVIDFYSKKGD 127
           V+ GVS N  T++++    C  GK E  LG+L+  +        +V YN ++   SKKG 
Sbjct: 196 VKIGVSLNVQTFNVLVNGYCLEGKLEDALGMLERMVSEFKVNPDNVTYNTILKAMSKKGR 255

Query: 128 FGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSG 187
                + L +M     L P   TY++++ G  +    + + +IV LM +  +LP   L  
Sbjct: 256 LSDLKELLLDM-KKNGLVPNRVTYNNLVYGYCKLGSLKEAFQIVELMKQTNVLPD--LCT 312

Query: 188 NDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTC-------GCMLKALSKEGRVKEAI 240
            + +I  L + G       +      + ++LQ D         GC    LS E R     
Sbjct: 313 YNILINGLCNAGSMREGLELMDAM--KSLKLQPDVVTYNTLIDGCFELGLSLEAR----- 365

Query: 241 QIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVE-RGYIPCAMELSRFVAS 299
           ++   +   G+      +   +  LCKE + E V   ++++V+  G+ P  +     + +
Sbjct: 366 KLMEQMENDGVKANQVTHNISLKWLCKEEKREAVTRKVKELVDMHGFSPDIVTYHTLIKA 425

Query: 300 QCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLD 359
               G      E++  +  KG+ +++   +++++  C  R++D+A  L     K    +D
Sbjct: 426 YLKVGDLSGALEMMREMGQKGIKMNTITLNTILDALCKERKLDEAHNLLNSAHKRGFIVD 485

Query: 360 VATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSS-SSFVIVVSRLCHLKELRKAMKNHD 418
             TY  L+ G F++ ++E+A+ ++D MK++K+  + S+F  ++  LCH  +   AM+  D
Sbjct: 486 EVTYGTLIMGFFREEKVEKALEMWDEMKKVKITPTVSTFNSLIGGLCHHGKTELAMEKFD 545

Query: 419 EMLKMGHKPDEATYKQVISGF 439
           E+ + G  PD++T+  +I G+
Sbjct: 546 ELAESGLLPDDSTFNSIILGY 566

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ZQF1|PP152_ARATH Pentatricopeptide repeat-containing protein At2g15630, mitochondrial OS=Arabidopsis thaliana GN=At2g15630 PE=3 SV=1

 Score =  124 bits (312), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 103/429 (24%), Positives = 189/429 (44%), Gaps = 12/429 (2%)

Query: 17  LVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRD 76
           L++ C     +  + +E + +M+  GF P    CN +L  L R N I  A   Y  M R 
Sbjct: 160 LLVRCCCQLRMVDEAIECFYLMKEKGFYPKTETCNHILTLLSRLNRIENAWVFYADMYRM 219

Query: 77  GVSPNKFTWSLVAQILCRSGKFEVVLGLLDS----GIYSS-VMYNLVIDFYSKKGDFGAA 131
            +  N +T++++  +LC+ GK +   G L      GI  + V YN ++  +S +G    A
Sbjct: 220 EIKSNVYTFNIMINVLCKEGKLKKAKGFLGIMEVFGIKPTIVTYNTLVQGFSLRGRIEGA 279

Query: 132 FDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYV 191
              ++EM   +   P   TY+ IL       +   +  ++  M E  L+P       + +
Sbjct: 280 RLIISEM-KSKGFQPDMQTYNPILSWMCNEGR---ASEVLREMKEIGLVPDSV--SYNIL 333

Query: 192 IQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGI 251
           I+  S+ G    A         + +     T   ++  L  E +++ A  +   I E+GI
Sbjct: 334 IRGCSNNGDLEMAFAYRDEMVKQGMVPTFYTYNTLIHGLFMENKIEAAEILIREIREKGI 393

Query: 252 TVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEE 311
            +    Y   +N  C+    ++   L  +++  G  P     +  +   C K K +E +E
Sbjct: 394 VLDSVTYNILINGYCQHGDAKKAFALHDEMMTDGIQPTQFTYTSLIYVLCRKNKTREADE 453

Query: 312 LLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLF 371
           L   V+ KG+  D    ++LM+ +C+   +D+A +L  +++ +  + D  TY+ L+ GL 
Sbjct: 454 LFEKVVGKGMKPDLVMMNTLMDGHCAIGNMDRAFSLLKEMDMMSINPDDVTYNCLMRGLC 513

Query: 372 KDGRMEEAVRIFDYMKELKVVSSS-SFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEA 430
            +G+ EEA  +   MK   +     S+  ++S      + + A    DEML +G  P   
Sbjct: 514 GEGKFEEARELMGEMKRRGIKPDHISYNTLISGYSKKGDTKHAFMVRDEMLSLGFNPTLL 573

Query: 431 TYKQVISGF 439
           TY  ++ G 
Sbjct: 574 TYNALLKGL 582

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SH60|PP103_ARATH Pentatricopeptide repeat-containing protein At1g64100 OS=Arabidopsis thaliana GN=At1g64100 PE=2 SV=2

 Score =  122 bits (306), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 101/440 (22%), Positives = 202/440 (45%), Gaps = 23/440 (5%)

Query: 9   DSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASC 68
           D  S+AL+L    Y  +  F++ + ++  M   G  P V   N L++ L  +  +  A+ 
Sbjct: 190 DRISEALALF--GYMVETGFLEAVALFDQMVEIGLTPVVITFNTLINGLCLEGRVLEAAA 247

Query: 69  LYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLL----DSGIYSSV-MYNLVIDFYS 123
           L   MV  G+  +  T+  +   +C+ G  +  L LL    ++ I   V +Y+ +ID   
Sbjct: 248 LVNKMVGKGLHIDVVTYGTIVNGMCKMGDTKSALNLLSKMEETHIKPDVVIYSAIIDRLC 307

Query: 124 KKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKH 183
           K G    A    +EM   + + P   TY+ ++DG   + +   + R++  M+E+++ P  
Sbjct: 308 KDGHHSDAQYLFSEMLE-KGIAPNVFTYNCMIDGFCSFGRWSDAQRLLRDMIEREINPD- 365

Query: 184 FLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIE--LQDDTC--GCMLKALSKEGRVKEA 239
            L+ N  +   + + GK + AE    + CDE +   +  DT     M+    K  R  +A
Sbjct: 366 VLTFNALISASVKE-GKLFEAE----KLCDEMLHRCIFPDTVTYNSMIYGFCKHNRFDDA 420

Query: 240 IQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVAS 299
             ++ L++   +      +   ++V C+  + +E   LLR++  RG +      +  +  
Sbjct: 421 KHMFDLMASPDVVT----FNTIIDVYCRAKRVDEGMQLLREISRRGLVANTTTYNTLIHG 476

Query: 300 QCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLD 359
            C        ++L   ++  G+  D+  C+ L+  +C N ++++A+ L   I+  K  LD
Sbjct: 477 FCEVDNLNAAQDLFQEMISHGVCPDTITCNILLYGFCENEKLEEALELFEVIQMSKIDLD 536

Query: 360 VATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSS-SSFVIVVSRLCHLKELRKAMKNHD 418
              Y++++ G+ K  +++EA  +F  +    V     ++ +++S  C    +  A     
Sbjct: 537 TVAYNIIIHGMCKGSKVDEAWDLFCSLPIHGVEPDVQTYNVMISGFCGKSAISDANVLFH 596

Query: 419 EMLKMGHKPDEATYKQVISG 438
           +M   GH+PD +TY  +I G
Sbjct: 597 KMKDNGHEPDNSTYNTLIRG 616

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FIX3|PP407_ARATH Pentatricopeptide repeat-containing protein At5g39710 OS=Arabidopsis thaliana GN=EMB2745 PE=2 SV=1

 Score =  122 bits (305), Expect = 7e-27,   Method: Compositional matrix adjust.
 Identities = 100/432 (23%), Positives = 185/432 (42%), Gaps = 35/432 (8%)

Query: 10  SQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYR-QNEIRLASC 68
           S S    LV+  YS   L    L +  + + +GF+P V + NA+LDA  R +  I  A  
Sbjct: 132 STSSVFDLVVKSYSRLSLIDKALSIVHLAQAHGFMPGVLSYNAVLDATIRSKRNISFAEN 191

Query: 69  LYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGIYSSVMYNLVIDFYSKKGDF 128
           ++  M+   VSPN FT++++ +  C +G  +V L L                        
Sbjct: 192 VFKEMLESQVSPNVFTYNILIRGFCFAGNIDVALTL------------------------ 227

Query: 129 GAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGN 188
              FD++      +   P   TY++++DG  +  K +   +++  M  K L P   L   
Sbjct: 228 ---FDKMET----KGCLPNVVTYNTLIDGYCKLRKIDDGFKLLRSMALKGLEPN--LISY 278

Query: 189 DYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISE 248
           + VI  L   G+      +          L + T   ++K   KEG   +A+ ++  +  
Sbjct: 279 NVVINGLCREGRMKEVSFVLTEMNRRGYSLDEVTYNTLIKGYCKEGNFHQALVMHAEMLR 338

Query: 249 RGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKE 308
            G+T     Y + ++ +CK          L  +  RG  P     +  V     KG   E
Sbjct: 339 HGLTPSVITYTSLIHSMCKAGNMNRAMEFLDQMRVRGLCPNERTYTTLVDGFSQKGYMNE 398

Query: 309 VEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLD 368
              +L  + D G        ++L+  +C   +++ AIA+   +++   S DV +Y  +L 
Sbjct: 399 AYRVLREMNDNGFSPSVVTYNALINGHCVTGKMEDAIAVLEDMKEKGLSPDVVSYSTVLS 458

Query: 369 GLFKDGRMEEAVRIFDYMKELKVVSSS-SFVIVVSRLCHLKELRKAMKNHDEMLKMGHKP 427
           G  +   ++EA+R+   M E  +   + ++  ++   C  +  ++A   ++EML++G  P
Sbjct: 459 GFCRSYDVDEALRVKREMVEKGIKPDTITYSSLIQGFCEQRRTKEACDLYEEMLRVGLPP 518

Query: 428 DEATYKQVISGF 439
           DE TY  +I+ +
Sbjct: 519 DEFTYTALINAY 530

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	440
224078699	564	predicted protein [Populus trichocarpa]	0.995	0.776	0.601	1e-148
225444375	569	PREDICTED: pentatricopeptide repeat-cont	0.988	0.764	0.563	1e-141
255554979	599	pentatricopeptide repeat-containing prot	0.995	0.731	0.553	1e-135
223635631	585	RecName: Full=Pentatricopeptide repeat-c	0.947	0.712	0.449	2e-98
334186766	551	pentatricopeptide repeat-containing prot	0.870	0.695	0.401	4e-77
297799954	534	predicted protein [Arabidopsis lyrata su	0.868	0.715	0.394	2e-75
2911074	534	putative protein [Arabidopsis thaliana]	0.831	0.685	0.382	1e-67
449495714	749	PREDICTED: LOW QUALITY PROTEIN: pentatri	0.970	0.570	0.244	5e-40
449438681	749	PREDICTED: pentatricopeptide repeat-cont	0.965	0.567	0.248	7e-40
15240891	729	pentatricopeptide repeat-containing prot	0.968	0.584	0.253	5e-34

>gi|224078699|ref|XP_002305605.1| predicted protein [Populus trichocarpa] gi|222848569|gb|EEE86116.1| predicted protein [Populus trichocarpa]

 Score =  530 bits (1364), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 264/439 (60%), Positives = 336/439 (76%), Gaps = 1/439 (0%)

Query: 1   MIQSCEGRDSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQ 60
           M+ SC G+  +SDA S VL+CYSHKGLFM+ LE++R MR  GF+ + +ACN++LD L R+
Sbjct: 125 MVDSCRGKSLKSDAFSFVLECYSHKGLFMESLEMFRKMRGNGFIASGTACNSVLDVLQRE 184

Query: 61  NEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGIYSSVMYNLVID 120
           NEI+LA C Y AM++DGV P+K TWSL+AQILC+ G FE ++  LD G+Y+SV+YN VID
Sbjct: 185 NEIKLAWCFYCAMIKDGVLPDKLTWSLIAQILCKDGNFERIVKFLDMGVYNSVLYNGVID 244

Query: 121 FYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLL 180
             SK+GDF AAF+RLN+MC  R L PGFSTYS+ILDGA ++   EV +R++ +M EK LL
Sbjct: 245 CCSKRGDFEAAFERLNQMCE-RKLDPGFSTYSAILDGACKHGNEEVIERVMDIMAEKGLL 303

Query: 181 PKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAI 240
           PK  LS  D VIQK SD+ K   A M F+RACDEKI LQD T GCMLKALSKE RVKEAI
Sbjct: 304 PKCPLSQCDSVIQKFSDLCKMNVATMFFRRACDEKIGLQDATYGCMLKALSKEARVKEAI 363

Query: 241 QIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQ 300
            +Y LISE+GI V+DS Y+AF+++L +E Q EE   +L D++ RG+ P  + LS+F+   
Sbjct: 364 GLYSLISEKGIRVKDSTYHAFLDLLSEEDQYEEGYEILGDMMRRGFRPGTVGLSKFILLL 423

Query: 301 CGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDV 360
             K +W+EVE+LL  VL+KGLL DS CC SL+E+YCS RQIDKA+ALH K+EKL+ SLDV
Sbjct: 424 SRKRRWREVEDLLDLVLEKGLLPDSLCCCSLVEHYCSRRQIDKAVALHNKMEKLQASLDV 483

Query: 361 ATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEM 420
           ATY++LLDGL K+GR+EE VR+FDYMK LK+V+S SF I +  LC  KE+RKAMK HDEM
Sbjct: 484 ATYNILLDGLVKNGRIEEVVRVFDYMKGLKLVNSESFTITIRGLCRAKEMRKAMKLHDEM 543

Query: 421 LKMGHKPDEATYKQVISGF 439
           L MG KPD+A YK++I  F
Sbjct: 544 LDMGLKPDKAAYKRLILEF 562

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225444375|ref|XP_002264956.1| PREDICTED: pentatricopeptide repeat-containing protein At4g21170-like [Vitis vinifera]

 Score =  508 bits (1307), Expect = e-141,   Method: Compositional matrix adjust.
 Identities = 248/440 (56%), Positives = 340/440 (77%), Gaps = 5/440 (1%)

Query: 1   MIQSCEGRDSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQ 60
           +IQ+C G+DS+S  L  VL+CYS KGLF++ LEV+R + ++G+VP+V +CNALLD+L R+
Sbjct: 133 VIQACRGKDSESPVLGFVLECYSSKGLFIEALEVFRRITIHGYVPSVRSCNALLDSLQRE 192

Query: 61  NEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGIY-SSVMYNLVI 119
           NEI+LA C+ GA++R+GV P+   +  +A ILC++GK E V+ LLD  I  ++++Y LVI
Sbjct: 193 NEIKLAWCVCGALIRNGVLPD---YVRIALILCKNGKLERVVRLLDMSIVCNALIYKLVI 249

Query: 120 DFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKL 179
           D Y ++G+F AAF  LNEMCN R   PGF  Y+SILDGA +YE  EV   ++G MVEK L
Sbjct: 250 DCYCERGNFSAAFHYLNEMCN-RKFDPGFCAYNSILDGACKYENDEVIQIVMGSMVEKGL 308

Query: 180 LPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEA 239
           LPK  LS  D +IQK+ ++GKT+AA+M FKRA +EKIEL + T GCML+AL+K+GRVKEA
Sbjct: 309 LPKLLLSEYDSIIQKICNLGKTHAAQMFFKRARNEKIELDNATYGCMLRALAKDGRVKEA 368

Query: 240 IQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVAS 299
           I +Y +I E G+TV+D  Y+AFVNVLC+E   +EV  L+ +++ +G+ PC  +LS+F+ S
Sbjct: 369 IGVYLVILESGVTVKDGCYHAFVNVLCEEDPSQEVSKLMGEIIGKGFSPCGSKLSKFITS 428

Query: 300 QCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLD 359
            C  G+W E ++LL+  ++KGLL DSFCCS+L+E+YC +RQID +IALH KI+K+KGSLD
Sbjct: 429 LCKNGRWTEADDLLNVTIEKGLLPDSFCCSALVEHYCRSRQIDSSIALHEKIKKVKGSLD 488

Query: 360 VATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDE 419
           VATY+VLL+GLF + R+E+AV +FD M+   ++SS+SF I+VS LC  +ELRKAMK HDE
Sbjct: 489 VATYNVLLNGLFMEKRIEDAVSVFDCMRSQNLLSSTSFTIMVSGLCRERELRKAMKFHDE 548

Query: 420 MLKMGHKPDEATYKQVISGF 439
           MLKMG KPD ATYK++ISGF
Sbjct: 549 MLKMGLKPDRATYKRLISGF 568

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255554979|ref|XP_002518527.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223542372|gb|EEF43914.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  487 bits (1253), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 243/439 (55%), Positives = 324/439 (73%), Gaps = 1/439 (0%)

Query: 1   MIQSCEGRDSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQ 60
           M+Q+C G+ S    L+ VL+ YSHKG F++GLEVY+ MRV G  P+V ACN LLDAL R+
Sbjct: 154 MVQACRGKSSLLCTLNFVLEFYSHKGSFLEGLEVYKKMRVIGCTPSVHACNVLLDALQRE 213

Query: 61  NEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGIYSSVMYNLVID 120
           +EIRLA C Y AM+R GV P+KFTWSLVA ILC+ G FE ++ LLD GI +SVMYN V+D
Sbjct: 214 SEIRLAWCFYCAMIRVGVLPDKFTWSLVAHILCKDGNFERIVKLLDMGICNSVMYNAVVD 273

Query: 121 FYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLL 180
           +YSK GDF AAF RLNEM + R + PGFSTYSSILDGA +    +V +R+V +MV K+LL
Sbjct: 274 YYSKNGDFKAAFCRLNEMYD-RKVEPGFSTYSSILDGACKCRNLQVIERVVAIMVGKQLL 332

Query: 181 PKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAI 240
            K   S  D +IQKL D+GK  AA + FKRACDE+I LQD T G ML+A S EG ++EAI
Sbjct: 333 SKCPSSDYDSIIQKLCDLGKVSAATLFFKRACDERIGLQDATYGRMLRAFSIEGILEEAI 392

Query: 241 QIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQ 300
            +Y +I ERG+T++D+   AFV++L ++ Q  E   ++RD++ RG+ PC   LS+++   
Sbjct: 393 GLYQVILERGLTIKDNASDAFVDLLSEKDQYAEGYEIVRDIMRRGFSPCTSSLSKYITLL 452

Query: 301 CGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDV 360
           C K +WKE EELL  VL+KGLL D+    SL+++YCS++Q DKA+ALH  +EKL+ SLD+
Sbjct: 453 CKKRRWKEAEELLYMVLEKGLLPDTLSFCSLVKHYCSSKQTDKALALHNTLEKLQASLDI 512

Query: 361 ATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEM 420
             Y++LL GL K+GR+EE++++FDYMK LK+ +S+SF +++  LC  KELRKAMK HDEM
Sbjct: 513 TAYNLLLGGLVKEGRVEESIKVFDYMKGLKLANSASFTVIIRGLCRAKELRKAMKLHDEM 572

Query: 421 LKMGHKPDEATYKQVISGF 439
           L MG KPD+ TYK++I  F
Sbjct: 573 LNMGLKPDKPTYKRLILEF 591

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|223635631|sp|O49558.2|PP331_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At4g21170

 Score =  366 bits (939), Expect = 2e-98,   Method: Compositional matrix adjust.
 Identities = 190/423 (44%), Positives = 284/423 (67%), Gaps = 6/423 (1%)

Query: 22  YSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPN 81
           Y+ KG   +GLEV+  MR     P+ SA N+LL +L ++N+ R+A CLY AMVR+G+  +
Sbjct: 163 YALKGSHHNGLEVFGFMRRLRLSPSQSAYNSLLGSLVKENQFRVALCLYSAMVRNGIVSD 222

Query: 82  KFTWSLVAQILCRSGKFEVVLGLLDSGIYSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNG 141
           + TW L+AQILC  G+ + V  L+++G+ S  +Y  +++ YS+ G+F A F  ++EM + 
Sbjct: 223 ELTWDLIAQILCEQGRSKSVFKLMETGVESCKIYTNLVECYSRNGEFDAVFSLIHEM-DD 281

Query: 142 RNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKT 201
           + L   F +Y  +LD A R    E  D+++ LMVEKK +     + ND +I++L DMGKT
Sbjct: 282 KKLELSFCSYGCVLDDACRLGDAEFIDKVLCLMVEKKFVTLGDSAVNDKIIERLCDMGKT 341

Query: 202 YAAEMIFKRACD-EKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRD-SDYY 259
           +A+EM+F++AC+ E + L D T GCMLKALS++ R KEA+ +Y +I  +GITV D S Y 
Sbjct: 342 FASEMLFRKACNGETVRLWDSTYGCMLKALSRKKRTKEAVDVYRMICRKGITVLDESCYI 401

Query: 260 AFVNVLCKEHQPEEVCGLLR-DVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLD 318
            F N LC++    E    L  DV++RG++PC  +LS  +AS C K +WK  E+LL +V++
Sbjct: 402 EFANALCRDDNSSEEEEELLVDVIKRGFVPCTHKLSEVLASMCRKRRWKSAEKLLDSVME 461

Query: 319 KGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGR--M 376
             +  DSF C  LME YC + +++KA+ LH KI+K+KGSLDV  Y+ +LD L    +  +
Sbjct: 462 MEVYFDSFACGLLMERYCRSGKLEKALVLHEKIKKMKGSLDVNAYNAVLDRLMMRQKEMV 521

Query: 377 EEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQVI 436
           EEAV +F+YMKE+  V+S SF I++  LC +KE++KAM++HDEML++G KPD  TYK++I
Sbjct: 522 EEAVVVFEYMKEINSVNSKSFTIMIQGLCRVKEMKKAMRSHDEMLRLGLKPDLVTYKRLI 581

Query: 437 SGF 439
            GF
Sbjct: 582 LGF 584

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|334186766|ref|NP_193849.2| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|332659015|gb|AEE84415.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  295 bits (754), Expect = 4e-77,   Method: Compositional matrix adjust.
 Identities = 170/423 (40%), Positives = 257/423 (60%), Gaps = 40/423 (9%)

Query: 22  YSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPN 81
           Y+ KG   +GLEV+  MR     P+ SA N+LL +L ++N+ R+A CLY AMVR+G+  +
Sbjct: 163 YALKGSHHNGLEVFGFMRRLRLSPSQSAYNSLLGSLVKENQFRVALCLYSAMVRNGIVSD 222

Query: 82  KFTWSLVAQILCRSGKFEVVLGLLDSGIYSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNG 141
           + TW L+AQILC  G+ + V  L+++G+ S  +Y  +++ YS+ G+F A F  ++EM + 
Sbjct: 223 ELTWDLIAQILCEQGRSKSVFKLMETGVESCKIYTNLVECYSRNGEFDAVFSLIHEM-DD 281

Query: 142 RNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKT 201
           + L   F +Y  +LD A R    E  D+++ LMVEKK +     + ND +I++L DMGKT
Sbjct: 282 KKLELSFCSYGCVLDDACRLGDAEFIDKVLCLMVEKKFVTLGDSAVNDKIIERLCDMGKT 341

Query: 202 YAAEMIFKRACD-EKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRD-SDYY 259
           +A+EM+F++AC+ E + L D T GCMLKALS++ R KEA+ +Y +I  +GITV D S Y 
Sbjct: 342 FASEMLFRKACNGETVRLWDSTYGCMLKALSRKKRTKEAVDVYRMICRKGITVLDESCYI 401

Query: 260 AFVNVLCKEHQPEEVCGLLR-DVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLD 318
            F N LC++    E    L  DV++RG      + S  +       KW+           
Sbjct: 402 EFANALCRDDNSSEEEEELLVDVIKRGKEDGNPQRSFLIRL----WKWR----------- 446

Query: 319 KGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGR--M 376
                              + +++KA+ LH KI+K+KGSLDV  Y+ +LD L    +  +
Sbjct: 447 -------------------SGKLEKALVLHEKIKKMKGSLDVNAYNAVLDRLMMRQKEMV 487

Query: 377 EEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQVI 436
           EEAV +F+YMKE+  V+S SF I++  LC +KE++KAM++HDEML++G KPD  TYK++I
Sbjct: 488 EEAVVVFEYMKEINSVNSKSFTIMIQGLCRVKEMKKAMRSHDEMLRLGLKPDLVTYKRLI 547

Query: 437 SGF 439
            GF
Sbjct: 548 LGF 550

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297799954|ref|XP_002867861.1| predicted protein [Arabidopsis lyrata subsp. lyrata] gi|297313697|gb|EFH44120.1| predicted protein [Arabidopsis lyrata subsp. lyrata]

 Score =  289 bits (740), Expect = 2e-75,   Method: Compositional matrix adjust.
 Identities = 173/439 (39%), Positives = 264/439 (60%), Gaps = 57/439 (12%)

Query: 6   EGRDSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRL 65
           EG  S S +LSLV++CY+ KG + +GLEV+  MR     P+ SA N+LL +L ++N+ R+
Sbjct: 147 EGDVSLSISLSLVIECYALKGCYQNGLEVFGFMRRLRLSPSQSAYNSLLGSLVKENQFRV 206

Query: 66  ASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGIYSSVMYNLVIDFYSKK 125
           A CLY AM                 ILC  G+ + V+ L+++G+ S  +Y  +++ YS+ 
Sbjct: 207 ALCLYSAM-----------------ILCEHGRSKSVVKLMETGVESCKIYTNLVECYSRN 249

Query: 126 GDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFL 185
           G+F A F  ++EM +G+ L   FS+Y  +LD A R    E+ D+++G MVEKK L     
Sbjct: 250 GEFDATFSLIHEM-DGKKLELSFSSYGCVLDNACRLGDAELIDKVLGSMVEKKFLTLGDS 308

Query: 186 SGNDYVIQKLSDMGKTYAAEMIFKRACD-EKIELQDDTCGCMLKALSKEGRVKEAIQIYH 244
           + ND +I++L DMGKT+A+EM+F++AC+ E + L++ T GCMLKALS++ R KEA+ +Y 
Sbjct: 309 ALNDQMIERLCDMGKTFASEMLFRKACNGETVRLRESTYGCMLKALSRKERTKEAVDVYR 368

Query: 245 LISERGITVRD-SDYYAFVNVLCKE-HQPEEVCGLLRDVVERGYIPCAMELSRFVASQCG 302
           +I  +GI V D S Y  F N LC++ +  EE   LL DV++RG      + S  +     
Sbjct: 369 MICRKGINVLDESCYNEFANALCRDDNSSEEGEELLVDVIKRGKEDGNPQRSFLIRLW-- 426

Query: 303 KGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVAT 362
             KW+                              + +++KA+ LH KI+K+KGSLDV  
Sbjct: 427 --KWR------------------------------SGKLEKALELHEKIKKMKGSLDVNA 454

Query: 363 YDVLLDGLFKDGR--MEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEM 420
           Y+ +LD L    +  +EEAV +F+YMKE+K V+S SF I++  LC +KE++KAM++HDEM
Sbjct: 455 YNAVLDRLMMRQKEMVEEAVGVFEYMKEMKSVNSKSFTIMIQGLCRVKEMKKAMRSHDEM 514

Query: 421 LKMGHKPDEATYKQVISGF 439
           L++  KPD  +YK++I GF
Sbjct: 515 LRLDMKPDLVSYKRLILGF 533

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|2911074|emb|CAA17536.1| putative protein [Arabidopsis thaliana] gi|7268914|emb|CAB79117.1| putative protein [Arabidopsis thaliana]

 Score =  263 bits (672), Expect = 1e-67,   Method: Compositional matrix adjust.
 Identities = 162/423 (38%), Positives = 244/423 (57%), Gaps = 57/423 (13%)

Query: 22  YSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPN 81
           Y+ KG   +GLEV+  MR     P+ SA N+LL +L ++N+ R+A CLY AM        
Sbjct: 163 YALKGSHHNGLEVFGFMRRLRLSPSQSAYNSLLGSLVKENQFRVALCLYSAM-------- 214

Query: 82  KFTWSLVAQILCRSGKFEVVLGLLDSGIYSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNG 141
                    ILC  G+ + V  L+++G+ S  +Y  +++ YS+ G+F A F  ++EM + 
Sbjct: 215 ---------ILCEQGRSKSVFKLMETGVESCKIYTNLVECYSRNGEFDAVFSLIHEM-DD 264

Query: 142 RNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKT 201
           + L   F +Y  +LD A R    E  D+++ LMVEKK +     + ND +I++L DMGKT
Sbjct: 265 KKLELSFCSYGCVLDDACRLGDAEFIDKVLCLMVEKKFVTLGDSAVNDKIIERLCDMGKT 324

Query: 202 YAAEMIFKRACD-EKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRD-SDYY 259
           +A+EM+F++AC+ E + L D T GCMLKALS++ R KEA+ +Y +I  +GITV D S Y 
Sbjct: 325 FASEMLFRKACNGETVRLWDSTYGCMLKALSRKKRTKEAVDVYRMICRKGITVLDESCYI 384

Query: 260 AFVNVLCKEHQPEEVCGLLR-DVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLD 318
            F N LC++    E    L  DV++RG      + S  +       KW+           
Sbjct: 385 EFANALCRDDNSSEEEEELLVDVIKRGKEDGNPQRSFLIRL----WKWR----------- 429

Query: 319 KGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGR--M 376
                              + +++KA+ LH KI+K+KGSLDV  Y+ +LD L    +  +
Sbjct: 430 -------------------SGKLEKALVLHEKIKKMKGSLDVNAYNAVLDRLMMRQKEMV 470

Query: 377 EEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQVI 436
           EEAV +F+YMKE+  V+S SF I++  LC +KE++KAM++HDEML++G KPD  TYK++I
Sbjct: 471 EEAVVVFEYMKEINSVNSKSFTIMIQGLCRVKEMKKAMRSHDEMLRLGLKPDLVTYKRLI 530

Query: 437 SGF 439
            GF
Sbjct: 531 LGF 533

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449495714|ref|XP_004159923.1| PREDICTED: LOW QUALITY PROTEIN: pentatricopeptide repeat-containing protein At5g39710-like [Cucumis sativus]

 Score =  171 bits (434), Expect = 5e-40,   Method: Compositional matrix adjust.
 Identities = 107/437 (24%), Positives = 216/437 (49%), Gaps = 10/437 (2%)

Query: 10  SQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNE-IRLASC 68
           S S    LV+   +   L    L +  + + YGF+P V + NA+LDA+ R  + +++A  
Sbjct: 130 SSSAVFDLVVKSCARVNLINKALSIVNLAKSYGFMPGVLSYNAILDAVIRTKQSVKIAEG 189

Query: 69  LYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLL-----DSGIYSSVMYNLVIDFYS 123
           ++  MV  GVSPN +T++++ +  C +G  E+ L        +  + + V YN +ID Y 
Sbjct: 190 IFKEMVESGVSPNVYTYNILIRGFCTAGNLEMGLXFFGEMERNGCLPNVVTYNTIIDAYC 249

Query: 124 KKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKH 183
           K    G AF  L  M   + L P   +Y+ +++G  R  + + +  I+  M +++ +P  
Sbjct: 250 KLRKIGEAFKLLRLMA-LKGLNPNLISYNVVINGLCREGQMKETSEILEEMSKRRYVPDR 308

Query: 184 FLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIY 243
                + +I    ++G  + A ++        +     T   ++ ++ K G +  A++  
Sbjct: 309 VTF--NTLINGYCNVGNFHQALVLHAEMVKNGLSPNVVTYTTLINSMCKAGNLNRAMEFL 366

Query: 244 HLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGK 303
             + +RG+      Y   ++   ++   ++   +++++VE G+ P  +  +  +   C  
Sbjct: 367 DQMRDRGLHPNGRTYTTLIDGFSQQGFLKQAYQIMKEMVENGFTPTIITYNALINGHCIL 426

Query: 304 GKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATY 363
           G+ ++   LL  ++++G + D    S+++  +C N++++KA  L +++     S DVATY
Sbjct: 427 GRMEDASGLLQEMIERGFIPDVVSYSTIISGFCRNQELEKAFQLKVEMVAKGISPDVATY 486

Query: 364 DVLLDGLFKDGRMEEAVRIFDYMKELKVVSSS-SFVIVVSRLCHLKELRKAMKNHDEMLK 422
             L+ GL K  R+ E   +F  M  L +     ++  +++  C   +L KA++ HDEM++
Sbjct: 487 SSLIQGLCKQRRLGEVCDLFQEMLSLGLPPDEVTYTSLINAYCIEGDLDKALRLHDEMIQ 546

Query: 423 MGHKPDEATYKQVISGF 439
            G  PD  TY  +I+GF
Sbjct: 547 KGFSPDIVTYNVLINGF 563

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449438681|ref|XP_004137116.1| PREDICTED: pentatricopeptide repeat-containing protein At5g39710-like [Cucumis sativus]

 Score =  171 bits (433), Expect = 7e-40,   Method: Compositional matrix adjust.
 Identities = 109/439 (24%), Positives = 217/439 (49%), Gaps = 14/439 (3%)

Query: 10  SQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNE-IRLASC 68
           S S    LV+   +   L    L +  + + YGF+P V + NA+LDA+ R  + +++A  
Sbjct: 130 SSSAVFDLVVKSCARVNLINKALSIVNLAKSYGFMPGVLSYNAILDAVIRTKQSVKIAEG 189

Query: 69  LYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSG-------IYSSVMYNLVIDF 121
           ++  MV  GVSPN +T++++ +  C +G  E  +GL   G       + + V YN +ID 
Sbjct: 190 IFKEMVESGVSPNVYTYNILIRGFCTAGNLE--MGLFFFGEMERNGCLPNVVTYNTIIDA 247

Query: 122 YSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLP 181
           Y K    G AF  L  M   + L P   +Y+ +++G  R  + + +  I+  M +++ +P
Sbjct: 248 YCKLRKIGEAFKLLRLMA-LKGLNPNLISYNVVINGLCREGQMKETSEILEEMSKRRYVP 306

Query: 182 KHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQ 241
                  + +I    ++G  + A ++        +     T   ++ ++ K G +  A++
Sbjct: 307 DRVTF--NTLINGYCNVGNFHQALVLHAEMVKNGLSPNVVTYTTLINSMCKAGNLNRAME 364

Query: 242 IYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQC 301
               + +RG+      Y   ++   ++   ++   +++++VE G+ P  +  +  +   C
Sbjct: 365 FLDQMRDRGLHPNGRTYTTLIDGFSQQGFLKQAYQIMKEMVENGFTPTIITYNALINGHC 424

Query: 302 GKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVA 361
             G+ ++   LL  ++++G + D    S+++  +C N++++KA  L +++     S DVA
Sbjct: 425 ILGRMEDASGLLQEMIERGFIPDVVSYSTIISGFCRNQELEKAFQLKVEMVAKGISPDVA 484

Query: 362 TYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSS-SFVIVVSRLCHLKELRKAMKNHDEM 420
           TY  L+ GL K  R+ E   +F  M  L +     ++  +++  C   +L KA++ HDEM
Sbjct: 485 TYSSLIQGLCKQRRLGEVCDLFQEMLSLGLPPDEVTYTSLINAYCIEGDLDKALRLHDEM 544

Query: 421 LKMGHKPDEATYKQVISGF 439
           ++ G  PD  TY  +I+GF
Sbjct: 545 IQKGFSPDIVTYNVLINGF 563

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15240891|ref|NP_195731.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|75174092|sp|Q9LFC5.1|PP360_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At5g01110 gi|6759434|emb|CAB69839.1| putative protein [Arabidopsis thaliana] gi|28973740|gb|AAO64186.1| unknown protein [Arabidopsis thaliana] gi|110736884|dbj|BAF00399.1| hypothetical protein [Arabidopsis thaliana] gi|332002917|gb|AED90300.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  151 bits (382), Expect = 5e-34,   Method: Compositional matrix adjust.
 Identities = 113/446 (25%), Positives = 213/446 (47%), Gaps = 20/446 (4%)

Query: 4   SCEGRDSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEI 63
           +C   DS  D   L++  Y       +  E + ++R  GF  ++ ACNAL+ +L R   +
Sbjct: 160 NCGSNDSVFD---LLIRTYVQARKLREAHEAFTLLRSKGFTVSIDACNALIGSLVRIGWV 216

Query: 64  RLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLL----DSGIYSS-VMYNLV 118
            LA  +Y  + R GV  N +T +++   LC+ GK E V   L    + G+Y   V YN +
Sbjct: 217 ELAWGVYQEISRSGVGINVYTLNIMVNALCKDGKMEKVGTFLSQVQEKGVYPDIVTYNTL 276

Query: 119 IDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKK 178
           I  YS KG    AF+ +N M  G+  +PG  TY+++++G  ++ K E +  +   M+   
Sbjct: 277 ISAYSSKGLMEEAFELMNAM-PGKGFSPGVYTYNTVINGLCKHGKYERAKEVFAEMLRSG 335

Query: 179 LLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTC-GCMLKALSKEGRVK 237
           L P    +    ++ +    G     E +F       + + D  C   M+   ++ G + 
Sbjct: 336 LSPDS--TTYRSLLMEACKKGDVVETEKVFSDMRSRDV-VPDLVCFSSMMSLFTRSGNLD 392

Query: 238 EAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRF- 296
           +A+  ++ + E G+   +  Y   +   C++        L  +++++G   CAM++  + 
Sbjct: 393 KALMYFNSVKEAGLIPDNVIYTILIQGYCRKGMISVAMNLRNEMLQQG---CAMDVVTYN 449

Query: 297 --VASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKL 354
             +   C +    E ++L + + ++ L  DS+  + L++ +C    +  A+ L  K+++ 
Sbjct: 450 TILHGLCKRKMLGEADKLFNEMTERALFPDSYTLTILIDGHCKLGNLQNAMELFQKMKEK 509

Query: 355 KGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSS-SFVIVVSRLCHLKELRKA 413
           +  LDV TY+ LLDG  K G ++ A  I+  M   +++ +  S+ I+V+ LC    L +A
Sbjct: 510 RIRLDVVTYNTLLDGFGKVGDIDTAKEIWADMVSKEILPTPISYSILVNALCSKGHLAEA 569

Query: 414 MKNHDEMLKMGHKPDEATYKQVISGF 439
            +  DEM+    KP       +I G+
Sbjct: 570 FRVWDEMISKNIKPTVMICNSMIKGY 595

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	440
TAIR|locus:2150024	729	AT5G01110 [Arabidopsis thalian	0.965	0.582	0.248	2.1e-35
TAIR|locus:1009023134	644	AT1G12775 [Arabidopsis thalian	0.915	0.625	0.246	3.9e-31
TAIR|locus:2164910	747	EMB2745 "EMBRYO DEFECTIVE 2745	0.961	0.566	0.246	4.9e-31
TAIR|locus:2039415	743	AT2G16880 "AT2G16880" [Arabido	0.959	0.567	0.248	1.6e-29
TAIR|locus:2015208	630	AT1G63130 [Arabidopsis thalian	0.954	0.666	0.236	2e-29
TAIR|locus:2053552	627	AT2G15630 "AT2G15630" [Arabido	0.954	0.669	0.247	7e-29
TAIR|locus:2019085	763	AT1G74580 "AT1G74580" [Arabido	0.863	0.498	0.253	9e-28
TAIR|locus:2016427	904	AT1G19290 [Arabidopsis thalian	0.95	0.462	0.237	1.3e-27
TAIR|locus:2024537	666	AT1G64100 [Arabidopsis thalian	0.947	0.626	0.225	5.7e-27
TAIR|locus:2024301	606	AT1G09820 "AT1G09820" [Arabido	0.977	0.709	0.231	8.2e-27

TAIR|locus:2150024 AT5G01110 [Arabidopsis thaliana (taxid:3702)]

 Score = 390 (142.3 bits), Expect = 2.1e-35, P = 2.1e-35
 Identities = 111/447 (24%), Positives = 207/447 (46%)

Query:     4 SCEGRDSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEI 63
             +C   DS  D   L++  Y       +  E + ++R  GF  ++ ACNAL+ +L R   +
Sbjct:   160 NCGSNDSVFD---LLIRTYVQARKLREAHEAFTLLRSKGFTVSIDACNALIGSLVRIGWV 216

Query:    64 RLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLL----DSGIYSSVM-YNLV 118
              LA  +Y  + R GV  N +T +++   LC+ GK E V   L    + G+Y  ++ YN +
Sbjct:   217 ELAWGVYQEISRSGVGINVYTLNIMVNALCKDGKMEKVGTFLSQVQEKGVYPDIVTYNTL 276

Query:   119 IDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKK 178
             I  YS KG    AF+ +N M  G+  +PG  TY+++++G  ++ K E +  +   M+   
Sbjct:   277 ISAYSSKGLMEEAFELMNAM-PGKGFSPGVYTYNTVINGLCKHGKYERAKEVFAEMLRSG 335

Query:   179 LLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTC-GCMLKALSKEGRVK 237
             L P      +  ++ +    G     E +F       + + D  C   M+   ++ G + 
Sbjct:   336 LSPDSTTYRS--LLMEACKKGDVVETEKVFSDMRSRDV-VPDLVCFSSMMSLFTRSGNLD 392

Query:   238 EAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRF- 296
             +A+  ++ + E G+   +  Y   +   C++        L  +++++G   CAM++  + 
Sbjct:   393 KALMYFNSVKEAGLIPDNVIYTILIQGYCRKGMISVAMNLRNEMLQQG---CAMDVVTYN 449

Query:   297 --VASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKL 354
               +   C +    E ++L + + ++ L  DS+  + L++ +C    +  A+ L  K+++ 
Sbjct:   450 TILHGLCKRKMLGEADKLFNEMTERALFPDSYTLTILIDGHCKLGNLQNAMELFQKMKEK 509

Query:   355 KGSLDVATYDVLLDGLFKDGRMEEAVRIFDYM--KELKXXXXXXXXXXXXRLCHLKELRK 412
             +  LDV TY+ LLDG  K G ++ A  I+  M  KE+              LC    L +
Sbjct:   510 RIRLDVVTYNTLLDGFGKVGDIDTAKEIWADMVSKEILPTPISYSILVNA-LCSKGHLAE 568

Query:   413 AMKNHDEMLKMGHKPDEATYKQVISGF 439
             A +  DEM+    KP       +I G+
Sbjct:   569 AFRVWDEMISKNIKPTVMICNSMIKGY 595

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:1009023134 AT1G12775 [Arabidopsis thaliana (taxid:3702)]

 Score = 349 (127.9 bits), Expect = 3.9e-31, P = 3.9e-31
 Identities = 102/414 (24%), Positives = 187/414 (45%)

Query:    30 DGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVA 89
             + LE+   M   G  P +   N L++ L    ++  A  L   MV  G  PN+ T+  V 
Sbjct:   176 EALELVDRMVEMGHKPTLITLNTLVNGLCLNGKVSDAVVLIDRMVETGFQPNEVTYGPVL 235

Query:    90 QILCRSGKFEVVLGLL----DSGI-YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNL 144
              ++C+SG+  + + LL    +  I   +V Y+++ID   K G    AF+  NEM   +  
Sbjct:   236 NVMCKSGQTALAMELLRKMEERNIKLDAVKYSIIIDGLCKDGSLDNAFNLFNEM-EIKGF 294

Query:   145 TPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAA 204
                  TY++++ G     + +   +++  M+++K+ P   +     +I      GK   A
Sbjct:   295 KADIITYNTLIGGFCNAGRWDDGAKLLRDMIKRKISPN--VVTFSVLIDSFVKEGKLREA 352

Query:   205 EMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNV 264
             + + K      I     T   ++    KE R++EAIQ+  L+  +G       +   +N 
Sbjct:   353 DQLLKEMMQRGIAPNTITYNSLIDGFCKENRLEEAIQMVDLMISKGCDPDIMTFNILING 412

Query:   265 LCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLD 324
              CK ++ ++   L R++  RG I   +  +  V   C  GK +  ++L   ++ + +  D
Sbjct:   413 YCKANRIDDGLELFREMSLRGVIANTVTYNTLVQGFCQSGKLEVAKKLFQEMVSRRVRPD 472

Query:   325 SFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFD 384
                   L++  C N +++KA+ +  KIEK K  LD+  Y +++ G+    ++++A  +F 
Sbjct:   473 IVSYKILLDGLCDNGELEKALEIFGKIEKSKMELDIGIYMIIIHGMCNASKVDDAWDLFC 532

Query:   385 YM--KELKXXXXXXXXXXXXRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQVI 436
              +  K +K             LC    L KA     +M + GH PDE TY  +I
Sbjct:   533 SLPLKGVKLDARAYNIMIS-ELCRKDSLSKADILFRKMTEEGHAPDELTYNILI 585

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2164910 EMB2745 "EMBRYO DEFECTIVE 2745" [Arabidopsis thaliana (taxid:3702)]

 Score = 350 (128.3 bits), Expect = 4.9e-31, P = 4.9e-31
 Identities = 108/439 (24%), Positives = 199/439 (45%)

Query:    10 SQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYR-QNEIRLASC 68
             S S    LV+  YS   L    L +  + + +GF+P V + NA+LDA  R +  I  A  
Sbjct:   132 STSSVFDLVVKSYSRLSLIDKALSIVHLAQAHGFMPGVLSYNAVLDATIRSKRNISFAEN 191

Query:    69 LYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDS----GIYSSVM-YNLVIDFYS 123
             ++  M+   VSPN FT++++ +  C +G  +V L L D     G   +V+ YN +ID Y 
Sbjct:   192 VFKEMLESQVSPNVFTYNILIRGFCFAGNIDVALTLFDKMETKGCLPNVVTYNTLIDGYC 251

Query:   124 KKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDG-ARRYEKTEVSDRIVGLMVEKKLLPK 182
             K       F  L  M   + L P   +Y+ +++G  R     EVS   V   + ++    
Sbjct:   252 KLRKIDDGFKLLRSMAL-KGLEPNLISYNVVINGLCREGRMKEVS--FVLTEMNRRGYSL 308

Query:   183 HFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQI 242
               ++ N  +I+     G  + A ++        +     T   ++ ++ K G +  A++ 
Sbjct:   309 DEVTYNT-LIKGYCKEGNFHQALVMHAEMLRHGLTPSVITYTSLIHSMCKAGNMNRAMEF 367

Query:   243 YHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCG 302
                +  RG+   +  Y   V+   ++    E   +LR++ + G+ P  +  +  +   C 
Sbjct:   368 LDQMRVRGLCPNERTYTTLVDGFSQKGYMNEAYRVLREMNDNGFSPSVVTYNALINGHCV 427

Query:   303 KGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSL--DV 360
              GK ++   +L  + +KGL  D    S+++  +C +  +D+A  L +K E ++  +  D 
Sbjct:   428 TGKMEDAIAVLEDMKEKGLSPDVVSYSTVLSGFCRSYDVDEA--LRVKREMVEKGIKPDT 485

Query:   361 ATYDVLLDGLFKDGRMEEAVRIFDYMKELKXXXXXXXXXXXXRL-CHLKELRKAMKNHDE 419
              TY  L+ G  +  R +EA  +++ M  +                C   +L KA++ H+E
Sbjct:   486 ITYSSLIQGFCEQRRTKEACDLYEEMLRVGLPPDEFTYTALINAYCMEGDLEKALQLHNE 545

Query:   420 MLKMGHKPDEATYKQVISG 438
             M++ G  PD  TY  +I+G
Sbjct:   546 MVEKGVLPDVVTYSVLING 564

GO:0005739 "mitochondrion" evidence=ISM;IDA

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

TAIR|locus:2039415 AT2G16880 "AT2G16880" [Arabidopsis thaliana (taxid:3702)]

 Score = 336 (123.3 bits), Expect = 1.6e-29, P = 1.6e-29
 Identities = 110/443 (24%), Positives = 207/443 (46%)

Query:    12 SDAL-SLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQ-NEIRLASC- 68
             S AL  + L  Y H+G     L++++ M      P +  CN LL  L R  +   ++S  
Sbjct:   130 SKALFDIALSAYLHEGKPHVALQIFQKMIRLKLKPNLLTCNTLLIGLVRYPSSFSISSAR 189

Query:    69 -LYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGIYS------SVMYNLVIDF 121
              ++  MV+ GVS N  T++++    C  GK E  LG+L+  +        +V YN ++  
Sbjct:   190 EVFDDMVKIGVSLNVQTFNVLVNGYCLEGKLEDALGMLERMVSEFKVNPDNVTYNTILKA 249

Query:   122 YSKKGDFGAAFDRLNEMC-NGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLL 180
              SKKG      + L +M  NG  L P   TY++++ G  +    + + +IV LM +  +L
Sbjct:   250 MSKKGRLSDLKELLLDMKKNG--LVPNRVTYNNLVYGYCKLGSLKEAFQIVELMKQTNVL 307

Query:   181 PKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDD--TCGCMLKALSKEGRVKE 238
             P   L   + +I  L + G     E +      + ++LQ D  T   ++    + G   E
Sbjct:   308 PD--LCTYNILINGLCNAGSM--REGLELMDAMKSLKLQPDVVTYNTLIDGCFELGLSLE 363

Query:   239 AIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVE-RGYIPCAMELSRFV 297
             A ++   +   G+      +   +  LCKE + E V   ++++V+  G+ P  +     +
Sbjct:   364 ARKLMEQMENDGVKANQVTHNISLKWLCKEEKREAVTRKVKELVDMHGFSPDIVTYHTLI 423

Query:   298 ASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGS 357
              +    G      E++  +  KG+ +++   +++++  C  R++D+A  L     K    
Sbjct:   424 KAYLKVGDLSGALEMMREMGQKGIKMNTITLNTILDALCKERKLDEAHNLLNSAHKRGFI 483

Query:   358 LDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKXX-XXXXXXXXXXRLCHLKELRKAMKN 416
             +D  TY  L+ G F++ ++E+A+ ++D MK++K              LCH  +   AM+ 
Sbjct:   484 VDEVTYGTLIMGFFREEKVEKALEMWDEMKKVKITPTVSTFNSLIGGLCHHGKTELAMEK 543

Query:   417 HDEMLKMGHKPDEATYKQVISGF 439
              DE+ + G  PD++T+  +I G+
Sbjct:   544 FDELAESGLLPDDSTFNSIILGY 566

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2015208 AT1G63130 [Arabidopsis thaliana (taxid:3702)]

 Score = 333 (122.3 bits), Expect = 2.0e-29, P = 2.0e-29
 Identities = 102/431 (23%), Positives = 191/431 (44%)

Query:    16 SLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVR 75
             S++++C+  +      L V   M   G+ P +   N+LL+     N I  A  L G MV 
Sbjct:   120 SILINCFCRRSQLSLALAVLAKMMKLGYEPDIVTLNSLLNGFCHGNRISDAVSLVGQMVE 179

Query:    76 DGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGIYSS-----VMYNLVIDFYSKKGDFGA 130
              G  P+ FT++ +   L R  +    + L+D  +        V Y +V++   K+GD   
Sbjct:   180 MGYQPDSFTFNTLIHGLFRHNRASEAVALVDRMVVKGCQPDLVTYGIVVNGLCKRGDIDL 239

Query:   131 AFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDY 190
             A   L +M  G+ + PG   Y++I+D    Y+    +  +   M  K + P + ++ N  
Sbjct:   240 ALSLLKKMEQGK-IEPGVVIYNTIIDALCNYKNVNDALNLFTEMDNKGIRP-NVVTYNS- 296

Query:   191 VIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERG 250
             +I+ L + G+   A  +     + KI     T   ++ A  KEG++ EA ++Y  + +R 
Sbjct:   297 LIRCLCNYGRWSDASRLLSDMIERKINPNVVTFSALIDAFVKEGKLVEAEKLYDEMIKRS 356

Query:   251 ITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVE 310
             I      Y + +N  C   + +E   +   ++ +   P  +  +  +   C   +  E  
Sbjct:   357 IDPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLIKGFCKAKRVDEGM 416

Query:   311 ELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSL-DVATYDVLLDG 369
             EL   +  +GL+ ++   ++L+  +   R+ D A  +  K     G L D+ TY +LLDG
Sbjct:   417 ELFREMSQRGLVGNTVTYTTLIHGFFQARECDNA-QIVFKQMVSDGVLPDIMTYSILLDG 475

Query:   370 LFKDGRMEEAVRIFDYMKELKXXXXXXXXXXXXR-LCHLKELRKAMKNHDEMLKMGHKPD 428
             L  +G++E A+ +F+Y++  K              +C   ++         +   G KP+
Sbjct:   476 LCNNGKVETALVVFEYLQRSKMEPDIYTYNIMIEGMCKAGKVEDGWDLFCSLSLKGVKPN 535

Query:   429 EATYKQVISGF 439
               TY  ++SGF
Sbjct:   536 VVTYTTMMSGF 546

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2053552 AT2G15630 "AT2G15630" [Arabidopsis thaliana (taxid:3702)]

 Score = 328 (120.5 bits), Expect = 7.0e-29, P = 7.0e-29
 Identities = 109/441 (24%), Positives = 199/441 (45%)

Query:     9 DSQSDAL-SLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLAS 67
             +++S  L  L++ C     +  + +E + +M+  GF P    CN +L  L R N I  A 
Sbjct:   151 ETKSTILFDLLVRCCCQLRMVDEAIECFYLMKEKGFYPKTETCNHILTLLSRLNRIENAW 210

Query:    68 CLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVV---LGLLDS-GIYSSVM-YNLVIDFY 122
               Y  M R  +  N +T++++  +LC+ GK +     LG+++  GI  +++ YN ++  +
Sbjct:   211 VFYADMYRMEIKSNVYTFNIMINVLCKEGKLKKAKGFLGIMEVFGIKPTIVTYNTLVQGF 270

Query:   123 SKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPK 182
             S +G    A   ++EM   +   P   TY+ IL       +   +  ++  M E  L+P 
Sbjct:   271 SLRGRIEGARLIISEM-KSKGFQPDMQTYNPILSWMCNEGR---ASEVLREMKEIGLVPD 326

Query:   183 HFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIEL----QDDTCGCMLKALSKEGRVKE 238
               +S N  +I+  S+ G     EM F    DE ++        T   ++  L  E +++ 
Sbjct:   327 S-VSYN-ILIRGCSNNGDL---EMAFAYR-DEMVKQGMVPTFYTYNTLIHGLFMENKIEA 380

Query:   239 AIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVA 298
             A  +   I E+GI +    Y   +N  C+    ++   L  +++  G  P     +  + 
Sbjct:   381 AEILIREIREKGIVLDSVTYNILINGYCQHGDAKKAFALHDEMMTDGIQPTQFTYTSLIY 440

Query:   299 SQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSL 358
               C K K +E +EL   V+ KG+  D    ++LM+ +C+   +D+A +L  +++ +  + 
Sbjct:   441 VLCRKNKTREADELFEKVVGKGMKPDLVMMNTLMDGHCAIGNMDRAFSLLKEMDMMSINP 500

Query:   359 DVATYDVLLDGLFKDGRMEEAVRIFDYMKELKXXXXXXXXXXXXRLCHLK-ELRKAMKNH 417
             D  TY+ L+ GL  +G+ EEA  +   MK                    K + + A    
Sbjct:   501 DDVTYNCLMRGLCGEGKFEEARELMGEMKRRGIKPDHISYNTLISGYSKKGDTKHAFMVR 560

Query:   418 DEMLKMGHKPDEATYKQVISG 438
             DEML +G  P   TY  ++ G
Sbjct:   561 DEMLSLGFNPTLLTYNALLKG 581

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2019085 AT1G74580 "AT1G74580" [Arabidopsis thaliana (taxid:3702)]

 Score = 320 (117.7 bits), Expect = 9.0e-28, P = 9.0e-28
 Identities = 99/390 (25%), Positives = 187/390 (47%)

Query:     4 SCEGRDSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEI 63
             S +G +    A   V+  +  +    +G E++  M   G    +S  N LL  L ++ ++
Sbjct:   173 SSQGCEMNVVAYCTVVGGFYEENFKAEGYELFGKMLASGVSLCLSTFNKLLRVLCKKGDV 232

Query:    64 RLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEV---VLG-LLDSGIYSSVM-YNLV 118
             +    L   +++ GV PN FT++L  Q LC+ G+ +    ++G L++ G    V+ YN +
Sbjct:   233 KECEKLLDKVIKRGVLPNLFTYNLFIQGLCQRGELDGAVRMVGCLIEQGPKPDVITYNNL 292

Query:   119 IDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKK 178
             I    K   F  A   L +M N   L P   TY++++ G  +    ++++RIVG  V   
Sbjct:   293 IYGLCKNSKFQEAEVYLGKMVN-EGLEPDSYTYNTLIAGYCKGGMVQLAERIVGDAVFNG 351

Query:   179 LLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKE 238
              +P  F   +  +I  L   G+T  A  +F  A  + I+        ++K LS +G + E
Sbjct:   352 FVPDQFTYRS--LIDGLCHEGETNRALALFNEALGKGIKPNVILYNTLIKGLSNQGMILE 409

Query:   239 AIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVA 298
             A Q+ + +SE+G+      +   VN LCK     +  GL++ ++ +GY P     +  + 
Sbjct:   410 AAQLANEMSEKGLIPEVQTFNILVNGLCKMGCVSDADGLVKVMISKGYFPDIFTFNILIH 469

Query:   299 SQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSL 358
                 + K +   E+L  +LD G+  D +  +SL+   C   + +  +  + K    KG  
Sbjct:   470 GYSTQLKMENALEILDVMLDNGVDPDVYTYNSLLNGLCKTSKFEDVMETY-KTMVEKGCA 528

Query:   359 -DVATYDVLLDGLFKDGRMEEAVRIFDYMK 387
              ++ T+++LL+ L +  +++EA+ + + MK
Sbjct:   529 PNLFTFNILLESLCRYRKLDEALGLLEEMK 558

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2016427 AT1G19290 [Arabidopsis thaliana (taxid:3702)]

 Score = 320 (117.7 bits), Expect = 1.3e-27, P = 1.3e-27
 Identities = 102/430 (23%), Positives = 191/430 (44%)

Query:    17 LVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRD 76
             ++L  Y+ KGL  + L V+  M  YG +P++ +CN+LL  L R+ E  +A  +Y  M+  
Sbjct:   160 MILKVYAEKGLVKNALHVFDNMGNYGRIPSLLSCNSLLSNLVRKGENFVALHVYDQMISF 219

Query:    77 GVSPNKFTWSLVAQILCRSGKFEVVLGLLDS-----GIYSSVM-YNLVIDFYSKKGDFGA 130
              VSP+ FT S+V    CRSG  +  +          G+  +V+ YN +I+ Y+  GD   
Sbjct:   220 EVSPDVFTCSIVVNAYCRSGNVDKAMVFAKETESSLGLELNVVTYNSLINGYAMIGDV-E 278

Query:   131 AFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDY 190
                R+  + + R ++    TY+S++ G  +    E ++ +  L+ EKKL+    + G   
Sbjct:   279 GMTRVLRLMSERGVSRNVVTYTSLIKGYCKKGLMEEAEHVFELLKEKKLVADQHMYG--V 336

Query:   191 VIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERG 250
             ++      G+   A  +     +  +      C  ++    K G++ EA QI+  +++  
Sbjct:   337 LMDGYCRTGQIRDAVRVHDNMIEIGVRTNTTICNSLINGYCKSGQLVEAEQIFSRMNDWS 396

Query:   251 ITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVE 310
             +      Y   V+  C+    +E   L   + ++  +P  M  +  +      G + +V 
Sbjct:   397 LKPDHHTYNTLVDGYCRAGYVDEALKLCDQMCQKEVVPTVMTYNILLKGYSRIGAFHDVL 456

Query:   311 ELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSL-DVATYDVLLDG 369
              L   +L +G+  D   CS+L+E        ++A+ L   +   +G L D  T +V++ G
Sbjct:   457 SLWKMMLKRGVNADEISCSTLLEALFKLGDFNEAMKLWENV-LARGLLTDTITLNVMISG 515

Query:   370 LFKDGRMEEAVRIFDYMKELKXXXXXXXXXXXXRLCH-LKELRKAMKNHDEMLKMGHKPD 428
             L K  ++ EA  I D +   +               + +  L++A    + M + G  P 
Sbjct:   516 LCKMEKVNEAKEILDNVNIFRCKPAVQTYQALSHGYYKVGNLKEAFAVKEYMERKGIFPT 575

Query:   429 EATYKQVISG 438
                Y  +ISG
Sbjct:   576 IEMYNTLISG 585

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2024537 AT1G64100 [Arabidopsis thaliana (taxid:3702)]

 Score = 314 (115.6 bits), Expect = 5.7e-27, P = 5.7e-27
 Identities = 99/440 (22%), Positives = 195/440 (44%)

Query:     9 DSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASC 68
             D  S+AL+L    Y  +  F++ + ++  M   G  P V   N L++ L  +  +  A+ 
Sbjct:   190 DRISEALALF--GYMVETGFLEAVALFDQMVEIGLTPVVITFNTLINGLCLEGRVLEAAA 247

Query:    69 LYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLL----DSGIYSSVM-YNLVIDFYS 123
             L   MV  G+  +  T+  +   +C+ G  +  L LL    ++ I   V+ Y+ +ID   
Sbjct:   248 LVNKMVGKGLHIDVVTYGTIVNGMCKMGDTKSALNLLSKMEETHIKPDVVIYSAIIDRLC 307

Query:   124 KKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKH 183
             K G    A    +EM   + + P   TY+ ++DG   + +   + R++  M+E+++ P  
Sbjct:   308 KDGHHSDAQYLFSEMLE-KGIAPNVFTYNCMIDGFCSFGRWSDAQRLLRDMIEREINPD- 365

Query:   184 FLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIE--LQDDTC--GCMLKALSKEGRVKEA 239
              L+ N  +   + + GK + AE +    CDE +   +  DT     M+    K  R  +A
Sbjct:   366 VLTFNALISASVKE-GKLFEAEKL----CDEMLHRCIFPDTVTYNSMIYGFCKHNRFDDA 420

Query:   240 IQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVAS 299
               ++ L++   +      +   ++V C+  + +E   LLR++  RG +      +  +  
Sbjct:   421 KHMFDLMASPDVVT----FNTIIDVYCRAKRVDEGMQLLREISRRGLVANTTTYNTLIHG 476

Query:   300 QCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLD 359
              C        ++L   ++  G+  D+  C+ L+  +C N ++++A+ L   I+  K  LD
Sbjct:   477 FCEVDNLNAAQDLFQEMISHGVCPDTITCNILLYGFCENEKLEEALELFEVIQMSKIDLD 536

Query:   360 VATYDVLLDGLFKDGRMEEAVRIFDYMK-ELKXXXXXXXXXXXXRLCHLKELRKAMKNHD 418
                Y++++ G+ K  +++EA  +F  +                   C    +  A     
Sbjct:   537 TVAYNIIIHGMCKGSKVDEAWDLFCSLPIHGVEPDVQTYNVMISGFCGKSAISDANVLFH 596

Query:   419 EMLKMGHKPDEATYKQVISG 438
             +M   GH+PD +TY  +I G
Sbjct:   597 KMKDNGHEPDNSTYNTLIRG 616

GO:0003677 "DNA binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

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

TAIR|locus:2024301 AT1G09820 "AT1G09820" [Arabidopsis thaliana (taxid:3702)]

 Score = 313 (115.2 bits), Expect = 8.2e-27, P = 8.2e-27
 Identities = 103/444 (23%), Positives = 195/444 (43%)

Query:     2 IQSCEGRDSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQN 61
             I  C+     S    +++  Y++   F  G E ++    YG+  +  +C  L+ AL ++N
Sbjct:   143 ISMCDNVCVNSIIADMLVLAYANNSRFELGFEAFKRSGYYGYKLSALSCKPLMIALLKEN 202

Query:    62 EIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLL-DSGIYSS----VMYN 116
                    +Y  M+R  + PN FT+++V   LC++GK      ++ D  +Y      V YN
Sbjct:   203 RSADVEYVYKEMIRRKIQPNVFTFNVVINALCKTGKMNKARDVMEDMKVYGCSPNVVSYN 262

Query:   117 LVIDFYSKKGDFGAAFDR---LNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGL 173
              +ID Y K G  G  +     L EM    +++P  +T++ ++DG  + +    S ++   
Sbjct:   263 TLIDGYCKLGGNGKMYKADAVLKEMVEN-DVSPNLTTFNILIDGFWKDDNLPGSMKVFKE 321

Query:   174 MVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKE 233
             M+++ + P + +S N  +I  L + GK   A  +  +     ++    T   ++    K 
Sbjct:   322 MLDQDVKP-NVISYNS-LINGLCNGGKISEAISMRDKMVSAGVQPNLITYNALINGFCKN 379

Query:   234 GRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMEL 293
               +KEA+ ++  +  +G       Y   ++  CK  + ++   L  ++   G +P     
Sbjct:   380 DMLKEALDMFGSVKGQGAVPTTRMYNMLIDAYCKLGKIDDGFALKEEMEREGIVPDVGTY 439

Query:   294 SRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEK 353
             +  +A  C  G  +  ++L   +  KGL  D      LME YC   +  KA  L  ++ K
Sbjct:   440 NCLIAGLCRNGNIEAAKKLFDQLTSKGLP-DLVTFHILMEGYCRKGESRKAAMLLKEMSK 498

Query:   354 LKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYM-KELKXXXXXXXXXXXXRLCHLK-ELR 411
             +       TY++++ G  K+G ++ A  +   M KE +            +    K +L 
Sbjct:   499 MGLKPRHLTYNIVMKGYCKEGNLKAATNMRTQMEKERRLRMNVASYNVLLQGYSQKGKLE 558

Query:   412 KAMKNHDEMLKMGHKPDEATYKQV 435
              A    +EML+ G  P+  TY+ V
Sbjct:   559 DANMLLNEMLEKGLVPNRITYEIV 582

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	440
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-10
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-07
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-06
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	3e-06
pfam12854	34	pfam12854, PPR_1, PPR repeat	6e-06
pfam13041	50	pfam13041, PPR_2, PPR repeat family	8e-06
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	6e-05
COG0457	291	COG0457, NrfG, FOG: TPR repeat [General function p	2e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.001
pfam01535	31	pfam01535, PPR, PPR repeat	0.002

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

 Score = 63.4 bits (154), Expect = 1e-10
 Identities = 70/302 (23%), Positives = 131/302 (43%), Gaps = 16/302 (5%)

Query: 96  GKFEVVLGLLDSGIYSS-VMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSI 154
           G   V+  + ++G+ +   +Y  +I   +K G   A F+  +EM N   +     T+ ++
Sbjct: 455 GALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNA-GVEANVHTFGAL 513

Query: 155 LDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVI--QKLSDMGKTYAAEMIFKRAC 212
           +DG  R  +   +    G+M  K + P       D V+    +S  G++ A +  F    
Sbjct: 514 IDGCARAGQVAKAFGAYGIMRSKNVKP-------DRVVFNALISACGQSGAVDRAFDVLA 566

Query: 213 DEKIELQ----DD-TCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCK 267
           + K E      D  T G ++KA +  G+V  A ++Y +I E  I      Y   VN   +
Sbjct: 567 EMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQ 626

Query: 268 EHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFC 327
           +   +    +  D+ ++G  P  +  S  V      G   +  E+L     +G+ L +  
Sbjct: 627 KGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVS 686

Query: 328 CSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMK 387
            SSLM    + +   KA+ L+  I+ +K    V+T + L+  L +  ++ +A+ +   MK
Sbjct: 687 YSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMK 746

Query: 388 EL 389
            L
Sbjct: 747 RL 748

Length = 1060

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

 Score = 47.4 bits (114), Expect = 1e-07
 Identities = 18/49 (36%), Positives = 33/49 (67%), Gaps = 1/49 (2%)

Query: 359 DVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV-SSSSFVIVVSRLCH 406
           DV TY+ L+DG  K G++EEA+++F+ MK+  +  +  ++ I++  LC 
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 44.7 bits (107), Expect = 1e-06
 Identities = 20/47 (42%), Positives = 24/47 (51%), Gaps = 1/47 (2%)

Query: 111 SSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDG 157
             V YN +ID Y KKG    A    NEM   R + P   TYS ++DG
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKK-RGIKPNVYTYSILIDG 47

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

 Score = 49.1 bits (117), Expect = 3e-06
 Identities = 57/238 (23%), Positives = 98/238 (41%), Gaps = 35/238 (14%)

Query: 18  VLDCYSHKGLFMDGLEVYRMMRVYGFVP--AVSACNALLDALYRQNEIRLASCLYGAMVR 75
           ++D YS  G   D         V+  +P     A N++L           A CLY  M  
Sbjct: 265 LIDMYSKCGDIEDA------RCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRD 318

Query: 76  DGVSPNKFTWSLVAQILCRSGKFEVV----LGLLDSGIYSSVMYNL-VIDFYSKKGDFGA 130
            GVS ++FT+S++ +I  R    E       GL+ +G    ++ N  ++D YSK G    
Sbjct: 319 SGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMED 378

Query: 131 A---FDRL--NEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKH-- 183
           A   FDR+    + +   L  G+  +         +E+          M+ + + P H  
Sbjct: 379 ARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFER----------MIAEGVAPNHVT 428

Query: 184 FLSG-NDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAI 240
           FL+  +      LS+ G     E+    + + +I+ +     CM++ L +EG + EA 
Sbjct: 429 FLAVLSACRYSGLSEQGW----EIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAY 482

Length = 697

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

 Score = 42.3 bits (101), Expect = 6e-06
 Identities = 15/31 (48%), Positives = 22/31 (70%)

Query: 357 SLDVATYDVLLDGLFKDGRMEEAVRIFDYMK 387
             DV TY+ L+DGL + GR++EAV + D M+
Sbjct: 4   KPDVVTYNTLIDGLCRAGRVDEAVELLDEME 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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 42.4 bits (101), Expect = 8e-06
 Identities = 15/50 (30%), Positives = 28/50 (56%)

Query: 45 PAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCR 94
          P V   N L+D   ++ ++  A  L+  M + G+ PN +T+S++   LC+
Sbjct: 1  PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 42.0 bits (100), Expect = 1e-05
 Identities = 15/49 (30%), Positives = 30/49 (61%)

Query: 324 DSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFK 372
           D    ++L++ YC   ++++A+ L  +++K     +V TY +L+DGL K
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 45.3 bits (107), Expect = 6e-05
 Identities = 28/89 (31%), Positives = 42/89 (47%)

Query: 31  GLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQ 90
            LE+Y  ++     P VS  NAL+ AL   N++  A  +   M R G+ PN  T+S++  
Sbjct: 703 ALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLV 762

Query: 91  ILCRSGKFEVVLGLLDSGIYSSVMYNLVI 119
              R    +V L LL       +  NLV+
Sbjct: 763 ASERKDDADVGLDLLSQAKEDGIKPNLVM 791

Length = 1060

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

 Score = 42.5 bits (98), Expect = 2e-04
 Identities = 47/250 (18%), Positives = 93/250 (37%), Gaps = 4/250 (1%)

Query: 178 KLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQD-DTCGCMLKALSKEGRV 236
             L    L+  +  +  L  +G+   A  + + A +             +  AL K GR+
Sbjct: 16  AKLLAEALALLEAGLALLELLGELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRL 75

Query: 237 KEAIQIYHLISERGITVRDSD-YYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSR 295
           +EA+++     E  +    ++       +L    + EE   LL   +     P   E   
Sbjct: 76  EEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPDLAEALL 135

Query: 296 FVASQCGKGKWKEVEELLSAVL--DKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEK 353
            + +    G ++E  EL    L  D  L   +    +L     +  + ++A+ L  K  K
Sbjct: 136 ALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALK 195

Query: 354 LKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKA 413
           L    D      L     K G+ EEA+  ++   EL   ++ +   +   L  L    +A
Sbjct: 196 LNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEA 255

Query: 414 MKNHDEMLKM 423
           ++  ++ L++
Sbjct: 256 LEALEKALEL 265

Length = 291

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

 Score = 36.3 bits (85), Expect = 0.001
 Identities = 16/31 (51%), Positives = 22/31 (70%)

Query: 362 TYDVLLDGLFKDGRMEEAVRIFDYMKELKVV 392
           TY+ L+DGL K GR+EEA+ +F  MKE  + 
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIE 32

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

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

 Score = 35.5 bits (83), Expect = 0.002
 Identities = 14/30 (46%), Positives = 20/30 (66%)

Query: 362 TYDVLLDGLFKDGRMEEAVRIFDYMKELKV 391
           TY+ L+ G  K G++EEA+ +F  MKE  V
Sbjct: 2   TYNSLISGYCKAGKLEEALELFKEMKEKGV 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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	440
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.94
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.94
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.93
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.93
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.93
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.93
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.92
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.92
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.92
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.92
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.9
PRK14574	822	hmsH outer membrane protein; Provisional	99.9
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.89
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.87
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.85
PRK14574	822	hmsH outer membrane protein; Provisional	99.84
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.83
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.83
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.83
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.82
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.78
KOG2003	840	consensus TPR repeat-containing protein [General f	99.77
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.76
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.75
KOG2076	895	consensus RNA polymerase III transcription factor	99.74
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.73
KOG2076	895	consensus RNA polymerase III transcription factor	99.73
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.73
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.73
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.72
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.72
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.71
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.71
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.7
KOG2003	840	consensus TPR repeat-containing protein [General f	99.69
KOG1126	638	consensus DNA-binding cell division cycle control	99.69
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.67
KOG1126	638	consensus DNA-binding cell division cycle control	99.66
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.65
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.65
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.64
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.64
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.64
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.62
KOG1129	478	consensus TPR repeat-containing protein [General f	99.57
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.56
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.54
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.53
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.53
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.52
PRK12370	553	invasion protein regulator; Provisional	99.52
PRK12370	553	invasion protein regulator; Provisional	99.52
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.52
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.51
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.5
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.49
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.49
KOG1129	478	consensus TPR repeat-containing protein [General f	99.48
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.47
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.46
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.45
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.45
PF13041	50	PPR_2: PPR repeat family	99.38
PF13041	50	PPR_2: PPR repeat family	99.38
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.38
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.38
PRK11189	296	lipoprotein NlpI; Provisional	99.37
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.35
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.35
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.35
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.34
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.33
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.32
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.32
PRK11189	296	lipoprotein NlpI; Provisional	99.31
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.27
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.24
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.22
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.19
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.16
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.16
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.16
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.14
PRK04841	903	transcriptional regulator MalT; Provisional	99.13
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.11
PLN02789	320	farnesyltranstransferase	99.07
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	99.05
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	99.05
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.04
KOG1125	579	consensus TPR repeat-containing protein [General f	99.04
KOG1128	777	consensus Uncharacterized conserved protein, conta	99.03
PRK10370	198	formate-dependent nitrite reductase complex subuni	99.02
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.02
PRK04841	903	transcriptional regulator MalT; Provisional	99.02
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	99.0
PLN02789	320	farnesyltranstransferase	99.0
KOG1125	579	consensus TPR repeat-containing protein [General f	98.97
PRK15359	144	type III secretion system chaperone protein SscB;	98.96
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.93
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.92
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.9
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.89
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.88
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.87
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.86
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.86
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.84
PF12854	34	PPR_1: PPR repeat	98.84
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.82
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.82
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.82
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.81
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.8
PF12854	34	PPR_1: PPR repeat	98.8
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.79
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.78
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.78
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.78
PRK15359	144	type III secretion system chaperone protein SscB;	98.78
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.74
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.72
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.71
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.66
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.65
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.6
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.57
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.55
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.52
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.47
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.43
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.42
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.42
KOG0553	304	consensus TPR repeat-containing protein [General f	98.39
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.38
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.33
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.3
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.28
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.26
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.26
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.26
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.23
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.22
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	98.21
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.2
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.19
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.17
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.15
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	98.14
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	98.11
KOG2796	366	consensus Uncharacterized conserved protein [Funct	98.11
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.09
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.08
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.08
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.07
KOG0553	304	consensus TPR repeat-containing protein [General f	98.05
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.05
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.04
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.02
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.02
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.01
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.01
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.0
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.0
PF12688	120	TPR_5: Tetratrico peptide repeat	97.99
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.99
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.98
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.98
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.97
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.94
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.92
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.92
PF13371	73	TPR_9: Tetratricopeptide repeat	97.89
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.88
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.87
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.87
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.86
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.81
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.8
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.78
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.78
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.78
PRK10803	263	tol-pal system protein YbgF; Provisional	97.75
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.74
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.74
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.68
PRK15331	165	chaperone protein SicA; Provisional	97.67
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.67
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.64
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.62
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.57
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.55
PF12688	120	TPR_5: Tetratrico peptide repeat	97.48
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.48
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.45
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.42
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.41
PF13371	73	TPR_9: Tetratricopeptide repeat	97.37
PRK10803	263	tol-pal system protein YbgF; Provisional	97.36
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.36
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.33
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.29
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.27
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.23
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.2
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.19
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.19
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.14
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.14
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.11
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.07
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	97.03
PRK15331	165	chaperone protein SicA; Provisional	96.98
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.98
KOG1585	308	consensus Protein required for fusion of vesicles	96.97
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.95
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.94
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.91
KOG1258	577	consensus mRNA processing protein [RNA processing	96.9
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.88
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.87
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.85
PF13428	44	TPR_14: Tetratricopeptide repeat	96.84
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.83
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.83
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.77
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.61
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.56
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	96.51
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.5
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.46
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.41
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.33
PF13512	142	TPR_18: Tetratricopeptide repeat	96.23
PF13431	34	TPR_17: Tetratricopeptide repeat	96.23
PRK11906	458	transcriptional regulator; Provisional	96.18
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.18
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.18
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.17
COG3629	280	DnrI DNA-binding transcriptional activator of the	96.15
KOG3941	406	consensus Intermediate in Toll signal transduction	96.15
KOG1585	308	consensus Protein required for fusion of vesicles	96.12
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.08
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.08
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.05
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.01
PRK11906	458	transcriptional regulator; Provisional	95.99
PF13428	44	TPR_14: Tetratricopeptide repeat	95.98
KOG1941	518	consensus Acetylcholine receptor-associated protei	95.95
COG3118	304	Thioredoxin domain-containing protein [Posttransla	95.93
KOG2610	491	consensus Uncharacterized conserved protein [Funct	95.9
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	95.89
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.88
KOG1941	518	consensus Acetylcholine receptor-associated protei	95.85
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.83
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.72
COG4105	254	ComL DNA uptake lipoprotein [General function pred	95.63
KOG4555	175	consensus TPR repeat-containing protein [Function	95.6
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	95.46
KOG2610	491	consensus Uncharacterized conserved protein [Funct	95.42
KOG4555	175	consensus TPR repeat-containing protein [Function	95.38
KOG3941	406	consensus Intermediate in Toll signal transduction	95.37
PF13512	142	TPR_18: Tetratricopeptide repeat	95.29
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	95.27
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	95.11
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	94.88
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	94.77
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	94.76
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	94.71
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	94.71
KOG4234	271	consensus TPR repeat-containing protein [General f	94.7
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.51
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	94.51
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	94.36
COG3629	280	DnrI DNA-binding transcriptional activator of the	94.36
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	94.29
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	94.23
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	94.06
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	93.96
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	93.94
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	93.72
PF07575	566	Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR0	93.62
PF13431	34	TPR_17: Tetratricopeptide repeat	93.54
KOG4570	418	consensus Uncharacterized conserved protein [Funct	93.53
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	93.4
KOG4648	536	consensus Uncharacterized conserved protein, conta	93.4
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	93.3
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	93.24
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	93.09
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	93.02
COG0457	291	NrfG FOG: TPR repeat [General function prediction	93.01
KOG1258	577	consensus mRNA processing protein [RNA processing	92.74
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	92.57
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	92.53
PRK11619	644	lytic murein transglycosylase; Provisional	92.46
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	92.41
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	92.37
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	92.21
KOG1550	552	consensus Extracellular protein SEL-1 and related	92.14
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	92.13
COG3947	361	Response regulator containing CheY-like receiver a	92.12
KOG4234	271	consensus TPR repeat-containing protein [General f	91.86
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	91.82
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	91.66
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	91.5
COG3947	361	Response regulator containing CheY-like receiver a	91.42
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	91.38
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	91.36
KOG4570	418	consensus Uncharacterized conserved protein [Funct	91.27
KOG1550	552	consensus Extracellular protein SEL-1 and related	91.14
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	91.09
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	91.07
COG4455	273	ImpE Protein of avirulence locus involved in tempe	90.97
KOG2063	877	consensus Vacuolar assembly/sorting proteins VPS39	90.96
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	90.76
COG1747	711	Uncharacterized N-terminal domain of the transcrip	90.55
KOG0376	476	consensus Serine-threonine phosphatase 2A, catalyt	90.23
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	89.99
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	89.87
PF13929	292	mRNA_stabil: mRNA stabilisation	89.84
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	89.8
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	89.53
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	89.22
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	89.09
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	88.95
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	88.85
KOG0403	645	consensus Neoplastic transformation suppressor Pdc	88.71
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	88.69
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	88.62
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	88.28
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	88.28
PRK10941	269	hypothetical protein; Provisional	88.26
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	88.05
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	87.79
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	87.3
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	87.16
KOG4507	886	consensus Uncharacterized conserved protein, conta	87.07
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	86.72
COG1747	711	Uncharacterized N-terminal domain of the transcrip	86.46
PRK09687	280	putative lyase; Provisional	86.14
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	86.05
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	86.01
PF13929	292	mRNA_stabil: mRNA stabilisation	85.52
COG4455	273	ImpE Protein of avirulence locus involved in tempe	85.38
PF13762	145	MNE1: Mitochondrial splicing apparatus component	85.1
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	84.96
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	84.77
KOG3364	149	consensus Membrane protein involved in organellar	84.7
KOG4648	536	consensus Uncharacterized conserved protein, conta	84.62
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	83.68
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	83.64
PRK09687	280	putative lyase; Provisional	83.08
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	82.54
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	82.45
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	82.03
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	81.61
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	81.57
KOG2063	877	consensus Vacuolar assembly/sorting proteins VPS39	81.2
PHA02875	413	ankyrin repeat protein; Provisional	81.01

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=2.2e-68  Score=509.16  Aligned_cols=423  Identities=14%  Similarity=0.218  Sum_probs=338.2

Q ss_pred             CChHhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHH
Q 047359           10 SQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVA   89 (440)
Q Consensus        10 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   89 (440)
                      ++..+++.++..|.+.|.+++|+.+|+.|..    ||..+|+.++.+|++.|+++.|.++|+.|.+.|+.||..+|+.||
T Consensus       404 ~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~----pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI  479 (1060)
T PLN03218        404 MDKIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLI  479 (1060)
T ss_pred             chHHHHHHHHHHHHHCCCHHHHHHHHHHcCC----CCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            4444445555555555555555555555542    677888888888888888888888888888888888888888888


Q ss_pred             HHHHhcCChHHHHHHHhccc-----CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCCh
Q 047359           90 QILCRSGKFEVVLGLLDSGI-----YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKT  164 (440)
Q Consensus        90 ~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  164 (440)
                      .+|++.|++++|.++|++|.     ||..+|+.+|.+|++.|++++|.++|++|.+ .|+.||..+|+.++.+|++.|++
T Consensus       480 ~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~-~Gv~PD~vTYnsLI~a~~k~G~~  558 (1060)
T PLN03218        480 STCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRS-KNVKPDRVVFNALISACGQSGAV  558 (1060)
T ss_pred             HHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHHCCCH
Confidence            88888888888888888876     7888888888888888888888888888877 78888888888888888888888


Q ss_pred             hhHHHHHHHHHh--cCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHH
Q 047359          165 EVSDRIVGLMVE--KKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQI  242 (440)
Q Consensus       165 ~~a~~~~~~~~~--~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  242 (440)
                      ++|.++|++|..  .++.|+  ..+|+.++.+|++.|++++|.++|+.|.+.++.|+..+|+.+|.+|++.|++++|.++
T Consensus       559 deA~~lf~eM~~~~~gi~PD--~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~l  636 (1060)
T PLN03218        559 DRAFDVLAEMKAETHPIDPD--HITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSI  636 (1060)
T ss_pred             HHHHHHHHHHHHhcCCCCCc--HHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHH
Confidence            888888888875  467777  7888888888888888888888888888888888888888888888888888888888


Q ss_pred             HHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCC
Q 047359          243 YHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLL  322 (440)
Q Consensus       243 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  322 (440)
                      |++|.+.|+.||..+|+.++.+|++.|++++|.++++.|.+.|+.|+..+|+.++.+|++.|++++|.++|++|.+.|+.
T Consensus       637 f~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~  716 (1060)
T PLN03218        637 YDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLR  716 (1060)
T ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCC
Confidence            88888888888888888888888888888888888888888888888888888888888888888888888888888888


Q ss_pred             CchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC-chhhHHHHH
Q 047359          323 LDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV-SSSSFVIVV  401 (440)
Q Consensus       323 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~l~  401 (440)
                      ||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|.+.|++++|.+++++|.+.|.. +..+|+.++
T Consensus       717 PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLI  796 (1060)
T PLN03218        717 PTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCIT  796 (1060)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            8888888888888888888888888888888888888888888888888888888888888888888877 777788777


Q ss_pred             HHHHh----c-------------------ccHHHHHHHHHHHHHCCCCCCHHHHHHHhhhc
Q 047359          402 SRLCH----L-------------------KELRKAMKNHDEMLKMGHKPDEATYKQVISGF  439 (440)
Q Consensus       402 ~~~~~----~-------------------g~~~~a~~~~~~m~~~~~~p~~~t~~~ll~a~  439 (440)
                      ..|.+    .                   +..++|..+|++|++.|+.||..||+.+|.++
T Consensus       797 glc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~~~Gi~Pd~~T~~~vL~cl  857 (1060)
T PLN03218        797 GLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETISAGTLPTMEVLSQVLGCL  857 (1060)
T ss_pred             HHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHHHHCCCCCCHHHHHHHHHHh
Confidence            55332    1                   12356888888888888888888888888543

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=4.7e-68  Score=506.96  Aligned_cols=429  Identities=13%  Similarity=0.186  Sum_probs=413.1

Q ss_pred             CCChHhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHH
Q 047359            9 DSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLV   88 (440)
Q Consensus         9 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   88 (440)
                      .||..+|+.++.+|++.|+++.|.++|+.|.+.|+.||..+|+.+|.+|++.|+++.|.++|++|.+.|+.||..+|+.+
T Consensus       434 ~pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaL  513 (1060)
T PLN03218        434 NPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGAL  513 (1060)
T ss_pred             CCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence            39999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCChHHHHHHHhccc-----CCchhHHHHHHHHHhcCChhHHHHHHHHHhc-CCCCCCchhhHHHHHHHHHhcC
Q 047359           89 AQILCRSGKFEVVLGLLDSGI-----YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCN-GRNLTPGFSTYSSILDGARRYE  162 (440)
Q Consensus        89 ~~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~-~~~~~p~~~~~~~l~~~~~~~~  162 (440)
                      |.+|++.|++++|.++|+.|.     ||..+|+.+|.+|++.|++++|.++|++|.. ..|+.||..+|+.++.+|++.|
T Consensus       514 I~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G  593 (1060)
T PLN03218        514 IDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAG  593 (1060)
T ss_pred             HHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCC
Confidence            999999999999999999996     9999999999999999999999999999975 2578999999999999999999


Q ss_pred             ChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHH
Q 047359          163 KTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQI  242 (440)
Q Consensus       163 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  242 (440)
                      ++++|.++|+.|.+.|+.|+  ..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.++
T Consensus       594 ~ldeA~elf~~M~e~gi~p~--~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l  671 (1060)
T PLN03218        594 QVDRAKEVYQMIHEYNIKGT--PEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEI  671 (1060)
T ss_pred             CHHHHHHHHHHHHHcCCCCC--hHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHH
Confidence            99999999999999999999  9999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCC
Q 047359          243 YHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLL  322 (440)
Q Consensus       243 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  322 (440)
                      +++|.+.|+.|+..+|+.++.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.++|++|...|+.
T Consensus       672 ~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~  751 (1060)
T PLN03218        672 LQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLC  751 (1060)
T ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHh----c-------------------CcHHHH
Q 047359          323 LDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFK----D-------------------GRMEEA  379 (440)
Q Consensus       323 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~-------------------g~~~~a  379 (440)
                      ||..+|+.++.+|++.|++++|.+++.+|.+.|+.||..+|+.++..|.+    +                   +..+.|
T Consensus       752 Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~A  831 (1060)
T PLN03218        752 PNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWA  831 (1060)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHH
Confidence            99999999999999999999999999999999999999999999876432    1                   124679


Q ss_pred             HHHHHHHHHcCCC-chhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHHHHHHHhhhc
Q 047359          380 VRIFDYMKELKVV-SSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQVISGF  439 (440)
Q Consensus       380 ~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~ll~a~  439 (440)
                      ..+|++|.+.|.. +..+|..++.++.+.+..+.+..++++|...+..|+..+|++||.+|
T Consensus       832 l~lf~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~  892 (1060)
T PLN03218        832 LMVYRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGF  892 (1060)
T ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhh
Confidence            9999999999998 88999999998889999999999999999999999999999999986

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=4.7e-65  Score=495.00  Aligned_cols=416  Identities=16%  Similarity=0.191  Sum_probs=343.0

Q ss_pred             CCChHhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHH
Q 047359            9 DSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLV   88 (440)
Q Consensus         9 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   88 (440)
                      +||..+||.+|.+|++.|++++|+++|++|...|+.||..+|+.++.+|++.+++..+.+++..|.+.|+.||..+++.|
T Consensus       149 ~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~L  228 (857)
T PLN03077        149 ERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNAL  228 (857)
T ss_pred             CCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHH
Confidence            58899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCChHHHHHHHhccc-CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhH
Q 047359           89 AQILCRSGKFEVVLGLLDSGI-YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVS  167 (440)
Q Consensus        89 ~~~~~~~~~~~~a~~~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a  167 (440)
                      +.+|++.|+++.|.++|++|. +|..+||.+|.+|++.|++++|+++|.+|.+ .|+.||..||+.++.+|.+.|+.+.+
T Consensus       229 i~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~-~g~~Pd~~ty~~ll~a~~~~g~~~~a  307 (857)
T PLN03077        229 ITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRE-LSVDPDLMTITSVISACELLGDERLG  307 (857)
T ss_pred             HHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHH-cCCCCChhHHHHHHHHHHhcCChHHH
Confidence            999999999999999999999 9999999999999999999999999999999 99999999999999999999999999


Q ss_pred             HHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHH
Q 047359          168 DRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLIS  247 (440)
Q Consensus       168 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  247 (440)
                      .+++..+.+.|+.|+  ..+|+.++.+|++.|++++|.++|++|..    ||..+|+.++.+|++.|++++|+++|++|.
T Consensus       308 ~~l~~~~~~~g~~~d--~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~d~~s~n~li~~~~~~g~~~~A~~lf~~M~  381 (857)
T PLN03077        308 REMHGYVVKTGFAVD--VSVCNSLIQMYLSLGSWGEAEKVFSRMET----KDAVSWTAMISGYEKNGLPDKALETYALME  381 (857)
T ss_pred             HHHHHHHHHhCCccc--hHHHHHHHHHHHhcCCHHHHHHHHhhCCC----CCeeeHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            999999999999999  99999999999999999999999999864    688899999999999999999999999999


Q ss_pred             HcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhh
Q 047359          248 ERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFC  327 (440)
Q Consensus       248 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  327 (440)
                      +.|+.||..||+.++.+|++.|++++|.++++.+.+.|+.|+..+++.|+.+|++.|++++|.++|++|.+    +|..+
T Consensus       382 ~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~d~vs  457 (857)
T PLN03077        382 QDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPE----KDVIS  457 (857)
T ss_pred             HhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCC----CCeee
Confidence            99999999999999999999999999999999999988888888888888888888888888888877754    34555


Q ss_pred             hHHHHHHHHcCCcHHHHHHHHHHHH----------------------------------hccCCcCHHhHHHHHHHHHhc
Q 047359          328 CSSLMEYYCSNRQIDKAIALHIKIE----------------------------------KLKGSLDVATYDVLLDGLFKD  373 (440)
Q Consensus       328 ~~~l~~~~~~~~~~~~a~~~~~~~~----------------------------------~~~~~p~~~~~~~l~~~~~~~  373 (440)
                      |+.++.+|++.|+.++|.++|++|.                                  +.|+.++..++++|+.+|.++
T Consensus       458 ~~~mi~~~~~~g~~~eA~~lf~~m~~~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~  537 (857)
T PLN03077        458 WTSIIAGLRLNNRCFEALIFFRQMLLTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRC  537 (857)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHc
Confidence            5555555555555555555555554                                  333333333333333444444


Q ss_pred             CcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHHHHHHHhhhc
Q 047359          374 GRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQVISGF  439 (440)
Q Consensus       374 g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~ll~a~  439 (440)
                      |++++|.++|+.+    .++..+|+.++.+|++.|+.++|.++|++|.+.|+.||..||+.+|++|
T Consensus       538 G~~~~A~~~f~~~----~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~  599 (857)
T PLN03077        538 GRMNYAWNQFNSH----EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCAC  599 (857)
T ss_pred             CCHHHHHHHHHhc----CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHH
Confidence            4444444444443    2255555666666666666666666666666656666666666665554

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

Probab=100.00  E-value=2.9e-64  Score=478.38  Aligned_cols=418  Identities=14%  Similarity=0.199  Sum_probs=401.3

Q ss_pred             CCCChHhHHHHHHHHHccCCcchHHHHHHHHHhcC-CccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHH
Q 047359            8 RDSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYG-FVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWS   86 (440)
Q Consensus         8 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   86 (440)
                      ..++..+|+.+|..+.+.|++++|+++|+.|...+ ..||..+|+.++.+|.+.++++.+.+++..|.+.|+.||..+|+
T Consensus        83 ~~~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n  162 (697)
T PLN03081         83 IRKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMN  162 (697)
T ss_pred             CCCCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHH
Confidence            34456699999999999999999999999999764 67999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCChHHHHHHHhccc-CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChh
Q 047359           87 LVAQILCRSGKFEVVLGLLDSGI-YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTE  165 (440)
Q Consensus        87 ~l~~~~~~~~~~~~a~~~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  165 (440)
                      .++.+|++.|+++.|.++|++|. ||..+||.++.+|++.|++++|+++|++|.+ .|+.||..+|+.++.+|.+.|..+
T Consensus       163 ~Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~-~g~~p~~~t~~~ll~a~~~~~~~~  241 (697)
T PLN03081        163 RVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWE-DGSDAEPRTFVVMLRASAGLGSAR  241 (697)
T ss_pred             HHHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHH-hCCCCChhhHHHHHHHHhcCCcHH
Confidence            99999999999999999999999 9999999999999999999999999999998 899999999999999999999999


Q ss_pred             hHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHH
Q 047359          166 VSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHL  245 (440)
Q Consensus       166 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  245 (440)
                      .+.+++..+.+.|+.|+  ..+|+.++++|++.|++++|.++|+.|.+    +|..+|+.++.+|++.|++++|+++|++
T Consensus       242 ~~~~l~~~~~~~g~~~d--~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~~~vt~n~li~~y~~~g~~~eA~~lf~~  315 (697)
T PLN03081        242 AGQQLHCCVLKTGVVGD--TFVSCALIDMYSKCGDIEDARCVFDGMPE----KTTVAWNSMLAGYALHGYSEEALCLYYE  315 (697)
T ss_pred             HHHHHHHHHHHhCCCcc--ceeHHHHHHHHHHCCCHHHHHHHHHhCCC----CChhHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            99999999999999999  99999999999999999999999999964    5889999999999999999999999999


Q ss_pred             HHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCch
Q 047359          246 ISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDS  325 (440)
Q Consensus       246 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  325 (440)
                      |.+.|+.||..||+.++.+|++.|++++|.+++..|.+.|+.||..+++.++.+|++.|++++|.++|++|.+    ||.
T Consensus       316 M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~  391 (697)
T PLN03081        316 MRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNL  391 (697)
T ss_pred             HHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCe
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999964    699


Q ss_pred             hhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHH-cCCC-chhhHHHHHHH
Q 047359          326 FCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKE-LKVV-SSSSFVIVVSR  403 (440)
Q Consensus       326 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~-~~~~~~~l~~~  403 (440)
                      .+|+.+|.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|.+.|++++|.++|+.|.+ .+.. +..+|+.++.+
T Consensus       392 ~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~  471 (697)
T PLN03081        392 ISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIEL  471 (697)
T ss_pred             eeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999986 4666 78899999999


Q ss_pred             HHhcccHHHHHHHHHHHHHCCCCCCHHHHHHHhhhc
Q 047359          404 LCHLKELRKAMKNHDEMLKMGHKPDEATYKQVISGF  439 (440)
Q Consensus       404 ~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~ll~a~  439 (440)
                      |.+.|++++|.+++++|   ++.||..+|+.|+.+|
T Consensus       472 l~r~G~~~eA~~~~~~~---~~~p~~~~~~~Ll~a~  504 (697)
T PLN03081        472 LGREGLLDEAYAMIRRA---PFKPTVNMWAALLTAC  504 (697)
T ss_pred             HHhcCCHHHHHHHHHHC---CCCCCHHHHHHHHHHH
Confidence            99999999999998875   5799999999999987

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=3.5e-64  Score=488.88  Aligned_cols=415  Identities=16%  Similarity=0.166  Sum_probs=396.2

Q ss_pred             CCChHhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHH
Q 047359            9 DSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLV   88 (440)
Q Consensus         9 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   88 (440)
                      .||..+||.+|.+|++.|++++|+++|++|.+.|+.||..+|+.++.+|++.|+.+.|.+++..|.+.|+.||..+|+.|
T Consensus       250 ~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~L  329 (857)
T PLN03077        250 RRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSL  329 (857)
T ss_pred             CCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHH
Confidence            57888899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCChHHHHHHHhccc-CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhH
Q 047359           89 AQILCRSGKFEVVLGLLDSGI-YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVS  167 (440)
Q Consensus        89 ~~~~~~~~~~~~a~~~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a  167 (440)
                      +.+|++.|++++|.++|++|. ||..+||.+|.+|++.|++++|+++|++|.+ .|+.||..||+.++.+|++.|+++.|
T Consensus       330 i~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~-~g~~Pd~~t~~~ll~a~~~~g~~~~a  408 (857)
T PLN03077        330 IQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQ-DNVSPDEITIASVLSACACLGDLDVG  408 (857)
T ss_pred             HHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHH-hCCCCCceeHHHHHHHHhccchHHHH
Confidence            999999999999999999999 9999999999999999999999999999998 99999999999999999999999999


Q ss_pred             HHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHH
Q 047359          168 DRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLIS  247 (440)
Q Consensus       168 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  247 (440)
                      .++++.+.+.|+.|+  ..+|+.++++|++.|++++|.++|++|.+    +|..+|+.++.+|++.|+.++|+.+|++|.
T Consensus       409 ~~l~~~~~~~g~~~~--~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~  482 (857)
T PLN03077        409 VKLHELAERKGLISY--VVVANALIEMYSKCKCIDKALEVFHNIPE----KDVISWTSIIAGLRLNNRCFEALIFFRQML  482 (857)
T ss_pred             HHHHHHHHHhCCCcc--hHHHHHHHHHHHHcCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            999999999999999  99999999999999999999999999875    578899999999999999999999999998


Q ss_pred             HcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhh
Q 047359          248 ERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFC  327 (440)
Q Consensus       248 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  327 (440)
                      . ++.||..||+.++.+|++.|+.+.+.+++..+.+.|+.++..++++++.+|++.|++++|.++|+.+     .||..+
T Consensus       483 ~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~-----~~d~~s  556 (857)
T PLN03077        483 L-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-----EKDVVS  556 (857)
T ss_pred             h-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhc-----CCChhh
Confidence            6 5899999999999999999999999999999999999999999999999999999999999999987     579999


Q ss_pred             hHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHH-HcCCC-chhhHHHHHHHHH
Q 047359          328 CSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMK-ELKVV-SSSSFVIVVSRLC  405 (440)
Q Consensus       328 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-~~~~~-~~~~~~~l~~~~~  405 (440)
                      |+.+|.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|.+.|++++|.++|+.|. +.+.. +..+|+.++.+|.
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            999999999999999999999999999999999999999999999999999999999999 66766 8899999999999


Q ss_pred             hcccHHHHHHHHHHHHHCCCCCCHHHHHHHhhhc
Q 047359          406 HLKELRKAMKNHDEMLKMGHKPDEATYKQVISGF  439 (440)
Q Consensus       406 ~~g~~~~a~~~~~~m~~~~~~p~~~t~~~ll~a~  439 (440)
                      +.|++++|.+++++|.   +.||..+|++|+.+|
T Consensus       637 r~G~~~eA~~~~~~m~---~~pd~~~~~aLl~ac  667 (857)
T PLN03077        637 RAGKLTEAYNFINKMP---ITPDPAVWGALLNAC  667 (857)
T ss_pred             hCCCHHHHHHHHHHCC---CCCCHHHHHHHHHHH
Confidence            9999999999999983   789999999999987

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

Probab=100.00  E-value=3.1e-62  Score=464.47  Aligned_cols=404  Identities=14%  Similarity=0.135  Sum_probs=325.3

Q ss_pred             CCCCCChHhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhH
Q 047359            6 EGRDSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTW   85 (440)
Q Consensus         6 ~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   85 (440)
                      .|+.||..+|+.++..|++.|++++|.++|++|.+    ||..+||.++.+|++.|++++|.++|++|.+.|+.|+..+|
T Consensus       152 ~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~----~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~  227 (697)
T PLN03081        152 SGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPE----RNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTF  227 (697)
T ss_pred             hCCCcchHHHHHHHHHHhcCCCHHHHHHHHhcCCC----CCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhH
Confidence            45555555555555555555555555555555542    45555666666666666666666666666555555566666


Q ss_pred             HHHHHHHHhcCChHHHHHHHhccc-----CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHh
Q 047359           86 SLVAQILCRSGKFEVVLGLLDSGI-----YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARR  160 (440)
Q Consensus        86 ~~l~~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~  160 (440)
                      +.++.++++.|..+.+.+++..+.     ++..+|+.|+.+|++.|++++|.++|++|.+     +|..+|+.++.+|++
T Consensus       228 ~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~-----~~~vt~n~li~~y~~  302 (697)
T PLN03081        228 VVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPE-----KTTVAWNSMLAGYAL  302 (697)
T ss_pred             HHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCC-----CChhHHHHHHHHHHh
Confidence            666666666665555555554443     6777788888899999999999999988855     688889999999999


Q ss_pred             cCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHH
Q 047359          161 YEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAI  240 (440)
Q Consensus       161 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  240 (440)
                      .|++++|.++|++|.+.|+.|+  ..+|+.++.+|++.|++++|.+++..|.+.|+.||..+|+.++.+|++.|++++|.
T Consensus       303 ~g~~~eA~~lf~~M~~~g~~pd--~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~  380 (697)
T PLN03081        303 HGYSEEALCLYYEMRDSGVSID--QFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDAR  380 (697)
T ss_pred             CCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHH
Confidence            9999999999999988888888  88899999999999999999999999998888889999999999999999999999


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHh-c
Q 047359          241 QIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLD-K  319 (440)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~  319 (440)
                      ++|++|.+    ||..+|+.++.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|++.|.+++|.++|+.|.+ .
T Consensus       381 ~vf~~m~~----~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~  456 (697)
T PLN03081        381 NVFDRMPR----KNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENH  456 (697)
T ss_pred             HHHHhCCC----CCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhc
Confidence            99988864    577889999999999999999999999999888999999999999999999999999999999875 5


Q ss_pred             CCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHH
Q 047359          320 GLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVI  399 (440)
Q Consensus       320 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  399 (440)
                      |+.|+..+|+.++.+|++.|++++|.++++++   +..|+..+|++|+.+|...|+++.|..+++++.+.+|.+..+|..
T Consensus       457 g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~---~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~~~y~~  533 (697)
T PLN03081        457 RIKPRAMHYACMIELLGREGLLDEAYAMIRRA---PFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVV  533 (697)
T ss_pred             CCCCCccchHhHHHHHHhcCCHHHHHHHHHHC---CCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCcchHH
Confidence            88889899999999999999999998887654   567888899999999999999999999998888887777888999


Q ss_pred             HHHHHHhcccHHHHHHHHHHHHHCCCCC
Q 047359          400 VVSRLCHLKELRKAMKNHDEMLKMGHKP  427 (440)
Q Consensus       400 l~~~~~~~g~~~~a~~~~~~m~~~~~~p  427 (440)
                      ++..|.+.|++++|.+++++|.+.|+.+
T Consensus       534 L~~~y~~~G~~~~A~~v~~~m~~~g~~k  561 (697)
T PLN03081        534 LLNLYNSSGRQAEAAKVVETLKRKGLSM  561 (697)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHcCCcc
Confidence            9999999999999999999999888753

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

Probab=100.00  E-value=2.6e-29  Score=250.50  Aligned_cols=417  Identities=13%  Similarity=0.070  Sum_probs=335.9

Q ss_pred             CCCChHhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHH
Q 047359            8 RDSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSL   87 (440)
Q Consensus         8 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   87 (440)
                      .++++.++..+...+...|++++|.+.|+++.+.. +.+...+..+...+...|++++|.+.++.+.+.+ +.+..++..
T Consensus       461 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~  538 (899)
T TIGR02917       461 QPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIE-PDFFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILA  538 (899)
T ss_pred             CCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHH
Confidence            34567778888888888888888888888887654 3456667777788888888888888888887754 346677888


Q ss_pred             HHHHHHhcCChHHHHHHHhccc----CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCC
Q 047359           88 VAQILCRSGKFEVVLGLLDSGI----YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEK  163 (440)
Q Consensus        88 l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  163 (440)
                      +...+.+.|+.++|...++++.    .+...+..++..+.+.|++++|..+++.+.+  ..+.+...|..+..++...|+
T Consensus       539 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~  616 (899)
T TIGR02917       539 LAGLYLRTGNEEEAVAWLEKAAELNPQEIEPALALAQYYLGKGQLKKALAILNEAAD--AAPDSPEAWLMLGRAQLAAGD  616 (899)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCccchhHHHHHHHHHHHCCCHHHHHHHHHHHHH--cCCCCHHHHHHHHHHHHHcCC
Confidence            8888888888888888888775    4455677788888888899999888888865  223456688888888889999


Q ss_pred             hhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHH
Q 047359          164 TEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIY  243 (440)
Q Consensus       164 ~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  243 (440)
                      +++|...++.+.+..  |++ ...+..+...+...|++++|...++++.+..+. +..++..+...+...|++++|.+++
T Consensus       617 ~~~A~~~~~~~~~~~--~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~  692 (899)
T TIGR02917       617 LNKAVSSFKKLLALQ--PDS-ALALLLLADAYAVMKNYAKAITSLKRALELKPD-NTEAQIGLAQLLLAAKRTESAKKIA  692 (899)
T ss_pred             HHHHHHHHHHHHHhC--CCC-hHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            999999998888754  432 567778888888999999999999988876544 5778888888888999999999999


Q ss_pred             HHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCC
Q 047359          244 HLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLL  323 (440)
Q Consensus       244 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  323 (440)
                      +.+.+..+ .+...+..+...+...|++++|...++.+...+  |+..++..+...+.+.|++++|.+.++.+.+..+. 
T Consensus       693 ~~~~~~~~-~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~~-  768 (899)
T TIGR02917       693 KSLQKQHP-KAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKTHPN-  768 (899)
T ss_pred             HHHHhhCc-CChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-
Confidence            98888764 366777888888889999999999999988764  55567778888888999999999999998877544 


Q ss_pred             chhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHH
Q 047359          324 DSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSR  403 (440)
Q Consensus       324 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  403 (440)
                      +...+..+...|...|+.++|.+.|+++.+..+ ++...+..+...+...|+ .+|+..++++.+..+.++..+..+...
T Consensus       769 ~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~  846 (899)
T TIGR02917       769 DAVLRTALAELYLAQKDYDKAIKHYRTVVKKAP-DNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILDTLGWL  846 (899)
T ss_pred             CHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHHHHHHH
Confidence            777888888899999999999999999988754 377888889999999999 889999999988887788888889999


Q ss_pred             HHhcccHHHHHHHHHHHHHCCCCCCHHHHHHHhhhc
Q 047359          404 LCHLKELRKAMKNHDEMLKMGHKPDEATYKQVISGF  439 (440)
Q Consensus       404 ~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~ll~a~  439 (440)
                      +...|++++|.+.++++++.+. .+..++..+..++
T Consensus       847 ~~~~g~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~  881 (899)
T TIGR02917       847 LVEKGEADRALPLLRKAVNIAP-EAAAIRYHLALAL  881 (899)
T ss_pred             HHHcCCHHHHHHHHHHHHhhCC-CChHHHHHHHHHH
Confidence            9999999999999999998543 2666666665443

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=6.8e-29  Score=247.54  Aligned_cols=399  Identities=14%  Similarity=0.067  Sum_probs=353.5

Q ss_pred             CCChHhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHH
Q 047359            9 DSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLV   88 (440)
Q Consensus         9 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   88 (440)
                      +.+...+..+...+...|++++|.+.|+.+.+.+ +.+..++..+...+.+.|+.++|..+++++.+.+ +.+...+..+
T Consensus       496 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l  573 (899)
T TIGR02917       496 PDFFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILALAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALAL  573 (899)
T ss_pred             CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHH
Confidence            3456677888899999999999999999999875 4578889999999999999999999999998765 4567788899


Q ss_pred             HHHHHhcCChHHHHHHHhccc----CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCC-chhhHHHHHHHHHhcCC
Q 047359           89 AQILCRSGKFEVVLGLLDSGI----YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTP-GFSTYSSILDGARRYEK  163 (440)
Q Consensus        89 ~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~  163 (440)
                      +..+...|++++|..+++.+.    .+...|..+..++...|++++|...|+++.+   ..| +...+..+..++.+.|+
T Consensus       574 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~  650 (899)
T TIGR02917       574 AQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLA---LQPDSALALLLLADAYAVMKN  650 (899)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCChHHHHHHHHHHHHcCC
Confidence            999999999999999999887    4567899999999999999999999999976   334 45678889999999999


Q ss_pred             hhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHH
Q 047359          164 TEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIY  243 (440)
Q Consensus       164 ~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  243 (440)
                      +++|...++++.+..  |++ ..++..++..+...|++++|.++++.+.+..+. +...+..+...+...|++++|...|
T Consensus       651 ~~~A~~~~~~~~~~~--~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~g~~~~A~~~~  726 (899)
T TIGR02917       651 YAKAITSLKRALELK--PDN-TEAQIGLAQLLLAAKRTESAKKIAKSLQKQHPK-AALGFELEGDLYLRQKDYPAAIQAY  726 (899)
T ss_pred             HHHHHHHHHHHHhcC--CCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcC-ChHHHHHHHHHHHHCCCHHHHHHHH
Confidence            999999999998764  443 678889999999999999999999999987654 6778888999999999999999999


Q ss_pred             HHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCC
Q 047359          244 HLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLL  323 (440)
Q Consensus       244 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  323 (440)
                      +.+...+.  +..++..+..++.+.|++++|.+.++.+.+.. +.+...+..+...|...|++++|...|+++.+..+. 
T Consensus       727 ~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~-  802 (899)
T TIGR02917       727 RKALKRAP--SSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPD-  802 (899)
T ss_pred             HHHHhhCC--CchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCC-
Confidence            99998764  44778889999999999999999999998864 567788899999999999999999999999987654 


Q ss_pred             chhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHH
Q 047359          324 DSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSR  403 (440)
Q Consensus       324 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  403 (440)
                      +...++.+...+...|+ ++|+..++++.+.... +..++..+...+...|++++|.+.++++.+.++.++.++..++.+
T Consensus       803 ~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~l~~~  880 (899)
T TIGR02917       803 NAVVLNNLAWLYLELKD-PRALEYAEKALKLAPN-IPAILDTLGWLLVEKGEADRALPLLRKAVNIAPEAAAIRYHLALA  880 (899)
T ss_pred             CHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCC-CcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCChHHHHHHHHH
Confidence            78889999999999999 8899999999986443 567788899999999999999999999999998899999999999


Q ss_pred             HHhcccHHHHHHHHHHHHH
Q 047359          404 LCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       404 ~~~~g~~~~a~~~~~~m~~  422 (440)
                      +.+.|++++|.+++++|++
T Consensus       881 ~~~~g~~~~A~~~~~~~~~  899 (899)
T TIGR02917       881 LLATGRKAEARKELDKLLN  899 (899)
T ss_pred             HHHcCCHHHHHHHHHHHhC
Confidence            9999999999999999863

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=99.94  E-value=3.4e-22  Score=200.16  Aligned_cols=394  Identities=13%  Similarity=0.065  Sum_probs=271.3

Q ss_pred             HHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCC-ChhhH------------
Q 047359           19 LDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSP-NKFTW------------   85 (440)
Q Consensus        19 i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~------------   85 (440)
                      ...+...|++++|+..|++..+.. +.+...+..+...+.+.|++++|...|++..+..... +...|            
T Consensus       276 G~~~~~~g~~~~A~~~l~~aL~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~  354 (1157)
T PRK11447        276 GLAAVDSGQGGKAIPELQQAVRAN-PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLL  354 (1157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHH
Confidence            455677899999999999998865 3477888889999999999999999999988754221 11112            


Q ss_pred             HHHHHHHHhcCChHHHHHHHhccc----CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCc-hhhHHHHHHH---
Q 047359           86 SLVAQILCRSGKFEVVLGLLDSGI----YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPG-FSTYSSILDG---  157 (440)
Q Consensus        86 ~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~---  157 (440)
                      ......+.+.|++++|+..|++..    .+...+..+...+...|++++|++.|++..+   ..|+ ...+..+...   
T Consensus       355 ~~~g~~~~~~g~~~eA~~~~~~Al~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~---~~p~~~~a~~~L~~l~~~  431 (1157)
T PRK11447        355 IQQGDAALKANNLAQAERLYQQARQVDNTDSYAVLGLGDVAMARKDYAAAERYYQQALR---MDPGNTNAVRGLANLYRQ  431 (1157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHh
Confidence            122446678899999999999877    3455677888999999999999999999876   3444 2233333333   


Q ss_pred             ---------------------------------------HHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhc
Q 047359          158 ---------------------------------------ARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDM  198 (440)
Q Consensus       158 ---------------------------------------~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  198 (440)
                                                             +...|++++|.+.+++.++..  |++ ...+..+...|.+.
T Consensus       432 ~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~--P~~-~~~~~~LA~~~~~~  508 (1157)
T PRK11447        432 QSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD--PGS-VWLTYRLAQDLRQA  508 (1157)
T ss_pred             cCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCC-HHHHHHHHHHHHHc
Confidence                                                   334455566666666555543  332 34445555666666


Q ss_pred             CcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCCh---------hhHHHHHHHHHhcC
Q 047359          199 GKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRD---------SDYYAFVNVLCKEH  269 (440)
Q Consensus       199 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---------~~~~~l~~~~~~~~  269 (440)
                      |++++|...++++.+..+. +...+..+...+...++.++|+..++.+......++.         ..+......+...|
T Consensus       509 G~~~~A~~~l~~al~~~P~-~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G  587 (1157)
T PRK11447        509 GQRSQADALMRRLAQQKPN-DPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSG  587 (1157)
T ss_pred             CCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCC
Confidence            6666666666665544332 3333333333444556666666655554322111111         11223445566777


Q ss_pred             ChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHH
Q 047359          270 QPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHI  349 (440)
Q Consensus       270 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  349 (440)
                      +.++|..+++.     .+++...+..+...+.+.|++++|+..|+++.+..+. +...+..++..|...|++++|++.++
T Consensus       588 ~~~eA~~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~-~~~a~~~la~~~~~~g~~~eA~~~l~  661 (1157)
T PRK11447        588 KEAEAEALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPG-NADARLGLIEVDIAQGDLAAARAQLA  661 (1157)
T ss_pred             CHHHHHHHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            77777777661     2445566778888899999999999999999987654 67788899999999999999999999


Q ss_pred             HHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC-ch-----hhHHHHHHHHHhcccHHHHHHHHHHHHH-
Q 047359          350 KIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV-SS-----SSFVIVVSRLCHLKELRKAMKNHDEMLK-  422 (440)
Q Consensus       350 ~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~-----~~~~~l~~~~~~~g~~~~a~~~~~~m~~-  422 (440)
                      .+.+.... +...+..+..++...|++++|.++++++....+. ++     ..+..+...+...|++++|+..|++.+. 
T Consensus       662 ~ll~~~p~-~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~~  740 (1157)
T PRK11447        662 KLPATAND-SLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMVA  740 (1157)
T ss_pred             HHhccCCC-ChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            88765332 4556777888889999999999999999877654 22     3556667888899999999999998864 


Q ss_pred             CCCCC
Q 047359          423 MGHKP  427 (440)
Q Consensus       423 ~~~~p  427 (440)
                      .|+.|
T Consensus       741 ~~~~~  745 (1157)
T PRK11447        741 SGITP  745 (1157)
T ss_pred             cCCCC
Confidence            44443

>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=99.94  E-value=1e-21  Score=185.09  Aligned_cols=401  Identities=10%  Similarity=-0.046  Sum_probs=296.7

Q ss_pred             HHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 047359           15 LSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCR   94 (440)
Q Consensus        15 ~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   94 (440)
                      +......+.+.|++++|+..|++..+.  .|+...|..+..++.+.|++++|++.++..++.. +.+...+..+..+|..
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~  206 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDG  206 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHH
Confidence            445667888899999999999999875  4778889999999999999999999999998864 3356788889999999


Q ss_pred             cCChHHHHHHHhccc--C--CchhHHHHHHHHHhcCChhHHHHHHHHHhc--------------------------CCCC
Q 047359           95 SGKFEVVLGLLDSGI--Y--SSVMYNLVIDFYSKKGDFGAAFDRLNEMCN--------------------------GRNL  144 (440)
Q Consensus        95 ~~~~~~a~~~~~~~~--~--~~~~~~~li~~~~~~~~~~~a~~~~~~~~~--------------------------~~~~  144 (440)
                      .|++++|+.-|....  +  +......++..+........+...+..-..                          ....
T Consensus       207 lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  286 (615)
T TIGR00990       207 LGKYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNEL  286 (615)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhccccc
Confidence            999999988776543  1  111111111111110001111111110000                          0000


Q ss_pred             CCch-hhHHHHHHH---HHhcCChhhHHHHHHHHHhcC-CCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCC
Q 047359          145 TPGF-STYSSILDG---ARRYEKTEVSDRIVGLMVEKK-LLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQ  219 (440)
Q Consensus       145 ~p~~-~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  219 (440)
                      .|+. ..+..+...   ....+++++|.+.|+...+.+ ..|+. ...+..+...+...|++++|...+++..+..+. +
T Consensus       287 ~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~-a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P~-~  364 (615)
T TIGR00990       287 DEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKE-AIALNLRGTFKCLKGKHLEALADLSKSIELDPR-V  364 (615)
T ss_pred             ccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhh-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-c
Confidence            1110 011111100   112367899999999998865 23432 567888889999999999999999999887543 4


Q ss_pred             HHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 047359          220 DDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVAS  299 (440)
Q Consensus       220 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  299 (440)
                      ...|..+...+...|++++|...|+...+.... +...+..+...+...|++++|...|+...+.. +.+...+..+...
T Consensus       365 ~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~  442 (615)
T TIGR00990       365 TQSYIKRASMNLELGDPDKAEEDFDKALKLNSE-DPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVT  442 (615)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHH
Confidence            667888889999999999999999999887543 57788889999999999999999999998864 3456677788888


Q ss_pred             HHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHH------hHHHHHHHHHhc
Q 047359          300 QCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVA------TYDVLLDGLFKD  373 (440)
Q Consensus       300 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~------~~~~l~~~~~~~  373 (440)
                      +.+.|++++|+..+++..+..+. +...++.+...+...|++++|++.|++..+.....+..      .++.....+...
T Consensus       443 ~~~~g~~~eA~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~  521 (615)
T TIGR00990       443 QYKEGSIASSMATFRRCKKNFPE-APDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWK  521 (615)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHh
Confidence            99999999999999999876433 67788899999999999999999999998754321111      112222334457


Q ss_pred             CcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHC
Q 047359          374 GRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKM  423 (440)
Q Consensus       374 g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  423 (440)
                      |++++|.+++++..+.++.+..++..++..+.+.|++++|++.|++..+.
T Consensus       522 ~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l  571 (615)
T TIGR00990       522 QDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALKLFERAAEL  571 (615)
T ss_pred             hhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            99999999999999988888889999999999999999999999998873

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

Probab=99.93  E-value=4.6e-23  Score=177.41  Aligned_cols=368  Identities=14%  Similarity=0.078  Sum_probs=297.0

Q ss_pred             hHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHhccc---CCchhH-HHHHHHH
Q 047359           47 VSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGI---YSSVMY-NLVIDFY  122 (440)
Q Consensus        47 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~-~~li~~~  122 (440)
                      ..+|..+...+-..|++++|+.+++.+++.. +-....|..+..++...|+.+.|.+.|.+..   |+.... +.+...+
T Consensus       116 ae~ysn~aN~~kerg~~~~al~~y~~aiel~-p~fida~inla~al~~~~~~~~a~~~~~~alqlnP~l~ca~s~lgnLl  194 (966)
T KOG4626|consen  116 AEAYSNLANILKERGQLQDALALYRAAIELK-PKFIDAYINLAAALVTQGDLELAVQCFFEALQLNPDLYCARSDLGNLL  194 (966)
T ss_pred             HHHHHHHHHHHHHhchHHHHHHHHHHHHhcC-chhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcCcchhhhhcchhHHH
Confidence            3567778888888889999999999888763 2256788888888999999998888887766   554443 3344455


Q ss_pred             HhcCChhHHHHHHHHHhcCCCCCCc-hhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcH
Q 047359          123 SKKGDFGAAFDRLNEMCNGRNLTPG-FSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKT  201 (440)
Q Consensus       123 ~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  201 (440)
                      ...|++++|...|.+..+   ..|. ...|+.|...+...|+.-.|+..|++..+.+  |+ +...|..|...|...+.+
T Consensus       195 ka~Grl~ea~~cYlkAi~---~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkld--P~-f~dAYiNLGnV~ke~~~~  268 (966)
T KOG4626|consen  195 KAEGRLEEAKACYLKAIE---TQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLD--PN-FLDAYINLGNVYKEARIF  268 (966)
T ss_pred             HhhcccchhHHHHHHHHh---hCCceeeeehhcchHHhhcchHHHHHHHHHHhhcCC--Cc-chHHHhhHHHHHHHHhcc
Confidence            567888889888888866   4554 3477888888888899999999999888754  54 377888899999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHH
Q 047359          202 YAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDV  281 (440)
Q Consensus       202 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  281 (440)
                      +.|...+.+.....+. ....+..+...|...|..+.|+..|++..+..+. -...|+.+..++-..|++.+|...+...
T Consensus       269 d~Avs~Y~rAl~lrpn-~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~-F~~Ay~NlanALkd~G~V~ea~~cYnka  346 (966)
T KOG4626|consen  269 DRAVSCYLRALNLRPN-HAVAHGNLACIYYEQGLLDLAIDTYKRALELQPN-FPDAYNNLANALKDKGSVTEAVDCYNKA  346 (966)
T ss_pred             hHHHHHHHHHHhcCCc-chhhccceEEEEeccccHHHHHHHHHHHHhcCCC-chHHHhHHHHHHHhccchHHHHHHHHHH
Confidence            9999888887765443 4567777888888999999999999998887544 3567899999999999999999999998


Q ss_pred             HHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcC-H
Q 047359          282 VERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLD-V  360 (440)
Q Consensus       282 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~-~  360 (440)
                      .... +......+.|...+...|.++.|..+|....+-.+. -...++.|...|-..|++++|+..+++.++  ++|+ .
T Consensus       347 L~l~-p~hadam~NLgni~~E~~~~e~A~~ly~~al~v~p~-~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fA  422 (966)
T KOG4626|consen  347 LRLC-PNHADAMNNLGNIYREQGKIEEATRLYLKALEVFPE-FAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFA  422 (966)
T ss_pred             HHhC-CccHHHHHHHHHHHHHhccchHHHHHHHHHHhhChh-hhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHH
Confidence            8763 345567888899999999999999999988875333 345678888899999999999999999887  5565 4


Q ss_pred             HhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCH
Q 047359          361 ATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDE  429 (440)
Q Consensus       361 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~  429 (440)
                      ..|+.+...|-..|+++.|++.+.++...+|.-..+++.|...|...|+..+|++-+++.++  ++||.
T Consensus       423 da~~NmGnt~ke~g~v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLk--lkPDf  489 (966)
T KOG4626|consen  423 DALSNMGNTYKEMGDVSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALK--LKPDF  489 (966)
T ss_pred             HHHHhcchHHHHhhhHHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHc--cCCCC
Confidence            58888999999999999999999999998888888899999999999999999999999888  67875

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

Probab=99.93  E-value=1.1e-22  Score=175.00  Aligned_cols=380  Identities=16%  Similarity=0.156  Sum_probs=324.3

Q ss_pred             ChHhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhH-HHHH
Q 047359           11 QSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTW-SLVA   89 (440)
Q Consensus        11 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~   89 (440)
                      -..+|+.+...+...|++++|+.+++.+.+.. +.....|..+..++...|+.+.|.+.|.+.++.  .|+.... ..+.
T Consensus       115 ~ae~ysn~aN~~kerg~~~~al~~y~~aiel~-p~fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~lg  191 (966)
T KOG4626|consen  115 GAEAYSNLANILKERGQLQDALALYRAAIELK-PKFIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDLG  191 (966)
T ss_pred             HHHHHHHHHHHHHHhchHHHHHHHHHHHHhcC-chhhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--Ccchhhhhcchh
Confidence            35788889999999999999999999999875 346889999999999999999999999999885  5665543 3455


Q ss_pred             HHHHhcCChHHHHHHHhccc---CC-chhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCch-hhHHHHHHHHHhcCCh
Q 047359           90 QILCRSGKFEVVLGLLDSGI---YS-SVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGF-STYSSILDGARRYEKT  164 (440)
Q Consensus        90 ~~~~~~~~~~~a~~~~~~~~---~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~  164 (440)
                      ..+-..|++.+|...+.+..   |. ..+|+.|...+...|+...|+..|++..+   +.|+- ..|..|...|...+.+
T Consensus       192 nLlka~Grl~ea~~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvk---ldP~f~dAYiNLGnV~ke~~~~  268 (966)
T KOG4626|consen  192 NLLKAEGRLEEAKACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVK---LDPNFLDAYINLGNVYKEARIF  268 (966)
T ss_pred             HHHHhhcccchhHHHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhc---CCCcchHHHhhHHHHHHHHhcc
Confidence            55666899999999988766   43 35699999999999999999999999977   77764 4888999999999999


Q ss_pred             hhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHH
Q 047359          165 EVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYH  244 (440)
Q Consensus       165 ~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  244 (440)
                      ++|...+.+.....  |+. ..++..+...|...|+++.|++.+++..+..+. -+..|+.|..++-..|++.+|.+.|.
T Consensus       269 d~Avs~Y~rAl~lr--pn~-A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~-F~~Ay~NlanALkd~G~V~ea~~cYn  344 (966)
T KOG4626|consen  269 DRAVSCYLRALNLR--PNH-AVAHGNLACIYYEQGLLDLAIDTYKRALELQPN-FPDAYNNLANALKDKGSVTEAVDCYN  344 (966)
T ss_pred             hHHHHHHHHHHhcC--Ccc-hhhccceEEEEeccccHHHHHHHHHHHHhcCCC-chHHHhHHHHHHHhccchHHHHHHHH
Confidence            99999999887643  664 777888888999999999999999999987554 46789999999999999999999999


Q ss_pred             HHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCc
Q 047359          245 LISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLD  324 (440)
Q Consensus       245 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  324 (440)
                      +....... .....+.+...+...|.+++|..+|....+.. +--...++.|...|-++|++++|...+++..+.  +|+
T Consensus       345 kaL~l~p~-hadam~NLgni~~E~~~~e~A~~ly~~al~v~-p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI--~P~  420 (966)
T KOG4626|consen  345 KALRLCPN-HADAMNNLGNIYREQGKIEEATRLYLKALEVF-PEFAAAHNNLASIYKQQGNLDDAIMCYKEALRI--KPT  420 (966)
T ss_pred             HHHHhCCc-cHHHHHHHHHHHHHhccchHHHHHHHHHHhhC-hhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhc--Cch
Confidence            99887543 46678889999999999999999999998753 334557888999999999999999999999885  444


Q ss_pred             -hhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHH
Q 047359          325 -SFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSR  403 (440)
Q Consensus       325 -~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  403 (440)
                       ...|+.+...|-..|+.+.|.+.+.+.+..++. -...++.|...|-..|++.+|+.-++...+..|..+.++..++.+
T Consensus       421 fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~nPt-~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA~cNllh~  499 (966)
T KOG4626|consen  421 FADALSNMGNTYKEMGDVSAAIQCYTRAIQINPT-FAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDAYCNLLHC  499 (966)
T ss_pred             HHHHHHhcchHHHHhhhHHHHHHHHHHHHhcCcH-HHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchhhhHHHHH
Confidence             457888999999999999999999999985432 356889999999999999999999999999999988888877776


Q ss_pred             HH
Q 047359          404 LC  405 (440)
Q Consensus       404 ~~  405 (440)
                      +-
T Consensus       500 lq  501 (966)
T KOG4626|consen  500 LQ  501 (966)
T ss_pred             HH
Confidence            54

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.93  E-value=1.6e-22  Score=181.29  Aligned_cols=304  Identities=14%  Similarity=0.063  Sum_probs=222.6

Q ss_pred             HHHHHhcCChhHHHHHHHHHhcCCCCCCc-hhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCc-ccccchHHHHHHHh
Q 047359          119 IDFYSKKGDFGAAFDRLNEMCNGRNLTPG-FSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPK-HFLSGNDYVIQKLS  196 (440)
Q Consensus       119 i~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~~l~~~~~  196 (440)
                      ...+...|++++|...|.++.+   ..|+ ..++..+...+...|++++|..+++.+...+..+. .....+..++..|.
T Consensus        42 g~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~  118 (389)
T PRK11788         42 GLNFLLNEQPDKAIDLFIEMLK---VDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYL  118 (389)
T ss_pred             HHHHHhcCChHHHHHHHHHHHh---cCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHH
Confidence            3345667788888888888866   3343 44677777778888888888888887776532211 00245667788888


Q ss_pred             hcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCCh----hhHHHHHHHHHhcCChH
Q 047359          197 DMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRD----SDYYAFVNVLCKEHQPE  272 (440)
Q Consensus       197 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~  272 (440)
                      +.|++++|..+|+++.+..+ ++..++..++..+.+.|++++|.+.++.+.+.+..+..    ..+..+...+.+.|+++
T Consensus       119 ~~g~~~~A~~~~~~~l~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~  197 (389)
T PRK11788        119 KAGLLDRAEELFLQLVDEGD-FAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLD  197 (389)
T ss_pred             HCCCHHHHHHHHHHHHcCCc-chHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHH
Confidence            88888888888888876533 35677888888888888888888888888776543321    23455666777888899


Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHH
Q 047359          273 EVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIE  352 (440)
Q Consensus       273 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  352 (440)
                      +|...++++.+.. +.+...+..+...+.+.|++++|.+.++++...++.....+++.++.+|...|++++|.+.++++.
T Consensus       198 ~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~  276 (389)
T PRK11788        198 AARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRAL  276 (389)
T ss_pred             HHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9998888887753 334556777788888889999999999988876444335567788888889999999999998888


Q ss_pred             hccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHh---cccHHHHHHHHHHHHHCCCCCCH
Q 047359          353 KLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCH---LKELRKAMKNHDEMLKMGHKPDE  429 (440)
Q Consensus       353 ~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~---~g~~~~a~~~~~~m~~~~~~p~~  429 (440)
                      +.  .|+...+..++..+.+.|++++|..+++++.+..|.+. .+..++..+..   .|+.++++.++++|.+.++.|+.
T Consensus       277 ~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~-~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p  353 (389)
T PRK11788        277 EE--YPGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLR-GFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKP  353 (389)
T ss_pred             Hh--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHH-HHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCC
Confidence            75  35556667888888899999999999988888765543 55555655553   55888899999988887766665


Q ss_pred             H
Q 047359          430 A  430 (440)
Q Consensus       430 ~  430 (440)
                      .
T Consensus       354 ~  354 (389)
T PRK11788        354 R  354 (389)
T ss_pred             C
Confidence            3

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.93  E-value=1.4e-22  Score=181.64  Aligned_cols=298  Identities=11%  Similarity=0.016  Sum_probs=195.5

Q ss_pred             HHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHhccc--CC------chhHHHHHHHHHhcCC
Q 047359           56 ALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGI--YS------SVMYNLVIDFYSKKGD  127 (440)
Q Consensus        56 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--~~------~~~~~~li~~~~~~~~  127 (440)
                      .+...|++++|...|+++.+.+ +.+..++..+...+...|++++|..+++.+.  ++      ...+..+...|.+.|+
T Consensus        44 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~  122 (389)
T PRK11788         44 NFLLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGL  122 (389)
T ss_pred             HHHhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCC
Confidence            4456677778888888877753 2345567777777777777777777777665  21      1346677777888888


Q ss_pred             hhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcc--cccchHHHHHHHhhcCcHHHHH
Q 047359          128 FGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKH--FLSGNDYVIQKLSDMGKTYAAE  205 (440)
Q Consensus       128 ~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~  205 (440)
                      +++|..+|+++.+ . .+++..++..++..+.+.|++++|.+.++.+.+.+..+..  ....+..+...+.+.|++++|.
T Consensus       123 ~~~A~~~~~~~l~-~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  200 (389)
T PRK11788        123 LDRAEELFLQLVD-E-GDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAAR  200 (389)
T ss_pred             HHHHHHHHHHHHc-C-CcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHH
Confidence            8888888888865 2 2234567777788888888888888888887775532221  0113345566667777777777


Q ss_pred             HHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 047359          206 MIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERG  285 (440)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  285 (440)
                      ..++++.+..+. +...+..+...+.+.|++++|.++++++.+.+......++..++.+|...|++++|...++.+.+..
T Consensus       201 ~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~  279 (389)
T PRK11788        201 ALLKKALAADPQ-CVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEY  279 (389)
T ss_pred             HHHHHHHhHCcC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            777777665432 3456666667777777777777777777665433234456666777777777777777777766642


Q ss_pred             CCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHc---CCcHHHHHHHHHHHHhccCCcCHH
Q 047359          286 YIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCS---NRQIDKAIALHIKIEKLKGSLDVA  361 (440)
Q Consensus       286 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~p~~~  361 (440)
                        |+...+..++..+.+.|++++|..+++++.+.  .|+...++.++..+..   .|+.+++..+++++.+.++.|++.
T Consensus       280 --p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        280 --PGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             --CCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC
Confidence              45455566667777777777777777776654  4566666666655543   346677777777777666555544

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.92  E-value=9.2e-21  Score=181.73  Aligned_cols=414  Identities=12%  Similarity=0.023  Sum_probs=313.7

Q ss_pred             CCCChHhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHH
Q 047359            8 RDSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSL   87 (440)
Q Consensus         8 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   87 (440)
                      -+.++....-.+......|+.++|+++++...... +.+...+..+...+...|++++|.+++++..+.. +.+...+..
T Consensus        11 ~~~~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~   88 (765)
T PRK10049         11 SALSNNQIADWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRG   88 (765)
T ss_pred             cCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHH
Confidence            34556666677888899999999999999998633 4556678999999999999999999999998763 345677888


Q ss_pred             HHHHHHhcCChHHHHHHHhccc---CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCch-hhHHHHHHHHHhcCC
Q 047359           88 VAQILCRSGKFEVVLGLLDSGI---YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGF-STYSSILDGARRYEK  163 (440)
Q Consensus        88 l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~  163 (440)
                      +..++...|+.++|+..+++..   |+...+..+..++...|+.++|+..++++.+   ..|+. ..+..+..++...+.
T Consensus        89 la~~l~~~g~~~eA~~~l~~~l~~~P~~~~~~~la~~l~~~g~~~~Al~~l~~al~---~~P~~~~~~~~la~~l~~~~~  165 (765)
T PRK10049         89 LILTLADAGQYDEALVKAKQLVSGAPDKANLLALAYVYKRAGRHWDELRAMTQALP---RAPQTQQYPTEYVQALRNNRL  165 (765)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHCCC
Confidence            8899999999999999999987   4333388888899999999999999999987   55654 455667778888899


Q ss_pred             hhhHHHHHHHHHhcCCCCccc----ccchHHHHHHHh-----hcCcH---HHHHHHHHHHHhc-CCCCCHH-hH----HH
Q 047359          164 TEVSDRIVGLMVEKKLLPKHF----LSGNDYVIQKLS-----DMGKT---YAAEMIFKRACDE-KIELQDD-TC----GC  225 (440)
Q Consensus       164 ~~~a~~~~~~~~~~~~~~~~~----~~~~~~l~~~~~-----~~~~~---~~a~~~~~~~~~~-~~~~~~~-~~----~~  225 (440)
                      .+.|.+.++....   .|+..    ......++....     ..+++   ++|+..++.+.+. ...|+.. .+    ..
T Consensus       166 ~e~Al~~l~~~~~---~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d  242 (765)
T PRK10049        166 SAPALGAIDDANL---TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARID  242 (765)
T ss_pred             hHHHHHHHHhCCC---CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHH
Confidence            9999998876654   12200    001112222222     22234   7788888888754 2222221 11    11


Q ss_pred             HHHHHhhhccHHHHHHHHHHHHHcCCC-CChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC---ChhhHHHHHHHHH
Q 047359          226 MLKALSKEGRVKEAIQIYHLISERGIT-VRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIP---CAMELSRFVASQC  301 (440)
Q Consensus       226 l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~  301 (440)
                      .+..+...|++++|+..|+.+.+.+.. |+. ....+..++...|++++|..+++.+.+.....   .......+..++.
T Consensus       243 ~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~  321 (765)
T PRK10049        243 RLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLL  321 (765)
T ss_pred             HHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHH
Confidence            134456779999999999999987643 322 22335778999999999999999987653111   1234566677788


Q ss_pred             cCCCHHHHHHHHHHHHhcCC-----------CCc---hhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHH
Q 047359          302 GKGKWKEVEELLSAVLDKGL-----------LLD---SFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLL  367 (440)
Q Consensus       302 ~~~~~~~a~~~~~~~~~~~~-----------~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~  367 (440)
                      ..|++++|..+++.+....+           .|+   ...+..+...+...|+.++|++.++++....+. +...+..+.
T Consensus       322 ~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~-n~~l~~~lA  400 (765)
T PRK10049        322 ESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNAPG-NQGLRIDYA  400 (765)
T ss_pred             hcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHH
Confidence            99999999999999987632           122   124456777889999999999999999887544 678889999


Q ss_pred             HHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHHHHH
Q 047359          368 DGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYK  433 (440)
Q Consensus       368 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~  433 (440)
                      ..+...|++++|++.++++.+..|.+...+...+..+.+.|++++|..+++++++  ..|+.....
T Consensus       401 ~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~--~~Pd~~~~~  464 (765)
T PRK10049        401 SVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVA--REPQDPGVQ  464 (765)
T ss_pred             HHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHH--hCCCCHHHH
Confidence            9999999999999999999999988888999999999999999999999999998  467765443

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.92  E-value=6.1e-20  Score=184.15  Aligned_cols=223  Identities=12%  Similarity=0.059  Sum_probs=111.6

Q ss_pred             HHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCC-hhhH------------H
Q 047359          193 QKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVR-DSDY------------Y  259 (440)
Q Consensus       193 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~------------~  259 (440)
                      ..+...|++++|+..|++..+..+. +...+..+..++.+.|++++|+..|++..+...... ...+            .
T Consensus       277 ~~~~~~g~~~~A~~~l~~aL~~~P~-~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~  355 (1157)
T PRK11447        277 LAAVDSGQGGKAIPELQQAVRANPK-DSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLI  355 (1157)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHH
Confidence            3445556666666666666654433 455556666666666666666666666655432211 1111            1


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHH-----
Q 047359          260 AFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEY-----  334 (440)
Q Consensus       260 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-----  334 (440)
                      .....+.+.|++++|...++++.+.. +.+...+..+...+...|++++|++.|+++.+..+. +...+..+...     
T Consensus       356 ~~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~-~~~a~~~L~~l~~~~~  433 (1157)
T PRK11447        356 QQGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPG-NTNAVRGLANLYRQQS  433 (1157)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcC
Confidence            11233455666666666666666543 223444555556666666666666666666554322 23333333333     


Q ss_pred             -------------------------------------HHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHH
Q 047359          335 -------------------------------------YCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRME  377 (440)
Q Consensus       335 -------------------------------------~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  377 (440)
                                                           +...|++++|++.+++..+..+. +...+..+...|.+.|+++
T Consensus       434 ~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~-~~~~~~~LA~~~~~~G~~~  512 (1157)
T PRK11447        434 PEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPG-SVWLTYRLAQDLRQAGQRS  512 (1157)
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHH
Confidence                                                 33445555555555555443222 3334444444555555555


Q ss_pred             HHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHH
Q 047359          378 EAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDE  419 (440)
Q Consensus       378 ~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  419 (440)
                      +|...++++.+..|.++..+..+...+...|++++|+..+++
T Consensus       513 ~A~~~l~~al~~~P~~~~~~~a~al~l~~~~~~~~Al~~l~~  554 (1157)
T PRK11447        513 QADALMRRLAQQKPNDPEQVYAYGLYLSGSDRDRAALAHLNT  554 (1157)
T ss_pred             HHHHHHHHHHHcCCCCHHHHHHHHHHHHhCCCHHHHHHHHHh
Confidence            555555555444444444444444444444555555554444

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.92  E-value=5.2e-20  Score=172.90  Aligned_cols=358  Identities=11%  Similarity=0.015  Sum_probs=240.6

Q ss_pred             HccCCcchHHHHHHHHHhcC--CccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHH
Q 047359           23 SHKGLFMDGLEVYRMMRVYG--FVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEV  100 (440)
Q Consensus        23 ~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  100 (440)
                      .++.+++.---+|....+.-  -..+..-...++..+.+.|++++|..+++........ +...+..++.+....|+++.
T Consensus        16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~-~~~~l~~l~~~~l~~g~~~~   94 (656)
T PRK15174         16 LKQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKN-GRDLLRRWVISPLASSQPDA   94 (656)
T ss_pred             hhhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCC-chhHHHHHhhhHhhcCCHHH
Confidence            34455555444444433210  0112233445566677778888888888877765322 34455555566667788888


Q ss_pred             HHHHHhccc---C-CchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCc-hhhHHHHHHHHHhcCChhhHHHHHHHHH
Q 047359          101 VLGLLDSGI---Y-SSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPG-FSTYSSILDGARRYEKTEVSDRIVGLMV  175 (440)
Q Consensus       101 a~~~~~~~~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~  175 (440)
                      |...++++.   | +...+..+...+.+.|++++|...+++..+   +.|+ ...+..+...+...|++++|...++.+.
T Consensus        95 A~~~l~~~l~~~P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~---l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~  171 (656)
T PRK15174         95 VLQVVNKLLAVNVCQPEDVLLVASVLLKSKQYATVADLAEQAWL---AFSGNSQIFALHLRTLVLMDKELQAISLARTQA  171 (656)
T ss_pred             HHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHH
Confidence            888887776   3 445677777778888888888888888866   4454 4466677777888888888888887776


Q ss_pred             hcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCCh
Q 047359          176 EKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRD  255 (440)
Q Consensus       176 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  255 (440)
                      .....+   ...+..+ ..+...|++++|...++.+.+....++...+..+..++...|++++|...+++..+.... +.
T Consensus       172 ~~~P~~---~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~-~~  246 (656)
T PRK15174        172 QEVPPR---GDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLD-GA  246 (656)
T ss_pred             HhCCCC---HHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-CH
Confidence            654222   2233333 346777888888888888776654444445555566777788888888888888776533 55


Q ss_pred             hhHHHHHHHHHhcCChHH----HHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHH
Q 047359          256 SDYYAFVNVLCKEHQPEE----VCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSL  331 (440)
Q Consensus       256 ~~~~~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  331 (440)
                      ..+..+...+...|++++    |...++.+.+.. +.+...+..+...+...|++++|...+++.....+. +...+..+
T Consensus       247 ~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~-~~~a~~~L  324 (656)
T PRK15174        247 ALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPD-LPYVRAMY  324 (656)
T ss_pred             HHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHH
Confidence            667777778888888775    678888877653 335567777778888888888888888888776543 45566677


Q ss_pred             HHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC
Q 047359          332 MEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV  392 (440)
Q Consensus       332 ~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  392 (440)
                      ..++...|++++|...++++.+.++. +...+..+..++...|+.++|...|+++.+..|.
T Consensus       325 a~~l~~~G~~~eA~~~l~~al~~~P~-~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~  384 (656)
T PRK15174        325 ARALRQVGQYTAASDEFVQLAREKGV-TSKWNRYAAAALLQAGKTSEAESVFEHYIQARAS  384 (656)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChh
Confidence            77888888888888888888765332 2233344566777888888888888888777666

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.92  E-value=4e-20  Score=173.69  Aligned_cols=330  Identities=10%  Similarity=0.022  Sum_probs=268.1

Q ss_pred             HHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 047359           15 LSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCR   94 (440)
Q Consensus        15 ~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   94 (440)
                      .-.++..+.+.|++++|..+++....... -+...+..++.+....|+++.|...++++.+.. +.+...+..+...+..
T Consensus        45 ~~~~~~~~~~~g~~~~A~~l~~~~l~~~p-~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~-P~~~~a~~~la~~l~~  122 (656)
T PRK15174         45 IILFAIACLRKDETDVGLTLLSDRVLTAK-NGRDLLRRWVISPLASSQPDAVLQVVNKLLAVN-VCQPEDVLLVASVLLK  122 (656)
T ss_pred             HHHHHHHHHhcCCcchhHHHhHHHHHhCC-CchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHH
Confidence            34467788899999999999999998753 345566666677788999999999999998864 3366788889999999


Q ss_pred             cCChHHHHHHHhccc---C-CchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchh-hHHHHHHHHHhcCChhhHHH
Q 047359           95 SGKFEVVLGLLDSGI---Y-SSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFS-TYSSILDGARRYEKTEVSDR  169 (440)
Q Consensus        95 ~~~~~~a~~~~~~~~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~  169 (440)
                      .|++++|...+++..   | +...+..+...+...|++++|...++.+..   ..|+.. .+..+ ..+...|++++|..
T Consensus       123 ~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~---~~P~~~~a~~~~-~~l~~~g~~~eA~~  198 (656)
T PRK15174        123 SKQYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLARTQAQ---EVPPRGDMIATC-LSFLNKSRLPEDHD  198 (656)
T ss_pred             cCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHH---hCCCCHHHHHHH-HHHHHcCCHHHHHH
Confidence            999999999999987   3 456788899999999999999999998865   334333 33333 34788999999999


Q ss_pred             HHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHH----HHHHHHH
Q 047359          170 IVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKE----AIQIYHL  245 (440)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~----a~~~~~~  245 (440)
                      .++.+.+....++  ......+...+.+.|++++|...+++.....+. +...+..+...+...|++++    |...|++
T Consensus       199 ~~~~~l~~~~~~~--~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~-~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~  275 (656)
T PRK15174        199 LARALLPFFALER--QESAGLAVDTLCAVGKYQEAIQTGESALARGLD-GAALRRSLGLAYYQSGRSREAKLQAAEHWRH  275 (656)
T ss_pred             HHHHHHhcCCCcc--hhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcCCchhhHHHHHHHHHH
Confidence            9999887653333  444555678899999999999999999987655 67788889999999999986    8999999


Q ss_pred             HHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCch
Q 047359          246 ISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDS  325 (440)
Q Consensus       246 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  325 (440)
                      ..+..+. +...+..+...+...|++++|...++...+.. +.+...+..+...+...|++++|...++.+...++. +.
T Consensus       276 Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~-P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~-~~  352 (656)
T PRK15174        276 ALQFNSD-NVRIVTLYADALIRTGQNEKAIPLLQQSLATH-PDLPYVRAMYARALRQVGQYTAASDEFVQLAREKGV-TS  352 (656)
T ss_pred             HHhhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-ch
Confidence            9887643 67788999999999999999999999999864 334566777888999999999999999999876433 22


Q ss_pred             hhhHHHHHHHHcCCcHHHHHHHHHHHHhccC
Q 047359          326 FCCSSLMEYYCSNRQIDKAIALHIKIEKLKG  356 (440)
Q Consensus       326 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  356 (440)
                      ..+..+..++...|+.++|...|++..+..+
T Consensus       353 ~~~~~~a~al~~~G~~deA~~~l~~al~~~P  383 (656)
T PRK15174        353 KWNRYAAAALLQAGKTSEAESVFEHYIQARA  383 (656)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCh
Confidence            3344456788999999999999999987643

>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=5.4e-19  Score=166.67  Aligned_cols=376  Identities=11%  Similarity=-0.051  Sum_probs=278.0

Q ss_pred             CCCChHhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHH
Q 047359            8 RDSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSL   87 (440)
Q Consensus         8 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   87 (440)
                      ..|+...|..+..+|.+.|++++|++.++...+.. +.+...|..+..++...|++++|..-|......+...+.. ...
T Consensus       156 ~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~lg~~~eA~~~~~~~~~~~~~~~~~-~~~  233 (615)
T TIGR00990       156 CKPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDGLGKYADALLDLTASCIIDGFRNEQ-SAQ  233 (615)
T ss_pred             cCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccHH-HHH
Confidence            45788889999999999999999999999999875 4467789999999999999999998887665432111111 111


Q ss_pred             HHHHHHhcCChHHHHHHHhcccCCch---------------------------------hHHHHHHHH---HhcCChhHH
Q 047359           88 VAQILCRSGKFEVVLGLLDSGIYSSV---------------------------------MYNLVIDFY---SKKGDFGAA  131 (440)
Q Consensus        88 l~~~~~~~~~~~~a~~~~~~~~~~~~---------------------------------~~~~li~~~---~~~~~~~~a  131 (440)
                      ++..+........+...++.-.++..                                 .+..+...+   ...+++++|
T Consensus       234 ~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~e~~~~~~y~~A  313 (615)
T TIGR00990       234 AVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNELDEETGNGQLQLGLKSPESKADESYEEA  313 (615)
T ss_pred             HHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhcccccccccccchHHHHHHHHHhhhhhhHHHH
Confidence            11111111111222222222111000                                 011111111   223688999


Q ss_pred             HHHHHHHhcCCCCCCc-hhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHH
Q 047359          132 FDRLNEMCNGRNLTPG-FSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKR  210 (440)
Q Consensus       132 ~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  210 (440)
                      .+.|+...+.....|+ ...+..+...+...|++++|...+++.++..  |+. ...|..+...+...|++++|...|++
T Consensus       314 ~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~--P~~-~~~~~~la~~~~~~g~~~eA~~~~~~  390 (615)
T TIGR00990       314 ARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD--PRV-TQSYIKRASMNLELGDPDKAEEDFDK  390 (615)
T ss_pred             HHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCc-HHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            9999999872223343 4567788888889999999999999998864  543 56788899999999999999999999


Q ss_pred             HHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCh
Q 047359          211 ACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCA  290 (440)
Q Consensus       211 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  290 (440)
                      ..+..+. +...|..+...+...|++++|...|++..+..+. +...+..+...+.+.|++++|...++...+.. +.+.
T Consensus       391 al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~-~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-P~~~  467 (615)
T TIGR00990       391 ALKLNSE-DPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPD-FIFSHIQLGVTQYKEGSIASSMATFRRCKKNF-PEAP  467 (615)
T ss_pred             HHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCcc-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCh
Confidence            9887654 6788999999999999999999999999987643 56777888889999999999999999998753 4456


Q ss_pred             hhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhh------hHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHH
Q 047359          291 MELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFC------CSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYD  364 (440)
Q Consensus       291 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~------~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~  364 (440)
                      ..++.+...+...|++++|.+.|++........+...      ++.....+...|++++|.+++++..+..+. +...+.
T Consensus       468 ~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~-~~~a~~  546 (615)
T TIGR00990       468 DVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDPE-CDIAVA  546 (615)
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCC-cHHHHH
Confidence            7888899999999999999999999987643321111      122222344579999999999999886533 455788


Q ss_pred             HHHHHHHhcCcHHHHHHHHHHHHHcCCC
Q 047359          365 VLLDGLFKDGRMEEAVRIFDYMKELKVV  392 (440)
Q Consensus       365 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~  392 (440)
                      .+...+.+.|++++|++.|++..+....
T Consensus       547 ~la~~~~~~g~~~eAi~~~e~A~~l~~~  574 (615)
T TIGR00990       547 TMAQLLLQQGDVDEALKLFERAAELART  574 (615)
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHhcc
Confidence            9999999999999999999999877544

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.90  E-value=1.6e-18  Score=163.47  Aligned_cols=401  Identities=11%  Similarity=0.032  Sum_probs=286.6

Q ss_pred             HHHHHccCCcchHHHHHHHHHhcCCccCh--HhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcC
Q 047359           19 LDCYSHKGLFMDGLEVYRMMRVYGFVPAV--SACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSG   96 (440)
Q Consensus        19 i~~~~~~~~~~~A~~~~~~~~~~~~~~~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   96 (440)
                      +-...+.|+++.|+..|++..+..  |+.  ..+ .++..+...|+.++|+..+++.... -+........+...+...|
T Consensus        41 aii~~r~Gd~~~Al~~L~qaL~~~--P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p-~n~~~~~llalA~ly~~~g  116 (822)
T PRK14574         41 LIIRARAGDTAPVLDYLQEESKAG--PLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSS-MNISSRGLASAARAYRNEK  116 (822)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhhC--ccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccC-CCCCHHHHHHHHHHHHHcC
Confidence            344568888889999998888764  443  233 7777778888888998888888721 1112233333456778888


Q ss_pred             ChHHHHHHHhccc---C-CchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHHHHH
Q 047359           97 KFEVVLGLLDSGI---Y-SSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVG  172 (440)
Q Consensus        97 ~~~~a~~~~~~~~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  172 (440)
                      ++++|+++|+++.   | +...+..++..+...++.++|++.++++.+   ..|+...+..++..+...++..+|++.++
T Consensus       117 dyd~Aiely~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~---~dp~~~~~l~layL~~~~~~~~~AL~~~e  193 (822)
T PRK14574        117 RWDQALALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELAE---RDPTVQNYMTLSYLNRATDRNYDALQASS  193 (822)
T ss_pred             CHHHHHHHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcc---cCcchHHHHHHHHHHHhcchHHHHHHHHH
Confidence            9999999888887   3 445566777888888888889888888866   56666666444444444566656888888


Q ss_pred             HHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHH--------------------------------------------
Q 047359          173 LMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIF--------------------------------------------  208 (440)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~--------------------------------------------  208 (440)
                      ++.+..  |++ ...+..+..++.+.|-...|.++.                                            
T Consensus       194 kll~~~--P~n-~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~a  270 (822)
T PRK14574        194 EAVRLA--PTS-EEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKA  270 (822)
T ss_pred             HHHHhC--CCC-HHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHH
Confidence            888765  442 444444555555544433333332                                            


Q ss_pred             ----HHHHhc-CCCCCHH-----hHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHH
Q 047359          209 ----KRACDE-KIELQDD-----TCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLL  278 (440)
Q Consensus       209 ----~~~~~~-~~~~~~~-----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  278 (440)
                          +.+... +..|...     ...-.+-++...|++.++++.|+.+...+.+....+-..+.++|...+++++|..++
T Consensus       271 la~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~  350 (822)
T PRK14574        271 LADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPIL  350 (822)
T ss_pred             HHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHH
Confidence                222221 1112211     122345567788999999999999998887666678888999999999999999999


Q ss_pred             HHHHHcC-----CCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCC-----------CCch--h-hhHHHHHHHHcCC
Q 047359          279 RDVVERG-----YIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGL-----------LLDS--F-CCSSLMEYYCSNR  339 (440)
Q Consensus       279 ~~~~~~~-----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----------~~~~--~-~~~~l~~~~~~~~  339 (440)
                      +.+....     .+++......|..++...+++++|..+++.+.+..+           .||.  . .+..++..+...|
T Consensus       351 ~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~g  430 (822)
T PRK14574        351 SSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALN  430 (822)
T ss_pred             HHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcC
Confidence            9986643     122333357788889999999999999999987422           1221  1 2334566788899


Q ss_pred             cHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHH
Q 047359          340 QIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDE  419 (440)
Q Consensus       340 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  419 (440)
                      ++.+|++.++++....+. |......+...+...|.+.+|.+.++.+....|.+..+....+.++...|++++|..+.+.
T Consensus       431 dl~~Ae~~le~l~~~aP~-n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~~~~al~l~e~~~A~~~~~~  509 (822)
T PRK14574        431 DLPTAQKKLEDLSSTAPA-NQNLRIALASIYLARDLPRKAEQELKAVESLAPRSLILERAQAETAMALQEWHQMELLTDD  509 (822)
T ss_pred             CHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCccHHHHHHHHHHHHhhhhHHHHHHHHHH
Confidence            999999999999877555 8888889999999999999999999888888888888888999999999999999999988


Q ss_pred             HHHCCCCCCHHHH
Q 047359          420 MLKMGHKPDEATY  432 (440)
Q Consensus       420 m~~~~~~p~~~t~  432 (440)
                      ..+  ..|+....
T Consensus       510 l~~--~~Pe~~~~  520 (822)
T PRK14574        510 VIS--RSPEDIPS  520 (822)
T ss_pred             HHh--hCCCchhH
Confidence            877  45665443

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.89  E-value=1.1e-18  Score=167.43  Aligned_cols=378  Identities=9%  Similarity=-0.045  Sum_probs=285.2

Q ss_pred             CCChHhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHH
Q 047359            9 DSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLV   88 (440)
Q Consensus         9 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   88 (440)
                      +.+...+..+...+...|++++|.++|+...+.. +.+...+..+...+...|++++|...++++.+.. +.+.. +..+
T Consensus        46 ~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~l  122 (765)
T PRK10049         46 QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILTLADAGQYDEALVKAKQLVSGA-PDKAN-LLAL  122 (765)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHH
Confidence            3445568889999999999999999999998864 4567778888889999999999999999998863 34556 8888


Q ss_pred             HHHHHhcCChHHHHHHHhccc---C-CchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCch------hhHHHHHHHH
Q 047359           89 AQILCRSGKFEVVLGLLDSGI---Y-SSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGF------STYSSILDGA  158 (440)
Q Consensus        89 ~~~~~~~~~~~~a~~~~~~~~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~------~~~~~l~~~~  158 (440)
                      ..++...|+.++|+..++++.   | +...+..+...+...+..++|++.++....    .|+.      .....++...
T Consensus       123 a~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~----~p~~~~~l~~~~~~~~~r~~  198 (765)
T PRK10049        123 AYVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYVQALRNNRLSAPALGAIDDANL----TPAEKRDLEADAAAELVRLS  198 (765)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCChHHHHHHHHhCCC----CHHHHHHHHHHHHHHHHHhh
Confidence            999999999999999999987   4 444566778888889999999999987643    2332      1112222222


Q ss_pred             H-----hcCCh---hhHHHHHHHHHhc-CCCCccccc---chHHHHHHHhhcCcHHHHHHHHHHHHhcCCC-CCHHhHHH
Q 047359          159 R-----RYEKT---EVSDRIVGLMVEK-KLLPKHFLS---GNDYVIQKLSDMGKTYAAEMIFKRACDEKIE-LQDDTCGC  225 (440)
Q Consensus       159 ~-----~~~~~---~~a~~~~~~~~~~-~~~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~  225 (440)
                      .     ..+++   ++|+..++.+.+. ...|+....   .....+..+...|+.++|+..|+.+.+.+.. |+. .-..
T Consensus       199 ~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~  277 (765)
T PRK10049        199 FMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRW  277 (765)
T ss_pred             cccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHH
Confidence            2     12233   6788888888864 233331011   1111134456779999999999999887643 332 2222


Q ss_pred             HHHHHhhhccHHHHHHHHHHHHHcCCCC---ChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCC-----------CCC--
Q 047359          226 MLKALSKEGRVKEAIQIYHLISERGITV---RDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGY-----------IPC--  289 (440)
Q Consensus       226 l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----------~~~--  289 (440)
                      +..+|...|++++|+..|+++.+.....   .......+..++...|++++|..+++.+.+...           .|+  
T Consensus       278 la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~  357 (765)
T PRK10049        278 VASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDD  357 (765)
T ss_pred             HHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCch
Confidence            5778999999999999999988754321   124466677788999999999999999987531           122  


Q ss_pred             -hhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHH
Q 047359          290 -AMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLD  368 (440)
Q Consensus       290 -~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  368 (440)
                       ...+..+...+...|++++|+++++++....+. +...+..+...+...|++++|++.+++.....+. +...+..++.
T Consensus       358 ~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~-n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd-~~~l~~~~a~  435 (765)
T PRK10049        358 WLQGQSLLSQVAKYSNDLPQAEMRARELAYNAPG-NQGLRIDYASVLQARGWPRAAENELKKAEVLEPR-NINLEVEQAW  435 (765)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCC-ChHHHHHHHH
Confidence             124456777888899999999999999887554 6788889999999999999999999999986433 4567777788


Q ss_pred             HHHhcCcHHHHHHHHHHHHHcCCCchhh
Q 047359          369 GLFKDGRMEEAVRIFDYMKELKVVSSSS  396 (440)
Q Consensus       369 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~  396 (440)
                      .+.+.|++++|..+++++.+..|.++.+
T Consensus       436 ~al~~~~~~~A~~~~~~ll~~~Pd~~~~  463 (765)
T PRK10049        436 TALDLQEWRQMDVLTDDVVAREPQDPGV  463 (765)
T ss_pred             HHHHhCCHHHHHHHHHHHHHhCCCCHHH
Confidence            8999999999999999999998886644

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.87  E-value=6.5e-17  Score=155.81  Aligned_cols=403  Identities=10%  Similarity=0.013  Sum_probs=273.6

Q ss_pred             CChHhHHHH-HHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHh-ccchhHHHHHHHHHHHcCCCCChhhHHH
Q 047359           10 SQSDALSLV-LDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYR-QNEIRLASCLYGAMVRDGVSPNKFTWSL   87 (440)
Q Consensus        10 ~~~~~~~~l-i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~   87 (440)
                      |++.+.... .+.|.+.|++++|++++..+.+.+ +.+......+..++.. .++ +.+..+++.    .++.+...+..
T Consensus       179 ~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~k~~-pl~~~~~~~L~~ay~q~l~~-~~a~al~~~----~lk~d~~l~~a  252 (987)
T PRK09782        179 PEGKTLRTDLLQRAIYLKQWSQADTLYNEARQQN-TLSAAERRQWFDVLLAGQLD-DRLLALQSQ----GIFTDPQSRIT  252 (987)
T ss_pred             CCcHHHHHHHHHHHHHHhCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhhCH-HHHHHHhch----hcccCHHHHHH
Confidence            345555555 889999999999999999999886 3455556666667766 356 777777553    23357778888


Q ss_pred             HHHHHHhcCChHHHHHHHhccc------CCchhH------------------------------HHHHHHHHhcCC----
Q 047359           88 VAQILCRSGKFEVVLGLLDSGI------YSSVMY------------------------------NLVIDFYSKKGD----  127 (440)
Q Consensus        88 l~~~~~~~~~~~~a~~~~~~~~------~~~~~~------------------------------~~li~~~~~~~~----  127 (440)
                      +...|.+.|+.++|.++++++.      |...+|                              -.++..+.+.++    
T Consensus       253 la~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  332 (987)
T PRK09782        253 YATALAYRGEKARLQHYLIENKPLFTTDAQEKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAA  332 (987)
T ss_pred             HHHHHHHCCCHHHHHHHHHhCcccccCCCccHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHH
Confidence            8888889999988888888776      111111                              011222333333    


Q ss_pred             -----------------------------------------------------------hhHHHHHHHHHhc-CCCCCCc
Q 047359          128 -----------------------------------------------------------FGAAFDRLNEMCN-GRNLTPG  147 (440)
Q Consensus       128 -----------------------------------------------------------~~~a~~~~~~~~~-~~~~~p~  147 (440)
                                                                                 .++|.++|..... ...-.++
T Consensus       333 ~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  412 (987)
T PRK09782        333 QKLLATLPANEMLEERYAVSVATRNKAEALRLARLLYQQEPANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLS  412 (987)
T ss_pred             HHHhcCCCcchHHHHHHhhccccCchhHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccC
Confidence                                                                       3333333333322 0001111


Q ss_pred             hhhHHHHHHHHHhcCCh---hhHHHH----------------------HHHHHhc-CCCCc-ccccchHHHHHHHhhcCc
Q 047359          148 FSTYSSILDGARRYEKT---EVSDRI----------------------VGLMVEK-KLLPK-HFLSGNDYVIQKLSDMGK  200 (440)
Q Consensus       148 ~~~~~~l~~~~~~~~~~---~~a~~~----------------------~~~~~~~-~~~~~-~~~~~~~~l~~~~~~~~~  200 (440)
                      ......++..+.+.+..   .++..+                      .+..... +..|+ .....|..+..++.. ++
T Consensus       413 ~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~  491 (987)
T PRK09782        413 QTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TL  491 (987)
T ss_pred             HHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CC
Confidence            11222444444444331   111111                      1111111 11122 015566667777766 78


Q ss_pred             HHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHH
Q 047359          201 TYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRD  280 (440)
Q Consensus       201 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  280 (440)
                      .++|...+.+.....  |+......+...+...|++++|...|+++...  .|+...+..+..++.+.|++++|...++.
T Consensus       492 ~~eAi~a~~~Al~~~--Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~q  567 (987)
T PRK09782        492 PGVALYAWLQAEQRQ--PDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQ  567 (987)
T ss_pred             cHHHHHHHHHHHHhC--CchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            888888777776654  44444444455556899999999999987664  23444566677788899999999999999


Q ss_pred             HHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCH
Q 047359          281 VVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDV  360 (440)
Q Consensus       281 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~  360 (440)
                      ..+.+ +++...+..+.......|++++|...+++..+..  |+...+..+..++.+.|+.++|+..+++.....+. +.
T Consensus       568 AL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l~--P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd-~~  643 (987)
T PRK09782        568 AEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNIA--PSANAYVARATIYRQRHNVPAAVSDLRAALELEPN-NS  643 (987)
T ss_pred             HHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CH
Confidence            98764 2333333344444455699999999999998764  46778888999999999999999999999987554 66


Q ss_pred             HhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCH
Q 047359          361 ATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDE  429 (440)
Q Consensus       361 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~  429 (440)
                      ..+..+..++...|+.++|+..++++.+..|.++..+..+..++...|++++|+..+++..+  +.|+.
T Consensus       644 ~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~--l~P~~  710 (987)
T PRK09782        644 NYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRLDDMAATQHYARLVID--DIDNQ  710 (987)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCC
Confidence            78888888999999999999999999999988999999999999999999999999999987  45654

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

Probab=99.85  E-value=6e-17  Score=147.10  Aligned_cols=410  Identities=10%  Similarity=0.035  Sum_probs=269.0

Q ss_pred             CCChHhHHHHHHHHHccCCcchHHHHHHHHHhcCCc--cChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCCh--hh
Q 047359            9 DSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFV--PAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNK--FT   84 (440)
Q Consensus         9 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~   84 (440)
                      .-|+.+.+.|...|.-.|+++.++.+.+.+......  .-...|-.+.+++-..|++++|...|.+..+..  |+.  ..
T Consensus       267 ~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~--~d~~~l~  344 (1018)
T KOG2002|consen  267 NENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKAD--NDNFVLP  344 (1018)
T ss_pred             CCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccC--CCCcccc
Confidence            456788888999999999999999998888764321  123457788899999999999999998887753  443  44


Q ss_pred             HHHHHHHHHhcCChHHHHHHHhccc---CC-chhHHHHHHHHHhcC----ChhHHHHHHHHHhcCCCCCCchhhHHHHHH
Q 047359           85 WSLVAQILCRSGKFEVVLGLLDSGI---YS-SVMYNLVIDFYSKKG----DFGAAFDRLNEMCNGRNLTPGFSTYSSILD  156 (440)
Q Consensus        85 ~~~l~~~~~~~~~~~~a~~~~~~~~---~~-~~~~~~li~~~~~~~----~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  156 (440)
                      +..+.+.+.+.|+++.+...|+.+.   |+ ..+...|...|...+    ..+.|..++.+..+ . .+.|...|..+..
T Consensus       345 ~~GlgQm~i~~~dle~s~~~fEkv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~-~-~~~d~~a~l~laq  422 (1018)
T KOG2002|consen  345 LVGLGQMYIKRGDLEESKFCFEKVLKQLPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLE-Q-TPVDSEAWLELAQ  422 (1018)
T ss_pred             ccchhHHHHHhchHHHHHHHHHHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHh-c-ccccHHHHHHHHH
Confidence            5667888999999999999888876   43 445555666666554    44566666666654 1 1235556666666


Q ss_pred             HHHhcCChhhHHHHHHHHH----hcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhc---CCCCCH------HhH
Q 047359          157 GARRYEKTEVSDRIVGLMV----EKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDE---KIELQD------DTC  223 (440)
Q Consensus       157 ~~~~~~~~~~a~~~~~~~~----~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~------~~~  223 (440)
                      .+-...-+. ++..+..+.    ..+..+.  +...|.+...+...|++..|...|......   ...++.      .+-
T Consensus       423 l~e~~d~~~-sL~~~~~A~d~L~~~~~~ip--~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~  499 (1018)
T KOG2002|consen  423 LLEQTDPWA-SLDAYGNALDILESKGKQIP--PEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLK  499 (1018)
T ss_pred             HHHhcChHH-HHHHHHHHHHHHHHcCCCCC--HHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHH
Confidence            554433333 255544433    2333333  667777777777777777777777776554   122222      122


Q ss_pred             HHHHHHHhhhccHHHHHHHHHHHHHcCCC---------------------------------CChhhHHHHHHHHHhcCC
Q 047359          224 GCMLKALSKEGRVKEAIQIYHLISERGIT---------------------------------VRDSDYYAFVNVLCKEHQ  270 (440)
Q Consensus       224 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---------------------------------~~~~~~~~l~~~~~~~~~  270 (440)
                      ..+...+-..++.+.|.+.|..+.+..+.                                 .++..+..+...+.+...
T Consensus       500 YNlarl~E~l~~~~~A~e~Yk~Ilkehp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~G~~~l~k~~  579 (1018)
T KOG2002|consen  500 YNLARLLEELHDTEVAEEMYKSILKEHPGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLLGNLHLKKSE  579 (1018)
T ss_pred             HHHHHHHHhhhhhhHHHHHHHHHHHHCchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHHHHHHHhhhh
Confidence            22444444555666666666665554211                                 122223333333444444


Q ss_pred             hHHHHHHHHHHHHc-CCCCChhhHHHHHHHHHc------------CCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHc
Q 047359          271 PEEVCGLLRDVVER-GYIPCAMELSRFVASQCG------------KGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCS  337 (440)
Q Consensus       271 ~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  337 (440)
                      +..|.+-|..+.+. ...+|..+.-.|.+.|..            .+..++|+++|.++++..+. |...-|.+.-.++.
T Consensus       580 ~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~dpk-N~yAANGIgiVLA~  658 (1018)
T KOG2002|consen  580 WKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRNDPK-NMYAANGIGIVLAE  658 (1018)
T ss_pred             hcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcCcc-hhhhccchhhhhhh
Confidence            44444433333322 112344444444444432            24467888888888887665 77788888888899


Q ss_pred             CCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC--chhhHHHHHHHHHhcccHHHHHH
Q 047359          338 NRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV--SSSSFVIVVSRLCHLKELRKAMK  415 (440)
Q Consensus       338 ~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~  415 (440)
                      .|++.+|..+|.+..+.... ...+|-.+.++|..+|++..|+++|+...+...+  ++.+...|.+++.+.|++.+|.+
T Consensus       659 kg~~~~A~dIFsqVrEa~~~-~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~  737 (1018)
T KOG2002|consen  659 KGRFSEARDIFSQVREATSD-FEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKE  737 (1018)
T ss_pred             ccCchHHHHHHHHHHHHHhh-CCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHH
Confidence            99999999999999887543 5678888999999999999999999987765544  78889999999999999999999


Q ss_pred             HHHHHHHCCCCCCH
Q 047359          416 NHDEMLKMGHKPDE  429 (440)
Q Consensus       416 ~~~~m~~~~~~p~~  429 (440)
                      .+.....  ..|..
T Consensus       738 ~ll~a~~--~~p~~  749 (1018)
T KOG2002|consen  738 ALLKARH--LAPSN  749 (1018)
T ss_pred             HHHHHHH--hCCcc
Confidence            8888776  34544

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.84  E-value=7.8e-16  Score=145.47  Aligned_cols=364  Identities=12%  Similarity=0.065  Sum_probs=272.9

Q ss_pred             HHHHhccchhHHHHHHHHHHHcCCCCCh--hhHHHHHHHHHhcCChHHHHHHHhccc-CCc-hhHHHH--HHHHHhcCCh
Q 047359           55 DALYRQNEIRLASCLYGAMVRDGVSPNK--FTWSLVAQILCRSGKFEVVLGLLDSGI-YSS-VMYNLV--IDFYSKKGDF  128 (440)
Q Consensus        55 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~~-~~~~~l--i~~~~~~~~~  128 (440)
                      -...+.|+++.|...|++..+.  .|+.  ..+ .++..+...|+.++|+..+++.. |+. ..+..+  ...+...|++
T Consensus        42 ii~~r~Gd~~~Al~~L~qaL~~--~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p~n~~~~~llalA~ly~~~gdy  118 (822)
T PRK14574         42 IIRARAGDTAPVLDYLQEESKA--GPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSSMNISSRGLASAARAYRNEKRW  118 (822)
T ss_pred             HHHHhCCCHHHHHHHHHHHHhh--CccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCH
Confidence            3567899999999999999886  4553  234 88888999999999999999988 433 333334  5688888999


Q ss_pred             hHHHHHHHHHhcCCCCCCc-hhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHH
Q 047359          129 GAAFDRLNEMCNGRNLTPG-FSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMI  207 (440)
Q Consensus       129 ~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  207 (440)
                      ++|+++|+++.+   ..|+ ...+..++..+...++.++|++.++.+.+..  |+  ...+..++..+...++..+|++.
T Consensus       119 d~Aiely~kaL~---~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~d--p~--~~~~l~layL~~~~~~~~~AL~~  191 (822)
T PRK14574        119 DQALALWQSSLK---KDPTNPDLISGMIMTQADAGRGGVVLKQATELAERD--PT--VQNYMTLSYLNRATDRNYDALQA  191 (822)
T ss_pred             HHHHHHHHHHHh---hCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccC--cc--hHHHHHHHHHHHhcchHHHHHHH
Confidence            999999999987   4454 4566677888999999999999999998764  55  44555555555556677679999


Q ss_pred             HHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHH---------------------------------------------
Q 047359          208 FKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQI---------------------------------------------  242 (440)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~---------------------------------------------  242 (440)
                      ++++.+..+. +...+..+..++.+.|-...|.++                                             
T Consensus       192 ~ekll~~~P~-n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~a  270 (822)
T PRK14574        192 SSEAVRLAPT-SEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKA  270 (822)
T ss_pred             HHHHHHhCCC-CHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHH
Confidence            9999988654 555555555555555444333332                                             


Q ss_pred             ---HHHHHHc-CCCCCh-----hhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHH
Q 047359          243 ---YHLISER-GITVRD-----SDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELL  313 (440)
Q Consensus       243 ---~~~~~~~-~~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  313 (440)
                         ++.+... +..|..     ....-.+-++...+++.++++.++.+...+.+....+-..+..+|...+++++|+.++
T Consensus       271 la~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~  350 (822)
T PRK14574        271 LADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPIL  350 (822)
T ss_pred             HHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHH
Confidence               2232221 111221     1112344567788999999999999998876655668889999999999999999999


Q ss_pred             HHHHhcCC-----CCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccC-----------CcC--HH-hHHHHHHHHHhcC
Q 047359          314 SAVLDKGL-----LLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKG-----------SLD--VA-TYDVLLDGLFKDG  374 (440)
Q Consensus       314 ~~~~~~~~-----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----------~p~--~~-~~~~l~~~~~~~g  374 (440)
                      +.+.....     .++......|..+|...+++++|..+++.+.+..+           .||  -. .+..++..+...|
T Consensus       351 ~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~g  430 (822)
T PRK14574        351 SSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALN  430 (822)
T ss_pred             HHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcC
Confidence            99976431     22333357788999999999999999999987422           122  22 3345677788999


Q ss_pred             cHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHHH
Q 047359          375 RMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEAT  431 (440)
Q Consensus       375 ~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t  431 (440)
                      +..+|++.++++....|.|+.....+...+...|.+.+|.+.++....  +.|+...
T Consensus       431 dl~~Ae~~le~l~~~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~--l~P~~~~  485 (822)
T PRK14574        431 DLPTAQKKLEDLSSTAPANQNLRIALASIYLARDLPRKAEQELKAVES--LAPRSLI  485 (822)
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhh--hCCccHH
Confidence            999999999999999999999999999999999999999999987766  4777543

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.83  E-value=6e-16  Score=128.30  Aligned_cols=405  Identities=14%  Similarity=0.142  Sum_probs=241.5

Q ss_pred             HhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccc--hh-HHHHHHHHHHHcC------------
Q 047359           13 DALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNE--IR-LASCLYGAMVRDG------------   77 (440)
Q Consensus        13 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~--~~-~a~~~~~~~~~~~------------   77 (440)
                      .+=|.|+. +..+|.+.++.-+++.|...|++.+...--.|++..+-.++  +- .-++.|-.|...|            
T Consensus       117 ~~E~nL~k-mIS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK~G~v  195 (625)
T KOG4422|consen  117 ETENNLLK-MISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWKSGAV  195 (625)
T ss_pred             cchhHHHH-HHhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccccccccccccccH
Confidence            34445554 45678899999999999999987777666666554332211  11 1122222222222            


Q ss_pred             -------CCCChhhHHHHHHHHHhcCChHHHHHHHhccc-----CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCC
Q 047359           78 -------VSPNKFTWSLVAQILCRSGKFEVVLGLLDSGI-----YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLT  145 (440)
Q Consensus        78 -------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~  145 (440)
                             .+.+..++..+|.++++....+.|.+++++..     .+..+||.+|.+-.-..+    .+++.+|.. ..+.
T Consensus       196 AdL~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMis-qkm~  270 (625)
T KOG4422|consen  196 ADLLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----KKLVAEMIS-QKMT  270 (625)
T ss_pred             HHHHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----HHHHHHHHH-hhcC
Confidence                   13345677777777777777777777777655     455667777655443322    567777776 6677


Q ss_pred             CchhhHHHHHHHHHhcCChhh----HHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHH-HHHHHHHHHhc----CC
Q 047359          146 PGFSTYSSILDGARRYEKTEV----SDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYA-AEMIFKRACDE----KI  216 (440)
Q Consensus       146 p~~~~~~~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~----~~  216 (440)
                      ||..|+|+++++..+.|+++.    |.+++.+|++.|+.|.  ..+|..+|..+++.++..+ +..++..+...    ..
T Consensus       271 Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePs--LsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~f  348 (625)
T KOG4422|consen  271 PNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPS--LSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTF  348 (625)
T ss_pred             CchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcc--hhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcc
Confidence            777777777777777776654    3456677777777777  7777777777777766644 34444444331    11


Q ss_pred             C---C-CHHhHHHHHHHHhhhccHHHHHHHHHHHHHcC----CCCC---hhhHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 047359          217 E---L-QDDTCGCMLKALSKEGRVKEAIQIYHLISERG----ITVR---DSDYYAFVNVLCKEHQPEEVCGLLRDVVERG  285 (440)
Q Consensus       217 ~---~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  285 (440)
                      .   | |...|...+..|....+.+.|.++..-+....    +.|+   ..-|..+....++....+.....++.|.-.-
T Consensus       349 kp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~  428 (625)
T KOG4422|consen  349 KPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSA  428 (625)
T ss_pred             cCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccce
Confidence            1   1 33345556666667777777776665544321    1121   2345556666677777777777777777666


Q ss_pred             CCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCC-cH--------HH-----HHHHHHHH
Q 047359          286 YIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNR-QI--------DK-----AIALHIKI  351 (440)
Q Consensus       286 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~--------~~-----a~~~~~~~  351 (440)
                      +-|+..+...++++..-.+.++-.-+++..+...|-..+......++..+++.. ..        ..     |..+++..
T Consensus       429 y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~  508 (625)
T KOG4422|consen  429 YFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAY  508 (625)
T ss_pred             ecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHH
Confidence            667777777777777777777777777777777665545555555555555443 11        11     11111111


Q ss_pred             H-----hccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC-----chhhHHHHHHHHHhcccHHHHHHHHHHHH
Q 047359          352 E-----KLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV-----SSSSFVIVVSRLCHLKELRKAMKNHDEML  421 (440)
Q Consensus       352 ~-----~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  421 (440)
                      .     ....+......+...-.+.+.|+.++|.++|.-..+.+-.     ...+...++..-.+.++...|..+++-|.
T Consensus       509 e~~~~R~r~~~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a~  588 (625)
T KOG4422|consen  509 ESQPIRQRAQDWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLAS  588 (625)
T ss_pred             HhhHHHHHhccCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            1     0112233445555666667777777777777777544322     11233455556666777777777777776


Q ss_pred             HCCC
Q 047359          422 KMGH  425 (440)
Q Consensus       422 ~~~~  425 (440)
                      ..+.
T Consensus       589 ~~n~  592 (625)
T KOG4422|consen  589 AFNL  592 (625)
T ss_pred             HcCc
Confidence            6543

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.83  E-value=7.6e-16  Score=127.71  Aligned_cols=369  Identities=11%  Similarity=0.064  Sum_probs=219.8

Q ss_pred             ChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHH-HHhcccCCchhHHHHHHHHHh
Q 047359           46 AVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLG-LLDSGIYSSVMYNLVIDFYSK  124 (440)
Q Consensus        46 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~-~~~~~~~~~~~~~~li~~~~~  124 (440)
                      +..++..+|.++++--..+.|.+++++......+.+..+||.+|.+-.-.-+-+..-+ +-.+|.||..|+|+++++..+
T Consensus       206 T~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~K~Lv~EMisqkm~Pnl~TfNalL~c~ak  285 (625)
T KOG4422|consen  206 TDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVGKKLVAEMISQKMTPNLFTFNALLSCAAK  285 (625)
T ss_pred             CchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhccHHHHHHHHHhhcCCchHhHHHHHHHHHH
Confidence            3445555555555555555555555555444444555555555544333222111111 111222555555555555555


Q ss_pred             cCChh----HHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhh-HHHHHHHHHh----cCCC---CcccccchHHHH
Q 047359          125 KGDFG----AAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEV-SDRIVGLMVE----KKLL---PKHFLSGNDYVI  192 (440)
Q Consensus       125 ~~~~~----~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~----~~~~---~~~~~~~~~~l~  192 (440)
                      .|+++    .|.+++.+|++ .|+.|+..+|..++..+.+.++..+ +..++.++..    ..+.   |++ ...|...+
T Consensus       286 fg~F~~ar~aalqil~EmKe-iGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d-~~FF~~AM  363 (625)
T KOG4422|consen  286 FGKFEDARKAALQILGEMKE-IGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTD-NKFFQSAM  363 (625)
T ss_pred             hcchHHHHHHHHHHHHHHHH-hCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCch-hHHHHHHH
Confidence            55443    34677778887 8888888888888887777766633 4444444433    2222   332 34455667


Q ss_pred             HHHhhcCcHHHHHHHHHHHHhcC----CCCC---HHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 047359          193 QKLSDMGKTYAAEMIFKRACDEK----IELQ---DDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVL  265 (440)
Q Consensus       193 ~~~~~~~~~~~a~~~~~~~~~~~----~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  265 (440)
                      ..|.+..+.+.|.++..-.....    +.|+   ..-|..+....++....+.-+..|+.|.-.-+.|+..+...++++.
T Consensus       364 ~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~  443 (625)
T KOG4422|consen  364 SICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRAL  443 (625)
T ss_pred             HHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHHHH
Confidence            77778888887777665554321    2222   1235556667777788888888888888877777888888888888


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCC-CH--------H-----HHHHH-------HHHHHhcCCCCc
Q 047359          266 CKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKG-KW--------K-----EVEEL-------LSAVLDKGLLLD  324 (440)
Q Consensus       266 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~--------~-----~a~~~-------~~~~~~~~~~~~  324 (440)
                      ...+.++-.-+++.+++..|..-+......++..+++.+ +.        .     -|..+       -.++...  ...
T Consensus       444 ~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r~~--~~~  521 (625)
T KOG4422|consen  444 DVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYESQPIRQRAQ--DWP  521 (625)
T ss_pred             hhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhHHHHHhc--cCC
Confidence            888888888888888877665444444444444444432 11        0     01111       1222222  334


Q ss_pred             hhhhHHHHHHHHcCCcHHHHHHHHHHHHhccC----CcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC-chhhHHH
Q 047359          325 SFCCSSLMEYYCSNRQIDKAIALHIKIEKLKG----SLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV-SSSSFVI  399 (440)
Q Consensus       325 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~  399 (440)
                      ....+.+.-.+.+.|..++|.+++..+.+.+-    .|......-+++.-.+..+...|...++-|...+.+ -...-+.
T Consensus       522 ~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a~~~n~~~~E~La~R  601 (625)
T KOG4422|consen  522 ATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLASAFNLPICEGLAQR  601 (625)
T ss_pred             hhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCchhhhHHHHH
Confidence            55677788889999999999999999976543    233334445666677888899999999998877665 2224444


Q ss_pred             HHHHHHhcccHHHHHHHHH
Q 047359          400 VVSRLCHLKELRKAMKNHD  418 (440)
Q Consensus       400 l~~~~~~~g~~~~a~~~~~  418 (440)
                      +...|.-+....+|++-+.
T Consensus       602 I~e~f~iNqeq~~~ls~l~  620 (625)
T KOG4422|consen  602 IMEDFAINQEQKEALSNLT  620 (625)
T ss_pred             HHHhcCcCHHHHHHHhhhh
Confidence            5555554444444544433

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

Probab=99.83  E-value=2.9e-16  Score=142.76  Aligned_cols=403  Identities=14%  Similarity=0.141  Sum_probs=278.3

Q ss_pred             CcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCC--CChhhHHHHHHHHHhcCChHHHHHH
Q 047359           27 LFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVS--PNKFTWSLVAQILCRSGKFEVVLGL  104 (440)
Q Consensus        27 ~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~  104 (440)
                      .+..++.++...-..+ +-|+...+.|...+.-.|+++.++.+...+......  .-...|-.+.++|-..|++++|...
T Consensus       251 s~~~~~~ll~~ay~~n-~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~y  329 (1018)
T KOG2002|consen  251 SYKKGVQLLQRAYKEN-NENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKY  329 (1018)
T ss_pred             HHHHHHHHHHHHHhhc-CCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHH
Confidence            4556777777776654 457888999999999999999999999999775321  1234578899999999999999999


Q ss_pred             Hhccc---CCc--hhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCch-hhHHHHHHHHHhcC----ChhhHHHHHHHH
Q 047359          105 LDSGI---YSS--VMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGF-STYSSILDGARRYE----KTEVSDRIVGLM  174 (440)
Q Consensus       105 ~~~~~---~~~--~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~~----~~~~a~~~~~~~  174 (440)
                      |-+..   ++.  ..+-.+...+.+.|+++.+...|+.+.+   ..||. .+...|...|...+    ..+.|..++...
T Consensus       330 Y~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k---~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~  406 (1018)
T KOG2002|consen  330 YMESLKADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLK---QLPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKV  406 (1018)
T ss_pred             HHHHHccCCCCccccccchhHHHHHhchHHHHHHHHHHHHH---hCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHH
Confidence            98876   443  3466788999999999999999999976   55654 46666666666664    457777777777


Q ss_pred             HhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHH----hcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHc-
Q 047359          175 VEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRAC----DEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISER-  249 (440)
Q Consensus       175 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-  249 (440)
                      .+..  |.+ ...|..+...+-...-+ .++.+|..+.    ..+-.+.+...|.+...+...|+++.|...|...... 
T Consensus       407 ~~~~--~~d-~~a~l~laql~e~~d~~-~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~  482 (1018)
T KOG2002|consen  407 LEQT--PVD-SEAWLELAQLLEQTDPW-ASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKL  482 (1018)
T ss_pred             Hhcc--ccc-HHHHHHHHHHHHhcChH-HHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhh
Confidence            7654  332 67777777666655443 4466666543    3455578889999999999999999999999988665 


Q ss_pred             --CCCCCh------hhHHHHHHHHHhcCChHHHHHHHHHHHHcC---------------------------------CCC
Q 047359          250 --GITVRD------SDYYAFVNVLCKEHQPEEVCGLLRDVVERG---------------------------------YIP  288 (440)
Q Consensus       250 --~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---------------------------------~~~  288 (440)
                        ...++.      .+--.+...+-..++++.|.+.+..+.+..                                 ...
T Consensus       483 ~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkehp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~  562 (1018)
T KOG2002|consen  483 LEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEHPGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSS  562 (1018)
T ss_pred             hhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHCchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccC
Confidence              122222      122223444445556666666666665532                                 011


Q ss_pred             ChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcC-CCCchhhhHHHHHHHH------------cCCcHHHHHHHHHHHHhcc
Q 047359          289 CAMELSRFVASQCGKGKWKEVEELLSAVLDKG-LLLDSFCCSSLMEYYC------------SNRQIDKAIALHIKIEKLK  355 (440)
Q Consensus       289 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~------------~~~~~~~a~~~~~~~~~~~  355 (440)
                      +...++.+...+.+...+..|.+-|..+.+.- ..+|..+.-.|...|.            ..+..++|+++|.++++..
T Consensus       563 np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d  642 (1018)
T KOG2002|consen  563 NPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND  642 (1018)
T ss_pred             CcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC
Confidence            22222223333444444444444333333221 1134444444444433            2345678999999998876


Q ss_pred             CCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCC-CCCHHHHHH
Q 047359          356 GSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGH-KPDEATYKQ  434 (440)
Q Consensus       356 ~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~-~p~~~t~~~  434 (440)
                      ++ |...-+-+.-.++..|++.+|..+|.++++.......+|..+..+|..+|++..|+++|+...+.-. .-+......
T Consensus       643 pk-N~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~  721 (1018)
T KOG2002|consen  643 PK-NMYAANGIGIVLAEKGRFSEARDIFSQVREATSDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHY  721 (1018)
T ss_pred             cc-hhhhccchhhhhhhccCchHHHHHHHHHHHHHhhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHH
Confidence            65 7888888999999999999999999999998777788999999999999999999999998876433 334445554


Q ss_pred             Hhhh
Q 047359          435 VISG  438 (440)
Q Consensus       435 ll~a  438 (440)
                      |-++
T Consensus       722 Lara  725 (1018)
T KOG2002|consen  722 LARA  725 (1018)
T ss_pred             HHHH
Confidence            4443

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.82  E-value=3.9e-15  Score=143.70  Aligned_cols=389  Identities=11%  Similarity=-0.008  Sum_probs=271.9

Q ss_pred             HHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHH--HhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcC
Q 047359           19 LDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDAL--YRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSG   96 (440)
Q Consensus        19 i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   96 (440)
                      +..+.++++++.+.++..      ..|....  ..++..  ...+...++...++.|.+.. +-+......+.-...+.|
T Consensus       320 ~~~~~~~~~~~~~~~~~~------~~~~~~~--~~~r~~~~~~~~~~~~~~~~~~~~y~~~-~~~~~~l~q~~~~~~~~~  390 (987)
T PRK09782        320 LPVLLKEGQYDAAQKLLA------TLPANEM--LEERYAVSVATRNKAEALRLARLLYQQE-PANLTRLDQLTWQLMQNG  390 (987)
T ss_pred             HHHHHhccHHHHHHHHhc------CCCcchH--HHHHHhhccccCchhHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcc
Confidence            566666777765554422      1222222  122222  22345555555555565431 224444444445556667


Q ss_pred             ChHHHHHHHhcccC-------CchhHHHHHHHHHhcCC---hhHH----------------------HHHHHHHhcCCCC
Q 047359           97 KFEVVLGLLDSGIY-------SSVMYNLVIDFYSKKGD---FGAA----------------------FDRLNEMCNGRNL  144 (440)
Q Consensus        97 ~~~~a~~~~~~~~~-------~~~~~~~li~~~~~~~~---~~~a----------------------~~~~~~~~~~~~~  144 (440)
                      +.++|.++|+...+       +....+-++..|.+.+.   ..++                      ...+.......+.
T Consensus       391 ~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~  470 (987)
T PRK09782        391 QSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGD  470 (987)
T ss_pred             cHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhccc
Confidence            77777777766551       11223355555555544   2222                      2222222221223


Q ss_pred             CC---chhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHH
Q 047359          145 TP---GFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDD  221 (440)
Q Consensus       145 ~p---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  221 (440)
                      .|   +...|..+..++.. ++.++|...+.+.....  |+  ......+...+...|++++|...++++...  .|+..
T Consensus       471 ~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~--Pd--~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~  543 (987)
T PRK09782        471 MSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQ--PD--AWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNE  543 (987)
T ss_pred             CCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhC--Cc--hHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcH
Confidence            23   45567777777766 88889999888887654  55  333444556667899999999999998665  33444


Q ss_pred             hHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 047359          222 TCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQC  301 (440)
Q Consensus       222 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  301 (440)
                      .+..+..++.+.|++++|...+++..+.++. +...+..+.......|++++|...++...+..  |+...+..+...+.
T Consensus       544 a~~~la~all~~Gd~~eA~~~l~qAL~l~P~-~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l~--P~~~a~~~LA~~l~  620 (987)
T PRK09782        544 DLLAAANTAQAAGNGAARDRWLQQAEQRGLG-DNALYWWLHAQRYIPGQPELALNDLTRSLNIA--PSANAYVARATIYR  620 (987)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhC--CCHHHHHHHHHHHH
Confidence            5667778889999999999999999887532 33333344445556699999999999999864  67888999999999


Q ss_pred             cCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHH
Q 047359          302 GKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVR  381 (440)
Q Consensus       302 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~  381 (440)
                      +.|++++|+..+++.....+. +...++.+..++...|+.++|+..+++..+..+. +...+..+..++...|++++|+.
T Consensus       621 ~lG~~deA~~~l~~AL~l~Pd-~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~-~~~a~~nLA~al~~lGd~~eA~~  698 (987)
T PRK09782        621 QRHNVPAAVSDLRAALELEPN-NSNYQAALGYALWDSGDIAQSREMLERAHKGLPD-DPALIRQLAYVNQRLDDMAATQH  698 (987)
T ss_pred             HCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHH
Confidence            999999999999999988655 6778888888999999999999999999987554 67889999999999999999999


Q ss_pred             HHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHH
Q 047359          382 IFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEA  430 (440)
Q Consensus       382 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  430 (440)
                      .++++.+..|.+..+.........+..+++.|.+-+.+...  +.|+..
T Consensus       699 ~l~~Al~l~P~~a~i~~~~g~~~~~~~~~~~a~~~~~r~~~--~~~~~~  745 (987)
T PRK09782        699 YARLVIDDIDNQALITPLTPEQNQQRFNFRRLHEEVGRRWT--FSFDSS  745 (987)
T ss_pred             HHHHHHhcCCCCchhhhhhhHHHHHHHHHHHHHHHHHHHhh--cCccch
Confidence            99999999988888888888888889999999998888766  445443

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

Probab=99.78  E-value=6.9e-14  Score=117.74  Aligned_cols=400  Identities=9%  Similarity=0.013  Sum_probs=250.2

Q ss_pred             HhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCCh-hhHHHHHHH
Q 047359           13 DALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNK-FTWSLVAQI   91 (440)
Q Consensus        13 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~   91 (440)
                      ..|-...+-=..++++..|..+|+....-. ..+...|-..+..=.+++++..|..+++..+..  -|-+ ..|-..+.+
T Consensus        74 ~~WikYaqwEesq~e~~RARSv~ERALdvd-~r~itLWlkYae~Emknk~vNhARNv~dRAvt~--lPRVdqlWyKY~ym  150 (677)
T KOG1915|consen   74 QVWIKYAQWEESQKEIQRARSVFERALDVD-YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTI--LPRVDQLWYKYIYM  150 (677)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHhcc-cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHh--cchHHHHHHHHHHH
Confidence            344444444444566667777777777544 235555666666666666777777777776653  2222 234444444


Q ss_pred             HHhcCChHHHHHHHhccc---CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHH
Q 047359           92 LCRSGKFEVVLGLLDSGI---YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSD  168 (440)
Q Consensus        92 ~~~~~~~~~a~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  168 (440)
                      --..|++..|.++|++-.   |+..+|++.|+.=.+-..++.|..+|++..-   +.|+..+|....+.-.+.|+...+.
T Consensus       151 EE~LgNi~gaRqiferW~~w~P~eqaW~sfI~fElRykeieraR~IYerfV~---~HP~v~~wikyarFE~k~g~~~~aR  227 (677)
T KOG1915|consen  151 EEMLGNIAGARQIFERWMEWEPDEQAWLSFIKFELRYKEIERARSIYERFVL---VHPKVSNWIKYARFEEKHGNVALAR  227 (677)
T ss_pred             HHHhcccHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe---ecccHHHHHHHHHHHHhcCcHHHHH
Confidence            445667777777776644   7777777777777777777777777777654   5567766666666666666666666


Q ss_pred             HHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHh-----------------------------------
Q 047359          169 RIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACD-----------------------------------  213 (440)
Q Consensus       169 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----------------------------------  213 (440)
                      .+++..++.--........+.+....-.++..++.|.-+|+-..+                                   
T Consensus       228 ~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KR  307 (677)
T KOG1915|consen  228 SVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKR  307 (677)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhh
Confidence            666655542100000012222222222333334444443333332                                   


Q ss_pred             ---------cCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCCh-hhHHHHH--------HHHHhcCChHHHH
Q 047359          214 ---------EKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRD-SDYYAFV--------NVLCKEHQPEEVC  275 (440)
Q Consensus       214 ---------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~--------~~~~~~~~~~~a~  275 (440)
                               .++ .|-.+|-..+..-...|+.+...++|+.....-++.+. ..|...|        -.-....+.+.+.
T Consensus       308 k~qYE~~v~~np-~nYDsWfdylrL~e~~g~~~~Ire~yErAIanvpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr  386 (677)
T KOG1915|consen  308 KFQYEKEVSKNP-YNYDSWFDYLRLEESVGDKDRIRETYERAIANVPPASEKRYWRRYIYLWINYALYEELEAEDVERTR  386 (677)
T ss_pred             hhHHHHHHHhCC-CCchHHHHHHHHHHhcCCHHHHHHHHHHHHccCCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Confidence                     222 24555666666666677777777777777764322111 1111111        1113456777777


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHH----HcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHH
Q 047359          276 GLLRDVVERGYIPCAMELSRFVASQ----CGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKI  351 (440)
Q Consensus       276 ~~~~~~~~~~~~~~~~~~~~l~~~~----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  351 (440)
                      ++++..++. ++....||..+--.|    .++.++..|.+++.....  ..|...+|...|..-.+.++++.+..++++.
T Consensus       387 ~vyq~~l~l-IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG--~cPK~KlFk~YIelElqL~efDRcRkLYEkf  463 (677)
T KOG1915|consen  387 QVYQACLDL-IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIG--KCPKDKLFKGYIELELQLREFDRCRKLYEKF  463 (677)
T ss_pred             HHHHHHHhh-cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhc--cCCchhHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            888777763 344445555443333    356778888888877654  4677888888888888889999999999999


Q ss_pred             HhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC--chhhHHHHHHHHHhcccHHHHHHHHHHHHHC
Q 047359          352 EKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV--SSSSFVIVVSRLCHLKELRKAMKNHDEMLKM  423 (440)
Q Consensus       352 ~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  423 (440)
                      ++-++. +..+|......-...|+.+.|..+|.-+.+....  +...|...|..-...|.+++|..+++++++.
T Consensus       464 le~~Pe-~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~r  536 (677)
T KOG1915|consen  464 LEFSPE-NCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDR  536 (677)
T ss_pred             HhcChH-hhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHh
Confidence            987665 7788888888888889999999999988876544  5567788888888899999999999998873

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

Probab=99.77  E-value=4.8e-15  Score=124.09  Aligned_cols=387  Identities=11%  Similarity=0.088  Sum_probs=217.9

Q ss_pred             HhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHH-HHHHHHHhccchhHHHHHHHHHHHcCCCCChh----hHHH
Q 047359           13 DALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACN-ALLDALYRQNEIRLASCLYGAMVRDGVSPNKF----TWSL   87 (440)
Q Consensus        13 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~-~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~   87 (440)
                      .+...|.+.|.-.....+|+..++-+.+...-|+..... .+...+.+.+.+.+|+++|+..+..-...+..    ..+.
T Consensus       202 svl~nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~n  281 (840)
T KOG2003|consen  202 SVLFNLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNN  281 (840)
T ss_pred             HHHHHHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhh
Confidence            344445666666677778888888777665556654332 23355667777788888877776542111222    2333


Q ss_pred             HHHHHHhcCChHHHHHHHhccc---CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCC------------chhhHH
Q 047359           88 VAQILCRSGKFEVVLGLLDSGI---YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTP------------GFSTYS  152 (440)
Q Consensus        88 l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p------------~~~~~~  152 (440)
                      +.-.+.+.|.++.|+.-|+...   |+..+--.|+-++...|+-++..+.|.+|.. ....|            +....+
T Consensus       282 igvtfiq~gqy~dainsfdh~m~~~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~-ip~~~dddkyi~~~ddp~~~ll~  360 (840)
T KOG2003|consen  282 IGVTFIQAGQYDDAINSFDHCMEEAPNFIAALNLIICAFAIGDAEKMKEAFQKLID-IPGEIDDDKYIKEKDDPDDNLLN  360 (840)
T ss_pred             cCeeEEecccchhhHhhHHHHHHhCccHHhhhhhhhhheecCcHHHHHHHHHHHhc-CCCCCCcccccCCcCCcchHHHH
Confidence            3344667778888888877765   6666655555566667777777777777755 11111            111111


Q ss_pred             HHH---------------------------------------------------------------HHHHhcCChhhHHH
Q 047359          153 SIL---------------------------------------------------------------DGARRYEKTEVSDR  169 (440)
Q Consensus       153 ~l~---------------------------------------------------------------~~~~~~~~~~~a~~  169 (440)
                      .-+                                                               ..+.+.|+++.|.+
T Consensus       361 eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~aie  440 (840)
T KOG2003|consen  361 EAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGAIE  440 (840)
T ss_pred             HHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHHHH
Confidence            110                                                               11234455555555


Q ss_pred             HHHHHHhcCCCCcccccchHHH--HH----------------------------------HHhhcCcHHHHHHHHHHHHh
Q 047359          170 IVGLMVEKKLLPKHFLSGNDYV--IQ----------------------------------KLSDMGKTYAAEMIFKRACD  213 (440)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~l--~~----------------------------------~~~~~~~~~~a~~~~~~~~~  213 (440)
                      ++.-+.+.+-...  ...-+.|  +.                                  .....|++++|.+.+++...
T Consensus       441 ilkv~~~kdnk~~--saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn~~a~~nkgn~~f~ngd~dka~~~ykeal~  518 (840)
T KOG2003|consen  441 ILKVFEKKDNKTA--SAAANNLCALRFLQGGKDFADAQQYADIALNIDRYNAAALTNKGNIAFANGDLDKAAEFYKEALN  518 (840)
T ss_pred             HHHHHHhccchhh--HHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccCHHHhhcCCceeeecCcHHHHHHHHHHHHc
Confidence            5544443321111  0000000  00                                  01112455555555555554


Q ss_pred             cCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhH
Q 047359          214 EKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMEL  293 (440)
Q Consensus       214 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  293 (440)
                      ....-....|| +.-.+-..|++++|++.|-.+...- .-+..+...+.+.|....++.+|++++...... ++.|+...
T Consensus       519 ndasc~ealfn-iglt~e~~~~ldeald~f~klh~il-~nn~evl~qianiye~led~aqaie~~~q~~sl-ip~dp~il  595 (840)
T KOG2003|consen  519 NDASCTEALFN-IGLTAEALGNLDEALDCFLKLHAIL-LNNAEVLVQIANIYELLEDPAQAIELLMQANSL-IPNDPAIL  595 (840)
T ss_pred             CchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHHH-HhhHHHHHHHHHHHHHhhCHHHHHHHHHHhccc-CCCCHHHH
Confidence            32221122222 1223344555566655555443221 113445555556666666666666666555443 34556667


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHH-Hh
Q 047359          294 SRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGL-FK  372 (440)
Q Consensus       294 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~-~~  372 (440)
                      +.|...|-+.|+-.+|.+.+-+-.+. ++-+..+..-|...|....-+++++..|++..-  +.|+..-|..++..| .+
T Consensus       596 skl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaal--iqp~~~kwqlmiasc~rr  672 (840)
T KOG2003|consen  596 SKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPNQSKWQLMIASCFRR  672 (840)
T ss_pred             HHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCccHHHHHHHHHHHHHh
Confidence            77777777777777776665444333 233566666666667777777777777776654  567888888776654 46


Q ss_pred             cCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcc
Q 047359          373 DGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLK  408 (440)
Q Consensus       373 ~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  408 (440)
                      .|+++.|..+++.+.++.|.+..+...|++.+...|
T Consensus       673 sgnyqka~d~yk~~hrkfpedldclkflvri~~dlg  708 (840)
T KOG2003|consen  673 SGNYQKAFDLYKDIHRKFPEDLDCLKFLVRIAGDLG  708 (840)
T ss_pred             cccHHHHHHHHHHHHHhCccchHHHHHHHHHhcccc
Confidence            788888888888888877778888888877776665

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

Probab=99.76  E-value=1.3e-17  Score=141.66  Aligned_cols=263  Identities=13%  Similarity=0.053  Sum_probs=114.4

Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhh
Q 047359          153 SILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSK  232 (440)
Q Consensus       153 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  232 (440)
                      .+...+.+.|++++|.+++.........|++ ...|..+.......++.+.|.+.++++...+.. ++..+..++.. ..
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~-~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~   89 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDD-PEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQ   89 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccc-ccccccccccccccccccccccccccccccccc-ccccccccccc-cc
Confidence            4566777888888888888655444322332 556666677777788888888888888876554 55567667766 68


Q ss_pred             hccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCChhhHHHHHHHHHcCCCHHHHHH
Q 047359          233 EGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERG-YIPCAMELSRFVASQCGKGKWKEVEE  311 (440)
Q Consensus       233 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~  311 (440)
                      .+++++|.++++...+..  ++...+..++..+...++++++..+++.+.... .+.+...|..+...+.+.|+.++|++
T Consensus        90 ~~~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~  167 (280)
T PF13429_consen   90 DGDPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALR  167 (280)
T ss_dssp             ------------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHH
T ss_pred             cccccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            899999999888776543  455667788888889999999999999877532 34566778888888999999999999


Q ss_pred             HHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCC
Q 047359          312 LLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKV  391 (440)
Q Consensus       312 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  391 (440)
                      .+++..+..+. |......++..+...|+.+++.++++...+.. ..|+..+..+..+|...|+.++|...|++..+..|
T Consensus       168 ~~~~al~~~P~-~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p  245 (280)
T PF13429_consen  168 DYRKALELDPD-DPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNP  245 (280)
T ss_dssp             HHHHHHHH-TT--HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHST
T ss_pred             HHHHHHHcCCC-CHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhccccccccccccccccccccc
Confidence            99999987554 67788889999999999999999988887764 44667788999999999999999999999999988


Q ss_pred             CchhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          392 VSSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       392 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      .|+.....+..++...|+.++|.++.++..+
T Consensus       246 ~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  246 DDPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             T-HHHHHHHHHHHT-----------------
T ss_pred             ccccccccccccccccccccccccccccccc
Confidence            8999999999999999999999999887654

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

Probab=99.75  E-value=6.7e-13  Score=116.26  Aligned_cols=400  Identities=10%  Similarity=-0.015  Sum_probs=200.5

Q ss_pred             CCCCChHhHHHHHHHHHccCCcchHHHHHHHH----HhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCC-
Q 047359            7 GRDSQSDALSLVLDCYSHKGLFMDGLEVYRMM----RVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPN-   81 (440)
Q Consensus         7 g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~----~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-   81 (440)
                      .++.+...|-+-...=-.+|+.+...++..+-    ...|+..+...|-.=...|-+.|..-.+..+....+.-|+.-. 
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            34445555555554445555555555544432    2334444444444444444444444444444444444333221 


Q ss_pred             -hhhHHHHHHHHHhcCChHHHHHHHhccc----CCchhHHH----------------------------------HHHHH
Q 047359           82 -KFTWSLVAQILCRSGKFEVVLGLLDSGI----YSSVMYNL----------------------------------VIDFY  122 (440)
Q Consensus        82 -~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~----------------------------------li~~~  122 (440)
                       ..||..-.+.|.+.+.++-|..+|....    .+...|..                                  ....+
T Consensus       515 ~~~tw~~da~~~~k~~~~~carAVya~alqvfp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~pkae~lwlM~ake~  594 (913)
T KOG0495|consen  515 RKSTWLDDAQSCEKRPAIECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQCPKAEILWLMYAKEK  594 (913)
T ss_pred             hHhHHhhhHHHHHhcchHHHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCcchhHHHHHHHHH
Confidence             2344444444444444444444444433    22233433                                  34444


Q ss_pred             HhcCChhHHHHHHHHHhcCCCCCC-chhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcH
Q 047359          123 SKKGDFGAAFDRLNEMCNGRNLTP-GFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKT  201 (440)
Q Consensus       123 ~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  201 (440)
                      -..|+...|..++....+   ..| +...|..-+........++.|..+|.+....+  |+  ...|..-++...-.++.
T Consensus       595 w~agdv~~ar~il~~af~---~~pnseeiwlaavKle~en~e~eraR~llakar~~s--gT--eRv~mKs~~~er~ld~~  667 (913)
T KOG0495|consen  595 WKAGDVPAARVILDQAFE---ANPNSEEIWLAAVKLEFENDELERARDLLAKARSIS--GT--ERVWMKSANLERYLDNV  667 (913)
T ss_pred             HhcCCcHHHHHHHHHHHH---hCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhccC--Cc--chhhHHHhHHHHHhhhH
Confidence            444555555555544443   112 22344444444444445555555554444322  33  33444444444444455


Q ss_pred             HHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHH
Q 047359          202 YAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDV  281 (440)
Q Consensus       202 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  281 (440)
                      ++|.+++++..+.-+. -...|..+.+.+-+.++.+.|...|..-.+. ++.....|..+...--+.|.+-.|..+++..
T Consensus       668 eeA~rllEe~lk~fp~-f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildra  745 (913)
T KOG0495|consen  668 EEALRLLEEALKSFPD-FHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRA  745 (913)
T ss_pred             HHHHHHHHHHHHhCCc-hHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHH
Confidence            5555555444443211 1223444444444444444444444433332 1112233444444444444555555555554


Q ss_pred             HHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHH
Q 047359          282 VERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVA  361 (440)
Q Consensus       282 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~  361 (440)
                      .-.+ +-+...|-..|+.-.+.|+.+.|..++.+.++.- +.+...|..-|....+.++-......+++     ..-|++
T Consensus       746 rlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQec-p~sg~LWaEaI~le~~~~rkTks~DALkk-----ce~dph  818 (913)
T KOG0495|consen  746 RLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQEC-PSSGLLWAEAIWLEPRPQRKTKSIDALKK-----CEHDPH  818 (913)
T ss_pred             HhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccchhHHHHHHhccCcccchHHHHHHHh-----ccCCch
Confidence            4433 2344444455555555555555555554444431 12333444444444443332222222221     233666


Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          362 TYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       362 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      ..-.+...+....+++.|.+.|.+....++....+|..+...+.+.|.-+.-.++++....
T Consensus       819 Vllaia~lfw~e~k~~kar~Wf~Ravk~d~d~GD~wa~fykfel~hG~eed~kev~~~c~~  879 (913)
T KOG0495|consen  819 VLLAIAKLFWSEKKIEKAREWFERAVKKDPDNGDAWAWFYKFELRHGTEEDQKEVLKKCET  879 (913)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHccCCccchHHHHHHHHHHHhCCHHHHHHHHHHHhc
Confidence            6677777888888999999999999999999888999999999999988888888888876

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

Probab=99.74  E-value=1.5e-13  Score=124.64  Aligned_cols=361  Identities=14%  Similarity=0.085  Sum_probs=265.1

Q ss_pred             HhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 047359           13 DALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQIL   92 (440)
Q Consensus        13 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   92 (440)
                      ...-.....+.-.|++++|.+++.++.+.. +.+...|..|...|-..|+.+++...+-.+.... +.|...|..+....
T Consensus       140 ~~ll~eAN~lfarg~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~ladls  217 (895)
T KOG2076|consen  140 RQLLGEANNLFARGDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRLADLS  217 (895)
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHHHHHH
Confidence            333334444445599999999999999876 5678899999999999999999998877665543 34778899999999


Q ss_pred             HhcCChHHHHHHHhccc----CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCC--chhhH----HHHHHHHHhcC
Q 047359           93 CRSGKFEVVLGLLDSGI----YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTP--GFSTY----SSILDGARRYE  162 (440)
Q Consensus        93 ~~~~~~~~a~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p--~~~~~----~~l~~~~~~~~  162 (440)
                      ...|.++.|.-+|.+..    ++...+---+..|-+.|+...|.+-|.++.+   ..|  |..-.    ...+..+...+
T Consensus       218 ~~~~~i~qA~~cy~rAI~~~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~---~~p~~d~er~~d~i~~~~~~~~~~~  294 (895)
T KOG2076|consen  218 EQLGNINQARYCYSRAIQANPSNWELIYERSSLYQKTGDLKRAMETFLQLLQ---LDPPVDIERIEDLIRRVAHYFITHN  294 (895)
T ss_pred             HhcccHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhChHHHHHHHHHHHHh---hCCchhHHHHHHHHHHHHHHHHHhh
Confidence            99999999999999977    3434445567788999999999999999977   334  22222    23455566677


Q ss_pred             ChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCC-----------------------
Q 047359          163 KTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQ-----------------------  219 (440)
Q Consensus       163 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----------------------  219 (440)
                      +-+.|.+.++.....+..-.. ...++.++..+.+...++.+.............+|                       
T Consensus       295 ~~e~a~~~le~~~s~~~~~~~-~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~  373 (895)
T KOG2076|consen  295 ERERAAKALEGALSKEKDEAS-LEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKE  373 (895)
T ss_pred             HHHHHHHHHHHHHhhcccccc-ccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCC
Confidence            779999999888874322211 56788899999999999999988888776222222                       


Q ss_pred             ----HHhHHHHHHHHhhhccHHHHHHHHHHHHHcC--CCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhH
Q 047359          220 ----DDTCGCMLKALSKEGRVKEAIQIYHLISERG--ITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMEL  293 (440)
Q Consensus       220 ----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  293 (440)
                          ..++. +.-++...+..+....+.....+..  +.-+...|.-+..++...|++.+|+.++..+......-+...|
T Consensus       374 ~s~~l~v~r-l~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw  452 (895)
T KOG2076|consen  374 LSYDLRVIR-LMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVW  452 (895)
T ss_pred             CCccchhHh-HhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhh
Confidence                22211 2223334444444555555555555  3335677888999999999999999999999887555567789


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHh--------ccCCcCHHhHHH
Q 047359          294 SRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEK--------LKGSLDVATYDV  365 (440)
Q Consensus       294 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--------~~~~p~~~~~~~  365 (440)
                      -.+..+|...|..++|.+.|+.+....+. +...-..|...+.+.|+.++|.+.+..+..        .+..|+......
T Consensus       453 ~~~a~c~~~l~e~e~A~e~y~kvl~~~p~-~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~  531 (895)
T KOG2076|consen  453 YKLARCYMELGEYEEAIEFYEKVLILAPD-NLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAH  531 (895)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHhcCCC-chhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHH
Confidence            99999999999999999999999987543 555666777889999999999999988652        223445555555


Q ss_pred             HHHHHHhcCcHHHHHH
Q 047359          366 LLDGLFKDGRMEEAVR  381 (440)
Q Consensus       366 l~~~~~~~g~~~~a~~  381 (440)
                      ....+.+.|+.++-+.
T Consensus       532 r~d~l~~~gk~E~fi~  547 (895)
T KOG2076|consen  532 RCDILFQVGKREEFIN  547 (895)
T ss_pred             HHHHHHHhhhHHHHHH
Confidence            5666777777665443

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

Probab=99.73  E-value=6.7e-13  Score=111.60  Aligned_cols=377  Identities=11%  Similarity=0.023  Sum_probs=239.5

Q ss_pred             cChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHhcccCCchhH--HHHHHHH
Q 047359           45 PAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGIYSSVMY--NLVIDFY  122 (440)
Q Consensus        45 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~li~~~  122 (440)
                      .|...+-.....+-+.|....|.+.|...+.. .+-.-..|..|...   .-+.+.+..+......+....  -.+..++
T Consensus       162 ~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~-~P~~W~AWleL~~l---it~~e~~~~l~~~l~~~~h~M~~~F~~~a~  237 (559)
T KOG1155|consen  162 KDEFLLYLYGVVLKELGLLSLAIDSFVEVVNR-YPWFWSAWLELSEL---ITDIEILSILVVGLPSDMHWMKKFFLKKAY  237 (559)
T ss_pred             chhHHHHHHHHHHHhhchHHHHHHHHHHHHhc-CCcchHHHHHHHHh---hchHHHHHHHHhcCcccchHHHHHHHHHHH
Confidence            34333333334445567777777777766543 12233333333322   223333333332222111111  1233455


Q ss_pred             HhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHH
Q 047359          123 SKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTY  202 (440)
Q Consensus       123 ~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  202 (440)
                      ......+++++-...... .|.+-+...-+....+.....+++.|+.+|+++.+.++-.-.+..+|..++-.-.......
T Consensus       238 ~el~q~~e~~~k~e~l~~-~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs  316 (559)
T KOG1155|consen  238 QELHQHEEALQKKERLSS-VGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLS  316 (559)
T ss_pred             HHHHHHHHHHHHHHHHHh-ccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHH
Confidence            566677777777777766 5555444444444445567788889999999888875322122556665553332221111


Q ss_pred             -HHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHH
Q 047359          203 -AAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDV  281 (440)
Q Consensus       203 -~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  281 (440)
                       -|..++ .+-    +-.+.|...+..-|+-.++.++|...|++..+.++. ....|+.+..-|...++...|..-++.+
T Consensus       317 ~LA~~v~-~id----KyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~sYRrA  390 (559)
T KOG1155|consen  317 YLAQNVS-NID----KYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIESYRRA  390 (559)
T ss_pred             HHHHHHH-Hhc----cCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHHHHHHH
Confidence             122211 111    123456777777888888888898888888887654 5567888888888888888888888888


Q ss_pred             HHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHH
Q 047359          282 VERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVA  361 (440)
Q Consensus       282 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~  361 (440)
                      ++-+ +.|-..|-.|.++|.-.+...-|+-.|++.....+. |+..|..|..+|.+.++.++|++.|.+....|-. +..
T Consensus       391 vdi~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPn-DsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dt-e~~  467 (559)
T KOG1155|consen  391 VDIN-PRDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPN-DSRLWVALGECYEKLNRLEEAIKCYKRAILLGDT-EGS  467 (559)
T ss_pred             HhcC-chhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHhccHHHHHHHHHHHHhcccc-chH
Confidence            8764 567788888888888888888888888888877544 7888888888898889999999988888876543 667


Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHHHHc----CCCch---hhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHHHHHH
Q 047359          362 TYDVLLDGLFKDGRMEEAVRIFDYMKEL----KVVSS---SSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQ  434 (440)
Q Consensus       362 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~~~---~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~  434 (440)
                      .+..|...|-+.++.++|...|++..+.    |..++   .+..-|...+.+.+++++|......... | .+...--+.
T Consensus       468 ~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~-~-~~e~eeak~  545 (559)
T KOG1155|consen  468 ALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVLK-G-ETECEEAKA  545 (559)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHhc-C-CchHHHHHH
Confidence            8888888888888888888888876652    22222   2333466667788888888776655544 2 455454455


Q ss_pred             Hhh
Q 047359          435 VIS  437 (440)
Q Consensus       435 ll~  437 (440)
                      |++
T Consensus       546 LlR  548 (559)
T KOG1155|consen  546 LLR  548 (559)
T ss_pred             HHH
Confidence            544

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

Probab=99.73  E-value=4.6e-14  Score=127.80  Aligned_cols=325  Identities=13%  Similarity=0.119  Sum_probs=227.9

Q ss_pred             HHHHhcCChHHHHHHHhccc----CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCC-chhhHHHHHHHHHhcCCh
Q 047359           90 QILCRSGKFEVVLGLLDSGI----YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTP-GFSTYSSILDGARRYEKT  164 (440)
Q Consensus        90 ~~~~~~~~~~~a~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~  164 (440)
                      +...-.|+.++|..++.++.    .+...|..|..+|-+.|+.+++...+-..-.   +.| |...|..+.....+.|++
T Consensus       147 N~lfarg~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAH---L~p~d~e~W~~ladls~~~~~i  223 (895)
T KOG2076|consen  147 NNLFARGDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAH---LNPKDYELWKRLADLSEQLGNI  223 (895)
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHh---cCCCChHHHHHHHHHHHhcccH
Confidence            33334477777777777766    4555677777777777777777766655533   333 445677777777777778


Q ss_pred             hhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHh----HHHHHHHHhhhccHHHHH
Q 047359          165 EVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDT----CGCMLKALSKEGRVKEAI  240 (440)
Q Consensus       165 ~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----~~~l~~~~~~~~~~~~a~  240 (440)
                      +.|.-.|.+.++..  |++ ...+-.-+..|.+.|+...|.+-|.++....+..|..-    -..+++.+...++.+.|.
T Consensus       224 ~qA~~cy~rAI~~~--p~n-~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~  300 (895)
T KOG2076|consen  224 NQARYCYSRAIQAN--PSN-WELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAA  300 (895)
T ss_pred             HHHHHHHHHHHhcC--Ccc-hHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHH
Confidence            88888887777765  332 33444456677777888888877777777654222222    223455566667777777


Q ss_pred             HHHHHHHHc-CCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHc---------------------------CCCCChhh
Q 047359          241 QIYHLISER-GITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVER---------------------------GYIPCAME  292 (440)
Q Consensus       241 ~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---------------------------~~~~~~~~  292 (440)
                      +.++..... +-..+...++.++..+.+...++.+..........                           +..++...
T Consensus       301 ~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v  380 (895)
T KOG2076|consen  301 KALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRV  380 (895)
T ss_pred             HHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchh
Confidence            777776652 22335556777777777777777777776666541                           11222223


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhcC--CCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHH
Q 047359          293 LSRFVASQCGKGKWKEVEELLSAVLDKG--LLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGL  370 (440)
Q Consensus       293 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  370 (440)
                      + .+.-++.+.+..+....+........  +.-+...|..+..+|...|++.+|+.++..+......-+...|-.+..+|
T Consensus       381 ~-rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~  459 (895)
T KOG2076|consen  381 I-RLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCY  459 (895)
T ss_pred             H-hHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHH
Confidence            1 22334445555555555555555554  34456678889999999999999999999999876666788999999999


Q ss_pred             HhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHH
Q 047359          371 FKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEML  421 (440)
Q Consensus       371 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  421 (440)
                      ...|.+++|.+.++++....|.+..+-..|...+.+.|+.++|.+.+..+.
T Consensus       460 ~~l~e~e~A~e~y~kvl~~~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~  510 (895)
T KOG2076|consen  460 MELGEYEEAIEFYEKVLILAPDNLDARITLASLYQQLGNHEKALETLEQII  510 (895)
T ss_pred             HHHhhHHHHHHHHHHHHhcCCCchhhhhhHHHHHHhcCCHHHHHHHHhccc
Confidence            999999999999999999999888888899999999999999999999865

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.73  E-value=5.4e-14  Score=124.97  Aligned_cols=285  Identities=10%  Similarity=0.060  Sum_probs=203.6

Q ss_pred             cCChhHHHHHHHHHhcCCCCCCchh-hHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHH
Q 047359          125 KGDFGAAFDRLNEMCNGRNLTPGFS-TYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYA  203 (440)
Q Consensus       125 ~~~~~~a~~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  203 (440)
                      .|++++|.+.+....+ .  .++.. .|.....+..+.|+++.|...+.++.+..  |+............+...|+++.
T Consensus        97 eGd~~~A~k~l~~~~~-~--~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~--~~~~~~~~l~~a~l~l~~g~~~~  171 (398)
T PRK10747         97 EGDYQQVEKLMTRNAD-H--AEQPVVNYLLAAEAAQQRGDEARANQHLERAAELA--DNDQLPVEITRVRIQLARNENHA  171 (398)
T ss_pred             CCCHHHHHHHHHHHHh-c--ccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHHHCCCHHH
Confidence            5888888877777644 2  12222 33333445578888888888888887644  44102222233667888888888


Q ss_pred             HHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCCh-------hhHHHHHHHHHhcCChHHHHH
Q 047359          204 AEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRD-------SDYYAFVNVLCKEHQPEEVCG  276 (440)
Q Consensus       204 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~  276 (440)
                      |...++++.+..+. ++.....+...|.+.|++++|.+++..+.+.+..++.       .+|..++.......+.+...+
T Consensus       172 Al~~l~~~~~~~P~-~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~  250 (398)
T PRK10747        172 ARHGVDKLLEVAPR-HPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKR  250 (398)
T ss_pred             HHHHHHHHHhcCCC-CHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            98888888887765 6777888888888999999999999988887655322       123333444444455666666


Q ss_pred             HHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccC
Q 047359          277 LLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKG  356 (440)
Q Consensus       277 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  356 (440)
                      +++.+.+. .+.+......+...+...|+.++|.+++++..+..  |+...  .++.+....++.+++.+..+...+..+
T Consensus       251 ~w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~~--~~~~l--~~l~~~l~~~~~~~al~~~e~~lk~~P  325 (398)
T PRK10747        251 WWKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKRQ--YDERL--VLLIPRLKTNNPEQLEKVLRQQIKQHG  325 (398)
T ss_pred             HHHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCHHH--HHHHhhccCCChHHHHHHHHHHHhhCC
Confidence            67666443 24567778888888999999999999998888753  34321  233344456889999999998887655


Q ss_pred             CcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          357 SLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       357 ~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      . |...+..+...|.+.|++++|.+.|+.+.+..|. ...+..+...+.+.|+.++|.+++++...
T Consensus       326 ~-~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~-~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        326 D-TPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPD-AYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             C-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            4 6677888899999999999999999999887655 34466788888999999999999988765

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

Probab=99.73  E-value=4.4e-17  Score=138.41  Aligned_cols=261  Identities=13%  Similarity=0.060  Sum_probs=72.5

Q ss_pred             HHHHHHHccCCcchHHHHHHHHHhcC-CccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 047359           17 LVLDCYSHKGLFMDGLEVYRMMRVYG-FVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRS   95 (440)
Q Consensus        17 ~li~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   95 (440)
                      .+...+.+.|++++|+++++...... .+.+...|..+.......++++.|.+.++++.+.+.. ++..+..++..    
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l----   87 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL----   87 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc----
Confidence            34555556666666666664433222 1223333333444444455666666666666554321 33334444443    


Q ss_pred             CChHHHHHHHhcccCCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHH
Q 047359           96 GKFEVVLGLLDSGIYSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMV  175 (440)
Q Consensus        96 ~~~~~a~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  175 (440)
                                                 ...+++++|.+++....+   ..++...+..++..+.+.++++++..+++.+.
T Consensus        88 ---------------------------~~~~~~~~A~~~~~~~~~---~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~  137 (280)
T PF13429_consen   88 ---------------------------LQDGDPEEALKLAEKAYE---RDGDPRYLLSALQLYYRLGDYDEAEELLEKLE  137 (280)
T ss_dssp             ------------------------------------------------------------H-HHHTT-HHHHHHHHHHHH
T ss_pred             ---------------------------cccccccccccccccccc---cccccchhhHHHHHHHHHhHHHHHHHHHHHHH
Confidence                                       344555555555444332   12333444445555555555555555555554


Q ss_pred             hcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCCh
Q 047359          176 EKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRD  255 (440)
Q Consensus       176 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  255 (440)
                      ...-.++ +...|..+...+.+.|+.++|.+.+++..+..+. |......++..+...|+.+++..+++...+.. +.|.
T Consensus       138 ~~~~~~~-~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~P~-~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~  214 (280)
T PF13429_consen  138 ELPAAPD-SARFWLALAEIYEQLGDPDKALRDYRKALELDPD-DPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDP  214 (280)
T ss_dssp             H-T---T--HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH-TT--HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSC
T ss_pred             hccCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHH
Confidence            3221111 1444555555555566666666666655555433 44555556666666666666555555555443 2244


Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHH
Q 047359          256 SDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAV  316 (440)
Q Consensus       256 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  316 (440)
                      ..+..+..++...|++++|..+++...+.. +.|......+..++...|+.++|.++.++.
T Consensus       215 ~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~  274 (280)
T PF13429_consen  215 DLWDALAAAYLQLGRYEEALEYLEKALKLN-PDDPLWLLAYADALEQAGRKDEALRLRRQA  274 (280)
T ss_dssp             CHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHT---------------
T ss_pred             HHHHHHHHHhcccccccccccccccccccc-cccccccccccccccccccccccccccccc
Confidence            455556666666666666666666655542 335555555666666666666666665554

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

Probab=99.72  E-value=3.9e-12  Score=111.61  Aligned_cols=384  Identities=13%  Similarity=0.014  Sum_probs=308.7

Q ss_pred             ccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHH
Q 047359           24 HKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLG  103 (440)
Q Consensus        24 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  103 (440)
                      ...+.+.|.-++.+..+.- +.+..    |.-++++...++.|.++++...+. ++.+...|.+-...--..|+.+...+
T Consensus       388 elE~~~darilL~rAvecc-p~s~d----LwlAlarLetYenAkkvLNkaRe~-iptd~~IWitaa~LEE~ngn~~mv~k  461 (913)
T KOG0495|consen  388 ELEEPEDARILLERAVECC-PQSMD----LWLALARLETYENAKKVLNKAREI-IPTDREIWITAAKLEEANGNVDMVEK  461 (913)
T ss_pred             hccChHHHHHHHHHHHHhc-cchHH----HHHHHHHHHHHHHHHHHHHHHHhh-CCCChhHHHHHHHHHHhcCCHHHHHH
Confidence            3456666888888777642 33333    344666777899999999999875 66688889888888888999999999


Q ss_pred             HHhccc---------CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCc--hhhHHHHHHHHHhcCChhhHHHHHH
Q 047359          104 LLDSGI---------YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPG--FSTYSSILDGARRYEKTEVSDRIVG  172 (440)
Q Consensus       104 ~~~~~~---------~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~  172 (440)
                      ++++..         .+...|-.=...|-..|..-.+..+...... -|+.-.  ..||..-...|.+.+.++-|..+|.
T Consensus       462 ii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avig-igvEeed~~~tw~~da~~~~k~~~~~carAVya  540 (913)
T KOG0495|consen  462 IIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIG-IGVEEEDRKSTWLDDAQSCEKRPAIECARAVYA  540 (913)
T ss_pred             HHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHh-hccccchhHhHHhhhHHHHHhcchHHHHHHHHH
Confidence            887755         4445566666777778888888888888876 665532  3488888889999999999999999


Q ss_pred             HHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCC
Q 047359          173 LMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGIT  252 (440)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  252 (440)
                      ..++..  |.. ...|......--..|..+....+|++....-++ ....|......+-..|+...|..++....+....
T Consensus       541 ~alqvf--p~k-~slWlra~~~ek~hgt~Esl~Allqkav~~~pk-ae~lwlM~ake~w~agdv~~ar~il~~af~~~pn  616 (913)
T KOG0495|consen  541 HALQVF--PCK-KSLWLRAAMFEKSHGTRESLEALLQKAVEQCPK-AEILWLMYAKEKWKAGDVPAARVILDQAFEANPN  616 (913)
T ss_pred             HHHhhc--cch-hHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCc-chhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCC
Confidence            988754  332 677877777777889999999999999887554 5667888888888899999999999999888665


Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHH
Q 047359          253 VRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLM  332 (440)
Q Consensus       253 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  332 (440)
                       +...|...+.....+..++.|..+|......  .|+...|..-+....-.++.++|.+++++..+.-+. -...|..+.
T Consensus       617 -seeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~fp~-f~Kl~lmlG  692 (913)
T KOG0495|consen  617 -SEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALRLLEEALKSFPD-FHKLWLMLG  692 (913)
T ss_pred             -cHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHhCCc-hHHHHHHHh
Confidence             7788888999999999999999999998774  578888887777777789999999999998876322 345677888


Q ss_pred             HHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHH
Q 047359          333 EYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRK  412 (440)
Q Consensus       333 ~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  412 (440)
                      +.+-+.++.+.|.+.|..-.+. ++-.+..|-.|...--+.|+.-.|..++++.+-.+|.+...|...++.-.+.|..+.
T Consensus       693 Qi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNPk~~~lwle~Ir~ElR~gn~~~  771 (913)
T KOG0495|consen  693 QIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNPKNALLWLESIRMELRAGNKEQ  771 (913)
T ss_pred             HHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCCCcchhHHHHHHHHHHcCCHHH
Confidence            8899999999999988877664 333556788888888889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHC
Q 047359          413 AMKNHDEMLKM  423 (440)
Q Consensus       413 a~~~~~~m~~~  423 (440)
                      |..++.+.++.
T Consensus       772 a~~lmakALQe  782 (913)
T KOG0495|consen  772 AELLMAKALQE  782 (913)
T ss_pred             HHHHHHHHHHh
Confidence            99998887763

>TIGR00540 hemY_coli hemY protein

Probab=99.72  E-value=7.4e-14  Score=124.83  Aligned_cols=292  Identities=11%  Similarity=-0.010  Sum_probs=202.3

Q ss_pred             HhcCChhHHHHHHHHHhcCCCCCCchh-hHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcH
Q 047359          123 SKKGDFGAAFDRLNEMCNGRNLTPGFS-TYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKT  201 (440)
Q Consensus       123 ~~~~~~~~a~~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  201 (440)
                      ...|+++.|.+.+.+..+   ..|+.. .+-....+....|+.+.|.+.+.+..+..  |+............+...|++
T Consensus        95 ~~~g~~~~A~~~l~~~~~---~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~--p~~~l~~~~~~a~l~l~~~~~  169 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNAD---HAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELA--GNDNILVEIARTRILLAQNEL  169 (409)
T ss_pred             HhCCCHHHHHHHHHHHhh---cCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CcCchHHHHHHHHHHHHCCCH
Confidence            457899999998888755   445543 34445567778899999999998887654  441122333457788888999


Q ss_pred             HHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHH---HHhcCChHHHHHHH
Q 047359          202 YAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNV---LCKEHQPEEVCGLL  278 (440)
Q Consensus       202 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~---~~~~~~~~~a~~~~  278 (440)
                      +.|...++.+.+..+. ++..+..+...+.+.|++++|.+.+..+.+.++.++......-..+   ....+..+++.+.+
T Consensus       170 ~~Al~~l~~l~~~~P~-~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L  248 (409)
T TIGR00540       170 HAARHGVDKLLEMAPR-HKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGL  248 (409)
T ss_pred             HHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHH
Confidence            9999999999888765 6678888889999999999999999999988654332221111111   12223333333444


Q ss_pred             HHHHHcCC---CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhh-HHHHHHHHcCCcHHHHHHHHHHHHhc
Q 047359          279 RDVVERGY---IPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCC-SSLMEYYCSNRQIDKAIALHIKIEKL  354 (440)
Q Consensus       279 ~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~  354 (440)
                      ..+.+...   +.+...+..+...+...|+.++|.+++++..+..+......+ ..........++.+.+.+.++...+.
T Consensus       249 ~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~  328 (409)
T TIGR00540       249 LNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKN  328 (409)
T ss_pred             HHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHh
Confidence            44444321   236778888888999999999999999999887543221111 11222233457788888888888775


Q ss_pred             cCCcCH--HhHHHHHHHHHhcCcHHHHHHHHHH--HHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          355 KGSLDV--ATYDVLLDGLFKDGRMEEAVRIFDY--MKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       355 ~~~p~~--~~~~~l~~~~~~~g~~~~a~~~~~~--~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      .+. |+  ....++...+.+.|++++|.+.|+.  ..+..| ++..+..+...+.+.|+.++|.+++++...
T Consensus       329 ~p~-~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p-~~~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       329 VDD-KPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQL-DANDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             CCC-ChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            433 44  5677889999999999999999995  444443 444567899999999999999999988654

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.

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.71  E-value=8e-14  Score=123.90  Aligned_cols=280  Identities=13%  Similarity=0.058  Sum_probs=209.6

Q ss_pred             cCChHHHHHHHhccc---CCchhH-HHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHH--HHHHHHHhcCChhhHH
Q 047359           95 SGKFEVVLGLLDSGI---YSSVMY-NLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYS--SILDGARRYEKTEVSD  168 (440)
Q Consensus        95 ~~~~~~a~~~~~~~~---~~~~~~-~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~--~l~~~~~~~~~~~~a~  168 (440)
                      .|+++.|.+.+....   +++..+ ........+.|+++.|.+.+.++.+   ..|+.....  .....+...|+++.|.
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~---~~~~~~~~~~l~~a~l~l~~g~~~~Al  173 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAE---LADNDQLPVEITRVRIQLARNENHAAR  173 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCcchHHHHHHHHHHHHHCCCHHHHH
Confidence            588888888877665   223333 3334445788999999999999866   556654333  3356778889999999


Q ss_pred             HHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHH-------hHHHHHHHHhhhccHHHHHH
Q 047359          169 RIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDD-------TCGCMLKALSKEGRVKEAIQ  241 (440)
Q Consensus       169 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~l~~~~~~~~~~~~a~~  241 (440)
                      ..++.+.+..  |++ ......+...|.+.|++++|.+++..+.+.+..++..       .|..++.......+.+...+
T Consensus       174 ~~l~~~~~~~--P~~-~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~  250 (398)
T PRK10747        174 HGVDKLLEVA--PRH-PEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKR  250 (398)
T ss_pred             HHHHHHHhcC--CCC-HHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            9999988765  554 6778888899999999999999999998876653221       22333333334445566666


Q ss_pred             HHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCC
Q 047359          242 IYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGL  321 (440)
Q Consensus       242 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  321 (440)
                      +++.+.+. .+.+......+...+...|+.++|.+++++..+.  +|+....  ++.+....++.+++.+..+...+..+
T Consensus       251 ~w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~P  325 (398)
T PRK10747        251 WWKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQHG  325 (398)
T ss_pred             HHHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HHHhhccCCChHHHHHHHHHHHhhCC
Confidence            66666443 2346778888999999999999999999998874  4444322  33344456999999999999988765


Q ss_pred             CCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 047359          322 LLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKE  388 (440)
Q Consensus       322 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  388 (440)
                      . |...+..+...|.+.+++++|.+.|+...+.  .|+...+..+...+.+.|+.++|.+.+++...
T Consensus       326 ~-~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        326 D-TPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             C-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            4 6677888999999999999999999999984  68888888999999999999999999987754

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

Probab=99.71  E-value=3e-13  Score=114.41  Aligned_cols=388  Identities=11%  Similarity=-0.025  Sum_probs=261.1

Q ss_pred             HHHHHHccCCcchHHHHHHHHHhcCCccC-hHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCC-hhhHHHHHHHHHhc
Q 047359           18 VLDCYSHKGLFMDGLEVYRMMRVYGFVPA-VSACNALLDALYRQNEIRLASCLYGAMVRDGVSPN-KFTWSLVAQILCRS   95 (440)
Q Consensus        18 li~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~   95 (440)
                      .-.-|.++|++++|++.+.+..+.  .|+ +.-|.....+|...|+++++.+--...++.  .|+ +..+..-.+++-..
T Consensus       121 ~GN~~f~~kkY~eAIkyY~~AI~l--~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl--~P~Y~KAl~RRA~A~E~l  196 (606)
T KOG0547|consen  121 KGNKFFRNKKYDEAIKYYTQAIEL--CPDEPIFYSNRAACYESLGDWEKVIEDCTKALEL--NPDYVKALLRRASAHEQL  196 (606)
T ss_pred             hhhhhhhcccHHHHHHHHHHHHhc--CCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhc--CcHHHHHHHHHHHHHHhh
Confidence            345677889999999999999986  477 777888888889999999999888888774  454 34566666777778


Q ss_pred             CChHHHHHHHhcccCCchhHHHHHHHHHhcCChhHHHHHH--------HHHhc--CCCCCCchhhHHHHHHHHHh-----
Q 047359           96 GKFEVVLGLLDSGIYSSVMYNLVIDFYSKKGDFGAAFDRL--------NEMCN--GRNLTPGFSTYSSILDGARR-----  160 (440)
Q Consensus        96 ~~~~~a~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~--------~~~~~--~~~~~p~~~~~~~l~~~~~~-----  160 (440)
                      |++++|+.=+        +-.++..++....-..-+.+++        .+-.+  +..+-|+.....+....+-.     
T Consensus       197 g~~~eal~D~--------tv~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~~~  268 (606)
T KOG0547|consen  197 GKFDEALFDV--------TVLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHADPKPL  268 (606)
T ss_pred             ccHHHHHHhh--------hHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhcccccccc
Confidence            8888775421        1112222221111111111111        11111  12233443322222222110     


Q ss_pred             --------------------cC---ChhhHHHHHHHHHhc-CCCCccc---------ccchHHHHHHHhhcCcHHHHHHH
Q 047359          161 --------------------YE---KTEVSDRIVGLMVEK-KLLPKHF---------LSGNDYVIQKLSDMGKTYAAEMI  207 (440)
Q Consensus       161 --------------------~~---~~~~a~~~~~~~~~~-~~~~~~~---------~~~~~~l~~~~~~~~~~~~a~~~  207 (440)
                                          .+   .+..+...+.+-... ...++..         ..+.......+.-.|+.-.|..-
T Consensus       269 ~~~~~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~~a~~d  348 (606)
T KOG0547|consen  269 FDNKSDKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSLGAQED  348 (606)
T ss_pred             ccCCCccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCchhhhhh
Confidence                                00   112222222111110 0111100         11111222334456899999999


Q ss_pred             HHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCC
Q 047359          208 FKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYI  287 (440)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  287 (440)
                      |+..++..+.++. .|--+...|....+.++..+.|....+.++. ++.+|..-.+...-.+++++|..-|+..+... +
T Consensus       349 ~~~~I~l~~~~~~-lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~-p  425 (606)
T KOG0547|consen  349 FDAAIKLDPAFNS-LYIKRAAAYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLLQQYEEAIADFQKAISLD-P  425 (606)
T ss_pred             HHHHHhcCcccch-HHHHHHHHHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHHHHHHHHHHHHHHHhhcC-h
Confidence            9999987766443 3777778899999999999999999988765 67788888888888899999999999998764 3


Q ss_pred             CChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCC-------cCH
Q 047359          288 PCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGS-------LDV  360 (440)
Q Consensus       288 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-------p~~  360 (440)
                      .+...|..+..+..+.+.+++++..|++..+.-+ ..+..|+.....+...++++.|.+.|+..++....       +.+
T Consensus       426 e~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkkFP-~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~p  504 (606)
T KOG0547|consen  426 ENAYAYIQLCCALYRQHKIAESMKTFEEAKKKFP-NCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAP  504 (606)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchh
Confidence            3555666677777788999999999999988744 37889999999999999999999999999875322       112


Q ss_pred             HhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          361 ATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       361 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      .+...++..-. .+++..|.++++++.+.+|....++..|.....+.|+.++|+++|++...
T Consensus       505 lV~Ka~l~~qw-k~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  505 LVHKALLVLQW-KEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             hhhhhHhhhch-hhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            22233333222 38999999999999999999999999999999999999999999998654

>TIGR00540 hemY_coli hemY protein

Probab=99.70  E-value=1.3e-13  Score=123.34  Aligned_cols=286  Identities=13%  Similarity=0.032  Sum_probs=201.1

Q ss_pred             HhcCChHHHHHHHhccc---CCchh-HHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchh--hHHHHHHHHHhcCChhh
Q 047359           93 CRSGKFEVVLGLLDSGI---YSSVM-YNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFS--TYSSILDGARRYEKTEV  166 (440)
Q Consensus        93 ~~~~~~~~a~~~~~~~~---~~~~~-~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~--~~~~l~~~~~~~~~~~~  166 (440)
                      ...|+++.|.+.+.+..   |+... +-....+..+.|+.+.|.+.+.+..+   ..|+..  ........+...|+++.
T Consensus        95 ~~~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~---~~p~~~l~~~~~~a~l~l~~~~~~~  171 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAE---LAGNDNILVEIARTRILLAQNELHA  171 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCcCchHHHHHHHHHHHHCCCHHH
Confidence            35678888888877665   43332 34445667778888888888888765   335543  33334677778899999


Q ss_pred             HHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHH-HHHHHH---hhhccHHHHHHH
Q 047359          167 SDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCG-CMLKAL---SKEGRVKEAIQI  242 (440)
Q Consensus       167 a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~---~~~~~~~~a~~~  242 (440)
                      |...++.+.+..  |++ ......+...+...|+++.|.+.+..+.+.++. +...+. .-..++   ...+..+.+.+.
T Consensus       172 Al~~l~~l~~~~--P~~-~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~l~~~~~~~~~~~  247 (409)
T TIGR00540       172 ARHGVDKLLEMA--PRH-KEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQKAEIGLLDEAMADEGIDG  247 (409)
T ss_pred             HHHHHHHHHHhC--CCC-HHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHHHhcCHHH
Confidence            999998888875  543 567778888889999999999999988887654 332231 111211   233333333445


Q ss_pred             HHHHHHcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhh---HHHHHHHHHcCCCHHHHHHHHHHH
Q 047359          243 YHLISERGIT---VRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAME---LSRFVASQCGKGKWKEVEELLSAV  316 (440)
Q Consensus       243 ~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~a~~~~~~~  316 (440)
                      +..+.+..+.   .+...+..+...+...|+.++|.+++++..+..  |+...   ...........++.+.+.+.++..
T Consensus       248 L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~--pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~  325 (409)
T TIGR00540       248 LLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL--GDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQ  325 (409)
T ss_pred             HHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC--CCcccchhHHHHHhhhcCCCChHHHHHHHHHH
Confidence            5555544321   367788888899999999999999999998864  34332   111222233457888899999888


Q ss_pred             HhcCCCCch--hhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 047359          317 LDKGLLLDS--FCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKE  388 (440)
Q Consensus       317 ~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  388 (440)
                      .+..+. |+  ....++...+.+.|++++|.+.|+........|+...+..+...+.+.|+.++|.+++++...
T Consensus       326 lk~~p~-~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       326 AKNVDD-KPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             HHhCCC-ChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            876433 44  566788899999999999999999655444578888888999999999999999999998654

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.

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

Probab=99.69  E-value=3.9e-14  Score=118.71  Aligned_cols=382  Identities=12%  Similarity=0.083  Sum_probs=209.7

Q ss_pred             HHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhH-HHHHHHHHhcCChHHHHHHHhccc---CCc------hhHHHHH
Q 047359           50 CNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTW-SLVAQILCRSGKFEVVLGLLDSGI---YSS------VMYNLVI  119 (440)
Q Consensus        50 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~---~~~------~~~~~li  119 (440)
                      ...|.+.|.......+|+..|+-+++...-|+.-.. ..+.+.+.+...+.+|+++++-..   |+.      ...+.+.
T Consensus       204 l~nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~nig  283 (840)
T KOG2003|consen  204 LFNLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNIG  283 (840)
T ss_pred             HHHHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhcC
Confidence            334455566667788999999999887766765443 335567888889999999987765   332      2355556


Q ss_pred             HHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCccc------ccchHHHHH
Q 047359          120 DFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHF------LSGNDYVIQ  193 (440)
Q Consensus       120 ~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------~~~~~~l~~  193 (440)
                      -.+.+.|.++.|+..|+...+   ..|+..+-..|+-++.-.|+-++..+.|.+|+.....|+..      ...-..|+.
T Consensus       284 vtfiq~gqy~dainsfdh~m~---~~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~  360 (840)
T KOG2003|consen  284 VTFIQAGQYDDAINSFDHCME---EAPNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLN  360 (840)
T ss_pred             eeEEecccchhhHhhHHHHHH---hCccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHH
Confidence            667889999999999999877   66888766666777778899999999999998754333310      000111221


Q ss_pred             HHhhc---------C--cHHHHHHHHHHHHhcCCCCCHHh-------------H--------HHHHHHHhhhccHHHHHH
Q 047359          194 KLSDM---------G--KTYAAEMIFKRACDEKIELQDDT-------------C--------GCMLKALSKEGRVKEAIQ  241 (440)
Q Consensus       194 ~~~~~---------~--~~~~a~~~~~~~~~~~~~~~~~~-------------~--------~~l~~~~~~~~~~~~a~~  241 (440)
                      --.+.         +  +.++++-.-.++..--+.|+-..             +        ..-...+.+.|+++.|.+
T Consensus       361 eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~aie  440 (840)
T KOG2003|consen  361 EAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGAIE  440 (840)
T ss_pred             HHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHHHH
Confidence            11111         0  11111111111111111111100             0        011234566677777666


Q ss_pred             HHHHHHHcCCCCChhhHHHH--H----------------------------------HHHHhcCChHHHHHHHHHHHHcC
Q 047359          242 IYHLISERGITVRDSDYYAF--V----------------------------------NVLCKEHQPEEVCGLLRDVVERG  285 (440)
Q Consensus       242 ~~~~~~~~~~~~~~~~~~~l--~----------------------------------~~~~~~~~~~~a~~~~~~~~~~~  285 (440)
                      +++-+.+.+-+.-...-+.+  +                                  .....+|++++|.+.+++.....
T Consensus       441 ilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn~~a~~nkgn~~f~ngd~dka~~~ykeal~nd  520 (840)
T KOG2003|consen  441 ILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRYNAAALTNKGNIAFANGDLDKAAEFYKEALNND  520 (840)
T ss_pred             HHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccCHHHhhcCCceeeecCcHHHHHHHHHHHHcCc
Confidence            66655443221111000000  0                                  00123466777777777776543


Q ss_pred             CCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHH
Q 047359          286 YIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDV  365 (440)
Q Consensus       286 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~  365 (440)
                      -.-....|+.=+ .+-..|++++|+..|-++...- ..+......+...|....+...|++++.+.... ++.|+.....
T Consensus       521 asc~ealfnigl-t~e~~~~ldeald~f~klh~il-~nn~evl~qianiye~led~aqaie~~~q~~sl-ip~dp~ilsk  597 (840)
T KOG2003|consen  521 ASCTEALFNIGL-TAEALGNLDEALDCFLKLHAIL-LNNAEVLVQIANIYELLEDPAQAIELLMQANSL-IPNDPAILSK  597 (840)
T ss_pred             hHHHHHHHHhcc-cHHHhcCHHHHHHHHHHHHHHH-HhhHHHHHHHHHHHHHhhCHHHHHHHHHHhccc-CCCCHHHHHH
Confidence            222222333222 3445577777777766554321 125555556666666666666666666555543 3335556666


Q ss_pred             HHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHHHHHHHhhhc
Q 047359          366 LLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQVISGF  439 (440)
Q Consensus       366 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~ll~a~  439 (440)
                      |...|-+.|+-..|.+..-+--+..|-+..+...|...|....-+++++..|++..-  ++|+..-|-.++.+|
T Consensus       598 l~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaal--iqp~~~kwqlmiasc  669 (840)
T KOG2003|consen  598 LADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPNQSKWQLMIASC  669 (840)
T ss_pred             HHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCccHHHHHHHHHHH
Confidence            666666666666555554444333333444444455555555555555555554433  445555555555444

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

Probab=99.69  E-value=3.4e-14  Score=124.65  Aligned_cols=285  Identities=13%  Similarity=0.034  Sum_probs=217.1

Q ss_pred             ChhHHHHHHHHHhcCCCCCCc-hhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHH
Q 047359          127 DFGAAFDRLNEMCNGRNLTPG-FSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAE  205 (440)
Q Consensus       127 ~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  205 (440)
                      +.++|+..|....+   ..++ ......+.++|...+++++|+++|+.+.+....--.....|...+..+.+.    -+.
T Consensus       334 ~~~~A~~~~~klp~---h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~----v~L  406 (638)
T KOG1126|consen  334 NCREALNLFEKLPS---HHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDE----VAL  406 (638)
T ss_pred             HHHHHHHHHHhhHH---hcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhh----HHH
Confidence            46788888888654   3333 345567778899999999999999998876422111255666665544332    122


Q ss_pred             HHH-HHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 047359          206 MIF-KRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVER  284 (440)
Q Consensus       206 ~~~-~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  284 (440)
                      ..+ +.+.+... -.+.+|..+..+|.-.++.+.|++.|++..+.+.. ...+|+.+..-+.....+|.|...|+..+..
T Consensus       407 s~Laq~Li~~~~-~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~-faYayTLlGhE~~~~ee~d~a~~~fr~Al~~  484 (638)
T KOG1126|consen  407 SYLAQDLIDTDP-NSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPR-FAYAYTLLGHESIATEEFDKAMKSFRKALGV  484 (638)
T ss_pred             HHHHHHHHhhCC-CCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCc-cchhhhhcCChhhhhHHHHhHHHHHHhhhcC
Confidence            222 22333322 36789999999999999999999999999887543 6678888888888889999999999988764


Q ss_pred             CCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHH
Q 047359          285 GYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYD  364 (440)
Q Consensus       285 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~  364 (440)
                      . +-+...|..+...|.+.++++.|+-.|+++.+.++. +.+....+...+.+.|+.++|+++++++.....+ |+..--
T Consensus       485 ~-~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~-nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~  561 (638)
T KOG1126|consen  485 D-PRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPS-NSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCKY  561 (638)
T ss_pred             C-chhhHHHHhhhhheeccchhhHHHHHHHhhhcCCcc-chhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhHH
Confidence            2 123345556777889999999999999999987765 7777778888889999999999999999987665 555555


Q ss_pred             HHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHC
Q 047359          365 VLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKM  423 (440)
Q Consensus       365 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  423 (440)
                      .-+..+...+++++|...++++++.-|.+..++..++..|.+.|+.+.|+.-|-=|.+.
T Consensus       562 ~~~~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~l  620 (638)
T KOG1126|consen  562 HRASILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALLHFSWALDL  620 (638)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcC
Confidence            56667778899999999999999998888899999999999999999999888877763

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

Probab=99.67  E-value=2.8e-11  Score=102.40  Aligned_cols=400  Identities=11%  Similarity=0.070  Sum_probs=249.0

Q ss_pred             ChHhHHHHHHHHHccCCcchHHHHHHHHHhcCCccCh-HhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHH
Q 047359           11 QSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAV-SACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVA   89 (440)
Q Consensus        11 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   89 (440)
                      +...|-..+.+=.++.....|..+++.....-  |-+ ..|-..+..=-..|++..|.++|+.-.+.  .|+...|.+.+
T Consensus       106 ~itLWlkYae~Emknk~vNhARNv~dRAvt~l--PRVdqlWyKY~ymEE~LgNi~gaRqiferW~~w--~P~eqaW~sfI  181 (677)
T KOG1915|consen  106 NITLWLKYAEFEMKNKQVNHARNVWDRAVTIL--PRVDQLWYKYIYMEEMLGNIAGARQIFERWMEW--EPDEQAWLSFI  181 (677)
T ss_pred             cchHHHHHHHHHHhhhhHhHHHHHHHHHHHhc--chHHHHHHHHHHHHHHhcccHHHHHHHHHHHcC--CCcHHHHHHHH
Confidence            34444455555555555555555555555431  221 22333333333345555555555555443  45555555555


Q ss_pred             HHHHhcCChHHHHHHHhccc---CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCC-----------------------
Q 047359           90 QILCRSGKFEVVLGLLDSGI---YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRN-----------------------  143 (440)
Q Consensus        90 ~~~~~~~~~~~a~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-----------------------  143 (440)
                      +.-.+...++.|..++++..   |++.+|-...+.=.++|....|..+|....+..|                       
T Consensus       182 ~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~E  261 (677)
T KOG1915|consen  182 KFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGDDEEAEILFVAFAEFEERQKEYE  261 (677)
T ss_pred             HHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555555555555555544   5555555555555555555555555544433111                       


Q ss_pred             -----------CCCc---hhhHHHHHHHHHhcCChhhHHHH--------HHHHHhcCCCCcccccchHHHHHHHhhcCcH
Q 047359          144 -----------LTPG---FSTYSSILDGARRYEKTEVSDRI--------VGLMVEKKLLPKHFLSGNDYVIQKLSDMGKT  201 (440)
Q Consensus       144 -----------~~p~---~~~~~~l~~~~~~~~~~~~a~~~--------~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  201 (440)
                                 .-|.   ...|......--+-|+.......        ++.+++.+  |-+ -.+|...++.-...|+.
T Consensus       262 Rar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~n--p~n-YDsWfdylrL~e~~g~~  338 (677)
T KOG1915|consen  262 RARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKN--PYN-YDSWFDYLRLEESVGDK  338 (677)
T ss_pred             HHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhC--CCC-chHHHHHHHHHHhcCCH
Confidence                       1111   22233333222233443332222        22333332  222 55677778888888999


Q ss_pred             HHHHHHHHHHHhcCCCCCHH-hHHHHHH-----H---HhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHH----HHhc
Q 047359          202 YAAEMIFKRACDEKIELQDD-TCGCMLK-----A---LSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNV----LCKE  268 (440)
Q Consensus       202 ~~a~~~~~~~~~~~~~~~~~-~~~~l~~-----~---~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~----~~~~  268 (440)
                      +...++|++....-++.... .|.-.|-     +   =....+.+.+.++|+...+. ++....||.-+--.    ..++
T Consensus       339 ~~Ire~yErAIanvpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~l-IPHkkFtFaKiWlmyA~feIRq  417 (677)
T KOG1915|consen  339 DRIRETYERAIANVPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLDL-IPHKKFTFAKIWLMYAQFEIRQ  417 (677)
T ss_pred             HHHHHHHHHHHccCCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh-cCcccchHHHHHHHHHHHHHHH
Confidence            99999999998764332221 2222221     1   12468899999999999883 33455666554433    3577


Q ss_pred             CChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHH
Q 047359          269 HQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALH  348 (440)
Q Consensus       269 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  348 (440)
                      .+...|.+++...+.  .-|...+|...|..-.+.++++.+.+++++.++.++. +..+|......-...|+.+.|..+|
T Consensus       418 ~~l~~ARkiLG~AIG--~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~Pe-~c~~W~kyaElE~~LgdtdRaRaif  494 (677)
T KOG1915|consen  418 LNLTGARKILGNAIG--KCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFSPE-NCYAWSKYAELETSLGDTDRARAIF  494 (677)
T ss_pred             cccHHHHHHHHHHhc--cCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcChH-hhHHHHHHHHHHHHhhhHHHHHHHH
Confidence            899999999998875  4688899999999999999999999999999998766 8889999888888999999999999


Q ss_pred             HHHHhcc-CCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHH-----hcc-----------cHH
Q 047359          349 IKIEKLK-GSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLC-----HLK-----------ELR  411 (440)
Q Consensus       349 ~~~~~~~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~-----~~g-----------~~~  411 (440)
                      .-.++.. .......|.+.|+.-...|.++.|..+++.+.+.... ..+|......-.     ..|           ...
T Consensus       495 elAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt~h-~kvWisFA~fe~s~~~~~~~~~~~~~e~~~~~~~  573 (677)
T KOG1915|consen  495 ELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRTQH-VKVWISFAKFEASASEGQEDEDLAELEITDENIK  573 (677)
T ss_pred             HHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhccc-chHHHhHHHHhccccccccccchhhhhcchhHHH
Confidence            9998753 2334557788888888999999999999999887544 225555544333     334           566


Q ss_pred             HHHHHHHHHHH
Q 047359          412 KAMKNHDEMLK  422 (440)
Q Consensus       412 ~a~~~~~~m~~  422 (440)
                      .|..+|+++..
T Consensus       574 ~AR~iferAn~  584 (677)
T KOG1915|consen  574 RARKIFERANT  584 (677)
T ss_pred             HHHHHHHHHHH
Confidence            78888887654

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

Probab=99.66  E-value=5.9e-14  Score=123.16  Aligned_cols=285  Identities=12%  Similarity=0.056  Sum_probs=223.0

Q ss_pred             ChHHHHHHHhccc---C-CchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCC-CchhhHHHHHHHHHhcCChhhHHHHH
Q 047359           97 KFEVVLGLLDSGI---Y-SSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLT-PGFSTYSSILDGARRYEKTEVSDRIV  171 (440)
Q Consensus        97 ~~~~a~~~~~~~~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~-p~~~~~~~l~~~~~~~~~~~~a~~~~  171 (440)
                      +..+|...|.+++   + +..+...+.++|...+++++|.++|+.+.+..... -+...|.+.+-.+-+   .-+---+-
T Consensus       334 ~~~~A~~~~~klp~h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~---~v~Ls~La  410 (638)
T KOG1126|consen  334 NCREALNLFEKLPSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD---EVALSYLA  410 (638)
T ss_pred             HHHHHHHHHHhhHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh---hHHHHHHH
Confidence            4578888888855   3 33556778899999999999999999997722222 256677777655432   11222223


Q ss_pred             HHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCC
Q 047359          172 GLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGI  251 (440)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  251 (440)
                      +.+.+..  |+. +.+|-.+.++|.-+++.+.|++.|++....++. ...+|+.+.+-+.....+|.|...|+.......
T Consensus       411 q~Li~~~--~~s-PesWca~GNcfSLQkdh~~Aik~f~RAiQldp~-faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~  486 (638)
T KOG1126|consen  411 QDLIDTD--PNS-PESWCALGNCFSLQKDHDTAIKCFKRAIQLDPR-FAYAYTLLGHESIATEEFDKAMKSFRKALGVDP  486 (638)
T ss_pred             HHHHhhC--CCC-cHHHHHhcchhhhhhHHHHHHHHHHHhhccCCc-cchhhhhcCChhhhhHHHHhHHHHHHhhhcCCc
Confidence            3444433  433 789999999999999999999999999887554 778999999999999999999999999887543


Q ss_pred             CCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHH
Q 047359          252 TVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSL  331 (440)
Q Consensus       252 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  331 (440)
                      . +-..|-.+.-.|.+.++++.|+-.|+.+.+-+ +.+.+....+...+-+.|+.++|+.+++++.....+ |+..--..
T Consensus       487 r-hYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~~~  563 (638)
T KOG1126|consen  487 R-HYNAWYGLGTVYLKQEKLEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCKYHR  563 (638)
T ss_pred             h-hhHHHHhhhhheeccchhhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhHHHH
Confidence            3 33445556778999999999999999999865 445666677777888899999999999999887665 66555566


Q ss_pred             HHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC
Q 047359          332 MEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV  392 (440)
Q Consensus       332 ~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  392 (440)
                      +..+...++.++|+..++++++.-++ +...|..+...|.+.|+.+.|+.-|.-+.+.+|+
T Consensus       564 ~~il~~~~~~~eal~~LEeLk~~vP~-es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpk  623 (638)
T KOG1126|consen  564 ASILFSLGRYVEALQELEELKELVPQ-ESSVFALLGKIYKRLGNTDLALLHFSWALDLDPK  623 (638)
T ss_pred             HHHHHhhcchHHHHHHHHHHHHhCcc-hHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCc
Confidence            77788899999999999999985322 5667888899999999999999999999998887

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

Probab=99.65  E-value=1.1e-11  Score=106.99  Aligned_cols=281  Identities=15%  Similarity=0.057  Sum_probs=221.7

Q ss_pred             hHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHH
Q 047359          150 TYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKA  229 (440)
Q Consensus       150 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  229 (440)
                      ....-..-+...+++.+..++.+.+.+... +.  ...+..-|.++...|+..+-..+=.++.+..+. .+.+|-++.--
T Consensus       246 ll~~~ad~~y~~c~f~~c~kit~~lle~dp-fh--~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~yP~-~a~sW~aVg~Y  321 (611)
T KOG1173|consen  246 LLAEKADRLYYGCRFKECLKITEELLEKDP-FH--LPCLPLHIACLYELGKSNKLFLLSHKLVDLYPS-KALSWFAVGCY  321 (611)
T ss_pred             HHHHHHHHHHHcChHHHHHHHhHHHHhhCC-CC--cchHHHHHHHHHHhcccchHHHHHHHHHHhCCC-CCcchhhHHHH
Confidence            334444556677888999999998887642 22  455666677888999988888888888877655 67789999999


Q ss_pred             HhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHH
Q 047359          230 LSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEV  309 (440)
Q Consensus       230 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  309 (440)
                      |...|+..+|.+.|.+....+.. -...|-.+...+.-.|..|+|...+..+.+.- +-...-+--+.--|.+.++.+.|
T Consensus       322 Yl~i~k~seARry~SKat~lD~~-fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~-~G~hlP~LYlgmey~~t~n~kLA  399 (611)
T KOG1173|consen  322 YLMIGKYSEARRYFSKATTLDPT-FGPAWLAFGHSFAGEGEHDQAMAAYFTAARLM-PGCHLPSLYLGMEYMRTNNLKLA  399 (611)
T ss_pred             HHHhcCcHHHHHHHHHHhhcCcc-ccHHHHHHhHHhhhcchHHHHHHHHHHHHHhc-cCCcchHHHHHHHHHHhccHHHH
Confidence            99999999999999988776543 23578889999999999999999888876541 11111122234457778999999


Q ss_pred             HHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhcc--CC----cCHHhHHHHHHHHHhcCcHHHHHHHH
Q 047359          310 EELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLK--GS----LDVATYDVLLDGLFKDGRMEEAVRIF  383 (440)
Q Consensus       310 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~----p~~~~~~~l~~~~~~~g~~~~a~~~~  383 (440)
                      .+.|.+.....+. |+...+.+.-.....+.+.+|..+|+.....-  ..    .-..+++.|..+|.+.+.+++|+..+
T Consensus       400 e~Ff~~A~ai~P~-Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~  478 (611)
T KOG1173|consen  400 EKFFKQALAIAPS-DPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYY  478 (611)
T ss_pred             HHHHHHHHhcCCC-cchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHH
Confidence            9999999887544 77788888777778899999999999887321  11    13346889999999999999999999


Q ss_pred             HHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHHHHHHHhhhc
Q 047359          384 DYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQVISGF  439 (440)
Q Consensus       384 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~ll~a~  439 (440)
                      ++.....+.++.++..+...|...|+++.|.+.|.+.+.  +.||..+...+|+-+
T Consensus       479 q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~--l~p~n~~~~~lL~~a  532 (611)
T KOG1173|consen  479 QKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALA--LKPDNIFISELLKLA  532 (611)
T ss_pred             HHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCccHHHHHHHHHH
Confidence            999999999999999999999999999999999999987  789998888887643

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

Probab=99.65  E-value=3.7e-12  Score=105.41  Aligned_cols=292  Identities=14%  Similarity=0.104  Sum_probs=187.2

Q ss_pred             cCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHH
Q 047359          125 KGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAA  204 (440)
Q Consensus       125 ~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  204 (440)
                      .|++.+|.+...+-.+ .+-.| ...|..-.++....|+.+.+...+.+..+....++  ...+..........|+++.|
T Consensus        97 eG~~~qAEkl~~rnae-~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~--l~v~ltrarlll~~~d~~aA  172 (400)
T COG3071          97 EGDFQQAEKLLRRNAE-HGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDT--LAVELTRARLLLNRRDYPAA  172 (400)
T ss_pred             cCcHHHHHHHHHHhhh-cCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCch--HHHHHHHHHHHHhCCCchhH
Confidence            4777777777776554 33222 23444555566667777777777777766533344  56666666777777777777


Q ss_pred             HHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCCh-------hhHHHHHHHHHhcCChHHHHHH
Q 047359          205 EMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRD-------SDYYAFVNVLCKEHQPEEVCGL  277 (440)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~  277 (440)
                      ..-...+.+.++. ++........+|.+.|++.....+...+.+.+.-.+.       .+|..+++-....+..+.-...
T Consensus       173 ~~~v~~ll~~~pr-~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~  251 (400)
T COG3071         173 RENVDQLLEMTPR-HPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTW  251 (400)
T ss_pred             HHHHHHHHHhCcC-ChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHH
Confidence            7777777766655 5566777777777777777777777777777665443       3455555555555555554555


Q ss_pred             HHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCC
Q 047359          278 LRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGS  357 (440)
Q Consensus       278 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  357 (440)
                      |+..... .+.++..-.+++.-+..+|+.++|.++.++..+.+..|+    -...-.+.+.++.+.-++..++-.+.-..
T Consensus       252 W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~----L~~~~~~l~~~d~~~l~k~~e~~l~~h~~  326 (400)
T COG3071         252 WKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR----LCRLIPRLRPGDPEPLIKAAEKWLKQHPE  326 (400)
T ss_pred             HHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh----HHHHHhhcCCCCchHHHHHHHHHHHhCCC
Confidence            5555433 234555666677777777888888888887777766655    12222445666666666666655544222


Q ss_pred             cCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCC
Q 047359          358 LDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPD  428 (440)
Q Consensus       358 p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~  428 (440)
                       ++..+.+|...|.+.+.+.+|.+.|+...+.. ++...|..+..++.+.|+..+|.++.++.+..-..|+
T Consensus       327 -~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~~-~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~~~~~  395 (400)
T COG3071         327 -DPLLLSTLGRLALKNKLWGKASEALEAALKLR-PSASDYAELADALDQLGEPEEAEQVRREALLLTRQPN  395 (400)
T ss_pred             -ChhHHHHHHHHHHHhhHHHHHHHHHHHHHhcC-CChhhHHHHHHHHHHcCChHHHHHHHHHHHHHhcCCC
Confidence             44677777788888888888888888666543 2566777778888888888888887777665333443

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

Probab=99.64  E-value=3e-12  Score=102.85  Aligned_cols=290  Identities=15%  Similarity=0.110  Sum_probs=186.6

Q ss_pred             cCChhHHHHHHHHHhcCCCCCC-chhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCC-cccccchHHHHHHHhhcCcHH
Q 047359          125 KGDFGAAFDRLNEMCNGRNLTP-GFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLP-KHFLSGNDYVIQKLSDMGKTY  202 (440)
Q Consensus       125 ~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  202 (440)
                      ..+.++|.+.|-+|.+   ..| +..+..+|.+.+.+.|..|.|+++.+.+.++.-.+ +.-..+...|..-|...|-+|
T Consensus        48 s~Q~dKAvdlF~e~l~---~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~D  124 (389)
T COG2956          48 SNQPDKAVDLFLEMLQ---EDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLD  124 (389)
T ss_pred             hcCcchHHHHHHHHHh---cCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhh
Confidence            4567777777777765   223 23355566677777788888888887777652111 111223344666777778888


Q ss_pred             HHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCCh----hhHHHHHHHHHhcCChHHHHHHH
Q 047359          203 AAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRD----SDYYAFVNVLCKEHQPEEVCGLL  278 (440)
Q Consensus       203 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~  278 (440)
                      .|+++|..+.+.+.. -......++..|-...+|++|+++-+++.+.+..+..    ..|.-+...+....+.+.|..++
T Consensus       125 RAE~~f~~L~de~ef-a~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l  203 (389)
T COG2956         125 RAEDIFNQLVDEGEF-AEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELL  203 (389)
T ss_pred             HHHHHHHHHhcchhh-hHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHH
Confidence            888888887765432 3446667778888888888888888877776544332    33445555566677888888888


Q ss_pred             HHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCc
Q 047359          279 RDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSL  358 (440)
Q Consensus       279 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p  358 (440)
                      ++..+.+ +.++..-..+.+.+...|+++.|.+.++.+.+.++.--+.+...|..+|...|+.++...++.++.+....+
T Consensus       204 ~kAlqa~-~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~  282 (389)
T COG2956         204 KKALQAD-KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGA  282 (389)
T ss_pred             HHHHhhC-ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCc
Confidence            8887764 334444555666777788888888888888887666566677778888888888888888888887754333


Q ss_pred             CHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHH---hcccHHHHHHHHHHHHH
Q 047359          359 DVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLC---HLKELRKAMKNHDEMLK  422 (440)
Q Consensus       359 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~---~~g~~~~a~~~~~~m~~  422 (440)
                        ..-..+...-....-.+.|...+.+-....| +...+..++..-.   ..|.+.+-+.++++|+.
T Consensus       283 --~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~P-t~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvg  346 (389)
T COG2956         283 --DAELMLADLIELQEGIDAAQAYLTRQLRRKP-TMRGFHRLMDYHLADAEEGRAKESLDLLRDMVG  346 (389)
T ss_pred             --cHHHHHHHHHHHhhChHHHHHHHHHHHhhCC-cHHHHHHHHHhhhccccccchhhhHHHHHHHHH
Confidence              3333444443444445555555554444433 4444555555443   34556777777777764

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

Probab=99.64  E-value=1.5e-12  Score=104.59  Aligned_cols=296  Identities=11%  Similarity=0.038  Sum_probs=189.8

Q ss_pred             HHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHhccc--CCch------hHHHHHHH
Q 047359           50 CNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGI--YSSV------MYNLVIDF  121 (440)
Q Consensus        50 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--~~~~------~~~~li~~  121 (440)
                      |..-+..+. .++.++|.++|-+|.+.. +.+..+..+|.+.|.+.|..|.|+.+...+.  ||..      +.-.|..-
T Consensus        39 Yv~GlNfLL-s~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~D  116 (389)
T COG2956          39 YVKGLNFLL-SNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRD  116 (389)
T ss_pred             HHhHHHHHh-hcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHH
Confidence            433343333 357788999998888743 2345566778888888888888888888776  4332      34456677


Q ss_pred             HHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcc--cccchHHHHHHHhhcC
Q 047359          122 YSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKH--FLSGNDYVIQKLSDMG  199 (440)
Q Consensus       122 ~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~  199 (440)
                      |...|-++.|.++|..+.+ .+. --......|+..|-...+|++|+++-+++.+.+..+.+  ....|--+...+....
T Consensus       117 ym~aGl~DRAE~~f~~L~d-e~e-fa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~  194 (389)
T COG2956         117 YMAAGLLDRAEDIFNQLVD-EGE-FAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASS  194 (389)
T ss_pred             HHHhhhhhHHHHHHHHHhc-chh-hhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhh
Confidence            7888888888888888865 322 12345667888888888888888888888877643331  1223444555555566


Q ss_pred             cHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHH
Q 047359          200 KTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLR  279 (440)
Q Consensus       200 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  279 (440)
                      +.+.|...+.+..+.+++ .+..--.+.......|+++.|.+.++...+.++..-..+...+..+|...|++++....+.
T Consensus       195 ~~d~A~~~l~kAlqa~~~-cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~  273 (389)
T COG2956         195 DVDRARELLKKALQADKK-CVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLR  273 (389)
T ss_pred             hHHHHHHHHHHHHhhCcc-ceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence            777777777777766544 3344445566677778888888888877777666556667777777777888887777777


Q ss_pred             HHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHc---CCcHHHHHHHHHHHHhc
Q 047359          280 DVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCS---NRQIDKAIALHIKIEKL  354 (440)
Q Consensus       280 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~  354 (440)
                      .+.+..  +....-..+...-......+.|...+.+-...  +|+...+..++..-..   .|...+....++.|+..
T Consensus       274 ~~~~~~--~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvge  347 (389)
T COG2956         274 RAMETN--TGADAELMLADLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVGE  347 (389)
T ss_pred             HHHHcc--CCccHHHHHHHHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhhccccccchhhhHHHHHHHHHH
Confidence            777653  23333333333333344455555555544443  4677777777765432   23345555555555543

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

Probab=99.64  E-value=2.7e-11  Score=102.11  Aligned_cols=328  Identities=12%  Similarity=0.027  Sum_probs=233.3

Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHhccc-CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCc-hh-hHHHHHH
Q 047359           80 PNKFTWSLVAQILCRSGKFEVVLGLLDSGI-YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPG-FS-TYSSILD  156 (440)
Q Consensus        80 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~-~~~~l~~  156 (440)
                      .|...+-.....+.+.|..+.|...|.... .-+..|.+.+....-..+.+.+..+...      ...| .. .=-.+..
T Consensus       162 ~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~~P~~W~AWleL~~lit~~e~~~~l~~~------l~~~~h~M~~~F~~~  235 (559)
T KOG1155|consen  162 KDEFLLYLYGVVLKELGLLSLAIDSFVEVVNRYPWFWSAWLELSELITDIEILSILVVG------LPSDMHWMKKFFLKK  235 (559)
T ss_pred             chhHHHHHHHHHHHhhchHHHHHHHHHHHHhcCCcchHHHHHHHHhhchHHHHHHHHhc------CcccchHHHHHHHHH
Confidence            344333333444556677777777776655 3333444444333333333322222111      1111 11 1123444


Q ss_pred             HHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCC--CCHHhHHHHHHHHhhhc
Q 047359          157 GARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIE--LQDDTCGCMLKALSKEG  234 (440)
Q Consensus       157 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~  234 (440)
                      ++....+.+++..-.+.....|+...  ...-+....+.-...|+++|+.+|+++.+..+-  -|..+|+.++-.-  ..
T Consensus       236 a~~el~q~~e~~~k~e~l~~~gf~~~--~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~--~~  311 (559)
T KOG1155|consen  236 AYQELHQHEEALQKKERLSSVGFPNS--MYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVK--ND  311 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHhccCCcc--HHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHH--hh
Confidence            66666777888888888888776655  444444556667788999999999999887431  2556777665333  22


Q ss_pred             cHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHH
Q 047359          235 RVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLS  314 (440)
Q Consensus       235 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  314 (440)
                      +-.  +..+-+-...--+..+.|...+.+-|+-.++.++|...|+...+.+ +.....|+.+..-|...++...|.+-++
T Consensus       312 ~sk--Ls~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYR  388 (559)
T KOG1155|consen  312 KSK--LSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYR  388 (559)
T ss_pred             hHH--HHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHH
Confidence            211  1122111111112344677788888899999999999999999876 3456678888889999999999999999


Q ss_pred             HHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCch
Q 047359          315 AVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSS  394 (440)
Q Consensus       315 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  394 (440)
                      ...+..+. |...|-.+.++|.-.+...-|+-.|++.....+. |...|.+|..+|.+.++.++|++-|......+-.+.
T Consensus       389 rAvdi~p~-DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPn-DsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~  466 (559)
T KOG1155|consen  389 RAVDINPR-DYRAWYGLGQAYEIMKMHFYALYYFQKALELKPN-DSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEG  466 (559)
T ss_pred             HHHhcCch-hHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHhccHHHHHHHHHHHHhccccch
Confidence            99998765 8999999999999999999999999999986554 888999999999999999999999999999887788


Q ss_pred             hhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          395 SSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       395 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      .++..+...+-+.++.++|.+.|++.++
T Consensus       467 ~~l~~LakLye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  467 SALVRLAKLYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            9999999999999999999999998876

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

Probab=99.62  E-value=3.9e-12  Score=105.27  Aligned_cols=268  Identities=10%  Similarity=-0.005  Sum_probs=225.8

Q ss_pred             cCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHH
Q 047359          161 YEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAI  240 (440)
Q Consensus       161 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  240 (440)
                      .|+|..|++...+-.+.+-.|   ...|..-+.+....|+.+.+..++.+..+....++....-+........|++..|.
T Consensus        97 eG~~~qAEkl~~rnae~~e~p---~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~  173 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQP---VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAR  173 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcch---HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHH
Confidence            699999999999988877666   56777778889999999999999999998766667778888888999999999999


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCh-------hhHHHHHHHHHcCCCHHHHHHHH
Q 047359          241 QIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCA-------MELSRFVASQCGKGKWKEVEELL  313 (440)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~  313 (440)
                      .-..++.+.+.. +........++|.+.|++.....++..+.+.+.-.+.       .+|..+++-....+..+.-...+
T Consensus       174 ~~v~~ll~~~pr-~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W  252 (400)
T COG3071         174 ENVDQLLEMTPR-HPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWW  252 (400)
T ss_pred             HHHHHHHHhCcC-ChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHH
Confidence            999999998766 6678899999999999999999999999998865544       36777777777777767666677


Q ss_pred             HHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc
Q 047359          314 SAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVS  393 (440)
Q Consensus       314 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  393 (440)
                      +..... .+.++..-.+++.-+.+.|+.++|.++..+..+.+..|+    -...-.+.+.++...-++..++.....+.+
T Consensus       253 ~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~----L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~  327 (400)
T COG3071         253 KNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR----LCRLIPRLRPGDPEPLIKAAEKWLKQHPED  327 (400)
T ss_pred             HhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh----HHHHHhhcCCCCchHHHHHHHHHHHhCCCC
Confidence            766543 334666777888899999999999999999999888776    222335668899999999999999888889


Q ss_pred             hhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHHHHHHHhhhc
Q 047359          394 SSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQVISGF  439 (440)
Q Consensus       394 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~ll~a~  439 (440)
                      +..+.+|...|.+.+.|.+|.+.|+...+  ..|+..+|+.+-.+|
T Consensus       328 p~L~~tLG~L~~k~~~w~kA~~~leaAl~--~~~s~~~~~~la~~~  371 (400)
T COG3071         328 PLLLSTLGRLALKNKLWGKASEALEAALK--LRPSASDYAELADAL  371 (400)
T ss_pred             hhHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCChhhHHHHHHHH
Confidence            99999999999999999999999998887  689999998876654

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

Probab=99.57  E-value=6.3e-13  Score=106.82  Aligned_cols=234  Identities=10%  Similarity=-0.027  Sum_probs=201.8

Q ss_pred             HHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 047359          189 DYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKE  268 (440)
Q Consensus       189 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  268 (440)
                      +.+.++|.+.|.+.+|++.++...+.  .|-+.||..+-+.|.+..+++.|+.++.+-.+.- +.+......+...+...
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~f-P~~VT~l~g~ARi~eam  303 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSF-PFDVTYLLGQARIHEAM  303 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcC-CchhhhhhhhHHHHHHH
Confidence            56889999999999999999988876  4566788889999999999999999999988753 23554555677788888


Q ss_pred             CChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHH
Q 047359          269 HQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALH  348 (440)
Q Consensus       269 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  348 (440)
                      ++.++|.++++...+.. +.++.....+...|.-.++++-|+.+++++...|+. ++..|+.+.-+|.-.++++-++..|
T Consensus       304 ~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf  381 (478)
T KOG1129|consen  304 EQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSF  381 (478)
T ss_pred             HhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHH
Confidence            99999999999998864 456667777777888889999999999999999988 8889999999999999999999999


Q ss_pred             HHHHhccCCcC--HHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCC
Q 047359          349 IKIEKLKGSLD--VATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHK  426 (440)
Q Consensus       349 ~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  426 (440)
                      .+....--.|+  ...|..+.......||+..|.+-|+-....++.+..+++.|.-.-.+.|++++|..++.....  +.
T Consensus       382 ~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~s--~~  459 (478)
T KOG1129|consen  382 QRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGEALNNLAVLAARSGDILGARSLLNAAKS--VM  459 (478)
T ss_pred             HHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHHHHHhHHHHHhhcCchHHHHHHHHHhhh--hC
Confidence            99887644444  457888888888999999999999999999988999999999999999999999999999877  56


Q ss_pred             CCH
Q 047359          427 PDE  429 (440)
Q Consensus       427 p~~  429 (440)
                      |+.
T Consensus       460 P~m  462 (478)
T KOG1129|consen  460 PDM  462 (478)
T ss_pred             ccc
Confidence            664

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

Probab=99.56  E-value=4e-12  Score=115.17  Aligned_cols=270  Identities=12%  Similarity=0.088  Sum_probs=166.2

Q ss_pred             ccCCCCCChHhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChh
Q 047359            4 SCEGRDSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKF   83 (440)
Q Consensus         4 ~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   83 (440)
                      ...|+.|+.++|..+|..|+..|+.+.|- +|..|.-...+.+...++.++.+..+.++.+.+.           .|...
T Consensus        17 e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-----------ep~aD   84 (1088)
T KOG4318|consen   17 EISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-----------EPLAD   84 (1088)
T ss_pred             HHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-----------CCchh
Confidence            46799999999999999999999999999 9999998887888889999999999988887776           57888


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHhcccCCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCC
Q 047359           84 TWSLVAQILCRSGKFEVVLGLLDSGIYSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEK  163 (440)
Q Consensus        84 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  163 (440)
                      ||+.|..+|...||+..- +..++      -...++..+...|.-.....++..+.-..+.-||..+.   +......|-
T Consensus        85 tyt~Ll~ayr~hGDli~f-e~veq------dLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~---illlv~egl  154 (1088)
T KOG4318|consen   85 TYTNLLKAYRIHGDLILF-EVVEQ------DLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENA---ILLLVLEGL  154 (1088)
T ss_pred             HHHHHHHHHHhccchHHH-HHHHH------HHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHH---HHHHHHHHH
Confidence            999999999999987651 11111      12233344455555555555554432213334444332   222333444


Q ss_pred             hhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHH
Q 047359          164 TEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIY  243 (440)
Q Consensus       164 ~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  243 (440)
                      ++.+.+++..+.....     .......++-+....  ...+++.+......-.|++.+|..++++-..+|+.+.|..++
T Consensus       155 waqllkll~~~Pvsa~-----~~p~~vfLrqnv~~n--tpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll  227 (1088)
T KOG4318|consen  155 WAQLLKLLAKVPVSAW-----NAPFQVFLRQNVVDN--TPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLL  227 (1088)
T ss_pred             HHHHHHHHhhCCcccc-----cchHHHHHHHhccCC--chHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHH
Confidence            5555554443322110     000000122222111  122222222222111466777777777777777777777777


Q ss_pred             HHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCC
Q 047359          244 HLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGK  305 (440)
Q Consensus       244 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  305 (440)
                      .+|.+.|++.+..-|..++-+   .++..-+..+++.|.+.|+.|+..|+...+..+..+|.
T Consensus       228 ~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  228 YEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             HHHHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchh
Confidence            777777776666666666544   56666667777777777777777777666655555443

>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=99.54  E-value=6.5e-10  Score=100.08  Aligned_cols=296  Identities=14%  Similarity=0.080  Sum_probs=202.9

Q ss_pred             HHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 047359           15 LSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCR   94 (440)
Q Consensus        15 ~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   94 (440)
                      .-.....+...|++++|++.++.-... +.............+.+.|+.++|..+|..+++.+ +.|..-|..+..+..-
T Consensus         7 lLY~~~il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN-Pdn~~Yy~~L~~~~g~   84 (517)
T PF12569_consen    7 LLYKNSILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN-PDNYDYYRGLEEALGL   84 (517)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHhh
Confidence            334556778899999999999886654 33345566777788999999999999999999985 2344445555555522


Q ss_pred             c-----CChHHHHHHHhccc---CCchhHHHHHHHHHhcCChh-HHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChh
Q 047359           95 S-----GKFEVVLGLLDSGI---YSSVMYNLVIDFYSKKGDFG-AAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTE  165 (440)
Q Consensus        95 ~-----~~~~~a~~~~~~~~---~~~~~~~~li~~~~~~~~~~-~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  165 (440)
                      .     .+.+...++++++.   |...+...+.-.+.....+. .+..++..+.. .|+++   +|+.|-..|......+
T Consensus        85 ~~~~~~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~-KgvPs---lF~~lk~Ly~d~~K~~  160 (517)
T PF12569_consen   85 QLQLSDEDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLR-KGVPS---LFSNLKPLYKDPEKAA  160 (517)
T ss_pred             hcccccccHHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHh-cCCch---HHHHHHHHHcChhHHH
Confidence            2     25677778888766   44444333332233222333 33445555555 66643   4455555555455555


Q ss_pred             hHHHHHHHHHhc----C----------CCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHh
Q 047359          166 VSDRIVGLMVEK----K----------LLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALS  231 (440)
Q Consensus       166 ~a~~~~~~~~~~----~----------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  231 (440)
                      -..+++......    +          -.|+....++..+...|...|++++|++++++.+++.+. .+..|..-...+-
T Consensus       161 ~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt-~~ely~~KarilK  239 (517)
T PF12569_consen  161 IIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTPT-LVELYMTKARILK  239 (517)
T ss_pred             HHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHH
Confidence            555555555432    1          123312235577788899999999999999999987544 4678888889999


Q ss_pred             hhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhH--------HHHHHHHHcC
Q 047359          232 KEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMEL--------SRFVASQCGK  303 (440)
Q Consensus       232 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--------~~l~~~~~~~  303 (440)
                      ..|++.+|.+.++.....+.. |...-+-.+..+.++|+.++|.+++....+.+..|.....        .....+|.+.
T Consensus       240 h~G~~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~  318 (517)
T PF12569_consen  240 HAGDLKEAAEAMDEARELDLA-DRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQ  318 (517)
T ss_pred             HCCCHHHHHHHHHHHHhCChh-hHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999887754 7777777888889999999999999998876644433222        3346778888


Q ss_pred             CCHHHHHHHHHHHHh
Q 047359          304 GKWKEVEELLSAVLD  318 (440)
Q Consensus       304 ~~~~~a~~~~~~~~~  318 (440)
                      |++..|++.|..+.+
T Consensus       319 ~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  319 GDYGLALKRFHAVLK  333 (517)
T ss_pred             hhHHHHHHHHHHHHH
Confidence            999988887766654

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 [], [].

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.53  E-value=1.2e-10  Score=95.05  Aligned_cols=399  Identities=12%  Similarity=0.067  Sum_probs=223.4

Q ss_pred             HHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCh
Q 047359           19 LDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKF   98 (440)
Q Consensus        19 i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   98 (440)
                      +.-+....++..|+.+++.-...+-.....+--.+..++.+.|++++|...+..+.+.. .|+...+..|.-++.-.|.+
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            55666778899999998887754433222333345566678899999999999887754 56777788888888888888


Q ss_pred             HHHHHHHhcccCCchhHHHHHHHHHh------------------------------cCChhHHHHHHHHHhcCCCCCCch
Q 047359           99 EVVLGLLDSGIYSSVMYNLVIDFYSK------------------------------KGDFGAAFDRLNEMCNGRNLTPGF  148 (440)
Q Consensus        99 ~~a~~~~~~~~~~~~~~~~li~~~~~------------------------------~~~~~~a~~~~~~~~~~~~~~p~~  148 (440)
                      .+|..+-.+...++..-..+.....+                              .-.+++|++++.+...   -.|+-
T Consensus       108 ~eA~~~~~ka~k~pL~~RLlfhlahklndEk~~~~fh~~LqD~~EdqLSLAsvhYmR~HYQeAIdvYkrvL~---dn~ey  184 (557)
T KOG3785|consen  108 IEAKSIAEKAPKTPLCIRLLFHLAHKLNDEKRILTFHSSLQDTLEDQLSLASVHYMRMHYQEAIDVYKRVLQ---DNPEY  184 (557)
T ss_pred             HHHHHHHhhCCCChHHHHHHHHHHHHhCcHHHHHHHHHHHhhhHHHHHhHHHHHHHHHHHHHHHHHHHHHHh---cChhh
Confidence            88888877766333333333333333                              3445666666666654   23333


Q ss_pred             hhHHHHH-HHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHH--------------Hh
Q 047359          149 STYSSIL-DGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRA--------------CD  213 (440)
Q Consensus       149 ~~~~~l~-~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~--------------~~  213 (440)
                      ...|.-+ -+|.+..-++-+.+++.-.++.-  |++ +.+-+..+.-..+.=+-..|++-.+.+              .+
T Consensus       185 ~alNVy~ALCyyKlDYydvsqevl~vYL~q~--pdS-tiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~~~f~~~l~r  261 (557)
T KOG3785|consen  185 IALNVYMALCYYKLDYYDVSQEVLKVYLRQF--PDS-TIAKNLKACNLFRLINGRTAEDEKKELADNIDQEYPFIEYLCR  261 (557)
T ss_pred             hhhHHHHHHHHHhcchhhhHHHHHHHHHHhC--CCc-HHHHHHHHHHHhhhhccchhHHHHHHHHhcccccchhHHHHHH
Confidence            3333322 24555566666666666555543  331 223332222222221111111111111              11


Q ss_pred             cC------------CCC-----CHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHH-----HHhcCCh
Q 047359          214 EK------------IEL-----QDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNV-----LCKEHQP  271 (440)
Q Consensus       214 ~~------------~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-----~~~~~~~  271 (440)
                      ++            +-|     -+..--.++-.|.+.+++.+|..+.+++...  .|-......+..+     .......
T Consensus       262 HNLVvFrngEgALqVLP~L~~~IPEARlNL~iYyL~q~dVqeA~~L~Kdl~Pt--tP~EyilKgvv~aalGQe~gSreHl  339 (557)
T KOG3785|consen  262 HNLVVFRNGEGALQVLPSLMKHIPEARLNLIIYYLNQNDVQEAISLCKDLDPT--TPYEYILKGVVFAALGQETGSREHL  339 (557)
T ss_pred             cCeEEEeCCccHHHhchHHHhhChHhhhhheeeecccccHHHHHHHHhhcCCC--ChHHHHHHHHHHHHhhhhcCcHHHH
Confidence            11            000     0111222344466777777777766654321  2222222222211     1111223


Q ss_pred             HHHHHHHHHHHHcCCCCChh-hHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHH
Q 047359          272 EEVCGLLRDVVERGYIPCAM-ELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIK  350 (440)
Q Consensus       272 ~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  350 (440)
                      .-|...|+..-+++..-|.. --.++...+.-..++++.+-.++.+...-...|...+ .+.++++..|.+.+|+++|-+
T Consensus       340 KiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~-N~AQAk~atgny~eaEelf~~  418 (557)
T KOG3785|consen  340 KIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNL-NLAQAKLATGNYVEAEELFIR  418 (557)
T ss_pred             HHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhh-HHHHHHHHhcChHHHHHHHhh
Confidence            44555555554444332222 2233444555556788888888887766444344333 467888899999999999987


Q ss_pred             HHhccCCcCHHhHH-HHHHHHHhcCcHHHHHHHHHHHHHcCCC-chhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCC
Q 047359          351 IEKLKGSLDVATYD-VLLDGLFKDGRMEEAVRIFDYMKELKVV-SSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPD  428 (440)
Q Consensus       351 ~~~~~~~p~~~~~~-~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~  428 (440)
                      +....++ |..+|. .|.++|.+++..+.|..++-++..  +. .-.....+..-|.+.+.+=-|.+.|+.+..  ..|+
T Consensus       419 is~~~ik-n~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t--~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~--lDP~  493 (557)
T KOG3785|consen  419 ISGPEIK-NKILYKSMLARCYIRNKKPQLAWDMMLKTNT--PSERFSLLQLIANDCYKANEFYYAAKAFDELEI--LDPT  493 (557)
T ss_pred             hcChhhh-hhHHHHHHHHHHHHhcCCchHHHHHHHhcCC--chhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHc--cCCC
Confidence            7765555 556665 456788899999988777654322  11 223444556677788888778888887766  4566


Q ss_pred             HHHH
Q 047359          429 EATY  432 (440)
Q Consensus       429 ~~t~  432 (440)
                      ...|
T Consensus       494 pEnW  497 (557)
T KOG3785|consen  494 PENW  497 (557)
T ss_pred             cccc
Confidence            5544

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

Probab=99.53  E-value=1.9e-10  Score=97.83  Aligned_cols=370  Identities=14%  Similarity=0.093  Sum_probs=243.6

Q ss_pred             CCCC-hHhHHHHHHHHHccCCcchHHHHHHHHHhcCCccC-hHhHHHHHHHHHhccchhHHHHHHHHH-HHcCCCCChhh
Q 047359            8 RDSQ-SDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPA-VSACNALLDALYRQNEIRLASCLYGAM-VRDGVSPNKFT   84 (440)
Q Consensus         8 ~~~~-~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~-~~~~~~~~~~~   84 (440)
                      ..|| +..|+....+|...|+|++..+--....+.+  |+ +..+..-.+++-..|++.+|+.=..-. +-.|+. |..+
T Consensus       144 l~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl~--P~Y~KAl~RRA~A~E~lg~~~eal~D~tv~ci~~~F~-n~s~  220 (606)
T KOG0547|consen  144 LCPDEPIFYSNRAACYESLGDWEKVIEDCTKALELN--PDYVKALLRRASAHEQLGKFDEALFDVTVLCILEGFQ-NASI  220 (606)
T ss_pred             cCCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcC--cHHHHHHHHHHHHHHhhccHHHHHHhhhHHHHhhhcc-cchh
Confidence            4577 7888999999999999999998888777754  43 345555556666777777665332222 111221 1111


Q ss_pred             HHHHHHHHHhcCChHHHHHHHhc-cc---CCch-----------------------hHHHHHHHHHh--cC---ChhHHH
Q 047359           85 WSLVAQILCRSGKFEVVLGLLDS-GI---YSSV-----------------------MYNLVIDFYSK--KG---DFGAAF  132 (440)
Q Consensus        85 ~~~l~~~~~~~~~~~~a~~~~~~-~~---~~~~-----------------------~~~~li~~~~~--~~---~~~~a~  132 (440)
                      --.+=+.+-+.+ ...+.+-+.. -.   |+..                       ....+..++..  .+   .+..|.
T Consensus       221 ~~~~eR~Lkk~a-~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~~~~~~~~~ksDa~l~~~l~~l~~~~~e~Y~~a~  299 (606)
T KOG0547|consen  221 EPMAERVLKKQA-MKKAKEKLKENRPPVLPSATFIASYFGSFHADPKPLFDNKSDKSDAALAEALEALEKGLEEGYLKAY  299 (606)
T ss_pred             HHHHHHHHHHHH-HHHHHHhhcccCCCCCCcHHHHHHHHhhccccccccccCCCccchhhHHHHHHHHHhhCchhHHHHH
Confidence            111111111111 1122222221 00   2211                       22222222211  11   334444


Q ss_pred             HHHHHHhcCCCCCCch-----hh----HHHHHH--HHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcH
Q 047359          133 DRLNEMCNGRNLTPGF-----ST----YSSILD--GARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKT  201 (440)
Q Consensus       133 ~~~~~~~~~~~~~p~~-----~~----~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  201 (440)
                      +.+.+-....-..++.     ..    -..++.  .+.-.|+.-.+..-|+..++....+   ...|..+...|....+.
T Consensus       300 ~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~~a~~d~~~~I~l~~~~---~~lyI~~a~~y~d~~~~  376 (606)
T KOG0547|consen  300 DKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSLGAQEDFDAAIKLDPAF---NSLYIKRAAAYADENQS  376 (606)
T ss_pred             HHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCchhhhhhHHHHHhcCccc---chHHHHHHHHHhhhhcc
Confidence            4443322111111111     11    111111  2334588889999999999876544   33488889999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHH
Q 047359          202 YAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDV  281 (440)
Q Consensus       202 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  281 (440)
                      ++....|+...+.++. ++.+|..-.+.+.-.+++++|..=|++.++..+. +...|-.+..+..+.++++++...|++.
T Consensus       377 ~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~pe-~~~~~iQl~~a~Yr~~k~~~~m~~Fee~  454 (606)
T KOG0547|consen  377 EKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLLQQYEEAIADFQKAISLDPE-NAYAYIQLCCALYRQHKIAESMKTFEEA  454 (606)
T ss_pred             HHHHHHHHHHHhcCCC-CCchhHhHHHHHHHHHHHHHHHHHHHHHhhcChh-hhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999998776 7788888888888899999999999999887644 5667777777778999999999999999


Q ss_pred             HHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCc-------hhhhHHHHHHHHcCCcHHHHHHHHHHHHhc
Q 047359          282 VERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLD-------SFCCSSLMEYYCSNRQIDKAIALHIKIEKL  354 (440)
Q Consensus       282 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  354 (440)
                      +++ ++..+..|+.....+...++++.|.+.|+...+.....+       +.+.-.++..- =.+++..|.+++++..+.
T Consensus       455 kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~~q-wk~d~~~a~~Ll~KA~e~  532 (606)
T KOG0547|consen  455 KKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALLVLQ-WKEDINQAENLLRKAIEL  532 (606)
T ss_pred             HHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHhhhc-hhhhHHHHHHHHHHHHcc
Confidence            987 566788999999999999999999999999987533211       11112222221 238999999999999986


Q ss_pred             cCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHc
Q 047359          355 KGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKEL  389 (440)
Q Consensus       355 ~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  389 (440)
                      .++ ....|..|...-.+.|+.++|+++|++....
T Consensus       533 Dpk-ce~A~~tlaq~~lQ~~~i~eAielFEksa~l  566 (606)
T KOG0547|consen  533 DPK-CEQAYETLAQFELQRGKIDEAIELFEKSAQL  566 (606)
T ss_pred             Cch-HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            554 5568999999999999999999999987654

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.52  E-value=2.3e-11  Score=100.99  Aligned_cols=200  Identities=11%  Similarity=0.072  Sum_probs=133.1

Q ss_pred             HHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 047359          220 DDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVAS  299 (440)
Q Consensus       220 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  299 (440)
                      ...+..+...+...|++++|...+++..+.... +...+..+...+...|++++|.+.++...+.. +.+...+..+...
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~  108 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHDPD-DYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHH
Confidence            344555566666666666666666666554322 34555666666666777777777776666543 2334455566666


Q ss_pred             HHcCCCHHHHHHHHHHHHhcCCCC-chhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHH
Q 047359          300 QCGKGKWKEVEELLSAVLDKGLLL-DSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEE  378 (440)
Q Consensus       300 ~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  378 (440)
                      +...|++++|.+.+++.......+ ....+..+...+...|++++|...+.+..+.... +...+..+...+...|++++
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~  187 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQ-RPESLLELAELYYLRGQYKD  187 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-ChHHHHHHHHHHHHcCCHHH
Confidence            667777777777777776532211 2345555667777888888888888887765332 45567777788888888888


Q ss_pred             HHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          379 AVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       379 a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      |...+++..+..+.++..+..++..+...|+.++|..+.+.+..
T Consensus       188 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       188 ARAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            88888888776544666777777777788888888887777654

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

>PRK12370 invasion protein regulator; Provisional

Probab=99.52  E-value=1.4e-11  Score=114.61  Aligned_cols=181  Identities=12%  Similarity=-0.005  Sum_probs=81.7

Q ss_pred             HHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHH
Q 047359          236 VKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSA  315 (440)
Q Consensus       236 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  315 (440)
                      +++|...+++..+.++. +...+..+...+...|++++|...++++.+.+ +.+...+..+...+...|++++|...+++
T Consensus       320 ~~~A~~~~~~Al~ldP~-~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~  397 (553)
T PRK12370        320 MIKAKEHAIKATELDHN-NPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINE  397 (553)
T ss_pred             HHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            45555555555554332 33444444444555555555555555555443 22233444444455555555555555555


Q ss_pred             HHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchh
Q 047359          316 VLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSS  395 (440)
Q Consensus       316 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  395 (440)
                      ..+..+. +...+..++..+...|++++|...+++..+...+-+...+..+..++...|+.++|...++++....+.+..
T Consensus       398 Al~l~P~-~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~  476 (553)
T PRK12370        398 CLKLDPT-RAAAGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLI  476 (553)
T ss_pred             HHhcCCC-ChhhHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHH
Confidence            5544322 111122222233344555555555555443321112333444444455555555555555554443333444


Q ss_pred             hHHHHHHHHHhcccHHHHHHHHHHHH
Q 047359          396 SFVIVVSRLCHLKELRKAMKNHDEML  421 (440)
Q Consensus       396 ~~~~l~~~~~~~g~~~~a~~~~~~m~  421 (440)
                      ..+.+...|...|+  +|...++.+.
T Consensus       477 ~~~~l~~~~~~~g~--~a~~~l~~ll  500 (553)
T PRK12370        477 AVNLLYAEYCQNSE--RALPTIREFL  500 (553)
T ss_pred             HHHHHHHHHhccHH--HHHHHHHHHH
Confidence            44444444444442  4444444433

>PRK12370 invasion protein regulator; Provisional

Probab=99.52  E-value=1.5e-11  Score=114.27  Aligned_cols=266  Identities=9%  Similarity=-0.008  Sum_probs=188.3

Q ss_pred             chhhHHHHHHHHHh-----cCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHh---------hcCcHHHHHHHHHHHH
Q 047359          147 GFSTYSSILDGARR-----YEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLS---------DMGKTYAAEMIFKRAC  212 (440)
Q Consensus       147 ~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~---------~~~~~~~a~~~~~~~~  212 (440)
                      +...|...+++...     .+++++|...|++..+..  |+. ...|..+..++.         ..+++++|...+++..
T Consensus       255 ~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ld--P~~-a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al  331 (553)
T PRK12370        255 SIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMS--PNS-IAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKAT  331 (553)
T ss_pred             ChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcC--Ccc-HHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHH
Confidence            34455555555322     234678999999988754  653 555666655544         2345899999999999


Q ss_pred             hcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCh-h
Q 047359          213 DEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCA-M  291 (440)
Q Consensus       213 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~  291 (440)
                      +.++. +...+..+...+...|++++|...|++..+.++. +...+..+...+...|++++|...++...+.+  |+. .
T Consensus       332 ~ldP~-~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~--P~~~~  407 (553)
T PRK12370        332 ELDHN-NPQALGLLGLINTIHSEYIVGSLLFKQANLLSPI-SADIKYYYGWNLFMAGQLEEALQTINECLKLD--PTRAA  407 (553)
T ss_pred             hcCCC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCChh
Confidence            88765 7778888888899999999999999999998644 56678888899999999999999999999875  332 2


Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHH
Q 047359          292 ELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLF  371 (440)
Q Consensus       292 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  371 (440)
                      .+..++..+...|++++|...+++......+-++..+..+..++...|+.++|...+.++...... +....+.+...|.
T Consensus       408 ~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~-~~~~~~~l~~~~~  486 (553)
T PRK12370        408 AGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEIT-GLIAVNLLYAEYC  486 (553)
T ss_pred             hHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccch-hHHHHHHHHHHHh
Confidence            333444456668999999999999876542224555677888889999999999999987664222 3344556666677


Q ss_pred             hcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHC
Q 047359          372 KDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKM  423 (440)
Q Consensus       372 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  423 (440)
                      ..|  +.|...++.+.+..-..+.-.......+.-.|+.+.+..+ +++.+.
T Consensus       487 ~~g--~~a~~~l~~ll~~~~~~~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~  535 (553)
T PRK12370        487 QNS--ERALPTIREFLESEQRIDNNPGLLPLVLVAHGEAIAEKMW-NKFKNE  535 (553)
T ss_pred             ccH--HHHHHHHHHHHHHhhHhhcCchHHHHHHHHHhhhHHHHHH-HHhhcc
Confidence            777  4777777776654323221122244455566776666655 887764

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

Probab=99.52  E-value=1.6e-11  Score=111.43  Aligned_cols=274  Identities=13%  Similarity=0.079  Sum_probs=191.1

Q ss_pred             HHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHhcccCCc
Q 047359           33 EVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGIYSS  112 (440)
Q Consensus        33 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  112 (440)
                      .++-.+...|+.|+..||..+|.-|+..|+.+.|- +|..|.-...+.+...++.++....+.++.+.+.      .|..
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk------ep~a   83 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK------EPLA   83 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC------CCch
Confidence            34566777888899999999999999999988888 8888877777777788888888888888877665      3777


Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHh-cCCCCcccccchHHH
Q 047359          113 VMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVE-KKLLPKHFLSGNDYV  191 (440)
Q Consensus       113 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~~~l  191 (440)
                      .+|..|..+|...||...    |+...+         -...+...+...|.-..-..++..+.- .+..|+     -...
T Consensus        84 Dtyt~Ll~ayr~hGDli~----fe~veq---------dLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpd-----a~n~  145 (1088)
T KOG4318|consen   84 DTYTNLLKAYRIHGDLIL----FEVVEQ---------DLESINQSFSDHGVGSPERWFLMKIHCCPHSLPD-----AENA  145 (1088)
T ss_pred             hHHHHHHHHHHhccchHH----HHHHHH---------HHHHHHhhhhhhccCcHHHHHHhhcccCcccchh-----HHHH
Confidence            889999999999888765    222221         112233334444444444444433221 122233     2334


Q ss_pred             HHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhh-ccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCC
Q 047359          192 IQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKE-GRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQ  270 (440)
Q Consensus       192 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  270 (440)
                      +....-.|-++.+.+++..+....-. .+...  .+.-+... ..+++-..+.+...+   .|++.+|..++.+-..+|+
T Consensus       146 illlv~eglwaqllkll~~~Pvsa~~-~p~~v--fLrqnv~~ntpvekLl~~cksl~e---~~~s~~l~a~l~~alaag~  219 (1088)
T KOG4318|consen  146 ILLLVLEGLWAQLLKLLAKVPVSAWN-APFQV--FLRQNVVDNTPVEKLLNMCKSLVE---APTSETLHAVLKRALAAGD  219 (1088)
T ss_pred             HHHHHHHHHHHHHHHHHhhCCccccc-chHHH--HHHHhccCCchHHHHHHHHHHhhc---CCChHHHHHHHHHHHhcCc
Confidence            55556667777777777666443211 11111  23333332 223333333333333   4899999999999999999


Q ss_pred             hHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCc
Q 047359          271 PEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQ  340 (440)
Q Consensus       271 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  340 (440)
                      .+.|..++.+|.+.|++.+...|..|+-+   .++..-++.+++.|.+.|+.|+..|+...+..+...|.
T Consensus       220 ~d~Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  220 VDGAKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             hhhHHHHHHHHHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchh
Confidence            99999999999999999999888888755   78889999999999999999999999988888877555

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

Probab=99.51  E-value=6.7e-09  Score=91.64  Aligned_cols=92  Identities=9%  Similarity=0.010  Sum_probs=54.1

Q ss_pred             hHHHHHHHHHccCCcchHHHHHHHHHhc-CCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 047359           14 ALSLVLDCYSHKGLFMDGLEVYRMMRVY-GFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQIL   92 (440)
Q Consensus        14 ~~~~li~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   92 (440)
                      .|-..+..+..+|++......|+..... .+......|...+......+-++-+..++++.++.    ++..-.-.+..+
T Consensus       104 Iwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~----~P~~~eeyie~L  179 (835)
T KOG2047|consen  104 IWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV----APEAREEYIEYL  179 (835)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc----CHHHHHHHHHHH
Confidence            3444455556666666666666665532 12223345666666666666666777777776653    223355566666


Q ss_pred             HhcCChHHHHHHHhccc
Q 047359           93 CRSGKFEVVLGLLDSGI  109 (440)
Q Consensus        93 ~~~~~~~~a~~~~~~~~  109 (440)
                      ++.+++++|.+.+....
T Consensus       180 ~~~d~~~eaa~~la~vl  196 (835)
T KOG2047|consen  180 AKSDRLDEAAQRLATVL  196 (835)
T ss_pred             HhccchHHHHHHHHHhc
Confidence            67777777776666654

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.50  E-value=3.2e-11  Score=100.14  Aligned_cols=200  Identities=13%  Similarity=0.056  Sum_probs=128.7

Q ss_pred             cchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 047359          186 SGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVL  265 (440)
Q Consensus       186 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  265 (440)
                      ..+..+...+...|++++|.+.+++..+..+. +...+..+...+...|++++|.+.+++..+.... +...+..+...+
T Consensus        32 ~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~~~~~  109 (234)
T TIGR02521        32 KIRVQLALGYLEQGDLEVAKENLDKALEHDPD-DYLAYLALALYYQQLGELEKAEDSFRRALTLNPN-NGDVLNNYGTFL  109 (234)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHHHH
Confidence            34455556666666666666666665554322 3455566666666667777777777666665432 344555666666


Q ss_pred             HhcCChHHHHHHHHHHHHcCC-CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHH
Q 047359          266 CKEHQPEEVCGLLRDVVERGY-IPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKA  344 (440)
Q Consensus       266 ~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  344 (440)
                      ...|++++|...++...+... ......+..+...+...|++++|...+.+....... +...+..+...+...|++++|
T Consensus       110 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A  188 (234)
T TIGR02521       110 CQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQ-RPESLLELAELYYLRGQYKDA  188 (234)
T ss_pred             HHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-ChHHHHHHHHHHHHcCCHHHH
Confidence            677777777777777665321 122344555666677778888888888777765433 455666777778888888888


Q ss_pred             HHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHc
Q 047359          345 IALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKEL  389 (440)
Q Consensus       345 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  389 (440)
                      ...+++..+. ...+...+..+...+...|+.++|..+.+.+...
T Consensus       189 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       189 RAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            8888887765 2335556666777777788888888877766554

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.

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

Probab=99.49  E-value=4.1e-09  Score=93.04  Aligned_cols=388  Identities=15%  Similarity=0.075  Sum_probs=189.6

Q ss_pred             cCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHH
Q 047359           25 KGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGL  104 (440)
Q Consensus        25 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  104 (440)
                      .|+-++|....+...+.. ..+.+.|+.+.-.+-..+++++|.+.|......+ +-|...+.-+.-.-+..|+++.....
T Consensus        54 lg~~~ea~~~vr~glr~d-~~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~~t  131 (700)
T KOG1156|consen   54 LGKKEEAYELVRLGLRND-LKSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGYLET  131 (700)
T ss_pred             ccchHHHHHHHHHHhccC-cccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHHHH
Confidence            344444444444444322 2233444444444444445555555555554432 12333343333333333333332222


Q ss_pred             Hhccc----CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHH------HHHhcCChhhHHHHHHHH
Q 047359          105 LDSGI----YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILD------GARRYEKTEVSDRIVGLM  174 (440)
Q Consensus       105 ~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~------~~~~~~~~~~a~~~~~~~  174 (440)
                      -.+..    .....|..+..++.-.|+...|..++++..+...-.|+...|.....      ...+.|..+.|.+.+..-
T Consensus       132 r~~LLql~~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~  211 (700)
T KOG1156|consen  132 RNQLLQLRPSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDN  211 (700)
T ss_pred             HHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhh
Confidence            22111    22334555555555566666666666666552222344443332221      233445555555444433


Q ss_pred             HhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHH-HHHhhhccHHHHH-HHHHHHHHcCCC
Q 047359          175 VEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCML-KALSKEGRVKEAI-QIYHLISERGIT  252 (440)
Q Consensus       175 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-~~~~~~~~~~~a~-~~~~~~~~~~~~  252 (440)
                      ...- ...  ...-..-...+.+.+++++|..++..+...+  ||..-|...+ .++.+..+.-++. .+|....+.-..
T Consensus       212 e~~i-~Dk--la~~e~ka~l~~kl~~lEeA~~~y~~Ll~rn--Pdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r  286 (700)
T KOG1156|consen  212 EKQI-VDK--LAFEETKADLLMKLGQLEEAVKVYRRLLERN--PDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPR  286 (700)
T ss_pred             hhHH-HHH--HHHhhhHHHHHHHHhhHHhHHHHHHHHHhhC--chhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcc
Confidence            2211 011  2222233455566666666666666666553  3333333333 3332233333333 444443332111


Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHh----cC--------
Q 047359          253 VRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLD----KG--------  320 (440)
Q Consensus       253 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~--------  320 (440)
                       ....-..=++......-.+...+++....+.|+++   ++..+...|-.-...+-.+++.-.+..    .|        
T Consensus       287 -~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~---vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~  362 (700)
T KOG1156|consen  287 -HECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPS---VFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDG  362 (700)
T ss_pred             -cccchhccHHHhCcchhHHHHHHHHHHHhhcCCCc---hhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCccccc
Confidence             00000001111111222334445555666666554   333333333222222211122211111    10        


Q ss_pred             --CCCchh--hhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcC-HHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchh
Q 047359          321 --LLLDSF--CCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLD-VATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSS  395 (440)
Q Consensus       321 --~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  395 (440)
                        -+|...  ++-.++..+-+.|+++.|...++..++.  .|+ +..|..=.+.+...|+.++|..++++..+.+..|..
T Consensus       363 ~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~  440 (700)
T KOG1156|consen  363 KQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTADRA  440 (700)
T ss_pred             ccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchhHH
Confidence              134443  3445677888999999999999988875  333 335555567788899999999999999988766665


Q ss_pred             hHHHHHHHHHhcccHHHHHHHHHHHHHCCC
Q 047359          396 SFVIVVSRLCHLKELRKAMKNHDEMLKMGH  425 (440)
Q Consensus       396 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  425 (440)
                      .-..-+....++++.++|.++...+-+.|.
T Consensus       441 INsKcAKYmLrAn~i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  441 INSKCAKYMLRANEIEEAEEVLSKFTREGF  470 (700)
T ss_pred             HHHHHHHHHHHccccHHHHHHHHHhhhccc
Confidence            555677778889999999999888887664

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

Probab=99.49  E-value=7e-09  Score=90.61  Aligned_cols=409  Identities=15%  Similarity=0.070  Sum_probs=241.1

Q ss_pred             HhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 047359           13 DALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQIL   92 (440)
Q Consensus        13 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   92 (440)
                      ...-+=+..+...|++++|.+....+...+ +.+...+..=+-++++.+++++|..+.+.-...  ..+.+-+-.-..+.
T Consensus        13 ~~l~t~ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~   89 (652)
T KOG2376|consen   13 EALLTDLNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCE   89 (652)
T ss_pred             HHHHHHHHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHH
Confidence            334455677788899999999999999876 556677777778899999999999666543211  11111111223444


Q ss_pred             HhcCChHHHHHHHhccc-CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCC-CchhhHHHHHHHHHhcCChhhHHHH
Q 047359           93 CRSGKFEVVLGLLDSGI-YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLT-PGFSTYSSILDGARRYEKTEVSDRI  170 (440)
Q Consensus        93 ~~~~~~~~a~~~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~-p~~~~~~~l~~~~~~~~~~~~a~~~  170 (440)
                      .+.++.++|+..++... .+..+...-...+.+.|++++|+++|+.+.+ .+.. -+...-..++.+-.       +...
T Consensus        90 Yrlnk~Dealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~k-n~~dd~d~~~r~nl~a~~a-------~l~~  161 (652)
T KOG2376|consen   90 YRLNKLDEALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAK-NNSDDQDEERRANLLAVAA-------ALQV  161 (652)
T ss_pred             HHcccHHHHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHh-cCCchHHHHHHHHHHHHHH-------hhhH
Confidence            57899999999999665 3444666777889999999999999999976 3322 11112222222111       1111


Q ss_pred             HHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcC-------CCCCHH-------hHHHHHHHHhhhccH
Q 047359          171 VGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEK-------IELQDD-------TCGCMLKALSKEGRV  236 (440)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------~~~~~~-------~~~~l~~~~~~~~~~  236 (440)
                       +.+......|+.....+....-.+...|++.+|+++++...+.+       -.-+..       +-.-+.-.+...|+-
T Consensus       162 -~~~q~v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt  240 (652)
T KOG2376|consen  162 -QLLQSVPEVPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQT  240 (652)
T ss_pred             -HHHHhccCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcch
Confidence             12222233343223333445566778899999999988873211       110111       112234455678999


Q ss_pred             HHHHHHHHHHHHcCCCCChhhHHHHHHH---HHhcC--------------------------------------------
Q 047359          237 KEAIQIYHLISERGITVRDSDYYAFVNV---LCKEH--------------------------------------------  269 (440)
Q Consensus       237 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~---~~~~~--------------------------------------------  269 (440)
                      ++|..+|....+.... |........+-   +....                                            
T Consensus       241 ~ea~~iy~~~i~~~~~-D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~  319 (652)
T KOG2376|consen  241 AEASSIYVDIIKRNPA-DEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALF  319 (652)
T ss_pred             HHHHHHHHHHHHhcCC-CchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999888877543 33221111110   00000                                            


Q ss_pred             --ChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHc--CCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHH
Q 047359          270 --QPEEVCGLLRDVVERGYIPCAMELSRFVASQCG--KGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAI  345 (440)
Q Consensus       270 --~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  345 (440)
                        ..+.+.++.....  +..|. ..+..++..+.+  ......+.+++....+....-...+.-..+......|+++.|.
T Consensus       320 tnk~~q~r~~~a~lp--~~~p~-~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~  396 (652)
T KOG2376|consen  320 TNKMDQVRELSASLP--GMSPE-SLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVAL  396 (652)
T ss_pred             hhhHHHHHHHHHhCC--ccCch-HHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHH
Confidence              0011111100000  11122 233333333322  2245667777776666544434456666777888999999999


Q ss_pred             HHHH--------HHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCC---C----chhhHHHHHHHHHhcccH
Q 047359          346 ALHI--------KIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKV---V----SSSSFVIVVSRLCHLKEL  410 (440)
Q Consensus       346 ~~~~--------~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~---~----~~~~~~~l~~~~~~~g~~  410 (440)
                      +++.        .+.+.+..  +.+...+...+.+.++.+.|..++.+....-.   .    -...+..++..-.+.|+-
T Consensus       397 ~il~~~~~~~~ss~~~~~~~--P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~  474 (652)
T KOG2376|consen  397 EILSLFLESWKSSILEAKHL--PGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNE  474 (652)
T ss_pred             HHHHHHhhhhhhhhhhhccC--hhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCch
Confidence            9998        44444433  34556677778888888888888777653211   1    112344444445577999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHhhhcC
Q 047359          411 RKAMKNHDEMLKMGHKPDEATYKQVISGFM  440 (440)
Q Consensus       411 ~~a~~~~~~m~~~~~~p~~~t~~~ll~a~~  440 (440)
                      ++|..+++++.+. .++|..+...++.+|+
T Consensus       475 ~ea~s~leel~k~-n~~d~~~l~~lV~a~~  503 (652)
T KOG2376|consen  475 EEASSLLEELVKF-NPNDTDLLVQLVTAYA  503 (652)
T ss_pred             HHHHHHHHHHHHh-CCchHHHHHHHHHHHH
Confidence            9999999999884 2677788888887763

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

Probab=99.48  E-value=1.9e-11  Score=98.52  Aligned_cols=234  Identities=8%  Similarity=-0.059  Sum_probs=197.8

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHH
Q 047359          151 YSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKAL  230 (440)
Q Consensus       151 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  230 (440)
                      -+.+.++|.+.|.+.+|.+.++.-++....    +.+|..|.+.|.+..++..|+.++.+-.+.-+. |+....-+...+
T Consensus       226 k~Q~gkCylrLgm~r~AekqlqssL~q~~~----~dTfllLskvY~ridQP~~AL~~~~~gld~fP~-~VT~l~g~ARi~  300 (478)
T KOG1129|consen  226 KQQMGKCYLRLGMPRRAEKQLQSSLTQFPH----PDTFLLLSKVYQRIDQPERALLVIGEGLDSFPF-DVTYLLGQARIH  300 (478)
T ss_pred             HHHHHHHHHHhcChhhhHHHHHHHhhcCCc----hhHHHHHHHHHHHhccHHHHHHHHhhhhhcCCc-hhhhhhhhHHHH
Confidence            367889999999999999999998887533    558888999999999999999999998876433 444455577788


Q ss_pred             hhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHH
Q 047359          231 SKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVE  310 (440)
Q Consensus       231 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  310 (440)
                      ...++.++|.++|+...+.... +.....++...|.-.++++-|+.+++.+.+.|+. +...|+.+.-+|.-.++++-++
T Consensus       301 eam~~~~~a~~lYk~vlk~~~~-nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L  378 (478)
T KOG1129|consen  301 EAMEQQEDALQLYKLVLKLHPI-NVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVL  378 (478)
T ss_pred             HHHHhHHHHHHHHHHHHhcCCc-cceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhH
Confidence            8899999999999999887543 6777888888899999999999999999999864 6778888888888899999999


Q ss_pred             HHHHHHHhcCCCCc--hhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 047359          311 ELLSAVLDKGLLLD--SFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKE  388 (440)
Q Consensus       311 ~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  388 (440)
                      .-|.+....--.|+  ...|-.+.......||+..|.+.|+-....+.. +...++.|.-.-.+.|++++|..++..+.+
T Consensus       379 ~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~-h~ealnNLavL~~r~G~i~~Arsll~~A~s  457 (478)
T KOG1129|consen  379 PSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQ-HGEALNNLAVLAARSGDILGARSLLNAAKS  457 (478)
T ss_pred             HHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcc-hHHHHHhHHHHHhhcCchHHHHHHHHHhhh
Confidence            99999886544443  446777888888999999999999998876554 678899999999999999999999999998


Q ss_pred             cCCC
Q 047359          389 LKVV  392 (440)
Q Consensus       389 ~~~~  392 (440)
                      ..|.
T Consensus       458 ~~P~  461 (478)
T KOG1129|consen  458 VMPD  461 (478)
T ss_pred             hCcc
Confidence            8776

>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=99.47  E-value=6.2e-10  Score=100.19  Aligned_cols=287  Identities=13%  Similarity=0.078  Sum_probs=177.2

Q ss_pred             HHHHhcCChHHHHHHHhccc---CC-chhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHH-hc---
Q 047359           90 QILCRSGKFEVVLGLLDSGI---YS-SVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGAR-RY---  161 (440)
Q Consensus        90 ~~~~~~~~~~~a~~~~~~~~---~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~-~~---  161 (440)
                      ..+...|++++|++.++...   .| ..........+.+.|+.++|..+|..+.+   ..|+...|...+..+. -.   
T Consensus        12 ~il~e~g~~~~AL~~L~~~~~~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~---rNPdn~~Yy~~L~~~~g~~~~~   88 (517)
T PF12569_consen   12 SILEEAGDYEEALEHLEKNEKQILDKLAVLEKRAELLLKLGRKEEAEKIYRELID---RNPDNYDYYRGLEEALGLQLQL   88 (517)
T ss_pred             HHHHHCCCHHHHHHHHHhhhhhCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---HCCCcHHHHHHHHHHHhhhccc
Confidence            34455666666666665544   33 23345556667777777777777777766   4465555444443333 11   


Q ss_pred             --CChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcH-HHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHH
Q 047359          162 --EKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKT-YAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKE  238 (440)
Q Consensus       162 --~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  238 (440)
                        .+.+....+++++...-  |.  ......+.-.+..-..+ ..+..++..+...|+++   +|+.+-..|....+.+-
T Consensus        89 ~~~~~~~~~~~y~~l~~~y--p~--s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs---lF~~lk~Ly~d~~K~~~  161 (517)
T PF12569_consen   89 SDEDVEKLLELYDELAEKY--PR--SDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPS---LFSNLKPLYKDPEKAAI  161 (517)
T ss_pred             ccccHHHHHHHHHHHHHhC--cc--ccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCch---HHHHHHHHHcChhHHHH
Confidence              23455566666665543  32  11221111111111122 23455666666666543   66666666665555555


Q ss_pred             HHHHHHHHHHc----C----------CCCChh--hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHc
Q 047359          239 AIQIYHLISER----G----------ITVRDS--DYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCG  302 (440)
Q Consensus       239 a~~~~~~~~~~----~----------~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  302 (440)
                      ..+++......    +          -+|+..  ++..+.+.|...|++++|+++++..+++. +..+..|..-.+.+-+
T Consensus       162 i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~ht-Pt~~ely~~KarilKh  240 (517)
T PF12569_consen  162 IESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHT-PTLVELYMTKARILKH  240 (517)
T ss_pred             HHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHH
Confidence            55555554332    1          122332  34555677778889999999999888874 2335677777888888


Q ss_pred             CCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHh------H--HHHHHHHHhcC
Q 047359          303 KGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVAT------Y--DVLLDGLFKDG  374 (440)
Q Consensus       303 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~------~--~~l~~~~~~~g  374 (440)
                      .|++.+|.+.++.....+.. |...-+-.+..+.+.|+.++|.+++....+.+..|....      |  .....+|.+.|
T Consensus       241 ~G~~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~  319 (517)
T PF12569_consen  241 AGDLKEAAEAMDEARELDLA-DRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQG  319 (517)
T ss_pred             CCCHHHHHHHHHHHHhCChh-hHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHh
Confidence            89999999999888887665 777777788888899999999998888877664333221      2  34466788888


Q ss_pred             cHHHHHHHHHHHHH
Q 047359          375 RMEEAVRIFDYMKE  388 (440)
Q Consensus       375 ~~~~a~~~~~~~~~  388 (440)
                      ++..|++-|..+.+
T Consensus       320 ~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  320 DYGLALKRFHAVLK  333 (517)
T ss_pred             hHHHHHHHHHHHHH
Confidence            88888877766544

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

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

Probab=99.46  E-value=2.2e-09  Score=96.55  Aligned_cols=128  Identities=13%  Similarity=0.034  Sum_probs=106.3

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHh
Q 047359          293 LSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFK  372 (440)
Q Consensus       293 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  372 (440)
                      |......+.+.++.++|...+.+.....+ .....|......+...|..++|.+.|......++. +..+..++..++.+
T Consensus       653 wllaa~~~~~~~~~~~a~~CL~Ea~~~~~-l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~ldP~-hv~s~~Ala~~lle  730 (799)
T KOG4162|consen  653 WLLAADLFLLSGNDDEARSCLLEASKIDP-LSASVYYLRGLLLEVKGQLEEAKEAFLVALALDPD-HVPSMTALAELLLE  730 (799)
T ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHhcch-hhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhcCCC-CcHHHHHHHHHHHH
Confidence            44556667777888888877777766532 25556666667788899999999999988875443 45688899999999


Q ss_pred             cCcHHHHHH--HHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          373 DGRMEEAVR--IFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       373 ~g~~~~a~~--~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      .|+..-|..  ++..+.+.+|.++.+|..+...+.+.|+.+.|.+.|+...+
T Consensus       731 ~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~q  782 (799)
T KOG4162|consen  731 LGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQ  782 (799)
T ss_pred             hCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHh
Confidence            999888888  99999999999999999999999999999999999998877

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

Probab=99.45  E-value=2.6e-08  Score=88.02  Aligned_cols=415  Identities=13%  Similarity=0.153  Sum_probs=261.8

Q ss_pred             ChHhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcC------CCCChhh
Q 047359           11 QSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDG------VSPNKFT   84 (440)
Q Consensus        11 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~   84 (440)
                      ....|...+......+-++-++.++++..+.    ++..-+-.|..+++.+++++|.+.+...+...      .+.+...
T Consensus       137 H~rIW~lyl~Fv~~~~lPets~rvyrRYLk~----~P~~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~ql  212 (835)
T KOG2047|consen  137 HDRIWDLYLKFVESHGLPETSIRVYRRYLKV----APEAREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQL  212 (835)
T ss_pred             hccchHHHHHHHHhCCChHHHHHHHHHHHhc----CHHHHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhH
Confidence            3456777888888899999999999999874    44457778889999999999999988775431      2335556


Q ss_pred             HHHHHHHHHhcCCh---HHHHHHHhccc---CCch--hHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHH
Q 047359           85 WSLVAQILCRSGKF---EVVLGLLDSGI---YSSV--MYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILD  156 (440)
Q Consensus        85 ~~~l~~~~~~~~~~---~~a~~~~~~~~---~~~~--~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  156 (440)
                      |.-+-+...+..+.   -....+++.+.   +|..  .|++|.+-|.+.|++++|.++|++...   ...+..-|..+.+
T Consensus       213 w~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~---~v~tvrDFt~ifd  289 (835)
T KOG2047|consen  213 WLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQ---TVMTVRDFTQIFD  289 (835)
T ss_pred             HHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHH---hheehhhHHHHHH
Confidence            77776666665433   23445555555   4543  589999999999999999999999866   2234444555555


Q ss_pred             HHHhcC----------------C------hhhHHHHHHHHHhcCC----------CCcccccchHHHHHHHhhcCcHHHH
Q 047359          157 GARRYE----------------K------TEVSDRIVGLMVEKKL----------LPKHFLSGNDYVIQKLSDMGKTYAA  204 (440)
Q Consensus       157 ~~~~~~----------------~------~~~a~~~~~~~~~~~~----------~~~~~~~~~~~l~~~~~~~~~~~~a  204 (440)
                      +|+.-.                +      ++-...-|+.+.....          .|++ ...|..-  .-...|+..+-
T Consensus       290 ~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsVlLRQn~~n-V~eW~kR--V~l~e~~~~~~  366 (835)
T KOG2047|consen  290 AYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNSVLLRQNPHN-VEEWHKR--VKLYEGNAAEQ  366 (835)
T ss_pred             HHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHHHHhcCCcc-HHHHHhh--hhhhcCChHHH
Confidence            544311                1      1222333444433221          1111 2222221  12223566666


Q ss_pred             HHHHHHHHhc-CC----CCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCC---hhhHHHHHHHHHhcCChHHHHH
Q 047359          205 EMIFKRACDE-KI----ELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVR---DSDYYAFVNVLCKEHQPEEVCG  276 (440)
Q Consensus       205 ~~~~~~~~~~-~~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~  276 (440)
                      ...+.+..+. ++    ..-...|..+.+.|-..|+++.|..+|++..+...+.-   ..+|......-.++.+++.|++
T Consensus       367 i~tyteAv~~vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~  446 (835)
T KOG2047|consen  367 INTYTEAVKTVDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALK  446 (835)
T ss_pred             HHHHHHHHHccCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHH
Confidence            7777766543 11    11224678888899999999999999999887654321   2455555566667888999999


Q ss_pred             HHHHHHHcCCC-----------------CChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCC
Q 047359          277 LLRDVVERGYI-----------------PCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNR  339 (440)
Q Consensus       277 ~~~~~~~~~~~-----------------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  339 (440)
                      +.+.....--.                 -+...|+..++..-..|-++....+++++.+..+. ++.+.-.....+-...
T Consensus       447 lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLria-TPqii~NyAmfLEeh~  525 (835)
T KOG2047|consen  447 LMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIA-TPQIIINYAMFLEEHK  525 (835)
T ss_pred             HHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhhH
Confidence            88876532111                 12345556666666678899999999999887665 3433333333445566


Q ss_pred             cHHHHHHHHHHHHhccCCcCH-HhHHHHHHHHHh---cCcHHHHHHHHHHHHHcCCC-chhh-HHHHHHHHHhcccHHHH
Q 047359          340 QIDKAIALHIKIEKLKGSLDV-ATYDVLLDGLFK---DGRMEEAVRIFDYMKELKVV-SSSS-FVIVVSRLCHLKELRKA  413 (440)
Q Consensus       340 ~~~~a~~~~~~~~~~~~~p~~-~~~~~l~~~~~~---~g~~~~a~~~~~~~~~~~~~-~~~~-~~~l~~~~~~~g~~~~a  413 (440)
                      -++++.+++++-+..=.-|+. ..|+..+.-+.+   .-..+.|..+|+++.+.-|+ ...+ |......--+.|....|
T Consensus       526 yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~~Cpp~~aKtiyLlYA~lEEe~GLar~a  605 (835)
T KOG2047|consen  526 YFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALDGCPPEHAKTIYLLYAKLEEEHGLARHA  605 (835)
T ss_pred             HHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhHHHHH
Confidence            788888888877665334444 366666655543   34688999999999985554 3333 22222233356888888


Q ss_pred             HHHHHHHHHCCCCCCH--HHHHHHhh
Q 047359          414 MKNHDEMLKMGHKPDE--ATYKQVIS  437 (440)
Q Consensus       414 ~~~~~~m~~~~~~p~~--~t~~~ll~  437 (440)
                      +.++++... ++++..  ..|+..|+
T Consensus       606 msiyerat~-~v~~a~~l~myni~I~  630 (835)
T KOG2047|consen  606 MSIYERATS-AVKEAQRLDMYNIYIK  630 (835)
T ss_pred             HHHHHHHHh-cCCHHHHHHHHHHHHH
Confidence            888888654 244433  35555543

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

Probab=99.45  E-value=1.2e-08  Score=85.39  Aligned_cols=274  Identities=13%  Similarity=-0.010  Sum_probs=146.5

Q ss_pred             CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhh-HHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccch
Q 047359          110 YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFST-YSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGN  188 (440)
Q Consensus       110 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  188 (440)
                      .|+.....+.+.+...|+.++|...|+...-   +.|+..+ .....-.+.+.|+++....+...+....- -+  ...|
T Consensus       230 ~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~---~dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~~-~t--a~~w  303 (564)
T KOG1174|consen  230 CNEHLMMALGKCLYYNGDYFQAEDIFSSTLC---ANPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKVK-YT--ASHW  303 (564)
T ss_pred             ccHHHHHHHhhhhhhhcCchHHHHHHHHHhh---CChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhhh-cc--hhhh
Confidence            4445556666666666666666666666643   3343221 11111223445666666665555544320 11  2333


Q ss_pred             HHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 047359          189 DYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKE  268 (440)
Q Consensus       189 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  268 (440)
                      ..-+......+++..|+.+-++.++.+.. +...+-.-...+...|++++|.-.|+......+ .+...|..++.+|...
T Consensus       304 fV~~~~l~~~K~~~rAL~~~eK~I~~~~r-~~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap-~rL~~Y~GL~hsYLA~  381 (564)
T KOG1174|consen  304 FVHAQLLYDEKKFERALNFVEKCIDSEPR-NHEALILKGRLLIALERHTQAVIAFRTAQMLAP-YRLEIYRGLFHSYLAQ  381 (564)
T ss_pred             hhhhhhhhhhhhHHHHHHHHHHHhccCcc-cchHHHhccHHHHhccchHHHHHHHHHHHhcch-hhHHHHHHHHHHHHhh
Confidence            33344445556666666666666554333 333444444555566666666666666655432 2556666666666666


Q ss_pred             CChHHHHHHHHHHHHcCCCCChhhHHHHH-HHHH-cCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHH
Q 047359          269 HQPEEVCGLLRDVVERGYIPCAMELSRFV-ASQC-GKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIA  346 (440)
Q Consensus       269 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  346 (440)
                      |.+.+|...-+...+. .+.+..+...+. ..+. .-..-++|.+++++.....+. -....+.+...+...|..+.++.
T Consensus       382 ~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~~P~-Y~~AV~~~AEL~~~Eg~~~D~i~  459 (564)
T KOG1174|consen  382 KRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKINPI-YTPAVNLIAELCQVEGPTKDIIK  459 (564)
T ss_pred             chHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhccCCc-cHHHHHHHHHHHHhhCccchHHH
Confidence            6666666655554432 223344443331 1111 112335666666665554221 22344455556666666666666


Q ss_pred             HHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchh
Q 047359          347 LHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSS  395 (440)
Q Consensus       347 ~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  395 (440)
                      ++++...  ..||....+.|.+.+...+.+++|.+.|..+.+.+|.+..
T Consensus       460 LLe~~L~--~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~~~~  506 (564)
T KOG1174|consen  460 LLEKHLI--IFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPKSKR  506 (564)
T ss_pred             HHHHHHh--hccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCccchH
Confidence            6666655  3456666666666666666666676666666666655443

>PF13041 PPR_2: PPR repeat family

Probab=99.38  E-value=1e-12  Score=78.42  Aligned_cols=49  Identities=24%  Similarity=0.562  Sum_probs=25.2

Q ss_pred             cChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 047359           45 PAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILC   93 (440)
Q Consensus        45 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   93 (440)
                      ||..+||.+|.+|++.|++++|.++|++|.+.|++||..||+.++++|+
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~   49 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLC   49 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHc
Confidence            4445555555555555555555555555555555555555555555443

>PF13041 PPR_2: PPR repeat family

Probab=99.38  E-value=1.4e-12  Score=77.83  Aligned_cols=50  Identities=20%  Similarity=0.447  Sum_probs=48.6

Q ss_pred             CChHhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHh
Q 047359           10 SQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYR   59 (440)
Q Consensus        10 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~   59 (440)
                      ||..+||.+|++|++.|++++|.++|++|.+.|++||..||+.+|++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            89999999999999999999999999999999999999999999999874

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

Probab=99.38  E-value=1.6e-08  Score=87.98  Aligned_cols=278  Identities=12%  Similarity=0.002  Sum_probs=215.5

Q ss_pred             CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchH
Q 047359          110 YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGND  189 (440)
Q Consensus       110 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  189 (440)
                      .+.........-+...+++++..++++...+..+  +....+..-|.++...|+..+-..+-..+.+.-  |+. ..+|.
T Consensus       242 ~~~dll~~~ad~~y~~c~f~~c~kit~~lle~dp--fh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y--P~~-a~sW~  316 (611)
T KOG1173|consen  242 ENLDLLAEKADRLYYGCRFKECLKITEELLEKDP--FHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY--PSK-ALSWF  316 (611)
T ss_pred             hcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhCC--CCcchHHHHHHHHHHhcccchHHHHHHHHHHhC--CCC-Ccchh
Confidence            4455566666778888999999999999987333  344455555668889999888888878887764  544 78899


Q ss_pred             HHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcC
Q 047359          190 YVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEH  269 (440)
Q Consensus       190 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  269 (440)
                      .+.-.|...|...+|.+.|.+....+.. =...|-...++|+-.|..|+|+..|...-+.-.... .-+.-+.--|.+.+
T Consensus       317 aVg~YYl~i~k~seARry~SKat~lD~~-fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~h-lP~LYlgmey~~t~  394 (611)
T KOG1173|consen  317 AVGCYYLMIGKYSEARRYFSKATTLDPT-FGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCH-LPSLYLGMEYMRTN  394 (611)
T ss_pred             hHHHHHHHhcCcHHHHHHHHHHhhcCcc-ccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCc-chHHHHHHHHHHhc
Confidence            9999999999999999999998765443 244788899999999999999999988766421111 11223444577889


Q ss_pred             ChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhc--CCC----CchhhhHHHHHHHHcCCcHHH
Q 047359          270 QPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDK--GLL----LDSFCCSSLMEYYCSNRQIDK  343 (440)
Q Consensus       270 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~----~~~~~~~~l~~~~~~~~~~~~  343 (440)
                      +...|.+.|.+..... +.|+...+-+.-.....+.+.+|..+|+.....  .+.    .-..+++.|..+|.+.+.+++
T Consensus       395 n~kLAe~Ff~~A~ai~-P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~e  473 (611)
T KOG1173|consen  395 NLKLAEKFFKQALAIA-PSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEE  473 (611)
T ss_pred             cHHHHHHHHHHHHhcC-CCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHH
Confidence            9999999999988753 456677777776777789999999999888621  111    134468888999999999999


Q ss_pred             HHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhh
Q 047359          344 AIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSS  396 (440)
Q Consensus       344 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  396 (440)
                      |+..+++......+ +..++.++.-.|...|+++.|++.|.+..-..|.+..+
T Consensus       474 AI~~~q~aL~l~~k-~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~  525 (611)
T KOG1173|consen  474 AIDYYQKALLLSPK-DASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFI  525 (611)
T ss_pred             HHHHHHHHHHcCCC-chhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHH
Confidence            99999999987555 88999999999999999999999999999887765443

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

Probab=99.38  E-value=3.6e-08  Score=87.25  Aligned_cols=395  Identities=15%  Similarity=0.139  Sum_probs=258.0

Q ss_pred             hHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 047359           14 ALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILC   93 (440)
Q Consensus        14 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   93 (440)
                      .|-..+.+| ..+++...+++.+.+.+.. +....+.....-.+...|+-++|.+..+...+..+ .+.+.|..+.-.+.
T Consensus        10 lF~~~lk~y-E~kQYkkgLK~~~~iL~k~-~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~-~S~vCwHv~gl~~R   86 (700)
T KOG1156|consen   10 LFRRALKCY-ETKQYKKGLKLIKQILKKF-PEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDL-KSHVCWHVLGLLQR   86 (700)
T ss_pred             HHHHHHHHH-HHHHHHhHHHHHHHHHHhC-CccchhHHhccchhhcccchHHHHHHHHHHhccCc-ccchhHHHHHHHHh
Confidence            344444444 6778888888888888732 33344444444445667889999999888877543 36677888887777


Q ss_pred             hcCChHHHHHHHhccc----CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchh-hHHHHHHHHHhcCChhhHH
Q 047359           94 RSGKFEVVLGLLDSGI----YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFS-TYSSILDGARRYEKTEVSD  168 (440)
Q Consensus        94 ~~~~~~~a~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~  168 (440)
                      ...++++|++.|....    .|...|.-+.-.-.+.|+++.....-....+   ..|+.. .|..+..++.-.|+...|.
T Consensus        87 ~dK~Y~eaiKcy~nAl~~~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLq---l~~~~ra~w~~~Avs~~L~g~y~~A~  163 (700)
T KOG1156|consen   87 SDKKYDEAIKCYRNALKIEKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQ---LRPSQRASWIGFAVAQHLLGEYKMAL  163 (700)
T ss_pred             hhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHH---hhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence            7889999999999877    4556677777777788999888888888766   555544 7778888888899999999


Q ss_pred             HHHHHHHhcCC-CCcccccchHH------HHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHH
Q 047359          169 RIVGLMVEKKL-LPKHFLSGNDY------VIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQ  241 (440)
Q Consensus       169 ~~~~~~~~~~~-~~~~~~~~~~~------l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  241 (440)
                      .++++..+... .|+  ...+..      -.....+.|..+.|.+.+......-+. ....-..-...+.+.+++++|..
T Consensus       164 ~il~ef~~t~~~~~s--~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~i~D-kla~~e~ka~l~~kl~~lEeA~~  240 (700)
T KOG1156|consen  164 EILEEFEKTQNTSPS--KEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQIVD-KLAFEETKADLLMKLGQLEEAVK  240 (700)
T ss_pred             HHHHHHHHhhccCCC--HHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhHHHH-HHHHhhhHHHHHHHHhhHHhHHH
Confidence            99999887652 344  333322      234566778888888887766543221 22223344566788899999999


Q ss_pred             HHHHHHHcCCCCChhhHHHHHH-HHHhcCChHHHH-HHHHHHHHcCCCCChhhHHHH-HHHHHcCCCHHHHHHHHHHHHh
Q 047359          242 IYHLISERGITVRDSDYYAFVN-VLCKEHQPEEVC-GLLRDVVERGYIPCAMELSRF-VASQCGKGKWKEVEELLSAVLD  318 (440)
Q Consensus       242 ~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~  318 (440)
                      ++..+...+  ||...|...+. ++.+-.+.-++. .+|....+.  .|....-..+ +.......-.+..-+++....+
T Consensus       241 ~y~~Ll~rn--Pdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~--y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~  316 (700)
T KOG1156|consen  241 VYRRLLERN--PDNLDYYEGLEKALGKIKDMLEALKALYAILSEK--YPRHECPRRLPLSVLNGEELKEIVDKYLRPLLS  316 (700)
T ss_pred             HHHHHHhhC--chhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhc--CcccccchhccHHHhCcchhHHHHHHHHHHHhh
Confidence            999999875  56555554444 443333444444 556555443  1221111111 1111122233445566777777


Q ss_pred             cCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHH----hcc----------CCcCHHhH--HHHHHHHHhcCcHHHHHHH
Q 047359          319 KGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIE----KLK----------GSLDVATY--DVLLDGLFKDGRMEEAVRI  382 (440)
Q Consensus       319 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~----------~~p~~~~~--~~l~~~~~~~g~~~~a~~~  382 (440)
                      .|+++   ++..+...|-.....+-..++...+.    ..|          -.|....|  ..++..+-+.|+++.|...
T Consensus       317 Kg~p~---vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~y  393 (700)
T KOG1156|consen  317 KGVPS---VFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEY  393 (700)
T ss_pred             cCCCc---hhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHH
Confidence            77654   33444444433222221112211111    111          13455444  4567788999999999999


Q ss_pred             HHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCC
Q 047359          383 FDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMG  424 (440)
Q Consensus       383 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  424 (440)
                      ++.+..+-|.-+..|..-.+.+...|++++|...+++..+..
T Consensus       394 Id~AIdHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD  435 (700)
T KOG1156|consen  394 IDLAIDHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD  435 (700)
T ss_pred             HHHHhccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc
Confidence            999999877777788888899999999999999999998743

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.37  E-value=1.5e-09  Score=92.53  Aligned_cols=231  Identities=15%  Similarity=0.050  Sum_probs=135.5

Q ss_pred             ChhhHHHHHHHHHhcC-CCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHH
Q 047359          163 KTEVSDRIVGLMVEKK-LLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQ  241 (440)
Q Consensus       163 ~~~~a~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  241 (440)
                      ..+.++.-+.+++... ..|+.....|..+...+...|+.++|...|++..+..+. +...|+.+...+...|++++|..
T Consensus        41 ~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~~~~~g~~~~A~~  119 (296)
T PRK11189         41 QQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPD-MADAYNYLGIYLTQAGNFDAAYE  119 (296)
T ss_pred             HHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHCCCHHHHHH
Confidence            3444555555555432 233322445666667777777777777777777776554 56677777777778888888888


Q ss_pred             HHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCC
Q 047359          242 IYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGL  321 (440)
Q Consensus       242 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  321 (440)
                      .|+...+..+. +..++..+..++...|++++|.+.++...+..  |+..............++.++|...+.+..... 
T Consensus       120 ~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~-  195 (296)
T PRK11189        120 AFDSVLELDPT-YNYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKENLKQRYEKL-  195 (296)
T ss_pred             HHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhC-
Confidence            88777775433 44566667777777788888888887777653  333211111222334567788888886654332 


Q ss_pred             CCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhc---cC--C-cCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC-ch
Q 047359          322 LLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKL---KG--S-LDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV-SS  394 (440)
Q Consensus       322 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~--~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~  394 (440)
                      .|+... ..+..  ...|+...+ +.+..+.+.   .+  . .....|..+...+.+.|++++|...|+++.+.+|. ..
T Consensus       196 ~~~~~~-~~~~~--~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~~~~  271 (296)
T PRK11189        196 DKEQWG-WNIVE--FYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVYNFV  271 (296)
T ss_pred             CccccH-HHHHH--HHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCchHH
Confidence            222221 12222  234444333 233333321   11  1 12356778888888888888888888888887765 33


Q ss_pred             hhHHHHHH
Q 047359          395 SSFVIVVS  402 (440)
Q Consensus       395 ~~~~~l~~  402 (440)
                      ..-..++.
T Consensus       272 e~~~~~~e  279 (296)
T PRK11189        272 EHRYALLE  279 (296)
T ss_pred             HHHHHHHH
Confidence            33333333

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

Probab=99.35  E-value=7.8e-09  Score=86.43  Aligned_cols=400  Identities=9%  Similarity=-0.004  Sum_probs=257.6

Q ss_pred             ChHhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhcc--chhHHHHHHHHHHHcCCCCChhhHHHH
Q 047359           11 QSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQN--EIRLASCLYGAMVRDGVSPNKFTWSLV   88 (440)
Q Consensus        11 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l   88 (440)
                      +...-...+.+|...++-+.|...+...+...   ....-|.++..+...|  ..+.....-+-+++.  +.-......+
T Consensus        96 ~~e~~r~~aecy~~~~n~~~Ai~~l~~~p~t~---r~p~inlMla~l~~~g~r~~~~vl~ykevvrec--p~aL~~i~~l  170 (564)
T KOG1174|consen   96 DAEQRRRAAECYRQIGNTDMAIETLLQVPPTL---RSPRINLMLARLQHHGSRHKEAVLAYKEVIREC--PMALQVIEAL  170 (564)
T ss_pred             cHHHHHHHHHHHHHHccchHHHHHHhcCCccc---cchhHHHHHHHHHhccccccHHHHhhhHHHHhc--chHHHHHHHH
Confidence            34444567788888888888888877665432   2222333343333332  233333333333332  1111112222


Q ss_pred             HHHHHhcCChHHHHHHHhccc--CCchhHHHHHHHHHh--cCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCCh
Q 047359           89 AQILCRSGKFEVVLGLLDSGI--YSSVMYNLVIDFYSK--KGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKT  164 (440)
Q Consensus        89 ~~~~~~~~~~~~a~~~~~~~~--~~~~~~~~li~~~~~--~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  164 (440)
                      +..-.+  -.+.+--....+.  +...+....+.++++  .++...|...+-.+.....++-|......+..++...|+.
T Consensus       171 l~l~v~--g~e~~S~~m~~~~~~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn  248 (564)
T KOG1174|consen  171 LELGVN--GNEINSLVMHAATVPDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDY  248 (564)
T ss_pred             HHHhhc--chhhhhhhhhheecCCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCc
Confidence            221111  1112211222222  333334444555443  4565566555555544234555677888999999999999


Q ss_pred             hhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHH
Q 047359          165 EVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYH  244 (440)
Q Consensus       165 ~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  244 (440)
                      ++|...|+.....+  |.. ........-.+.+.|+.+....+...+....- -+...|-.-+......++++.|+.+-+
T Consensus       249 ~~a~~~Fe~~~~~d--py~-i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~~-~ta~~wfV~~~~l~~~K~~~rAL~~~e  324 (564)
T KOG1174|consen  249 FQAEDIFSSTLCAN--PDN-VEAMDLYAVLLGQEGGCEQDSALMDYLFAKVK-YTASHWFVHAQLLYDEKKFERALNFVE  324 (564)
T ss_pred             hHHHHHHHHHhhCC--hhh-hhhHHHHHHHHHhccCHhhHHHHHHHHHhhhh-cchhhhhhhhhhhhhhhhHHHHHHHHH
Confidence            99999999987754  432 33333334456677888888777777655321 133345445555667889999999999


Q ss_pred             HHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCc
Q 047359          245 LISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLD  324 (440)
Q Consensus       245 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  324 (440)
                      +.++.+.. +...+-.-...+...+++++|.-.|+...... +.+..+|..|+.+|...|++.+|...-+...+.- ..+
T Consensus       325 K~I~~~~r-~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~~-~~s  401 (564)
T KOG1174|consen  325 KCIDSEPR-NHEALILKGRLLIALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRFKEANALANWTIRLF-QNS  401 (564)
T ss_pred             HHhccCcc-cchHHHhccHHHHhccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHHh-hcc
Confidence            98886543 44455555567888999999999999987653 4577899999999999999999988877766542 225


Q ss_pred             hhhhHHHH-HHHH-cCCcHHHHHHHHHHHHhccCCcC-HHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHH
Q 047359          325 SFCCSSLM-EYYC-SNRQIDKAIALHIKIEKLKGSLD-VATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVV  401 (440)
Q Consensus       325 ~~~~~~l~-~~~~-~~~~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~  401 (440)
                      ..+.+.+. ..+. ...--++|.++++...+.  .|+ ....+.+...+...|..+.++.++++..... .|....+.|.
T Consensus       402 A~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~--~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~-~D~~LH~~Lg  478 (564)
T KOG1174|consen  402 ARSLTLFGTLVLFPDPRMREKAKKFAEKSLKI--NPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIF-PDVNLHNHLG  478 (564)
T ss_pred             hhhhhhhcceeeccCchhHHHHHHHHHhhhcc--CCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhc-cccHHHHHHH
Confidence            55555552 3333 334468899999988874  343 4566788888999999999999999887642 3667788899


Q ss_pred             HHHHhcccHHHHHHHHHHHHHCCCCCCH
Q 047359          402 SRLCHLKELRKAMKNHDEMLKMGHKPDE  429 (440)
Q Consensus       402 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~  429 (440)
                      ..+...+.+++|.+.|...+.  +.|+.
T Consensus       479 d~~~A~Ne~Q~am~~y~~ALr--~dP~~  504 (564)
T KOG1174|consen  479 DIMRAQNEPQKAMEYYYKALR--QDPKS  504 (564)
T ss_pred             HHHHHhhhHHHHHHHHHHHHh--cCccc
Confidence            999999999999999998887  45544

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

Probab=99.35  E-value=7e-08  Score=87.21  Aligned_cols=357  Identities=13%  Similarity=0.036  Sum_probs=235.3

Q ss_pred             HHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHhccc----CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCc
Q 047359           72 AMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGI----YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPG  147 (440)
Q Consensus        72 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~  147 (440)
                      ++....+.-|...|..|.-+....|+++.+.+.|++..    .....|..+...|...|.-..|..+++.-.. ..-.|+
T Consensus       313 k~r~~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~-~~~~ps  391 (799)
T KOG4162|consen  313 KLRLKKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLK-KSEQPS  391 (799)
T ss_pred             HHHHhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcc-cccCCC
Confidence            33334456678889999999999999999999999977    5556799999999999999999999988765 221243


Q ss_pred             -hhhHHHHHHHHH-hcCChhhHHHHHHHHHhc--CCCCcccccchHHHHHHHhhc-----------CcHHHHHHHHHHHH
Q 047359          148 -FSTYSSILDGAR-RYEKTEVSDRIVGLMVEK--KLLPKHFLSGNDYVIQKLSDM-----------GKTYAAEMIFKRAC  212 (440)
Q Consensus       148 -~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~-----------~~~~~a~~~~~~~~  212 (440)
                       ...+-..-..|. +.+..++++..-.+++..  +....-....|..+.-+|...           ....++.+.+++..
T Consensus       392 ~~s~~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av  471 (799)
T KOG4162|consen  392 DISVLLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAV  471 (799)
T ss_pred             cchHHHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHH
Confidence             333333334443 447777777777666652  111110134455555554433           23456777788877


Q ss_pred             hcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHc-CCC----
Q 047359          213 DEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVER-GYI----  287 (440)
Q Consensus       213 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~----  287 (440)
                      +.++. |+...--+.--|+..++.+.|.+..++..+.+...+...|..+.-.+...+++.+|+.+.+...+. |..    
T Consensus       472 ~~d~~-dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~l~  550 (799)
T KOG4162|consen  472 QFDPT-DPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHVLM  550 (799)
T ss_pred             hcCCC-CchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhhhc
Confidence            76554 332322344457778899999999999998866678888998888899999999999998877643 110    


Q ss_pred             --------------CChhhHHHHHHHHHc-----------------------CCCHHHHHHHHHHHH--------hcC--
Q 047359          288 --------------PCAMELSRFVASQCG-----------------------KGKWKEVEELLSAVL--------DKG--  320 (440)
Q Consensus       288 --------------~~~~~~~~l~~~~~~-----------------------~~~~~~a~~~~~~~~--------~~~--  320 (440)
                                    ....|...++..+-.                       .++..++.+..+.+.        ..+  
T Consensus       551 ~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se  630 (799)
T KOG4162|consen  551 DGKIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSE  630 (799)
T ss_pred             hhhhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccc
Confidence                          001122222222110                       011111111111110        001  


Q ss_pred             -------C--CCc------hhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHH
Q 047359          321 -------L--LLD------SFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDY  385 (440)
Q Consensus       321 -------~--~~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  385 (440)
                             .  .|+      ...|......+.+.+..++|...+.+..+.. ......|......+...|+.++|.+.|..
T Consensus       631 ~~Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G~~~~~~~~~~EA~~af~~  709 (799)
T KOG4162|consen  631 LKLPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID-PLSASVYYLRGLLLEVKGQLEEAKEAFLV  709 (799)
T ss_pred             cccCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhhHHHHHHHhhHHHHHHHHH
Confidence                   0  111      1234455566778888888888888877653 23566777777888899999999999999


Q ss_pred             HHHcCCCchhhHHHHHHHHHhcccHHHHHH--HHHHHHHCCCCCCHHHHH
Q 047359          386 MKELKVVSSSSFVIVVSRLCHLKELRKAMK--NHDEMLKMGHKPDEATYK  433 (440)
Q Consensus       386 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~--~~~~m~~~~~~p~~~t~~  433 (440)
                      ....+|.++.....+...+.+.|+..-|..  ++.++++  +.|+..-+.
T Consensus       710 Al~ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr--~dp~n~eaW  757 (799)
T KOG4162|consen  710 ALALDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALR--LDPLNHEAW  757 (799)
T ss_pred             HHhcCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHh--hCCCCHHHH
Confidence            999999999999999999999998777777  8999988  566654433

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.35  E-value=1.4e-09  Score=96.90  Aligned_cols=233  Identities=15%  Similarity=0.102  Sum_probs=121.0

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHhccc-----------CCchh-HHHHHHHHHhcCChhHHHHHHHHHhcC----CC-CCC
Q 047359           84 TWSLVAQILCRSGKFEVVLGLLDSGI-----------YSSVM-YNLVIDFYSKKGDFGAAFDRLNEMCNG----RN-LTP  146 (440)
Q Consensus        84 ~~~~l~~~~~~~~~~~~a~~~~~~~~-----------~~~~~-~~~li~~~~~~~~~~~a~~~~~~~~~~----~~-~~p  146 (440)
                      +...+...|...|+++.|+.+++...           |...+ .+.+...|...+++.+|..+|+++...    .| ..|
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            33334455555555555555544433           11111 233555666667777777666666431    11 222


Q ss_pred             c-hhhHHHHHHHHHhcCChhhHHHHHHHHHhc-----CCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhc---CCC
Q 047359          147 G-FSTYSSILDGARRYEKTEVSDRIVGLMVEK-----KLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDE---KIE  217 (440)
Q Consensus       147 ~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~  217 (440)
                      . ..+++.|..+|.+.|++++|...++...+.     +..+......++.++..+...++++.|..++....+.   -+.
T Consensus       281 ~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g  360 (508)
T KOG1840|consen  281 AVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPG  360 (508)
T ss_pred             HHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhcc
Confidence            2 236666777788888888777776665431     2222222334555666666777777777766654331   111


Q ss_pred             CC----HHhHHHHHHHHhhhccHHHHHHHHHHHHHcC----C---CCChhhHHHHHHHHHhcCChHHHHHHHHHHHHc--
Q 047359          218 LQ----DDTCGCMLKALSKEGRVKEAIQIYHLISERG----I---TVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVER--  284 (440)
Q Consensus       218 ~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--  284 (440)
                      ++    ..+++.|...|...|++++|.++++......    .   .-....++.+...|.+.+++.+|..+|.+...-  
T Consensus       361 ~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~  440 (508)
T KOG1840|consen  361 EDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMK  440 (508)
T ss_pred             ccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHH
Confidence            11    2356666667777777777777766654431    1   111234555666666666666666665554321  


Q ss_pred             --C--CCCChhhHHHHHHHHHcCCCHHHHHHHHHHH
Q 047359          285 --G--YIPCAMELSRFVASQCGKGKWKEVEELLSAV  316 (440)
Q Consensus       285 --~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  316 (440)
                        |  .+....+|..|...|...|+++.|.++.+.+
T Consensus       441 ~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~  476 (508)
T KOG1840|consen  441 LCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKV  476 (508)
T ss_pred             HhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence              1  1111234445555555555555555554444

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.34  E-value=2.5e-08  Score=86.36  Aligned_cols=395  Identities=13%  Similarity=0.026  Sum_probs=242.7

Q ss_pred             HHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCC-hhhHHHHHHHHHhcCChH
Q 047359           21 CYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPN-KFTWSLVAQILCRSGKFE   99 (440)
Q Consensus        21 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~   99 (440)
                      +....|+++.|+..|-+..... ++|...|..-..++++.|++++|.+=-.+-++.  .|+ ..-|.....++.-.|+++
T Consensus        11 aa~s~~d~~~ai~~~t~ai~l~-p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l--~p~w~kgy~r~Gaa~~~lg~~~   87 (539)
T KOG0548|consen   11 AAFSSGDFETAIRLFTEAIMLS-PTNHVLYSNRSAAYASLGSYEKALKDATKTRRL--NPDWAKGYSRKGAALFGLGDYE   87 (539)
T ss_pred             hhcccccHHHHHHHHHHHHccC-CCccchhcchHHHHHHHhhHHHHHHHHHHHHhc--CCchhhHHHHhHHHHHhcccHH
Confidence            4567899999999999999876 458888999999999999999998877777664  455 457888999999999999


Q ss_pred             HHHHHHhccc----CCchhHHHHHHHHHhcCChhHH---HHHHHHHhcC--CCCCCchhhHHHHHHHHHhc-------CC
Q 047359          100 VVLGLLDSGI----YSSVMYNLVIDFYSKKGDFGAA---FDRLNEMCNG--RNLTPGFSTYSSILDGARRY-------EK  163 (440)
Q Consensus       100 ~a~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a---~~~~~~~~~~--~~~~p~~~~~~~l~~~~~~~-------~~  163 (440)
                      +|+.-|.+..    .+...++.+..++.......+.   -.++......  .........|..++...-+.       .+
T Consensus        88 eA~~ay~~GL~~d~~n~~L~~gl~~a~~~~~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~~~l~  167 (539)
T KOG0548|consen   88 EAILAYSEGLEKDPSNKQLKTGLAQAYLEDYAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLKLYLN  167 (539)
T ss_pred             HHHHHHHHHhhcCCchHHHHHhHHHhhhHHHHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhhcccc
Confidence            9999998876    3445567777666211000000   0011111000  00000111233333222111       00


Q ss_pred             hhhHHHHHHHHH--------hcC-------CCCc-----------c---------cccchHHHHHHHhhcCcHHHHHHHH
Q 047359          164 TEVSDRIVGLMV--------EKK-------LLPK-----------H---------FLSGNDYVIQKLSDMGKTYAAEMIF  208 (440)
Q Consensus       164 ~~~a~~~~~~~~--------~~~-------~~~~-----------~---------~~~~~~~l~~~~~~~~~~~~a~~~~  208 (440)
                      .+...+....+.        ..+       ..|.           .         ...-...+.+...+..+++.|.+-+
T Consensus       168 d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~~a~q~y  247 (539)
T KOG0548|consen  168 DPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFETAIQHY  247 (539)
T ss_pred             cHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHHHHHHHH
Confidence            111111111111        000       0110           0         0112234566666777788888888


Q ss_pred             HHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHH-------HHHHHHhcCChHHHHHHHHHH
Q 047359          209 KRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYA-------FVNVLCKEHQPEEVCGLLRDV  281 (440)
Q Consensus       209 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-------l~~~~~~~~~~~~a~~~~~~~  281 (440)
                      ....+..  -+..-++....+|...|.+.++...-....+.|.. ...-|+.       +..++.+.++++.+...+...
T Consensus       248 ~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g~a~~k~~~~~~ai~~~~ka  324 (539)
T KOG0548|consen  248 AKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLGNAYTKREDYEGAIKYYQKA  324 (539)
T ss_pred             HHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHHHHH
Confidence            7777665  35555666667777777777776666665555432 1222222       333455567777788877776


Q ss_pred             HHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHH
Q 047359          282 VERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVA  361 (440)
Q Consensus       282 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~  361 (440)
                      ......|+.         ..+....+++.+......-.++.. ..-...-...+.+.|++..|...|.++++..+. |..
T Consensus       325 Lte~Rt~~~---------ls~lk~~Ek~~k~~e~~a~~~pe~-A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~P~-Da~  393 (539)
T KOG0548|consen  325 LTEHRTPDL---------LSKLKEAEKALKEAERKAYINPEK-AEEEREKGNEAFKKGDYPEAVKHYTEAIKRDPE-DAR  393 (539)
T ss_pred             hhhhcCHHH---------HHHHHHHHHHHHHHHHHHhhChhH-HHHHHHHHHHHHhccCHHHHHHHHHHHHhcCCc-hhH
Confidence            654333321         112233444444444333322221 111112245677889999999999999988754 788


Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHHHHHH
Q 047359          362 TYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQ  434 (440)
Q Consensus       362 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~  434 (440)
                      .|....-+|.+.|.+..|++-.+...+.+|.....|..-..++....+|++|.+.|++.++.  .|+..-+..
T Consensus       394 lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eale~--dp~~~e~~~  464 (539)
T KOG0548|consen  394 LYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEALEL--DPSNAEAID  464 (539)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc--CchhHHHHH
Confidence            99999999999999999999999999998887788888888888889999999999998884  466554433

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.33  E-value=8.5e-09  Score=84.53  Aligned_cols=364  Identities=13%  Similarity=0.130  Sum_probs=219.6

Q ss_pred             HHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCC-------------------
Q 047359           18 VLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGV-------------------   78 (440)
Q Consensus        18 li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-------------------   78 (440)
                      +..++.+.|++++|+..+..+.+.. .++...+-.|.-...-.|.+.+|..+-....+..+                   
T Consensus        63 ia~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg~Y~eA~~~~~ka~k~pL~~RLlfhlahklndEk~~~  141 (557)
T KOG3785|consen   63 IAHCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLGQYIEAKSIAEKAPKTPLCIRLLFHLAHKLNDEKRIL  141 (557)
T ss_pred             HHHHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCcHHHHH
Confidence            6678889999999999999988755 45666666666666667788888776555432110                   


Q ss_pred             ------CCChhhHHHHHHHHHhcCChHHHHHHHhccc---CCchhHHHHH-HHHHhcCChhHHHHHHHHHhcCCCCCCch
Q 047359           79 ------SPNKFTWSLVAQILCRSGKFEVVLGLLDSGI---YSSVMYNLVI-DFYSKKGDFGAAFDRLNEMCNGRNLTPGF  148 (440)
Q Consensus        79 ------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~li-~~~~~~~~~~~a~~~~~~~~~~~~~~p~~  148 (440)
                            +....--.+|.+..--.-.+.+|++++.+..   |+-...|..+ -+|.+..-++-+.+++.-..+   ..||.
T Consensus       142 ~fh~~LqD~~EdqLSLAsvhYmR~HYQeAIdvYkrvL~dn~ey~alNVy~ALCyyKlDYydvsqevl~vYL~---q~pdS  218 (557)
T KOG3785|consen  142 TFHSSLQDTLEDQLSLASVHYMRMHYQEAIDVYKRVLQDNPEYIALNVYMALCYYKLDYYDVSQEVLKVYLR---QFPDS  218 (557)
T ss_pred             HHHHHHhhhHHHHHhHHHHHHHHHHHHHHHHHHHHHHhcChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHH---hCCCc
Confidence                  0000111222333223335667888888877   4444455443 466777888888888887765   33443


Q ss_pred             -hhHHHHHHHHHhcCChhhHHHHH--------------HHHHhcC------------CCCc---ccccchHHHHHHHhhc
Q 047359          149 -STYSSILDGARRYEKTEVSDRIV--------------GLMVEKK------------LLPK---HFLSGNDYVIQKLSDM  198 (440)
Q Consensus       149 -~~~~~l~~~~~~~~~~~~a~~~~--------------~~~~~~~------------~~~~---~~~~~~~~l~~~~~~~  198 (440)
                       ...|.......+.-+-..|..-.              +.+.+.+            +.|.   ..+.+-..++-.|.+.
T Consensus       219 tiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~~~f~~~l~rHNLVvFrngEgALqVLP~L~~~IPEARlNL~iYyL~q  298 (557)
T KOG3785|consen  219 TIAKNLKACNLFRLINGRTAEDEKKELADNIDQEYPFIEYLCRHNLVVFRNGEGALQVLPSLMKHIPEARLNLIIYYLNQ  298 (557)
T ss_pred             HHHHHHHHHHHhhhhccchhHHHHHHHHhcccccchhHHHHHHcCeEEEeCCccHHHhchHHHhhChHhhhhheeeeccc
Confidence             34443333333221111111111              1111111            0110   1122334567778899


Q ss_pred             CcHHHHHHHHHHHHhcCCCCCHHhHHHHHHH-----HhhhccHHHHHHHHHHHHHcCCCCCh-hhHHHHHHHHHhcCChH
Q 047359          199 GKTYAAEMIFKRACDEKIELQDDTCGCMLKA-----LSKEGRVKEAIQIYHLISERGITVRD-SDYYAFVNVLCKEHQPE  272 (440)
Q Consensus       199 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-----~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~  272 (440)
                      +++.+|..+.+.+...  .|-......+..+     ........-|.+.|.-.-+++..-|. .--.++.+.+.-..+++
T Consensus       299 ~dVqeA~~L~Kdl~Pt--tP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFd  376 (557)
T KOG3785|consen  299 NDVQEAISLCKDLDPT--TPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFD  376 (557)
T ss_pred             ccHHHHHHHHhhcCCC--ChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHH
Confidence            9999999888766431  2222222222221     22223355666777666555433332 22344556666667899


Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhH-HHHHHHHcCCcHHHHHHHHHHH
Q 047359          273 EVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCS-SLMEYYCSNRQIDKAIALHIKI  351 (440)
Q Consensus       273 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a~~~~~~~  351 (440)
                      +++..+..+..--...|...+ .+.++++..|++.+|+++|-.+....++ |..+|. .+.++|.+.+.++.|++++-++
T Consensus       377 dVl~YlnSi~sYF~NdD~Fn~-N~AQAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~nkkP~lAW~~~lk~  454 (557)
T KOG3785|consen  377 DVLTYLNSIESYFTNDDDFNL-NLAQAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRNKKPQLAWDMMLKT  454 (557)
T ss_pred             HHHHHHHHHHHHhcCcchhhh-HHHHHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhcCCchHHHHHHHhc
Confidence            999999988876433343333 5778899999999999999888776666 555554 5667899999999999886444


Q ss_pred             HhccCCcCHH-hHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC
Q 047359          352 EKLKGSLDVA-TYDVLLDGLFKDGRMEEAVRIFDYMKELKVV  392 (440)
Q Consensus       352 ~~~~~~p~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  392 (440)
                      ..   ..+.. ....+..-|.+++.+--|.+.|+.+...+|.
T Consensus       455 ~t---~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP~  493 (557)
T KOG3785|consen  455 NT---PSERFSLLQLIANDCYKANEFYYAAKAFDELEILDPT  493 (557)
T ss_pred             CC---chhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCCC
Confidence            32   22333 3344556788999999999999999888765

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.32  E-value=1.9e-09  Score=96.04  Aligned_cols=237  Identities=17%  Similarity=0.129  Sum_probs=175.9

Q ss_pred             ccchHHHHHHHhhcCcHHHHHHHHHHHHhc-----C-CCCCHH-hHHHHHHHHhhhccHHHHHHHHHHHHHc-----CCC
Q 047359          185 LSGNDYVIQKLSDMGKTYAAEMIFKRACDE-----K-IELQDD-TCGCMLKALSKEGRVKEAIQIYHLISER-----GIT  252 (440)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~  252 (440)
                      ..+...+...|...|+++.|+.+++...+.     | ..|... ..+.+...|...+++++|..+|+++...     |..
T Consensus       199 ~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~  278 (508)
T KOG1840|consen  199 LRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGED  278 (508)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCC
Confidence            667777899999999999999999887654     2 122322 3344677888999999999999988653     211


Q ss_pred             -C-ChhhHHHHHHHHHhcCChHHHHHHHHHHHHc-----C-CCCCh-hhHHHHHHHHHcCCCHHHHHHHHHHHHhc---C
Q 047359          253 -V-RDSDYYAFVNVLCKEHQPEEVCGLLRDVVER-----G-YIPCA-MELSRFVASQCGKGKWKEVEELLSAVLDK---G  320 (440)
Q Consensus       253 -~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~  320 (440)
                       | -..+++.|..+|.+.|++++|...++...+-     + ..|.+ ..++.+...++..+++++|..+++...+.   -
T Consensus       279 h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~  358 (508)
T KOG1840|consen  279 HPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDA  358 (508)
T ss_pred             CHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhh
Confidence             1 2356677778899999999998888876531     1 11222 23556677788889999999999877542   1


Q ss_pred             CCCc----hhhhHHHHHHHHcCCcHHHHHHHHHHHHhcc----C--Cc-CHHhHHHHHHHHHhcCcHHHHHHHHHHHH--
Q 047359          321 LLLD----SFCCSSLMEYYCSNRQIDKAIALHIKIEKLK----G--SL-DVATYDVLLDGLFKDGRMEEAVRIFDYMK--  387 (440)
Q Consensus       321 ~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~--~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~--  387 (440)
                      +.++    ..+++.+...|...|++++|.+++++++...    -  .+ ....++.|...|.+.+++++|.++|.+..  
T Consensus       359 ~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i  438 (508)
T KOG1840|consen  359 PGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDI  438 (508)
T ss_pred             ccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHH
Confidence            2222    3578899999999999999999999987542    1  11 24567888899999999999999988654  


Q ss_pred             --HcCCC---chhhHHHHHHHHHhcccHHHHHHHHHHHH
Q 047359          388 --ELKVV---SSSSFVIVVSRLCHLKELRKAMKNHDEML  421 (440)
Q Consensus       388 --~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  421 (440)
                        ..|+.   ...+|..|+..|.+.|++++|.++.+...
T Consensus       439 ~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  439 MKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence              45555   33578899999999999999999988876

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

Probab=99.32  E-value=4.4e-09  Score=81.06  Aligned_cols=199  Identities=13%  Similarity=0.037  Sum_probs=108.9

Q ss_pred             HHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 047359          189 DYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKE  268 (440)
Q Consensus       189 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  268 (440)
                      ..+.-.|...|+...|..-+++..+.++. +..+|..+...|.+.|..+.|.+-|++.....+. +..+.|.....+|..
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 LQLALGYLQQGDYAQAKKNLEKALEHDPS-YYLAHLVRAHYYQKLGENDLADESYRKALSLAPN-NGDVLNNYGAFLCAQ  116 (250)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCC-ccchhhhhhHHHHhC
Confidence            33445556666666666666666655443 4455666666666666666666666666555433 444555555556666


Q ss_pred             CChHHHHHHHHHHHHcC-CCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHH
Q 047359          269 HQPEEVCGLLRDVVERG-YIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIAL  347 (440)
Q Consensus       269 ~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  347 (440)
                      |++++|...|+.....- ...-..+|..+.-+..+.|+.+.|.+.|++..+.... .......+.......|++-.|..+
T Consensus       117 g~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~-~~~~~l~~a~~~~~~~~y~~Ar~~  195 (250)
T COG3063         117 GRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQ-FPPALLELARLHYKAGDYAPARLY  195 (250)
T ss_pred             CChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcC-CChHHHHHHHHHHhcccchHHHHH
Confidence            66666666666655431 1122334555555555556666666666665555433 334444555555555666666666


Q ss_pred             HHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCC
Q 047359          348 HIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKV  391 (440)
Q Consensus       348 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  391 (440)
                      ++.....+. ++..+.-..|..-.+.|+.+.+.+.=..+.+..|
T Consensus       196 ~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~fP  238 (250)
T COG3063         196 LERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQRLFP  238 (250)
T ss_pred             HHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC
Confidence            555555444 4555555555555555555555555444444433

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.31  E-value=4e-09  Score=89.95  Aligned_cols=227  Identities=9%  Similarity=-0.061  Sum_probs=162.2

Q ss_pred             cCcHHHHHHHHHHHHhcCC-CC--CHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHH
Q 047359          198 MGKTYAAEMIFKRACDEKI-EL--QDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEV  274 (440)
Q Consensus       198 ~~~~~~a~~~~~~~~~~~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  274 (440)
                      .+..+.++.-+.++..... .|  ....|..+...+...|+.++|...|++..+..+. +...|+.+...+...|++++|
T Consensus        39 ~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~~~~~g~~~~A  117 (296)
T PRK11189         39 TLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPD-MADAYNYLGIYLTQAGNFDAA  117 (296)
T ss_pred             chHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHCCCHHHH
Confidence            3466777777777775422 22  2456778888899999999999999999987654 678899999999999999999


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhc
Q 047359          275 CGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKL  354 (440)
Q Consensus       275 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  354 (440)
                      ...++...+.. +.+...+..+...+...|++++|.+.++...+..+.  ..........+...++.++|...+.+....
T Consensus       118 ~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~P~--~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~  194 (296)
T PRK11189        118 YEAFDSVLELD-PTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDDPN--DPYRALWLYLAESKLDPKQAKENLKQRYEK  194 (296)
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC--CHHHHHHHHHHHccCCHHHHHHHHHHHHhh
Confidence            99999999864 334567788888888999999999999999886543  222222223345678899999999776543


Q ss_pred             cCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHH-------HcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCC
Q 047359          355 KGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMK-------ELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKP  427 (440)
Q Consensus       355 ~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p  427 (440)
                       ..|+...+ .+  .....|+...+ +.++.+.       +.++....+|..+...+.+.|++++|+..|++..+.+ .|
T Consensus       195 -~~~~~~~~-~~--~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~-~~  268 (296)
T PRK11189        195 -LDKEQWGW-NI--VEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN-VY  268 (296)
T ss_pred             -CCccccHH-HH--HHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-Cc
Confidence             23332222 22  23335555443 2444443       2223345689999999999999999999999999843 34


Q ss_pred             CHHHHHH
Q 047359          428 DEATYKQ  434 (440)
Q Consensus       428 ~~~t~~~  434 (440)
                      |.+-+..
T Consensus       269 ~~~e~~~  275 (296)
T PRK11189        269 NFVEHRY  275 (296)
T ss_pred             hHHHHHH
Confidence            6555544

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

Probab=99.27  E-value=1.7e-08  Score=77.87  Aligned_cols=209  Identities=12%  Similarity=0.027  Sum_probs=172.9

Q ss_pred             hHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 047359          222 TCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQC  301 (440)
Q Consensus       222 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  301 (440)
                      +..-+.-.|...|+...|..-+++..+.++. +..++..+...|.+.|..+.|.+-|+...+.. +-+..+.|....-+|
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~DPs-~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC  114 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHDPS-YYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHH
Confidence            4455677899999999999999999998754 67889999999999999999999999998864 446677888888899


Q ss_pred             cCCCHHHHHHHHHHHHhcCCC-CchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHH
Q 047359          302 GKGKWKEVEELLSAVLDKGLL-LDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAV  380 (440)
Q Consensus       302 ~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~  380 (440)
                      ..|++++|...|+.......- -...+|..+.-+..+.|+.+.|.+.|++..+.... ...+...+.....+.|++..|.
T Consensus       115 ~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~-~~~~~l~~a~~~~~~~~y~~Ar  193 (250)
T COG3063         115 AQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQ-FPPALLELARLHYKAGDYAPAR  193 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcC-CChHHHHHHHHHHhcccchHHH
Confidence            999999999999999875222 23457888888888999999999999999987554 5567778889999999999999


Q ss_pred             HHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 047359          381 RIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQV  435 (440)
Q Consensus       381 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~l  435 (440)
                      ..++.....+..+.......|+.-.+.|+-+.+-+.=..+..  .-|...-+-..
T Consensus       194 ~~~~~~~~~~~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r--~fP~s~e~q~f  246 (250)
T COG3063         194 LYLERYQQRGGAQAESLLLGIRIAKRLGDRAAAQRYQAQLQR--LFPYSEEYQTF  246 (250)
T ss_pred             HHHHHHHhcccccHHHHHHHHHHHHHhccHHHHHHHHHHHHH--hCCCcHHHHhH
Confidence            999999988888888888888888899998888776666665  45666655444

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=99.24  E-value=1.6e-07  Score=83.29  Aligned_cols=197  Identities=8%  Similarity=-0.080  Sum_probs=90.0

Q ss_pred             HHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CCCh--hhHHHHHHHHH
Q 047359          225 CMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGY-IPCA--MELSRFVASQC  301 (440)
Q Consensus       225 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~--~~~~~l~~~~~  301 (440)
                      .+...+...|++++|...+++..+..+. +...+..+...+...|++++|...++....... .|+.  ..|..+...+.
T Consensus       119 ~~a~~~~~~G~~~~A~~~~~~al~~~p~-~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~  197 (355)
T cd05804         119 MLAFGLEEAGQYDRAEEAARRALELNPD-DAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYL  197 (355)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhCCC-CcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHH
Confidence            3444555566666666666666554422 344455555566666666666666666554321 1111  12334555556


Q ss_pred             cCCCHHHHHHHHHHHHhcCCC-Cchhhh-H--HHHHHHHcCCcHHHHHHH--HHHHHhccCC--cCHHhHHHHHHHHHhc
Q 047359          302 GKGKWKEVEELLSAVLDKGLL-LDSFCC-S--SLMEYYCSNRQIDKAIAL--HIKIEKLKGS--LDVATYDVLLDGLFKD  373 (440)
Q Consensus       302 ~~~~~~~a~~~~~~~~~~~~~-~~~~~~-~--~l~~~~~~~~~~~~a~~~--~~~~~~~~~~--p~~~~~~~l~~~~~~~  373 (440)
                      ..|++++|..++++....... +..... +  .++.-+...|....+.+.  +.........  ...........++...
T Consensus       198 ~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  277 (355)
T cd05804         198 ERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGA  277 (355)
T ss_pred             HCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcC
Confidence            666666666666665432211 111100 1  112222233322222221  1111000000  0111112345556666


Q ss_pred             CcHHHHHHHHHHHHHcC-------CC--chhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          374 GRMEEAVRIFDYMKELK-------VV--SSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       374 g~~~~a~~~~~~~~~~~-------~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      |+.+.|..+++.+....       ..  ..........++...|++++|.+.+.+.+.
T Consensus       278 ~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~  335 (355)
T cd05804         278 GDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRD  335 (355)
T ss_pred             CCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            77777777776664321       11  122222333344567777777777776654

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.

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=99.22  E-value=5.8e-10  Score=93.55  Aligned_cols=251  Identities=13%  Similarity=0.050  Sum_probs=102.5

Q ss_pred             HHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcH
Q 047359          122 YSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKT  201 (440)
Q Consensus       122 ~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  201 (440)
                      +.-.|++..++.-.+ ... ..-..+......+.+++...|+++.+.   .++.+.. .|.  ......+...+...++-
T Consensus        11 ~fy~G~Y~~~i~e~~-~~~-~~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~--l~av~~la~y~~~~~~~   82 (290)
T PF04733_consen   11 QFYLGNYQQCINEAS-LKS-FSPENKLERDFYQYRSYIALGQYDSVL---SEIKKSS-SPE--LQAVRLLAEYLSSPSDK   82 (290)
T ss_dssp             HHCTT-HHHHCHHHH-CHT-STCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TTS-SCC--CHHHHHHHHHHCTSTTH
T ss_pred             HHHhhhHHHHHHHhh-ccC-CCchhHHHHHHHHHHHHHHcCChhHHH---HHhccCC-Chh--HHHHHHHHHHHhCccch
Confidence            344566666665444 222 111112334445556666666655332   2222222 333  33333333333332333


Q ss_pred             HHHHHHHHHHHhcCCC-CCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHH
Q 047359          202 YAAEMIFKRACDEKIE-LQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRD  280 (440)
Q Consensus       202 ~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  280 (440)
                      +.+..-++........ .+..........+...|++++|++++...      .+.......+..+.+.++++.|.+.++.
T Consensus        83 e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~  156 (290)
T PF04733_consen   83 ESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKN  156 (290)
T ss_dssp             HCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            3333333332222211 12222222223344456666665555431      2334444455555555555555555555


Q ss_pred             HHHcCCCCChhhHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccC
Q 047359          281 VVERGYIPCAMELSRFVASQCG----KGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKG  356 (440)
Q Consensus       281 ~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  356 (440)
                      |.+.+  .| .+...+..++..    .+.+.+|..+|+++.+. ..+++.+.+.+..++...|++++|.+++.+....+.
T Consensus       157 ~~~~~--eD-~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~  232 (290)
T PF04733_consen  157 MQQID--ED-SILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDP  232 (290)
T ss_dssp             HHCCS--CC-HHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-C
T ss_pred             HHhcC--Cc-HHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhcc
Confidence            55432  12 222223222222    22345555555554433 233444455555555555555555555555444332


Q ss_pred             CcCHHhHHHHHHHHHhcCcH-HHHHHHHHHHHHcCC
Q 047359          357 SLDVATYDVLLDGLFKDGRM-EEAVRIFDYMKELKV  391 (440)
Q Consensus       357 ~p~~~~~~~l~~~~~~~g~~-~~a~~~~~~~~~~~~  391 (440)
                      . ++.+...++.+....|+. +.+.+.+.++....|
T Consensus       233 ~-~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~~p  267 (290)
T PF04733_consen  233 N-DPDTLANLIVCSLHLGKPTEAAERYLSQLKQSNP  267 (290)
T ss_dssp             C-HHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHHTT
T ss_pred             C-CHHHHHHHHHHHHHhCCChhHHHHHHHHHHHhCC
Confidence            2 333444444444444444 444445555544433

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.

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=99.19  E-value=3.9e-07  Score=74.74  Aligned_cols=263  Identities=16%  Similarity=0.105  Sum_probs=128.2

Q ss_pred             HHHhcCChhHHHHHHHHHhcCCCCCCchhhH-HHHHHHHHhcCChhhHHHHHHHHHhcCCCCccc------------ccc
Q 047359          121 FYSKKGDFGAAFDRLNEMCNGRNLTPGFSTY-SSILDGARRYEKTEVSDRIVGLMVEKKLLPKHF------------LSG  187 (440)
Q Consensus       121 ~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------------~~~  187 (440)
                      .|...|+...|+.-+.+..+   ++||-..- ..-...+.+.|.++.|..=|+.+++........            ...
T Consensus        81 ~yLAmGksk~al~Dl~rVle---lKpDF~~ARiQRg~vllK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~  157 (504)
T KOG0624|consen   81 VYLAMGKSKAALQDLSRVLE---LKPDFMAARIQRGVVLLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWV  157 (504)
T ss_pred             HHhhhcCCccchhhHHHHHh---cCccHHHHHHHhchhhhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHH
Confidence            44555555555555555544   55553311 111223455666666666666655543111100            001


Q ss_pred             hHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 047359          188 NDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCK  267 (440)
Q Consensus       188 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  267 (440)
                      ....+..+...|+...|+.....+.+..+- |...+..-..+|...|++..|+.=++...+..-. +..++--+-..+..
T Consensus       158 l~~ql~s~~~~GD~~~ai~~i~~llEi~~W-da~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~D-nTe~~ykis~L~Y~  235 (504)
T KOG0624|consen  158 LVQQLKSASGSGDCQNAIEMITHLLEIQPW-DASLRQARAKCYIAEGEPKKAIHDLKQASKLSQD-NTEGHYKISQLLYT  235 (504)
T ss_pred             HHHHHHHHhcCCchhhHHHHHHHHHhcCcc-hhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcccc-chHHHHHHHHHHHh
Confidence            111233444556666666666666665433 5556666666666667766666655555443322 33444445555666


Q ss_pred             cCChHHHHHHHHHHHHcCCCCChhhHHHH-------------HHHHHcCCCHHHHHHHHHHHHhcCCCCchh---hhHHH
Q 047359          268 EHQPEEVCGLLRDVVERGYIPCAMELSRF-------------VASQCGKGKWKEVEELLSAVLDKGLLLDSF---CCSSL  331 (440)
Q Consensus       268 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~l  331 (440)
                      .|+.+.++...++..+.+  ||...+-..             +......++|.++.+-.+...+..+.....   .+..+
T Consensus       236 vgd~~~sL~~iRECLKld--pdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~  313 (504)
T KOG0624|consen  236 VGDAENSLKEIRECLKLD--PDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVL  313 (504)
T ss_pred             hhhHHHHHHHHHHHHccC--cchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeehee
Confidence            666666666666666542  443322111             111222344444444444444433221111   12223


Q ss_pred             HHHHHcCCcHHHHHHHHHHHHhccCCc-CHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC
Q 047359          332 MEYYCSNRQIDKAIALHIKIEKLKGSL-DVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV  392 (440)
Q Consensus       332 ~~~~~~~~~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  392 (440)
                      -.++...+++.+|++...++.+.  .| |..++.--..+|.-...++.|+.-|+.+.+.+..
T Consensus       314 c~C~~~d~~~~eAiqqC~evL~~--d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n~s  373 (504)
T KOG0624|consen  314 CTCYREDEQFGEAIQQCKEVLDI--DPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELNES  373 (504)
T ss_pred             eecccccCCHHHHHHHHHHHHhc--CchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcc
Confidence            33444555555555555555542  22 2445555555555555555555555555555444

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=99.16  E-value=1.1e-06  Score=72.24  Aligned_cols=298  Identities=15%  Similarity=0.059  Sum_probs=202.5

Q ss_pred             ChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCC-hhhHHHHHHHHHhcCChHHHHHHHhccc---CCchh-HHHHHH
Q 047359           46 AVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPN-KFTWSLVAQILCRSGKFEVVLGLLDSGI---YSSVM-YNLVID  120 (440)
Q Consensus        46 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~-~~~li~  120 (440)
                      ++.-.--+...+...|++..|+.-|...++.  .|+ -.++-.-...|...|+..-|+.=+.+..   ||-.. --.-..
T Consensus        37 dvekhlElGk~lla~~Q~sDALt~yHaAve~--dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlelKpDF~~ARiQRg~  114 (504)
T KOG0624|consen   37 DVEKHLELGKELLARGQLSDALTHYHAAVEG--DPNNYQAIFRRATVYLAMGKSKAALQDLSRVLELKPDFMAARIQRGV  114 (504)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHcC--CchhHHHHHHHHHHHhhhcCCccchhhHHHHHhcCccHHHHHHHhch
Confidence            3444445566677778888888888877764  233 2233334456777777777776666655   44322 222335


Q ss_pred             HHHhcCChhHHHHHHHHHhcCCCCCCch----hh------------HHHHHHHHHhcCChhhHHHHHHHHHhcCCCCccc
Q 047359          121 FYSKKGDFGAAFDRLNEMCNGRNLTPGF----ST------------YSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHF  184 (440)
Q Consensus       121 ~~~~~~~~~~a~~~~~~~~~~~~~~p~~----~~------------~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  184 (440)
                      .+.+.|.+++|..-|+.+.+   ..|+.    ..            ....+..+.-.|+...|+.....+++..  |.. 
T Consensus       115 vllK~Gele~A~~DF~~vl~---~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~--~Wd-  188 (504)
T KOG0624|consen  115 VLLKQGELEQAEADFDQVLQ---HEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ--PWD-  188 (504)
T ss_pred             hhhhcccHHHHHHHHHHHHh---cCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC--cch-
Confidence            66788888888888888876   22211    11            1222334556788999999998888754  432 


Q ss_pred             ccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhh----HHH
Q 047359          185 LSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSD----YYA  260 (440)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----~~~  260 (440)
                      ...+..-..+|...|++..|+.-++...+..-. +..++..+-..+...|+.+.++...++..+.+  ||...    |..
T Consensus       189 a~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~D-nTe~~ykis~L~Y~vgd~~~sL~~iRECLKld--pdHK~Cf~~YKk  265 (504)
T KOG0624|consen  189 ASLRQARAKCYIAEGEPKKAIHDLKQASKLSQD-NTEGHYKISQLLYTVGDAENSLKEIRECLKLD--PDHKLCFPFYKK  265 (504)
T ss_pred             hHHHHHHHHHHHhcCcHHHHHHHHHHHHhcccc-chHHHHHHHHHHHhhhhHHHHHHHHHHHHccC--cchhhHHHHHHH
Confidence            677777889999999999999888887765544 55566667788888999999999988888764  33321    211


Q ss_pred             H---------HHHHHhcCChHHHHHHHHHHHHcCCCCChh---hHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhh
Q 047359          261 F---------VNVLCKEHQPEEVCGLLRDVVERGYIPCAM---ELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCC  328 (440)
Q Consensus       261 l---------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  328 (440)
                      +         +......+++.++.+-.+...+........   .+..+-.++...+++.+|++.-.++++.... |..++
T Consensus       266 lkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d~~-dv~~l  344 (504)
T KOG0624|consen  266 LKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDIDPD-DVQVL  344 (504)
T ss_pred             HHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcCch-HHHHH
Confidence            1         122345677888888888887764332222   3344555666779999999999999886433 57888


Q ss_pred             HHHHHHHHcCCcHHHHHHHHHHHHhcc
Q 047359          329 SSLMEYYCSNRQIDKAIALHIKIEKLK  355 (440)
Q Consensus       329 ~~l~~~~~~~~~~~~a~~~~~~~~~~~  355 (440)
                      ..-..+|.-...++.|+.-|+...+.+
T Consensus       345 ~dRAeA~l~dE~YD~AI~dye~A~e~n  371 (504)
T KOG0624|consen  345 CDRAEAYLGDEMYDDAIHDYEKALELN  371 (504)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHHhcC
Confidence            888889999999999999999998854

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.16  E-value=3.9e-07  Score=73.24  Aligned_cols=397  Identities=10%  Similarity=0.043  Sum_probs=242.3

Q ss_pred             CCCCChHhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHH
Q 047359            7 GRDSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWS   86 (440)
Q Consensus         7 g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   86 (440)
                      |+..-..-+.+++..+.+..++++|++++..-.++. +.+......+..+|....++..|-..++++-..  .|...-|.
T Consensus         5 g~~i~EGeftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYr   81 (459)
T KOG4340|consen    5 GAQIPEGEFTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYR   81 (459)
T ss_pred             cccCCCCchHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHH
Confidence            444444456778888889999999999999888875 337777888888899999999999999999775  45554443


Q ss_pred             H-HHHHHHhcCChHHHHHHHhcccCCchhHHHHH----HHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhc
Q 047359           87 L-VAQILCRSGKFEVVLGLLDSGIYSSVMYNLVI----DFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRY  161 (440)
Q Consensus        87 ~-l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~li----~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  161 (440)
                      . -.+.+-+.+.+..|+.+...|..+....+..+    ......+++..+..++++... .   .+..+.+...-...+.
T Consensus        82 lY~AQSLY~A~i~ADALrV~~~~~D~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~-e---n~Ad~~in~gCllyke  157 (459)
T KOG4340|consen   82 LYQAQSLYKACIYADALRVAFLLLDNPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPS-E---NEADGQINLGCLLYKE  157 (459)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHhcCCHHHHHHHHHHHHHHhcccccCcchHHHHHhccC-C---Cccchhccchheeecc
Confidence            2 34566678889999999888874333332222    223456888888888888743 1   2333444444455688


Q ss_pred             CChhhHHHHHHHHHhc-CCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCC-------------CCHH------
Q 047359          162 EKTEVSDRIVGLMVEK-KLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIE-------------LQDD------  221 (440)
Q Consensus       162 ~~~~~a~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-------------~~~~------  221 (440)
                      |+++.|.+-|+...+. |..|   ...|+ +.-++.+.|+.+.|.+...++.++|++             ||+.      
T Consensus       158 gqyEaAvqkFqaAlqvsGyqp---llAYn-iALaHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~  233 (459)
T KOG4340|consen  158 GQYEAAVQKFQAALQVSGYQP---LLAYN-LALAHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTL  233 (459)
T ss_pred             ccHHHHHHHHHHHHhhcCCCc---hhHHH-HHHHHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchH
Confidence            9999999999988875 4444   55665 445566788999999999998887643             1211      


Q ss_pred             ---------hHHHHHHHHhhhccHHHHHHHHHHHHHc-CCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChh
Q 047359          222 ---------TCGCMLKALSKEGRVKEAIQIYHLISER-GITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAM  291 (440)
Q Consensus       222 ---------~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  291 (440)
                               .+|.-...+.+.|+++.|.+.+.+|..+ ....|+.|...+.-.= ..+++.+...-+.-+.+.+. -...
T Consensus       234 ~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~nP-fP~E  311 (459)
T KOG4340|consen  234 VLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQNP-FPPE  311 (459)
T ss_pred             HHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcCC-CChH
Confidence                     1222223345678888888888888644 2334556655443222 23556666666666666543 3456


Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHHHhcCCC-CchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHH
Q 047359          292 ELSRFVASQCGKGKWKEVEELLSAVLDKGLL-LDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGL  370 (440)
Q Consensus       292 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  370 (440)
                      ||..++-.||++.-++.|-.++.+-...... .+...|+.+=..-...-..++|.+-++.+.+.-   ....-..-+..-
T Consensus       312 TFANlLllyCKNeyf~lAADvLAEn~~lTyk~L~~Yly~LLdaLIt~qT~pEea~KKL~~La~~l---~~kLRklAi~vQ  388 (459)
T KOG4340|consen  312 TFANLLLLYCKNEYFDLAADVLAENAHLTYKFLTPYLYDLLDALITCQTAPEEAFKKLDGLAGML---TEKLRKLAIQVQ  388 (459)
T ss_pred             HHHHHHHHHhhhHHHhHHHHHHhhCcchhHHHhhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHH---HHHHHHHHHHHH
Confidence            8888888999998888888887643322111 123333333222233445666666555444320   000001111110


Q ss_pred             -HhcCcHH----HHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          371 -FKDGRME----EAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       371 -~~~g~~~----~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                       .+..+-+    .|++-+++..+.   -..+...-.+.|.+..++..+.++|..-.+
T Consensus       389 e~r~~~dd~a~R~ai~~Yd~~LE~---YLPVlMa~AkiyW~~~Dy~~vEk~Fr~Sve  442 (459)
T KOG4340|consen  389 EARHNRDDEAIRKAVNEYDETLEK---YLPVLMAQAKIYWNLEDYPMVEKIFRKSVE  442 (459)
T ss_pred             HHHhcccHHHHHHHHHHHHHHHHH---HHHHHHHHHHhhccccccHHHHHHHHHHHh
Confidence             1111111    122222322222   122333344556778899999999988766

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=99.16  E-value=7.9e-09  Score=86.78  Aligned_cols=81  Identities=12%  Similarity=0.068  Sum_probs=34.8

Q ss_pred             HHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccH-HHHHHHHHH
Q 047359          341 IDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKEL-RKAMKNHDE  419 (440)
Q Consensus       341 ~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~a~~~~~~  419 (440)
                      +.+|..+|+++.+. ..+++.+.+.+..++...|++++|.+++.+..+.++.++.+...++.+....|+. +.+.+.+.+
T Consensus       183 ~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~q  261 (290)
T PF04733_consen  183 YQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKPTEAAERYLSQ  261 (290)
T ss_dssp             CCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCChhHHHHHHHH
Confidence            44455555554332 2334444444444444555555555555444444444444444444444444444 333344444


Q ss_pred             HHH
Q 047359          420 MLK  422 (440)
Q Consensus       420 m~~  422 (440)
                      +..
T Consensus       262 L~~  264 (290)
T PF04733_consen  262 LKQ  264 (290)
T ss_dssp             CHH
T ss_pred             HHH
Confidence            443

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=99.14  E-value=7.6e-07  Score=79.01  Aligned_cols=197  Identities=9%  Similarity=-0.095  Sum_probs=100.8

Q ss_pred             hHhHHHHHHHHHccCCcchHHHHHHHHHhcCC-ccChH-hHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHH--
Q 047359           12 SDALSLVLDCYSHKGLFMDGLEVYRMMRVYGF-VPAVS-ACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSL--   87 (440)
Q Consensus        12 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--   87 (440)
                      ...|..+...+...|+.+.+.+.+....+... .++.. ........+...|++++|.+.+++..+.. +.+...+..  
T Consensus         6 ~~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~~~   84 (355)
T cd05804           6 ALGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLALKLHL   84 (355)
T ss_pred             HHHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHhH
Confidence            34555566666677888887777777665432 11211 12222334566788999999998887753 223333332  


Q ss_pred             -HHHHHHhcCChHHHHHHHhccc---CCc-hhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCc-hhhHHHHHHHHHhc
Q 047359           88 -VAQILCRSGKFEVVLGLLDSGI---YSS-VMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPG-FSTYSSILDGARRY  161 (440)
Q Consensus        88 -l~~~~~~~~~~~~a~~~~~~~~---~~~-~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~  161 (440)
                       ........+..+.+.+.++...   |+. .....+...+...|++++|...+++..+   ..|+ ...+..+..++...
T Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~---~~p~~~~~~~~la~i~~~~  161 (355)
T cd05804          85 GAFGLGDFSGMRDHVARVLPLWAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALE---LNPDDAWAVHAVAHVLEMQ  161 (355)
T ss_pred             HHHHhcccccCchhHHHHHhccCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh---hCCCCcHHHHHHHHHHHHc
Confidence             1111122344444444444322   211 2223344455666666666666666654   2333 33445555566666


Q ss_pred             CChhhHHHHHHHHHhcCCC-CcccccchHHHHHHHhhcCcHHHHHHHHHHHH
Q 047359          162 EKTEVSDRIVGLMVEKKLL-PKHFLSGNDYVIQKLSDMGKTYAAEMIFKRAC  212 (440)
Q Consensus       162 ~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  212 (440)
                      |++++|...+++....... |......|..+...+...|++++|..++++..
T Consensus       162 g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~  213 (355)
T cd05804         162 GRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHI  213 (355)
T ss_pred             CCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHh
Confidence            6666666666665543211 11001123345555555566666666665553

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.

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.13  E-value=1.4e-06  Score=87.58  Aligned_cols=333  Identities=11%  Similarity=0.007  Sum_probs=210.7

Q ss_pred             HHHhcCChHHHHHHHhccc-----CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCC-----CCchh--hHHHHHHHH
Q 047359           91 ILCRSGKFEVVLGLLDSGI-----YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNL-----TPGFS--TYSSILDGA  158 (440)
Q Consensus        91 ~~~~~~~~~~a~~~~~~~~-----~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-----~p~~~--~~~~l~~~~  158 (440)
                      .....|+.+.+...++.+.     .+..........+...|++++|...+........-     .+...  ....+...+
T Consensus       383 ~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~  462 (903)
T PRK04841        383 SLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVA  462 (903)
T ss_pred             HHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHH
Confidence            3445677787777777764     22333344455567789999999988877541111     11111  122233455


Q ss_pred             HhcCChhhHHHHHHHHHhcCCCCcc--cccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCC-----CCHHhHHHHHHHHh
Q 047359          159 RRYEKTEVSDRIVGLMVEKKLLPKH--FLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIE-----LQDDTCGCMLKALS  231 (440)
Q Consensus       159 ~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~~  231 (440)
                      ...|+++.|...++.........+.  .......+...+...|+++.|...+.+.......     .....+..+...+.
T Consensus       463 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~  542 (903)
T PRK04841        463 INDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILF  542 (903)
T ss_pred             HhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHH
Confidence            6789999999999988763211110  0123455667778899999999999887643111     11234455667788


Q ss_pred             hhccHHHHHHHHHHHHHc----CCC--C-ChhhHHHHHHHHHhcCChHHHHHHHHHHHHcC--CCC--ChhhHHHHHHHH
Q 047359          232 KEGRVKEAIQIYHLISER----GIT--V-RDSDYYAFVNVLCKEHQPEEVCGLLRDVVERG--YIP--CAMELSRFVASQ  300 (440)
Q Consensus       232 ~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~--~~~~~~~l~~~~  300 (440)
                      ..|+++.|...+++....    +..  + ....+..+...+...|++++|...+.......  ..+  ....+..+...+
T Consensus       543 ~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~  622 (903)
T PRK04841        543 AQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKIS  622 (903)
T ss_pred             HCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHH
Confidence            899999999998876543    211  1 12334455566777899999999988875431  112  223444456677


Q ss_pred             HcCCCHHHHHHHHHHHHhcCCCCc-hhhh-----HHHHHHHHcCCcHHHHHHHHHHHHhccCCcC---HHhHHHHHHHHH
Q 047359          301 CGKGKWKEVEELLSAVLDKGLLLD-SFCC-----SSLMEYYCSNRQIDKAIALHIKIEKLKGSLD---VATYDVLLDGLF  371 (440)
Q Consensus       301 ~~~~~~~~a~~~~~~~~~~~~~~~-~~~~-----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~---~~~~~~l~~~~~  371 (440)
                      ...|+++.|...+........... ...+     ...+..+...|+.+.|.+.+...........   ...+..+..++.
T Consensus       623 ~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~  702 (903)
T PRK04841        623 LARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQI  702 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHH
Confidence            788999999999988754311111 1111     1122445568899999998777654221111   112345677788


Q ss_pred             hcCcHHHHHHHHHHHHHc----CCC--chhhHHHHHHHHHhcccHHHHHHHHHHHHHC
Q 047359          372 KDGRMEEAVRIFDYMKEL----KVV--SSSSFVIVVSRLCHLKELRKAMKNHDEMLKM  423 (440)
Q Consensus       372 ~~g~~~~a~~~~~~~~~~----~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  423 (440)
                      ..|+.++|...++++...    +..  ...+...+..++.+.|+.++|...+.+..+.
T Consensus       703 ~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~l  760 (903)
T PRK04841        703 LLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKL  760 (903)
T ss_pred             HcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            999999999999987653    222  3346667788888999999999999998874

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.11  E-value=1e-07  Score=76.46  Aligned_cols=195  Identities=17%  Similarity=0.072  Sum_probs=124.2

Q ss_pred             hHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHhccc---CCchhHHH-HHHHH
Q 047359           47 VSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGI---YSSVMYNL-VIDFY  122 (440)
Q Consensus        47 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~-li~~~  122 (440)
                      ..-+.+.+..+.+..+++.|++++..-.+.. +.+......|..+|-+..++..|-..++++.   |...-|.. -...+
T Consensus        10 EGeftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrlY~AQSL   88 (459)
T KOG4340|consen   10 EGEFTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRLYQAQSL   88 (459)
T ss_pred             CCchHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHH
Confidence            3346677777788888888888888776653 2255566777777888888888888888776   55444433 24556


Q ss_pred             HhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHH--HHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCc
Q 047359          123 SKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDG--ARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGK  200 (440)
Q Consensus       123 ~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  200 (440)
                      .+.+.+..|+++...|..    .|+...-..-+.+  ....+++..+..++++....|   +  ..+.+...-...+.|+
T Consensus        89 Y~A~i~ADALrV~~~~~D----~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~--Ad~~in~gCllykegq  159 (459)
T KOG4340|consen   89 YKACIYADALRVAFLLLD----NPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---E--ADGQINLGCLLYKEGQ  159 (459)
T ss_pred             HHhcccHHHHHHHHHhcC----CHHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---c--cchhccchheeecccc
Confidence            677888888888887754    1222222222222  234567777777776654322   1  3444445555667788


Q ss_pred             HHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCC
Q 047359          201 TYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGIT  252 (440)
Q Consensus       201 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  252 (440)
                      ++.|.+-|+...+-+--.....|+..+ +..+.|+++.|++...++.++|++
T Consensus       160 yEaAvqkFqaAlqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIieRG~r  210 (459)
T KOG4340|consen  160 YEAAVQKFQAALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIERGIR  210 (459)
T ss_pred             HHHHHHHHHHHHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhh
Confidence            888888887776643332344565443 455667888888888888877765

>PLN02789 farnesyltranstransferase

Probab=99.07  E-value=3.3e-07  Score=78.16  Aligned_cols=226  Identities=10%  Similarity=-0.014  Sum_probs=111.9

Q ss_pred             cHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhc-cHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCh--HHHHH
Q 047359          200 KTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEG-RVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQP--EEVCG  276 (440)
Q Consensus       200 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--~~a~~  276 (440)
                      ..++|+....++.+.++. +..+|+..-.++...| ++++++..++++.+.+.+ +..+|+.....+.+.|+.  +++..
T Consensus        52 ~serAL~lt~~aI~lnP~-~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l~~l~~~~~~~el~  129 (320)
T PLN02789         52 RSPRALDLTADVIRLNPG-NYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWLAEKLGPDAANKELE  129 (320)
T ss_pred             CCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHHHHHcCchhhHHHHH
Confidence            344444444444443332 2333333333333334 345555555555554433 333344333333333332  34455


Q ss_pred             HHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcC---Cc----HHHHHHHHH
Q 047359          277 LLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSN---RQ----IDKAIALHI  349 (440)
Q Consensus       277 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~----~~~a~~~~~  349 (440)
                      +++.+.+.+ +-+..+|+.....+...|+++++++.++++.+.++. |...|+.....+.+.   |.    .++.++...
T Consensus       130 ~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~  207 (320)
T PLN02789        130 FTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGGLEAMRDSELKYTI  207 (320)
T ss_pred             HHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhccccccccccHHHHHHHHH
Confidence            555555443 234445555555555555566666666666555444 444444444333332   11    234555555


Q ss_pred             HHHhccCCcCHHhHHHHHHHHHhc----CcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcc-----------------
Q 047359          350 KIEKLKGSLDVATYDVLLDGLFKD----GRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLK-----------------  408 (440)
Q Consensus       350 ~~~~~~~~p~~~~~~~l~~~~~~~----g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-----------------  408 (440)
                      +++...+. |...|+.+...+...    ++..+|.+++.+..+.++.+..+...|+..|....                 
T Consensus       208 ~aI~~~P~-N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~~~~~~~~~~~~~~  286 (320)
T PLN02789        208 DAILANPR-NESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSNHVFALSDLLDLLCEGLQPTAEFRDTVDTLAEEL  286 (320)
T ss_pred             HHHHhCCC-CcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCCcHHHHHHHHHHHHhhhccchhhhhhhhcccccc
Confidence            55554433 555666666655552    33455666666666655556666666766666422                 


Q ss_pred             -cHHHHHHHHHHHHHCCCCCCHHHH
Q 047359          409 -ELRKAMKNHDEMLKMGHKPDEATY  432 (440)
Q Consensus       409 -~~~~a~~~~~~m~~~~~~p~~~t~  432 (440)
                       ..++|.++++.+.+  ..|=..-|
T Consensus       287 ~~~~~a~~~~~~l~~--~d~ir~~y  309 (320)
T PLN02789        287 SDSTLAQAVCSELEV--ADPMRRNY  309 (320)
T ss_pred             ccHHHHHHHHHHHHh--hCcHHHHH
Confidence             34678888888732  44543333

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=99.05  E-value=8.3e-06  Score=71.27  Aligned_cols=406  Identities=12%  Similarity=0.077  Sum_probs=242.8

Q ss_pred             CCCChHhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHH
Q 047359            8 RDSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSL   87 (440)
Q Consensus         8 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   87 (440)
                      -+-|..+|+.||+-+..+ .++++.+.++++...- +-....|..-|..-.+.++++..+++|.+.+..-  .+...|..
T Consensus        16 nP~di~sw~~lire~qt~-~~~~~R~~YEq~~~~F-P~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkv--LnlDLW~l   91 (656)
T KOG1914|consen   16 NPYDIDSWSQLIREAQTQ-PIDKVRETYEQLVNVF-PSSPRAWKLYIERELASKDFESVEKLFSRCLVKV--LNLDLWKL   91 (656)
T ss_pred             CCccHHHHHHHHHHHccC-CHHHHHHHHHHHhccC-CCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH--hhHhHHHH
Confidence            356889999999988666 8999999999998753 4567889999999999999999999999987753  45666766


Q ss_pred             HHHHHHhc-CChHHH----HHHHhccc-------CCchhHHHHHHH---------HHhcCChhHHHHHHHHHhcCCCCCC
Q 047359           88 VAQILCRS-GKFEVV----LGLLDSGI-------YSSVMYNLVIDF---------YSKKGDFGAAFDRLNEMCNGRNLTP  146 (440)
Q Consensus        88 l~~~~~~~-~~~~~a----~~~~~~~~-------~~~~~~~~li~~---------~~~~~~~~~a~~~~~~~~~~~~~~p  146 (440)
                      -+.--.+. |+...+    .+.|+-..       .+...|+..+..         +..+.+++...++|.++.. ..+.-
T Consensus        92 Yl~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~-tPm~n  170 (656)
T KOG1914|consen   92 YLSYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALV-TPMHN  170 (656)
T ss_pred             HHHHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhc-Ccccc
Confidence            66543332 333321    11222111       344446555543         3344566777888888865 22111


Q ss_pred             chhhHH------HHHHH-------HHhcCChhhHHHHHHHHHh--cCCCCccc----ccc---------hHHHHHHHhhc
Q 047359          147 GFSTYS------SILDG-------ARRYEKTEVSDRIVGLMVE--KKLLPKHF----LSG---------NDYVIQKLSDM  198 (440)
Q Consensus       147 ~~~~~~------~l~~~-------~~~~~~~~~a~~~~~~~~~--~~~~~~~~----~~~---------~~~l~~~~~~~  198 (440)
                      =...|+      .-+..       --+...+..|.++++++..  .|+.....    ..|         |-.+|..-...
T Consensus       171 lEkLW~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~wEksN  250 (656)
T KOG1914|consen  171 LEKLWKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKWEKSN  250 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHHHhcC
Confidence            011221      11111       1123445667777776654  23211100    111         22222221111


Q ss_pred             CcH--------HHHHHHHHHH-HhcCCCCCHHhHHHHH-------HHHhhhcc-------HHHHHHHHHHHHHcCCCCCh
Q 047359          199 GKT--------YAAEMIFKRA-CDEKIELQDDTCGCML-------KALSKEGR-------VKEAIQIYHLISERGITVRD  255 (440)
Q Consensus       199 ~~~--------~~a~~~~~~~-~~~~~~~~~~~~~~l~-------~~~~~~~~-------~~~a~~~~~~~~~~~~~~~~  255 (440)
                      +--        ....-.+++. .-.+..|+  +|.-..       +.+...|+       -+++..+++.....-...+.
T Consensus       251 pL~t~~~~~~~~Rv~yayeQ~ll~l~~~pe--iWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~~  328 (656)
T KOG1914|consen  251 PLRTLDGTMLTRRVMYAYEQCLLYLGYHPE--IWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKENK  328 (656)
T ss_pred             CcccccccHHHHHHHHHHHHHHHHHhcCHH--HHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHH
Confidence            100        0011111111 11112222  121111       11222233       34556666665554333333


Q ss_pred             hhHHHHHHHHHhcC---ChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCC-chhhhHHH
Q 047359          256 SDYYAFVNVLCKEH---QPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLL-DSFCCSSL  331 (440)
Q Consensus       256 ~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l  331 (440)
                      .+|..+...--..-   ..+....+++++.......-..+|..+++.-.+...+..|..+|.+..+.+..+ ++...+++
T Consensus       329 ~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~  408 (656)
T KOG1914|consen  329 LLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAAL  408 (656)
T ss_pred             HHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHH
Confidence            44443333221111   355666677776654333334567788888888889999999999999887776 67778888


Q ss_pred             HHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC---chhhHHHHHHHHHhcc
Q 047359          332 MEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV---SSSSFVIVVSRLCHLK  408 (440)
Q Consensus       332 ~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g  408 (440)
                      +..|+ .++.+-|.++|+--.+. ..-++.-....+.-+...++-..+..+|++....+..   ....|..++..-..-|
T Consensus       409 mEy~c-skD~~~AfrIFeLGLkk-f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vG  486 (656)
T KOG1914|consen  409 MEYYC-SKDKETAFRIFELGLKK-FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVG  486 (656)
T ss_pred             HHHHh-cCChhHHHHHHHHHHHh-cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcc
Confidence            87766 46889999999987765 2224445567788888999999999999999988433   5679999999999999


Q ss_pred             cHHHHHHHHHHHHH
Q 047359          409 ELRKAMKNHDEMLK  422 (440)
Q Consensus       409 ~~~~a~~~~~~m~~  422 (440)
                      +...+.++-+++..
T Consensus       487 dL~si~~lekR~~~  500 (656)
T KOG1914|consen  487 DLNSILKLEKRRFT  500 (656)
T ss_pred             cHHHHHHHHHHHHH
Confidence            99999999887765

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=99.05  E-value=4.4e-07  Score=82.88  Aligned_cols=322  Identities=11%  Similarity=0.045  Sum_probs=185.1

Q ss_pred             ChHhHHHHH--HHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHhccc------------CC
Q 047359           46 AVSACNALL--DALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGI------------YS  111 (440)
Q Consensus        46 ~~~~~~~ll--~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~------------~~  111 (440)
                      |..|-..++  +.|...|+.+.|.+-.+.+.      +..+|..+.++|.+..++|-|.-.+..|.            .+
T Consensus       725 d~~TRkaml~FSfyvtiG~MD~AfksI~~Ik------S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~  798 (1416)
T KOG3617|consen  725 DESTRKAMLDFSFYVTIGSMDAAFKSIQFIK------SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQN  798 (1416)
T ss_pred             CHHHHHhhhceeEEEEeccHHHHHHHHHHHh------hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhC
Confidence            444555555  33556688888877776654      34578888888888888888877776665            11


Q ss_pred             c-hhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHH
Q 047359          112 S-VMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDY  190 (440)
Q Consensus       112 ~-~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  190 (440)
                      . ..-....-...+.|.+++|..+|.+-+.          |..|=..|...|.|++|.++-+.--...  .   ..+|..
T Consensus       799 ~~e~eakvAvLAieLgMlEeA~~lYr~ckR----------~DLlNKlyQs~g~w~eA~eiAE~~DRiH--L---r~Tyy~  863 (1416)
T KOG3617|consen  799 GEEDEAKVAVLAIELGMLEEALILYRQCKR----------YDLLNKLYQSQGMWSEAFEIAETKDRIH--L---RNTYYN  863 (1416)
T ss_pred             CcchhhHHHHHHHHHhhHHHHHHHHHHHHH----------HHHHHHHHHhcccHHHHHHHHhhcccee--h---hhhHHH
Confidence            1 2222222334567888888888888765          3344455666788888887765432221  1   456777


Q ss_pred             HHHHHhhcCcHHHHHHHHHHHHhcC-------------------CCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCC
Q 047359          191 VIQKLSDMGKTYAAEMIFKRACDEK-------------------IELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGI  251 (440)
Q Consensus       191 l~~~~~~~~~~~~a~~~~~~~~~~~-------------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  251 (440)
                      -...+...+|.+.|++.|++.....                   -..|...|.-....+-..|+.+.|+.+|.....   
T Consensus       864 yA~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---  940 (1416)
T KOG3617|consen  864 YAKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---  940 (1416)
T ss_pred             HHHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---
Confidence            7777778888888888877543211                   011333344444444455666666666655443   


Q ss_pred             CCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHH
Q 047359          252 TVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSL  331 (440)
Q Consensus       252 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  331 (440)
                            |-+++...|-.|+.++|-.+-++-      -|.....-+.+.|-..|++.+|...|.+...         +...
T Consensus       941 ------~fs~VrI~C~qGk~~kAa~iA~es------gd~AAcYhlaR~YEn~g~v~~Av~FfTrAqa---------fsnA  999 (1416)
T KOG3617|consen  941 ------YFSMVRIKCIQGKTDKAARIAEES------GDKAACYHLARMYENDGDVVKAVKFFTRAQA---------FSNA  999 (1416)
T ss_pred             ------hhhheeeEeeccCchHHHHHHHhc------ccHHHHHHHHHHhhhhHHHHHHHHHHHHHHH---------HHHH
Confidence                  444555556666666666655442      2344455566677777777777777765542         2222


Q ss_pred             HHHHHcCC---------------cHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHH--------HH--
Q 047359          332 MEYYCSNR---------------QIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFD--------YM--  386 (440)
Q Consensus       332 ~~~~~~~~---------------~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~--------~~--  386 (440)
                      |+.|-..+               +.-.|-++|++.   |..     +..-+..|-+.|.+..|+++--        ++  
T Consensus      1000 IRlcKEnd~~d~L~nlal~s~~~d~v~aArYyEe~---g~~-----~~~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa 1071 (1416)
T KOG3617|consen 1000 IRLCKENDMKDRLANLALMSGGSDLVSAARYYEEL---GGY-----AHKAVMLYHKAGMIGKALELAFRTQQFSALDLIA 1071 (1416)
T ss_pred             HHHHHhcCHHHHHHHHHhhcCchhHHHHHHHHHHc---chh-----hhHHHHHHHhhcchHHHHHHHHhhcccHHHHHHH
Confidence            22222111               122222222221   111     1122345667777777666421        11  


Q ss_pred             HHcCCC-chhhHHHHHHHHHhcccHHHHHHHHHHH
Q 047359          387 KELKVV-SSSSFVIVVSRLCHLKELRKAMKNHDEM  420 (440)
Q Consensus       387 ~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m  420 (440)
                      .+.++. |+...+.....+....++++|..++-..
T Consensus      1072 ~DLd~~sDp~ll~RcadFF~~~~qyekAV~lL~~a 1106 (1416)
T KOG3617|consen 1072 KDLDAGSDPKLLRRCADFFENNQQYEKAVNLLCLA 1106 (1416)
T ss_pred             HhcCCCCCHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            244555 7888888888888888888888776543

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.04  E-value=3.4e-07  Score=79.55  Aligned_cols=340  Identities=14%  Similarity=0.067  Sum_probs=199.0

Q ss_pred             HHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHhccc---CCc-hhHHHHHHHHHhcCChhH
Q 047359           55 DALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGI---YSS-VMYNLVIDFYSKKGDFGA  130 (440)
Q Consensus        55 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~-~~~~~li~~~~~~~~~~~  130 (440)
                      .+....|+++.|...|.+.+... ++|...|..-..+|+..|++++|++=-.+-.   |+- ..|+-...++.-.|++++
T Consensus        10 naa~s~~d~~~ai~~~t~ai~l~-p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l~p~w~kgy~r~Gaa~~~lg~~~e   88 (539)
T KOG0548|consen   10 NAAFSSGDFETAIRLFTEAIMLS-PTNHVLYSNRSAAYASLGSYEKALKDATKTRRLNPDWAKGYSRKGAALFGLGDYEE   88 (539)
T ss_pred             HhhcccccHHHHHHHHHHHHccC-CCccchhcchHHHHHHHhhHHHHHHHHHHHHhcCCchhhHHHHhHHHHHhcccHHH
Confidence            34556788889999888887765 3477778888888888888888876555444   443 357888888888888888


Q ss_pred             HHHHHHHHhcCCCCCCc-hhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHH-----HHHHHhhcCcHHHH
Q 047359          131 AFDRLNEMCNGRNLTPG-FSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDY-----VIQKLSDMGKTYAA  204 (440)
Q Consensus       131 a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~-----l~~~~~~~~~~~~a  204 (440)
                      |+.-|.+-.+   ..|+ ...++.+..++.    .+.+.   .+..   -.    +..+..     +.+.+...-.+..-
T Consensus        89 A~~ay~~GL~---~d~~n~~L~~gl~~a~~----~~~~~---~~~~---~~----p~~~~~l~~~p~t~~~~~~~~~~~~  151 (539)
T KOG0548|consen   89 AILAYSEGLE---KDPSNKQLKTGLAQAYL----EDYAA---DQLF---TK----PYFHEKLANLPLTNYSLSDPAYVKI  151 (539)
T ss_pred             HHHHHHHHhh---cCCchHHHHHhHHHhhh----HHHHh---hhhc---cC----cHHHHHhhcChhhhhhhccHHHHHH
Confidence            8888888765   4454 345555555541    11111   0000   00    111111     11111111111111


Q ss_pred             HHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHH-----HHHc-------CCCC-------------------
Q 047359          205 EMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHL-----ISER-------GITV-------------------  253 (440)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-----~~~~-------~~~~-------------------  253 (440)
                      ++.+..    +  |+  .    +..|..-.++..+...+..     +...       +..|                   
T Consensus       152 l~~~~~----~--p~--~----l~~~l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~  219 (539)
T KOG0548|consen  152 LEIIQK----N--PT--S----LKLYLNDPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERR  219 (539)
T ss_pred             HHHhhc----C--cH--h----hhcccccHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHH
Confidence            111111    1  00  0    0001000001111110000     0000       0000                   


Q ss_pred             ---ChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHH
Q 047359          254 ---RDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSS  330 (440)
Q Consensus       254 ---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  330 (440)
                         -..-...+.++..+..+++.+.+.+....+..  .+..-++....+|...|.+.++...-....+.|-. ...-|+.
T Consensus       220 ~k~~a~~ek~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~kl  296 (539)
T KOG0548|consen  220 VKEKAHKEKELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKL  296 (539)
T ss_pred             HHHhhhHHHHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHH
Confidence               01123456666677778888888888877764  45555667777788888877777776666555432 2222332


Q ss_pred             -------HHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhH-------------------------HHHHHHHHhcCcHHH
Q 047359          331 -------LMEYYCSNRQIDKAIALHIKIEKLKGSLDVATY-------------------------DVLLDGLFKDGRMEE  378 (440)
Q Consensus       331 -------l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~-------------------------~~l~~~~~~~g~~~~  378 (440)
                             +..+|.+.++++.|+..|.+.......|+...-                         ..=...+.+.|++..
T Consensus       297 Iak~~~r~g~a~~k~~~~~~ai~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~  376 (539)
T KOG0548|consen  297 IAKALARLGNAYTKREDYEGAIKYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPE  376 (539)
T ss_pred             HHHHHHHhhhhhhhHHhHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHH
Confidence                   233556667788888888776654333332211                         112446778899999


Q ss_pred             HHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCH
Q 047359          379 AVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDE  429 (440)
Q Consensus       379 a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~  429 (440)
                      |++.+.+++..+|.|+..|.....+|.+.|.+..|+.-.+...+  +.|+.
T Consensus       377 Av~~YteAIkr~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ie--L~p~~  425 (539)
T KOG0548|consen  377 AVKHYTEAIKRDPEDARLYSNRAACYLKLGEYPEALKDAKKCIE--LDPNF  425 (539)
T ss_pred             HHHHHHHHHhcCCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHh--cCchH
Confidence            99999999999988999999999999999999999998888877  45654

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.04  E-value=3.9e-08  Score=85.95  Aligned_cols=226  Identities=15%  Similarity=0.075  Sum_probs=173.3

Q ss_pred             HHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCh
Q 047359          192 IQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQP  271 (440)
Q Consensus       192 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  271 (440)
                      ..-+.+.|++.+|.-.|+...+.++. +...|..|.......++-..|+..+++..+..+. +......|.-.|...|.-
T Consensus       292 G~~lm~nG~L~~A~LafEAAVkqdP~-haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~-NleaLmaLAVSytNeg~q  369 (579)
T KOG1125|consen  292 GCNLMKNGDLSEAALAFEAAVKQDPQ-HAEAWQKLGITQAENENEQNAISALRRCLELDPT-NLEALMALAVSYTNEGLQ  369 (579)
T ss_pred             HHHHHhcCCchHHHHHHHHHHhhChH-HHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCc-cHHHHHHHHHHHhhhhhH
Confidence            44567788899999999998888776 7788888888888888888999999998887654 667777888888888888


Q ss_pred             HHHHHHHHHHHHcCCCC--------ChhhHHHHHHHHHcCCCHHHHHHHHHHH-HhcCCCCchhhhHHHHHHHHcCCcHH
Q 047359          272 EEVCGLLRDVVERGYIP--------CAMELSRFVASQCGKGKWKEVEELLSAV-LDKGLLLDSFCCSSLMEYYCSNRQID  342 (440)
Q Consensus       272 ~~a~~~~~~~~~~~~~~--------~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~  342 (440)
                      .+|++.++.-+....+-        +...-..  ..+.....+....++|-++ ...+..+|+.....|.-.|--.|+++
T Consensus       370 ~~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efd  447 (579)
T KOG1125|consen  370 NQALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFD  447 (579)
T ss_pred             HHHHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHH
Confidence            88998888876543110        0000000  1111222334455555555 44454467777888888889999999


Q ss_pred             HHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          343 KAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       343 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      +|...|+.++...+. |..+||.|...++...+.++|+..|.++.+..|.-..+...|.-.|...|.+++|.+.|-+.+.
T Consensus       448 raiDcf~~AL~v~Pn-d~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~  526 (579)
T KOG1125|consen  448 RAVDCFEAALQVKPN-DYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALS  526 (579)
T ss_pred             HHHHHHHHHHhcCCc-hHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHH
Confidence            999999999986544 6779999999999999999999999999999888888888899999999999999998877654

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=99.03  E-value=2.4e-07  Score=83.42  Aligned_cols=216  Identities=14%  Similarity=0.081  Sum_probs=178.3

Q ss_pred             chHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 047359          187 GNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLC  266 (440)
Q Consensus       187 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  266 (440)
                      .-..+...+...|-...|..+++++.         .|..++.+|...|+..+|..+..+..++  +|+...|..+.+...
T Consensus       400 ~q~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv~~  468 (777)
T KOG1128|consen  400 LQRLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDVLH  468 (777)
T ss_pred             HHHHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhhcc
Confidence            33557788889999999999998764         5777899999999999999999888873  578889999998888


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHH
Q 047359          267 KEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIA  346 (440)
Q Consensus       267 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  346 (440)
                      ...-+++|.++.+.....       .-..+.......++++++.+.|+.-.+..+- ...+|-.+..+..+.++++.|.+
T Consensus       469 d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~npl-q~~~wf~~G~~ALqlek~q~av~  540 (777)
T KOG1128|consen  469 DPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEINPL-QLGTWFGLGCAALQLEKEQAAVK  540 (777)
T ss_pred             ChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcCcc-chhHHHhccHHHHHHhhhHHHHH
Confidence            888888999888876543       1122222233468999999999988776433 56678778888889999999999


Q ss_pred             HHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          347 LHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       347 ~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      .|.......+. +...||.+-.+|.+.|+-.+|...+.+..+.+..++.+|...+......|.+++|++.+.++.+
T Consensus       541 aF~rcvtL~Pd-~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w~iWENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  541 AFHRCVTLEPD-NAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHWQIWENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             HHHHHhhcCCC-chhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCCeeeechhhhhhhcccHHHHHHHHHHHHH
Confidence            99999885433 5679999999999999999999999999999866999999999999999999999999999876

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=99.02  E-value=1e-07  Score=75.64  Aligned_cols=118  Identities=16%  Similarity=0.213  Sum_probs=70.6

Q ss_pred             CCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHH-HhcCc--HHHH
Q 047359          303 KGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGL-FKDGR--MEEA  379 (440)
Q Consensus       303 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~-~~~g~--~~~a  379 (440)
                      .++.+++...++......+. +...|..+...|...|++++|...+++..+.... +...+..+..++ ...|+  .++|
T Consensus        52 ~~~~~~~i~~l~~~L~~~P~-~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~-~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         52 QQTPEAQLQALQDKIRANPQ-NSEQWALLGEYYLWRNDYDNALLAYRQALQLRGE-NAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCCCcHHH
Confidence            34455555555555554433 5556666666666666666666666666665433 455555555542 45455  3666


Q ss_pred             HHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          380 VRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       380 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      .+++++..+.+|.++.++..+...+.+.|++++|+..|+++++
T Consensus       130 ~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~  172 (198)
T PRK10370        130 REMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKVLD  172 (198)
T ss_pred             HHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            6666666666666666666666666666666666666666665

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

Probab=99.02  E-value=1.3e-05  Score=70.92  Aligned_cols=161  Identities=16%  Similarity=0.139  Sum_probs=107.1

Q ss_pred             hHHHHHHHHH--hcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHH--------HHHhcCCCCchh
Q 047359          257 DYYAFVNVLC--KEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLS--------AVLDKGLLLDSF  326 (440)
Q Consensus       257 ~~~~l~~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~--------~~~~~~~~~~~~  326 (440)
                      .+..++..+.  +...+.++.+++...-+....-.....-..+......|+++.|.+++.        .+.+.+-.|  .
T Consensus       341 ~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P--~  418 (652)
T KOG2376|consen  341 LFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHLP--G  418 (652)
T ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccCh--h
Confidence            3444444432  223567777777777665322223445556677778899999999999        555544444  4


Q ss_pred             hhHHHHHHHHcCCcHHHHHHHHHHHHhc--cCCcCHH----hHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHH
Q 047359          327 CCSSLMEYYCSNRQIDKAIALHIKIEKL--KGSLDVA----TYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIV  400 (440)
Q Consensus       327 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~p~~~----~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l  400 (440)
                      +...+...+.+.++.+.|..++.+.++.  .-.+...    ++.-+...-.+.|+.++|..+++++.+.++.+..+...+
T Consensus       419 ~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~n~~d~~~l~~l  498 (652)
T KOG2376|consen  419 TVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKFNPNDTDLLVQL  498 (652)
T ss_pred             HHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHhCCchHHHHHHH
Confidence            4556777788888877777777776642  0011222    333344445578999999999999999999999999999


Q ss_pred             HHHHHhcccHHHHHHHHHHH
Q 047359          401 VSRLCHLKELRKAMKNHDEM  420 (440)
Q Consensus       401 ~~~~~~~g~~~~a~~~~~~m  420 (440)
                      +.+|++. +.+.|..+-+.+
T Consensus       499 V~a~~~~-d~eka~~l~k~L  517 (652)
T KOG2376|consen  499 VTAYARL-DPEKAESLSKKL  517 (652)
T ss_pred             HHHHHhc-CHHHHHHHhhcC
Confidence            9999876 456776665543

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.02  E-value=2.9e-06  Score=85.32  Aligned_cols=336  Identities=13%  Similarity=-0.056  Sum_probs=210.8

Q ss_pred             HHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHhccc---C--C---c-----hhHHHHHHHH
Q 047359           56 ALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGI---Y--S---S-----VMYNLVIDFY  122 (440)
Q Consensus        56 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~--~---~-----~~~~~li~~~  122 (440)
                      .....|+++.+..+++.+.......+..........+...|+++++...++...   +  +   .     .....+...+
T Consensus       383 ~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~  462 (903)
T PRK04841        383 SLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVA  462 (903)
T ss_pred             HHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHH
Confidence            344567777777777665222111223333445556677899999988887653   1  1   1     1122233456


Q ss_pred             HhcCChhHHHHHHHHHhcCCCCCCch----hhHHHHHHHHHhcCChhhHHHHHHHHHhcCC---CCcccccchHHHHHHH
Q 047359          123 SKKGDFGAAFDRLNEMCNGRNLTPGF----STYSSILDGARRYEKTEVSDRIVGLMVEKKL---LPKHFLSGNDYVIQKL  195 (440)
Q Consensus       123 ~~~~~~~~a~~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~~~l~~~~  195 (440)
                      ...|++++|...+++... .....+.    ...+.+...+...|+++.|...+++......   .+.........+...+
T Consensus       463 ~~~g~~~~A~~~~~~al~-~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~  541 (903)
T PRK04841        463 INDGDPEEAERLAELALA-ELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEIL  541 (903)
T ss_pred             HhCCCHHHHHHHHHHHHh-cCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHH
Confidence            678999999999998765 2111111    2345556667789999999999988875321   1110123445667788


Q ss_pred             hhcCcHHHHHHHHHHHHhc----CCC--C-CHHhHHHHHHHHhhhccHHHHHHHHHHHHHc----CCCCChhhHHHHHHH
Q 047359          196 SDMGKTYAAEMIFKRACDE----KIE--L-QDDTCGCMLKALSKEGRVKEAIQIYHLISER----GITVRDSDYYAFVNV  264 (440)
Q Consensus       196 ~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~  264 (440)
                      ...|+++.|...+++....    +..  + ....+..+...+...|++++|...+.+....    +.......+..+...
T Consensus       542 ~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~  621 (903)
T PRK04841        542 FAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKI  621 (903)
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHH
Confidence            8999999999998876552    211  1 2233445566677789999999998887553    211123344456667


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCC-hhhH-----HHHHHHHHcCCCHHHHHHHHHHHHhcCCCCch---hhhHHHHHHH
Q 047359          265 LCKEHQPEEVCGLLRDVVERGYIPC-AMEL-----SRFVASQCGKGKWKEVEELLSAVLDKGLLLDS---FCCSSLMEYY  335 (440)
Q Consensus       265 ~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~-----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~  335 (440)
                      +...|++++|...+........... ...+     ...+..+...|+.+.|...+............   ..+..+..++
T Consensus       622 ~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~  701 (903)
T PRK04841        622 SLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQ  701 (903)
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHH
Confidence            7889999999999988754211111 1111     11123345578999999988775542211111   1134566778


Q ss_pred             HcCCcHHHHHHHHHHHHhc----cCCc-CHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC
Q 047359          336 CSNRQIDKAIALHIKIEKL----KGSL-DVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV  392 (440)
Q Consensus       336 ~~~~~~~~a~~~~~~~~~~----~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  392 (440)
                      ...|+.++|...+++....    |..+ ...+...+..++.+.|+.++|...+.++.+....
T Consensus       702 ~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~la~~  763 (903)
T PRK04841        702 ILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKLANR  763 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCc
Confidence            8999999999999988753    2222 1235666778889999999999999999876544

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=99.00  E-value=3e-07  Score=88.51  Aligned_cols=201  Identities=11%  Similarity=0.067  Sum_probs=92.5

Q ss_pred             hHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCC-----hhhHHHHHHHHHhcCChHHHHHHHhccc---CCchhHHHH
Q 047359           47 VSACNALLDALYRQNEIRLASCLYGAMVRDGVSPN-----KFTWSLVAQILCRSGKFEVVLGLLDSGI---YSSVMYNLV  118 (440)
Q Consensus        47 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~l  118 (440)
                      ...|-..|......++.++|++++++++.. +.+.     ...|.++++.-...|.-+...++|++..   ..-..|..|
T Consensus      1458 Si~WI~YMaf~LelsEiekAR~iaerAL~t-IN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd~~~V~~~L 1536 (1710)
T KOG1070|consen 1458 SILWIRYMAFHLELSEIEKARKIAERALKT-INFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYCDAYTVHLKL 1536 (1710)
T ss_pred             chHHHHHHHHHhhhhhhHHHHHHHHHHhhh-CCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcchHHHHHHH
Confidence            344555555555555555555555555432 1111     1234444444444444455555555544   122234555


Q ss_pred             HHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhc
Q 047359          119 IDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDM  198 (440)
Q Consensus       119 i~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  198 (440)
                      ...|.+.+.+++|-++|+.|.++.+  -....|...+..+.+..+-+.|..++.+.++.-....+ .......+..-.+.
T Consensus      1537 ~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eH-v~~IskfAqLEFk~ 1613 (1710)
T KOG1070|consen 1537 LGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEH-VEFISKFAQLEFKY 1613 (1710)
T ss_pred             HHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhh-HHHHHHHHHHHhhc
Confidence            5555555555555555555544333  23334444555555555555555555554443211111 22223333444444


Q ss_pred             CcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCC
Q 047359          199 GKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGIT  252 (440)
Q Consensus       199 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  252 (440)
                      |+.+++..+|+......++ -...|+..+..=.+.|+.+.+..+|++....++.
T Consensus      1614 GDaeRGRtlfEgll~ayPK-RtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~ 1666 (1710)
T KOG1070|consen 1614 GDAERGRTLFEGLLSAYPK-RTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLS 1666 (1710)
T ss_pred             CCchhhHHHHHHHHhhCcc-chhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCC
Confidence            5555555555544444333 3334555555555555555555555555444443

>PLN02789 farnesyltranstransferase

Probab=99.00  E-value=1.8e-06  Score=73.69  Aligned_cols=140  Identities=11%  Similarity=0.070  Sum_probs=67.8

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchh-hHHHHHHHHHhcC-ChhhHHHHHHHHHhcCCCCcccccchHHHH
Q 047359          115 YNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFS-TYSSILDGARRYE-KTEVSDRIVGLMVEKKLLPKHFLSGNDYVI  192 (440)
Q Consensus       115 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~  192 (440)
                      +..+-..+...+..++|+.+.+++.+   +.|+.. +|+.--.++...| ++++++..++.+.+.+  |++ ..+|+...
T Consensus        40 ~~~~ra~l~~~e~serAL~lt~~aI~---lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n--pkn-yqaW~~R~  113 (320)
T PLN02789         40 MDYFRAVYASDERSPRALDLTADVIR---LNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN--PKN-YQIWHHRR  113 (320)
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHHH---HCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC--Ccc-hHHhHHHH
Confidence            33344444555566666666666655   444433 3333333344444 3455666666555543  221 33444443


Q ss_pred             HHHhhcCcH--HHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHH
Q 047359          193 QKLSDMGKT--YAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFV  262 (440)
Q Consensus       193 ~~~~~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  262 (440)
                      ..+.+.|+.  +++..+++++.+.+++ +..+|+...-++...|+++++++.++++.+.++. +...|+...
T Consensus       114 ~~l~~l~~~~~~~el~~~~kal~~dpk-Ny~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~  183 (320)
T PLN02789        114 WLAEKLGPDAANKELEFTRKILSLDAK-NYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRY  183 (320)
T ss_pred             HHHHHcCchhhHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHH
Confidence            334444432  4445555555554443 4555555555555555555555555555555443 334444433

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.97  E-value=2.2e-07  Score=81.41  Aligned_cols=247  Identities=11%  Similarity=0.041  Sum_probs=187.1

Q ss_pred             HHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccH
Q 047359          157 GARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRV  236 (440)
Q Consensus       157 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  236 (440)
                      -+.+.|++.+|.-.|+..++.+  |++ ..+|..|.......++-..|+..+++..+..+. +......|.-.|...|.-
T Consensus       294 ~lm~nG~L~~A~LafEAAVkqd--P~h-aeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~-NleaLmaLAVSytNeg~q  369 (579)
T KOG1125|consen  294 NLMKNGDLSEAALAFEAAVKQD--PQH-AEAWQKLGITQAENENEQNAISALRRCLELDPT-NLEALMALAVSYTNEGLQ  369 (579)
T ss_pred             HHHhcCCchHHHHHHHHHHhhC--hHH-HHHHHHhhhHhhhccchHHHHHHHHHHHhcCCc-cHHHHHHHHHHHhhhhhH
Confidence            3567899999999999998876  655 889999999999999999999999999988766 777888888899999999


Q ss_pred             HHHHHHHHHHHHcCCCCChhhHHHHH-----------HHHHhcCChHHHHHHHHHHH-HcCCCCChhhHHHHHHHHHcCC
Q 047359          237 KEAIQIYHLISERGITVRDSDYYAFV-----------NVLCKEHQPEEVCGLLRDVV-ERGYIPCAMELSRFVASQCGKG  304 (440)
Q Consensus       237 ~~a~~~~~~~~~~~~~~~~~~~~~l~-----------~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~  304 (440)
                      ..|++.++......++     |..+.           ..+..........++|-++. ..+..+|......|.-.|.-.|
T Consensus       370 ~~Al~~L~~Wi~~~p~-----y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~  444 (579)
T KOG1125|consen  370 NQALKMLDKWIRNKPK-----YVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSG  444 (579)
T ss_pred             HHHHHHHHHHHHhCcc-----chhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcch
Confidence            9999999988765422     11111           11112223344555555554 4444577788888888898999


Q ss_pred             CHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcC-HHhHHHHHHHHHhcCcHHHHHHHH
Q 047359          305 KWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLD-VATYDVLLDGLFKDGRMEEAVRIF  383 (440)
Q Consensus       305 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~  383 (440)
                      ++++|...|+.++...+. |..+||.|...++...+.++|+.-|++.++.  +|+ +.+...|.-.|...|.+++|.+.|
T Consensus       445 efdraiDcf~~AL~v~Pn-d~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hl  521 (579)
T KOG1125|consen  445 EFDRAVDCFEAALQVKPN-DYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHL  521 (579)
T ss_pred             HHHHHHHHHHHHHhcCCc-hHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHH
Confidence            999999999999987655 8889999999999999999999999999985  444 446667888899999999999988


Q ss_pred             HHHHHcCCC----------chhhHHHHHHHHHhcccHHHHHH
Q 047359          384 DYMKELKVV----------SSSSFVIVVSRLCHLKELRKAMK  415 (440)
Q Consensus       384 ~~~~~~~~~----------~~~~~~~l~~~~~~~g~~~~a~~  415 (440)
                      -.+......          +..+|..|=.++.-.++.+-+.+
T Consensus       522 L~AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~  563 (579)
T KOG1125|consen  522 LEALSMQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQE  563 (579)
T ss_pred             HHHHHhhhcccccccCCcchHHHHHHHHHHHHHcCCchHHHH
Confidence            766432111          23466666666666666554443

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.96  E-value=6.1e-08  Score=72.74  Aligned_cols=103  Identities=9%  Similarity=-0.058  Sum_probs=75.4

Q ss_pred             hHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhc
Q 047359          328 CSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHL  407 (440)
Q Consensus       328 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  407 (440)
                      +......+...|++++|...|+......+. +...|..+..++.+.|++++|...|+++.+.+|.++..+..+..++...
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~~~  105 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVMAQPW-SWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTGVCLKMM  105 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHc
Confidence            445566677777888888887777765433 6667777777777888888888888888877777777777788778888


Q ss_pred             ccHHHHHHHHHHHHHCCCCCCHHHHH
Q 047359          408 KELRKAMKNHDEMLKMGHKPDEATYK  433 (440)
Q Consensus       408 g~~~~a~~~~~~m~~~~~~p~~~t~~  433 (440)
                      |++++|...|++.++  +.|+...+.
T Consensus       106 g~~~eAi~~~~~Al~--~~p~~~~~~  129 (144)
T PRK15359        106 GEPGLAREAFQTAIK--MSYADASWS  129 (144)
T ss_pred             CCHHHHHHHHHHHHH--hCCCChHHH
Confidence            888888888887777  456654443

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.93  E-value=7e-07  Score=84.03  Aligned_cols=136  Identities=10%  Similarity=-0.033  Sum_probs=84.1

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHH
Q 047359          254 RDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLME  333 (440)
Q Consensus       254 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  333 (440)
                      +...+..|.....+.|.+++|..+++...+.. +-+......+...+.+.+++++|...+++.....+. +......+..
T Consensus        85 ~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~-Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~-~~~~~~~~a~  162 (694)
T PRK15179         85 TELFQVLVARALEAAHRSDEGLAVWRGIHQRF-PDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSS-SAREILLEAK  162 (694)
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCC-CHHHHHHHHH
Confidence            45566666666666677777777776666642 223344555566666666777777766666665443 4555555666


Q ss_pred             HHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC
Q 047359          334 YYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV  392 (440)
Q Consensus       334 ~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  392 (440)
                      ++...|++++|..+|+++...+.. +..++..+..++...|+.++|...|++..+..-+
T Consensus       163 ~l~~~g~~~~A~~~y~~~~~~~p~-~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~  220 (694)
T PRK15179        163 SWDEIGQSEQADACFERLSRQHPE-FENGYVGWAQSLTRRGALWRARDVLQAGLDAIGD  220 (694)
T ss_pred             HHHHhcchHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCc
Confidence            666667777777777766663322 3556666666666667777777777666655433

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.92  E-value=1.2e-06  Score=83.39  Aligned_cols=250  Identities=13%  Similarity=0.019  Sum_probs=139.0

Q ss_pred             CchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchh-hHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchH
Q 047359          111 SSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFS-TYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGND  189 (440)
Q Consensus       111 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  189 (440)
                      +...+..|+..+...+++++|.++.+...+   ..|+.. .|-.+...+.+.++.+.+..+                   
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~---~~P~~i~~yy~~G~l~~q~~~~~~~~lv-------------------   87 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLK---EHKKSISALYISGILSLSRRPLNDSNLL-------------------   87 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHH---hCCcceehHHHHHHHHHhhcchhhhhhh-------------------
Confidence            344566666666666666666666665544   334433 222222234444443333332                   


Q ss_pred             HHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcC
Q 047359          190 YVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEH  269 (440)
Q Consensus       190 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  269 (440)
                      .++.......++.....+...+.+.+  -+...+..+..+|-+.|+.++|..+|+++.+..+. +..+.|.+...|... 
T Consensus        88 ~~l~~~~~~~~~~~ve~~~~~i~~~~--~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~-n~~aLNn~AY~~ae~-  163 (906)
T PRK14720         88 NLIDSFSQNLKWAIVEHICDKILLYG--ENKLALRTLAEAYAKLNENKKLKGVWERLVKADRD-NPEIVKKLATSYEEE-  163 (906)
T ss_pred             hhhhhcccccchhHHHHHHHHHHhhh--hhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHh-
Confidence            12222222333333333333333321  13335556666666777777777777777666632 566666666666666 


Q ss_pred             ChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHH
Q 047359          270 QPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHI  349 (440)
Q Consensus       270 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  349 (440)
                      +.++|..++......               +...+++..+.++|.++....+. +                .+.-.++.+
T Consensus       164 dL~KA~~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~~~~~-d----------------~d~f~~i~~  211 (906)
T PRK14720        164 DKEKAITYLKKAIYR---------------FIKKKQYVGIEEIWSKLVHYNSD-D----------------FDFFLRIER  211 (906)
T ss_pred             hHHHHHHHHHHHHHH---------------HHhhhcchHHHHHHHHHHhcCcc-c----------------chHHHHHHH
Confidence            677776666665543               34445666666666666654322 2                222222333


Q ss_pred             HHHhc-cCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHH
Q 047359          350 KIEKL-KGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEML  421 (440)
Q Consensus       350 ~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  421 (440)
                      .+... |..--..++..+-..|...++++++..+++.+.+..+.+..+...++.+|.  +++.. ...|++.+
T Consensus       212 ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~n~~a~~~l~~~y~--~kY~~-~~~~ee~l  281 (906)
T PRK14720        212 KVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNKNNKAREELIRFYK--EKYKD-HSLLEDYL  281 (906)
T ss_pred             HHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCcchhhHHHHHHHHH--HHccC-cchHHHHH
Confidence            33322 222334566667777888889999999999999998888888888888887  33333 34444443

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.90  E-value=3.6e-05  Score=67.45  Aligned_cols=388  Identities=13%  Similarity=0.119  Sum_probs=230.5

Q ss_pred             ccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHhccc---CCchhHHHHHH
Q 047359           44 VPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGI---YSSVMYNLVID  120 (440)
Q Consensus        44 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~li~  120 (440)
                      +-|..+|+.||+-+..+ .++++++.++++... ++-....|..-+..-.+..+++..+.+|.+..   -+...|...++
T Consensus        17 P~di~sw~~lire~qt~-~~~~~R~~YEq~~~~-FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkvLnlDLW~lYl~   94 (656)
T KOG1914|consen   17 PYDIDSWSQLIREAQTQ-PIDKVRETYEQLVNV-FPSSPRAWKLYIERELASKDFESVEKLFSRCLVKVLNLDLWKLYLS   94 (656)
T ss_pred             CccHHHHHHHHHHHccC-CHHHHHHHHHHHhcc-CCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhhHhHHHHHHH
Confidence            56899999999887766 899999999999864 34467789999999999999999999999987   66777777776


Q ss_pred             HHHhc-CChh----HHHHHHHHHhcCCCCCCch-hhHHHHHHH---------HHhcCChhhHHHHHHHHHhcCCCCcccc
Q 047359          121 FYSKK-GDFG----AAFDRLNEMCNGRNLTPGF-STYSSILDG---------ARRYEKTEVSDRIVGLMVEKKLLPKHFL  185 (440)
Q Consensus       121 ~~~~~-~~~~----~a~~~~~~~~~~~~~~p~~-~~~~~l~~~---------~~~~~~~~~a~~~~~~~~~~~~~~~~~~  185 (440)
                      --.+. |+..    ...+.|+-..+..|..+-. ..|+..+..         +....+.+...+++++++...+..=  .
T Consensus        95 YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~nl--E  172 (656)
T KOG1914|consen   95 YVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMHNL--E  172 (656)
T ss_pred             HHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCccccH--H
Confidence            54432 3332    2344455544435544432 234443332         2333455667777777765421110  1


Q ss_pred             cchH------HHHHHH-------hhcCcHHHHHHHHHHHHh--cCCCCCHHh---------------HHHHHHHHhhhcc
Q 047359          186 SGND------YVIQKL-------SDMGKTYAAEMIFKRACD--EKIELQDDT---------------CGCMLKALSKEGR  235 (440)
Q Consensus       186 ~~~~------~l~~~~-------~~~~~~~~a~~~~~~~~~--~~~~~~~~~---------------~~~l~~~~~~~~~  235 (440)
                      ..|+      .-|+..       -+...+..|.++++++..  .|......+               |..+|.- -+.+-
T Consensus       173 kLW~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~w-EksNp  251 (656)
T KOG1914|consen  173 KLWKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKW-EKSNP  251 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHH-HhcCC
Confidence            1111      111111       122346667777766643  222111111               2222221 11111


Q ss_pred             H---------HHHHHHHHHHHH-cCCCCChhh-HHHH----HHHHHhcCC-------hHHHHHHHHHHHHcCCCCChhhH
Q 047359          236 V---------KEAIQIYHLISE-RGITVRDSD-YYAF----VNVLCKEHQ-------PEEVCGLLRDVVERGYIPCAMEL  293 (440)
Q Consensus       236 ~---------~~a~~~~~~~~~-~~~~~~~~~-~~~l----~~~~~~~~~-------~~~a~~~~~~~~~~~~~~~~~~~  293 (440)
                      .         ....-++++... .+..|+... +...    -+.+...|+       .+++..+++.....-..-+..+|
T Consensus       252 L~t~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~~~Ly  331 (656)
T KOG1914|consen  252 LRTLDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKENKLLY  331 (656)
T ss_pred             cccccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            1         011112222211 122222110 0111    112223333       35566666665543333344444


Q ss_pred             HHHHHHHHcC---CCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCc-CHHhHHHHHHH
Q 047359          294 SRFVASQCGK---GKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSL-DVATYDVLLDG  369 (440)
Q Consensus       294 ~~l~~~~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~  369 (440)
                      ..+...--..   ...+.....+++.......--..+|..++..-.+..-++.|..+|.++.+.+..+ ++..+++++.-
T Consensus       332 ~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy  411 (656)
T KOG1914|consen  332 FALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEY  411 (656)
T ss_pred             HHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHH
Confidence            4443322111   1355566666666543222234567788888888999999999999999988777 66677777776


Q ss_pred             HHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCH--HHHHHHhh
Q 047359          370 LFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDE--ATYKQVIS  437 (440)
Q Consensus       370 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~--~t~~~ll~  437 (440)
                      |+ .++.+.|.++|+--..+...++..-...+..+.+.|+-..|..+|++.+..++.||.  ..|..+|.
T Consensus       412 ~c-skD~~~AfrIFeLGLkkf~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~  480 (656)
T KOG1914|consen  412 YC-SKDKETAFRIFELGLKKFGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLE  480 (656)
T ss_pred             Hh-cCChhHHHHHHHHHHHhcCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHH
Confidence            54 678899999999888877777777788888889999999999999999988666664  56666553

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.89  E-value=3.4e-07  Score=82.49  Aligned_cols=239  Identities=13%  Similarity=0.053  Sum_probs=183.4

Q ss_pred             CCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhH
Q 047359          144 LTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTC  223 (440)
Q Consensus       144 ~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  223 (440)
                      .+|-...-..+...+...|-...|..+++++           ..|..++.+|...|+..+|..+..+-.++  +||+..|
T Consensus       394 lpp~Wq~q~~laell~slGitksAl~I~Erl-----------emw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~ly  460 (777)
T KOG1128|consen  394 LPPIWQLQRLLAELLLSLGITKSALVIFERL-----------EMWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLY  460 (777)
T ss_pred             CCCcchHHHHHHHHHHHcchHHHHHHHHHhH-----------HHHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhH
Confidence            3344444456777888899999999998875           35566899999999999999999888873  5788888


Q ss_pred             HHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcC
Q 047359          224 GCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGK  303 (440)
Q Consensus       224 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  303 (440)
                      ..+.+.....--+++|.++.+.....       .-..+.....+.++++++.+.|+.-.+.+ +.-..+|-.+..+..+.
T Consensus       461 c~LGDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALql  532 (777)
T KOG1128|consen  461 CLLGDVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQL  532 (777)
T ss_pred             HHhhhhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHH
Confidence            88888877777788888888765443       11222223345789999999999887754 34556787888888888


Q ss_pred             CCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHH
Q 047359          304 GKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIF  383 (440)
Q Consensus       304 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~  383 (440)
                      ++++.|.+.|.......+. +...||.+-.+|.+.++-.+|...+.+..+.+. -+...|...+....+.|.+++|++.+
T Consensus       533 ek~q~av~aF~rcvtL~Pd-~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~-~~w~iWENymlvsvdvge~eda~~A~  610 (777)
T KOG1128|consen  533 EKEQAAVKAFHRCVTLEPD-NAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNY-QHWQIWENYMLVSVDVGEFEDAIKAY  610 (777)
T ss_pred             hhhHHHHHHHHHHhhcCCC-chhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCC-CCCeeeechhhhhhhcccHHHHHHHH
Confidence            9999999999988876544 677899999999999999999999999998874 36778888888889999999999999


Q ss_pred             HHHHHcCCC--chhhHHHHHHHHH
Q 047359          384 DYMKELKVV--SSSSFVIVVSRLC  405 (440)
Q Consensus       384 ~~~~~~~~~--~~~~~~~l~~~~~  405 (440)
                      .++......  ++.+...++....
T Consensus       611 ~rll~~~~~~~d~~vl~~iv~~~~  634 (777)
T KOG1128|consen  611 HRLLDLRKKYKDDEVLLIIVRTVL  634 (777)
T ss_pred             HHHHHhhhhcccchhhHHHHHHHH
Confidence            888654333  5555555544443

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.88  E-value=2.1e-05  Score=73.97  Aligned_cols=62  Identities=13%  Similarity=0.147  Sum_probs=33.7

Q ss_pred             CHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHH
Q 047359          359 DVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEML  421 (440)
Q Consensus       359 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  421 (440)
                      ...-..-|+..|...|-+++.+.+++......-.....|..|.-.|.+- ++++..+.++-+.
T Consensus      1278 hadeLeeli~~Yq~rGyFeElIsl~Ea~LGLERAHMgmfTELaiLYsky-kp~km~EHl~LFw 1339 (1666)
T KOG0985|consen 1278 HADELEELIEYYQDRGYFEELISLLEAGLGLERAHMGMFTELAILYSKY-KPEKMMEHLKLFW 1339 (1666)
T ss_pred             ehHhHHHHHHHHHhcCcHHHHHHHHHhhhchhHHHHHHHHHHHHHHHhc-CHHHHHHHHHHHH
Confidence            3344556666677777777777666655433222455566666555543 3444444444443

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.87  E-value=5.2e-06  Score=75.31  Aligned_cols=168  Identities=16%  Similarity=0.109  Sum_probs=86.1

Q ss_pred             HHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCh
Q 047359          192 IQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQP  271 (440)
Q Consensus       192 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  271 (440)
                      +.+.....++.+|+.+++.+.+....  ..-|..+..-|+..|+++.|.++|.+.-         .++-.|..|.+.|++
T Consensus       739 ieaai~akew~kai~ildniqdqk~~--s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw  807 (1636)
T KOG3616|consen  739 IEAAIGAKEWKKAISILDNIQDQKTA--SGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKW  807 (1636)
T ss_pred             HHHHhhhhhhhhhHhHHHHhhhhccc--cccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccH
Confidence            44455556666677777666654332  2345556666777777777777765421         245556667777777


Q ss_pred             HHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHH
Q 047359          272 EEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKI  351 (440)
Q Consensus       272 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  351 (440)
                      ++|.++-.+...  .......|-+-..-.-+.|++.+|++++-.+..    |+     ..|..|-+.|..+..+++..+-
T Consensus       808 ~da~kla~e~~~--~e~t~~~yiakaedldehgkf~eaeqlyiti~~----p~-----~aiqmydk~~~~ddmirlv~k~  876 (1636)
T KOG3616|consen  808 EDAFKLAEECHG--PEATISLYIAKAEDLDEHGKFAEAEQLYITIGE----PD-----KAIQMYDKHGLDDDMIRLVEKH  876 (1636)
T ss_pred             HHHHHHHHHhcC--chhHHHHHHHhHHhHHhhcchhhhhheeEEccC----ch-----HHHHHHHhhCcchHHHHHHHHh
Confidence            777766655432  122333444444444555666666655532221    12     2344555555555555544332


Q ss_pred             HhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHH
Q 047359          352 EKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFD  384 (440)
Q Consensus       352 ~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~  384 (440)
                      ..   ..-..|...+..-|...|+.+.|..-|-
T Consensus       877 h~---d~l~dt~~~f~~e~e~~g~lkaae~~fl  906 (1636)
T KOG3616|consen  877 HG---DHLHDTHKHFAKELEAEGDLKAAEEHFL  906 (1636)
T ss_pred             Ch---hhhhHHHHHHHHHHHhccChhHHHHHHH
Confidence            21   1112233344444445555555544443

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.86  E-value=1.2e-06  Score=72.64  Aligned_cols=185  Identities=11%  Similarity=0.009  Sum_probs=124.7

Q ss_pred             CCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCC-C-ChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChh----
Q 047359          218 LQDDTCGCMLKALSKEGRVKEAIQIYHLISERGIT-V-RDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAM----  291 (440)
Q Consensus       218 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----  291 (440)
                      .....+..+...+...|+++.|...++++....+. | ....+..+..++...|++++|...++.+.+..  |+..    
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~  108 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLH--PNHPDADY  108 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCCchHH
Confidence            34556777778888889999999999888776432 1 12456677788888899999999998888753  3222    


Q ss_pred             hHHHHHHHHHcC--------CCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhH
Q 047359          292 ELSRFVASQCGK--------GKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATY  363 (440)
Q Consensus       292 ~~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~  363 (440)
                      .+..+..++...        |+.++|.+.++.+.+..+. +...+..+....    .....      .        ....
T Consensus       109 a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~a~~~~~----~~~~~------~--------~~~~  169 (235)
T TIGR03302       109 AYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPN-SEYAPDAKKRMD----YLRNR------L--------AGKE  169 (235)
T ss_pred             HHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCC-ChhHHHHHHHHH----HHHHH------H--------HHHH
Confidence            344444455443        6677788888877765332 222221111110    00000      0        0112


Q ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHHcCCC---chhhHHHHHHHHHhcccHHHHHHHHHHHHHC
Q 047359          364 DVLLDGLFKDGRMEEAVRIFDYMKELKVV---SSSSFVIVVSRLCHLKELRKAMKNHDEMLKM  423 (440)
Q Consensus       364 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  423 (440)
                      ..+...+.+.|++++|...++...+..+.   .+..+..++.++.+.|++++|...++.+...
T Consensus       170 ~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       170 LYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            25566788999999999999999988664   4578999999999999999999999988764

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.86  E-value=5.8e-06  Score=77.40  Aligned_cols=379  Identities=8%  Similarity=-0.065  Sum_probs=206.1

Q ss_pred             cchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHhc
Q 047359           28 FMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDS  107 (440)
Q Consensus        28 ~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  107 (440)
                      ...|+..|-+..+..+ .=...|..|...|...-+...|.+.|+...+.+ ..+...+......|++..+++.|..+.-.
T Consensus       474 ~~~al~ali~alrld~-~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~l~  551 (1238)
T KOG1127|consen  474 SALALHALIRALRLDV-SLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEICLR  551 (1238)
T ss_pred             HHHHHHHHHHHHhccc-chhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHHHH
Confidence            6666666666655431 123467777777777667777888888776653 23556677777788888888877777332


Q ss_pred             cc------CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCC-chhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCC
Q 047359          108 GI------YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTP-GFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLL  180 (440)
Q Consensus       108 ~~------~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  180 (440)
                      ..      .-...|....-.|.+.++...|..-|+....   +.| |...|..+.++|...|++..|.++|.+.....  
T Consensus       552 ~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR---~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~Lr--  626 (1238)
T KOG1127|consen  552 AAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALR---TDPKDYNLWLGLGEAYPESGRYSHALKVFTKASLLR--  626 (1238)
T ss_pred             HhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhc---CCchhHHHHHHHHHHHHhcCceehHHHhhhhhHhcC--
Confidence            22      1111233333445666777777777776654   444 44467777777777777777777776665533  


Q ss_pred             CcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcC------CCCCHHhHHHHHHHHhhhccHHHHHHHHHHH-------H
Q 047359          181 PKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEK------IELQDDTCGCMLKALSKEGRVKEAIQIYHLI-------S  247 (440)
Q Consensus       181 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-------~  247 (440)
                      |++ ...-.......+..|.+.+|...+..+....      ..--..++-.+...+.-.|-...|.++++.-       .
T Consensus       627 P~s-~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l  705 (1238)
T KOG1127|consen  627 PLS-KYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSL  705 (1238)
T ss_pred             cHh-HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHH
Confidence            432 2222223444556677777776666654321      0001112222222222222222222222221       1


Q ss_pred             HcCCCCChhhHHHHHHHH-----------------------HhcCCh---H---HHHHHHHHHHHcCCCCChhhHHHHHH
Q 047359          248 ERGITVRDSDYYAFVNVL-----------------------CKEHQP---E---EVCGLLRDVVERGYIPCAMELSRFVA  298 (440)
Q Consensus       248 ~~~~~~~~~~~~~l~~~~-----------------------~~~~~~---~---~a~~~~~~~~~~~~~~~~~~~~~l~~  298 (440)
                      ......+...|-.+-++|                       ...+..   +   -+.+.+-.-.  ....+..+|..+..
T Consensus       706 ~h~~~~~~~~Wi~asdac~~f~q~e~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hl--sl~~~~~~WyNLGi  783 (1238)
T KOG1127|consen  706 IHSLQSDRLQWIVASDACYIFSQEEPSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHL--SLAIHMYPWYNLGI  783 (1238)
T ss_pred             HHhhhhhHHHHHHHhHHHHHHHHhcccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHH--HHhhccchHHHHhH
Confidence            111111111221111111                       111111   1   0000000000  01112334444433


Q ss_pred             HHHc----C----CCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHH
Q 047359          299 SQCG----K----GKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGL  370 (440)
Q Consensus       299 ~~~~----~----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  370 (440)
                      .|.+    .    .+...|...+++..+..-. +..+|+.|.-. ...|++.-|...|-+....... +..+|..+...+
T Consensus       784 nylr~f~~l~et~~~~~~Ai~c~KkaV~L~an-n~~~WnaLGVl-sg~gnva~aQHCfIks~~sep~-~~~~W~NlgvL~  860 (1238)
T KOG1127|consen  784 NYLRYFLLLGETMKDACTAIRCCKKAVSLCAN-NEGLWNALGVL-SGIGNVACAQHCFIKSRFSEPT-CHCQWLNLGVLV  860 (1238)
T ss_pred             HHHHHHHHcCCcchhHHHHHHHHHHHHHHhhc-cHHHHHHHHHh-hccchhhhhhhhhhhhhhcccc-chhheeccceeE
Confidence            3333    1    2334566667766655332 56666665544 5557777777776665554332 566788888888


Q ss_pred             HhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHH
Q 047359          371 FKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDE  419 (440)
Q Consensus       371 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  419 (440)
                      .+..+++.|...|...+...|.+...|..........|+.-++..+|..
T Consensus       861 l~n~d~E~A~~af~~~qSLdP~nl~~WlG~Ali~eavG~ii~~~~lfaH  909 (1238)
T KOG1127|consen  861 LENQDFEHAEPAFSSVQSLDPLNLVQWLGEALIPEAVGRIIERLILFAH  909 (1238)
T ss_pred             EecccHHHhhHHHHhhhhcCchhhHHHHHHHHhHHHHHHHHHHHHHHHh
Confidence            8899999999999999999888888887777777778888888887765

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.84  E-value=5.5e-06  Score=80.25  Aligned_cols=234  Identities=12%  Similarity=0.027  Sum_probs=167.1

Q ss_pred             CcccccchHHHHHHHhhcCcHHHHHHHHHHHHhc-CCCCC---HHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChh
Q 047359          181 PKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDE-KIELQ---DDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDS  256 (440)
Q Consensus       181 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  256 (440)
                      |+. ...|...|......++.++|.++.++.... +++-.   .-.|.++++.-..-|.-+...++|+++.+..  -...
T Consensus      1455 PNS-Si~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~~ 1531 (1710)
T KOG1070|consen 1455 PNS-SILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC--DAYT 1531 (1710)
T ss_pred             CCc-chHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc--chHH
Confidence            543 566777788888888888888888887653 22211   2256666666666677778888888887742  1245


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCC-CchhhhHHHHHHH
Q 047359          257 DYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLL-LDSFCCSSLMEYY  335 (440)
Q Consensus       257 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~  335 (440)
                      .|..|...|.+.+.+++|.++++.|.+.- ......|...+..+.+.++-+.|..++.+.++.-++ -........+..-
T Consensus      1532 V~~~L~~iy~k~ek~~~A~ell~~m~KKF-~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLE 1610 (1710)
T KOG1070|consen 1532 VHLKLLGIYEKSEKNDEADELLRLMLKKF-GQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLE 1610 (1710)
T ss_pred             HHHHHHHHHHHhhcchhHHHHHHHHHHHh-cchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHH
Confidence            67888888888999999999999988752 356678888888888888888888888888765322 1334455566666


Q ss_pred             HcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC--chh-hHHHHHHHHHhcccHHH
Q 047359          336 CSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV--SSS-SFVIVVSRLCHLKELRK  412 (440)
Q Consensus       336 ~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--~~~-~~~~l~~~~~~~g~~~~  412 (440)
                      .+.|+.+++..+|+......++ -...|+.+++.-.++|+.+.++.+|+++...+..  ... .|...+..--+.|+-+.
T Consensus      1611 Fk~GDaeRGRtlfEgll~ayPK-RtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~ 1689 (1710)
T KOG1070|consen 1611 FKYGDAERGRTLFEGLLSAYPK-RTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKN 1689 (1710)
T ss_pred             hhcCCchhhHHHHHHHHhhCcc-chhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhh
Confidence            7889999999999888876444 5678899999999999999999999999888766  333 44455554445566544


Q ss_pred             HHHHHHH
Q 047359          413 AMKNHDE  419 (440)
Q Consensus       413 a~~~~~~  419 (440)
                      +..+=.+
T Consensus      1690 vE~VKar 1696 (1710)
T KOG1070|consen 1690 VEYVKAR 1696 (1710)
T ss_pred             HHHHHHH
Confidence            4444333

>PF12854 PPR_1: PPR repeat

Probab=98.84  E-value=3.2e-09  Score=56.64  Aligned_cols=32  Identities=19%  Similarity=0.411  Sum_probs=19.9

Q ss_pred             CCCCChHhHHHHHHHHHccCCcchHHHHHHHH
Q 047359            7 GRDSQSDALSLVLDCYSHKGLFMDGLEVYRMM   38 (440)
Q Consensus         7 g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~   38 (440)
                      |+.||..+|+.+|.+|++.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            55666666666666666666666666666655

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.82  E-value=2e-07  Score=69.74  Aligned_cols=120  Identities=15%  Similarity=0.088  Sum_probs=86.9

Q ss_pred             HHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCC
Q 047359          312 LLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKV  391 (440)
Q Consensus       312 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  391 (440)
                      .+++.....+. +......+...+...|++++|.+.++.+...+.. +...+..+...+.+.|++++|...++...+.++
T Consensus         5 ~~~~~l~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p   82 (135)
T TIGR02552         5 TLKDLLGLDSE-QLEQIYALAYNLYQQGRYDEALKLFQLLAAYDPY-NSRYWLGLAACCQMLKEYEEAIDAYALAAALDP   82 (135)
T ss_pred             hHHHHHcCChh-hHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence            34444444322 3344555666777888888888888888775433 667777888888888888888888888888777


Q ss_pred             CchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 047359          392 VSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQV  435 (440)
Q Consensus       392 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~l  435 (440)
                      .++..+..+..++...|++++|...+++..+  +.|+...+..+
T Consensus        83 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~  124 (135)
T TIGR02552        83 DDPRPYFHAAECLLALGEPESALKALDLAIE--ICGENPEYSEL  124 (135)
T ss_pred             CChHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hccccchHHHH
Confidence            7788888888888888888888888888877  45666654443

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.82  E-value=4.5e-05  Score=70.34  Aligned_cols=117  Identities=10%  Similarity=0.070  Sum_probs=55.1

Q ss_pred             hHhHHHHHHHHHccCCcchHHHHHHHHHhc-C-------C-ccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCCh
Q 047359           12 SDALSLVLDCYSHKGLFMDGLEVYRMMRVY-G-------F-VPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNK   82 (440)
Q Consensus        12 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~-~-------~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~   82 (440)
                      ..+|..+.+.|.+.++++-|.-.+..|... |       . .|+ .+=..+.......|.+++|..+|++-.+       
T Consensus       757 ~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLAieLgMlEeA~~lYr~ckR-------  828 (1416)
T KOG3617|consen  757 DSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLAIELGMLEEALILYRQCKR-------  828 (1416)
T ss_pred             hHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHHHHHhhHHHHHHHHHHHHH-------
Confidence            345555666666665555555444444321 0       0 011 1111111222344556666666655543       


Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHhccc--CCchhHHHHHHHHHhcCChhHHHHHHHHH
Q 047359           83 FTWSLVAQILCRSGKFEVVLGLLDSGI--YSSVMYNLVIDFYSKKGDFGAAFDRLNEM  138 (440)
Q Consensus        83 ~~~~~l~~~~~~~~~~~~a~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~~  138 (440)
                        |..|=+.|-..|.+++|.++-+.-.  .=..||.....-+-..+|.+.|++.|++.
T Consensus       829 --~DLlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Lear~Di~~AleyyEK~  884 (1416)
T KOG3617|consen  829 --YDLLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLEARRDIEAALEYYEKA  884 (1416)
T ss_pred             --HHHHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHHhhccHHHHHHHHHhc
Confidence              2233344555566666666554432  22234444445555556666666666543

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.82  E-value=9.6e-06  Score=73.64  Aligned_cols=134  Identities=16%  Similarity=0.116  Sum_probs=84.9

Q ss_pred             HHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCc
Q 047359          121 FYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGK  200 (440)
Q Consensus       121 ~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  200 (440)
                      -+.+.|+++.|...|-+...          ....+.+......|.+|+.+++.+......    ...|..+.+.|...|+
T Consensus       715 hl~~~~q~daainhfiea~~----------~~kaieaai~akew~kai~ildniqdqk~~----s~yy~~iadhyan~~d  780 (1636)
T KOG3616|consen  715 HLEQIGQLDAAINHFIEANC----------LIKAIEAAIGAKEWKKAISILDNIQDQKTA----SGYYGEIADHYANKGD  780 (1636)
T ss_pred             HHHHHHhHHHHHHHHHHhhh----------HHHHHHHHhhhhhhhhhHhHHHHhhhhccc----cccchHHHHHhccchh
Confidence            34455666666555544421          223455566677888888888887765422    3456667788888888


Q ss_pred             HHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHH
Q 047359          201 TYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLR  279 (440)
Q Consensus       201 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  279 (440)
                      ++.|+++|.+.-         .++-.|..|.+.|++++|.++-++..  |.......|-+-..-+-..|++.+|.+++-
T Consensus       781 fe~ae~lf~e~~---------~~~dai~my~k~~kw~da~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyi  848 (1636)
T KOG3616|consen  781 FEIAEELFTEAD---------LFKDAIDMYGKAGKWEDAFKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYI  848 (1636)
T ss_pred             HHHHHHHHHhcc---------hhHHHHHHHhccccHHHHHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeE
Confidence            888888885532         45667778888888888887766543  333344455555555556666666665553

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.81  E-value=2.1e-06  Score=68.24  Aligned_cols=153  Identities=10%  Similarity=0.107  Sum_probs=110.5

Q ss_pred             HHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCH
Q 047359          227 LKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKW  306 (440)
Q Consensus       227 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  306 (440)
                      +..|...|+++.+....+.+...    .        ..+...++.+++...++...+.+ +.+...|..+...|...|++
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~~----~--------~~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~   89 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLADP----L--------HQFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDY   89 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhCc----c--------ccccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCH
Confidence            34577778877764443222111    0        01112556677777777777654 56777888888888888999


Q ss_pred             HHHHHHHHHHHhcCCCCchhhhHHHHHH-HHcCCc--HHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHH
Q 047359          307 KEVEELLSAVLDKGLLLDSFCCSSLMEY-YCSNRQ--IDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIF  383 (440)
Q Consensus       307 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~--~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~  383 (440)
                      ++|...+++..+..+. +...+..+..+ +...|+  .++|.+++++..+.+.. +...+..+...+.+.|++++|+..|
T Consensus        90 ~~A~~a~~~Al~l~P~-~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~  167 (198)
T PRK10370         90 DNALLAYRQALQLRGE-NAELYAALATVLYYQAGQHMTPQTREMIDKALALDAN-EVTALMLLASDAFMQADYAQAIELW  167 (198)
T ss_pred             HHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHH
Confidence            9999999988887654 67777777775 466676  58899999999887655 6778888888888999999999999


Q ss_pred             HHHHHcCCCch
Q 047359          384 DYMKELKVVSS  394 (440)
Q Consensus       384 ~~~~~~~~~~~  394 (440)
                      +++.+..+++.
T Consensus       168 ~~aL~l~~~~~  178 (198)
T PRK10370        168 QKVLDLNSPRV  178 (198)
T ss_pred             HHHHhhCCCCc
Confidence            99988887733

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.80  E-value=2.4e-06  Score=67.70  Aligned_cols=171  Identities=11%  Similarity=0.068  Sum_probs=105.7

Q ss_pred             HHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCC
Q 047359          242 IYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGL  321 (440)
Q Consensus       242 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  321 (440)
                      +.+.+.......+......-...|+..+++++|++..+...      +......=+..+.+..+++-|.+.+++|.+.. 
T Consensus        95 l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~id-  167 (299)
T KOG3081|consen   95 LYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQQID-  167 (299)
T ss_pred             HHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-
Confidence            34444444333333333344455677777777777776521      11222222333455667777777777777642 


Q ss_pred             CCchhhhHHHHHHHHc----CCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhH
Q 047359          322 LLDSFCCSSLMEYYCS----NRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSF  397 (440)
Q Consensus       322 ~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  397 (440)
                        +..|.+.|..++.+    .+....|.-+|+++.++ ..|+..+.+....++...|++++|..+++......+.++.+.
T Consensus       168 --ed~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL  244 (299)
T KOG3081|consen  168 --EDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETL  244 (299)
T ss_pred             --hHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHH
Confidence              55666666666543    34577777788877764 556777777777777788888888888888887777777777


Q ss_pred             HHHHHHHHhcccHHHHH-HHHHHHHH
Q 047359          398 VIVVSRLCHLKELRKAM-KNHDEMLK  422 (440)
Q Consensus       398 ~~l~~~~~~~g~~~~a~-~~~~~m~~  422 (440)
                      ..++.+-...|+..++. +.+.++..
T Consensus       245 ~Nliv~a~~~Gkd~~~~~r~l~QLk~  270 (299)
T KOG3081|consen  245 ANLIVLALHLGKDAEVTERNLSQLKL  270 (299)
T ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHh
Confidence            77777666666554433 34444443

>PF12854 PPR_1: PPR repeat

Probab=98.80  E-value=1e-08  Score=54.68  Aligned_cols=32  Identities=22%  Similarity=0.551  Sum_probs=16.7

Q ss_pred             CCCCChhhHHHHHHHHHhcCChHHHHHHHhcc
Q 047359           77 GVSPNKFTWSLVAQILCRSGKFEVVLGLLDSG  108 (440)
Q Consensus        77 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  108 (440)
                      |+.||..||+.||.+|++.|++++|.++|++|
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            44555555555555555555555555555544

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.79  E-value=2.7e-06  Score=70.50  Aligned_cols=187  Identities=12%  Similarity=-0.023  Sum_probs=132.7

Q ss_pred             ccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCC-CC-HHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCCh--hhHHH
Q 047359          185 LSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIE-LQ-DDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRD--SDYYA  260 (440)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~  260 (440)
                      ...+..+...+...|+++.|...++++....+. |. ...+..+..++.+.|++++|...++++.+..+....  .++..
T Consensus        33 ~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~  112 (235)
T TIGR03302        33 AEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYL  112 (235)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHHH
Confidence            667788889999999999999999999886543 11 246777889999999999999999999887543222  13444


Q ss_pred             HHHHHHhc--------CChHHHHHHHHHHHHcCCCCChh-hHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHH
Q 047359          261 FVNVLCKE--------HQPEEVCGLLRDVVERGYIPCAM-ELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSL  331 (440)
Q Consensus       261 l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  331 (440)
                      +..++...        |++++|.+.++.+.+..  |+.. ....+.... .   ...      ..        ......+
T Consensus       113 ~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~~~-~---~~~------~~--------~~~~~~~  172 (235)
T TIGR03302       113 RGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY--PNSEYAPDAKKRMD-Y---LRN------RL--------AGKELYV  172 (235)
T ss_pred             HHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC--CCChhHHHHHHHHH-H---HHH------HH--------HHHHHHH
Confidence            55555544        77899999999998763  4332 222221110 0   000      00        0111245


Q ss_pred             HHHHHcCCcHHHHHHHHHHHHhccCC-c-CHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCC
Q 047359          332 MEYYCSNRQIDKAIALHIKIEKLKGS-L-DVATYDVLLDGLFKDGRMEEAVRIFDYMKELKV  391 (440)
Q Consensus       332 ~~~~~~~~~~~~a~~~~~~~~~~~~~-p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  391 (440)
                      ...|.+.|++++|...+++..+.... | ....+..+..++.+.|++++|...++.+....+
T Consensus       173 a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~~  234 (235)
T TIGR03302       173 ARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANYP  234 (235)
T ss_pred             HHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            66788999999999999999876432 2 356888999999999999999999998876643

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.78  E-value=0.00018  Score=68.09  Aligned_cols=297  Identities=12%  Similarity=0.087  Sum_probs=141.6

Q ss_pred             CChHhHHHHHHHHHccCCcchHHHHHHHHHhcCC--ccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHH
Q 047359           10 SQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGF--VPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSL   87 (440)
Q Consensus        10 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   87 (440)
                      .|+..-+..+.++...+-+.+-+++++.+.-.+-  ..+...-|.|+-...+. +.....+..+++-..+ .|+      
T Consensus       982 ~dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAika-d~trVm~YI~rLdnyD-a~~------ 1053 (1666)
T KOG0985|consen  982 QDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIKA-DRTRVMEYINRLDNYD-APD------ 1053 (1666)
T ss_pred             CChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhhc-ChHHHHHHHHHhccCC-chh------
Confidence            4455556667777777777777777777763221  11222333343333332 2334444444443221 111      


Q ss_pred             HHHHHHhcCChHHHHHHHhcccC--------------------------CchhHHHHHHHHHhcCChhHHHHHHHHHhcC
Q 047359           88 VAQILCRSGKFEVVLGLLDSGIY--------------------------SSVMYNLVIDFYSKKGDFGAAFDRLNEMCNG  141 (440)
Q Consensus        88 l~~~~~~~~~~~~a~~~~~~~~~--------------------------~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  141 (440)
                      +.......+-+++|..+|++...                          .+..|+.+..+-.+.|...+|++-|-+.   
T Consensus      1054 ia~iai~~~LyEEAF~ifkkf~~n~~A~~VLie~i~~ldRA~efAe~~n~p~vWsqlakAQL~~~~v~dAieSyika--- 1130 (1666)
T KOG0985|consen 1054 IAEIAIENQLYEEAFAIFKKFDMNVSAIQVLIENIGSLDRAYEFAERCNEPAVWSQLAKAQLQGGLVKDAIESYIKA--- 1130 (1666)
T ss_pred             HHHHHhhhhHHHHHHHHHHHhcccHHHHHHHHHHhhhHHHHHHHHHhhCChHHHHHHHHHHHhcCchHHHHHHHHhc---
Confidence            12223334444555555554432                          2334555555555555555555554443   


Q ss_pred             CCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHH
Q 047359          142 RNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDD  221 (440)
Q Consensus       142 ~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  221 (440)
                          -|+..|..+++.+.+.|.+++-.+.+....+....|.    .-..++-+|++.++..+.++++       ..|+..
T Consensus      1131 ----dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~----id~eLi~AyAkt~rl~elE~fi-------~gpN~A 1195 (1666)
T KOG0985|consen 1131 ----DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPY----IDSELIFAYAKTNRLTELEEFI-------AGPNVA 1195 (1666)
T ss_pred             ----CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCcc----chHHHHHHHHHhchHHHHHHHh-------cCCCch
Confidence                2334555566666666666666655555555443333    2234555566555555544443       124444


Q ss_pred             hHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 047359          222 TCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQC  301 (440)
Q Consensus       222 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  301 (440)
                      ....+..-|...|.++.|.-+|..         ...|..+...+...|++..|..--+..      .+..+|...-.+|.
T Consensus      1196 ~i~~vGdrcf~~~~y~aAkl~y~~---------vSN~a~La~TLV~LgeyQ~AVD~aRKA------ns~ktWK~VcfaCv 1260 (1666)
T KOG0985|consen 1196 NIQQVGDRCFEEKMYEAAKLLYSN---------VSNFAKLASTLVYLGEYQGAVDAARKA------NSTKTWKEVCFACV 1260 (1666)
T ss_pred             hHHHHhHHHhhhhhhHHHHHHHHH---------hhhHHHHHHHHHHHHHHHHHHHHhhhc------cchhHHHHHHHHHh
Confidence            444455555555555555444432         223445555555555555554433322      13344444444444


Q ss_pred             cCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHH
Q 047359          302 GKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIE  352 (440)
Q Consensus       302 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  352 (440)
                      ..+.+.-|     +|...++-....-...++..|-..|-+++.+.+++...
T Consensus      1261 d~~EFrlA-----QiCGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~L 1306 (1666)
T KOG0985|consen 1261 DKEEFRLA-----QICGLNIIVHADELEELIEYYQDRGYFEELISLLEAGL 1306 (1666)
T ss_pred             chhhhhHH-----HhcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhh
Confidence            43333222     12222222233344556666666666666666555443

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.78  E-value=3.3e-06  Score=66.99  Aligned_cols=155  Identities=14%  Similarity=0.011  Sum_probs=76.5

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCc
Q 047359          261 FVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQ  340 (440)
Q Consensus       261 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  340 (440)
                      +-..+...|+-+....+....... .+.+.......+....+.|++..|...+++.....+ +|...|+.+.-+|.+.|+
T Consensus        72 ~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p-~d~~~~~~lgaaldq~Gr  149 (257)
T COG5010          72 LATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLAP-TDWEAWNLLGAALDQLGR  149 (257)
T ss_pred             HHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccCC-CChhhhhHHHHHHHHccC
Confidence            333444444444444444443221 112222333344455555555555555555554432 255555555555555555


Q ss_pred             HHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHH
Q 047359          341 IDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHD  418 (440)
Q Consensus       341 ~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  418 (440)
                      .+.|..-|.+..+..+. ++..++.+.-.+.-.|+.+.|..++......+..+..+-..+.......|++++|..+..
T Consensus       150 ~~~Ar~ay~qAl~L~~~-~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A~~i~~  226 (257)
T COG5010         150 FDEARRAYRQALELAPN-EPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREAEDIAV  226 (257)
T ss_pred             hhHHHHHHHHHHHhccC-CchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHHHhhcc
Confidence            55555555555554322 344445555555555555555555555555544455555555555555555555555443

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.78  E-value=2.8e-05  Score=73.04  Aligned_cols=363  Identities=12%  Similarity=-0.007  Sum_probs=224.5

Q ss_pred             HHHHHhccchhHHHHHHHHHHHcCCCCC-hhhHHHHHHHHHhcCChHHHHHHHhccc----CCchhHHHHHHHHHhcCCh
Q 047359           54 LDALYRQNEIRLASCLYGAMVRDGVSPN-KFTWSLVAQILCRSGKFEVVLGLLDSGI----YSSVMYNLVIDFYSKKGDF  128 (440)
Q Consensus        54 l~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~li~~~~~~~~~  128 (440)
                      +..|.+ ++...|...|-+..+.  .|+ ...|..|...|....+...|.+.|++..    .+...+......|++..++
T Consensus       466 a~~~~r-K~~~~al~ali~alrl--d~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~w  542 (1238)
T KOG1127|consen  466 ALGCMR-KNSALALHALIRALRL--DVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTW  542 (1238)
T ss_pred             HHHHhh-hhHHHHHHHHHHHHhc--ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccH
Confidence            334443 3467777777666654  333 4578999999999999999999999877    5566788999999999999


Q ss_pred             hHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHH
Q 047359          129 GAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIF  208 (440)
Q Consensus       129 ~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  208 (440)
                      +.|..+.-..-+......-...|...--.|.+.++...+..-|+...+..  |.+ ...|..++.+|.++|.+..|.++|
T Consensus       543 e~a~~I~l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~d--PkD-~n~W~gLGeAY~~sGry~~AlKvF  619 (1238)
T KOG1127|consen  543 EEAFEICLRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTD--PKD-YNLWLGLGEAYPESGRYSHALKVF  619 (1238)
T ss_pred             HHHHHHHHHHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCC--chh-HHHHHHHHHHHHhcCceehHHHhh
Confidence            99999855443311111112233334445778899999999999888754  543 788999999999999999999999


Q ss_pred             HHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHc------CCCCChhhHHHHHHHHHhcCChHHHHHHHHH--
Q 047359          209 KRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISER------GITVRDSDYYAFVNVLCKEHQPEEVCGLLRD--  280 (440)
Q Consensus       209 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~--  280 (440)
                      .+.....+......| -..-.-+..|.+.+|+..+......      +..--..++-.+...+...|-..++..+++.  
T Consensus       620 ~kAs~LrP~s~y~~f-k~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksi  698 (1238)
T KOG1127|consen  620 TKASLLRPLSKYGRF-KEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSI  698 (1238)
T ss_pred             hhhHhcCcHhHHHHH-HHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHH
Confidence            998876443211122 2233445679999999888776543      1111122333333333223322222222222  


Q ss_pred             -----HHHcCC--------------------CCC---hhhHHHHHHHHHcCCCH---H---HHHHHHHHHHhcCCCCchh
Q 047359          281 -----VVERGY--------------------IPC---AMELSRFVASQCGKGKW---K---EVEELLSAVLDKGLLLDSF  326 (440)
Q Consensus       281 -----~~~~~~--------------------~~~---~~~~~~l~~~~~~~~~~---~---~a~~~~~~~~~~~~~~~~~  326 (440)
                           ...+..                    .|+   ......+..-.-+.+..   +   -+.+.+-.-.+.  ..+..
T Consensus       699 e~f~~~l~h~~~~~~~~Wi~asdac~~f~q~e~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hlsl--~~~~~  776 (1238)
T KOG1127|consen  699 ESFIVSLIHSLQSDRLQWIVASDACYIFSQEEPSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLSL--AIHMY  776 (1238)
T ss_pred             HHHHHHHHHhhhhhHHHHHHHhHHHHHHHHhcccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHHH--hhccc
Confidence                 222111                    122   11111111111111111   1   011111111111  11233


Q ss_pred             hhHHHHHHHHc--------CCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHH
Q 047359          327 CCSSLMEYYCS--------NRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFV  398 (440)
Q Consensus       327 ~~~~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  398 (440)
                      +|..+...|.+        ..+...|+..+.+.++..-. +..+|+.|.-. ...|++.-|.--|-+-....|....+|.
T Consensus       777 ~WyNLGinylr~f~~l~et~~~~~~Ai~c~KkaV~L~an-n~~~WnaLGVl-sg~gnva~aQHCfIks~~sep~~~~~W~  854 (1238)
T KOG1127|consen  777 PWYNLGINYLRYFLLLGETMKDACTAIRCCKKAVSLCAN-NEGLWNALGVL-SGIGNVACAQHCFIKSRFSEPTCHCQWL  854 (1238)
T ss_pred             hHHHHhHHHHHHHHHcCCcchhHHHHHHHHHHHHHHhhc-cHHHHHHHHHh-hccchhhhhhhhhhhhhhccccchhhee
Confidence            44444443332        12345788888888776433 67788887766 6678888888888888888888888999


Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHHCCCCCCH
Q 047359          399 IVVSRLCHLKELRKAMKNHDEMLKMGHKPDE  429 (440)
Q Consensus       399 ~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~  429 (440)
                      .+...+....+++-|...|...+.  +.|+.
T Consensus       855 NlgvL~l~n~d~E~A~~af~~~qS--LdP~n  883 (1238)
T KOG1127|consen  855 NLGVLVLENQDFEHAEPAFSSVQS--LDPLN  883 (1238)
T ss_pred             ccceeEEecccHHHhhHHHHhhhh--cCchh
Confidence            999999999999999999998876  55654

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.78  E-value=3.2e-07  Score=68.89  Aligned_cols=123  Identities=12%  Similarity=-0.034  Sum_probs=97.3

Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhcc
Q 047359          276 GLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLK  355 (440)
Q Consensus       276 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  355 (440)
                      .+++...+.  .|+.  +..+...+...|++++|...|+......+. +...+..+..++...|++++|...|++.....
T Consensus        14 ~~~~~al~~--~p~~--~~~~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~   88 (144)
T PRK15359         14 DILKQLLSV--DPET--VYASGYASWQEGDYSRAVIDFSWLVMAQPW-SWRAHIALAGTWMMLKEYTTAINFYGHALMLD   88 (144)
T ss_pred             HHHHHHHHc--CHHH--HHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            345555543  2433  445667778889999999999998887654 77788888889999999999999999999865


Q ss_pred             CCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHH
Q 047359          356 GSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRL  404 (440)
Q Consensus       356 ~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  404 (440)
                      +. +...+..+..++...|+.++|+..|+...+..|.++..+.....+.
T Consensus        89 p~-~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~~~~~~~~~~~~  136 (144)
T PRK15359         89 AS-HPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYADASWSEIRQNAQ  136 (144)
T ss_pred             CC-CcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHH
Confidence            43 7788889999999999999999999999998888777776655544

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.74  E-value=1.8e-05  Score=75.67  Aligned_cols=238  Identities=10%  Similarity=0.076  Sum_probs=130.6

Q ss_pred             ChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChh-hHHHHHHHHHhcCChHHHHHHHhcccCCchhHHHHHHHHHh
Q 047359           46 AVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKF-TWSLVAQILCRSGKFEVVLGLLDSGIYSSVMYNLVIDFYSK  124 (440)
Q Consensus        46 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~  124 (440)
                      +...+..|+..+...+++++|.++.+...+.  .|+.. .|-.+...+...++.+.+..+            .++.....
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv------------~~l~~~~~   95 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL------------NLIDSFSQ   95 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh------------hhhhhccc
Confidence            4566777777777778888888887766654  34432 333333355555554444332            33344444


Q ss_pred             cCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHH
Q 047359          125 KGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAA  204 (440)
Q Consensus       125 ~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  204 (440)
                      ..++.-+..+...|..   ..-+...+..+..+|-+.|+.+++..+++++++..  |++ +.+.+.+...|... ++++|
T Consensus        96 ~~~~~~ve~~~~~i~~---~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D--~~n-~~aLNn~AY~~ae~-dL~KA  168 (906)
T PRK14720         96 NLKWAIVEHICDKILL---YGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD--RDN-PEIVKKLATSYEEE-DKEKA  168 (906)
T ss_pred             ccchhHHHHHHHHHHh---hhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC--ccc-HHHHHHHHHHHHHh-hHHHH
Confidence            4444334444444433   22344466677777777788888888888777765  443 67777777777777 77777


Q ss_pred             HHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 047359          205 EMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVER  284 (440)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  284 (440)
                      .+++.+....               +...+++..+.+++..+....+. +...+..+.+....+-               
T Consensus       169 ~~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~~~~~-d~d~f~~i~~ki~~~~---------------  217 (906)
T PRK14720        169 ITYLKKAIYR---------------FIKKKQYVGIEEIWSKLVHYNSD-DFDFFLRIERKVLGHR---------------  217 (906)
T ss_pred             HHHHHHHHHH---------------HHhhhcchHHHHHHHHHHhcCcc-cchHHHHHHHHHHhhh---------------
Confidence            7777666543               44455666666666666654322 2222222221111110               


Q ss_pred             CCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHH
Q 047359          285 GYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYC  336 (440)
Q Consensus       285 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  336 (440)
                      +..--..++-.+-..|...++++++..+++.+.+.... |.....-++..|.
T Consensus       218 ~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~-n~~a~~~l~~~y~  268 (906)
T PRK14720        218 EFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNK-NNKAREELIRFYK  268 (906)
T ss_pred             ccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCc-chhhHHHHHHHHH
Confidence            11112223334444555556666666666666655443 4444555555443

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.72  E-value=4.6e-06  Score=66.18  Aligned_cols=160  Identities=13%  Similarity=-0.007  Sum_probs=124.3

Q ss_pred             HHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcC
Q 047359          224 GCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGK  303 (440)
Q Consensus       224 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  303 (440)
                      ..+-..+...|+-+.+..+........ ..|.......+....+.|++..|...+++..... ++|...|+.+..+|.+.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~  147 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHc
Confidence            555666777788777777776654432 2355566668888888999999999999888764 67888999999999999


Q ss_pred             CCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHH
Q 047359          304 GKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIF  383 (440)
Q Consensus       304 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~  383 (440)
                      |+.+.|..-|.+..+..+. ++...+.+...|.-.|+.+.|..++......+.. |..+-..+.......|++++|..+.
T Consensus       148 Gr~~~Ar~ay~qAl~L~~~-~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~a-d~~v~~NLAl~~~~~g~~~~A~~i~  225 (257)
T COG5010         148 GRFDEARRAYRQALELAPN-EPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAA-DSRVRQNLALVVGLQGDFREAEDIA  225 (257)
T ss_pred             cChhHHHHHHHHHHHhccC-CchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCC-chHHHHHHHHHHhhcCChHHHHhhc
Confidence            9999999999988887554 6677788888888889999999998888876443 6677777888888899999998876


Q ss_pred             HHHH
Q 047359          384 DYMK  387 (440)
Q Consensus       384 ~~~~  387 (440)
                      ..-.
T Consensus       226 ~~e~  229 (257)
T COG5010         226 VQEL  229 (257)
T ss_pred             cccc
Confidence            5433

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.71  E-value=5.3e-05  Score=65.77  Aligned_cols=147  Identities=16%  Similarity=0.015  Sum_probs=90.7

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHH
Q 047359          265 LCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKA  344 (440)
Q Consensus       265 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  344 (440)
                      +...|++++|+..+..+.... +-|..........+.+.++.++|.+.++++....+. .....-.+..+|.+.|++.+|
T Consensus       316 ~~~~~~~d~A~~~l~~L~~~~-P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~-~~~l~~~~a~all~~g~~~ea  393 (484)
T COG4783         316 TYLAGQYDEALKLLQPLIAAQ-PDNPYYLELAGDILLEANKAKEAIERLKKALALDPN-SPLLQLNLAQALLKGGKPQEA  393 (484)
T ss_pred             HHHhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC-ccHHHHHHHHHHHhcCChHHH
Confidence            345667777777777766542 333444445556666777777777777777765322 244455566677777777777


Q ss_pred             HHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCC
Q 047359          345 IALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMG  424 (440)
Q Consensus       345 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  424 (440)
                      +.+++........ |+..|..|..+|...|+..++.....                 ..+...|+++.|...+....+. 
T Consensus       394 i~~L~~~~~~~p~-dp~~w~~LAqay~~~g~~~~a~~A~A-----------------E~~~~~G~~~~A~~~l~~A~~~-  454 (484)
T COG4783         394 IRILNRYLFNDPE-DPNGWDLLAQAYAELGNRAEALLARA-----------------EGYALAGRLEQAIIFLMRASQQ-  454 (484)
T ss_pred             HHHHHHHhhcCCC-CchHHHHHHHHHHHhCchHHHHHHHH-----------------HHHHhCCCHHHHHHHHHHHHHh-
Confidence            7777777665443 66677777777777777666654432                 3345567777777777777663 


Q ss_pred             CCCCHHHH
Q 047359          425 HKPDEATY  432 (440)
Q Consensus       425 ~~p~~~t~  432 (440)
                      ..++..+|
T Consensus       455 ~~~~~~~~  462 (484)
T COG4783         455 VKLGFPDW  462 (484)
T ss_pred             ccCCcHHH
Confidence            23444433

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.66  E-value=2.4e-05  Score=73.96  Aligned_cols=146  Identities=10%  Similarity=-0.044  Sum_probs=117.4

Q ss_pred             CCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHH
Q 047359          218 LQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFV  297 (440)
Q Consensus       218 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  297 (440)
                      .++..+..|.....+.|.+++|..+++...+..+. +......+...+.+.+++++|....+...... +-+......+.
T Consensus        84 ~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd-~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~~a  161 (694)
T PRK15179         84 HTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPD-SSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILLEA  161 (694)
T ss_pred             ccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCC-cHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHHHH
Confidence            36778888889999999999999999999887543 45667778888999999999999999998874 34556677777


Q ss_pred             HHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHH
Q 047359          298 ASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLL  367 (440)
Q Consensus       298 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~  367 (440)
                      .++.+.|++++|..+|+++...++. +..++..+...+...|+.++|...|++..+. ..|....|+.++
T Consensus       162 ~~l~~~g~~~~A~~~y~~~~~~~p~-~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~-~~~~~~~~~~~~  229 (694)
T PRK15179        162 KSWDEIGQSEQADACFERLSRQHPE-FENGYVGWAQSLTRRGALWRARDVLQAGLDA-IGDGARKLTRRL  229 (694)
T ss_pred             HHHHHhcchHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-hCcchHHHHHHH
Confidence            8888899999999999999885443 5778888889999999999999999999875 233445555544

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.65  E-value=4e-05  Score=61.05  Aligned_cols=150  Identities=14%  Similarity=0.111  Sum_probs=75.2

Q ss_pred             HHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh----c
Q 047359          193 QKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCK----E  268 (440)
Q Consensus       193 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~  268 (440)
                      ..|++.|++++|++......      +......=+..+.+..+.+.|.+.+++|.+..   +..|.+.|.+++.+    .
T Consensus       116 ~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~id---ed~tLtQLA~awv~la~gg  186 (299)
T KOG3081|consen  116 IIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQQID---EDATLTQLAQAWVKLATGG  186 (299)
T ss_pred             HHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc---hHHHHHHHHHHHHHHhccc
Confidence            34455555555555554411      12222222334455556666666666665532   34455545444432    3


Q ss_pred             CChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCc-HHHHHHH
Q 047359          269 HQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQ-IDKAIAL  347 (440)
Q Consensus       269 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~  347 (440)
                      +...+|.-+|+++.++ .+|+..+.+....++...|++++|..++++....... ++.+...++-.-...|. .+-..+.
T Consensus       187 ek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~-dpetL~Nliv~a~~~Gkd~~~~~r~  264 (299)
T KOG3081|consen  187 EKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK-DPETLANLIVLALHLGKDAEVTERN  264 (299)
T ss_pred             hhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC-CHHHHHHHHHHHHHhCCChHHHHHH
Confidence            3456666666666553 3556666666666666666666666666666655443 34444333333333333 3333444


Q ss_pred             HHHHHh
Q 047359          348 HIKIEK  353 (440)
Q Consensus       348 ~~~~~~  353 (440)
                      +.+++.
T Consensus       265 l~QLk~  270 (299)
T KOG3081|consen  265 LSQLKL  270 (299)
T ss_pred             HHHHHh
Confidence            455544

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.60  E-value=4.5e-05  Score=66.16  Aligned_cols=121  Identities=16%  Similarity=0.144  Sum_probs=106.4

Q ss_pred             HHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcC-HHhHHHHHHHHHhcCcHH
Q 047359          299 SQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLD-VATYDVLLDGLFKDGRME  377 (440)
Q Consensus       299 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~  377 (440)
                      .+...|++++|+..++.+....+. |+..+......+...++.++|.+.++++....  |+ ....-.+..++.+.|+.+
T Consensus       315 ~~~~~~~~d~A~~~l~~L~~~~P~-N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~--P~~~~l~~~~a~all~~g~~~  391 (484)
T COG4783         315 QTYLAGQYDEALKLLQPLIAAQPD-NPYYLELAGDILLEANKAKEAIERLKKALALD--PNSPLLQLNLAQALLKGGKPQ  391 (484)
T ss_pred             HHHHhcccchHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC--CCccHHHHHHHHHHHhcCChH
Confidence            455679999999999999887543 66677777889999999999999999999864  44 667778899999999999


Q ss_pred             HHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          378 EAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       378 ~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      +|+.+++......+.++..|..|..+|...|+..++.....++..
T Consensus       392 eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~  436 (484)
T COG4783         392 EAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARAEGYA  436 (484)
T ss_pred             HHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999998887765

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.57  E-value=0.00012  Score=58.00  Aligned_cols=201  Identities=15%  Similarity=0.051  Sum_probs=138.3

Q ss_pred             cCcHHHHHHHHHHHHhc---C-CCCCHH-hHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChH
Q 047359          198 MGKTYAAEMIFKRACDE---K-IELQDD-TCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPE  272 (440)
Q Consensus       198 ~~~~~~a~~~~~~~~~~---~-~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  272 (440)
                      ..+.++..+++..+...   + ..++.. .|..+.-+....|+.+.|...++.+...-+ -+...-..-.-.+-..|+++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~fp-~S~RV~~lkam~lEa~~~~~  103 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRFP-GSKRVGKLKAMLLEATGNYK  103 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhCC-CChhHHHHHHHHHHHhhchh
Confidence            45778888888877542   3 444544 344555666778889999999998877642 22222222223345678899


Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHH
Q 047359          273 EVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIE  352 (440)
Q Consensus       273 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  352 (440)
                      +|.++++.+.+.+ +.|..++-.=+...-..|+.-+|++-+.+..+.-+ .|...|..+...|...|++++|.-.++++.
T Consensus       104 ~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~F~-~D~EAW~eLaeiY~~~~~f~kA~fClEE~l  181 (289)
T KOG3060|consen  104 EAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDKFM-NDQEAWHELAEIYLSEGDFEKAAFCLEELL  181 (289)
T ss_pred             hHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHhc-CcHHHHHHHHHHHHhHhHHHHHHHHHHHHH
Confidence            9999999988875 45566666555556666777788888888877643 488899999999999999999999999988


Q ss_pred             hccCCcCHHhHHHHHHHHHhcC---cHHHHHHHHHHHHHcCCCchhhHHHHHH
Q 047359          353 KLKGSLDVATYDVLLDGLFKDG---RMEEAVRIFDYMKELKVVSSSSFVIVVS  402 (440)
Q Consensus       353 ~~~~~p~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~~~~~~~~~~l~~  402 (440)
                      -..+. ++..+..+...+.-.|   +.+.|.+.|.+..+..+.+...+..+..
T Consensus       182 l~~P~-n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~~~~ral~GI~l  233 (289)
T KOG3060|consen  182 LIQPF-NPLYFQRLAEVLYTQGGAENLELARKYYERALKLNPKNLRALFGIYL  233 (289)
T ss_pred             HcCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhChHhHHHHHHHHH
Confidence            75332 5555666666654433   5677888888888876655544444433

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.55  E-value=0.00019  Score=56.94  Aligned_cols=192  Identities=14%  Similarity=0.088  Sum_probs=145.9

Q ss_pred             hcCChhhHHHHHHHHHhc---C-CCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhcc
Q 047359          160 RYEKTEVSDRIVGLMVEK---K-LLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGR  235 (440)
Q Consensus       160 ~~~~~~~a~~~~~~~~~~---~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  235 (440)
                      ...+.++..+++.+++..   | ..++. ...|..++-+....|+.+.|...++.+.+.-+. +..+-..-.-.+-..|+
T Consensus        24 ~~rnseevv~l~~~~~~~~k~~~~g~e~-w~l~EqV~IAAld~~~~~lAq~C~~~L~~~fp~-S~RV~~lkam~lEa~~~  101 (289)
T KOG3060|consen   24 TVRNSEEVVQLGSEVLNYSKSGALGDEI-WTLYEQVFIAALDTGRDDLAQKCINQLRDRFPG-SKRVGKLKAMLLEATGN  101 (289)
T ss_pred             cccCHHHHHHHHHHHHHHhhhcccCchH-HHHHHHHHHHHHHhcchHHHHHHHHHHHHhCCC-ChhHHHHHHHHHHHhhc
Confidence            346789999999998863   3 33442 456777888889999999999999999887532 22232222233455799


Q ss_pred             HHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHH
Q 047359          236 VKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSA  315 (440)
Q Consensus       236 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  315 (440)
                      +++|.++|+.+.+.++ .|..++..=+...-..|+.-+|++-+....+. +..|...|.-+...|...|++++|.-.+++
T Consensus       102 ~~~A~e~y~~lL~ddp-t~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE  179 (289)
T KOG3060|consen  102 YKEAIEYYESLLEDDP-TDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEE  179 (289)
T ss_pred             hhhHHHHHHHHhccCc-chhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHH
Confidence            9999999999999874 37777777777777788888999988888876 577999999999999999999999999999


Q ss_pred             HHhcCCCCchhhhHHHHHHHHcCC---cHHHHHHHHHHHHhccC
Q 047359          316 VLDKGLLLDSFCCSSLMEYYCSNR---QIDKAIALHIKIEKLKG  356 (440)
Q Consensus       316 ~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~  356 (440)
                      +.-..+. ++..+..+...+...|   +.+.|.+.|.+..+...
T Consensus       180 ~ll~~P~-n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~  222 (289)
T KOG3060|consen  180 LLLIQPF-NPLYFQRLAEVLYTQGGAENLELARKYYERALKLNP  222 (289)
T ss_pred             HHHcCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhCh
Confidence            9876433 5555666666554443   57778899999888643

>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=98.52  E-value=5.7e-06  Score=72.16  Aligned_cols=124  Identities=15%  Similarity=0.136  Sum_probs=86.0

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHh
Q 047359          293 LSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFK  372 (440)
Q Consensus       293 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  372 (440)
                      ...|+..+...++++.|..+++++.+..  |+  ....+++.+...++-.+|.+++.+..+.... +...+..-...|.+
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 VDTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKENPQ-DSELLNLQAEFLLS  246 (395)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHh
Confidence            3345555555677777777777777653  33  3344666676777777777777777754332 55555555666777


Q ss_pred             cCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHH
Q 047359          373 DGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEML  421 (440)
Q Consensus       373 ~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  421 (440)
                      .++++.|.++.+++.+..|.+-.+|..|..+|.+.|+++.|+..++.+-
T Consensus       247 k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  247 KKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             cCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            7888888888888887777777788888888888888888877777654

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.47  E-value=1e-05  Score=60.41  Aligned_cols=102  Identities=16%  Similarity=0.136  Sum_probs=72.7

Q ss_pred             hhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHH
Q 047359          291 MELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGL  370 (440)
Q Consensus       291 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  370 (440)
                      .....+...+...|++++|...++.+...++. +...+..+...+...|++++|...+++..+.+.. +...+..+...+
T Consensus        18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~la~~~   95 (135)
T TIGR02552        18 EQIYALAYNLYQQGRYDEALKLFQLLAAYDPY-NSRYWLGLAACCQMLKEYEEAIDAYALAAALDPD-DPRPYFHAAECL   95 (135)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC-ChHHHHHHHHHH
Confidence            44555666667777888888888777765433 6666777777777788888888888877765432 566677777778


Q ss_pred             HhcCcHHHHHHHHHHHHHcCCCch
Q 047359          371 FKDGRMEEAVRIFDYMKELKVVSS  394 (440)
Q Consensus       371 ~~~g~~~~a~~~~~~~~~~~~~~~  394 (440)
                      ...|+++.|...|+...+..+.+.
T Consensus        96 ~~~g~~~~A~~~~~~al~~~p~~~  119 (135)
T TIGR02552        96 LALGEPESALKALDLAIEICGENP  119 (135)
T ss_pred             HHcCCHHHHHHHHHHHHHhccccc
Confidence            888888888888888877766543

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.43  E-value=1.2e-06  Score=58.98  Aligned_cols=81  Identities=20%  Similarity=0.269  Sum_probs=52.5

Q ss_pred             CCcHHHHHHHHHHHHhccCC-cCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHH
Q 047359          338 NRQIDKAIALHIKIEKLKGS-LDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKN  416 (440)
Q Consensus       338 ~~~~~~a~~~~~~~~~~~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  416 (440)
                      .|+++.|+.+++++.+.... |+...+..+..+|.+.|++++|..++++ .+.++.+......+..++.+.|++++|+++
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            46677777777777766542 2444555567777777777777777777 444444445555567777777777777777


Q ss_pred             HHH
Q 047359          417 HDE  419 (440)
Q Consensus       417 ~~~  419 (440)
                      +++
T Consensus        81 l~~   83 (84)
T PF12895_consen   81 LEK   83 (84)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            765

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.42  E-value=2.4e-05  Score=59.02  Aligned_cols=126  Identities=10%  Similarity=0.021  Sum_probs=78.0

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCc--hhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCH--HhHHHHHH
Q 047359          293 LSRFVASQCGKGKWKEVEELLSAVLDKGLLLD--SFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDV--ATYDVLLD  368 (440)
Q Consensus       293 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~--~~~~~l~~  368 (440)
                      |..++..+ ..++...+...++.+.+....-.  ....-.+...+...|++++|...|+.+......|+.  .....|..
T Consensus        15 y~~~~~~~-~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~   93 (145)
T PF09976_consen   15 YEQALQAL-QAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLAR   93 (145)
T ss_pred             HHHHHHHH-HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHH
Confidence            33344343 35677777777777766533211  122333445677778888888888887776533322  23444666


Q ss_pred             HHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHH
Q 047359          369 GLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEM  420 (440)
Q Consensus       369 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  420 (440)
                      .+...|++++|+..++..... ...+..+......+.+.|++++|...|++.
T Consensus        94 ~~~~~~~~d~Al~~L~~~~~~-~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   94 ILLQQGQYDEALATLQQIPDE-AFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHcCCHHHHHHHHHhccCc-chHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            777788888888887663221 125556677777888888888888877764

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.42  E-value=0.0018  Score=60.82  Aligned_cols=394  Identities=13%  Similarity=0.052  Sum_probs=202.7

Q ss_pred             HccCCcchHHHHHHHHHhcCCccChHhHHHHHHH--HHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHH
Q 047359           23 SHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDA--LYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEV  100 (440)
Q Consensus        23 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  100 (440)
                      ...+++..|+.-.+.+.+..  |+.. |..++.+  +.+.|+.++|..+++.....+.. |..|...+-.+|.+.|+.++
T Consensus        20 ld~~qfkkal~~~~kllkk~--Pn~~-~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~   95 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKKH--PNAL-YAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDE   95 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHHC--CCcH-HHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhH
Confidence            34567777777777776642  4442 3334443  34667777777777766554433 66677777777778888888


Q ss_pred             HHHHHhccc---CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCC----------hhhH
Q 047359          101 VLGLLDSGI---YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEK----------TEVS  167 (440)
Q Consensus       101 a~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~----------~~~a  167 (440)
                      |..++++..   |+......+..+|.+.+++.+-.+.--++-+  ..+-+...+-++++.....-.          ..-|
T Consensus        96 ~~~~Ye~~~~~~P~eell~~lFmayvR~~~yk~qQkaa~~LyK--~~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA  173 (932)
T KOG2053|consen   96 AVHLYERANQKYPSEELLYHLFMAYVREKSYKKQQKAALQLYK--NFPKRAYYFWSVISLILQSIFSENELLDPILLALA  173 (932)
T ss_pred             HHHHHHHHHhhCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hCCcccchHHHHHHHHHHhccCCcccccchhHHHH
Confidence            888887776   6655566666677777666554444434432  111233444455554443211          1234


Q ss_pred             HHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHH-HHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHH
Q 047359          168 DRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFK-RACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLI  246 (440)
Q Consensus       168 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  246 (440)
                      .+.++.+.+.+-.... ..-...-...+...|++++|.+++. ...+.-..-+...-+.-+..+...+++.+..++-.++
T Consensus       174 ~~m~~~~l~~~gk~~s-~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~L  252 (932)
T KOG2053|consen  174 EKMVQKLLEKKGKIES-EAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRL  252 (932)
T ss_pred             HHHHHHHhccCCccch-HHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHH
Confidence            4555555554311110 2222223344556677777777773 3333333334444445556666677777777777777


Q ss_pred             HHcCCCCChhhHHHHHHHHH----------------hcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHH---HcCCCHH
Q 047359          247 SERGITVRDSDYYAFVNVLC----------------KEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQ---CGKGKWK  307 (440)
Q Consensus       247 ~~~~~~~~~~~~~~l~~~~~----------------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~---~~~~~~~  307 (440)
                      ...|..  .  |...++...                ..+..+...+..++.....   ....|-+-+.+.   ..-|+.+
T Consensus       253 l~k~~D--d--y~~~~~sv~klLe~~~~~~a~~~~s~~~~l~~~~ek~~~~i~~~---~Rgp~LA~lel~kr~~~~gd~e  325 (932)
T KOG2053|consen  253 LEKGND--D--YKIYTDSVFKLLELLNKEPAEAAHSLSKSLDECIEKAQKNIGSK---SRGPYLARLELDKRYKLIGDSE  325 (932)
T ss_pred             HHhCCc--c--hHHHHHHHHHHHHhcccccchhhhhhhhhHHHHHHHHHHhhccc---ccCcHHHHHHHHHHhcccCChH
Confidence            666532  1  222222111                1111222222222222110   001111111111   1224444


Q ss_pred             HHHHH------------------------------HHHHHhcCCCCchh-------hhHHHHHHHHcCC-----cHHHHH
Q 047359          308 EVEEL------------------------------LSAVLDKGLLLDSF-------CCSSLMEYYCSNR-----QIDKAI  345 (440)
Q Consensus       308 ~a~~~------------------------------~~~~~~~~~~~~~~-------~~~~l~~~~~~~~-----~~~~a~  345 (440)
                      ++...                              +......  .++..       .+...+..-.-.|     ..+.-.
T Consensus       326 e~~~~y~~kfg~kpcc~~Dl~~yl~~l~~~q~~~l~~~l~~~--~~~~s~~~k~l~~h~c~l~~~rl~G~~~~l~ad~i~  403 (932)
T KOG2053|consen  326 EMLSYYFKKFGDKPCCAIDLNHYLGHLNIDQLKSLMSKLVLA--DDDSSGDEKVLQQHLCVLLLLRLLGLYEKLPADSIL  403 (932)
T ss_pred             HHHHHHHHHhCCCcHhHhhHHHhhccCCHHHHHHHHHHhhcc--CCcchhhHHHHHHHHHHHHHHHHhhccccCChHHHH
Confidence            43322                              2222211  11111       0111111111122     122223


Q ss_pred             HHHHHHH---hcc------CCcCHH---------hHHHHHHHHHhcCcHH---HHHHHHHHHHHcCCCchhhHHHHHHHH
Q 047359          346 ALHIKIE---KLK------GSLDVA---------TYDVLLDGLFKDGRME---EAVRIFDYMKELKVVSSSSFVIVVSRL  404 (440)
Q Consensus       346 ~~~~~~~---~~~------~~p~~~---------~~~~l~~~~~~~g~~~---~a~~~~~~~~~~~~~~~~~~~~l~~~~  404 (440)
                      .++++..   +.|      .-|+..         +.+.|++.|.+.++..   +|+-+++......+.+..+-..+++.|
T Consensus       404 a~~~kl~~~ye~gls~~K~ll~TE~~~g~~~llLav~~Lid~~rktnd~~~l~eaI~LLE~glt~s~hnf~~KLlLiriY  483 (932)
T KOG2053|consen  404 AYVRKLKLTYEKGLSLSKDLLPTEYSFGDELLLLAVNHLIDLWRKTNDLTDLFEAITLLENGLTKSPHNFQTKLLLIRIY  483 (932)
T ss_pred             HHHHHHHHHHhccccccccccccccccHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhcCCccHHHHHHHHHHH
Confidence            3333322   222      223332         3367778888887754   677777777777777888888999999


Q ss_pred             HhcccHHHHHHHHHHHHHCCCCCCHHHH
Q 047359          405 CHLKELRKAMKNHDEMLKMGHKPDEATY  432 (440)
Q Consensus       405 ~~~g~~~~a~~~~~~m~~~~~~p~~~t~  432 (440)
                      .-.|-...|.++|+.+--..++-|..-|
T Consensus       484 ~~lGa~p~a~~~y~tLdIK~IQ~DTlgh  511 (932)
T KOG2053|consen  484 SYLGAFPDAYELYKTLDIKNIQTDTLGH  511 (932)
T ss_pred             HHhcCChhHHHHHHhcchHHhhhccchH
Confidence            9999999999999988766666665433

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.39  E-value=4.1e-06  Score=67.87  Aligned_cols=96  Identities=13%  Similarity=0.099  Sum_probs=47.3

Q ss_pred             HcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHH
Q 047359          301 CGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAV  380 (440)
Q Consensus       301 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~  380 (440)
                      .+.+++.+|+..|.+.++..+. |.+-|..-..+|.+.|.++.|++-.+..+..+.. ...+|..|..+|...|++++|+
T Consensus        92 m~~~~Y~eAv~kY~~AI~l~P~-nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~-yskay~RLG~A~~~~gk~~~A~  169 (304)
T KOG0553|consen   92 MKNKDYQEAVDKYTEAIELDPT-NAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPH-YSKAYGRLGLAYLALGKYEEAI  169 (304)
T ss_pred             HHhhhHHHHHHHHHHHHhcCCC-cchHHHHHHHHHHHhcchHHHHHHHHHHHhcChH-HHHHHHHHHHHHHccCcHHHHH
Confidence            3445555555555555554333 4444444455555555555555555544443221 2335555555555555555555


Q ss_pred             HHHHHHHHcCCCchhhHH
Q 047359          381 RIFDYMKELKVVSSSSFV  398 (440)
Q Consensus       381 ~~~~~~~~~~~~~~~~~~  398 (440)
                      +.|++..+.+|.+.....
T Consensus       170 ~aykKaLeldP~Ne~~K~  187 (304)
T KOG0553|consen  170 EAYKKALELDPDNESYKS  187 (304)
T ss_pred             HHHHhhhccCCCcHHHHH
Confidence            555555555544443333

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.38  E-value=1.1e-05  Score=70.77  Aligned_cols=103  Identities=12%  Similarity=-0.026  Sum_probs=77.2

Q ss_pred             HHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcH
Q 047359          297 VASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRM  376 (440)
Q Consensus       297 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  376 (440)
                      ...+...|++++|+..|+++....+. +...|..+..+|...|++++|+..++++++.... +...|..+..+|...|++
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~~P~-~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~-~~~a~~~lg~~~~~lg~~   86 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDLDPN-NAELYADRAQANIKLGNFTEAVADANKAIELDPS-LAKAYLRKGTACMKLEEY   86 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHhCCH
Confidence            44555678888888888888876554 6667777777888888888888888888876443 566777788888888888


Q ss_pred             HHHHHHHHHHHHcCCCchhhHHHHH
Q 047359          377 EEAVRIFDYMKELKVVSSSSFVIVV  401 (440)
Q Consensus       377 ~~a~~~~~~~~~~~~~~~~~~~~l~  401 (440)
                      ++|+..|+++.+.++.++.....+.
T Consensus        87 ~eA~~~~~~al~l~P~~~~~~~~l~  111 (356)
T PLN03088         87 QTAKAALEKGASLAPGDSRFTKLIK  111 (356)
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            8888888888888777665544443

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.33  E-value=2.5e-05  Score=57.78  Aligned_cols=93  Identities=9%  Similarity=0.011  Sum_probs=72.1

Q ss_pred             HHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcc
Q 047359          329 SSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLK  408 (440)
Q Consensus       329 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  408 (440)
                      -.+...+...|++++|.++|+.+....+. +..-|..|..++-..|++++|+..|..+...++.++..+..+..++...|
T Consensus        39 Y~~A~~ly~~G~l~~A~~~f~~L~~~Dp~-~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~L~lG  117 (157)
T PRK15363         39 YRYAMQLMEVKEFAGAARLFQLLTIYDAW-SFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECYLACD  117 (157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHcC
Confidence            34444566788888888888888775443 56667778888888888888888888888888778888888888888888


Q ss_pred             cHHHHHHHHHHHHH
Q 047359          409 ELRKAMKNHDEMLK  422 (440)
Q Consensus       409 ~~~~a~~~~~~m~~  422 (440)
                      +.+.|.+.|+..+.
T Consensus       118 ~~~~A~~aF~~Ai~  131 (157)
T PRK15363        118 NVCYAIKALKAVVR  131 (157)
T ss_pred             CHHHHHHHHHHHHH
Confidence            88888888887766

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.30  E-value=6.2e-05  Score=56.80  Aligned_cols=123  Identities=17%  Similarity=0.203  Sum_probs=67.3

Q ss_pred             HhHHHHHHHHHccCCcchHHHHHHHHHhcCCccC---hHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCCh--hhHHH
Q 047359           13 DALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPA---VSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNK--FTWSL   87 (440)
Q Consensus        13 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~   87 (440)
                      ..|..++..+ ..++...+...++.+.+.. +.+   ....-.+...+...|++++|...|+........|+.  .....
T Consensus        13 ~~y~~~~~~~-~~~~~~~~~~~~~~l~~~~-~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~   90 (145)
T PF09976_consen   13 ALYEQALQAL-QAGDPAKAEAAAEQLAKDY-PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLR   90 (145)
T ss_pred             HHHHHHHHHH-HCCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHH
Confidence            3455555555 3666777777777777653 222   122223445566677777777777777765422221  23344


Q ss_pred             HHHHHHhcCChHHHHHHHhccc---CCchhHHHHHHHHHhcCChhHHHHHHHH
Q 047359           88 VAQILCRSGKFEVVLGLLDSGI---YSSVMYNLVIDFYSKKGDFGAAFDRLNE  137 (440)
Q Consensus        88 l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~  137 (440)
                      |...+...|++++|+..++...   .....+.....++.+.|+.++|...|+.
T Consensus        91 LA~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen   91 LARILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            5555566666666666665544   2222344455555666666666655554

>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=98.28  E-value=2.1e-05  Score=54.53  Aligned_cols=94  Identities=19%  Similarity=0.240  Sum_probs=69.4

Q ss_pred             hHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhc
Q 047359          328 CSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHL  407 (440)
Q Consensus       328 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  407 (440)
                      +..+...+...|++++|...++++.+.... +...+..+...+...|+++.|.+.++......+.+...+..+...+...
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDPD-NADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKL   81 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHH
Confidence            344556667778888888888877765332 3456667777777888888888888888777766667777788888888


Q ss_pred             ccHHHHHHHHHHHHH
Q 047359          408 KELRKAMKNHDEMLK  422 (440)
Q Consensus       408 g~~~~a~~~~~~m~~  422 (440)
                      |++++|...+++..+
T Consensus        82 ~~~~~a~~~~~~~~~   96 (100)
T cd00189          82 GKYEEALEAYEKALE   96 (100)
T ss_pred             HhHHHHHHHHHHHHc
Confidence            888888888877765

>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=98.26  E-value=6e-05  Score=65.93  Aligned_cols=126  Identities=17%  Similarity=0.112  Sum_probs=84.4

Q ss_pred             hHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 047359          222 TCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQC  301 (440)
Q Consensus       222 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  301 (440)
                      ....++..+...++++.|..+++++.+..  |+  ....++..+...++..+|.+++++..+.. +.+......-...+.
T Consensus       171 Lv~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl  245 (395)
T PF09295_consen  171 LVDTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLL  245 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            34445566666777888888888877765  32  34456666666777777777777777542 334555555566677


Q ss_pred             cCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHh
Q 047359          302 GKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEK  353 (440)
Q Consensus       302 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  353 (440)
                      +.++++.|.++.+++....+. +..+|..|..+|...|+++.|+..++.+.-
T Consensus       246 ~k~~~~lAL~iAk~av~lsP~-~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm  296 (395)
T PF09295_consen  246 SKKKYELALEIAKKAVELSPS-EFETWYQLAECYIQLGDFENALLALNSCPM  296 (395)
T ss_pred             hcCCHHHHHHHHHHHHHhCch-hHHHHHHHHHHHHhcCCHHHHHHHHhcCcC
Confidence            777777787777777776433 555777777778888888877777665543

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.26  E-value=2.1e-06  Score=46.62  Aligned_cols=34  Identities=26%  Similarity=0.559  Sum_probs=30.2

Q ss_pred             hHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCH
Q 047359          396 SFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDE  429 (440)
Q Consensus       396 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~  429 (440)
                      +|+.++.+|++.|++++|.++|++|.+.|+.||.
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            6888999999999999999999999999998873

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.

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.26  E-value=1.8e-06  Score=46.87  Aligned_cols=33  Identities=27%  Similarity=0.558  Sum_probs=20.0

Q ss_pred             hHHHHHHHHHhccchhHHHHHHHHHHHcCCCCC
Q 047359           49 ACNALLDALYRQNEIRLASCLYGAMVRDGVSPN   81 (440)
Q Consensus        49 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~   81 (440)
                      +||.+|.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            456666666666666666666666666665554

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.

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.23  E-value=6.7e-05  Score=54.52  Aligned_cols=96  Identities=13%  Similarity=0.059  Sum_probs=56.9

Q ss_pred             hHHHHHHHHcCCcHHHHHHHHHHHHhccCC--cCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC---chhhHHHHHH
Q 047359          328 CSSLMEYYCSNRQIDKAIALHIKIEKLKGS--LDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV---SSSSFVIVVS  402 (440)
Q Consensus       328 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~~~~l~~  402 (440)
                      +..+...+.+.|++++|.+.+..+.+....  .....+..+..++.+.|+++.|...|+.+....|.   .+.++..+..
T Consensus         5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~   84 (119)
T TIGR02795         5 YYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGM   84 (119)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHH
Confidence            344555566666666666666666654221  01234455666666666677777766666655444   2345666666


Q ss_pred             HHHhcccHHHHHHHHHHHHHC
Q 047359          403 RLCHLKELRKAMKNHDEMLKM  423 (440)
Q Consensus       403 ~~~~~g~~~~a~~~~~~m~~~  423 (440)
                      ++.+.|++++|...++++.+.
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        85 SLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHhCChHHHHHHHHHHHHH
Confidence            666667777777777666663

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.

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.22  E-value=2.6e-06  Score=45.87  Aligned_cols=32  Identities=34%  Similarity=0.448  Sum_probs=18.8

Q ss_pred             hHHHHHHHHHhccchhHHHHHHHHHHHcCCCC
Q 047359           49 ACNALLDALYRQNEIRLASCLYGAMVRDGVSP   80 (440)
Q Consensus        49 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~   80 (440)
                      +|+.++.+|++.|+++.|.++|+.|.+.|++|
T Consensus         3 ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    3 TYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            55556666666666666666666665555554

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=98.21  E-value=6.6e-06  Score=52.80  Aligned_cols=65  Identities=17%  Similarity=0.351  Sum_probs=51.7

Q ss_pred             HhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHHHHHHHhh
Q 047359          371 FKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQVIS  437 (440)
Q Consensus       371 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~ll~  437 (440)
                      .+.|++++|+++|+++.+..|.+..++..++.+|.+.|++++|.++++++..  ..|+...|..++.
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~--~~~~~~~~~~l~a   66 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLK--QDPDNPEYQQLLA   66 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHG--GGTTHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--HCcCHHHHHHHHh
Confidence            4678888888888888888888888888888888888888888888888887  4677776666653

...

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=98.20  E-value=9.8e-06  Score=51.41  Aligned_cols=62  Identities=18%  Similarity=0.320  Sum_probs=48.3

Q ss_pred             HHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCH
Q 047359          366 LLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDE  429 (440)
Q Consensus       366 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~  429 (440)
                      +...+.+.|++++|.+.|+.+.+..|.++.++..+..++.+.|++++|...|+++++  ..|+.
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~--~~P~~   64 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALE--LDPDN   64 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH--HSTT-
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--HCcCC
Confidence            455677888888888888888888877888888888888888888888888888876  35653

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.19  E-value=0.0001  Score=53.56  Aligned_cols=104  Identities=15%  Similarity=0.004  Sum_probs=62.7

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhcCCC--CchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCc--CHHhHHHHHH
Q 047359          293 LSRFVASQCGKGKWKEVEELLSAVLDKGLL--LDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSL--DVATYDVLLD  368 (440)
Q Consensus       293 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p--~~~~~~~l~~  368 (440)
                      +..+...+...|++++|.+.+..+......  .....+..+..++...|+++.|...++.+....+..  ....+..+..
T Consensus         5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~   84 (119)
T TIGR02795         5 YYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGM   84 (119)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHH
Confidence            444555566667777777777666654321  012344556666777777777777777766543221  2345666666


Q ss_pred             HHHhcCcHHHHHHHHHHHHHcCCCchhh
Q 047359          369 GLFKDGRMEEAVRIFDYMKELKVVSSSS  396 (440)
Q Consensus       369 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~  396 (440)
                      ++.+.|+.++|.+.++++.+..|.+..+
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~~p~~~~~  112 (119)
T TIGR02795        85 SLQELGDKEKAKATLQQVIKRYPGSSAA  112 (119)
T ss_pred             HHHHhCChHHHHHHHHHHHHHCcCChhH
Confidence            6777777777777777777766655443

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.

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.17  E-value=6.1e-05  Score=63.66  Aligned_cols=128  Identities=10%  Similarity=0.016  Sum_probs=60.1

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHH-HHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHH
Q 047359          293 LSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEY-YCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLF  371 (440)
Q Consensus       293 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  371 (440)
                      |..+++...+.+..+.|..+|.+..+.+. .+...|...... |...++.+.|.++|+...+. ...+...|...++.+.
T Consensus         4 ~i~~m~~~~r~~g~~~aR~vF~~a~~~~~-~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l~   81 (280)
T PF05843_consen    4 WIQYMRFMRRTEGIEAARKVFKRARKDKR-CTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDFLI   81 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHCCCC-S-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCChHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHH
Confidence            44444455555555555555555553221 122223322222 22234444455555555544 2224455555555555


Q ss_pred             hcCcHHHHHHHHHHHHHcCCCc---hhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          372 KDGRMEEAVRIFDYMKELKVVS---SSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       372 ~~g~~~~a~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      +.|+.+.|..+|++....-+..   ...|...+..-.+.|+.+.+..+.+++.+
T Consensus        82 ~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   82 KLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE  135 (280)
T ss_dssp             HTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred             HhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            5555555655555555442221   23555555555555666666665555555

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.

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.15  E-value=4.9e-06  Score=44.74  Aligned_cols=33  Identities=21%  Similarity=0.334  Sum_probs=25.8

Q ss_pred             hhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCC
Q 047359          395 SSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKP  427 (440)
Q Consensus       395 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p  427 (440)
                      .+|+.++.+|.+.|+++.|.++|++|.+.|+.|
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            467778888888888888888888888777776

>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=98.14  E-value=1.9e-05  Score=50.79  Aligned_cols=64  Identities=20%  Similarity=0.317  Sum_probs=54.4

Q ss_pred             CHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcc-cHHHHHHHHHHHHH
Q 047359          359 DVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLK-ELRKAMKNHDEMLK  422 (440)
Q Consensus       359 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~a~~~~~~m~~  422 (440)
                      +..+|..+...+...|++++|+..|++..+.++.++.+|..+..++...| ++++|++.+++.++
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            45678888888888888999998888888888888888888888888888 78888888888776

...

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=98.11  E-value=0.00023  Score=58.33  Aligned_cols=122  Identities=13%  Similarity=0.124  Sum_probs=91.0

Q ss_pred             HHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcC---cHHHHHHHHHHHH
Q 047359          311 ELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDG---RMEEAVRIFDYMK  387 (440)
Q Consensus       311 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~  387 (440)
                      .-++.-...++. |...|-.|...|...|+.+.|..-|.+..+...+ ++..+..+..++....   ...++..+|+++.
T Consensus       143 a~Le~~L~~nP~-d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~-n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al  220 (287)
T COG4235         143 ARLETHLQQNPG-DAEGWDLLGRAYMALGRASDALLAYRNALRLAGD-NPEILLGLAEALYYQAGQQMTAKARALLRQAL  220 (287)
T ss_pred             HHHHHHHHhCCC-CchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCcccHHHHHHHHHHH
Confidence            334444444444 7888888999999999999999999888876333 6666767766655432   3567888899999


Q ss_pred             HcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHHHHHHHh
Q 047359          388 ELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQVI  436 (440)
Q Consensus       388 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~ll  436 (440)
                      ..++.++.+...|...+...|++.+|...|+.|++.  -|....+..+|
T Consensus       221 ~~D~~~iral~lLA~~afe~g~~~~A~~~Wq~lL~~--lp~~~~rr~~i  267 (287)
T COG4235         221 ALDPANIRALSLLAFAAFEQGDYAEAAAAWQMLLDL--LPADDPRRSLI  267 (287)
T ss_pred             hcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhc--CCCCCchHHHH
Confidence            988888888888888999999999999999999884  45555555544

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.11  E-value=0.0012  Score=52.75  Aligned_cols=134  Identities=13%  Similarity=0.086  Sum_probs=73.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHH----
Q 047359          258 YYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLME----  333 (440)
Q Consensus       258 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~----  333 (440)
                      .+.++..+.-.|.+.-....+++.++...+.+......|.+.-.+.|+.+.|...|+...+..-..+..+.+.++.    
T Consensus       180 my~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a  259 (366)
T KOG2796|consen  180 MYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSA  259 (366)
T ss_pred             HHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhh
Confidence            3445555555566666666666666655455555666666666666666666666666654333334444443332    


Q ss_pred             -HHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC
Q 047359          334 -YYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV  392 (440)
Q Consensus       334 -~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  392 (440)
                       .|.-.+++..|...+.++...+.. |+...|.-.-+..-.|+...|++.++.|.+..|.
T Consensus       260 ~i~lg~nn~a~a~r~~~~i~~~D~~-~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~  318 (366)
T KOG2796|consen  260 FLHLGQNNFAEAHRFFTEILRMDPR-NAVANNNKALCLLYLGKLKDALKQLEAMVQQDPR  318 (366)
T ss_pred             hheecccchHHHHHHHhhccccCCC-chhhhchHHHHHHHHHHHHHHHHHHHHHhccCCc
Confidence             344455666666666666554332 3333333333333456666666666666665544

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.09  E-value=1.6e-05  Score=53.42  Aligned_cols=81  Identities=23%  Similarity=0.301  Sum_probs=53.8

Q ss_pred             CCCHHHHHHHHHHHHhcCCC-CchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHH
Q 047359          303 KGKWKEVEELLSAVLDKGLL-LDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVR  381 (440)
Q Consensus       303 ~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~  381 (440)
                      .|+++.|+.+++++.+.... ++...+..+..+|.+.|++++|..++++ .+.+.. +......+..+|.+.|++++|++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~-~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPS-NPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHC-HHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCC-CHHHHHHHHHHHHHhCCHHHHHH
Confidence            46778888888888766442 2444555577888888888888888877 332222 33444455777888888888888


Q ss_pred             HHHH
Q 047359          382 IFDY  385 (440)
Q Consensus       382 ~~~~  385 (440)
                      ++++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            8775

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.08  E-value=0.00017  Score=63.27  Aligned_cols=92  Identities=9%  Similarity=-0.080  Sum_probs=66.5

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcH
Q 047359          262 VNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQI  341 (440)
Q Consensus       262 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  341 (440)
                      ...+...|++++|+..++.+++.. +.+...|..+..++...|++++|+..++++...... +...|..+..+|...|++
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~-~~~a~~~lg~~~~~lg~~   86 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELDPS-LAKAYLRKGTACMKLEEY   86 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHhCCH
Confidence            445566778888888888877754 345566777777777788888888888888776543 556677777777788888


Q ss_pred             HHHHHHHHHHHhcc
Q 047359          342 DKAIALHIKIEKLK  355 (440)
Q Consensus       342 ~~a~~~~~~~~~~~  355 (440)
                      ++|+..|++..+..
T Consensus        87 ~eA~~~~~~al~l~  100 (356)
T PLN03088         87 QTAKAALEKGASLA  100 (356)
T ss_pred             HHHHHHHHHHHHhC
Confidence            88888888877743

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.08  E-value=0.00012  Score=64.46  Aligned_cols=118  Identities=8%  Similarity=0.037  Sum_probs=71.4

Q ss_pred             ccchHHHHHHHhhcCcHHHHHHHHHHHHhc--CCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHH
Q 047359          185 LSGNDYVIQKLSDMGKTYAAEMIFKRACDE--KIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFV  262 (440)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  262 (440)
                      ......+++.+....+.+.+..++.+....  ....-+.|..+++..|.+.|..+.++.+++.=..-|+-||..+++.+|
T Consensus        66 ~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~Lm  145 (429)
T PF10037_consen   66 SLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLLM  145 (429)
T ss_pred             HHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHHH
Confidence            334455556666666666666666666553  222223344566666777777777777666666667767777777777


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHc
Q 047359          263 NVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCG  302 (440)
Q Consensus       263 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  302 (440)
                      ..+.+.|++..|.++...|...+...+..|+..-+.+|.+
T Consensus       146 d~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~  185 (429)
T PF10037_consen  146 DHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYK  185 (429)
T ss_pred             HHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHH
Confidence            7777777777777666666655555555555544444443

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 [].

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.07  E-value=0.011  Score=55.91  Aligned_cols=192  Identities=10%  Similarity=0.007  Sum_probs=127.9

Q ss_pred             HHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChH--
Q 047359           22 YSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFE--   99 (440)
Q Consensus        22 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--   99 (440)
                      +.|.|+.++|..+++.....+.. |..+...+-.+|...++.++|..+|++..+.  .|+......+..+|.|.+.+.  
T Consensus        53 l~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~q  129 (932)
T KOG2053|consen   53 LFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQ  129 (932)
T ss_pred             HHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHH
Confidence            46889999999999988876643 8889999999999999999999999999876  577777888888899888664  


Q ss_pred             --HHHHHHhcccCCchhHHHHHHHHHhcC-C---------hhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhH
Q 047359          100 --VVLGLLDSGIYSSVMYNLVIDFYSKKG-D---------FGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVS  167 (440)
Q Consensus       100 --~a~~~~~~~~~~~~~~~~li~~~~~~~-~---------~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a  167 (440)
                        .|.++++..+.+...+=+.++...+.. .         ..-|.+.++.+.+..|.--+..-...-...+-..|++++|
T Consensus       130 Qkaa~~LyK~~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~ea  209 (932)
T KOG2053|consen  130 QKAALQLYKNFPKRAYYFWSVISLILQSIFSENELLDPILLALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEA  209 (932)
T ss_pred             HHHHHHHHHhCCcccchHHHHHHHHHHhccCCcccccchhHHHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHH
Confidence              567777766655554444445444431 1         2235556666665333211222222223344567889999


Q ss_pred             HHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCC
Q 047359          168 DRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIE  217 (440)
Q Consensus       168 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  217 (440)
                      ..++..=......+-+ ...-+.-+..+...+++.+..++-.++...+..
T Consensus       210 l~~l~~~la~~l~~~~-~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~~D  258 (932)
T KOG2053|consen  210 LEFLAITLAEKLTSAN-LYLENKKLDLLKLLNRWQELFELSSRLLEKGND  258 (932)
T ss_pred             HHHHHHHHHHhccccc-hHHHHHHHHHHHHhcChHHHHHHHHHHHHhCCc
Confidence            9888433222222210 333345667778888888888888888777654

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.05  E-value=7.8e-05  Score=60.70  Aligned_cols=100  Identities=17%  Similarity=0.084  Sum_probs=81.7

Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHH
Q 047359          264 VLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDK  343 (440)
Q Consensus       264 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  343 (440)
                      -+.+.+++.+|+..|...++.. +.|.+.|..-..+|++.|.++.|++-.+..+..+.. ...+|..|..+|...|++++
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~-yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPH-YSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChH-HHHHHHHHHHHHHccCcHHH
Confidence            4667889999999999999864 456777888889999999999999998888886544 56789999999999999999


Q ss_pred             HHHHHHHHHhccCCcCHHhHHHHH
Q 047359          344 AIALHIKIEKLKGSLDVATYDVLL  367 (440)
Q Consensus       344 a~~~~~~~~~~~~~p~~~~~~~l~  367 (440)
                      |++.|++.++  +.|+-.+|-.=+
T Consensus       168 A~~aykKaLe--ldP~Ne~~K~nL  189 (304)
T KOG0553|consen  168 AIEAYKKALE--LDPDNESYKSNL  189 (304)
T ss_pred             HHHHHHhhhc--cCCCcHHHHHHH
Confidence            9999998887  566666664433

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.05  E-value=0.00012  Score=64.45  Aligned_cols=124  Identities=19%  Similarity=0.157  Sum_probs=92.2

Q ss_pred             CCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHc--CCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhh
Q 047359          250 GITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVER--GYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFC  327 (440)
Q Consensus       250 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  327 (440)
                      +.+.+......+++.+....+.+.+..++......  ....-..|..++++.|.+.|..+.+..+++.=...|+-||..+
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            44456667777888887777888888888777654  2222334556888888888888888888888888888888888


Q ss_pred             hHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhc
Q 047359          328 CSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKD  373 (440)
Q Consensus       328 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  373 (440)
                      ++.++..+.+.|++..|.++...|...+.-.+..|+..-+.+|.+.
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            8888888888888888888888887776655666665555555554

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 [].

>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=98.04  E-value=0.0001  Score=50.95  Aligned_cols=95  Identities=19%  Similarity=0.170  Sum_probs=56.0

Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhc
Q 047359          294 SRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKD  373 (440)
Q Consensus       294 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  373 (440)
                      ..+...+...|++++|...++...+.... +...+..+...+...+++++|.+.++...+.... +..++..+...+...
T Consensus         4 ~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~   81 (100)
T cd00189           4 LNLGNLYYKLGDYDEALEYYEKALELDPD-NADAYYNLAAAYYKLGKYEEALEDYEKALELDPD-NAKAYYNLGLAYYKL   81 (100)
T ss_pred             HHHHHHHHHHhcHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCc-chhHHHHHHHHHHHH
Confidence            33444555566666666666666554322 3344555566666666777777776666654322 334566666666677


Q ss_pred             CcHHHHHHHHHHHHHcC
Q 047359          374 GRMEEAVRIFDYMKELK  390 (440)
Q Consensus       374 g~~~~a~~~~~~~~~~~  390 (440)
                      |+++.|...+....+..
T Consensus        82 ~~~~~a~~~~~~~~~~~   98 (100)
T cd00189          82 GKYEEALEAYEKALELD   98 (100)
T ss_pred             HhHHHHHHHHHHHHccC
Confidence            77777777766665543

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.02  E-value=0.0001  Score=50.56  Aligned_cols=76  Identities=13%  Similarity=0.179  Sum_probs=40.0

Q ss_pred             HHHHHhhcCcHHHHHHHHHHHHhcCC-CCCHHhHHHHHHHHhhhc--------cHHHHHHHHHHHHHcCCCCChhhHHHH
Q 047359          191 VIQKLSDMGKTYAAEMIFKRACDEKI-ELQDDTCGCMLKALSKEG--------RVKEAIQIYHLISERGITVRDSDYYAF  261 (440)
Q Consensus       191 l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~~~l  261 (440)
                      .|..+...+++...-.+|+.+++.|+ .|+..+|+.++.+.++..        ++-..+.+|+.|...+++|+..+|+.+
T Consensus        31 ~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYniv  110 (120)
T PF08579_consen   31 NINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIV  110 (120)
T ss_pred             HHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHH
Confidence            34444444555555555555555555 555555555555544321        233444555555555555555555555


Q ss_pred             HHHHH
Q 047359          262 VNVLC  266 (440)
Q Consensus       262 ~~~~~  266 (440)
                      +..+.
T Consensus       111 l~~Ll  115 (120)
T PF08579_consen  111 LGSLL  115 (120)
T ss_pred             HHHHH
Confidence            55543

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 [, , ].

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.02  E-value=0.0033  Score=51.87  Aligned_cols=57  Identities=12%  Similarity=0.011  Sum_probs=46.8

Q ss_pred             HHHHHHHhcCcHHHHHHHHHHHHHcCCC---chhhHHHHHHHHHhcccHHHHHHHHHHHH
Q 047359          365 VLLDGLFKDGRMEEAVRIFDYMKELKVV---SSSSFVIVVSRLCHLKELRKAMKNHDEML  421 (440)
Q Consensus       365 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  421 (440)
                      .+...|.+.|.+..|..-++.+.+.-|.   .+.+...++.+|...|..++|......+.
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            5566788899999999999999987766   55678888899999999999988776554

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.01  E-value=0.00023  Score=55.50  Aligned_cols=100  Identities=12%  Similarity=0.037  Sum_probs=49.0

Q ss_pred             hHHHHHHHHcCCcHHHHHHHHHHHHhccCCcC--HHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHH
Q 047359          328 CSSLMEYYCSNRQIDKAIALHIKIEKLKGSLD--VATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLC  405 (440)
Q Consensus       328 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  405 (440)
                      +..+...+...|++++|...|++..+....+.  ...+..+...+.+.|++++|...++++.+..+.+...+..+...+.
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            33344444445555555555555544322211  2344445555555555555555555555544444444444444444


Q ss_pred             hccc--------------HHHHHHHHHHHHHCCCCCCH
Q 047359          406 HLKE--------------LRKAMKNHDEMLKMGHKPDE  429 (440)
Q Consensus       406 ~~g~--------------~~~a~~~~~~m~~~~~~p~~  429 (440)
                      ..|+              +++|.+.+++...  ..|+.
T Consensus       118 ~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~--~~p~~  153 (172)
T PRK02603        118 KRGEKAEEAGDQDEAEALFDKAAEYWKQAIR--LAPNN  153 (172)
T ss_pred             HcCChHhHhhCHHHHHHHHHHHHHHHHHHHh--hCchh
Confidence            4443              4566666666665  34553

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=98.01  E-value=0.0011  Score=56.43  Aligned_cols=137  Identities=11%  Similarity=0.090  Sum_probs=77.2

Q ss_pred             HHHHHHcC-CCHHHHHHHHHHHHhc----CC-CCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCC-----cCHH-hH
Q 047359          296 FVASQCGK-GKWKEVEELLSAVLDK----GL-LLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGS-----LDVA-TY  363 (440)
Q Consensus       296 l~~~~~~~-~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----p~~~-~~  363 (440)
                      +...|... |++++|.+.|++..+.    +- ..-..++..+...+.+.|++++|.++|+++......     .+.. .+
T Consensus       120 lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~  199 (282)
T PF14938_consen  120 LAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYF  199 (282)
T ss_dssp             HHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHH
Confidence            34456566 7888888888777542    20 111335566777888889999999999888764322     1221 22


Q ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHHcCCC--c---hhhHHHHHHHHHh--cccHHHHHHHHHHHHHCCCCCCHHHHHHHh
Q 047359          364 DVLLDGLFKDGRMEEAVRIFDYMKELKVV--S---SSSFVIVVSRLCH--LKELRKAMKNHDEMLKMGHKPDEATYKQVI  436 (440)
Q Consensus       364 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--~---~~~~~~l~~~~~~--~g~~~~a~~~~~~m~~~~~~p~~~t~~~ll  436 (440)
                      ...+-++...||...|.+.+++.....|.  +   ......|+.++-.  ...+++|+.-|+.+.    +.|..--..|+
T Consensus       200 l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~~D~e~f~~av~~~d~~~----~ld~w~~~~l~  275 (282)
T PF14938_consen  200 LKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEEGDVEAFTEAVAEYDSIS----RLDNWKTKMLL  275 (282)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHTT-CCCHHHHCHHHTTSS-------HHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHhCCHHHHHHHHHHHcccC----ccHHHHHHHHH
Confidence            33344666778899999999888876553  2   2355566666543  234555555555543    24444444443

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.00  E-value=0.00016  Score=61.21  Aligned_cols=126  Identities=12%  Similarity=0.100  Sum_probs=85.4

Q ss_pred             HhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHH-HHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 047359           13 DALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDA-LYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQI   91 (440)
Q Consensus        13 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   91 (440)
                      .+|-.++....+.+..+.|..+|.+..+.+ ..+...|-..... +...++.+.|.++|+...+. +..+...|...+..
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 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            467788888888888888888888887543 2233334333333 22246667788888888765 45567777788888


Q ss_pred             HHhcCChHHHHHHHhccc---CC----chhHHHHHHHHHhcCChhHHHHHHHHHhc
Q 047359           92 LCRSGKFEVVLGLLDSGI---YS----SVMYNLVIDFYSKKGDFGAAFDRLNEMCN  140 (440)
Q Consensus        92 ~~~~~~~~~a~~~~~~~~---~~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~  140 (440)
                      +.+.|+.+.|..+|++..   +.    ...|...+..=.+.|+.+.+.++..++.+
T Consensus        80 l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE  135 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            888888888888888776   22    33677778777788888888888877766

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.

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.00  E-value=0.00023  Score=52.81  Aligned_cols=95  Identities=9%  Similarity=-0.006  Sum_probs=75.5

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHh
Q 047359          293 LSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFK  372 (440)
Q Consensus       293 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  372 (440)
                      .-.+...+...|++++|.++|+.+....+. +..-|-.|..++-..|++++|+..|.......+. |+..+..+..++..
T Consensus        38 lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~-~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~d-dp~~~~~ag~c~L~  115 (157)
T PRK15363         38 LYRYAMQLMEVKEFAGAARLFQLLTIYDAW-SFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKID-APQAPWAAAECYLA  115 (157)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CchHHHHHHHHHHH
Confidence            344555566778999999999888876554 6666777777888889999999999988887654 77888888889999


Q ss_pred             cCcHHHHHHHHHHHHHc
Q 047359          373 DGRMEEAVRIFDYMKEL  389 (440)
Q Consensus       373 ~g~~~~a~~~~~~~~~~  389 (440)
                      .|+.+.|.+.|+.....
T Consensus       116 lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        116 CDNVCYAIKALKAVVRI  132 (157)
T ss_pred             cCCHHHHHHHHHHHHHH
Confidence            99999999988877764

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.99  E-value=0.00054  Score=48.98  Aligned_cols=92  Identities=21%  Similarity=0.041  Sum_probs=57.2

Q ss_pred             HHHHHHcCCcHHHHHHHHHHHHhccCCcC--HHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC---chhhHHHHHHHHH
Q 047359          331 LMEYYCSNRQIDKAIALHIKIEKLKGSLD--VATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV---SSSSFVIVVSRLC  405 (440)
Q Consensus       331 l~~~~~~~~~~~~a~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~~~~l~~~~~  405 (440)
                      ...++-..|+.++|+.+|++....|....  ...+-.+...+...|++++|..++++.....|.   +......+..++.
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            34455666777777777777777665433  234455666677777777777777777665554   3344444455666


Q ss_pred             hcccHHHHHHHHHHHHH
Q 047359          406 HLKELRKAMKNHDEMLK  422 (440)
Q Consensus       406 ~~g~~~~a~~~~~~m~~  422 (440)
                      ..|+.++|++.+-....
T Consensus        87 ~~gr~~eAl~~~l~~la  103 (120)
T PF12688_consen   87 NLGRPKEALEWLLEALA  103 (120)
T ss_pred             HCCCHHHHHHHHHHHHH
Confidence            77777777776655443

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.99  E-value=0.00014  Score=49.85  Aligned_cols=79  Identities=15%  Similarity=0.275  Sum_probs=67.4

Q ss_pred             HHHHHHHHccCCcchHHHHHHHHHhcCC-ccChHhHHHHHHHHHhcc--------chhHHHHHHHHHHHcCCCCChhhHH
Q 047359           16 SLVLDCYSHKGLFMDGLEVYRMMRVYGF-VPAVSACNALLDALYRQN--------EIRLASCLYGAMVRDGVSPNKFTWS   86 (440)
Q Consensus        16 ~~li~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~ll~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~~   86 (440)
                      ...|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        +.-..+.+|+.|...+++|+..+|+
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYn  108 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYN  108 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHH
Confidence            3456667777999999999999999999 899999999999887652        3556788999999999999999999


Q ss_pred             HHHHHHHh
Q 047359           87 LVAQILCR   94 (440)
Q Consensus        87 ~l~~~~~~   94 (440)
                      .++..+.+
T Consensus       109 ivl~~Llk  116 (120)
T PF08579_consen  109 IVLGSLLK  116 (120)
T ss_pred             HHHHHHHH
Confidence            99987764

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 [, , ].

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.98  E-value=0.0012  Score=56.16  Aligned_cols=24  Identities=29%  Similarity=0.466  Sum_probs=11.0

Q ss_pred             HHHHHHhhhccHHHHHHHHHHHHH
Q 047359          225 CMLKALSKEGRVKEAIQIYHLISE  248 (440)
Q Consensus       225 ~l~~~~~~~~~~~~a~~~~~~~~~  248 (440)
                      .+...+.+.|++++|.++|++...
T Consensus       160 ~~A~l~~~l~~y~~A~~~~e~~~~  183 (282)
T PF14938_consen  160 KAADLYARLGRYEEAIEIYEEVAK  183 (282)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHH
Confidence            334444445555555555554443

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.98  E-value=0.00058  Score=62.77  Aligned_cols=62  Identities=16%  Similarity=0.195  Sum_probs=34.8

Q ss_pred             HHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          360 VATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       360 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      ...|..+.-.....|++++|...++++.+.++ +...|..+...+...|+.++|.+.+++...
T Consensus       420 ~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~p-s~~a~~~lG~~~~~~G~~~eA~~~~~~A~~  481 (517)
T PRK10153        420 PRIYEILAVQALVKGKTDEAYQAINKAIDLEM-SWLNYVLLGKVYELKGDNRLAADAYSTAFN  481 (517)
T ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            34455554444455666666666666655554 344555555556666666666666655554

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.97  E-value=0.0039  Score=50.05  Aligned_cols=82  Identities=13%  Similarity=0.112  Sum_probs=49.1

Q ss_pred             HHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC---chhhHHHHHHHHH
Q 047359          329 SSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV---SSSSFVIVVSRLC  405 (440)
Q Consensus       329 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~~~~l~~~~~  405 (440)
                      ..++.-|-...-..+|...+..+.+.    =...--.+...|.+.|.+..|..-++.+.+.-|.   ...+...++.++.
T Consensus       114 ~~li~~yP~S~y~~~A~~~l~~l~~~----la~~e~~ia~~Y~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~  189 (203)
T PF13525_consen  114 EELIKRYPNSEYAEEAKKRLAELRNR----LAEHELYIARFYYKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYY  189 (203)
T ss_dssp             HHHHHH-TTSTTHHHHHHHHHHHHHH----HHHHHHHHHHHHHCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCcCchHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHH
Confidence            33444444444555555555544432    1111123566788888999999888888887766   3356777888888


Q ss_pred             hcccHHHHH
Q 047359          406 HLKELRKAM  414 (440)
Q Consensus       406 ~~g~~~~a~  414 (440)
                      +.|..+.+.
T Consensus       190 ~l~~~~~a~  198 (203)
T PF13525_consen  190 KLGLKQAAD  198 (203)
T ss_dssp             HTT-HHHHH
T ss_pred             HhCChHHHH
Confidence            888776443

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.94  E-value=0.00067  Score=52.93  Aligned_cols=83  Identities=11%  Similarity=0.048  Sum_probs=38.0

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC--hhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHH
Q 047359          258 YYAFVNVLCKEHQPEEVCGLLRDVVERGYIPC--AMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYY  335 (440)
Q Consensus       258 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  335 (440)
                      +..+...+...|++++|...+++..+....+.  ...+..+...+.+.|++++|...+++.....+. +...+..+...+
T Consensus        38 ~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~  116 (172)
T PRK02603         38 YYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPK-QPSALNNIAVIY  116 (172)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHH
Confidence            44444455555555555555555554321111  234444445555555555555555555443222 233333344444


Q ss_pred             HcCCcH
Q 047359          336 CSNRQI  341 (440)
Q Consensus       336 ~~~~~~  341 (440)
                      ...|+.
T Consensus       117 ~~~g~~  122 (172)
T PRK02603        117 HKRGEK  122 (172)
T ss_pred             HHcCCh
Confidence            444443

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.92  E-value=0.0024  Score=54.61  Aligned_cols=276  Identities=12%  Similarity=0.021  Sum_probs=149.8

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHhcCCCCCCc-hhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHH
Q 047359          116 NLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPG-FSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQK  194 (440)
Q Consensus       116 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~  194 (440)
                      ......+.+..++..|+..+....+   .-|+ ..-|..-...+...++++++.--.+.-.+.  .|.. .......-++
T Consensus        53 k~~gn~~yk~k~Y~nal~~yt~Ai~---~~pd~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~--kd~~-~k~~~r~~~c  126 (486)
T KOG0550|consen   53 KEEGNAFYKQKTYGNALKNYTFAID---MCPDNASYYSNRAATLMMLGRFEEALGDARQSVRL--KDGF-SKGQLREGQC  126 (486)
T ss_pred             HhhcchHHHHhhHHHHHHHHHHHHH---hCccchhhhchhHHHHHHHHhHhhcccchhhheec--CCCc-cccccchhhh
Confidence            3445677777888888888888876   4454 345556666677777777776555444332  2331 3455556666


Q ss_pred             HhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCC-CCChhhHHHH-HHHHHhcCChH
Q 047359          195 LSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGI-TVRDSDYYAF-VNVLCKEHQPE  272 (440)
Q Consensus       195 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l-~~~~~~~~~~~  272 (440)
                      +...++..+|.+.++.-.         .+           ....++..++....... +|.-.++..+ ..++...|+++
T Consensus       127 ~~a~~~~i~A~~~~~~~~---------~~-----------~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~  186 (486)
T KOG0550|consen  127 HLALSDLIEAEEKLKSKQ---------AY-----------KAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYD  186 (486)
T ss_pred             hhhhHHHHHHHHHhhhhh---------hh-----------HHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccch
Confidence            666666666666665111         00           11112222222222111 1222223222 12344556666


Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHHH--HHcCCCHHHHHHHHHHHHhcCCCCchhhhHH---H----------HHHHHc
Q 047359          273 EVCGLLRDVVERGYIPCAMELSRFVAS--QCGKGKWKEVEELLSAVLDKGLLLDSFCCSS---L----------MEYYCS  337 (440)
Q Consensus       273 ~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---l----------~~~~~~  337 (440)
                      +|..+-..+++.+   ....+...+++  +.-.++.+.+...|++.+..++  +...-..   .          ..-..+
T Consensus       187 ~a~~ea~~ilkld---~~n~~al~vrg~~~yy~~~~~ka~~hf~qal~ldp--dh~~sk~~~~~~k~le~~k~~gN~~fk  261 (486)
T KOG0550|consen  187 EAQSEAIDILKLD---ATNAEALYVRGLCLYYNDNADKAINHFQQALRLDP--DHQKSKSASMMPKKLEVKKERGNDAFK  261 (486)
T ss_pred             hHHHHHHHHHhcc---cchhHHHHhcccccccccchHHHHHHHhhhhccCh--hhhhHHhHhhhHHHHHHHHhhhhhHhh
Confidence            6666655555432   11122222222  2224566666666666655432  2211111   1          112346


Q ss_pred             CCcHHHHHHHHHHHHhcc---CCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHH
Q 047359          338 NRQIDKAIALHIKIEKLK---GSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAM  414 (440)
Q Consensus       338 ~~~~~~a~~~~~~~~~~~---~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  414 (440)
                      .|++..|.+.|.+.+...   .+|+...|.....+..+.|+.++|+.-.++..+.++.-...+..-..++.-.++|++|+
T Consensus       262 ~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~syikall~ra~c~l~le~~e~AV  341 (486)
T KOG0550|consen  262 NGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSSYIKALLRRANCHLALEKWEEAV  341 (486)
T ss_pred             ccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            677777777777777542   34556666666667777778888777777777765444455555556666677777777


Q ss_pred             HHHHHHHH
Q 047359          415 KNHDEMLK  422 (440)
Q Consensus       415 ~~~~~m~~  422 (440)
                      +-+++..+
T Consensus       342 ~d~~~a~q  349 (486)
T KOG0550|consen  342 EDYEKAMQ  349 (486)
T ss_pred             HHHHHHHh
Confidence            77777665

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.92  E-value=8.4e-05  Score=47.06  Aligned_cols=62  Identities=23%  Similarity=0.265  Sum_probs=43.4

Q ss_pred             HHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc
Q 047359          331 LMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVS  393 (440)
Q Consensus       331 l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  393 (440)
                      +...+...|++++|.+.|+++++..+. +...+..+..++...|++++|...|+++.+..|.+
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~~   64 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPD-NPEAWYLLGRILYQQGRYDEALAYYERALELDPDN   64 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTT-HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCC
Confidence            345667777788888888877776533 66677777777778888888888887777766553

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.89  E-value=0.00011  Score=47.79  Aligned_cols=66  Identities=17%  Similarity=0.281  Sum_probs=51.9

Q ss_pred             HHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 047359          368 DGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQV  435 (440)
Q Consensus       368 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~l  435 (440)
                      ..|.+.+++++|.++++.+...+|.++..+.....++.+.|++++|.+.+++..+  ..|+..+...+
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~--~~p~~~~~~~~   68 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALE--LSPDDPDARAL   68 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHH--HCCCcHHHHHH
Confidence            4677788888888888888888888888888888888888888888888888887  45666555444

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.88  E-value=0.00039  Score=54.03  Aligned_cols=96  Identities=9%  Similarity=-0.104  Sum_probs=69.5

Q ss_pred             hhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCc--CHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHH
Q 047359          325 SFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSL--DVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVS  402 (440)
Q Consensus       325 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  402 (440)
                      ...+..+...+...|++++|...+++.......|  ...++..+...+...|++++|+..+++..+..+.....+..+..
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la~  114 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMAV  114 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHH
Confidence            4456666777778888888888888887653332  23477788888888899999999888888876666666777666


Q ss_pred             HHH-------hcccHHHHHHHHHHH
Q 047359          403 RLC-------HLKELRKAMKNHDEM  420 (440)
Q Consensus       403 ~~~-------~~g~~~~a~~~~~~m  420 (440)
                      .+.       ..|++++|...+++.
T Consensus       115 i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        115 ICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHhhHHHHHcccHHHHHHHHHHH
Confidence            666       777877665555543

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.87  E-value=0.0068  Score=50.03  Aligned_cols=178  Identities=11%  Similarity=-0.012  Sum_probs=101.1

Q ss_pred             HHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHh--HHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh-
Q 047359          191 VIQKLSDMGKTYAAEMIFKRACDEKIELQDDT--CGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCK-  267 (440)
Q Consensus       191 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-  267 (440)
                      ....+...|++++|.+.|+.+....+.+....  .-.+..++.+.+++++|...+++..+..+.....-+...+.+.+. 
T Consensus        38 ~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~~  117 (243)
T PRK10866         38 TAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTNM  117 (243)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhhh
Confidence            44445556666666666666666544322111  123455666777777777777777766443333333333333321 


Q ss_pred             -c---------------CC---hHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhh
Q 047359          268 -E---------------HQ---PEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCC  328 (440)
Q Consensus       268 -~---------------~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  328 (440)
                       .               .+   ..+|...|+.+++.  -|+.             .-..+|...+..+...    =...-
T Consensus       118 ~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~--yP~S-------------~ya~~A~~rl~~l~~~----la~~e  178 (243)
T PRK10866        118 ALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG--YPNS-------------QYTTDATKRLVFLKDR----LAKYE  178 (243)
T ss_pred             hcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH--CcCC-------------hhHHHHHHHHHHHHHH----HHHHH
Confidence             0               11   12344555555543  2332             2334454444444322    01111


Q ss_pred             HHHHHHHHcCCcHHHHHHHHHHHHhccC--CcCHHhHHHHHHHHHhcCcHHHHHHHHHHHH
Q 047359          329 SSLMEYYCSNRQIDKAIALHIKIEKLKG--SLDVATYDVLLDGLFKDGRMEEAVRIFDYMK  387 (440)
Q Consensus       329 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  387 (440)
                      -.+.+.|.+.|.+..|..-++.+++.-+  +........++.+|...|..++|.++...+.
T Consensus       179 ~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        179 LSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            2466778899999999999999987522  2344566778899999999999988776554

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.87  E-value=2.1e-05  Score=41.16  Aligned_cols=29  Identities=17%  Similarity=0.323  Sum_probs=14.8

Q ss_pred             hHHHHHHHHHhccchhHHHHHHHHHHHcC
Q 047359           49 ACNALLDALYRQNEIRLASCLYGAMVRDG   77 (440)
Q Consensus        49 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~   77 (440)
                      +|+.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            34555555555555555555555554443

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.86  E-value=2.2e-05  Score=41.07  Aligned_cols=29  Identities=28%  Similarity=0.609  Sum_probs=15.2

Q ss_pred             hHHHHHHHHhhhccHHHHHHHHHHHHHcC
Q 047359          222 TCGCMLKALSKEGRVKEAIQIYHLISERG  250 (440)
Q Consensus       222 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  250 (440)
                      +|+.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            45555555555555555555555555443

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.

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.81  E-value=0.01  Score=53.93  Aligned_cols=108  Identities=17%  Similarity=0.233  Sum_probs=62.9

Q ss_pred             CChHhHHHHHHHHHccCCcchHHHHH---------HHHHhcCCccChHhHHHHHHHHHhccc--hhHHHHHHHHHHHcCC
Q 047359           10 SQSDALSLVLDCYSHKGLFMDGLEVY---------RMMRVYGFVPAVSACNALLDALYRQNE--IRLASCLYGAMVRDGV   78 (440)
Q Consensus        10 ~~~~~~~~li~~~~~~~~~~~A~~~~---------~~~~~~~~~~~~~~~~~ll~~~~~~~~--~~~a~~~~~~~~~~~~   78 (440)
                      |....+.+-+-.|...|.+++|.++-         +.+...  ..+.-.++..=.+|.+-++  +-+...-++++.+.|-
T Consensus       554 ~~evp~~~~m~q~Ieag~f~ea~~iaclgVv~~DW~~LA~~--ALeAL~f~~ARkAY~rVRdl~~L~li~EL~~~k~rge  631 (1081)
T KOG1538|consen  554 AVEVPQSAPMYQYIERGLFKEAYQIACLGVTDTDWRELAME--ALEALDFETARKAYIRVRDLRYLELISELEERKKRGE  631 (1081)
T ss_pred             cccccccccchhhhhccchhhhhcccccceecchHHHHHHH--HHhhhhhHHHHHHHHHHhccHHHHHHHHHHHHHhcCC
Confidence            44444555566677778877776542         111111  1122234444455555444  3344445567777777


Q ss_pred             CCChhhHHHHHHHHHhcCChHHHHHHHhcccCCchhHHHHHHHHHhcCChhHHHHHHHHHh
Q 047359           79 SPNKFTWSLVAQILCRSGKFEVVLGLLDSGIYSSVMYNLVIDFYSKKGDFGAAFDRLNEMC  139 (440)
Q Consensus        79 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~  139 (440)
                      .|+...   +...++-.|++.+|-++|.+                 +|.-..|+++|..|+
T Consensus       632 ~P~~iL---lA~~~Ay~gKF~EAAklFk~-----------------~G~enRAlEmyTDlR  672 (1081)
T KOG1538|consen  632 TPNDLL---LADVFAYQGKFHEAAKLFKR-----------------SGHENRALEMYTDLR  672 (1081)
T ss_pred             CchHHH---HHHHHHhhhhHHHHHHHHHH-----------------cCchhhHHHHHHHHH
Confidence            677654   55667778888888776644                 566777777777664

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.80  E-value=0.00075  Score=52.44  Aligned_cols=64  Identities=11%  Similarity=-0.149  Sum_probs=28.4

Q ss_pred             hHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHh
Q 047359          150 TYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACD  213 (440)
Q Consensus       150 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (440)
                      .|..+...+...|++++|...++........|.....++..+...+...|++++|...++....
T Consensus        37 ~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~  100 (168)
T CHL00033         37 TYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALE  100 (168)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3344444444455555555555555443211110122444444455555555555555544443

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.78  E-value=0.019  Score=49.36  Aligned_cols=168  Identities=11%  Similarity=0.004  Sum_probs=96.5

Q ss_pred             CchhhHHHHH-HHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHH--HHHhhcCcHHHHHHHHHHHHhcCCCCCHH-
Q 047359          146 PGFSTYSSIL-DGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVI--QKLSDMGKTYAAEMIFKRACDEKIELQDD-  221 (440)
Q Consensus       146 p~~~~~~~l~-~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~--~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-  221 (440)
                      |...++..+- .++...|+.++|.++-...++.+  +.   ..+...+  .++.-.++.+.+...|++....++..... 
T Consensus       166 pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld--~~---n~~al~vrg~~~yy~~~~~ka~~hf~qal~ldpdh~~sk  240 (486)
T KOG0550|consen  166 PACFKAKLLKAECLAFLGDYDEAQSEAIDILKLD--AT---NAEALYVRGLCLYYNDNADKAINHFQQALRLDPDHQKSK  240 (486)
T ss_pred             chhhHHHHhhhhhhhhcccchhHHHHHHHHHhcc--cc---hhHHHHhcccccccccchHHHHHHHhhhhccChhhhhHH
Confidence            3344444333 35667788888888877776643  22   2222233  33445677888888888877654331110 


Q ss_pred             h----------HHHHHHHHhhhccHHHHHHHHHHHHHcC---CCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 047359          222 T----------CGCMLKALSKEGRVKEAIQIYHLISERG---ITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIP  288 (440)
Q Consensus       222 ~----------~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  288 (440)
                      +          +..-..-..+.|++..|.+.|.+.+..+   ..|+...|.....+..+.|+.++|+.-.+...+.+ +.
T Consensus       241 ~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD-~s  319 (486)
T KOG0550|consen  241 SASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKID-SS  319 (486)
T ss_pred             hHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcC-HH
Confidence            1          1111223456678888888888877653   34445556666666777788888877777766532 00


Q ss_pred             ChhhHHHHHHHHHcCCCHHHHHHHHHHHHhc
Q 047359          289 CAMELSRFVASQCGKGKWKEVEELLSAVLDK  319 (440)
Q Consensus       289 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  319 (440)
                      -...+..-..++...++|++|.+-+++..+.
T Consensus       320 yikall~ra~c~l~le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  320 YIKALLRRANCHLALEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            0112222233344457777777777777654

>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=97.78  E-value=0.00016  Score=46.21  Aligned_cols=57  Identities=18%  Similarity=0.197  Sum_probs=35.2

Q ss_pred             cCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCch
Q 047359          337 SNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSS  394 (440)
Q Consensus       337 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  394 (440)
                      ..|++++|++.|+++.+..+. +...+..+..+|.+.|++++|.++++++....+.++
T Consensus         3 ~~~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~   59 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRNPD-NPEARLLLAQCYLKQGQYDEAEELLERLLKQDPDNP   59 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHTTT-SHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTTHH
T ss_pred             hccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCHH
Confidence            456666666666666665443 555555666666666666666666666666655543

...

>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=97.78  E-value=0.00023  Score=45.66  Aligned_cols=67  Identities=22%  Similarity=0.228  Sum_probs=48.8

Q ss_pred             chhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcC-cHHHHHHHHHHHHHcCC
Q 047359          324 DSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDG-RMEEAVRIFDYMKELKV  391 (440)
Q Consensus       324 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~~~~  391 (440)
                      +...|..+...+...|++++|+..|++.++.... +...|..+..+|...| ++++|++.+++..+.+|
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~-~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPN-NAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            3456677777777888888888888888776443 5667777777777877 68888888877776543

...

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.75  E-value=0.00083  Score=55.80  Aligned_cols=102  Identities=13%  Similarity=0.050  Sum_probs=67.8

Q ss_pred             hhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcC--HHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC---chhhHHHHH
Q 047359          327 CCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLD--VATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV---SSSSFVIVV  401 (440)
Q Consensus       327 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~~~~l~  401 (440)
                      .|...+..+.+.|++++|...|+.+++..+...  ...+..+...|...|++++|...|+.+.+..|.   .+.++..++
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg  224 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVG  224 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHH
Confidence            344444444556777888877777776533211  245667777777888888888888888766555   345566666


Q ss_pred             HHHHhcccHHHHHHHHHHHHHCCCCCCHH
Q 047359          402 SRLCHLKELRKAMKNHDEMLKMGHKPDEA  430 (440)
Q Consensus       402 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  430 (440)
                      ..+...|+.++|..+|++.++.  .|+..
T Consensus       225 ~~~~~~g~~~~A~~~~~~vi~~--yP~s~  251 (263)
T PRK10803        225 VIMQDKGDTAKAKAVYQQVIKK--YPGTD  251 (263)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH--CcCCH
Confidence            7777788888888888877763  45543

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.74  E-value=0.0013  Score=60.64  Aligned_cols=131  Identities=12%  Similarity=0.103  Sum_probs=83.9

Q ss_pred             CccChHhHHHHHHHHHhc-----cchhHHHHHHHHHHHcCCCCC-hhhHHHHHHHHHhc--------CChHHHHHHHhcc
Q 047359           43 FVPAVSACNALLDALYRQ-----NEIRLASCLYGAMVRDGVSPN-KFTWSLVAQILCRS--------GKFEVVLGLLDSG  108 (440)
Q Consensus        43 ~~~~~~~~~~ll~~~~~~-----~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~--------~~~~~a~~~~~~~  108 (440)
                      .+.|...|...+++....     ++.+.|..+|++..+.  .|+ ...+..+..++...        .++..+.+..++.
T Consensus       333 ~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a  410 (517)
T PRK10153        333 LPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNI  410 (517)
T ss_pred             CCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHh
Confidence            356667777777664432     2366777777777765  344 33344333322221        1233444444432


Q ss_pred             c------CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcC
Q 047359          109 I------YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKK  178 (440)
Q Consensus       109 ~------~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  178 (440)
                      .      .+...|..+.-.....|++++|...+++...   +.|+...|..+...+...|+.++|...+++....+
T Consensus       411 ~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~---L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~  483 (517)
T PRK10153        411 VALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAID---LEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLR  483 (517)
T ss_pred             hhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHH---cCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            1      3345676666666677888888888888877   55787788888888888889888888888887755

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.74  E-value=0.013  Score=47.09  Aligned_cols=171  Identities=13%  Similarity=0.091  Sum_probs=81.2

Q ss_pred             HHHHHhhcCcHHHHHHHHHHHHhcCCCC--CHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh-
Q 047359          191 VIQKLSDMGKTYAAEMIFKRACDEKIEL--QDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCK-  267 (440)
Q Consensus       191 l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-  267 (440)
                      ....+...|++.+|.+.|+.+....+..  -....-.++.++.+.|+++.|...+++..+.-+.....-+...+.+.+. 
T Consensus        11 ~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~~   90 (203)
T PF13525_consen   11 KALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSYY   90 (203)
T ss_dssp             HHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHH
Confidence            3344445555555555555555432221  1223334455555666666666666665554322222222222222211 


Q ss_pred             ------------cCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHH
Q 047359          268 ------------EHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYY  335 (440)
Q Consensus       268 ------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  335 (440)
                                  .+...+|...|+.+++               -|=...-..+|...+..+.+.    =...--.+...|
T Consensus        91 ~~~~~~~~~~~D~~~~~~A~~~~~~li~---------------~yP~S~y~~~A~~~l~~l~~~----la~~e~~ia~~Y  151 (203)
T PF13525_consen   91 KQIPGILRSDRDQTSTRKAIEEFEELIK---------------RYPNSEYAEEAKKRLAELRNR----LAEHELYIARFY  151 (203)
T ss_dssp             HHHHHHH-TT---HHHHHHHHHHHHHHH---------------H-TTSTTHHHHHHHHHHHHHH----HHHHHHHHHHHH
T ss_pred             HhCccchhcccChHHHHHHHHHHHHHHH---------------HCcCchHHHHHHHHHHHHHHH----HHHHHHHHHHHH
Confidence                        1122334444444443               333334445555554444332    011112356678


Q ss_pred             HcCCcHHHHHHHHHHHHhccCC--cCHHhHHHHHHHHHhcCcHHHHH
Q 047359          336 CSNRQIDKAIALHIKIEKLKGS--LDVATYDVLLDGLFKDGRMEEAV  380 (440)
Q Consensus       336 ~~~~~~~~a~~~~~~~~~~~~~--p~~~~~~~l~~~~~~~g~~~~a~  380 (440)
                      .+.|.+..|..-++.+++.-+.  ........++.+|.+.|..+.|.
T Consensus       152 ~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  152 YKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             HCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            8899999999988888876322  11235567778888888877544

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.68  E-value=0.032  Score=48.77  Aligned_cols=397  Identities=12%  Similarity=0.083  Sum_probs=198.2

Q ss_pred             HHccCCcchHHHHHHHHHhcCCccC------hHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHH--HH
Q 047359           22 YSHKGLFMDGLEVYRMMRVYGFVPA------VSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQI--LC   93 (440)
Q Consensus        22 ~~~~~~~~~A~~~~~~~~~~~~~~~------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~   93 (440)
                      +-+++++.+|.++|.++.+.. ..+      ...-+.++.+|.. ++.+.....+....+.  .| ...|..+..+  +-
T Consensus        16 Lqkq~~~~esEkifskI~~e~-~~~~f~lkeEvl~grilnAffl-~nld~Me~~l~~l~~~--~~-~s~~l~LF~~L~~Y   90 (549)
T PF07079_consen   16 LQKQKKFQESEKIFSKIYDEK-ESSPFLLKEEVLGGRILNAFFL-NNLDLMEKQLMELRQQ--FG-KSAYLPLFKALVAY   90 (549)
T ss_pred             HHHHhhhhHHHHHHHHHHHHh-hcchHHHHHHHHhhHHHHHHHH-hhHHHHHHHHHHHHHh--cC-CchHHHHHHHHHHH
Confidence            456789999999999987643 222      2234556677665 3566666666666553  23 3345555444  34


Q ss_pred             hcCChHHHHHHHhccc-------------------CCchhHHHHHHHHHhcCChhHHHHHHHHHhcC---CCCCCchhhH
Q 047359           94 RSGKFEVVLGLLDSGI-------------------YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNG---RNLTPGFSTY  151 (440)
Q Consensus        94 ~~~~~~~a~~~~~~~~-------------------~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~p~~~~~  151 (440)
                      +.+++.+|.+.+..-.                   ++...=+..+.++...|++.++..+++++...   ....-+..+|
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            6678888888765432                   22222366778889999999999999988651   2233567778


Q ss_pred             HHHHHHHHhc--------CChhhHHHHHH-------HHHhc------CCCCcccccchHHHHHHHhhc--CcHHHHHHHH
Q 047359          152 SSILDGARRY--------EKTEVSDRIVG-------LMVEK------KLLPKHFLSGNDYVIQKLSDM--GKTYAAEMIF  208 (440)
Q Consensus       152 ~~l~~~~~~~--------~~~~~a~~~~~-------~~~~~------~~~~~~~~~~~~~l~~~~~~~--~~~~~a~~~~  208 (440)
                      +.++-.+.++        ...+-....++       ++...      .+.|.  ......++....-.  ....--.+++
T Consensus       171 d~~vlmlsrSYfLEl~e~~s~dl~pdyYemilfY~kki~~~d~~~Y~k~~pe--eeL~s~imqhlfi~p~e~l~~~mq~l  248 (549)
T PF07079_consen  171 DRAVLMLSRSYFLELKESMSSDLYPDYYEMILFYLKKIHAFDQRPYEKFIPE--EELFSTIMQHLFIVPKERLPPLMQIL  248 (549)
T ss_pred             HHHHHHHhHHHHHHHHHhcccccChHHHHHHHHHHHHHHHHhhchHHhhCcH--HHHHHHHHHHHHhCCHhhccHHHHHH
Confidence            7755444332        11111111111       11110      11222  11111111111111  0111112222


Q ss_pred             HHHHhcCCCCCHH-hHHHHHHHHhhhccHHHHHHHHHHHHHcCCCC----ChhhHHHHHHHHHhcCChHHHHHHHHHHHH
Q 047359          209 KRACDEKIELQDD-TCGCMLKALSKEGRVKEAIQIYHLISERGITV----RDSDYYAFVNVLCKEHQPEEVCGLLRDVVE  283 (440)
Q Consensus       209 ~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  283 (440)
                      ......-+.|+.. +...+...+.+  +.+++..+-+.+....+.+    =..+|..++....+.++...|...+.-+.-
T Consensus       249 ~~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~  326 (549)
T PF07079_consen  249 ENWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKI  326 (549)
T ss_pred             HHHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHh
Confidence            2222222333321 11122222222  3333333333332221110    123455555555555665555555444332


Q ss_pred             cCCCC-------------------ChhhHH------------------------HH---HHHHHcCCC-HHHHHHHHHHH
Q 047359          284 RGYIP-------------------CAMELS------------------------RF---VASQCGKGK-WKEVEELLSAV  316 (440)
Q Consensus       284 ~~~~~-------------------~~~~~~------------------------~l---~~~~~~~~~-~~~a~~~~~~~  316 (440)
                      .....                   |...++                        -|   ..-+-+.|. -++|..+++.+
T Consensus       327 ldp~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~DiDrqQLvh~L~~~Ak~lW~~g~~dekalnLLk~i  406 (549)
T PF07079_consen  327 LDPRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDIDRQQLVHYLVFGAKHLWEIGQCDEKALNLLKLI  406 (549)
T ss_pred             cCCcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhcccHHHHHHHHHHHHHHHHhcCCccHHHHHHHHHH
Confidence            11000                   000010                        01   111222333 56677777766


Q ss_pred             HhcCCCCchhhhHHHH----HHHH---cCCcHHHHHHHHHHHHhccCCcC----HHhHHHHHHH--HHhcCcHHHHHHHH
Q 047359          317 LDKGLLLDSFCCSSLM----EYYC---SNRQIDKAIALHIKIEKLKGSLD----VATYDVLLDG--LFKDGRMEEAVRIF  383 (440)
Q Consensus       317 ~~~~~~~~~~~~~~l~----~~~~---~~~~~~~a~~~~~~~~~~~~~p~----~~~~~~l~~~--~~~~g~~~~a~~~~  383 (440)
                      ..-... |..+-|.+.    ..|.   ....+.+-..+-+-+.+.|+.|-    ...-|.|.++  +...|++..+.-.-
T Consensus       407 l~ft~y-D~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys  485 (549)
T PF07079_consen  407 LQFTNY-DIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYS  485 (549)
T ss_pred             HHhccc-cHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHH
Confidence            654211 333322222    2232   22334444445455556676553    2344555444  45788888887766


Q ss_pred             HHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHHHHHH
Q 047359          384 DYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQ  434 (440)
Q Consensus       384 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~  434 (440)
                      .-+.+-.| ++.+|..++-++....++++|..++..     ++|+..++++
T Consensus       486 ~WL~~iaP-S~~~~RLlGl~l~e~k~Y~eA~~~l~~-----LP~n~~~~ds  530 (549)
T PF07079_consen  486 SWLTKIAP-SPQAYRLLGLCLMENKRYQEAWEYLQK-----LPPNERMRDS  530 (549)
T ss_pred             HHHHHhCC-cHHHHHHHHHHHHHHhhHHHHHHHHHh-----CCCchhhHHH
Confidence            66666655 889999999999999999999999987     4677766654

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PRK15331 chaperone protein SicA; Provisional

Probab=97.67  E-value=0.0043  Score=46.41  Aligned_cols=87  Identities=8%  Similarity=-0.029  Sum_probs=58.4

Q ss_pred             HHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHH
Q 047359          335 YCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAM  414 (440)
Q Consensus       335 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  414 (440)
                      +...|++++|..+|+-+.-.++. +..-|..|..++-..++++.|+..|......++.|+..+.....++...|+.+.|.
T Consensus        47 ~y~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f~agqC~l~l~~~~~A~  125 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRKAAKAR  125 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCCHHHHH
Confidence            34667777777777766654443 45556666666667777777777777666666566666666777777777777777


Q ss_pred             HHHHHHHH
Q 047359          415 KNHDEMLK  422 (440)
Q Consensus       415 ~~~~~m~~  422 (440)
                      ..|+...+
T Consensus       126 ~~f~~a~~  133 (165)
T PRK15331        126 QCFELVNE  133 (165)
T ss_pred             HHHHHHHh
Confidence            77766665

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.67  E-value=0.049  Score=50.69  Aligned_cols=108  Identities=17%  Similarity=0.137  Sum_probs=53.5

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHH
Q 047359          256 SDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYY  335 (440)
Q Consensus       256 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  335 (440)
                      -+.+--+.-+..-|+..+|.++-.+.+    .||-..|-.-+.+++..+++++-+++-+...      .+.-|.-++.+|
T Consensus       685 lSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~c  754 (829)
T KOG2280|consen  685 LSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVEAC  754 (829)
T ss_pred             CcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHHH
Confidence            344444444555555555555544432    3455555555555555555555444433221      234455555566


Q ss_pred             HcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHH
Q 047359          336 CSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRI  382 (440)
Q Consensus       336 ~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~  382 (440)
                      .+.|+.++|.+++.+....     .    -...+|.+.|++.+|.++
T Consensus       755 ~~~~n~~EA~KYiprv~~l-----~----ekv~ay~~~~~~~eAad~  792 (829)
T KOG2280|consen  755 LKQGNKDEAKKYIPRVGGL-----Q----EKVKAYLRVGDVKEAADL  792 (829)
T ss_pred             HhcccHHHHhhhhhccCCh-----H----HHHHHHHHhccHHHHHHH
Confidence            6666666665554333211     0    344555555555555543

>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=97.64  E-value=0.0018  Score=48.97  Aligned_cols=73  Identities=18%  Similarity=0.326  Sum_probs=58.1

Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHH-----CCCCCCHHHHHH
Q 047359          362 TYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLK-----MGHKPDEATYKQ  434 (440)
Q Consensus       362 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~-----~~~~p~~~t~~~  434 (440)
                      ....++..+...|++++|..+++.+...+|.+...|..++.+|...|+..+|.+.|+++.+     .|+.|+..|-..
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~l  141 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRAL  141 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHHH
Confidence            5566777888999999999999999999999999999999999999999999999998753     599999876543

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>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=97.62  E-value=0.00043  Score=53.93  Aligned_cols=90  Identities=20%  Similarity=0.272  Sum_probs=66.8

Q ss_pred             CCCChHhHHHHHHHHHcc-----CCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhc----------------cchhHH
Q 047359            8 RDSQSDALSLVLDCYSHK-----GLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQ----------------NEIRLA   66 (440)
Q Consensus         8 ~~~~~~~~~~li~~~~~~-----~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~----------------~~~~~a   66 (440)
                      -..|-.+|..+++.|.+.     |..+=....+..|.+.|+..|..+|+.|++.+-+.                .+-+-|
T Consensus        43 ~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~  122 (228)
T PF06239_consen   43 QAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECA  122 (228)
T ss_pred             ccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHH
Confidence            345667777788877654     45555667778888888888888888888886552                234567


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHHhcCC
Q 047359           67 SCLYGAMVRDGVSPNKFTWSLVAQILCRSGK   97 (440)
Q Consensus        67 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   97 (440)
                      ++++++|...|+-||..++..+++.+++.+.
T Consensus       123 i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  123 IDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            8888888888888888888888888776653

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=97.57  E-value=0.019  Score=43.62  Aligned_cols=130  Identities=13%  Similarity=0.105  Sum_probs=95.0

Q ss_pred             CCChhhHHHHHHHHHhcCChHHHHHHHhccc-----CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCC-CCCchhhHH
Q 047359           79 SPNKFTWSLVAQILCRSGKFEVVLGLLDSGI-----YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRN-LTPGFSTYS  152 (440)
Q Consensus        79 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-~~p~~~~~~  152 (440)
                      .|++..-..|..+..+.|+..+|...|++..     .|....-.+.++....+++..|...++.+.+ .+ -..+..+..
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e-~~pa~r~pd~~L  164 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLME-YNPAFRSPDGHL  164 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhh-cCCccCCCCchH
Confidence            5777777788888999999999999998876     6777778888888889999999999998876 22 111234556


Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHh
Q 047359          153 SILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACD  213 (440)
Q Consensus       153 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (440)
                      .+.+.+...|.+..|+.-|+.....-..|.    .-......+.+.|+.+++..-+..+.+
T Consensus       165 l~aR~laa~g~~a~Aesafe~a~~~ypg~~----ar~~Y~e~La~qgr~~ea~aq~~~v~d  221 (251)
T COG4700         165 LFARTLAAQGKYADAESAFEVAISYYPGPQ----ARIYYAEMLAKQGRLREANAQYVAVVD  221 (251)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHHhCCCHH----HHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence            677888889999999999999888653333    333345667777776666654444433

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.55  E-value=0.043  Score=47.00  Aligned_cols=290  Identities=10%  Similarity=0.028  Sum_probs=183.9

Q ss_pred             HHHHHHHHH--ccCCcchHHHHHHHHHhcCCccChHhHHHHHHH--HHhccchhHHHHHHHHHHHcCCCCChhh--HHHH
Q 047359           15 LSLVLDCYS--HKGLFMDGLEVYRMMRVYGFVPAVSACNALLDA--LYRQNEIRLASCLYGAMVRDGVSPNKFT--WSLV   88 (440)
Q Consensus        15 ~~~li~~~~--~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l   88 (440)
                      |..|-..+.  -.|+-..|.++-.+..+. +..|....-.++.+  -.-.|+++.|.+-|+.|..   .|....  ...|
T Consensus        85 yqALStGliAagAGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~---dPEtRllGLRgL  160 (531)
T COG3898          85 YQALSTGLIAAGAGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLD---DPETRLLGLRGL  160 (531)
T ss_pred             HHHHhhhhhhhccCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhc---ChHHHHHhHHHH
Confidence            444444443  357777787777665532 22344445555543  3456999999999999986   344332  2233


Q ss_pred             HHHHHhcCChHHHHHHHhccc----CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchh--hHHHHHHHHHh--
Q 047359           89 AQILCRSGKFEVVLGLLDSGI----YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFS--TYSSILDGARR--  160 (440)
Q Consensus        89 ~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~--~~~~l~~~~~~--  160 (440)
                      .-.--+.|+.+.|...-+...    .-...+...+...+..|+++.|+++++.-+...-+.++..  .-..|+.+-..  
T Consensus       161 yleAqr~GareaAr~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~  240 (531)
T COG3898         161 YLEAQRLGAREAARHYAERAAEKAPQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSL  240 (531)
T ss_pred             HHHHHhcccHHHHHHHHHHHHhhccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHH
Confidence            333457788888888777655    3456788899999999999999999998776444556543  22233332211  


Q ss_pred             -cCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHH
Q 047359          161 -YEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEA  239 (440)
Q Consensus       161 -~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  239 (440)
                       ..+...|...-.+..+  +.|+- ...-..-..++.+.|+..++-.+++.+-+..+.|+.  +...  .+.+.|+.  +
T Consensus       241 ldadp~~Ar~~A~~a~K--L~pdl-vPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~i--a~lY--~~ar~gdt--a  311 (531)
T COG3898         241 LDADPASARDDALEANK--LAPDL-VPAAVVAARALFRDGNLRKGSKILETAWKAEPHPDI--ALLY--VRARSGDT--A  311 (531)
T ss_pred             hcCChHHHHHHHHHHhh--cCCcc-chHHHHHHHHHHhccchhhhhhHHHHHHhcCCChHH--HHHH--HHhcCCCc--H
Confidence             2345555555555444  44552 334445668899999999999999999988666554  3222  23444543  3


Q ss_pred             HHHHHHHHHc-CCCC-ChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHc-CCCHHHHHHHHHHH
Q 047359          240 IQIYHLISER-GITV-RDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCG-KGKWKEVEELLSAV  316 (440)
Q Consensus       240 ~~~~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~  316 (440)
                      +.-++...+. ..+| +..+...+..+-...|++..|..--+.....  .|....|-.|.+.-.. .|+-.++...+.+.
T Consensus       312 ~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~--~pres~~lLlAdIeeAetGDqg~vR~wlAqa  389 (531)
T COG3898         312 LDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAARE--APRESAYLLLADIEEAETGDQGKVRQWLAQA  389 (531)
T ss_pred             HHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhhh--CchhhHHHHHHHHHhhccCchHHHHHHHHHH
Confidence            3333322221 1222 4456667778888889998888777766653  5777788777766544 49999999999888


Q ss_pred             Hhc
Q 047359          317 LDK  319 (440)
Q Consensus       317 ~~~  319 (440)
                      .+.
T Consensus       390 v~A  392 (531)
T COG3898         390 VKA  392 (531)
T ss_pred             hcC
Confidence            765

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.48  E-value=0.0069  Score=43.36  Aligned_cols=12  Identities=42%  Similarity=0.540  Sum_probs=5.0

Q ss_pred             hhccHHHHHHHH
Q 047359          232 KEGRVKEAIQIY  243 (440)
Q Consensus       232 ~~~~~~~a~~~~  243 (440)
                      ..|+.++|+..+
T Consensus        87 ~~gr~~eAl~~~   98 (120)
T PF12688_consen   87 NLGRPKEALEWL   98 (120)
T ss_pred             HCCCHHHHHHHH
Confidence            334444444433

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.48  E-value=0.056  Score=46.53  Aligned_cols=105  Identities=14%  Similarity=0.119  Sum_probs=50.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHc
Q 047359          258 YYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCS  337 (440)
Q Consensus       258 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  337 (440)
                      .+..+.-+...|+...|.++-++..    .|+...|..-+.+++..++|++-.++...      +-++.-|..++.+|.+
T Consensus       180 l~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~  249 (319)
T PF04840_consen  180 LNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLK  249 (319)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHH
Confidence            3334444445555555554444331    24555555555555555555554443221      1134455555555555


Q ss_pred             CCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHH
Q 047359          338 NRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRI  382 (440)
Q Consensus       338 ~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~  382 (440)
                      .|+..+|..+..++          .+..-+..|.++|++.+|.+.
T Consensus       250 ~~~~~eA~~yI~k~----------~~~~rv~~y~~~~~~~~A~~~  284 (319)
T PF04840_consen  250 YGNKKEASKYIPKI----------PDEERVEMYLKCGDYKEAAQE  284 (319)
T ss_pred             CCCHHHHHHHHHhC----------ChHHHHHHHHHCCCHHHHHHH
Confidence            55555555554431          113334455555555555443

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

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.45  E-value=0.0099  Score=49.09  Aligned_cols=104  Identities=15%  Similarity=0.056  Sum_probs=81.7

Q ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcC---CcHHHHHHHHHHHHhccCCcCHHhH
Q 047359          287 IPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSN---RQIDKAIALHIKIEKLKGSLDVATY  363 (440)
Q Consensus       287 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~~~p~~~~~  363 (440)
                      +-|...|..|...|...|+.+.|..-|....+...+ ++..+..+..++...   ....++..+|+++.+.... |..+.
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 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGD-NPEILLGLAEALYYQAGQQMTAKARALLRQALALDPA-NIRAL  230 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCc-cHHHH
Confidence            567888999999999999999999999988876433 666666666655433   2467788899999886544 66777


Q ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHHcCCC
Q 047359          364 DVLLDGLFKDGRMEEAVRIFDYMKELKVV  392 (440)
Q Consensus       364 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  392 (440)
                      ..|...+...|++.+|...|+.|.+..+.
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~lp~  259 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLLPA  259 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcCCC
Confidence            77788889999999999999999988777

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.42  E-value=0.071  Score=46.43  Aligned_cols=168  Identities=11%  Similarity=0.064  Sum_probs=81.8

Q ss_pred             HHHHHHhhhccHHHHHHHHHHHHHcC---CCCChhhHHHHHHHHHh---cCChHHHHHHHHHHHHcCCCCChhhHHHHHH
Q 047359          225 CMLKALSKEGRVKEAIQIYHLISERG---ITVRDSDYYAFVNVLCK---EHQPEEVCGLLRDVVERGYIPCAMELSRFVA  298 (440)
Q Consensus       225 ~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  298 (440)
                      .++-+|....+++...++.+.+....   +.-....-....-++.+   .|+.++|..++..+......++..++..+.+
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            34444555556666666655555431   11111222223333444   5566666666655444444455555555544


Q ss_pred             HHHc---------CCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCc----HHHHHHHH----HHHHhccC---Cc
Q 047359          299 SQCG---------KGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQ----IDKAIALH----IKIEKLKG---SL  358 (440)
Q Consensus       299 ~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----~~~a~~~~----~~~~~~~~---~p  358 (440)
                      .|-.         ....++|...|.+.-+..  |+...--.++..+...|.    -.+..++-    ..+.+.|.   ..
T Consensus       226 IyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~~--~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~~  303 (374)
T PF13281_consen  226 IYKDLFLESNFTDRESLDKAIEWYRKGFEIE--PDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKMQ  303 (374)
T ss_pred             HHHHHHHHcCccchHHHHHHHHHHHHHHcCC--ccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhccccccc
Confidence            4322         123566666666655432  333221112222222222    11222222    11112332   23


Q ss_pred             CHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCch
Q 047359          359 DVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSS  394 (440)
Q Consensus       359 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  394 (440)
                      +-.-+.+++.++.-.|+.+.|.+..++|....++.+
T Consensus       304 dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~~~W  339 (374)
T PF13281_consen  304 DYWDVATLLEASVLAGDYEKAIQAAEKAFKLKPPAW  339 (374)
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCcch
Confidence            455667788888888899999998888887765533

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.41  E-value=0.0037  Score=53.49  Aligned_cols=131  Identities=14%  Similarity=0.023  Sum_probs=76.9

Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHHH----hcCCC-CchhhhHHHHHHHHcCCcHHHHHHHHHHHHhc----cC-CcCHH
Q 047359          292 ELSRFVASQCGKGKWKEVEELLSAVL----DKGLL-LDSFCCSSLMEYYCSNRQIDKAIALHIKIEKL----KG-SLDVA  361 (440)
Q Consensus       292 ~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~p~~~  361 (440)
                      .|..|...|.-.|+++.|+...+.-.    +.|-. .....+..+..++.-.|+++.|.+.|+.....    |- .....
T Consensus       197 a~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQ  276 (639)
T KOG1130|consen  197 AYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQ  276 (639)
T ss_pred             hhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHH
Confidence            45555555656677777766554332    11211 12335556666777777777777776654422    21 12234


Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHHH----HcCCC--chhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          362 TYDVLLDGLFKDGRMEEAVRIFDYMK----ELKVV--SSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       362 ~~~~l~~~~~~~g~~~~a~~~~~~~~----~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      +..+|...|.-..+++.|+.++.+-.    +.+-.  ...++..|..++...|..++|+.+.+.-++
T Consensus       277 scYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  277 SCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            45567777777777777777765432    22111  456777788888878887877777665543

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.37  E-value=0.0019  Score=41.88  Aligned_cols=61  Identities=21%  Similarity=0.247  Sum_probs=41.5

Q ss_pred             HHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCch
Q 047359          333 EYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSS  394 (440)
Q Consensus       333 ~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  394 (440)
                      ..|.+.+++++|.++++++...++. +...+.....++.+.|++++|.+.|+...+.+|.++
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~   63 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPD-DPELWLQRARCLFQLGRYEEALEDLERALELSPDDP   63 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcc-cchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcH
Confidence            4566677777777777777766444 556666667777777777777777777777666543

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.36  E-value=0.0037  Score=51.98  Aligned_cols=97  Identities=13%  Similarity=0.075  Sum_probs=44.0

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCch----hhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHH
Q 047359          115 YNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGF----STYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDY  190 (440)
Q Consensus       115 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  190 (440)
                      |...+..+.+.|++++|...|+.+.+   ..|+.    ..+..+..++...|++++|...|+.+.+...........+..
T Consensus       146 Y~~A~~l~~~~~~y~~Ai~af~~fl~---~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~k  222 (263)
T PRK10803        146 YNAAIALVQDKSRQDDAIVAFQNFVK---KYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFK  222 (263)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH---HCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHH
Confidence            34444333445555555555555544   22322    234444455555555555555555555432111101223333


Q ss_pred             HHHHHhhcCcHHHHHHHHHHHHhc
Q 047359          191 VIQKLSDMGKTYAAEMIFKRACDE  214 (440)
Q Consensus       191 l~~~~~~~~~~~~a~~~~~~~~~~  214 (440)
                      +...+...|+.++|..+|+.+.+.
T Consensus       223 lg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        223 VGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH
Confidence            344444445555555555444443

>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=0.0041  Score=48.67  Aligned_cols=103  Identities=15%  Similarity=0.152  Sum_probs=56.4

Q ss_pred             CHHhHHHHHHHHhh-----hccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhH
Q 047359          219 QDDTCGCMLKALSK-----EGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMEL  293 (440)
Q Consensus       219 ~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  293 (440)
                      +-.+|..++..|.+     .|..+-....++.|.+-|+.-|..+|+.|++.+=+ |.+-               |... +
T Consensus        46 ~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fv---------------p~n~-f  108 (228)
T PF06239_consen   46 DKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFV---------------PRNF-F  108 (228)
T ss_pred             cHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcc---------------cccH-H
Confidence            45556666655543     35666666677777777777777777777776643 2111               1110 0


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCc
Q 047359          294 SRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQ  340 (440)
Q Consensus       294 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  340 (440)
                      -++...|  -.+-+-|++++++|...|+.||..++..+++.+++.+.
T Consensus       109 Q~~F~hy--p~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  109 QAEFMHY--PRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHhccC--cHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            0000011  12334566666666666666666666666666655543

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.33  E-value=0.13  Score=47.64  Aligned_cols=150  Identities=13%  Similarity=0.077  Sum_probs=68.7

Q ss_pred             cchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHhccc------CCchhHHHHHHHHHhcCChhHHHHH
Q 047359           61 NEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGI------YSSVMYNLVIDFYSKKGDFGAAFDR  134 (440)
Q Consensus        61 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~------~~~~~~~~li~~~~~~~~~~~a~~~  134 (440)
                      |++++|+++|-+|-+++         ..+..+.+.|++-.+.++++.-.      .-..+|+.+...+.....+++|.+.
T Consensus       748 g~feeaek~yld~drrD---------LAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~y  818 (1189)
T KOG2041|consen  748 GEFEEAEKLYLDADRRD---------LAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKY  818 (1189)
T ss_pred             cchhHhhhhhhccchhh---------hhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45555555554443321         12344445555555555555433      1123455555555555555555555


Q ss_pred             HHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhc
Q 047359          135 LNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDE  214 (440)
Q Consensus       135 ~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (440)
                      |..-..          -...+.++.+..++++-+.+...+.+     +  ....-.+.+++.+.|.-++|.+.+-+-.. 
T Consensus       819 Y~~~~~----------~e~~~ecly~le~f~~LE~la~~Lpe-----~--s~llp~~a~mf~svGMC~qAV~a~Lr~s~-  880 (1189)
T KOG2041|consen  819 YSYCGD----------TENQIECLYRLELFGELEVLARTLPE-----D--SELLPVMADMFTSVGMCDQAVEAYLRRSL-  880 (1189)
T ss_pred             HHhccc----------hHhHHHHHHHHHhhhhHHHHHHhcCc-----c--cchHHHHHHHHHhhchHHHHHHHHHhccC-
Confidence            544321          01234444444444444443333321     1  33334455666666666666555433211 


Q ss_pred             CCCCCHHhHHHHHHHHhhhccHHHHHHHHHH
Q 047359          215 KIELQDDTCGCMLKALSKEGRVKEAIQIYHL  245 (440)
Q Consensus       215 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  245 (440)
                         |     ...+..|...+++.+|.++-+.
T Consensus       881 ---p-----kaAv~tCv~LnQW~~avelaq~  903 (1189)
T KOG2041|consen  881 ---P-----KAAVHTCVELNQWGEAVELAQR  903 (1189)
T ss_pred             ---c-----HHHHHHHHHHHHHHHHHHHHHh
Confidence               1     1233445555555555555443

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.29  E-value=0.0047  Score=52.90  Aligned_cols=261  Identities=11%  Similarity=-0.001  Sum_probs=160.1

Q ss_pred             HHHHccCCcchHHHHHHHHHhcCCccCh----HhHHHHHHHHHhccchhHHHHHHHHH--HH--cCC-CCChhhHHHHHH
Q 047359           20 DCYSHKGLFMDGLEVYRMMRVYGFVPAV----SACNALLDALYRQNEIRLASCLYGAM--VR--DGV-SPNKFTWSLVAQ   90 (440)
Q Consensus        20 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~~--~~--~~~-~~~~~~~~~l~~   90 (440)
                      .-+++.|+....+.+|+...+.|. .|.    ..|..|..+|.-.+++++|.+....=  +.  .|- .-...+...|.+
T Consensus        25 ERLck~gdcraGv~ff~aA~qvGT-eDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGN  103 (639)
T KOG1130|consen   25 ERLCKMGDCRAGVDFFKAALQVGT-EDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGN  103 (639)
T ss_pred             HHHHhccchhhhHHHHHHHHHhcc-hHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccc
Confidence            457899999999999999999873 243    35666777777888899998875421  11  110 012223344555


Q ss_pred             HHHhcCChHHHHHHHhccc----------CCchhHHHHHHHHHhcCC--------------------hhHHHHHHHHHhc
Q 047359           91 ILCRSGKFEVVLGLLDSGI----------YSSVMYNLVIDFYSKKGD--------------------FGAAFDRLNEMCN  140 (440)
Q Consensus        91 ~~~~~~~~~~a~~~~~~~~----------~~~~~~~~li~~~~~~~~--------------------~~~a~~~~~~~~~  140 (440)
                      .+--.|.+++|...-.+-.          ....++-.+...|...|+                    ++.|.++|.+=.+
T Consensus       104 tlKv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL~  183 (639)
T KOG1130|consen  104 TLKVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENLE  183 (639)
T ss_pred             hhhhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHHH
Confidence            5556677777766533221          223345556666665543                    2333444433211


Q ss_pred             ---CCCCC-CchhhHHHHHHHHHhcCChhhHHHHHHHHHh----cCC-CCcccccchHHHHHHHhhcCcHHHHHHHHHHH
Q 047359          141 ---GRNLT-PGFSTYSSILDGARRYEKTEVSDRIVGLMVE----KKL-LPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRA  211 (440)
Q Consensus       141 ---~~~~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (440)
                         ..|-. .--..|..|-..|.-.|+++.|+...+.-+.    .|- ...  ..++..+.+++.-.|+++.|.+.|+.-
T Consensus       184 l~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAae--RRA~sNlgN~hiflg~fe~A~ehYK~t  261 (639)
T KOG1130|consen  184 LSEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAE--RRAHSNLGNCHIFLGNFELAIEHYKLT  261 (639)
T ss_pred             HHHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHH--HHhhcccchhhhhhcccHhHHHHHHHH
Confidence               01110 1122455555556667888888877654332    221 112  456777889999999999999988865


Q ss_pred             Hhc----C-CCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHc-----CCCCChhhHHHHHHHHHhcCChHHHHHHHHHH
Q 047359          212 CDE----K-IELQDDTCGCMLKALSKEGRVKEAIQIYHLISER-----GITVRDSDYYAFVNVLCKEHQPEEVCGLLRDV  281 (440)
Q Consensus       212 ~~~----~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  281 (440)
                      ...    | -.....+..++...|.-..+++.|+.++.+-...     +..-....+.++..++...|..++|+.+.+..
T Consensus       262 l~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~h  341 (639)
T KOG1130|consen  262 LNLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELH  341 (639)
T ss_pred             HHHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence            432    2 1234456677888888888899998887664321     12224567888999999999999998877665


Q ss_pred             HH
Q 047359          282 VE  283 (440)
Q Consensus       282 ~~  283 (440)
                      .+
T Consensus       342 l~  343 (639)
T KOG1130|consen  342 LR  343 (639)
T ss_pred             HH
Confidence            43

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=97.27  E-value=0.11  Score=45.49  Aligned_cols=413  Identities=11%  Similarity=0.053  Sum_probs=218.8

Q ss_pred             CCChHhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHH
Q 047359            9 DSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLV   88 (440)
Q Consensus         9 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   88 (440)
                      +.|..+|-.||+.+..+|..++-.+++++|...- +--..+|..-+.+=...+++.....+|.+.+...+  +...|...
T Consensus        39 PtnI~S~fqLiq~~~tq~s~~~~re~yeq~~~pf-p~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~l--~ldLW~lY  115 (660)
T COG5107          39 PTNILSYFQLIQYLETQESMDAEREMYEQLSSPF-PIMEHAWRLYMSGELARKDFRSVESLFGRCLKKSL--NLDLWMLY  115 (660)
T ss_pred             chhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCCC-ccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhhc--cHhHHHHH
Confidence            5567788889999988898988889988887532 33345677777776677888888888888877643  45556665


Q ss_pred             HHHHHhcCC---------hHHHHHHHhccc----CCchhHHHHHHHHH---------hcCChhHHHHHHHHHhcCCCCCC
Q 047359           89 AQILCRSGK---------FEVVLGLLDSGI----YSSVMYNLVIDFYS---------KKGDFGAAFDRLNEMCNGRNLTP  146 (440)
Q Consensus        89 ~~~~~~~~~---------~~~a~~~~~~~~----~~~~~~~~li~~~~---------~~~~~~~a~~~~~~~~~~~~~~p  146 (440)
                      +.--.+.+.         +-+|.++.-...    .+...|+..+..+-         ++.+++.....+.++.. ..+..
T Consensus       116 l~YIRr~n~~~tGq~r~~i~~ayefv~~~~~~e~~s~~~W~ey~~fle~~~~~~kwEeQqrid~iR~~Y~ral~-tP~~n  194 (660)
T COG5107         116 LEYIRRVNNLITGQKRFKIYEAYEFVLGCAIFEPQSENYWDEYGLFLEYIEELGKWEEQQRIDKIRNGYMRALQ-TPMGN  194 (660)
T ss_pred             HHHHHhhCcccccchhhhhHHHHHHHHhcccccccccchHHHHHHHHHhccccccHHHHHHHHHHHHHHHHHHc-Ccccc
Confidence            554444331         123333322211    23334554443322         22334455556666654 11110


Q ss_pred             chhhHHH------HHH-HHHh------cCChhhHHHHHHHHHh--cCCCCcc--cccchH-----------HHHHHHhhc
Q 047359          147 GFSTYSS------ILD-GARR------YEKTEVSDRIVGLMVE--KKLLPKH--FLSGND-----------YVIQKLSDM  198 (440)
Q Consensus       147 ~~~~~~~------l~~-~~~~------~~~~~~a~~~~~~~~~--~~~~~~~--~~~~~~-----------~l~~~~~~~  198 (440)
                      =...|+-      =+. +-++      .--+-.|...++++..  .|+...+  +..+++           ..|+.-...
T Consensus       195 leklW~dy~~fE~e~N~~TarKfvge~sp~ym~ar~~yqe~~nlt~Gl~v~~~~~~Rt~nK~~r~s~S~WlNwIkwE~en  274 (660)
T COG5107         195 LEKLWKDYENFELELNKITARKFVGETSPIYMSARQRYQEIQNLTRGLSVKNPINLRTANKAARTSDSNWLNWIKWEMEN  274 (660)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhccccccCchhhhhhccccccccchhhhHhhHhhcC
Confidence            0111111      000 0000      0112344444554432  1221110  011111           122211111


Q ss_pred             C-----c--HHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHH-HHHHhcCC
Q 047359          199 G-----K--TYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFV-NVLCKEHQ  270 (440)
Q Consensus       199 ~-----~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-~~~~~~~~  270 (440)
                      |     +  .+..--+++..... +...+.+|----..+...++-+.|++..+...+.  .|+   ....+ ..+.-..+
T Consensus       275 ~l~L~~~~~~qRi~y~~~q~~~y-~~~~~evw~dys~Y~~~isd~q~al~tv~rg~~~--sps---L~~~lse~yel~nd  348 (660)
T COG5107         275 GLKLGGRPHEQRIHYIHNQILDY-FYYAEEVWFDYSEYLIGISDKQKALKTVERGIEM--SPS---LTMFLSEYYELVND  348 (660)
T ss_pred             CcccCCCcHHHHHHHHHHHHHHH-hhhhHHHHHHHHHHHhhccHHHHHHHHHHhcccC--CCc---hheeHHHHHhhccc
Confidence            1     0  00111111111111 0112223332333344456666666655543322  122   11111 11111222


Q ss_pred             hHHHHHHHHHHHH--------------cCC---------------CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcC-
Q 047359          271 PEEVCGLLRDVVE--------------RGY---------------IPCAMELSRFVASQCGKGKWKEVEELLSAVLDKG-  320 (440)
Q Consensus       271 ~~~a~~~~~~~~~--------------~~~---------------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-  320 (440)
                      .+.....|+...+              .+.               ..-...|...+..-.+...++.|..+|-+..+.+ 
T Consensus       349 ~e~v~~~fdk~~q~L~r~ys~~~s~~~s~~D~N~e~~~Ell~kr~~k~t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~  428 (660)
T COG5107         349 EEAVYGCFDKCTQDLKRKYSMGESESASKVDNNFEYSKELLLKRINKLTFVFCVHLNYVLRKRGLEAARKLFIKLRKEGI  428 (660)
T ss_pred             HHHHhhhHHHHHHHHHHHHhhhhhhhhccccCCccccHHHHHHHHhhhhhHHHHHHHHHHHHhhHHHHHHHHHHHhccCC
Confidence            2222222211110              000               0112356667777777788999999999999888 


Q ss_pred             CCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhH-HHHHHHHHhcCcHHHHHHHHHHHHHcCCC--chhhH
Q 047359          321 LLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATY-DVLLDGLFKDGRMEEAVRIFDYMKELKVV--SSSSF  397 (440)
Q Consensus       321 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~-~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~  397 (440)
                      +.+++.++++++..++ .|+...|.++|+--...  -||...| +-.+..+.+.++-+.|..+|+...+.-..  -...|
T Consensus       429 ~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~--f~d~~~y~~kyl~fLi~inde~naraLFetsv~r~~~~q~k~iy  505 (660)
T COG5107         429 VGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK--FPDSTLYKEKYLLFLIRINDEENARALFETSVERLEKTQLKRIY  505 (660)
T ss_pred             CCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh--CCCchHHHHHHHHHHHHhCcHHHHHHHHHHhHHHHHHhhhhHHH
Confidence            6678888999998765 57888999999876654  2444433 45667778899999999999976654322  35688


Q ss_pred             HHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHHHHHHHh
Q 047359          398 VIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQVI  436 (440)
Q Consensus       398 ~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~ll  436 (440)
                      ..++..-..-|+...+..+=++|..  +.|-..+.....
T Consensus       506 ~kmi~YEs~~G~lN~v~sLe~rf~e--~~pQen~~evF~  542 (660)
T COG5107         506 DKMIEYESMVGSLNNVYSLEERFRE--LVPQENLIEVFT  542 (660)
T ss_pred             HHHHHHHHhhcchHHHHhHHHHHHH--HcCcHhHHHHHH
Confidence            9999988899999999888888877  456554444433

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.23  E-value=0.056  Score=41.24  Aligned_cols=133  Identities=14%  Similarity=0.102  Sum_probs=101.2

Q ss_pred             CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchH
Q 047359          110 YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGND  189 (440)
Q Consensus       110 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  189 (440)
                      |++..--.|..+..+.|+..+|...|.+... .-..-|......+.++....+++..|...++.+.+....-. .+....
T Consensus        87 pTvqnr~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          87 PTVQNRYRLANALAELGRYHEAVPHYQQALS-GIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFR-SPDGHL  164 (251)
T ss_pred             hhHHHHHHHHHHHHHhhhhhhhHHHHHHHhc-cccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccC-CCCchH
Confidence            6666667788899999999999999999976 33445677888889999999999999999999988752211 144666


Q ss_pred             HHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHH
Q 047359          190 YVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLI  246 (440)
Q Consensus       190 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  246 (440)
                      .+.+.+...|.+.+|+.-|+...+.-+.|....+.  ...+.+.|+.+++..-+..+
T Consensus       165 l~aR~laa~g~~a~Aesafe~a~~~ypg~~ar~~Y--~e~La~qgr~~ea~aq~~~v  219 (251)
T COG4700         165 LFARTLAAQGKYADAESAFEVAISYYPGPQARIYY--AEMLAKQGRLREANAQYVAV  219 (251)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHHhCCCHHHHHHH--HHHHHHhcchhHHHHHHHHH
Confidence            78899999999999999999999876665555543  33456677666655444333

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.20  E-value=0.13  Score=44.85  Aligned_cols=172  Identities=14%  Similarity=0.049  Sum_probs=108.8

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHHcC---CCCChhhHHHHHHHHHc---CCCHHHHHHHHHHHHhcCCCCchhhh
Q 047359          255 DSDYYAFVNVLCKEHQPEEVCGLLRDVVERG---YIPCAMELSRFVASQCG---KGKWKEVEELLSAVLDKGLLLDSFCC  328 (440)
Q Consensus       255 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~  328 (440)
                      ..+...++-+|....+++...++++.+....   +......-....-++.+   .|+.++|+.++..+....-.+++.++
T Consensus       141 ~div~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~  220 (374)
T PF13281_consen  141 PDIVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTL  220 (374)
T ss_pred             hhHHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHH
Confidence            3344456667889999999999999998641   11122222234445556   79999999999997666667788888


Q ss_pred             HHHHHHHHc---------CCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcH----HHHHHHH----HHHHHcCC
Q 047359          329 SSLMEYYCS---------NRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRM----EEAVRIF----DYMKELKV  391 (440)
Q Consensus       329 ~~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~----~~a~~~~----~~~~~~~~  391 (440)
                      ..+.+.|-.         ....++|+..|.+.-+.  +|+...--.++..+...|..    .+..++-    ....+.|.
T Consensus       221 gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~--~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~  298 (374)
T PF13281_consen  221 GLLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEI--EPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGS  298 (374)
T ss_pred             HHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcC--CccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcc
Confidence            888877632         23477888888877664  35544332333333333321    2223332    11223333


Q ss_pred             C----chhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHH
Q 047359          392 V----SSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEA  430 (440)
Q Consensus       392 ~----~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  430 (440)
                      .    +--.+.+++.+..-.|++++|.+..++|.+.  .|...
T Consensus       299 ~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l--~~~~W  339 (374)
T PF13281_consen  299 LEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKL--KPPAW  339 (374)
T ss_pred             ccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc--CCcch
Confidence            2    3334557788888999999999999999985  34443

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.19  E-value=0.14  Score=45.02  Aligned_cols=357  Identities=11%  Similarity=0.059  Sum_probs=196.3

Q ss_pred             HccCCcchHHHHHHHHHhc--CCcc------------ChHhHHHHHHHHHhccchhHHHHHHHHHHHcCC----CCChhh
Q 047359           23 SHKGLFMDGLEVYRMMRVY--GFVP------------AVSACNALLDALYRQNEIRLASCLYGAMVRDGV----SPNKFT   84 (440)
Q Consensus        23 ~~~~~~~~A~~~~~~~~~~--~~~~------------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~   84 (440)
                      -+.+.+..|++.+......  +..|            |-..=+..+..+...|++.+++.+++++...=+    .-+..+
T Consensus        90 Y~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~  169 (549)
T PF07079_consen   90 YKQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDM  169 (549)
T ss_pred             HHhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHH
Confidence            4678889999888777654  2211            112224556778899999999999988865433    367888


Q ss_pred             HHHHHHHHHhcCChH---------------HHHHHHhccc-----------CCchhHHHHHHHHHhc--CChhHHHHHHH
Q 047359           85 WSLVAQILCRSGKFE---------------VVLGLLDSGI-----------YSSVMYNLVIDFYSKK--GDFGAAFDRLN  136 (440)
Q Consensus        85 ~~~l~~~~~~~~~~~---------------~a~~~~~~~~-----------~~~~~~~~li~~~~~~--~~~~~a~~~~~  136 (440)
                      |+.++-.++++=-++               .+.-..+++.           |.......++....-.  .+..--.+++.
T Consensus       170 yd~~vlmlsrSYfLEl~e~~s~dl~pdyYemilfY~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~  249 (549)
T PF07079_consen  170 YDRAVLMLSRSYFLELKESMSSDLYPDYYEMILFYLKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILE  249 (549)
T ss_pred             HHHHHHHHhHHHHHHHHHhcccccChHHHHHHHHHHHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHH
Confidence            888776666542111               1111112221           2222222222222111  11122233333


Q ss_pred             HHhcCCCCCCchh-hHHHHHHHHHhcCChhhHHHHHHHHHhcCCCC--cccccchHHHHHHHhhcCcHHHHHHHHHHHHh
Q 047359          137 EMCNGRNLTPGFS-TYSSILDGARRYEKTEVSDRIVGLMVEKKLLP--KHFLSGNDYVIQKLSDMGKTYAAEMIFKRACD  213 (440)
Q Consensus       137 ~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  213 (440)
                      .... .-+.|+-. ....+.....+  +.+++..+-+.+....+.+  .....++..++....+.++...|.+.+.-+.-
T Consensus       250 ~We~-~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~  326 (549)
T PF07079_consen  250 NWEN-FYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKI  326 (549)
T ss_pred             HHHh-hccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHh
Confidence            3322 34455533 22333333333  4555555554444332111  01155777888888899999999998887766


Q ss_pred             cCCCCCHHhHHH-------HHHHHhh----hccHHHHHHHHHHHHHcCCCCChhhHHHHHH---HHHhcCC-hHHHHHHH
Q 047359          214 EKIELQDDTCGC-------MLKALSK----EGRVKEAIQIYHLISERGITVRDSDYYAFVN---VLCKEHQ-PEEVCGLL  278 (440)
Q Consensus       214 ~~~~~~~~~~~~-------l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~---~~~~~~~-~~~a~~~~  278 (440)
                      ..+.  ...-..       +-+..+.    .-+...=+.+++.....++. .......++.   -+-+.|. -++|+.++
T Consensus       327 ldp~--~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~DiD-rqQLvh~L~~~Ak~lW~~g~~dekalnLL  403 (549)
T PF07079_consen  327 LDPR--ISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDID-RQQLVHYLVFGAKHLWEIGQCDEKALNLL  403 (549)
T ss_pred             cCCc--chhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhccc-HHHHHHHHHHHHHHHHhcCCccHHHHHHH
Confidence            5333  221111       1122221    11223334555555554432 1122222332   2345555 78899999


Q ss_pred             HHHHHcCCCCChhhHHHH----HHHHHc---CCCHHHHHHHHHHHHhcCCCCchh----hhHHHHH--HHHcCCcHHHHH
Q 047359          279 RDVVERGYIPCAMELSRF----VASQCG---KGKWKEVEELLSAVLDKGLLLDSF----CCSSLME--YYCSNRQIDKAI  345 (440)
Q Consensus       279 ~~~~~~~~~~~~~~~~~l----~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~----~~~~l~~--~~~~~~~~~~a~  345 (440)
                      +.+.+-. +-|...-|.+    =..|.+   ...+.+-.++-+-+.+.|+.|-..    .-|.+..  .+...|++.++.
T Consensus       404 k~il~ft-~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~  482 (549)
T PF07079_consen  404 KLILQFT-NYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCY  482 (549)
T ss_pred             HHHHHhc-cccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHH
Confidence            9988642 1222222221    122222   244555566666666778776433    3344433  345789999988


Q ss_pred             HHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 047359          346 ALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKE  388 (440)
Q Consensus       346 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  388 (440)
                      -.-..+.+  +.|++.+|..+.-+.....++++|..++..+..
T Consensus       483 ~ys~WL~~--iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~LP~  523 (549)
T PF07079_consen  483 LYSSWLTK--IAPSPQAYRLLGLCLMENKRYQEAWEYLQKLPP  523 (549)
T ss_pred             HHHHHHHH--hCCcHHHHHHHHHHHHHHhhHHHHHHHHHhCCC
Confidence            77666665  789999999999999999999999999987754

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.19  E-value=0.2  Score=46.89  Aligned_cols=114  Identities=15%  Similarity=0.110  Sum_probs=85.1

Q ss_pred             CChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHH
Q 047359          288 PCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLL  367 (440)
Q Consensus       288 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~  367 (440)
                      -...+.+--+.-+...|+..+|.++-.+..    -||-..|..-+.+++..+++++-+++-+...      .+.-|.-+.
T Consensus       682 f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFV  751 (829)
T KOG2280|consen  682 FVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFV  751 (829)
T ss_pred             cccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHH
Confidence            334455555666677799999988876654    3688889889999999999998776643322      366788889


Q ss_pred             HHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHH
Q 047359          368 DGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDE  419 (440)
Q Consensus       368 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  419 (440)
                      .+|.+.|+.++|.+++-+....        .....+|.+.|++.+|.++--+
T Consensus       752 e~c~~~~n~~EA~KYiprv~~l--------~ekv~ay~~~~~~~eAad~A~~  795 (829)
T KOG2280|consen  752 EACLKQGNKDEAKKYIPRVGGL--------QEKVKAYLRVGDVKEAADLAAE  795 (829)
T ss_pred             HHHHhcccHHHHhhhhhccCCh--------HHHHHHHHHhccHHHHHHHHHH
Confidence            9999999999999988665432        1567788889998888876443

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.14  E-value=0.14  Score=44.11  Aligned_cols=109  Identities=14%  Similarity=0.170  Sum_probs=74.7

Q ss_pred             hHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 047359          222 TCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQC  301 (440)
Q Consensus       222 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  301 (440)
                      +.+..+.-+...|+...|.++-.+.   .+ |+...|...+.+++..++|++-.++-..      +-++.-|..++.+|.
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~F---kv-~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~  248 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEF---KV-PDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACL  248 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHc---CC-cHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHH
Confidence            4444556666777777777765544   23 5777888888888888888877765432      123467888888888


Q ss_pred             cCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHH
Q 047359          302 GKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIK  350 (440)
Q Consensus       302 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  350 (440)
                      +.|+..+|..++..+          .+..-+..|.+.|++.+|.+.-.+
T Consensus       249 ~~~~~~eA~~yI~k~----------~~~~rv~~y~~~~~~~~A~~~A~~  287 (319)
T PF04840_consen  249 KYGNKKEASKYIPKI----------PDEERVEMYLKCGDYKEAAQEAFK  287 (319)
T ss_pred             HCCCHHHHHHHHHhC----------ChHHHHHHHHHCCCHHHHHHHHHH
Confidence            888888888777651          124566777888888888766433

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

>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=97.14  E-value=0.061  Score=40.56  Aligned_cols=56  Identities=21%  Similarity=0.343  Sum_probs=28.5

Q ss_pred             HHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHH
Q 047359          190 YVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLI  246 (440)
Q Consensus       190 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  246 (440)
                      .++..+...|+++.|..+...+....+- +...|..++.+|...|+...|.++|+.+
T Consensus        67 ~l~~~~~~~~~~~~a~~~~~~~l~~dP~-~E~~~~~lm~~~~~~g~~~~A~~~Y~~~  122 (146)
T PF03704_consen   67 RLAEALLEAGDYEEALRLLQRALALDPY-DEEAYRLLMRALAAQGRRAEALRVYERY  122 (146)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHHHHSTT--HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHhccCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            3444455555555555555555554443 4555555555555555555555555544

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>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=97.11  E-value=0.0045  Score=40.74  Aligned_cols=61  Identities=15%  Similarity=0.211  Sum_probs=34.1

Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHHHHc----CCC---chhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          362 TYDVLLDGLFKDGRMEEAVRIFDYMKEL----KVV---SSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       362 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      +++.+...|...|++++|+..|++..+.    |..   ...++..+..++...|++++|++.+++..+
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            4555566666666666666666655422    111   133556666666666666666666666543

...

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.07  E-value=0.26  Score=45.88  Aligned_cols=156  Identities=15%  Similarity=0.116  Sum_probs=72.3

Q ss_pred             CChHHHHHHHhcccCCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHH
Q 047359           96 GKFEVVLGLLDSGIYSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMV  175 (440)
Q Consensus        96 ~~~~~a~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  175 (440)
                      |++++|++++-.+.    -....|..+.+.||+-...++++.--....-..-...|+.+...++....|++|.+.+..-.
T Consensus       748 g~feeaek~yld~d----rrDLAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~  823 (1189)
T KOG2041|consen  748 GEFEEAEKLYLDAD----RRDLAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCG  823 (1189)
T ss_pred             cchhHhhhhhhccc----hhhhhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            55555555554443    11223444455555554444443321100000112345555555555555555555554321


Q ss_pred             hcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCCh
Q 047359          176 EKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRD  255 (440)
Q Consensus       176 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  255 (440)
                      .           ....+.++.+..++++-+.+-+.+.+     +....-.+..++...|.-++|.+.|-+...    |  
T Consensus       824 ~-----------~e~~~ecly~le~f~~LE~la~~Lpe-----~s~llp~~a~mf~svGMC~qAV~a~Lr~s~----p--  881 (1189)
T KOG2041|consen  824 D-----------TENQIECLYRLELFGELEVLARTLPE-----DSELLPVMADMFTSVGMCDQAVEAYLRRSL----P--  881 (1189)
T ss_pred             c-----------hHhHHHHHHHHHhhhhHHHHHHhcCc-----ccchHHHHHHHHHhhchHHHHHHHHHhccC----c--
Confidence            1           11244555555555554444444332     334455566666667776666665533211    1  


Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHH
Q 047359          256 SDYYAFVNVLCKEHQPEEVCGLLRD  280 (440)
Q Consensus       256 ~~~~~l~~~~~~~~~~~~a~~~~~~  280 (440)
                         ...+..|...+++.+|.++-+.
T Consensus       882 ---kaAv~tCv~LnQW~~avelaq~  903 (1189)
T KOG2041|consen  882 ---KAAVHTCVELNQWGEAVELAQR  903 (1189)
T ss_pred             ---HHHHHHHHHHHHHHHHHHHHHh
Confidence               2244555566666666655443

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=97.03  E-value=0.0092  Score=51.26  Aligned_cols=126  Identities=15%  Similarity=0.112  Sum_probs=85.4

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhc-----CCCC---------chhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHH
Q 047359          296 FVASQCGKGKWKEVEELLSAVLDK-----GLLL---------DSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVA  361 (440)
Q Consensus       296 l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~---------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~  361 (440)
                      -.+.+.+.|++..|..-|++....     +..+         -..+++.+..+|.+.+++..|++..++.+..+.. |..
T Consensus       214 ~Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~-N~K  292 (397)
T KOG0543|consen  214 RGNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELDPN-NVK  292 (397)
T ss_pred             hhhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCC-chh
Confidence            346777888888888888886532     1111         1335566666777778888888877777776443 666


Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHH-HHHHHHHHHH
Q 047359          362 TYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRK-AMKNHDEMLK  422 (440)
Q Consensus       362 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-a~~~~~~m~~  422 (440)
                      ....=..+|...|+++.|+..|+++.+..|.|..+-..++..-.+.....+ ..++|..|..
T Consensus       293 ALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  293 ALYRRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKLKQKIREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            666667777778888888888888888777776666666666555544433 3667777765

>PRK15331 chaperone protein SicA; Provisional

Probab=96.98  E-value=0.037  Score=41.58  Aligned_cols=87  Identities=15%  Similarity=0.079  Sum_probs=57.5

Q ss_pred             HHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHH
Q 047359          300 QCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEA  379 (440)
Q Consensus       300 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a  379 (440)
                      +...|++++|..+|+-+...++. +..-|..|..++-..+++++|+..|......+.. |+..+-....++...|+.+.|
T Consensus        47 ~y~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~-dp~p~f~agqC~l~l~~~~~A  124 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKN-DYRPVFFTGQCQLLMRKAAKA  124 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccC-CCCccchHHHHHHHhCCHHHH
Confidence            34567777777777777655443 4555566666666777777777777766655433 455555666777777777777


Q ss_pred             HHHHHHHHH
Q 047359          380 VRIFDYMKE  388 (440)
Q Consensus       380 ~~~~~~~~~  388 (440)
                      ...|+...+
T Consensus       125 ~~~f~~a~~  133 (165)
T PRK15331        125 RQCFELVNE  133 (165)
T ss_pred             HHHHHHHHh
Confidence            777776666

>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=96.98  E-value=0.013  Score=42.40  Aligned_cols=98  Identities=12%  Similarity=0.110  Sum_probs=68.4

Q ss_pred             ChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHhc---ccCCchhHHHHHHHH
Q 047359           46 AVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDS---GIYSSVMYNLVIDFY  122 (440)
Q Consensus        46 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~---~~~~~~~~~~li~~~  122 (440)
                      |..++..++.++++.|+.+....+++..-  |+.++...         ..+.       +..   +.|+..+..+++.+|
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~W--gI~~~~~~---------~~~~-------~~~~spl~Pt~~lL~AIv~sf   62 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVW--GIDVNGKK---------KEGD-------YPPSSPLYPTSRLLIAIVHSF   62 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhc--CCCCCCcc---------ccCc-------cCCCCCCCCCHHHHHHHHHHH
Confidence            45677788888888888888877776543  33333211         0000       111   118888888999999


Q ss_pred             HhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhc
Q 047359          123 SKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRY  161 (440)
Q Consensus       123 ~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  161 (440)
                      +..|++..|+++.+...+..+++.+..+|..|++-+...
T Consensus        63 ~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v~  101 (126)
T PF12921_consen   63 GYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAYVL  101 (126)
T ss_pred             HhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHh
Confidence            999999999999999887788877788888888755443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.97  E-value=0.083  Score=42.26  Aligned_cols=56  Identities=13%  Similarity=0.035  Sum_probs=34.5

Q ss_pred             HHHHHHHHhhhccHHHHHHHHHHHHHcC---CCCChhhHHHHHHHHHhcCChHHHHHHHH
Q 047359          223 CGCMLKALSKEGRVKEAIQIYHLISERG---ITVRDSDYYAFVNVLCKEHQPEEVCGLLR  279 (440)
Q Consensus       223 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  279 (440)
                      |-..|-.+.-..|+..|.+.++.--+.+   -+-+..+...|+.+| ..|+.+++.+++.
T Consensus       193 ~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~~kvl~  251 (308)
T KOG1585|consen  193 YVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEIKKVLS  251 (308)
T ss_pred             HHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHHHHHHc
Confidence            4455556666677778888777744332   223456666777666 5577777666554

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.95  E-value=0.023  Score=49.00  Aligned_cols=127  Identities=19%  Similarity=-0.005  Sum_probs=89.1

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHc-----CCC---------CChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchh
Q 047359          261 FVNVLCKEHQPEEVCGLLRDVVER-----GYI---------PCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSF  326 (440)
Q Consensus       261 l~~~~~~~~~~~~a~~~~~~~~~~-----~~~---------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  326 (440)
                      -.+.+.+.|++..|..-|+.+...     +..         .-..++..+..++.+.+++..|+..-.+.+..+.. |..
T Consensus       214 ~Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~-N~K  292 (397)
T KOG0543|consen  214 RGNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELDPN-NVK  292 (397)
T ss_pred             hhhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCC-chh
Confidence            456788999999999999886542     111         12346677788888999999999999999887654 777


Q ss_pred             hhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHH-HHHHHHHHHHc
Q 047359          327 CCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEE-AVRIFDYMKEL  389 (440)
Q Consensus       327 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~-a~~~~~~~~~~  389 (440)
                      ..-.-.++|...|+++.|+..|+++.+..+. |...-+-|+.+-.+..+..+ ..++|..|-..
T Consensus       293 ALyRrG~A~l~~~e~~~A~~df~ka~k~~P~-Nka~~~el~~l~~k~~~~~~kekk~y~~mF~k  355 (397)
T KOG0543|consen  293 ALYRRGQALLALGEYDLARDDFQKALKLEPS-NKAARAELIKLKQKIREYEEKEKKMYANMFAK  355 (397)
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            7777788999999999999999999985333 33344444444444443333 35566666544

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.94  E-value=0.22  Score=42.95  Aligned_cols=80  Identities=10%  Similarity=-0.010  Sum_probs=40.5

Q ss_pred             hcCChHHHHHHHhcccCCchhH----HHHHHHHHhcCChhHHHHHHHHHhcCCCCCCch-hhHHHHHHHHHhcCChhhHH
Q 047359           94 RSGKFEVVLGLLDSGIYSSVMY----NLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGF-STYSSILDGARRYEKTEVSD  168 (440)
Q Consensus        94 ~~~~~~~a~~~~~~~~~~~~~~----~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~a~  168 (440)
                      -.|+.+.|.+-|+.|..++.+-    ..|.-.--+.|+.+.|..+-++.-.   ..|.. ..+...+...+..|+|+.|+
T Consensus       132 ~eG~~~~Ar~kfeAMl~dPEtRllGLRgLyleAqr~GareaAr~yAe~Aa~---~Ap~l~WA~~AtLe~r~~~gdWd~Al  208 (531)
T COG3898         132 LEGDYEDARKKFEAMLDDPETRLLGLRGLYLEAQRLGAREAARHYAERAAE---KAPQLPWAARATLEARCAAGDWDGAL  208 (531)
T ss_pred             hcCchHHHHHHHHHHhcChHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHh---hccCCchHHHHHHHHHHhcCChHHHH
Confidence            3466666666666666443332    2222222344555555555555532   33332 24555555566666666666


Q ss_pred             HHHHHHHh
Q 047359          169 RIVGLMVE  176 (440)
Q Consensus       169 ~~~~~~~~  176 (440)
                      ++++.-..
T Consensus       209 kLvd~~~~  216 (531)
T COG3898         209 KLVDAQRA  216 (531)
T ss_pred             HHHHHHHH
Confidence            66555444

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.91  E-value=0.17  Score=41.13  Aligned_cols=130  Identities=11%  Similarity=0.031  Sum_probs=67.5

Q ss_pred             HHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHH-----H
Q 047359          189 DYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFV-----N  263 (440)
Q Consensus       189 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-----~  263 (440)
                      +.++..+.-.|.+.-....+++..+..++.++.....+.+.-.+.||.+.|...|++..+..-..+..+++.++     .
T Consensus       181 y~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~  260 (366)
T KOG2796|consen  181 YSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAF  260 (366)
T ss_pred             HHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhh
Confidence            44555555566666666666666666555566666666666666666666666666555443233333333222     2


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhc
Q 047359          264 VLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDK  319 (440)
Q Consensus       264 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  319 (440)
                      .+.-++++..|...+.++...+ +.+....|.-.-+..-.|+...|.+.++.|...
T Consensus       261 i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  261 LHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             heecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            2334455555555555555432 122222222222222235566666666666554

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=96.90  E-value=0.33  Score=44.37  Aligned_cols=125  Identities=14%  Similarity=0.155  Sum_probs=83.7

Q ss_pred             HhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChH-hHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 047359           13 DALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVS-ACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQI   91 (440)
Q Consensus        13 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   91 (440)
                      ..|..+|.---.....+.+..++..+...  -|... -|......=.+.|..+.+.++|++-++ |++.+...|......
T Consensus        46 ~~wt~li~~~~~~~~~~~~r~~y~~fL~k--yPl~~gyW~kfA~~E~klg~~~~s~~Vfergv~-aip~SvdlW~~Y~~f  122 (577)
T KOG1258|consen   46 DAWTTLIQENDSIEDVDALREVYDIFLSK--YPLCYGYWKKFADYEYKLGNAENSVKVFERGVQ-AIPLSVDLWLSYLAF  122 (577)
T ss_pred             cchHHHHhccCchhHHHHHHHHHHHHHhh--CccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH-hhhhHHHHHHHHHHH
Confidence            34444554444444455555666666643  24433 344444444567888999999999876 466677777776655


Q ss_pred             HH-hcCChHHHHHHHhccc-------CCchhHHHHHHHHHhcCChhHHHHHHHHHhc
Q 047359           92 LC-RSGKFEVVLGLLDSGI-------YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCN  140 (440)
Q Consensus        92 ~~-~~~~~~~a~~~~~~~~-------~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  140 (440)
                      +. ..|+.+.....|+...       .+...|...|..-..++++.....+|++..+
T Consensus       123 ~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRile  179 (577)
T KOG1258|consen  123 LKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILE  179 (577)
T ss_pred             HhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHh
Confidence            44 4467777778887766       5666788888888888899999999999876

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=96.88  E-value=0.09  Score=37.60  Aligned_cols=65  Identities=22%  Similarity=0.286  Sum_probs=37.9

Q ss_pred             HhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCC
Q 047359          361 ATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGH  425 (440)
Q Consensus       361 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  425 (440)
                      .....-+..+...|+-+.-.+++..+.+.+-.+|.....+..+|.+.|+..++-+++.++.+.|+
T Consensus        87 e~vD~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   87 EYVDLALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            34445555666677777777777666654444666777777777777777777777777776664

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.87  E-value=0.023  Score=46.38  Aligned_cols=100  Identities=16%  Similarity=0.183  Sum_probs=70.4

Q ss_pred             hhHHHHHHHHcCCcHHHHHHHHHHHHhccCC--cCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC---chhhHHHHH
Q 047359          327 CCSSLMEYYCSNRQIDKAIALHIKIEKLKGS--LDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV---SSSSFVIVV  401 (440)
Q Consensus       327 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~~~~l~  401 (440)
                      .|+.-+..+ ..|++..|..-|...++..+.  -....+..|..++...|++++|..+|..+.+..|.   -+..+..+.
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 LYNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            455555443 556688888888888776432  12335556778888888888888888888776655   456777788


Q ss_pred             HHHHhcccHHHHHHHHHHHHHCCCCCCH
Q 047359          402 SRLCHLKELRKAMKNHDEMLKMGHKPDE  429 (440)
Q Consensus       402 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~  429 (440)
                      .+..+.|+.++|..+|++..+.  .|+.
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~--YP~t  248 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKR--YPGT  248 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHH--CCCC
Confidence            8888888888888888888763  4443

>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=96.85  E-value=0.0052  Score=40.43  Aligned_cols=63  Identities=19%  Similarity=0.220  Sum_probs=42.9

Q ss_pred             hhhHHHHHHHHcCCcHHHHHHHHHHHHhc----cC-CcC-HHhHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 047359          326 FCCSSLMEYYCSNRQIDKAIALHIKIEKL----KG-SLD-VATYDVLLDGLFKDGRMEEAVRIFDYMKE  388 (440)
Q Consensus       326 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  388 (440)
                      .+++.+...|...|++++|+..+++..+.    |. .|+ ..++..+..+|...|++++|++.+++..+
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            45666777777778888887777777643    11 122 45677777888888888888888877654

...

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.84  E-value=0.0046  Score=35.23  Aligned_cols=40  Identities=15%  Similarity=0.178  Sum_probs=24.7

Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHH
Q 047359          362 TYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVV  401 (440)
Q Consensus       362 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~  401 (440)
                      ++..+...|...|++++|+++|+++.+..|.++..+..+.
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~La   42 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRALA   42 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHhh
Confidence            4555666666666666666666666666666665555443

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.83  E-value=0.16  Score=46.72  Aligned_cols=164  Identities=16%  Similarity=0.063  Sum_probs=103.8

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCC-----hhhHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCCCchh
Q 047359          257 DYYAFVNVLCKEHQPEEVCGLLRDVVERG-YIPC-----AMELSRFVASQCG----KGKWKEVEELLSAVLDKGLLLDSF  326 (440)
Q Consensus       257 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~-----~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~  326 (440)
                      .+..+++...-.|+-+.+++.+....+.+ +.-.     .-.|...+..++.    ..+.+.|.+++..+...  -|+..
T Consensus       190 ~~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~  267 (468)
T PF10300_consen  190 KVLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSA  267 (468)
T ss_pred             HHHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcH
Confidence            34555666666677777777776655432 1111     1123333333332    45678889999988876  35555


Q ss_pred             hhHHH-HHHHHcCCcHHHHHHHHHHHHhccC---CcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHH
Q 047359          327 CCSSL-MEYYCSNRQIDKAIALHIKIEKLKG---SLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVS  402 (440)
Q Consensus       327 ~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~~---~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  402 (440)
                      .|... .+.+...|++++|++.|++......   +.....+--+...+.-..++++|.+.|..+.+....+...|..+..
T Consensus       268 lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~WSka~Y~Y~~a  347 (468)
T PF10300_consen  268 LFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKWSKAFYAYLAA  347 (468)
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccccHHHHHHHHHH
Confidence            55433 3566788999999999987664211   2233455667777888999999999999998866555545444444


Q ss_pred             -HHHhcccH-------HHHHHHHHHHHH
Q 047359          403 -RLCHLKEL-------RKAMKNHDEMLK  422 (440)
Q Consensus       403 -~~~~~g~~-------~~a~~~~~~m~~  422 (440)
                       ++...|+.       ++|.++|.+...
T Consensus       348 ~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  348 ACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence             34466777       888888877643

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.

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.83  E-value=0.0086  Score=52.71  Aligned_cols=97  Identities=13%  Similarity=0.020  Sum_probs=69.6

Q ss_pred             chhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCH----HhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHH
Q 047359          324 DSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDV----ATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVI  399 (440)
Q Consensus       324 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  399 (440)
                      +...++.+..+|...|++++|+..|++.++.+  |+.    .+|..+..+|...|+.++|+..++++.+.+..   .|..
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~--Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALelsn~---~f~~  148 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALELN--PNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRDYNL---KFST  148 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcch---hHHH
Confidence            56678889999999999999999999998854  443    45899999999999999999999999886311   2221


Q ss_pred             HHH--HHHhcccHHHHHHHHHHHHHCCC
Q 047359          400 VVS--RLCHLKELRKAMKNHDEMLKMGH  425 (440)
Q Consensus       400 l~~--~~~~~g~~~~a~~~~~~m~~~~~  425 (440)
                      +..  .+....+..+..++++.+.+-|.
T Consensus       149 i~~DpdL~plR~~pef~eLlee~rk~G~  176 (453)
T PLN03098        149 ILNDPDLAPFRASPEFKELQEEARKGGE  176 (453)
T ss_pred             HHhCcchhhhcccHHHHHHHHHHHHhCC
Confidence            111  11122334466677777777554

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.77  E-value=0.22  Score=40.47  Aligned_cols=56  Identities=14%  Similarity=0.052  Sum_probs=33.4

Q ss_pred             HHHHHHhcCcHHHHHHHHHHHHHcCCC---chhhHHHHHHHHHhcccHHHHHHHHHHHH
Q 047359          366 LLDGLFKDGRMEEAVRIFDYMKELKVV---SSSSFVIVVSRLCHLKELRKAMKNHDEML  421 (440)
Q Consensus       366 l~~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  421 (440)
                      +.+-|.+.|.+..|..-+++|.+.-+.   ....+..+..+|...|-.++|...-+-+.
T Consensus       173 IaryY~kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~  231 (254)
T COG4105         173 IARYYLKRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLG  231 (254)
T ss_pred             HHHHHHHhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHH
Confidence            445566667777777777776666433   22345556666666776666665544443

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=96.61  E-value=0.26  Score=44.70  Aligned_cols=156  Identities=11%  Similarity=0.063  Sum_probs=76.8

Q ss_pred             HccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHH
Q 047359           23 SHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVL  102 (440)
Q Consensus        23 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  102 (440)
                      .-.++++++.+..+.-.-.. .......+.++..+-+.|..+.|+++..         |+.   .-.....+.|+++.|.
T Consensus       272 v~~~d~~~v~~~i~~~~ll~-~i~~~~~~~i~~fL~~~G~~e~AL~~~~---------D~~---~rFeLAl~lg~L~~A~  338 (443)
T PF04053_consen  272 VLRGDFEEVLRMIAASNLLP-NIPKDQGQSIARFLEKKGYPELALQFVT---------DPD---HRFELALQLGNLDIAL  338 (443)
T ss_dssp             HHTT-HHH-----HHHHTGG-G--HHHHHHHHHHHHHTT-HHHHHHHSS----------HH---HHHHHHHHCT-HHHHH
T ss_pred             HHcCChhhhhhhhhhhhhcc-cCChhHHHHHHHHHHHCCCHHHHHhhcC---------ChH---HHhHHHHhcCCHHHHH
Confidence            34556666555543111000 0113346666666667777777766532         221   1234445667777776


Q ss_pred             HHHhcccCCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCc
Q 047359          103 GLLDSGIYSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPK  182 (440)
Q Consensus       103 ~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  182 (440)
                      ++.++.. +...|..|.....+.|+++-|.+.|.+...          +..|+-.|.-.|+.+...++.+.....|    
T Consensus       339 ~~a~~~~-~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d----------~~~L~lLy~~~g~~~~L~kl~~~a~~~~----  403 (443)
T PF04053_consen  339 EIAKELD-DPEKWKQLGDEALRQGNIELAEECYQKAKD----------FSGLLLLYSSTGDREKLSKLAKIAEERG----  403 (443)
T ss_dssp             HHCCCCS-THHHHHHHHHHHHHTTBHHHHHHHHHHCT-----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT----
T ss_pred             HHHHhcC-cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC----------ccccHHHHHHhCCHHHHHHHHHHHHHcc----
Confidence            6665553 445677777777777777777776666643          4445555555666666555555554433    


Q ss_pred             ccccchHHHHHHHhhcCcHHHHHHHHHH
Q 047359          183 HFLSGNDYVIQKLSDMGKTYAAEMIFKR  210 (440)
Q Consensus       183 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~  210 (440)
                          -++....++.-.|+.++..+++.+
T Consensus       404 ----~~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  404 ----DINIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             -----HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             ----CHHHHHHHHHHcCCHHHHHHHHHH
Confidence                233344444455555555555433

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.

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.56  E-value=0.49  Score=41.75  Aligned_cols=382  Identities=11%  Similarity=0.068  Sum_probs=198.8

Q ss_pred             hHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHhccc
Q 047359           30 DGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGI  109 (440)
Q Consensus        30 ~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  109 (440)
                      +-+++=+++.+ + +.|..+|-.|+.-+..++..++.++++++|..- ++--..+|..-+++-....++...+.+|.+..
T Consensus        27 D~lrLRerIkd-N-PtnI~S~fqLiq~~~tq~s~~~~re~yeq~~~p-fp~~~~aw~ly~s~ELA~~df~svE~lf~rCL  103 (660)
T COG5107          27 DELRLRERIKD-N-PTNILSYFQLIQYLETQESMDAEREMYEQLSSP-FPIMEHAWRLYMSGELARKDFRSVESLFGRCL  103 (660)
T ss_pred             hHHHHHHHhhc-C-chhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCC-CccccHHHHHHhcchhhhhhHHHHHHHHHHHH
Confidence            33444444443 3 568899999999999999999999999999752 33345678888888778889999999998877


Q ss_pred             ---CCchhHHHHHHHHHhcCCh------hHHHHHHHHHhcCCCCCCchh-hHHHHH---HHHHhcCC------hhhHHHH
Q 047359          110 ---YSSVMYNLVIDFYSKKGDF------GAAFDRLNEMCNGRNLTPGFS-TYSSIL---DGARRYEK------TEVSDRI  170 (440)
Q Consensus       110 ---~~~~~~~~li~~~~~~~~~------~~a~~~~~~~~~~~~~~p~~~-~~~~l~---~~~~~~~~------~~~a~~~  170 (440)
                         .+...|...+.--.+.+..      ....+.|+-.....++.|-.. .|+..+   ...-..|.      .+...+.
T Consensus       104 ~k~l~ldLW~lYl~YIRr~n~~~tGq~r~~i~~ayefv~~~~~~e~~s~~~W~ey~~fle~~~~~~kwEeQqrid~iR~~  183 (660)
T COG5107         104 KKSLNLDLWMLYLEYIRRVNNLITGQKRFKIYEAYEFVLGCAIFEPQSENYWDEYGLFLEYIEELGKWEEQQRIDKIRNG  183 (660)
T ss_pred             hhhccHhHHHHHHHHHHhhCcccccchhhhhHHHHHHHHhcccccccccchHHHHHHHHHhccccccHHHHHHHHHHHHH
Confidence               5566676666544443211      122344444443345555332 333333   22222333      3445555


Q ss_pred             HHHHHhcCCCCcccccchHH------HHHHHhh-------cCcHHHHHHHHHHHHh--cCCC----CCHHhHHHHHH---
Q 047359          171 VGLMVEKKLLPKHFLSGNDY------VIQKLSD-------MGKTYAAEMIFKRACD--EKIE----LQDDTCGCMLK---  228 (440)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~------l~~~~~~-------~~~~~~a~~~~~~~~~--~~~~----~~~~~~~~l~~---  228 (440)
                      +.+++...+..  ....|..      =++....       .--+-.|...++++..  .|..    .+..+++..-.   
T Consensus       184 Y~ral~tP~~n--leklW~dy~~fE~e~N~~TarKfvge~sp~ym~ar~~yqe~~nlt~Gl~v~~~~~~Rt~nK~~r~s~  261 (660)
T COG5107         184 YMRALQTPMGN--LEKLWKDYENFELELNKITARKFVGETSPIYMSARQRYQEIQNLTRGLSVKNPINLRTANKAARTSD  261 (660)
T ss_pred             HHHHHcCcccc--HHHHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhccccccCchhhhhhcccccccc
Confidence            55555432110  0111110      0000000       0113344555554432  1211    11222222111   


Q ss_pred             --------HHhh-----hccH--HHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhH
Q 047359          229 --------ALSK-----EGRV--KEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMEL  293 (440)
Q Consensus       229 --------~~~~-----~~~~--~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  293 (440)
                              -=..     .|+.  ...--++++.... +......|--.-.-+...++-+.|+.........  .|+... 
T Consensus       262 S~WlNwIkwE~en~l~L~~~~~~qRi~y~~~q~~~y-~~~~~evw~dys~Y~~~isd~q~al~tv~rg~~~--spsL~~-  337 (660)
T COG5107         262 SNWLNWIKWEMENGLKLGGRPHEQRIHYIHNQILDY-FYYAEEVWFDYSEYLIGISDKQKALKTVERGIEM--SPSLTM-  337 (660)
T ss_pred             chhhhHhhHhhcCCcccCCCcHHHHHHHHHHHHHHH-hhhhHHHHHHHHHHHhhccHHHHHHHHHHhcccC--CCchhe-
Confidence                    0000     0000  0011111111111 1111222222222234455666666655543322  232111 


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHh--------------cCC---------------CCchhhhHHHHHHHHcCCcHHHH
Q 047359          294 SRFVASQCGKGKWKEVEELLSAVLD--------------KGL---------------LLDSFCCSSLMEYYCSNRQIDKA  344 (440)
Q Consensus       294 ~~l~~~~~~~~~~~~a~~~~~~~~~--------------~~~---------------~~~~~~~~~l~~~~~~~~~~~~a  344 (440)
                       .+...|...++-+.....|+....              .+.               ..-...|...+..-.+..-++.|
T Consensus       338 -~lse~yel~nd~e~v~~~fdk~~q~L~r~ys~~~s~~~s~~D~N~e~~~Ell~kr~~k~t~v~C~~~N~v~r~~Gl~aa  416 (660)
T COG5107         338 -FLSEYYELVNDEEAVYGCFDKCTQDLKRKYSMGESESASKVDNNFEYSKELLLKRINKLTFVFCVHLNYVLRKRGLEAA  416 (660)
T ss_pred             -eHHHHHhhcccHHHHhhhHHHHHHHHHHHHhhhhhhhhccccCCccccHHHHHHHHhhhhhHHHHHHHHHHHHhhHHHH
Confidence             111111111222222221111100              011               01234566677777788889999


Q ss_pred             HHHHHHHHhcc-CCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          345 IALHIKIEKLK-GSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       345 ~~~~~~~~~~~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      ..+|-+..+.+ ..++...+++++..++ .|+...|.++|+--....+.++.-.+..+..+.+.++-..|..+|+..+.
T Consensus       417 R~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~f~d~~~y~~kyl~fLi~inde~naraLFetsv~  494 (660)
T COG5107         417 RKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLKFPDSTLYKEKYLLFLIRINDEENARALFETSVE  494 (660)
T ss_pred             HHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHhCCCchHHHHHHHHHHHHhCcHHHHHHHHHHhHH
Confidence            99999999998 5678888999887654 67889999999988777766666666677777888888888888885543

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=96.51  E-value=0.15  Score=45.48  Aligned_cols=61  Identities=10%  Similarity=0.104  Sum_probs=40.5

Q ss_pred             HHHHHHHHcCCcHHHHHHHHHHHHhccCC-cCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHc
Q 047359          329 SSLMEYYCSNRQIDKAIALHIKIEKLKGS-LDVATYDVLLDGLFKDGRMEEAVRIFDYMKEL  389 (440)
Q Consensus       329 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  389 (440)
                      ..+..++-+.|+.++|++.++++.+.... -+......|+.++...+.+.++..++.+-.+.
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi  324 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDI  324 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccc
Confidence            34555566778888888888777754322 13346667777777888888888777776543

The molecular function of this protein is uncertain.

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.50  E-value=0.22  Score=45.82  Aligned_cols=201  Identities=13%  Similarity=0.093  Sum_probs=96.6

Q ss_pred             ccCCCCCChHhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHH-----HHHHHHHhccchhHHHHHHHHHHHcCC
Q 047359            4 SCEGRDSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACN-----ALLDALYRQNEIRLASCLYGAMVRDGV   78 (440)
Q Consensus         4 ~~~g~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~-----~ll~~~~~~~~~~~a~~~~~~~~~~~~   78 (440)
                      .++|-.|+...   +...++-.|++.+|-++|.+--..+-  -...|+     -..+-+...|..++-..+.++-.+.  
T Consensus       627 k~rge~P~~iL---lA~~~Ay~gKF~EAAklFk~~G~enR--AlEmyTDlRMFD~aQE~~~~g~~~eKKmL~RKRA~W--  699 (1081)
T KOG1538|consen  627 KKRGETPNDLL---LADVFAYQGKFHEAAKLFKRSGHENR--ALEMYTDLRMFDYAQEFLGSGDPKEKKMLIRKRADW--  699 (1081)
T ss_pred             HhcCCCchHHH---HHHHHHhhhhHHHHHHHHHHcCchhh--HHHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHH--
Confidence            45666676654   34556667788888888765432110  011111     1123333444444433333322111  


Q ss_pred             CCChhhHHHHHHHHHhcCChHHHHHHHhcc-------------c-CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCC
Q 047359           79 SPNKFTWSLVAQILCRSGKFEVVLGLLDSG-------------I-YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNL  144 (440)
Q Consensus        79 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-------------~-~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~  144 (440)
                      ..+..-=.+...++...|+.++|..+.-+-             . .+..+...+..-+.+...+.-|-++|..|-.    
T Consensus       700 Ar~~kePkaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD----  775 (1081)
T KOG1538|consen  700 ARNIKEPKAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDSPGLAAEIFLKMGD----  775 (1081)
T ss_pred             hhhcCCcHHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccccchHHHHHHHhcc----
Confidence            011111123345556667666666554321             1 2223333334444445555666666666532    


Q ss_pred             CCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHH
Q 047359          145 TPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCG  224 (440)
Q Consensus       145 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  224 (440)
                            ...+++.+...++|++|..+-+...+.  .    ...|..-.+.++...++++|.+                  
T Consensus       776 ------~ksiVqlHve~~~W~eAFalAe~hPe~--~----~dVy~pyaqwLAE~DrFeEAqk------------------  825 (1081)
T KOG1538|consen  776 ------LKSLVQLHVETQRWDEAFALAEKHPEF--K----DDVYMPYAQWLAENDRFEEAQK------------------  825 (1081)
T ss_pred             ------HHHHhhheeecccchHhHhhhhhCccc--c----ccccchHHHHhhhhhhHHHHHH------------------
Confidence                  123455566667777776665554332  1    2234444444444444444443                  


Q ss_pred             HHHHHHhhhccHHHHHHHHHHHHHc
Q 047359          225 CMLKALSKEGRVKEAIQIYHLISER  249 (440)
Q Consensus       225 ~l~~~~~~~~~~~~a~~~~~~~~~~  249 (440)
                          +|.+.|+-.+|.++++++...
T Consensus       826 ----AfhkAGr~~EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  826 ----AFHKAGRQREAVQVLEQLTNN  846 (1081)
T ss_pred             ----HHHHhcchHHHHHHHHHhhhh
Confidence                445566667777777766544

>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=96.46  E-value=0.076  Score=38.52  Aligned_cols=52  Identities=8%  Similarity=0.157  Sum_probs=34.5

Q ss_pred             CCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHc-CCCCChhhHHHHHHHHH
Q 047359          215 KIELQDDTCGCMLKALSKEGRVKEAIQIYHLISER-GITVRDSDYYAFVNVLC  266 (440)
Q Consensus       215 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~  266 (440)
                      ...|+..+..+++.+|+..|++..|+++.+...+. +++.+..+|..|++-..
T Consensus        47 pl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~   99 (126)
T PF12921_consen   47 PLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAY   99 (126)
T ss_pred             CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            34577777777777777777777777777776554 45555666666665443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.41  E-value=0.26  Score=36.81  Aligned_cols=111  Identities=10%  Similarity=0.140  Sum_probs=67.2

Q ss_pred             HHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 047359           15 LSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCR   94 (440)
Q Consensus        15 ~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   94 (440)
                      ...++..+...+.+......++.+...+ ..+...++.++..+++.+. ++..+.++.      ..+......+++.|.+
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~~-~~ll~~l~~------~~~~yd~~~~~~~c~~   81 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYDP-QKEIERLDN------KSNHYDIEKVGKLCEK   81 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHCH-HHHHHHHHh------ccccCCHHHHHHHHHH
Confidence            3457777777788888888888888776 3567778888888876543 333333332      1233445556777777


Q ss_pred             cCChHHHHHHHhcccCCchhHHHHHHHHHhc-CChhHHHHHHHH
Q 047359           95 SGKFEVVLGLLDSGIYSSVMYNLVIDFYSKK-GDFGAAFDRLNE  137 (440)
Q Consensus        95 ~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~-~~~~~a~~~~~~  137 (440)
                      .+-++++..++.++..    +...+..+... ++++.|.+++.+
T Consensus        82 ~~l~~~~~~l~~k~~~----~~~Al~~~l~~~~d~~~a~~~~~~  121 (140)
T smart00299       82 AKLYEEAVELYKKDGN----FKDAIVTLIEHLGNYEKAIEYFVK  121 (140)
T ss_pred             cCcHHHHHHHHHhhcC----HHHHHHHHHHcccCHHHHHHHHHh
Confidence            7777777666666532    22223333333 566666665554

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=96.33  E-value=0.24  Score=35.57  Aligned_cols=65  Identities=11%  Similarity=0.079  Sum_probs=35.3

Q ss_pred             hhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC
Q 047359          327 CCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV  392 (440)
Q Consensus       327 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  392 (440)
                      .....+......|+-+.-.+++..+.+ +-++++...-.+..+|.+.|+..++.+++.++-+.|.+
T Consensus        88 ~vD~ALd~lv~~~kkDqLdki~~~l~k-n~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   88 YVDLALDILVKQGKKDQLDKIYNELKK-NEEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHhh-ccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            344455556666666666666666654 23455666666666677777777777766666666543

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.23  E-value=0.27  Score=36.18  Aligned_cols=54  Identities=20%  Similarity=0.170  Sum_probs=24.7

Q ss_pred             cCCCHHHHHHHHHHHHhcCCCC--chhhhHHHHHHHHcCCcHHHHHHHHHHHHhcc
Q 047359          302 GKGKWKEVEELLSAVLDKGLLL--DSFCCSSLMEYYCSNRQIDKAIALHIKIEKLK  355 (440)
Q Consensus       302 ~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  355 (440)
                      +.|++++|.+.|+.+...-+..  ....-..++.+|.+.+++++|...+++.++..
T Consensus        22 ~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLh   77 (142)
T PF13512_consen   22 QKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLH   77 (142)
T ss_pred             HhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            3455555555555554432110  12223334445555555555555555555543

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=96.23  E-value=0.0068  Score=32.13  Aligned_cols=32  Identities=9%  Similarity=0.161  Sum_probs=26.0

Q ss_pred             HHHHHHcCCCchhhHHHHHHHHHhcccHHHHH
Q 047359          383 FDYMKELKVVSSSSFVIVVSRLCHLKELRKAM  414 (440)
Q Consensus       383 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  414 (440)
                      |++..+.+|.++.+|+.+...|...|++++|+
T Consensus         2 y~kAie~~P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    2 YKKAIELNPNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             hHHHHHHCCCCHHHHHHHHHHHHHCcCHHhhc
Confidence            56777778888888888888888888888875

>PRK11906 transcriptional regulator; Provisional

Probab=96.18  E-value=0.4  Score=42.75  Aligned_cols=148  Identities=12%  Similarity=-0.022  Sum_probs=100.7

Q ss_pred             ChHHHHHHHHHHHH-cCCCCC-hhhHHHHHHHHHc---------CCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcC
Q 047359          270 QPEEVCGLLRDVVE-RGYIPC-AMELSRFVASQCG---------KGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSN  338 (440)
Q Consensus       270 ~~~~a~~~~~~~~~-~~~~~~-~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  338 (440)
                      ..+.|..+|.+... +...|+ ...|..+..++..         .....+|.++-+...+.+.. |......+..+..-.
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld~~-Da~a~~~~g~~~~~~  351 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDITTV-DGKILAIMGLITGLS  351 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHhh
Confidence            35678888888872 223343 3445555444332         12345677777777777655 777777787777888


Q ss_pred             CcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC--chhhHHHHHHHHHhcccHHHHHHH
Q 047359          339 RQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV--SSSSFVIVVSRLCHLKELRKAMKN  416 (440)
Q Consensus       339 ~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~  416 (440)
                      ++.+.|...|++....++. ...+|......+.-.|+.++|.+.+++..+..|.  -.......+..|+..+ .++|+.+
T Consensus       352 ~~~~~a~~~f~rA~~L~Pn-~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~~~~-~~~~~~~  429 (458)
T PRK11906        352 GQAKVSHILFEQAKIHSTD-IASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKECVDMYVPNP-LKNNIKL  429 (458)
T ss_pred             cchhhHHHHHHHHhhcCCc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHHHHHHHcCCc-hhhhHHH
Confidence            8899999999999886443 4456666667777889999999999998888877  3344444555666554 5777777


Q ss_pred             HHHH
Q 047359          417 HDEM  420 (440)
Q Consensus       417 ~~~m  420 (440)
                      +-+-
T Consensus       430 ~~~~  433 (458)
T PRK11906        430 YYKE  433 (458)
T ss_pred             Hhhc
Confidence            7543

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=96.18  E-value=0.45  Score=43.20  Aligned_cols=154  Identities=14%  Similarity=0.128  Sum_probs=68.5

Q ss_pred             HHhccchhHHHHHHH--HHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHhcccCCchhHHHHHHHHHhcCChhHHHHH
Q 047359           57 LYRQNEIRLASCLYG--AMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGIYSSVMYNLVIDFYSKKGDFGAAFDR  134 (440)
Q Consensus        57 ~~~~~~~~~a~~~~~--~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  134 (440)
                      ..-.++++.+.+..+  .+.. .+  +....+.++..+.+.|..+.|+++...-       ..-.....+.|+++.|.++
T Consensus       271 av~~~d~~~v~~~i~~~~ll~-~i--~~~~~~~i~~fL~~~G~~e~AL~~~~D~-------~~rFeLAl~lg~L~~A~~~  340 (443)
T PF04053_consen  271 AVLRGDFEEVLRMIAASNLLP-NI--PKDQGQSIARFLEKKGYPELALQFVTDP-------DHRFELALQLGNLDIALEI  340 (443)
T ss_dssp             HHHTT-HHH-----HHHHTGG-G----HHHHHHHHHHHHHTT-HHHHHHHSS-H-------HHHHHHHHHCT-HHHHHHH
T ss_pred             HHHcCChhhhhhhhhhhhhcc-cC--ChhHHHHHHHHHHHCCCHHHHHhhcCCh-------HHHhHHHHhcCCHHHHHHH
Confidence            334456666555543  1111 11  1334556666666666666666654331       2223344556666666555


Q ss_pred             HHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhc
Q 047359          135 LNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDE  214 (440)
Q Consensus       135 ~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (440)
                      .++.       ++...|..|.....+.|+++.|++.+.+..           -+..|+-.|.-.|+.+...++.+.....
T Consensus       341 a~~~-------~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~-----------d~~~L~lLy~~~g~~~~L~kl~~~a~~~  402 (443)
T PF04053_consen  341 AKEL-------DDPEKWKQLGDEALRQGNIELAEECYQKAK-----------DFSGLLLLYSSTGDREKLSKLAKIAEER  402 (443)
T ss_dssp             CCCC-------STHHHHHHHHHHHHHTTBHHHHHHHHHHCT------------HHHHHHHHHHCT-HHHHHHHHHHHHHT
T ss_pred             HHhc-------CcHHHHHHHHHHHHHcCCHHHHHHHHHhhc-----------CccccHHHHHHhCCHHHHHHHHHHHHHc
Confidence            3332       244466666666666666666666555432           2333444555555555555555444433


Q ss_pred             CCCCCHHhHHHHHHHHhhhccHHHHHHHHH
Q 047359          215 KIELQDDTCGCMLKALSKEGRVKEAIQIYH  244 (440)
Q Consensus       215 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  244 (440)
                      |-      ++....++...|+.++..+++.
T Consensus       403 ~~------~n~af~~~~~lgd~~~cv~lL~  426 (443)
T PF04053_consen  403 GD------INIAFQAALLLGDVEECVDLLI  426 (443)
T ss_dssp             T-------HHHHHHHHHHHT-HHHHHHHHH
T ss_pred             cC------HHHHHHHHHHcCCHHHHHHHHH
Confidence            21      3333344444455555544443

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.

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.18  E-value=0.61  Score=38.82  Aligned_cols=139  Identities=12%  Similarity=0.054  Sum_probs=68.4

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHH
Q 047359          266 CKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAI  345 (440)
Q Consensus       266 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  345 (440)
                      ...|++.+|...|+...... +-+...--.+..+|...|+.+.|..++..+....-.........-+..+.+.....+..
T Consensus       145 ~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~~~  223 (304)
T COG3118         145 IEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPEIQ  223 (304)
T ss_pred             hhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCCHH
Confidence            34555666666665555442 12233444555556666666666666655543211111111112233333333333333


Q ss_pred             HHHHHHHhccCCc-CHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC--chhhHHHHHHHHHhcc
Q 047359          346 ALHIKIEKLKGSL-DVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV--SSSSFVIVVSRLCHLK  408 (440)
Q Consensus       346 ~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g  408 (440)
                      .+-++.-.   .| |...-..+...+...|+.++|.+.+-.+.+.+..  +...-..++..+.-.|
T Consensus       224 ~l~~~~aa---dPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g  286 (304)
T COG3118         224 DLQRRLAA---DPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFG  286 (304)
T ss_pred             HHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcC
Confidence            33333332   13 4445556666677777777777766665544333  5555556666555555

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.17  E-value=0.36  Score=36.05  Aligned_cols=86  Identities=12%  Similarity=0.048  Sum_probs=46.5

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHc
Q 047359          258 YYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCS  337 (440)
Q Consensus       258 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  337 (440)
                      ...++..+.+.+.+.....+++.+...+ ..+....+.++..|++.+ .++....++.      .++......+++.|.+
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~~~~~~c~~   81 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIEKVGKLCEK   81 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHHHHHHHHHH
Confidence            3455666666666667777777666654 345556666666666542 2333333331      1133334445556666


Q ss_pred             CCcHHHHHHHHHHH
Q 047359          338 NRQIDKAIALHIKI  351 (440)
Q Consensus       338 ~~~~~~a~~~~~~~  351 (440)
                      .+-++++..++.++
T Consensus        82 ~~l~~~~~~l~~k~   95 (140)
T smart00299       82 AKLYEEAVELYKKD   95 (140)
T ss_pred             cCcHHHHHHHHHhh
Confidence            66666666655544

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=96.15  E-value=0.075  Score=44.19  Aligned_cols=76  Identities=13%  Similarity=0.202  Sum_probs=53.9

Q ss_pred             HhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHH-----CCCCCCHHHHHHH
Q 047359          361 ATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLK-----MGHKPDEATYKQV  435 (440)
Q Consensus       361 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~-----~~~~p~~~t~~~l  435 (440)
                      .++..++..+..+|+.+.+.+.++++....|.+...|..++.+|.+.|+...|+..|+++.+     .|+.|...+...+
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y  233 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALY  233 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHH
Confidence            35566667777777777777777777777777777777777777777777777777776654     5777776665554


Q ss_pred             h
Q 047359          436 I  436 (440)
Q Consensus       436 l  436 (440)
                      .
T Consensus       234 ~  234 (280)
T COG3629         234 E  234 (280)
T ss_pred             H
Confidence            3

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.15  E-value=0.048  Score=44.55  Aligned_cols=91  Identities=15%  Similarity=0.183  Sum_probs=72.3

Q ss_pred             CCCCChHhHHHHHHHHHcc-----CCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhcc----------------chhH
Q 047359            7 GRDSQSDALSLVLDCYSHK-----GLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQN----------------EIRL   65 (440)
Q Consensus         7 g~~~~~~~~~~li~~~~~~-----~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~----------------~~~~   65 (440)
                      |-..|-.+|-..+..+...     +..+=....+..|.+.|+..|..+|+.|+..+-+..                +-+-
T Consensus        62 ~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C  141 (406)
T KOG3941|consen   62 PEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNC  141 (406)
T ss_pred             cccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhH
Confidence            3456677787777777543     456666677889999999999999999998876532                2345


Q ss_pred             HHHHHHHHHHcCCCCChhhHHHHHHHHHhcCC
Q 047359           66 ASCLYGAMVRDGVSPNKFTWSLVAQILCRSGK   97 (440)
Q Consensus        66 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   97 (440)
                      +++++++|..+|+.||..+-..|++++.+.+-
T Consensus       142 ~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  142 AIKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             HHHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence            78999999999999999999999999988774

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.12  E-value=0.55  Score=37.83  Aligned_cols=55  Identities=18%  Similarity=0.207  Sum_probs=31.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcC---CCCChhhHHHHHHHHHcCCCHHHHHHHH
Q 047359          258 YYAFVNVLCKEHQPEEVCGLLRDVVERG---YIPCAMELSRFVASQCGKGKWKEVEELL  313 (440)
Q Consensus       258 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~  313 (440)
                      |...|-.+.-..++..|.+.++.-.+.+   -+.+..+...|+.+| ..|+.+++.+++
T Consensus       193 ~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~~kvl  250 (308)
T KOG1585|consen  193 YVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEIKKVL  250 (308)
T ss_pred             HHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHHHHHH
Confidence            4444445555667777777777644321   123455666666665 346666665554

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.08  E-value=0.57  Score=43.17  Aligned_cols=162  Identities=19%  Similarity=0.170  Sum_probs=84.2

Q ss_pred             HHHHHHHHhhhccHHHHHHHHHHHHHcC-CCCCh-----hhHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCCChhh
Q 047359          223 CGCMLKALSKEGRVKEAIQIYHLISERG-ITVRD-----SDYYAFVNVLCK----EHQPEEVCGLLRDVVERGYIPCAME  292 (440)
Q Consensus       223 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~-----~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~  292 (440)
                      +..+++...=.||-+.+++.+.+..+.+ +....     -.|..++..++.    ..+.+.|.++++.+.+.  -|+...
T Consensus       191 ~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~l  268 (468)
T PF10300_consen  191 VLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSAL  268 (468)
T ss_pred             HHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHH
Confidence            3344444555566666666666554432 11110     112222222222    34556677777777665  355554


Q ss_pred             HHHH-HHHHHcCCCHHHHHHHHHHHHhcC---CCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHH
Q 047359          293 LSRF-VASQCGKGKWKEVEELLSAVLDKG---LLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLD  368 (440)
Q Consensus       293 ~~~l-~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  368 (440)
                      |... .+.+...|++++|.+.|++.....   .+.....+-.+...+....++++|.+.|.++.+..- -+..+|..+..
T Consensus       269 fl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~-WSka~Y~Y~~a  347 (468)
T PF10300_consen  269 FLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESK-WSKAFYAYLAA  347 (468)
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccc-cHHHHHHHHHH
Confidence            4333 233445677777777777654211   112233444555566677778888777777776422 13334433332


Q ss_pred             -HHHhcCcH-------HHHHHHHHHHH
Q 047359          369 -GLFKDGRM-------EEAVRIFDYMK  387 (440)
Q Consensus       369 -~~~~~g~~-------~~a~~~~~~~~  387 (440)
                       ++...|+.       ++|.++|.++.
T Consensus       348 ~c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  348 ACLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHHHhhccchhhhhhHHHHHHHHHHHH
Confidence             34455666       67777776653

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.

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.08  E-value=0.61  Score=44.50  Aligned_cols=50  Identities=12%  Similarity=0.252  Sum_probs=22.3

Q ss_pred             HHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHH
Q 047359          229 ALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLR  279 (440)
Q Consensus       229 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  279 (440)
                      -|....+...--.+++.+.+.|.. +...-..|+.+|.+.++.++-.++.+
T Consensus       406 kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~  455 (933)
T KOG2114|consen  406 KFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFIS  455 (933)
T ss_pred             HhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHh
Confidence            334444444444444444444443 33334444555555555444444443

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.05  E-value=1.5  Score=42.10  Aligned_cols=68  Identities=7%  Similarity=0.039  Sum_probs=38.2

Q ss_pred             HHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHH----HCCCCCCHHHHHHH
Q 047359          365 VLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEML----KMGHKPDEATYKQV  435 (440)
Q Consensus       365 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~----~~~~~p~~~t~~~l  435 (440)
                      -++..+.+..+.+++..+.+..   |..+|..|..++..+.+.+..+...+...+.+    .....|-......|
T Consensus       710 dl~~~~~q~~d~E~~it~~~~~---g~~~p~l~~~~L~yF~~~~~i~~~~~~v~~vl~~I~~~~~ippl~VL~~L  781 (933)
T KOG2114|consen  710 DLMLYFQQISDPETVITLCERL---GKEDPSLWLHALKYFVSEESIEDCYEIVYKVLEAIEMQERIPPLHVLQIL  781 (933)
T ss_pred             HHHHHHHHhhChHHHHHHHHHh---CccChHHHHHHHHHHhhhcchhhHHHHHHHHHHHHHhcccCCHHHHHHHH
Confidence            3445555666666666555433   33477778888888887775555544444333    33444544444443

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.01  E-value=0.33  Score=43.20  Aligned_cols=64  Identities=11%  Similarity=0.097  Sum_probs=42.5

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCh----hhHHHHHHHHHcCCCHHHHHHHHHHHHhc
Q 047359          254 RDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCA----MELSRFVASQCGKGKWKEVEELLSAVLDK  319 (440)
Q Consensus       254 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  319 (440)
                      +...++.+..+|...|++++|+..|+..++.+  |+.    .+|..+..+|...|+.++|...+++..+.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~--Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALELN--PNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            34566667777777777777777777766643  443    24666777777777777777777777664

>PRK11906 transcriptional regulator; Provisional

Probab=95.99  E-value=0.71  Score=41.27  Aligned_cols=149  Identities=13%  Similarity=0.033  Sum_probs=96.1

Q ss_pred             cHHHHHHHHHHHHHc-CCCCC-hhhHHHHHHHHHh---------cCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcC
Q 047359          235 RVKEAIQIYHLISER-GITVR-DSDYYAFVNVLCK---------EHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGK  303 (440)
Q Consensus       235 ~~~~a~~~~~~~~~~-~~~~~-~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  303 (440)
                      ..+.|+.+|.+.... ...|+ ...|..+..++..         .....+|..+.+...+.+ +.|......+..+....
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            456788899988822 23333 3445444444322         123445666777777765 45677777777767777


Q ss_pred             CCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHH---hHHHHHHHHHhcCcHHHHH
Q 047359          304 GKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVA---TYDVLLDGLFKDGRMEEAV  380 (440)
Q Consensus       304 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~---~~~~l~~~~~~~g~~~~a~  380 (440)
                      ++++.|...|++....++. ...+|........-.|+.++|.+.+++..+.  .|...   .....++.|... ..+.|+
T Consensus       352 ~~~~~a~~~f~rA~~L~Pn-~A~~~~~~~~~~~~~G~~~~a~~~i~~alrL--sP~~~~~~~~~~~~~~~~~~-~~~~~~  427 (458)
T PRK11906        352 GQAKVSHILFEQAKIHSTD-IASLYYYRALVHFHNEKIEEARICIDKSLQL--EPRRRKAVVIKECVDMYVPN-PLKNNI  427 (458)
T ss_pred             cchhhHHHHHHHHhhcCCc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc--CchhhHHHHHHHHHHHHcCC-chhhhH
Confidence            8899999999999887544 4555666666677889999999999998774  33322   223334455544 467777


Q ss_pred             HHHHHHHH
Q 047359          381 RIFDYMKE  388 (440)
Q Consensus       381 ~~~~~~~~  388 (440)
                      +++-+-.+
T Consensus       428 ~~~~~~~~  435 (458)
T PRK11906        428 KLYYKETE  435 (458)
T ss_pred             HHHhhccc
Confidence            77755433

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=95.98  E-value=0.028  Score=31.96  Aligned_cols=40  Identities=13%  Similarity=0.175  Sum_probs=32.8

Q ss_pred             hhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 047359          394 SSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQV  435 (440)
Q Consensus       394 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~l  435 (440)
                      +.++..+...|.+.|++++|.++|++.++  ..|+.......
T Consensus         1 p~~~~~la~~~~~~G~~~~A~~~~~~~l~--~~P~~~~a~~~   40 (44)
T PF13428_consen    1 PAAWLALARAYRRLGQPDEAERLLRRALA--LDPDDPEAWRA   40 (44)
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHH--HCcCCHHHHHH
Confidence            35688899999999999999999999999  46776554433

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=95.95  E-value=0.71  Score=39.55  Aligned_cols=125  Identities=14%  Similarity=0.161  Sum_probs=56.2

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhc-----CCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhc----cCCcCHH-----
Q 047359          296 FVASQCGKGKWKEVEELLSAVLDK-----GLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKL----KGSLDVA-----  361 (440)
Q Consensus       296 l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~p~~~-----  361 (440)
                      +..++...+.++++++.|+...+.     +.......+..|-..|.+..|+++|.-+..+..+.    +++--..     
T Consensus       128 ~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~  207 (518)
T KOG1941|consen  128 MGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAM  207 (518)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHH
Confidence            444444455555555555555432     11112334555555555556666555544443321    1110001     


Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC------chhhHHHHHHHHHhcccHHHHHHHHHHH
Q 047359          362 TYDVLLDGLFKDGRMEEAVRIFDYMKELKVV------SSSSFVIVVSRLCHLKELRKAMKNHDEM  420 (440)
Q Consensus       362 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~------~~~~~~~l~~~~~~~g~~~~a~~~~~~m  420 (440)
                      ....+..++...|+...|.+..++..+....      .......+.+.|...|+.+.|+.-|+..
T Consensus       208 ~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~A  272 (518)
T KOG1941|consen  208 SLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQA  272 (518)
T ss_pred             HHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHH
Confidence            1122333455555555555555554332211      2223344555555666666655555443

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=95.93  E-value=0.82  Score=38.12  Aligned_cols=120  Identities=17%  Similarity=0.101  Sum_probs=49.5

Q ss_pred             HhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHH
Q 047359          195 LSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEV  274 (440)
Q Consensus       195 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  274 (440)
                      ....|++..|...|+........ +...--.+..+|...|+.+.|..++..+....-.........-+..+.+.....+.
T Consensus       144 ~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~~  222 (304)
T COG3118         144 LIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPEI  222 (304)
T ss_pred             hhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCCH
Confidence            33444555555555554444333 23334445555555555555555555544332111111111222333333333333


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHH
Q 047359          275 CGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVL  317 (440)
Q Consensus       275 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  317 (440)
                      ..+-...-..  +-|...-..+...+...|+.+.|.+.+-.+.
T Consensus       223 ~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l  263 (304)
T COG3118         223 QDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALL  263 (304)
T ss_pred             HHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3333333221  1133333444444555555555555444443

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.90  E-value=0.39  Score=40.56  Aligned_cols=153  Identities=10%  Similarity=0.018  Sum_probs=91.5

Q ss_pred             hhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhH----HHHHHHHHcCCCHH
Q 047359          232 KEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMEL----SRFVASQCGKGKWK  307 (440)
Q Consensus       232 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~~~~~  307 (440)
                      ..|++.+|-..++++.+.- +.|...+...=.+|.-.|+.+.-...++.+... ..++...|    ..+.-++...|-++
T Consensus       115 ~~g~~h~a~~~wdklL~d~-PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y~  192 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDDY-PTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYD  192 (491)
T ss_pred             ccccccHHHHHHHHHHHhC-chhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccch
Confidence            3566666666777776653 346666666677777788877777777777654 12333222    23334445667788


Q ss_pred             HHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhc---cCCcCHHhHHHHHHHHHhcCcHHHHHHHHH
Q 047359          308 EVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKL---KGSLDVATYDVLLDGLFKDGRMEEAVRIFD  384 (440)
Q Consensus       308 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~  384 (440)
                      +|++.-++..+.+.. |...-....+.+...|+..++.++..+-...   +.-.-...|-...-.+...+.++.|+++|+
T Consensus       193 dAEk~A~ralqiN~~-D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD  271 (491)
T KOG2610|consen  193 DAEKQADRALQINRF-DCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYD  271 (491)
T ss_pred             hHHHHHHhhccCCCc-chHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHH
Confidence            888777777765433 5556666667777777788777775544321   100111223333344556677888888877


Q ss_pred             HHH
Q 047359          385 YMK  387 (440)
Q Consensus       385 ~~~  387 (440)
                      .-.
T Consensus       272 ~ei  274 (491)
T KOG2610|consen  272 REI  274 (491)
T ss_pred             HHH
Confidence            543

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=95.89  E-value=0.95  Score=38.66  Aligned_cols=138  Identities=9%  Similarity=0.059  Sum_probs=73.8

Q ss_pred             hhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHhcccCCchhHHHHHHHHHhcCChhHHHHHHHHHhcCC
Q 047359           63 IRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGIYSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGR  142 (440)
Q Consensus        63 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  142 (440)
                      +++...+++.|.+.|+..+..+|.+..-..... +-+...                       ....+|..+|+.|++..
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~-~~~~~~-----------------------~~~~ra~~iy~~mKk~H  133 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEE-EKEDYD-----------------------EIIQRAKEIYKEMKKKH  133 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhc-ccccHH-----------------------HHHHHHHHHHHHHHHhC
Confidence            566788899999999988876665543333221 111111                       12356788889998733


Q ss_pred             CC--CCchhhHHHHHHHHHhcCCh----hhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCc--HHHHHHHHHHHHhc
Q 047359          143 NL--TPGFSTYSSILDGARRYEKT----EVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGK--TYAAEMIFKRACDE  214 (440)
Q Consensus       143 ~~--~p~~~~~~~l~~~~~~~~~~----~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~  214 (440)
                      ..  .++..++..++..  ..++.    +.++.+++.+.+.|+...+.......++.......+  ..++.++++.+.+.
T Consensus       134 ~fLTs~~D~~~a~lLA~--~~~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~  211 (297)
T PF13170_consen  134 PFLTSPEDYPFAALLAM--TSEDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKN  211 (297)
T ss_pred             ccccCccchhHHHHHhc--ccccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHc
Confidence            32  2344455555543  23332    455666777777676665433333333333322222  22455556666666


Q ss_pred             CCCCCHHhHHHH
Q 047359          215 KIELQDDTCGCM  226 (440)
Q Consensus       215 ~~~~~~~~~~~l  226 (440)
                      ++++....|..+
T Consensus       212 ~~kik~~~yp~l  223 (297)
T PF13170_consen  212 GVKIKYMHYPTL  223 (297)
T ss_pred             CCccccccccHH
Confidence            555555444433

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.88  E-value=1.2  Score=40.20  Aligned_cols=150  Identities=14%  Similarity=0.036  Sum_probs=84.8

Q ss_pred             HHHHHHhhcCcHHHHHHHHHHHHhcCCCCCH-HhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 047359          190 YVIQKLSDMGKTYAAEMIFKRACDEKIELQD-DTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKE  268 (440)
Q Consensus       190 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  268 (440)
                      .++.-.-+..+.+.-.+.-++..+..  ||. ..|..|  +--......++++++++..+.|-.    .+.       +.
T Consensus       173 ~IMq~AWRERnp~aRIkaA~eALei~--pdCAdAYILL--AEEeA~Ti~Eae~l~rqAvkAgE~----~lg-------~s  237 (539)
T PF04184_consen  173 EIMQKAWRERNPQARIKAAKEALEIN--PDCADAYILL--AEEEASTIVEAEELLRQAVKAGEA----SLG-------KS  237 (539)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHhh--hhhhHHHhhc--ccccccCHHHHHHHHHHHHHHHHH----hhc-------hh
Confidence            34444445555555555555555432  322 222211  222345567788888777665321    110       00


Q ss_pred             CChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCC-CchhhhHHHHHHHHcCCcHHHHHHH
Q 047359          269 HQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLL-LDSFCCSSLMEYYCSNRQIDKAIAL  347 (440)
Q Consensus       269 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~  347 (440)
                      ......-..++........|-..+-..+..++.+.|+.++|.+.++++.+.... .+......|+.++...+.+.++..+
T Consensus       238 ~~~~~~g~~~e~~~~Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~l  317 (539)
T PF04184_consen  238 QFLQHHGHFWEAWHRRDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQAL  317 (539)
T ss_pred             hhhhcccchhhhhhccccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHH
Confidence            000000011122222222233344455777778889999999999999875432 2445777899999999999999999


Q ss_pred             HHHHHhc
Q 047359          348 HIKIEKL  354 (440)
Q Consensus       348 ~~~~~~~  354 (440)
                      +.+-.+.
T Consensus       318 L~kYdDi  324 (539)
T PF04184_consen  318 LAKYDDI  324 (539)
T ss_pred             HHHhccc
Confidence            9987653

The molecular function of this protein is uncertain.

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=95.85  E-value=0.5  Score=40.43  Aligned_cols=167  Identities=10%  Similarity=-0.035  Sum_probs=85.4

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCch---hhHHHHHHHHHhcCChhhHHHHHHHHHhcCC---CCcccccch
Q 047359          115 YNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGF---STYSSILDGARRYEKTEVSDRIVGLMVEKKL---LPKHFLSGN  188 (440)
Q Consensus       115 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~  188 (440)
                      |..+.+++-+.-++.+++.+-..-....|..|..   ....++..++.-.+.++++++.|+...+...   +|.--..++
T Consensus        86 ~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvc  165 (518)
T KOG1941|consen   86 YLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVC  165 (518)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehh
Confidence            4444444444445555555544443322333311   1223344555555666777776666554211   111114566


Q ss_pred             HHHHHHHhhcCcHHHHHHHHHHHHhc----CCCCCH-HhH-----HHHHHHHhhhccHHHHHHHHHHHHHc----CCCC-
Q 047359          189 DYVIQKLSDMGKTYAAEMIFKRACDE----KIELQD-DTC-----GCMLKALSKEGRVKEAIQIYHLISER----GITV-  253 (440)
Q Consensus       189 ~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~-~~~-----~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-  253 (440)
                      ..+...|.+..|+++|.-+..+..+.    ++. |. .-|     ..|.-++...|...+|.+.-++..+.    |-.+ 
T Consensus       166 v~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~-d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~  244 (518)
T KOG1941|consen  166 VSLGSLFAQLKDYEKALFFPCKAAELVNSYGLK-DWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRAL  244 (518)
T ss_pred             hhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcC-chhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHH
Confidence            67777777777777777665554331    221 11 112     22334556667777777666655432    3221 


Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 047359          254 RDSDYYAFVNVLCKEHQPEEVCGLLRDVV  282 (440)
Q Consensus       254 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  282 (440)
                      -......+.+.|...|+.+.|+.-++...
T Consensus       245 ~arc~~~~aDIyR~~gd~e~af~rYe~Am  273 (518)
T KOG1941|consen  245 QARCLLCFADIYRSRGDLERAFRRYEQAM  273 (518)
T ss_pred             HHHHHHHHHHHHHhcccHhHHHHHHHHHH
Confidence            12334456666777777777777666543

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.83  E-value=0.83  Score=37.45  Aligned_cols=88  Identities=20%  Similarity=0.166  Sum_probs=42.0

Q ss_pred             HHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHH
Q 047359          335 YCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAM  414 (440)
Q Consensus       335 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  414 (440)
                      +...++.+.+...+.+..+.........+..+...+...++.+.|...+.......+.....+..+...+...|..+++.
T Consensus       177 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  256 (291)
T COG0457         177 LEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEAL  256 (291)
T ss_pred             HHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHH
Confidence            34445555555555555543111123444555555555555555555555555544332233333333333444455555


Q ss_pred             HHHHHHHH
Q 047359          415 KNHDEMLK  422 (440)
Q Consensus       415 ~~~~~m~~  422 (440)
                      ..+.+...
T Consensus       257 ~~~~~~~~  264 (291)
T COG0457         257 EALEKALE  264 (291)
T ss_pred             HHHHHHHH
Confidence            55555444

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.72  E-value=0.22  Score=40.91  Aligned_cols=98  Identities=16%  Similarity=0.140  Sum_probs=42.3

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCC-C-CHHhHHHHHH
Q 047359          151 YSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIE-L-QDDTCGCMLK  228 (440)
Q Consensus       151 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~l~~  228 (440)
                      |+.-+.. .+.|++..|...|...++...........+.-|..++...|++++|..+|..+.+.-+. | -+..+-.+..
T Consensus       145 Y~~A~~~-~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~  223 (262)
T COG1729         145 YNAALDL-YKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGV  223 (262)
T ss_pred             HHHHHHH-HHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHH
Confidence            4444432 34555666666666666544222111223333444444445554444444444433211 0 1123333334


Q ss_pred             HHhhhccHHHHHHHHHHHHHc
Q 047359          229 ALSKEGRVKEAIQIYHLISER  249 (440)
Q Consensus       229 ~~~~~~~~~~a~~~~~~~~~~  249 (440)
                      +..+.|+.++|..+|+++.+.
T Consensus       224 ~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         224 SLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHhcCHHHHHHHHHHHHHH
Confidence            444444444444444444443

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=95.63  E-value=0.99  Score=36.87  Aligned_cols=183  Identities=13%  Similarity=0.031  Sum_probs=101.1

Q ss_pred             HHHHHhhcCcHHHHHHHHHHHHhcCCC--CCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 047359          191 VIQKLSDMGKTYAAEMIFKRACDEKIE--LQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKE  268 (440)
Q Consensus       191 l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  268 (440)
                      -+..-.+.|++++|.+.|+.+....+-  -...+.-.++.++.+.++++.|+...++.....+.....-|...|.+++.-
T Consensus        40 ~g~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgLs~~  119 (254)
T COG4105          40 EGLTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLSYF  119 (254)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHh
Confidence            344445567777777777777654332  123344556666777788888888777777765444444555555555421


Q ss_pred             -------CChH---HHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcC
Q 047359          269 -------HQPE---EVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSN  338 (440)
Q Consensus       269 -------~~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  338 (440)
                             .+..   +|..-|+.+++.  -|++.             -...|..-+..+...    =...=..+.+.|.+.
T Consensus       120 ~~i~~~~rDq~~~~~A~~~f~~~i~r--yPnS~-------------Ya~dA~~~i~~~~d~----LA~~Em~IaryY~kr  180 (254)
T COG4105         120 FQIDDVTRDQSAARAAFAAFKELVQR--YPNSR-------------YAPDAKARIVKLNDA----LAGHEMAIARYYLKR  180 (254)
T ss_pred             ccCCccccCHHHHHHHHHHHHHHHHH--CCCCc-------------chhhHHHHHHHHHHH----HHHHHHHHHHHHHHh
Confidence                   2222   233333333332  12221             112222222222111    000112356678899


Q ss_pred             CcHHHHHHHHHHHHhccCCcCH---HhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc
Q 047359          339 RQIDKAIALHIKIEKLKGSLDV---ATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVS  393 (440)
Q Consensus       339 ~~~~~a~~~~~~~~~~~~~p~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  393 (440)
                      |.+..|..-++++++. .+-+.   ..+-.+..+|...|-.++|.+.-+-+....|.+
T Consensus       181 ~~~~AA~nR~~~v~e~-y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~N~p~s  237 (254)
T COG4105         181 GAYVAAINRFEEVLEN-YPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGANYPDS  237 (254)
T ss_pred             cChHHHHHHHHHHHhc-cccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCC
Confidence            9999999999999886 32233   345566778888898888887766555544443

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.60  E-value=0.32  Score=34.86  Aligned_cols=93  Identities=13%  Similarity=-0.030  Sum_probs=57.2

Q ss_pred             HHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCH---HhHHHHHHHHHhcCc
Q 047359          299 SQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDV---ATYDVLLDGLFKDGR  375 (440)
Q Consensus       299 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~---~~~~~l~~~~~~~g~  375 (440)
                      +....|+++.|++.|.+....-++ ....||.-.+++--.|+.++|+.-+++..+..-..+.   ..|..-...|...|+
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~P~-raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLAPE-RASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhccc-chHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            445567777777777777665333 5666777777777777777777777776654221122   223333344566677


Q ss_pred             HHHHHHHHHHHHHcCCC
Q 047359          376 MEEAVRIFDYMKELKVV  392 (440)
Q Consensus       376 ~~~a~~~~~~~~~~~~~  392 (440)
                      .+.|..-|+...+.|.+
T Consensus       131 dd~AR~DFe~AA~LGS~  147 (175)
T KOG4555|consen  131 DDAARADFEAAAQLGSK  147 (175)
T ss_pred             hHHHHHhHHHHHHhCCH
Confidence            77777777777666644

>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=95.46  E-value=0.83  Score=34.89  Aligned_cols=134  Identities=13%  Similarity=0.109  Sum_probs=69.2

Q ss_pred             HHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHhcccCCc
Q 047359           33 EVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGIYSS  112 (440)
Q Consensus        33 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  112 (440)
                      +.++.+.+.+++|+...+..+++.+.+.|++....+    +.+.++-+|.......+-.+.  +....+.++=-+|....
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~q----llq~~Vi~DSk~lA~~LLs~~--~~~~~~~Ql~lDMLkRL   88 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQ----LLQYHVIPDSKPLACQLLSLG--NQYPPAYQLGLDMLKRL   88 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHH----HHhhcccCCcHHHHHHHHHhH--ccChHHHHHHHHHHHHh
Confidence            445555666777777777777777777777544333    334444444443332222221  12222222222222111


Q ss_pred             h-hHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 047359          113 V-MYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEK  177 (440)
Q Consensus       113 ~-~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  177 (440)
                      . .+..++..+...|++-+|+++......     -+......++.+..+.+|...-..+++-..++
T Consensus        89 ~~~~~~iievLL~~g~vl~ALr~ar~~~~-----~~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~~  149 (167)
T PF07035_consen   89 GTAYEEIIEVLLSKGQVLEALRYARQYHK-----VDSVPARKFLEAAANSNDDQLFYAVFRFFEER  149 (167)
T ss_pred             hhhHHHHHHHHHhCCCHHHHHHHHHHcCC-----cccCCHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            2 455666667777777777777766532     11122344566666666665555555555543

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.42  E-value=1.4  Score=37.36  Aligned_cols=155  Identities=12%  Similarity=-0.009  Sum_probs=107.1

Q ss_pred             HhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChh--hH--HHHHHHHHhcCC
Q 047359          195 LSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDS--DY--YAFVNVLCKEHQ  270 (440)
Q Consensus       195 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~--~~l~~~~~~~~~  270 (440)
                      ....|+..+|-..++++.+.-+. |...++-.=.+|.-.|+.+.....++++... ..+|..  +|  ..+.-++...|-
T Consensus       113 ~~~~g~~h~a~~~wdklL~d~Pt-Dlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~  190 (491)
T KOG2610|consen  113 LWGRGKHHEAAIEWDKLLDDYPT-DLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGI  190 (491)
T ss_pred             hhccccccHHHHHHHHHHHhCch-hhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhcc
Confidence            34578888888889998887554 7778888888899999999999999888765 112332  22  333445568899


Q ss_pred             hHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhc---CCCCchhhhHHHHHHHHcCCcHHHHHHH
Q 047359          271 PEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDK---GLLLDSFCCSSLMEYYCSNRQIDKAIAL  347 (440)
Q Consensus       271 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~a~~~  347 (440)
                      +++|++.-++..+-+ +.|.-.-.+....+-..|+..++.++..+-...   +.-.-...|-...-.+...+.++.|+++
T Consensus       191 y~dAEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleI  269 (491)
T KOG2610|consen  191 YDDAEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEI  269 (491)
T ss_pred             chhHHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHH
Confidence            999999999888764 345445556666677789999998887665432   1111122233333445677899999999


Q ss_pred             HHHHH
Q 047359          348 HIKIE  352 (440)
Q Consensus       348 ~~~~~  352 (440)
                      |++-+
T Consensus       270 yD~ei  274 (491)
T KOG2610|consen  270 YDREI  274 (491)
T ss_pred             HHHHH
Confidence            98654

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.38  E-value=0.48  Score=33.99  Aligned_cols=91  Identities=13%  Similarity=-0.067  Sum_probs=52.1

Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchh---hhHHHHHHHHcCCc
Q 047359          264 VLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSF---CCSSLMEYYCSNRQ  340 (440)
Q Consensus       264 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~~~  340 (440)
                      ++...|+.+.|++.|...+.. .+.....||.-..++.-.|+.++|+.-+++..+..-.....   .|..-...|-..|+
T Consensus        52 alaE~g~Ld~AlE~F~qal~l-~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCL-APERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHh-cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            455666777777777666654 23455667777777766777777776666665532111211   12222234555666


Q ss_pred             HHHHHHHHHHHHhcc
Q 047359          341 IDKAIALHIKIEKLK  355 (440)
Q Consensus       341 ~~~a~~~~~~~~~~~  355 (440)
                      .+.|..-|+..-+.|
T Consensus       131 dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  131 DDAARADFEAAAQLG  145 (175)
T ss_pred             hHHHHHhHHHHHHhC
Confidence            666666666666654

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=95.37  E-value=0.23  Score=40.80  Aligned_cols=69  Identities=14%  Similarity=0.151  Sum_probs=35.9

Q ss_pred             cHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcC----------------cHHHHHHHHHHHHHcCCC-chhhHHHHHH
Q 047359          340 QIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDG----------------RMEEAVRIFDYMKELKVV-SSSSFVIVVS  402 (440)
Q Consensus       340 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g----------------~~~~a~~~~~~~~~~~~~-~~~~~~~l~~  402 (440)
                      ..+-....++.|.+-|+.-|..+|+.|+..+-+..                +-+-++.++++|...|+- |..+-..++.
T Consensus        87 HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn  166 (406)
T KOG3941|consen   87 HVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVN  166 (406)
T ss_pred             hHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHH
Confidence            34444445555666666666666666665443321                122345555555555554 5555555555


Q ss_pred             HHHhcc
Q 047359          403 RLCHLK  408 (440)
Q Consensus       403 ~~~~~g  408 (440)
                      ++.+.|
T Consensus       167 ~FGr~~  172 (406)
T KOG3941|consen  167 AFGRWN  172 (406)
T ss_pred             Hhcccc
Confidence            555444

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.29  E-value=0.81  Score=33.74  Aligned_cols=74  Identities=9%  Similarity=-0.034  Sum_probs=42.2

Q ss_pred             HHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHh
Q 047359          158 ARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALS  231 (440)
Q Consensus       158 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  231 (440)
                      ..+.|++++|.+.|+.+..+-..+.-...+-..++.+|.+.++++.|...+++..+.++.....-|...+.+++
T Consensus        20 ~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~   93 (142)
T PF13512_consen   20 ALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLS   93 (142)
T ss_pred             HHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHH
Confidence            44567777777777777665322221234445566667777777777777776666555433344444444443

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=95.27  E-value=1.7  Score=37.22  Aligned_cols=133  Identities=16%  Similarity=0.192  Sum_probs=74.3

Q ss_pred             HHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh--cC----ChHHHHHHHHHHHHcCC---CCChhhHHHHHHHHHcCCCH
Q 047359          236 VKEAIQIYHLISERGITVRDSDYYAFVNVLCK--EH----QPEEVCGLLRDVVERGY---IPCAMELSRFVASQCGKGKW  306 (440)
Q Consensus       236 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~----~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~  306 (440)
                      +++.+.+++.+.+.|+.-+..+|.+.......  ..    ....+..+++.|++...   .++...+..++..  ..+++
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~  155 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDV  155 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccH
Confidence            34555677777777777666555543333322  12    24567778888876532   2344455555433  22332


Q ss_pred             ----HHHHHHHHHHHhcCCCCch--hhhHHHHHHHHcCCc--HHHHHHHHHHHHhccCCcCHHhHHHHHHHH
Q 047359          307 ----KEVEELLSAVLDKGLLLDS--FCCSSLMEYYCSNRQ--IDKAIALHIKIEKLKGSLDVATYDVLLDGL  370 (440)
Q Consensus       307 ----~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  370 (440)
                          +.++..|+.+.+.|+..+.  ...+.++..+....+  ..++.++++.+.+.|+++....|..+.-..
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlLa  227 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLLA  227 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHHH
Confidence                4566677777776655432  233333333322222  346778888888888887777766654433

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=95.11  E-value=4.2  Score=40.93  Aligned_cols=83  Identities=19%  Similarity=0.204  Sum_probs=44.1

Q ss_pred             HHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccH
Q 047359          331 LMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKEL  410 (440)
Q Consensus       331 l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  410 (440)
                      .+.+|..+|++.+|..+..++....-. -..+-..|+.-+...+++-+|-++..+..+.   ..    ..+..|++...|
T Consensus       971 Al~a~~~~~dWr~~l~~a~ql~~~~de-~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd---~~----~av~ll~ka~~~ 1042 (1265)
T KOG1920|consen  971 ALKAYKECGDWREALSLAAQLSEGKDE-LVILAEELVSRLVEQRKHYEAAKILLEYLSD---PE----EAVALLCKAKEW 1042 (1265)
T ss_pred             HHHHHHHhccHHHHHHHHHhhcCCHHH-HHHHHHHHHHHHHHcccchhHHHHHHHHhcC---HH----HHHHHHhhHhHH
Confidence            344555556666665555544321000 1112255666677777777777777665542   22    233345555667


Q ss_pred             HHHHHHHHHHH
Q 047359          411 RKAMKNHDEML  421 (440)
Q Consensus       411 ~~a~~~~~~m~  421 (440)
                      ++|+.+.....
T Consensus      1043 ~eAlrva~~~~ 1053 (1265)
T KOG1920|consen 1043 EEALRVASKAK 1053 (1265)
T ss_pred             HHHHHHHHhcc
Confidence            77777655443

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.88  E-value=0.067  Score=28.18  Aligned_cols=28  Identities=11%  Similarity=0.210  Sum_probs=17.9

Q ss_pred             hhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          395 SSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       395 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      .+|..++.++...|++++|+..|++.++
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            3566666666677777777777766666

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 ....

>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=94.77  E-value=1.4  Score=33.71  Aligned_cols=99  Identities=13%  Similarity=0.147  Sum_probs=58.0

Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHhccc-CCchhHHHHHHHHHhcC--ChhHHHHHHHHHhcCCC
Q 047359           67 SCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGI-YSSVMYNLVIDFYSKKG--DFGAAFDRLNEMCNGRN  143 (440)
Q Consensus        67 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~~~~~~~li~~~~~~~--~~~~a~~~~~~~~~~~~  143 (440)
                      .+.++.+.+.+++|+...+..+++.+.+.|++....+++..-. +|.......+-.+....  -.+-|++++.++..   
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~qllq~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~~---   90 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQLLQYHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRLGT---   90 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHhhcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHhhh---
Confidence            4566677778888888899999999998888887777766544 44444433332222110  12223333333321   


Q ss_pred             CCCchhhHHHHHHHHHhcCChhhHHHHHHHH
Q 047359          144 LTPGFSTYSSILDGARRYEKTEVSDRIVGLM  174 (440)
Q Consensus       144 ~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  174 (440)
                            .+..+++.+...|++-+|.++....
T Consensus        91 ------~~~~iievLL~~g~vl~ALr~ar~~  115 (167)
T PF07035_consen   91 ------AYEEIIEVLLSKGQVLEALRYARQY  115 (167)
T ss_pred             ------hHHHHHHHHHhCCCHHHHHHHHHHc
Confidence                  2444555666666666666665554

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=94.76  E-value=0.42  Score=37.26  Aligned_cols=61  Identities=15%  Similarity=0.024  Sum_probs=25.1

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHH
Q 047359          151 YSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRA  211 (440)
Q Consensus       151 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  211 (440)
                      +..+...|.+.|+.+.|.+.+.++.+....+.+....+..+++.....+++..+...+.+.
T Consensus        39 ~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka   99 (177)
T PF10602_consen   39 LEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKA   99 (177)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            3334444444444444444444444433333322333333444444444444444444333

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.

>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=94.71  E-value=2.4  Score=36.13  Aligned_cols=163  Identities=12%  Similarity=-0.017  Sum_probs=87.2

Q ss_pred             hhHHHHHHHHHhcCChH---HHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHH
Q 047359          256 SDYYAFVNVLCKEHQPE---EVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLM  332 (440)
Q Consensus       256 ~~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  332 (440)
                      .+...++.++...+..+   +|..+++.+... .+-....+..-+..+.+.++.+.+.+.+.+|...-.. ....+..++
T Consensus        85 ~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e-~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~~-~e~~~~~~l  162 (278)
T PF08631_consen   85 SILRLLANAYLEWDTYESVEKALNALRLLESE-YGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSVDH-SESNFDSIL  162 (278)
T ss_pred             HHHHHHHHHHHcCCChHHHHHHHHHHHHHHHh-CCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhccc-ccchHHHHH
Confidence            45566777777776654   455555555433 2222344445566666678888999999988875221 233444444


Q ss_pred             HHH---HcCCcHHHHHHHHHHHHhccCCcCHH-hHHHH-HH---HHHhcCc------HHHHHHHHHHHHH-cCCC-chhh
Q 047359          333 EYY---CSNRQIDKAIALHIKIEKLKGSLDVA-TYDVL-LD---GLFKDGR------MEEAVRIFDYMKE-LKVV-SSSS  396 (440)
Q Consensus       333 ~~~---~~~~~~~~a~~~~~~~~~~~~~p~~~-~~~~l-~~---~~~~~g~------~~~a~~~~~~~~~-~~~~-~~~~  396 (440)
                      ..+   .. .....|...+..+....+.|... ....+ +.   ...+.++      .+....+++.+.+ .+.+ +..+
T Consensus       163 ~~i~~l~~-~~~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~~~  241 (278)
T PF08631_consen  163 HHIKQLAE-KSPELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLSAEA  241 (278)
T ss_pred             HHHHHHHh-hCcHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCCHHH
Confidence            444   33 23456666666666555555543 22111 11   1122211      4445555554332 2222 3332


Q ss_pred             ---HHHH----HHHHHhcccHHHHHHHHHHHH
Q 047359          397 ---FVIV----VSRLCHLKELRKAMKNHDEML  421 (440)
Q Consensus       397 ---~~~l----~~~~~~~g~~~~a~~~~~~m~  421 (440)
                         ..++    +..+.+.+++++|.+.|+-..
T Consensus       242 ~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  242 ASAIHTLLWNKGKKHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH
Confidence               2233    334567899999999988544

It is also involved in sporulation [].

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.71  E-value=0.077  Score=27.86  Aligned_cols=28  Identities=11%  Similarity=0.243  Sum_probs=17.8

Q ss_pred             hhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          395 SSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       395 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      ..+..+...+...|++++|++.+++.++
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            3455666666677777777777776665

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 ....

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=94.70  E-value=0.65  Score=36.17  Aligned_cols=97  Identities=15%  Similarity=0.091  Sum_probs=60.2

Q ss_pred             HHHcCCCHHHHHHHHHHHHhcCCCCc----hhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcC
Q 047359          299 SQCGKGKWKEVEELLSAVLDKGLLLD----SFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDG  374 (440)
Q Consensus       299 ~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g  374 (440)
                      -+.+.|++++|..-|...+..-+...    ...|..-..++.+.+.++.|++-..+.++.++. .......-..+|.+..
T Consensus       104 ~~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pt-y~kAl~RRAeayek~e  182 (271)
T KOG4234|consen  104 ELFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPT-YEKALERRAEAYEKME  182 (271)
T ss_pred             HhhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCch-hHHHHHHHHHHHHhhh
Confidence            45667888888888887776532211    123333344566777777777777777765432 2233333445677777


Q ss_pred             cHHHHHHHHHHHHHcCCCchhh
Q 047359          375 RMEEAVRIFDYMKELKVVSSSS  396 (440)
Q Consensus       375 ~~~~a~~~~~~~~~~~~~~~~~  396 (440)
                      .+++|++-|+++.+..|....+
T Consensus       183 k~eealeDyKki~E~dPs~~ea  204 (271)
T KOG4234|consen  183 KYEEALEDYKKILESDPSRREA  204 (271)
T ss_pred             hHHHHHHHHHHHHHhCcchHHH
Confidence            7888888888888776663333

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.51  E-value=0.1  Score=28.02  Aligned_cols=26  Identities=12%  Similarity=0.089  Sum_probs=19.5

Q ss_pred             hHHHHHHHHHhcccHHHHHHHHHHHH
Q 047359          396 SFVIVVSRLCHLKELRKAMKNHDEML  421 (440)
Q Consensus       396 ~~~~l~~~~~~~g~~~~a~~~~~~m~  421 (440)
                      ++..|...|.+.|++++|++++++.+
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            36677888888888888888888854

>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=94.51  E-value=0.056  Score=40.62  Aligned_cols=129  Identities=9%  Similarity=0.072  Sum_probs=75.7

Q ss_pred             HHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcC
Q 047359           17 LVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSG   96 (440)
Q Consensus        17 ~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   96 (440)
                      .+++.+.+.+.++.....++.+...+...+....+.++..|++.++.+...++++..       +..-...++..|.+.|
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~-------~~yd~~~~~~~c~~~~   84 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTS-------NNYDLDKALRLCEKHG   84 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSS-------SSS-CTHHHHHHHTTT
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccc-------cccCHHHHHHHHHhcc
Confidence            356677778888888888888887665566778888888888887777777776621       1133344666677777


Q ss_pred             ChHHHHHHHhcccCCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCC
Q 047359           97 KFEVVLGLLDSGIYSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEK  163 (440)
Q Consensus        97 ~~~~a~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  163 (440)
                      .++++..++.++.....+    +..+...++++.|.+.+.+       .++...|..+++.+...+.
T Consensus        85 l~~~a~~Ly~~~~~~~~a----l~i~~~~~~~~~a~e~~~~-------~~~~~l~~~l~~~~l~~~~  140 (143)
T PF00637_consen   85 LYEEAVYLYSKLGNHDEA----LEILHKLKDYEEAIEYAKK-------VDDPELWEQLLKYCLDSKP  140 (143)
T ss_dssp             SHHHHHHHHHCCTTHTTC----SSTSSSTHCSCCCTTTGGG-------CSSSHHHHHHHHHHCTSTC
T ss_pred             hHHHHHHHHHHcccHHHH----HHHHHHHccHHHHHHHHHh-------cCcHHHHHHHHHHHHhcCc
Confidence            777666665554300000    0012222333333322222       2456788888887766554

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.

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=94.36  E-value=0.83  Score=35.05  Aligned_cols=28  Identities=7%  Similarity=0.109  Sum_probs=11.9

Q ss_pred             HHHHHHHHHHHcCCCchhhHHHHHHHHH
Q 047359          378 EAVRIFDYMKELKVVSSSSFVIVVSRLC  405 (440)
Q Consensus       378 ~a~~~~~~~~~~~~~~~~~~~~l~~~~~  405 (440)
                      +|+.-|+++...+|....++..+..+|.
T Consensus        53 dAisK~eeAL~I~P~~hdAlw~lGnA~t   80 (186)
T PF06552_consen   53 DAISKFEEALKINPNKHDALWCLGNAYT   80 (186)
T ss_dssp             HHHHHHHHHHHH-TT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCchHHHHHHHHHHHH
Confidence            3444444444444444444444444444

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=94.36  E-value=0.54  Score=39.29  Aligned_cols=61  Identities=8%  Similarity=0.003  Sum_probs=34.4

Q ss_pred             HhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHhccc
Q 047359           48 SACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGI  109 (440)
Q Consensus        48 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  109 (440)
                      .++..++..+...|+++.+.+.++++.... +-+...|..++.+|.+.|+...|+..|+++.
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~  214 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLK  214 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHH
Confidence            345555555555666666666666655543 2355556666666666666666665555543

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=94.29  E-value=0.91  Score=35.43  Aligned_cols=95  Identities=11%  Similarity=0.030  Sum_probs=57.5

Q ss_pred             hhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCH--HhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC--chhhHH--HH
Q 047359          327 CCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDV--ATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV--SSSSFV--IV  400 (440)
Q Consensus       327 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~--~l  400 (440)
                      .+..+...|.+.|+.+.|.+.|.++.+....|..  ..+-.++......+++..+...+.++...--.  ++..-+  ..
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            4556777777778888888877777765444332  34556677777777777777777666543211  222211  11


Q ss_pred             --HHHHHhcccHHHHHHHHHHHH
Q 047359          401 --VSRLCHLKELRKAMKNHDEML  421 (440)
Q Consensus       401 --~~~~~~~g~~~~a~~~~~~m~  421 (440)
                        .-.+...+++.+|-+.|-+..
T Consensus       118 ~~gL~~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  118 YEGLANLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHHHHHHhchHHHHHHHHHccC
Confidence              123345678888887776654

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.

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.23  E-value=1.9  Score=32.92  Aligned_cols=124  Identities=13%  Similarity=0.025  Sum_probs=54.5

Q ss_pred             HhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHH-hHHHH--HHHHhhhcc
Q 047359          159 RRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDD-TCGCM--LKALSKEGR  235 (440)
Q Consensus       159 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l--~~~~~~~~~  235 (440)
                      .+.+..++|+.-|..+.+.|...-. ..............|+...|...|+++-.....|-.. -..-+  .-.+...|.
T Consensus        69 A~~~k~d~Alaaf~~lektg~g~Yp-vLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gs  147 (221)
T COG4649          69 AQENKTDDALAAFTDLEKTGYGSYP-VLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGS  147 (221)
T ss_pred             HHcCCchHHHHHHHHHHhcCCCcch-HHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhcccc
Confidence            4455566666666666665421110 1112222334455566666666666655543333222 00111  112234455


Q ss_pred             HHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHH
Q 047359          236 VKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVE  283 (440)
Q Consensus       236 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  283 (440)
                      +++...-.+.+...+-+.....-..|.-+-.+.|++..|.+.|..+..
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            555544444443333222222333344444455555555555555544

>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=94.06  E-value=3.4  Score=35.22  Aligned_cols=18  Identities=17%  Similarity=0.196  Sum_probs=11.3

Q ss_pred             HHcCCCHHHHHHHHHHHH
Q 047359          300 QCGKGKWKEVEELLSAVL  317 (440)
Q Consensus       300 ~~~~~~~~~a~~~~~~~~  317 (440)
                      +.+.++++.|.+.|+-..
T Consensus       256 ~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  256 HYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHhhcCHHHHHHHHHHHH
Confidence            345677777777776443

It is also involved in sporulation [].

>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=93.96  E-value=2  Score=32.39  Aligned_cols=19  Identities=26%  Similarity=0.391  Sum_probs=9.8

Q ss_pred             HHhcCChhHHHHHHHHHhc
Q 047359          122 YSKKGDFGAAFDRLNEMCN  140 (440)
Q Consensus       122 ~~~~~~~~~a~~~~~~~~~  140 (440)
                      +...|++.+|..+|+++..
T Consensus        54 ~i~r~~w~dA~rlLr~l~~   72 (160)
T PF09613_consen   54 HIVRGDWDDALRLLRELEE   72 (160)
T ss_pred             HHHhCCHHHHHHHHHHHhc
Confidence            4445555555555555533

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=93.94  E-value=6.3  Score=37.97  Aligned_cols=18  Identities=17%  Similarity=0.265  Sum_probs=11.3

Q ss_pred             HHhcccHHHHHHHHHHHH
Q 047359          404 LCHLKELRKAMKNHDEML  421 (440)
Q Consensus       404 ~~~~g~~~~a~~~~~~m~  421 (440)
                      +...|++++|++.++++.
T Consensus       515 ~~~~g~~~~AL~~i~~L~  532 (613)
T PF04097_consen  515 LYHAGQYEQALDIIEKLD  532 (613)
T ss_dssp             HHHTT-HHHHHHHHHHTT
T ss_pred             HHHcCCHHHHHHHHHhCC
Confidence            346788888877666543

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=93.72  E-value=0.028  Score=42.28  Aligned_cols=87  Identities=15%  Similarity=0.211  Sum_probs=66.0

Q ss_pred             HHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHhcccCCchhHHHHHHHHHhcCChhHH
Q 047359           52 ALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGIYSSVMYNLVIDFYSKKGDFGAA  131 (440)
Q Consensus        52 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  131 (440)
                      .++..+.+.+.++....+++.+...+...+....+.++..|++.++.+...++++...  ..-...++..|.+.|.+++|
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~--~yd~~~~~~~c~~~~l~~~a   89 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSN--NYDLDKALRLCEKHGLYEEA   89 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSS--SS-CTHHHHHHHTTTSHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHccccc--ccCHHHHHHHHHhcchHHHH
Confidence            4567777788899999999999987666678889999999999998899998888543  23345667777777888888


Q ss_pred             HHHHHHHhc
Q 047359          132 FDRLNEMCN  140 (440)
Q Consensus       132 ~~~~~~~~~  140 (440)
                      .-++.++..
T Consensus        90 ~~Ly~~~~~   98 (143)
T PF00637_consen   90 VYLYSKLGN   98 (143)
T ss_dssp             HHHHHCCTT
T ss_pred             HHHHHHccc
Confidence            777777643

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.

>PF07575 Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR011502 This is a family of nucleoporins conserved from yeast to human

Probab=93.62  E-value=6.9  Score=37.38  Aligned_cols=76  Identities=5%  Similarity=0.030  Sum_probs=26.5

Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHH
Q 047359          275 CGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIE  352 (440)
Q Consensus       275 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  352 (440)
                      ...++.+..+-...+......++..|.+.|-.+.|.++.+.+-..-.  ...-|..-+..+.++|+......+...+.
T Consensus       390 ~~~i~~lL~~~p~~t~~~~~k~l~iC~~~~L~~~a~~I~~~~~~~~~--~~~~~g~AL~~~~ra~d~~~v~~i~~~ll  465 (566)
T PF07575_consen  390 RERIEELLPRVPLDTNDDAEKLLEICAELGLEDVAREICKILGQRLL--KEGRYGEALSWFIRAGDYSLVTRIADRLL  465 (566)
T ss_dssp             HHHHHHHGGG----SHHHHHHHHHHHHHHT-HHHHHHHHHHHHHHHH--HHHHHHHHHHHHH----------------
T ss_pred             HHHHHHHHhhCCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH--HCCCHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            33344444332223344445555666666666666666655543321  12234444445555555555444444443

Nup85 Nucleoporin is an essential component of the nuclear pore complex (NPC) that seems to be required for NPC assembly and maintenance. As part of the NPC Nup107-160 subcomplex plays a role in RNA export and in tethering NUP98/Nup98 and NUP153 to the nucleus. The Nup107-160 complex seems to be required for spindle assembly during mitosis. NUP85 is required for membrane clustering of CCL2-activated CCR2. Seems to be involved in CCR2-mediated chemotaxis of monocytes and may link activated CCR2 to the phosphatidyl-inositol-3-kinase-Rac-lammellipodium protrusion cascade [, , ]. ; PDB: 3F3F_D 3F3P_G 3F3G_G 3EWE_B.

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=93.54  E-value=0.1  Score=27.56  Aligned_cols=31  Identities=26%  Similarity=0.396  Sum_probs=19.0

Q ss_pred             HHHHhccCCcCHHhHHHHHHHHHhcCcHHHHH
Q 047359          349 IKIEKLKGSLDVATYDVLLDGLFKDGRMEEAV  380 (440)
Q Consensus       349 ~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~  380 (440)
                      ++.++..+. +...|..+...|...|++++|+
T Consensus         3 ~kAie~~P~-n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    3 KKAIELNPN-NAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             HHHHHHCCC-CHHHHHHHHHHHHHCcCHHhhc
Confidence            444444333 5667777777777777777664

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.53  E-value=1.7  Score=36.59  Aligned_cols=99  Identities=12%  Similarity=0.109  Sum_probs=49.6

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHHc---CCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHH
Q 047359          254 RDSDYYAFVNVLCKEHQPEEVCGLLRDVVER---GYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSS  330 (440)
Q Consensus       254 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  330 (440)
                      +..+...++..-....+++.+...+-.+...   ...|+...+ +.++.+. .-++++++.++..=...|+-||..+++.
T Consensus        63 s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~-~~irlll-ky~pq~~i~~l~npIqYGiF~dqf~~c~  140 (418)
T KOG4570|consen   63 SSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIH-TWIRLLL-KYDPQKAIYTLVNPIQYGIFPDQFTFCL  140 (418)
T ss_pred             ceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHH-HHHHHHH-ccChHHHHHHHhCcchhccccchhhHHH
Confidence            3444444444444455566666555555432   111111111 1222222 2345566665555556666666666666


Q ss_pred             HHHHHHcCCcHHHHHHHHHHHHhc
Q 047359          331 LMEYYCSNRQIDKAIALHIKIEKL  354 (440)
Q Consensus       331 l~~~~~~~~~~~~a~~~~~~~~~~  354 (440)
                      ++..+.+.+++.+|.++...|...
T Consensus       141 l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  141 LMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             HHHHHHhcccHHHHHHHHHHHHHH
Confidence            666666666666666665555543

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=93.40  E-value=0.31  Score=25.41  Aligned_cols=30  Identities=27%  Similarity=0.386  Sum_probs=18.4

Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHHHHcCC
Q 047359          362 TYDVLLDGLFKDGRMEEAVRIFDYMKELKV  391 (440)
Q Consensus       362 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  391 (440)
                      .|..+...+...|++++|++.|++..+..|
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~l~p   32 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALELDP   32 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHCc
Confidence            455566666666777777777666666544

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 ....

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=93.40  E-value=0.52  Score=39.95  Aligned_cols=92  Identities=15%  Similarity=0.066  Sum_probs=49.4

Q ss_pred             HHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHH
Q 047359          299 SQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEE  378 (440)
Q Consensus       299 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  378 (440)
                      -|.++|.+++|+..|.......+. |++++..-..+|.+...+..|+.-....+..+- .-...|..-+.+-...|...+
T Consensus       106 ~yFKQgKy~EAIDCYs~~ia~~P~-NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~-~Y~KAYSRR~~AR~~Lg~~~E  183 (536)
T KOG4648|consen  106 TYFKQGKYEEAIDCYSTAIAVYPH-NPVYHINRALAYLKQKSFAQAEEDCEAAIALDK-LYVKAYSRRMQARESLGNNME  183 (536)
T ss_pred             hhhhccchhHHHHHhhhhhccCCC-CccchhhHHHHHHHHHHHHHHHHhHHHHHHhhH-HHHHHHHHHHHHHHHHhhHHH
Confidence            466677777777777666554322 566666666667777666666665555544211 112233333333333445555


Q ss_pred             HHHHHHHHHHcCCC
Q 047359          379 AVRIFDYMKELKVV  392 (440)
Q Consensus       379 a~~~~~~~~~~~~~  392 (440)
                      |.+-++...+..|.
T Consensus       184 AKkD~E~vL~LEP~  197 (536)
T KOG4648|consen  184 AKKDCETVLALEPK  197 (536)
T ss_pred             HHHhHHHHHhhCcc
Confidence            55555555555444

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=93.30  E-value=0.32  Score=25.48  Aligned_cols=30  Identities=30%  Similarity=0.391  Sum_probs=18.2

Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHHHHcCC
Q 047359          362 TYDVLLDGLFKDGRMEEAVRIFDYMKELKV  391 (440)
Q Consensus       362 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  391 (440)
                      +|..+..+|...|++++|+..|+++.+.+|
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~p   32 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALELDP   32 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHCc
Confidence            455666666666666666666666665544

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 ....

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=93.24  E-value=0.25  Score=26.45  Aligned_cols=26  Identities=15%  Similarity=0.181  Sum_probs=19.5

Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHHH
Q 047359          362 TYDVLLDGLFKDGRMEEAVRIFDYMK  387 (440)
Q Consensus       362 ~~~~l~~~~~~~g~~~~a~~~~~~~~  387 (440)
                      +|..|...|.+.|++++|++++++..
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            36677888888888888888888744

>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=93.09  E-value=3  Score=31.56  Aligned_cols=53  Identities=17%  Similarity=-0.094  Sum_probs=30.6

Q ss_pred             HcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhc
Q 047359          301 CGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKL  354 (440)
Q Consensus       301 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  354 (440)
                      .+.++.+++..++..+.-..+. ....-..-...+...|++.+|..+|+++...
T Consensus        21 l~~~~~~D~e~lL~ALrvLRP~-~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~   73 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVLRPE-FPELDLFDGWLHIVRGDWDDALRLLRELEER   73 (160)
T ss_pred             HccCChHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence            4456777777777777654322 1111122233456777777777777776654

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.02  E-value=1.5  Score=40.40  Aligned_cols=98  Identities=15%  Similarity=0.069  Sum_probs=44.4

Q ss_pred             HhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHH
Q 047359          159 RRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKE  238 (440)
Q Consensus       159 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  238 (440)
                      .+.|+++.|.++..+...        ..-|..|.++....+++..|.+.|....+         |..|+-.+...|+.+.
T Consensus       648 l~lgrl~iA~~la~e~~s--------~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~  710 (794)
T KOG0276|consen  648 LKLGRLDIAFDLAVEANS--------EVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEG  710 (794)
T ss_pred             hhcCcHHHHHHHHHhhcc--------hHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhH
Confidence            345555555554433321        34455555555555555555555544332         3334444444555444


Q ss_pred             HHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHH
Q 047359          239 AIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLR  279 (440)
Q Consensus       239 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  279 (440)
                      ...+-....+.|..      |...-++...|+++++.+++.
T Consensus       711 l~~la~~~~~~g~~------N~AF~~~~l~g~~~~C~~lLi  745 (794)
T KOG0276|consen  711 LAVLASLAKKQGKN------NLAFLAYFLSGDYEECLELLI  745 (794)
T ss_pred             HHHHHHHHHhhccc------chHHHHHHHcCCHHHHHHHHH
Confidence            44444444443321      122223334455555555443

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=93.01  E-value=4.2  Score=33.10  Aligned_cols=205  Identities=19%  Similarity=0.079  Sum_probs=110.8

Q ss_pred             cchHHHHHHHhhcCcHHHHHHHHHHHHhc-CCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHH-
Q 047359          186 SGNDYVIQKLSDMGKTYAAEMIFKRACDE-KIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVN-  263 (440)
Q Consensus       186 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~-  263 (440)
                      ..+......+...+++..+...+...... ........+......+...+++..+...+.........+ ......... 
T Consensus        60 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~  138 (291)
T COG0457          60 GLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDP-DLAEALLALG  138 (291)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCc-chHHHHHHHH
Confidence            34444555555566666666555555432 122233444445555555566666666666665543332 111222222 


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCC--CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcH
Q 047359          264 VLCKEHQPEEVCGLLRDVVERGY--IPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQI  341 (440)
Q Consensus       264 ~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  341 (440)
                      .+...|+++.+...+........  ......+......+...++.+.+...+..............+..+...+...++.
T Consensus       139 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  218 (291)
T COG0457         139 ALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGKY  218 (291)
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHcccH
Confidence            56666777777777776644211  0122223333333445667777777777776653221345566666677777777


Q ss_pred             HHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC
Q 047359          342 DKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV  392 (440)
Q Consensus       342 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  392 (440)
                      +.|...+......... ....+..+...+...+..+.+...+.......+.
T Consensus       219 ~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  268 (291)
T COG0457         219 EEALEYYEKALELDPD-NAEALYNLALLLLELGRYEEALEALEKALELDPD  268 (291)
T ss_pred             HHHHHHHHHHHhhCcc-cHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence            7777777777764222 2334444444444666677777777777765443

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=92.74  E-value=8.3  Score=35.81  Aligned_cols=374  Identities=8%  Similarity=0.005  Sum_probs=186.0

Q ss_pred             HHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHH-hccchhHHHHHHHHHHHc-CCC-CChhhHHHHHHH
Q 047359           15 LSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALY-RQNEIRLASCLYGAMVRD-GVS-PNKFTWSLVAQI   91 (440)
Q Consensus        15 ~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~-~~~~~~~a~~~~~~~~~~-~~~-~~~~~~~~l~~~   91 (440)
                      |......=.+.|..+.+.++|++... +++.+...|...+..+. ..|+.+.....|+..... |.. .+...|...|..
T Consensus        82 W~kfA~~E~klg~~~~s~~Vfergv~-aip~SvdlW~~Y~~f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~  160 (577)
T KOG1258|consen   82 WKKFADYEYKLGNAENSVKVFERGVQ-AIPLSVDLWLSYLAFLKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEF  160 (577)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHH-hhhhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHH
Confidence            44444555677899999999999986 45667777777665544 457888888999888664 322 134567888888


Q ss_pred             HHhcCChHHHHHHHhccc-CCchhHHHHHHHHHh---c------CChhHHHHHHHHHhcC---CCCCCchhhHHHHHHHH
Q 047359           92 LCRSGKFEVVLGLLDSGI-YSSVMYNLVIDFYSK---K------GDFGAAFDRLNEMCNG---RNLTPGFSTYSSILDGA  158 (440)
Q Consensus        92 ~~~~~~~~~a~~~~~~~~-~~~~~~~~li~~~~~---~------~~~~~a~~~~~~~~~~---~~~~p~~~~~~~l~~~~  158 (440)
                      -...+++.....+++++. -....|+..-.-|.+   .      ...+++.++-......   ....+.......-+.-.
T Consensus       161 en~qks~k~v~~iyeRileiP~~~~~~~f~~f~~~l~~~~~~~l~~~d~~~~l~~~~~~~~~~~~~~~~~e~~~~~v~~~  240 (577)
T KOG1258|consen  161 ENGQKSWKRVANIYERILEIPLHQLNRHFDRFKQLLNQNEEKILLSIDELIQLRSDVAERSKITHSQEPLEELEIGVKDS  240 (577)
T ss_pred             HhccccHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhcCChhhhcCHHHHHHHhhhHHhhhhcccccChhHHHHHHHhhc
Confidence            788889999999999987 222233333322222   1      1222222222111110   00000001111111000


Q ss_pred             H-hcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcC---C----CCCHHhHHHHHHHH
Q 047359          159 R-RYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEK---I----ELQDDTCGCMLKAL  230 (440)
Q Consensus       159 ~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~----~~~~~~~~~l~~~~  230 (440)
                      . ..+..+.+.....+....             --..+............++.-.+..   +    .++..+|...+.--
T Consensus       241 ~~~s~~l~~~~~~l~~~~~~-------------~~~~~~~s~~~~~kr~~fE~~IkrpYfhvkpl~~aql~nw~~yLdf~  307 (577)
T KOG1258|consen  241 TDPSKSLTEEKTILKRIVSI-------------HEKVYQKSEEEEEKRWGFEEGIKRPYFHVKPLDQAQLKNWRYYLDFE  307 (577)
T ss_pred             cCccchhhHHHHHHHHHHHH-------------HHHHHHhhHhHHHHHHhhhhhccccccccCcccHHHHHHHHHHhhhh
Confidence            0 000011111111111000             0011111122222222333322211   1    12344677777777


Q ss_pred             hhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHH-cCCCHHHH
Q 047359          231 SKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQC-GKGKWKEV  309 (440)
Q Consensus       231 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~a  309 (440)
                      .+.|+.+.+.-+|+...-.--. =...|-..+.-....|+.+-|..++....+-..+ +......+-..+. ..|+++.|
T Consensus       308 i~~g~~~~~~~l~ercli~cA~-Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k-~~~~i~L~~a~f~e~~~n~~~A  385 (577)
T KOG1258|consen  308 ITLGDFSRVFILFERCLIPCAL-YDEFWIKYARWMESSGDVSLANNVLARACKIHVK-KTPIIHLLEARFEESNGNFDDA  385 (577)
T ss_pred             hhcccHHHHHHHHHHHHhHHhh-hHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCC-CCcHHHHHHHHHHHhhccHHHH
Confidence            7778888877777776542111 1123333444444447777777776665544322 2222222222222 34788888


Q ss_pred             HHHHHHHHhcCCCCchh-hhHHHHHHHHcCCcHHHHH---HHHHHHHhccCCcCHHhHHHHHHH-----HHhcCcHHHHH
Q 047359          310 EELLSAVLDKGLLLDSF-CCSSLMEYYCSNRQIDKAI---ALHIKIEKLKGSLDVATYDVLLDG-----LFKDGRMEEAV  380 (440)
Q Consensus       310 ~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~---~~~~~~~~~~~~p~~~~~~~l~~~-----~~~~g~~~~a~  380 (440)
                      ..+++.+...-  |+.. .-..-+....+.|..+.+.   +++........  +..+...+.--     +.-.++.+.|.
T Consensus       386 ~~~lq~i~~e~--pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~--~~~i~~~l~~~~~r~~~~i~~d~~~a~  461 (577)
T KOG1258|consen  386 KVILQRIESEY--PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKE--NNGILEKLYVKFARLRYKIREDADLAR  461 (577)
T ss_pred             HHHHHHHHhhC--CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhccccc--CcchhHHHHHHHHHHHHHHhcCHHHHH
Confidence            88888887653  3322 1122233445666766666   33332222111  22222222221     23457788888


Q ss_pred             HHHHHHHHcCCCchhhHHHHHHHHHhcc
Q 047359          381 RIFDYMKELKVVSSSSFVIVVSRLCHLK  408 (440)
Q Consensus       381 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g  408 (440)
                      .++.++.+..+.+...|..++......+
T Consensus       462 ~~l~~~~~~~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  462 IILLEANDILPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             HHHHHhhhcCCccHHHHHHHHHHHHhCC
Confidence            8888888877777777777777665544

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=92.57  E-value=4.5  Score=32.28  Aligned_cols=186  Identities=15%  Similarity=0.066  Sum_probs=89.2

Q ss_pred             HHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHH
Q 047359          194 KLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEE  273 (440)
Q Consensus       194 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  273 (440)
                      .|-..|-+.-|.--|.+.....+. -+.+||-+.-.+...|+++.|.+.|+...+.++.-+-...|.-+. +.--|++.-
T Consensus        74 lYDSlGL~~LAR~DftQaLai~P~-m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~-~YY~gR~~L  151 (297)
T COG4785          74 LYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIA-LYYGGRYKL  151 (297)
T ss_pred             hhhhhhHHHHHhhhhhhhhhcCCC-cHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhcccee-eeecCchHh
Confidence            344555555666555555544333 355677777777777888888888887777654433333333232 224467777


Q ss_pred             HHHHHHHHHHcCCCCChhhHHHHHHHH-HcCCCHHHHHHHHHH-HHhcCCCCchhhhHHH-HHHHHcCCcHHHHHHHHHH
Q 047359          274 VCGLLRDVVERGYIPCAMELSRFVASQ-CGKGKWKEVEELLSA-VLDKGLLLDSFCCSSL-MEYYCSNRQIDKAIALHIK  350 (440)
Q Consensus       274 a~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~a~~~~~~-~~~~~~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~  350 (440)
                      |.+-+...-+.+  |+. -|.++---. -..-++.+|..-+.+ ....    +..-|... +..|...=..+   .++++
T Consensus       152 Aq~d~~~fYQ~D--~~D-PfR~LWLYl~E~k~dP~~A~tnL~qR~~~~----d~e~WG~~iV~~yLgkiS~e---~l~~~  221 (297)
T COG4785         152 AQDDLLAFYQDD--PND-PFRSLWLYLNEQKLDPKQAKTNLKQRAEKS----DKEQWGWNIVEFYLGKISEE---TLMER  221 (297)
T ss_pred             hHHHHHHHHhcC--CCC-hHHHHHHHHHHhhCCHHHHHHHHHHHHHhc----cHhhhhHHHHHHHHhhccHH---HHHHH
Confidence            766555554432  111 122221111 122345555443332 2222    33333322 22232211122   22222


Q ss_pred             HHhccC------CcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCC
Q 047359          351 IEKLKG------SLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKV  391 (440)
Q Consensus       351 ~~~~~~------~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  391 (440)
                      +..-.-      ..-..||-.|..-+...|+.++|..+|+-....++
T Consensus       222 ~~a~a~~n~~~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaiannV  268 (297)
T COG4785         222 LKADATDNTSLAEHLTETYFYLGKYYLSLGDLDEATALFKLAVANNV  268 (297)
T ss_pred             HHhhccchHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhH
Confidence            222100      01123556666667777777777777776666543

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=92.53  E-value=11  Score=36.55  Aligned_cols=48  Identities=15%  Similarity=0.164  Sum_probs=31.6

Q ss_pred             HhcCcHHHHHHHHHHHHHcCCC---------chhhHHHHHHHHHhcccHHHHHHHHH
Q 047359          371 FKDGRMEEAVRIFDYMKELKVV---------SSSSFVIVVSRLCHLKELRKAMKNHD  418 (440)
Q Consensus       371 ~~~g~~~~a~~~~~~~~~~~~~---------~~~~~~~l~~~~~~~g~~~~a~~~~~  418 (440)
                      .-.|++..|...++.+.+....         .+..+...+-.+...|+.+.|...|.
T Consensus       372 ~~~~~~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~yL~gl~~q~~g~l~~A~~~y~  428 (608)
T PF10345_consen  372 FIRGDWSKATQELEFMRQLCQRSPSKLYESLYPLLHYLLGLYYQSTGDLEAALYQYQ  428 (608)
T ss_pred             HHCcCHHHHHHHHHHHHHHHhcCccchhhhhhHHHHHHHHHHHHHcCCHHHHHHHHh
Confidence            3567888888888888754321         12333334444456789999999997

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>PRK11619 lytic murein transglycosylase; Provisional

Probab=92.46  E-value=11  Score=36.53  Aligned_cols=110  Identities=5%  Similarity=-0.004  Sum_probs=46.8

Q ss_pred             HhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHhccc--CCch-hHHHHHHHHHhcCChhHHHHH
Q 047359           58 YRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGI--YSSV-MYNLVIDFYSKKGDFGAAFDR  134 (440)
Q Consensus        58 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--~~~~-~~~~li~~~~~~~~~~~a~~~  134 (440)
                      .+.|++..+.++...+....+ ..-..|..+.... .....++...++++..  |-.. .-...+..+.+.+++...++.
T Consensus        44 ~~~g~~~~~~~~~~~l~d~pL-~~yl~y~~L~~~l-~~~~~~ev~~Fl~~~~~~P~~~~Lr~~~l~~La~~~~w~~~~~~  121 (644)
T PRK11619         44 WDNRQMDVVEQLMPTLKDYPL-YPYLEYRQLTQDL-MNQPAVQVTNFIRANPTLPPARSLQSRFVNELARREDWRGLLAF  121 (644)
T ss_pred             HHCCCHHHHHHHHHhccCCCc-HhHHHHHHHHhcc-ccCCHHHHHHHHHHCCCCchHHHHHHHHHHHHHHccCHHHHHHh
Confidence            345666666666555532211 1111222222111 1223555555555544  2111 122333344455555554442


Q ss_pred             HHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHH
Q 047359          135 LNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMV  175 (440)
Q Consensus       135 ~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  175 (440)
                      +..      .+.+...-.....+....|+.++|......+=
T Consensus       122 ~~~------~p~~~~~~c~~~~A~~~~G~~~~A~~~a~~lW  156 (644)
T PRK11619        122 SPE------KPKPVEARCNYYYAKWATGQQQEAWQGAKELW  156 (644)
T ss_pred             cCC------CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            111      12233333455556666676665555444443

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=92.41  E-value=4.7  Score=32.16  Aligned_cols=64  Identities=17%  Similarity=0.021  Sum_probs=30.2

Q ss_pred             ccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHc
Q 047359          185 LSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISER  249 (440)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (440)
                      +.+||.+.-.+...|+++.|.+.|+...+.++.-+-...|--|. +.-.|++.-|.+-+...-+.
T Consensus        99 ~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~-~YY~gR~~LAq~d~~~fYQ~  162 (297)
T COG4785          99 PEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIA-LYYGGRYKLAQDDLLAFYQD  162 (297)
T ss_pred             HHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhcccee-eeecCchHhhHHHHHHHHhc
Confidence            44555555555555666666666655555443322222222221 22235555555544444443

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=92.37  E-value=3.5  Score=30.64  Aligned_cols=53  Identities=8%  Similarity=-0.182  Sum_probs=29.7

Q ss_pred             cCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhcc
Q 047359          302 GKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLK  355 (440)
Q Consensus       302 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  355 (440)
                      ..++++++..++..+.-..++ ....-..-...+...|++++|.++|+++.+.+
T Consensus        22 ~~~d~~D~e~lLdALrvLrP~-~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVLRPN-LKELDMFDGWLLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             hcCCHHHHHHHHHHHHHhCCC-ccccchhHHHHHHHcCCHHHHHHHHHhhhccC
Confidence            356777777777777654322 11111222334566677777777777776643

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>KOG0890 consensus Protein kinase of the PI-3 kinase family involved in mitotic growth, DNA repair and meiotic recombination [Signal transduction mechanisms; Chromatin structure and dynamics; Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=92.21  E-value=22  Score=39.32  Aligned_cols=152  Identities=10%  Similarity=0.009  Sum_probs=91.5

Q ss_pred             HHHHHHHhccchhHHHHHHHHHHHcCC--CCChhhHHHHHHHHHhcCChHHHHHHHhcccCCchhHHHHHHHHHhcCChh
Q 047359           52 ALLDALYRQNEIRLASCLYGAMVRDGV--SPNKFTWSLVAQILCRSGKFEVVLGLLDSGIYSSVMYNLVIDFYSKKGDFG  129 (440)
Q Consensus        52 ~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~~~~~  129 (440)
                      .+..+-.+.+.+..|...++.-.....  .....-+..+...|+..+++|....+...-..+.. ...-|......|++.
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~~~ek~~~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a~~s-l~~qil~~e~~g~~~ 1466 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHRSTEKEKETEEALYFLLQNLYGSIHDPDGVEGVSARRFADPS-LYQQILEHEASGNWA 1466 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHHhcCCcchhhhHHHHhhcCcc-HHHHHHHHHhhccHH
Confidence            344556677888999988888311111  11223344555589999999888777663221222 233445566789999


Q ss_pred             HHHHHHHHHhcCCCCCCc-hhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHH
Q 047359          130 AAFDRLNEMCNGRNLTPG-FSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIF  208 (440)
Q Consensus       130 ~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  208 (440)
                      .|...|+.+.+   ..|+ ..+++.++......|.++......+-..... .+. ....++.=..+-.+.++++.....+
T Consensus      1467 da~~Cye~~~q---~~p~~~~~~~g~l~sml~~~~l~t~i~~~dg~~~~~-se~-~~~~~s~~~eaaW~l~qwD~~e~~l 1541 (2382)
T KOG0890|consen 1467 DAAACYERLIQ---KDPDKEKHHSGVLKSMLAIQHLSTEILHLDGLIINR-SEE-VDELNSLGVEAAWRLSQWDLLESYL 1541 (2382)
T ss_pred             HHHHHHHHhhc---CCCccccchhhHHHhhhcccchhHHHhhhcchhhcc-CHH-HHHHHHHHHHHHhhhcchhhhhhhh
Confidence            99999999966   5565 5577777776667777777666555444332 111 0112222334446677777776665


Q ss_pred             H
Q 047359          209 K  209 (440)
Q Consensus       209 ~  209 (440)
                      .
T Consensus      1542 ~ 1542 (2382)
T KOG0890|consen 1542 S 1542 (2382)
T ss_pred             h
Confidence            5

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=92.14  E-value=11  Score=35.86  Aligned_cols=279  Identities=14%  Similarity=0.051  Sum_probs=157.8

Q ss_pred             hhHHHHHHHHHhcCCCCC-CchhhHHHHHHH-HHhcCChhhHHHHHHHHHh-------cCCCCcccccchHHHHHHHhhc
Q 047359          128 FGAAFDRLNEMCNGRNLT-PGFSTYSSILDG-ARRYEKTEVSDRIVGLMVE-------KKLLPKHFLSGNDYVIQKLSDM  198 (440)
Q Consensus       128 ~~~a~~~~~~~~~~~~~~-p~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~~~l~~~~~~~  198 (440)
                      ...|.+.++...+ .|.. +-...=.....+ .....+.+.|...++...+       .+   .  ......+..+|.+.
T Consensus       228 ~~~a~~~~~~~a~-~g~~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~--~~a~~~lg~~Y~~g  301 (552)
T KOG1550|consen  228 LSEAFKYYREAAK-LGHSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---L--PPAQYGLGRLYLQG  301 (552)
T ss_pred             hhHHHHHHHHHHh-hcchHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---C--CccccHHHHHHhcC
Confidence            4567888888766 3322 111111112222 4466788999999988877       44   2  34556677777774


Q ss_pred             C-----cHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhh-hccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHH--hcCC
Q 047359          199 G-----KTYAAEMIFKRACDEKIELQDDTCGCMLKALSK-EGRVKEAIQIYHLISERGITVRDSDYYAFVNVLC--KEHQ  270 (440)
Q Consensus       199 ~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~~~  270 (440)
                      .     +.+.|..++....+.|.. +....-..+..... ..+...|.++|...-+.|..+ ...+..++....  ...+
T Consensus       302 ~~~~~~d~~~A~~~~~~aA~~g~~-~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~~-A~~~la~~y~~G~gv~r~  379 (552)
T KOG1550|consen  302 LGVEKIDYEKALKLYTKAAELGNP-DAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHIL-AIYRLALCYELGLGVERN  379 (552)
T ss_pred             CCCccccHHHHHHHHHHHHhcCCc-hHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCChH-HHHHHHHHHHhCCCcCCC
Confidence            3     677799999988887653 44333322222222 256789999999999888642 222222221111  3347


Q ss_pred             hHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHH-H---HHc----CCcHH
Q 047359          271 PEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLME-Y---YCS----NRQID  342 (440)
Q Consensus       271 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~-~---~~~----~~~~~  342 (440)
                      ...|..+++...+.| .|...--...+..+.. +.++.+.-.+..+...|.. ...+-...+. .   ...    ..+.+
T Consensus       380 ~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g~~-~~q~~a~~l~~~~~~~~~~~~~~~~~~  456 (552)
T KOG1550|consen  380 LELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAELGYE-VAQSNAAYLLDQSEEDLFSRGVISTLE  456 (552)
T ss_pred             HHHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhhhh-HHhhHHHHHHHhccccccccccccchh
Confidence            889999999998887 3332222223333333 7777777777666665543 2222222211 1   111    22456


Q ss_pred             HHHHHHHHHHhccCCcCHHhHHHHHHHHHhc----CcHHHHHHHHHHHHHcCCCchhhHHHHHHHHH----hcccHHHHH
Q 047359          343 KAIALHIKIEKLKGSLDVATYDVLLDGLFKD----GRMEEAVRIFDYMKELKVVSSSSFVIVVSRLC----HLKELRKAM  414 (440)
Q Consensus       343 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~----g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~----~~g~~~~a~  414 (440)
                      .+...+.+....|   +......|...|...    .+.+.|...+......+   ......+...+-    -.. +..|.
T Consensus       457 ~~~~~~~~a~~~g---~~~a~~~lgd~y~~g~g~~~d~~~a~~~y~~a~~~~---~~~~~nlg~~~e~g~g~~~-~~~a~  529 (552)
T KOG1550|consen  457 RAFSLYSRAAAQG---NADAILKLGDYYYYGLGTGRDPEKAAAQYARASEQG---AQALFNLGYMHEHGEGIKV-LHLAK  529 (552)
T ss_pred             HHHHHHHHHHhcc---CHHHHhhhcceeeecCCCCCChHHHHHHHHHHHHhh---hHHHhhhhhHHhcCcCcch-hHHHH
Confidence            6666666666543   444555555554433    35777877777777665   333333443332    223 67888


Q ss_pred             HHHHHHHHCC
Q 047359          415 KNHDEMLKMG  424 (440)
Q Consensus       415 ~~~~~m~~~~  424 (440)
                      +++++..+.+
T Consensus       530 ~~~~~~~~~~  539 (552)
T KOG1550|consen  530 RYYDQASEED  539 (552)
T ss_pred             HHHHHHHhcC
Confidence            8888877644

>KOG0890 consensus Protein kinase of the PI-3 kinase family involved in mitotic growth, DNA repair and meiotic recombination [Signal transduction mechanisms; Chromatin structure and dynamics; Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=92.13  E-value=22  Score=39.26  Aligned_cols=316  Identities=12%  Similarity=0.032  Sum_probs=160.4

Q ss_pred             HHHHHHHhcCChHHHHHHHhccc-------CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHH
Q 047359           87 LVAQILCRSGKFEVVLGLLDSGI-------YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGAR  159 (440)
Q Consensus        87 ~l~~~~~~~~~~~~a~~~~~~~~-------~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~  159 (440)
                      .+..+-.+++.+.+|...+++-.       .....|..+...|...++++....+...-..    .|+  .+. -+....
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~~~ek~~~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a----~~s--l~~-qil~~e 1460 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHRSTEKEKETEEALYFLLQNLYGSIHDPDGVEGVSARRFA----DPS--LYQ-QILEHE 1460 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHHhcCCcchhhhHHHHhhc----Ccc--HHH-HHHHHH
Confidence            44455667788888888888732       1222355555688888888888777664221    122  222 333456


Q ss_pred             hcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHH-HHHHhhhccHHH
Q 047359          160 RYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCM-LKALSKEGRVKE  238 (440)
Q Consensus       160 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-~~~~~~~~~~~~  238 (440)
                      ..|++..|...|+.+.+.+  |+. ...++.+++.....|.++......+-..... .+....++.+ +.+--+.++++.
T Consensus      1461 ~~g~~~da~~Cye~~~q~~--p~~-~~~~~g~l~sml~~~~l~t~i~~~dg~~~~~-se~~~~~~s~~~eaaW~l~qwD~ 1536 (2382)
T KOG0890|consen 1461 ASGNWADAAACYERLIQKD--PDK-EKHHSGVLKSMLAIQHLSTEILHLDGLIINR-SEEVDELNSLGVEAAWRLSQWDL 1536 (2382)
T ss_pred             hhccHHHHHHHHHHhhcCC--Ccc-ccchhhHHHhhhcccchhHHHhhhcchhhcc-CHHHHHHHHHHHHHHhhhcchhh
Confidence            6789999999999988765  432 5567777777777777777776555544332 1223333322 333355666666


Q ss_pred             HHHHHHHHHHcCCCCChhhHHH--HHHHHHhcC--ChHHHHHHHHHHHHcCCCC---------ChhhHHHHHHHHHcCCC
Q 047359          239 AIQIYHLISERGITVRDSDYYA--FVNVLCKEH--QPEEVCGLLRDVVERGYIP---------CAMELSRFVASQCGKGK  305 (440)
Q Consensus       239 a~~~~~~~~~~~~~~~~~~~~~--l~~~~~~~~--~~~~a~~~~~~~~~~~~~~---------~~~~~~~l~~~~~~~~~  305 (440)
                      ......   ..    +..+|..  +...+.+..  +.-.-.+..+.+.+.-+.|         -...|..++....-.. 
T Consensus      1537 ~e~~l~---~~----n~e~w~~~~~g~~ll~~~~kD~~~~~~~i~~~r~~~i~~lsa~s~~~Sy~~~Y~~~~kLH~l~e- 1608 (2382)
T KOG0890|consen 1537 LESYLS---DR----NIEYWSVESIGKLLLRNKKKDEIATLDLIENSRELVIENLSACSIEGSYVRSYEILMKLHLLLE- 1608 (2382)
T ss_pred             hhhhhh---cc----cccchhHHHHHHHHHhhcccchhhHHHHHHHHHHHhhhhHHHhhccchHHHHHHHHHHHHHHHH-
Confidence            555544   11    1222222  222222222  2212222333332221111         0122333333322111 


Q ss_pred             HHHHHHHHHHHH-hcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHH-HhccCCc-----CHHhHHHHHHHHHhcCcHHH
Q 047359          306 WKEVEELLSAVL-DKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKI-EKLKGSL-----DVATYDVLLDGLFKDGRMEE  378 (440)
Q Consensus       306 ~~~a~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~~~~p-----~~~~~~~l~~~~~~~g~~~~  378 (440)
                      .+...+.+.... ......+...|..-+..-....+..+-+--+++. ......|     -..+|-...+...+.|+++.
T Consensus      1609 l~~~~~~l~~~s~~~~s~~~sd~W~~Rl~~tq~s~~~~epILa~RRs~l~~~~~~~~~~~~ge~wLqsAriaR~aG~~q~ 1688 (2382)
T KOG0890|consen 1609 LENSIEELKKVSYDEDSANNSDNWKNRLERTQPSFRIKEPILAFRRSMLDLRMRSNLKSRLGECWLQSARIARLAGHLQR 1688 (2382)
T ss_pred             HHHHHHHhhccCccccccccchhHHHHHHHhchhHHHHhHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHhcccHHH
Confidence            111111111110 0001111112222222111111111111111111 1111111     24577777888888999999


Q ss_pred             HHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHC
Q 047359          379 AVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKM  423 (440)
Q Consensus       379 a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  423 (440)
                      |...+-++.+.+  -+..+...+..+...|+...|+.++++-.+.
T Consensus      1689 A~nall~A~e~r--~~~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~ 1731 (2382)
T KOG0890|consen 1689 AQNALLNAKESR--LPEIVLERAKLLWQTGDELNALSVLQEILSK 1731 (2382)
T ss_pred             HHHHHHhhhhcc--cchHHHHHHHHHHhhccHHHHHHHHHHHHHh
Confidence            998887777665  5667777888888999999999999988753

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=92.12  E-value=6.3  Score=33.01  Aligned_cols=221  Identities=14%  Similarity=0.156  Sum_probs=119.6

Q ss_pred             HHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhh------c-----cHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCC
Q 047359          202 YAAEMIFKRACDEKIELQDDTCGCMLKALSKE------G-----RVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQ  270 (440)
Q Consensus       202 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~------~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  270 (440)
                      ++-.+..++..+........+|...+.++...      |     -..+|+++|.-+.++.-+  ..+-..++..+....+
T Consensus       104 ekLnraIdr~~k~ve~~~eee~~~~iscfgg~ev~~rqg~~vkWis~KA~ELFayLv~hkgk--~v~~~~~ie~lwpe~D  181 (361)
T COG3947         104 EKLNRAIDRRLKRVELTAEEESGTQISCFGGTEVVLRQGQQVKWISRKALELFAYLVEHKGK--EVTSWEAIEALWPEKD  181 (361)
T ss_pred             HHHHHHHHHHhccccccchhccCeeeEeccceeeeccCCceeeehhhHHHHHHHHHHHhcCC--cccHhHHHHHHccccc
Confidence            33334444444333333444566566555421      1     135788888888776432  2345567777777778


Q ss_pred             hHHHHHHHHHHHHc---CCCC----ChhhHHHHHHHHH-c----CCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHH---
Q 047359          271 PEEVCGLLRDVVER---GYIP----CAMELSRFVASQC-G----KGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYY---  335 (440)
Q Consensus       271 ~~~a~~~~~~~~~~---~~~~----~~~~~~~l~~~~~-~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~---  335 (440)
                      ..+|...+....-+   ...|    ...+..  =..|. .    .-++.+-+...+.+...+  .+..-+..++..|   
T Consensus       182 ~kka~s~lhTtvyqlRKaLs~L~~ne~vts~--d~~Ykld~~~~k~Dv~e~es~~rqi~~in--ltide~kelv~~ykgd  257 (361)
T COG3947         182 EKKASSLLHTTVYQLRKALSRLNANEAVTSQ--DRKYKLDAGLPKYDVQEYESLARQIEAIN--LTIDELKELVGQYKGD  257 (361)
T ss_pred             hhhHHHHHHHHHHHHHHHhchhccCceEEEc--CCceEEecCCccccHHHHHHHhhhhhccc--cCHHHHHHHHHHhcCC
Confidence            77777766554211   0000    000000  00000 0    012233333333333322  2333344444433   


Q ss_pred             -HcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHH
Q 047359          336 -CSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAM  414 (440)
Q Consensus       336 -~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  414 (440)
                       .....+.-|...=+++..    .-..+++.....|..+|.+.+|.++.++....++-+...+..++..+...|+--.|.
T Consensus       258 yl~e~~y~Waedererle~----ly~kllgkva~~yle~g~~neAi~l~qr~ltldpL~e~~nk~lm~~la~~gD~is~~  333 (361)
T COG3947         258 YLPEADYPWAEDERERLEQ----LYMKLLGKVARAYLEAGKPNEAIQLHQRALTLDPLSEQDNKGLMASLATLGDEISAI  333 (361)
T ss_pred             cCCccccccccchHHHHHH----HHHHHHHHHHHHHHHcCChHHHHHHHHHHhhcChhhhHHHHHHHHHHHHhccchhhh
Confidence             111122222221111111    123355666778999999999999999999999889999999999999999988888


Q ss_pred             HHHHHHHH-----CCCCCCHHHH
Q 047359          415 KNHDEMLK-----MGHKPDEATY  432 (440)
Q Consensus       415 ~~~~~m~~-----~~~~p~~~t~  432 (440)
                      +-++++.+     -|+..|...+
T Consensus       334 khyerya~vleaelgi~vddsie  356 (361)
T COG3947         334 KHYERYAEVLEAELGIDVDDSIE  356 (361)
T ss_pred             hHHHHHHHHHHHHhCCCcchhHH
Confidence            88777753     4666665544

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=91.86  E-value=5.1  Score=31.50  Aligned_cols=91  Identities=19%  Similarity=0.104  Sum_probs=65.7

Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCC-----hhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHc
Q 047359          263 NVLCKEHQPEEVCGLLRDVVERGYIPC-----AMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCS  337 (440)
Q Consensus       263 ~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  337 (440)
                      .-+...|++++|..-|...+..- ++.     ...|..-..++.+.+.++.|+.--.+..+.++. .......-..+|.+
T Consensus       103 N~~F~ngdyeeA~skY~~Ale~c-p~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pt-y~kAl~RRAeayek  180 (271)
T KOG4234|consen  103 NELFKNGDYEEANSKYQEALESC-PSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPT-YEKALERRAEAYEK  180 (271)
T ss_pred             HHhhhcccHHHHHHHHHHHHHhC-ccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCch-hHHHHHHHHHHHHh
Confidence            45678899999999999888763 222     234555566777888899888888888776543 33333344557888


Q ss_pred             CCcHHHHHHHHHHHHhcc
Q 047359          338 NRQIDKAIALHIKIEKLK  355 (440)
Q Consensus       338 ~~~~~~a~~~~~~~~~~~  355 (440)
                      ...+++|++-|..+.+..
T Consensus       181 ~ek~eealeDyKki~E~d  198 (271)
T KOG4234|consen  181 MEKYEEALEDYKKILESD  198 (271)
T ss_pred             hhhHHHHHHHHHHHHHhC
Confidence            889999999999988853

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=91.82  E-value=4.7  Score=30.87  Aligned_cols=128  Identities=16%  Similarity=0.137  Sum_probs=71.5

Q ss_pred             hHhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChH-hHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChh-hH--HH
Q 047359           12 SDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVS-ACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKF-TW--SL   87 (440)
Q Consensus        12 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~--~~   87 (440)
                      ...|..-+. +++.+..++|+.-|..+.+.|...-+. .--.........|+...|...|+++-.....|-.. -.  ..
T Consensus        59 gd~flaAL~-lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlr  137 (221)
T COG4649          59 GDAFLAALK-LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLR  137 (221)
T ss_pred             hHHHHHHHH-HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHH
Confidence            344444443 356677888888888888766432111 11222344556788888888888876554333322 11  11


Q ss_pred             HHHHHHhcCChHHHHHHHhcccCC-----chhHHHHHHHHHhcCChhHHHHHHHHHhc
Q 047359           88 VAQILCRSGKFEVVLGLLDSGIYS-----SVMYNLVIDFYSKKGDFGAAFDRLNEMCN  140 (440)
Q Consensus        88 l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~li~~~~~~~~~~~a~~~~~~~~~  140 (440)
                      -...+...|.++......+.+..+     ...-..|.-+-.+.|++..|.+.|..+..
T Consensus       138 aa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         138 AAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             HHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            122344566677666666665511     12234455555667777777777777655

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.66  E-value=4.4  Score=37.58  Aligned_cols=99  Identities=14%  Similarity=0.059  Sum_probs=50.3

Q ss_pred             HhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHH
Q 047359          195 LSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEV  274 (440)
Q Consensus       195 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  274 (440)
                      ..+.|+++.|.++..+..      +..-|..|..+..+.+++..|.+.|.....         |..|+-.+...|+.+..
T Consensus       647 al~lgrl~iA~~la~e~~------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l  711 (794)
T KOG0276|consen  647 ALKLGRLDIAFDLAVEAN------SEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGL  711 (794)
T ss_pred             hhhcCcHHHHHHHHHhhc------chHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHH
Confidence            345566666665554432      344566666666666666666666655433         33444455555555544


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHH
Q 047359          275 CGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLS  314 (440)
Q Consensus       275 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  314 (440)
                      ..+-....+.|. .|     ...-+|...|+++++.+++.
T Consensus       712 ~~la~~~~~~g~-~N-----~AF~~~~l~g~~~~C~~lLi  745 (794)
T KOG0276|consen  712 AVLASLAKKQGK-NN-----LAFLAYFLSGDYEECLELLI  745 (794)
T ss_pred             HHHHHHHHhhcc-cc-----hHHHHHHHcCCHHHHHHHHH
Confidence            444444444431 11     11223344566666655554

>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=91.50  E-value=0.34  Score=25.31  Aligned_cols=27  Identities=11%  Similarity=0.214  Sum_probs=15.5

Q ss_pred             hHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          396 SFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       396 ~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      +|..+...|...|++++|...|++..+
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~   29 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            345555555566666666666655554

...

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=91.42  E-value=6.4  Score=32.99  Aligned_cols=43  Identities=19%  Similarity=0.086  Sum_probs=28.5

Q ss_pred             hhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHhc
Q 047359           63 IRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDS  107 (440)
Q Consensus        63 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  107 (440)
                      ..+|+++|.-++++.  -...+-..++..+...-+..+|...|..
T Consensus       149 s~KA~ELFayLv~hk--gk~v~~~~~ie~lwpe~D~kka~s~lhT  191 (361)
T COG3947         149 SRKALELFAYLVEHK--GKEVTSWEAIEALWPEKDEKKASSLLHT  191 (361)
T ss_pred             hhHHHHHHHHHHHhc--CCcccHhHHHHHHccccchhhHHHHHHH
Confidence            457888998887753  2334555677777777777777665543

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=91.38  E-value=1.2  Score=32.91  Aligned_cols=97  Identities=14%  Similarity=0.032  Sum_probs=63.7

Q ss_pred             HHcCCcHHHHHHHHHHHHhccCCcCHHhH-HHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHH
Q 047359          335 YCSNRQIDKAIALHIKIEKLKGSLDVATY-DVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKA  413 (440)
Q Consensus       335 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~-~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  413 (440)
                      -...++.+++..++..+.-.  .|+..-. ..-...+...|++.+|.++|+++.+.++..+..--.+..++.-.|+. .=
T Consensus        20 aL~~~d~~D~e~lLdALrvL--rP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~~~~p~~kAL~A~CL~al~Dp-~W   96 (153)
T TIGR02561        20 ALRSADPYDAQAMLDALRVL--RPNLKELDMFDGWLLIARGNYDEAARILRELLSSAGAPPYGKALLALCLNAKGDA-EW   96 (153)
T ss_pred             HHhcCCHHHHHHHHHHHHHh--CCCccccchhHHHHHHHcCCHHHHHHHHHhhhccCCCchHHHHHHHHHHHhcCCh-HH
Confidence            34688999999999999874  3433322 22234577899999999999999987655554444444444455553 23


Q ss_pred             HHHHHHHHHCCCCCCHHHHHH
Q 047359          414 MKNHDEMLKMGHKPDEATYKQ  434 (440)
Q Consensus       414 ~~~~~~m~~~~~~p~~~t~~~  434 (440)
                      ...-.++++.|-.|+......
T Consensus        97 r~~A~~~le~~~~~~a~~Lv~  117 (153)
T TIGR02561        97 HVHADEVLARDADADAVALVR  117 (153)
T ss_pred             HHHHHHHHHhCCCHhHHHHHH
Confidence            344566667766676665543

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=91.36  E-value=4.2  Score=36.57  Aligned_cols=85  Identities=15%  Similarity=0.109  Sum_probs=39.3

Q ss_pred             HcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHH
Q 047359          336 CSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMK  415 (440)
Q Consensus       336 ~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  415 (440)
                      ...|+++.+.+.+....+. +.....+..+++....+.|++++|...-+.|....+.++++...........|-++++..
T Consensus       334 ~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~a~s~a~~~l~~eie~~ei~~iaa~sa~~l~~~d~~~~  412 (831)
T PRK15180        334 SHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWREALSTAEMMLSNEIEDEEVLTVAAGSADALQLFDKSYH  412 (831)
T ss_pred             HHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHHHHHHHHHHhccccCChhheeeecccHHHHhHHHHHHH
Confidence            3445555555544433322 222334444555555555555555555555554444444443333333334444555555


Q ss_pred             HHHHHH
Q 047359          416 NHDEML  421 (440)
Q Consensus       416 ~~~~m~  421 (440)
                      .|++..
T Consensus       413 ~wk~~~  418 (831)
T PRK15180        413 YWKRVL  418 (831)
T ss_pred             HHHHHh
Confidence            555444

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.27  E-value=5.1  Score=33.92  Aligned_cols=49  Identities=12%  Similarity=0.170  Sum_probs=27.5

Q ss_pred             cHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHH
Q 047359          235 RVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVE  283 (440)
Q Consensus       235 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  283 (440)
                      ++++++.++..=++-|+-||.++++.+++.+.+.+++.+|..+.-.|..
T Consensus       115 ~pq~~i~~l~npIqYGiF~dqf~~c~l~D~flk~~n~~~aa~vvt~~~~  163 (418)
T KOG4570|consen  115 DPQKAIYTLVNPIQYGIFPDQFTFCLLMDSFLKKENYKDAASVVTEVMM  163 (418)
T ss_pred             ChHHHHHHHhCcchhccccchhhHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            4445555555555555555666666666666665555555555555443

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=91.14  E-value=14  Score=35.15  Aligned_cols=117  Identities=12%  Similarity=0.001  Sum_probs=51.6

Q ss_pred             hcCChHHHHHHHHHHHH-------cCCCCChhhHHHHHHHHHcC----C-CHHHHHHHHHHHHhcCCCCchhhhHHHHHH
Q 047359          267 KEHQPEEVCGLLRDVVE-------RGYIPCAMELSRFVASQCGK----G-KWKEVEELLSAVLDKGLLLDSFCCSSLMEY  334 (440)
Q Consensus       267 ~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~----~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  334 (440)
                      ...+.+.|..+++.+.+       .+   .......+..+|.+.    . +.+.|..++....+.|.. +.......+..
T Consensus       261 ~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~~~~~d~~~A~~~~~~aA~~g~~-~a~~~lg~~~~  336 (552)
T KOG1550|consen  261 VTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLGVEKIDYEKALKLYTKAAELGNP-DAQYLLGVLYE  336 (552)
T ss_pred             ccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCCCccccHHHHHHHHHHHHhcCCc-hHHHHHHHHHH
Confidence            34455555555555544       33   222333444444442    1 445566666666555432 33332222222


Q ss_pred             HHc-CCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHH----hcCcHHHHHHHHHHHHHcC
Q 047359          335 YCS-NRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLF----KDGRMEEAVRIFDYMKELK  390 (440)
Q Consensus       335 ~~~-~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~----~~g~~~~a~~~~~~~~~~~  390 (440)
                      ... ..+...|.++|....+.|.. .  .+-.+..+|.    ...+...|..++++..+.|
T Consensus       337 ~g~~~~d~~~A~~yy~~Aa~~G~~-~--A~~~la~~y~~G~gv~r~~~~A~~~~k~aA~~g  394 (552)
T KOG1550|consen  337 TGTKERDYRRAFEYYSLAAKAGHI-L--AIYRLALCYELGLGVERNLELAFAYYKKAAEKG  394 (552)
T ss_pred             cCCccccHHHHHHHHHHHHHcCCh-H--HHHHHHHHHHhCCCcCCCHHHHHHHHHHHHHcc
Confidence            222 23455666666666655432 1  1111111111    2235556666666666555

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=91.09  E-value=10  Score=33.50  Aligned_cols=65  Identities=11%  Similarity=0.100  Sum_probs=41.1

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC---ChhhHHHHHHHHHcCCCHHHHHHHHHHHHh
Q 047359          254 RDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIP---CAMELSRFVASQCGKGKWKEVEELLSAVLD  318 (440)
Q Consensus       254 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  318 (440)
                      ...++..+...+.+.|.++.|...+..+...+...   .....-.-+...-..|+..+|...++....
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34566777777778888888887777776643211   223333344555556777777777777765

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=91.07  E-value=0.4  Score=24.74  Aligned_cols=26  Identities=12%  Similarity=0.249  Sum_probs=15.4

Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          397 FVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       397 ~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      +..+..++.+.|++++|.+.|+++++
T Consensus         3 ~~~~a~~~~~~g~~~~A~~~~~~~~~   28 (33)
T PF13174_consen    3 LYRLARCYYKLGDYDEAIEYFQRLIK   28 (33)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            34455555666666666666666655

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=90.97  E-value=2.5  Score=33.66  Aligned_cols=76  Identities=17%  Similarity=0.176  Sum_probs=54.8

Q ss_pred             hhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC---chhhHHHHHHH
Q 047359          327 CCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV---SSSSFVIVVSR  403 (440)
Q Consensus       327 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~~~~l~~~  403 (440)
                      |.+..++.+.+.+.+.+++...+.-++.++. |...-..+++.++-.|++++|..-++-.-+..+.   -...|..++.+
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkakPt-da~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAKPT-DAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcCCc-cccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            3445566777888889998888877776443 5566677888888999999998888877776655   33456666654

>KOG2063 consensus Vacuolar assembly/sorting proteins VPS39/VAM6/VPS3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.96  E-value=18  Score=36.03  Aligned_cols=39  Identities=13%  Similarity=0.146  Sum_probs=24.5

Q ss_pred             HHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHc
Q 047359          299 SQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCS  337 (440)
Q Consensus       299 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  337 (440)
                      .|......+-+..+++.+....-.++....+.++..|++
T Consensus       600 ~~l~~~~~~l~I~YLE~li~~~~~~~~~lht~ll~ly~e  638 (877)
T KOG2063|consen  600 NYLKSKEPKLLIPYLEHLISDNRLTSTLLHTVLLKLYLE  638 (877)
T ss_pred             HHhhhhCcchhHHHHHHHhHhccccchHHHHHHHHHHHH
Confidence            344556666777777777655444566666677766653

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=90.76  E-value=11  Score=33.30  Aligned_cols=64  Identities=16%  Similarity=-0.030  Sum_probs=43.9

Q ss_pred             ccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCC---CHHhHHHHHHHHhhhccHHHHHHHHHHHHH
Q 047359          185 LSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIEL---QDDTCGCMLKALSKEGRVKEAIQIYHLISE  248 (440)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (440)
                      ..++..+++.+.+.|.++.|...+..+...+...   .+.....-++..-..|+.++|+..++....
T Consensus       146 ~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  146 AETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            5567777888888888888888888777644221   233444455666677888888887777766

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=90.55  E-value=14  Score=33.89  Aligned_cols=181  Identities=13%  Similarity=0.080  Sum_probs=122.6

Q ss_pred             CCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHH
Q 047359          218 LQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFV  297 (440)
Q Consensus       218 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  297 (440)
                      .|.....+++..+.+.-+..-...+..+|..-|  -+...|..++++|..+ ..++-..+|+++.+..+ .|...-..|.
T Consensus        64 l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~df-nDvv~~ReLa  139 (711)
T COG1747          64 LDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDF-NDVVIGRELA  139 (711)
T ss_pred             ccchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcc-hhHHHHHHHH
Confidence            456667778888888888888888888888865  3567788888888877 66788888888887653 2444444555


Q ss_pred             HHHHcCCCHHHHHHHHHHHHhcCCCC-----chhhhHHHHHHHHcCCcHHHHHHHHHHHHhc-cCCcCHHhHHHHHHHHH
Q 047359          298 ASQCGKGKWKEVEELLSAVLDKGLLL-----DSFCCSSLMEYYCSNRQIDKAIALHIKIEKL-KGSLDVATYDVLLDGLF  371 (440)
Q Consensus       298 ~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~p~~~~~~~l~~~~~  371 (440)
                      .-|-+ ++.+.+...|.++...-++.     -...|..+...  -..+.+..+.+...+... |...-...+.-+-.-|.
T Consensus       140 ~~yEk-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~--i~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys  216 (711)
T COG1747         140 DKYEK-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPEL--IGDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYS  216 (711)
T ss_pred             HHHHH-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHh--ccccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhc
Confidence            55544 77888888888887653321     11234444432  134566666666666543 33444556667777888


Q ss_pred             hcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHH
Q 047359          372 KDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLC  405 (440)
Q Consensus       372 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  405 (440)
                      ...++++|++++..+.+++-.+..+-..++..+.
T Consensus       217 ~~eN~~eai~Ilk~il~~d~k~~~ar~~~i~~lR  250 (711)
T COG1747         217 ENENWTEAIRILKHILEHDEKDVWARKEIIENLR  250 (711)
T ss_pred             cccCHHHHHHHHHHHhhhcchhhhHHHHHHHHHH
Confidence            8889999999999888887777766666666554

>KOG0376 consensus Serine-threonine phosphatase 2A, catalytic subunit [General function prediction only]

Probab=90.23  E-value=0.72  Score=41.11  Aligned_cols=93  Identities=11%  Similarity=0.069  Sum_probs=44.2

Q ss_pred             HHHcCCCHHHHHHHHHHHHhcCCCCch-hhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHH
Q 047359          299 SQCGKGKWKEVEELLSAVLDKGLLLDS-FCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRME  377 (440)
Q Consensus       299 ~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  377 (440)
                      .+...+.++.|..++.++.+..  ||. ..|..-..++.+.+++..|+.-+.++++..+. ....|..=..++.+.+.+.
T Consensus        13 ~~l~~~~fd~avdlysKaI~ld--pnca~~~anRa~a~lK~e~~~~Al~Da~kaie~dP~-~~K~Y~rrg~a~m~l~~~~   89 (476)
T KOG0376|consen   13 EALKDKVFDVAVDLYSKAIELD--PNCAIYFANRALAHLKVESFGGALHDALKAIELDPT-YIKAYVRRGTAVMALGEFK   89 (476)
T ss_pred             hhcccchHHHHHHHHHHHHhcC--CcceeeechhhhhheeechhhhHHHHHHhhhhcCch-hhheeeeccHHHHhHHHHH
Confidence            3344455666666666665542  322 22322234555666666666555555553211 1222322333444445555


Q ss_pred             HHHHHHHHHHHcCCCch
Q 047359          378 EAVRIFDYMKELKVVSS  394 (440)
Q Consensus       378 ~a~~~~~~~~~~~~~~~  394 (440)
                      +|...|+......|.++
T Consensus        90 ~A~~~l~~~~~l~Pnd~  106 (476)
T KOG0376|consen   90 KALLDLEKVKKLAPNDP  106 (476)
T ss_pred             HHHHHHHHhhhcCcCcH
Confidence            55555555555444433

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=89.99  E-value=0.84  Score=25.12  Aligned_cols=28  Identities=14%  Similarity=0.134  Sum_probs=20.3

Q ss_pred             hhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          395 SSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       395 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      .+++.+...|...|++++|..++++..+
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            4567777788888888888888877664

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=89.87  E-value=0.96  Score=23.22  Aligned_cols=27  Identities=22%  Similarity=0.277  Sum_probs=16.7

Q ss_pred             HHHHHHHhcCcHHHHHHHHHHHHHcCC
Q 047359          365 VLLDGLFKDGRMEEAVRIFDYMKELKV  391 (440)
Q Consensus       365 ~l~~~~~~~g~~~~a~~~~~~~~~~~~  391 (440)
                      .+..++.+.|++++|.+.|+++.+..|
T Consensus         5 ~~a~~~~~~g~~~~A~~~~~~~~~~~P   31 (33)
T PF13174_consen    5 RLARCYYKLGDYDEAIEYFQRLIKRYP   31 (33)
T ss_dssp             HHHHHHHHHCHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHCc
Confidence            345556666667777776666666544

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=89.84  E-value=11  Score=31.75  Aligned_cols=62  Identities=10%  Similarity=0.150  Sum_probs=30.0

Q ss_pred             CCHHhHHHHHHHHhhhccHHHHHHHHHHHHHc-CCCCChhhHHHHHHHHHhcCChHHHHHHHH
Q 047359          218 LQDDTCGCMLKALSKEGRVKEAIQIYHLISER-GITVRDSDYYAFVNVLCKEHQPEEVCGLLR  279 (440)
Q Consensus       218 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  279 (440)
                      ++..+...++..++..+++..-.++++..... +...|...|..++......|+..-..++..
T Consensus       200 l~~~vi~~Il~~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~  262 (292)
T PF13929_consen  200 LTRNVIISILEILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIID  262 (292)
T ss_pred             CChhHHHHHHHHHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhh
Confidence            34444444555555555555555555444433 333344455555555555555544444443

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=89.80  E-value=3.9  Score=27.69  Aligned_cols=45  Identities=11%  Similarity=0.107  Sum_probs=21.8

Q ss_pred             HHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHH
Q 047359          308 EVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIE  352 (440)
Q Consensus       308 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  352 (440)
                      ++.+-++.+....+-|++....+.+++|-+.+++..|.++++-++
T Consensus        25 e~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          25 ELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            334444444444444555555555555555555555555554444

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=89.53  E-value=4.1  Score=27.96  Aligned_cols=42  Identities=10%  Similarity=0.055  Sum_probs=17.5

Q ss_pred             HHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHH
Q 047359          311 ELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIE  352 (440)
Q Consensus       311 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  352 (440)
                      +-++.+....+-|++.+..+.+++|-+.+++..|.++++-++
T Consensus        31 rglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK   72 (108)
T PF02284_consen   31 RGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIK   72 (108)
T ss_dssp             HHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            333333344444444444444444444444444444444443

9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=89.22  E-value=1.2  Score=24.52  Aligned_cols=28  Identities=25%  Similarity=0.394  Sum_probs=21.1

Q ss_pred             HhHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 047359          361 ATYDVLLDGLFKDGRMEEAVRIFDYMKE  388 (440)
Q Consensus       361 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~  388 (440)
                      .+++.|...|...|++++|..++++..+
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            4677788888888888888888887654

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=89.09  E-value=3.8  Score=27.75  Aligned_cols=46  Identities=11%  Similarity=0.071  Sum_probs=25.8

Q ss_pred             HHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHH
Q 047359          272 EEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVL  317 (440)
Q Consensus       272 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  317 (440)
                      -++.+-++.+...+..|++....+.+++|.+.+++..|.++++.+.
T Consensus        24 we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          24 WELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            3444444555555555666666666666666666666666665554

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=88.95  E-value=1  Score=25.42  Aligned_cols=23  Identities=22%  Similarity=0.332  Sum_probs=12.6

Q ss_pred             HHHHHHhcCcHHHHHHHHHHHHH
Q 047359          366 LLDGLFKDGRMEEAVRIFDYMKE  388 (440)
Q Consensus       366 l~~~~~~~g~~~~a~~~~~~~~~  388 (440)
                      |..+|...|+.+.|.++++++..
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~   27 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIE   27 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHH
Confidence            44555555555555555555554

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.

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=88.85  E-value=5.8  Score=27.23  Aligned_cols=44  Identities=7%  Similarity=0.059  Sum_probs=20.2

Q ss_pred             HHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHH
Q 047359          274 VCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVL  317 (440)
Q Consensus       274 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  317 (440)
                      ..+-+..+...++.|++....+.+++|.+.+++..|.++++.+.
T Consensus        29 ~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK   72 (108)
T PF02284_consen   29 LRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIK   72 (108)
T ss_dssp             HHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            33444444444445555555555555555555555555555554

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 ....

>KOG0403 consensus Neoplastic transformation suppressor Pdcd4/MA-3, contains MA3 domain [Signal transduction mechanisms]

Probab=88.71  E-value=18  Score=32.55  Aligned_cols=23  Identities=22%  Similarity=0.338  Sum_probs=14.2

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHH
Q 047359          116 NLVIDFYSKKGDFGAAFDRLNEM  138 (440)
Q Consensus       116 ~~li~~~~~~~~~~~a~~~~~~~  138 (440)
                      ..+|+-|...|+..+..+.++.+
T Consensus       349 ~~IIqEYFlsgDt~Evi~~L~DL  371 (645)
T KOG0403|consen  349 TPIIQEYFLSGDTPEVIRSLRDL  371 (645)
T ss_pred             HHHHHHHHhcCChHHHHHHHHHc
Confidence            45566666666666666666654

>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=88.69  E-value=0.78  Score=22.32  Aligned_cols=21  Identities=10%  Similarity=0.007  Sum_probs=11.0

Q ss_pred             HHHHHHHHhcccHHHHHHHHH
Q 047359          398 VIVVSRLCHLKELRKAMKNHD  418 (440)
Q Consensus       398 ~~l~~~~~~~g~~~~a~~~~~  418 (440)
                      ..+...+...|++++|..+++
T Consensus         5 ~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    5 LALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHcCCHHHHHHHHh
Confidence            344555555555555555543

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

>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=88.62  E-value=7.9  Score=30.63  Aligned_cols=67  Identities=12%  Similarity=0.064  Sum_probs=38.2

Q ss_pred             hHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHhccc--------CCchhHHHHHHHHHhcCChhHH
Q 047359           64 RLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGI--------YSSVMYNLVIDFYSKKGDFGAA  131 (440)
Q Consensus        64 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--------~~~~~~~~li~~~~~~~~~~~a  131 (440)
                      +.|.+.|-.+...+.--++.....|...|. ..+.+++++++-+..        +|+..+.+|++.+.+.|+++.|
T Consensus       123 ~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  123 QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhh
Confidence            456666666655544334444444444444 445566666555443        4556667777777777776665

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=88.28  E-value=1.2  Score=23.12  Aligned_cols=29  Identities=31%  Similarity=0.266  Sum_probs=19.4

Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHHHHcC
Q 047359          362 TYDVLLDGLFKDGRMEEAVRIFDYMKELK  390 (440)
Q Consensus       362 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  390 (440)
                      +|..+...|...|++++|.+.|++..+..
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~~~   31 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALELN   31 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            45566666777777777777777666543

...

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=88.28  E-value=14  Score=30.74  Aligned_cols=209  Identities=7%  Similarity=0.024  Sum_probs=122.4

Q ss_pred             CCCCCchhhHHHHHHH-HHhcCChhhHHHHHHHHHhcCCCCc-ccccchHHHHHHHhhcCcHHHHHHHHHHHHhc---CC
Q 047359          142 RNLTPGFSTYSSILDG-ARRYEKTEVSDRIVGLMVEKKLLPK-HFLSGNDYVIQKLSDMGKTYAAEMIFKRACDE---KI  216 (440)
Q Consensus       142 ~~~~p~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~  216 (440)
                      .+..||+..-|..-.+ -.+...+++|+.-|++.++...... -...+.-.++....+.+++++....+.++..-   .+
T Consensus        20 s~sEpdVDlENQYYnsK~l~e~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAV   99 (440)
T KOG1464|consen   20 SNSEPDVDLENQYYNSKGLKEDEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAV   99 (440)
T ss_pred             cCCCCCcchHhhhhccccccccCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHH
Confidence            4566776544433221 1244578889999998887542222 11223345678888999999998888887531   11


Q ss_pred             --CCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHc-----CCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCC---
Q 047359          217 --ELQDDTCGCMLKALSKEGRVKEAIQIYHLISER-----GITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGY---  286 (440)
Q Consensus       217 --~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---  286 (440)
                        .-+..+.|+++.....+.+.+.-..+|+.-.+.     +-...-.|-..+...|...+.+.+..++++++...--   
T Consensus       100 TrNySEKsIN~IlDyiStS~~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~ed  179 (440)
T KOG1464|consen  100 TRNYSEKSINSILDYISTSKNMDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTED  179 (440)
T ss_pred             hccccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhcccc
Confidence              123446677777777677776666666543321     1122223445677777788888888888887754311   


Q ss_pred             -CC-------ChhhHHHHHHHHHcCCCHHHHHHHHHHHHhc-CCCCchhhhHHHHHHH-----HcCCcHHHHHHHHHHH
Q 047359          287 -IP-------CAMELSRFVASQCGKGKWKEVEELLSAVLDK-GLLLDSFCCSSLMEYY-----CSNRQIDKAIALHIKI  351 (440)
Q Consensus       287 -~~-------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~-----~~~~~~~~a~~~~~~~  351 (440)
                       ..       -...|..-+..|....+-.....++++.... ..-|.+.+.. .|+-|     .+.|++++|..-|-+.
T Consensus       180 GedD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPHPlImG-vIRECGGKMHlreg~fe~AhTDFFEA  257 (440)
T KOG1464|consen  180 GEDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQALHIKSAIPHPLIMG-VIRECGGKMHLREGEFEKAHTDFFEA  257 (440)
T ss_pred             CchhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCchHHHh-HHHHcCCccccccchHHHHHhHHHHH
Confidence             11       1235666677777777777777777766532 2234444433 33333     4667777776543333

>PRK10941 hypothetical protein; Provisional

Probab=88.26  E-value=7.2  Score=32.85  Aligned_cols=75  Identities=15%  Similarity=0.120  Sum_probs=55.5

Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHC-CCCCCHHHHHHHhh
Q 047359          363 YDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKM-GHKPDEATYKQVIS  437 (440)
Q Consensus       363 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~-~~~p~~~t~~~ll~  437 (440)
                      .+.+-.+|.+.++++.|.++.+.+....|.++.-+..-...|.+.|.+..|..=++..++. .-.|+.......+.
T Consensus       184 l~nLK~~~~~~~~~~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c~~~A~~DL~~fl~~~P~dp~a~~ik~ql~  259 (269)
T PRK10941        184 LDTLKAALMEEKQMELALRASEALLQFDPEDPYEIRDRGLIYAQLDCEHVALSDLSYFVEQCPEDPISEMIRAQIH  259 (269)
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHhCCCchhHHHHHHHHH
Confidence            3455667888888888888888888888888887887788888888888888888888763 23445555444443

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=88.05  E-value=29  Score=34.28  Aligned_cols=227  Identities=12%  Similarity=-0.033  Sum_probs=119.9

Q ss_pred             HhcCChhhHHHHHHHHHhcCCCCccc-----ccchHHH-HHHHhhcCcHHHHHHHHHHHHhc----CCCCCHHhHHHHHH
Q 047359          159 RRYEKTEVSDRIVGLMVEKKLLPKHF-----LSGNDYV-IQKLSDMGKTYAAEMIFKRACDE----KIELQDDTCGCMLK  228 (440)
Q Consensus       159 ~~~~~~~~a~~~~~~~~~~~~~~~~~-----~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~  228 (440)
                      ....++++|..+..++...-..|+..     ...++.+ .......|+++.|.++-+.....    -..+....+..+..
T Consensus       426 ~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~~  505 (894)
T COG2909         426 ASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLGE  505 (894)
T ss_pred             HHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhhH
Confidence            34678899999888877653333210     1122222 12334568888888887776553    23345556677777


Q ss_pred             HHhhhccHHHHHHHHHHHHHcCCCCChhhHHH---HH--HHHHhcCC--hHHHHHHHHHHHHcCC--C----CChhhHHH
Q 047359          229 ALSKEGRVKEAIQIYHLISERGITVRDSDYYA---FV--NVLCKEHQ--PEEVCGLLRDVVERGY--I----PCAMELSR  295 (440)
Q Consensus       229 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---l~--~~~~~~~~--~~~a~~~~~~~~~~~~--~----~~~~~~~~  295 (440)
                      +..-.|++++|..+..+..+..-..+...+..   +.  ..+...|+  ..+.+..+........  +    +-..++..
T Consensus       506 a~~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r~~  585 (894)
T COG2909         506 AAHIRGELTQALALMQQAEQMARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIRAQ  585 (894)
T ss_pred             HHHHhchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHHH
Confidence            77788999999988877665422223333322   21  23445663  2333333333322210  1    12234444


Q ss_pred             HHHHHHcC-CCHHHHHHHHHHHHhcCCCCchhhhH--HHHHHHHcCCcHHHHHHHHHHHHhccCCcC----HHhHHHHHH
Q 047359          296 FVASQCGK-GKWKEVEELLSAVLDKGLLLDSFCCS--SLMEYYCSNRQIDKAIALHIKIEKLKGSLD----VATYDVLLD  368 (440)
Q Consensus       296 l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~----~~~~~~l~~  368 (440)
                      ++.++.+. +...++..-+.--......|-.....  .++..+...|++++|...++++......+.    ..+-...+.
T Consensus       586 ll~~~~r~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~~~~~~~~a~~~~v~  665 (894)
T COG2909         586 LLRAWLRLDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNGQYHVDYLAAAYKVK  665 (894)
T ss_pred             HHHHHHHHhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCCCchHHHHHHHhh
Confidence            55555442 11222222222222222333223232  667788889999999998888876544332    111122222


Q ss_pred             --HHHhcCcHHHHHHHHHH
Q 047359          369 --GLFKDGRMEEAVRIFDY  385 (440)
Q Consensus       369 --~~~~~g~~~~a~~~~~~  385 (440)
                        .....|+...+.....+
T Consensus       666 ~~lwl~qg~~~~a~~~l~~  684 (894)
T COG2909         666 LILWLAQGDKELAAEWLLK  684 (894)
T ss_pred             HHHhcccCCHHHHHHHHHh
Confidence              23467888887777665

>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=87.79  E-value=12  Score=29.63  Aligned_cols=72  Identities=10%  Similarity=-0.053  Sum_probs=37.2

Q ss_pred             HHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHc---CCCCChhhHHHHHHHHHhcCChHHH
Q 047359          202 YAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISER---GITVRDSDYYAFVNVLCKEHQPEEV  274 (440)
Q Consensus       202 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~a  274 (440)
                      +.|.+.|-.+...+.--++.....+...|. ..+.+++..++....+.   +-.+|+..+.+|++.+.+.|+++.|
T Consensus       123 ~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  123 QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhh
Confidence            445555555554444334444444443333 45566666666555443   2244556666666666666665555

>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=87.30  E-value=2.9  Score=24.80  Aligned_cols=26  Identities=31%  Similarity=0.326  Sum_probs=12.8

Q ss_pred             HHHHHhcCcHHHHHHHHHHHHHcCCC
Q 047359          367 LDGLFKDGRMEEAVRIFDYMKELKVV  392 (440)
Q Consensus       367 ~~~~~~~g~~~~a~~~~~~~~~~~~~  392 (440)
                      .-++.+.|++++|.+..+.+.+..|.
T Consensus         8 Aig~ykl~~Y~~A~~~~~~lL~~eP~   33 (53)
T PF14853_consen    8 AIGHYKLGEYEKARRYCDALLEIEPD   33 (53)
T ss_dssp             HHHHHHTT-HHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHhhhHHHHHHHHHHHHhhCCC
Confidence            33445555555555555555555444

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=87.16  E-value=30  Score=33.51  Aligned_cols=47  Identities=17%  Similarity=0.272  Sum_probs=29.3

Q ss_pred             chhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhc
Q 047359          112 SVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRY  161 (440)
Q Consensus       112 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  161 (440)
                      ...| .+|-.|.++|++++|.++..+...  ........+...+..+...
T Consensus       112 ~p~W-a~Iyy~LR~G~~~~A~~~~~~~~~--~~~~~~~~f~~~l~~~~~s  158 (613)
T PF04097_consen  112 DPIW-ALIYYCLRCGDYDEALEVANENRN--QFQKIERSFPTYLKAYASS  158 (613)
T ss_dssp             EEHH-HHHHHHHTTT-HHHHHHHHHHTGG--GS-TTTTHHHHHHHHCTTT
T ss_pred             CccH-HHHHHHHhcCCHHHHHHHHHHhhh--hhcchhHHHHHHHHHHHhC
Confidence            3344 456678889999999998866543  2333445566667776654

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.

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=87.07  E-value=5.3  Score=37.00  Aligned_cols=100  Identities=13%  Similarity=0.008  Sum_probs=64.5

Q ss_pred             CCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHH
Q 047359          303 KGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRI  382 (440)
Q Consensus       303 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~  382 (440)
                      .|+...|.+.+.......+.-..+....|.....+.|-...|..++.+..... ...+.++..+.+++....+++.|++.
T Consensus       620 ~gn~~~a~~cl~~a~~~~p~~~~v~~v~la~~~~~~~~~~da~~~l~q~l~~~-~sepl~~~~~g~~~l~l~~i~~a~~~  698 (886)
T KOG4507|consen  620 VGNSTFAIACLQRALNLAPLQQDVPLVNLANLLIHYGLHLDATKLLLQALAIN-SSEPLTFLSLGNAYLALKNISGALEA  698 (886)
T ss_pred             cCCcHHHHHHHHHHhccChhhhcccHHHHHHHHHHhhhhccHHHHHHHHHhhc-ccCchHHHhcchhHHHHhhhHHHHHH
Confidence            46777777776666544333333444555666666666667777776666554 23556667777777777888888888


Q ss_pred             HHHHHHcCCCchhhHHHHHHH
Q 047359          383 FDYMKELKVVSSSSFVIVVSR  403 (440)
Q Consensus       383 ~~~~~~~~~~~~~~~~~l~~~  403 (440)
                      |+.+.+..+.++..-+.|...
T Consensus       699 ~~~a~~~~~~~~~~~~~l~~i  719 (886)
T KOG4507|consen  699 FRQALKLTTKCPECENSLKLI  719 (886)
T ss_pred             HHHHHhcCCCChhhHHHHHHH
Confidence            888777777766665555443

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=86.72  E-value=14  Score=29.12  Aligned_cols=54  Identities=17%  Similarity=0.113  Sum_probs=22.6

Q ss_pred             HHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHc
Q 047359          334 YYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKEL  389 (440)
Q Consensus       334 ~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  389 (440)
                      .....|.+++|+..++.....+..  ......-.+.+...|+-++|+.-|++..+.
T Consensus       135 vq~q~~k~D~AL~~L~t~~~~~w~--~~~~elrGDill~kg~k~~Ar~ay~kAl~~  188 (207)
T COG2976         135 VQLQQKKADAALKTLDTIKEESWA--AIVAELRGDILLAKGDKQEARAAYEKALES  188 (207)
T ss_pred             HHHHhhhHHHHHHHHhccccccHH--HHHHHHhhhHHHHcCchHHHHHHHHHHHHc
Confidence            344445555555554444332211  111222233444445555555555444444

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=86.46  E-value=27  Score=32.17  Aligned_cols=178  Identities=11%  Similarity=0.023  Sum_probs=125.1

Q ss_pred             ccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 047359          185 LSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNV  264 (440)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  264 (440)
                      .....+++..+.....+.-.+.+..+|..-|-  +-..|..++++|... ..+.-..+++++.+..+. |...-..+...
T Consensus        66 d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~e--~kmal~el~q~y~en-~n~~l~~lWer~ve~dfn-Dvv~~ReLa~~  141 (711)
T COG1747          66 DSCLVTLLTIFGDNHKNQIVEHLCTRVLEYGE--SKMALLELLQCYKEN-GNEQLYSLWERLVEYDFN-DVVIGRELADK  141 (711)
T ss_pred             chHHHHHHHHhccchHHHHHHHHHHHHHHhcc--hHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcch-hHHHHHHHHHH
Confidence            45667788999999999999999999988643  566788899999888 667788899988887654 44444555555


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCC-----ChhhHHHHHHHHHcCCCHHHHHHHHHHHHh-cCCCCchhhhHHHHHHHHcC
Q 047359          265 LCKEHQPEEVCGLLRDVVERGYIP-----CAMELSRFVASQCGKGKWKEVEELLSAVLD-KGLLLDSFCCSSLMEYYCSN  338 (440)
Q Consensus       265 ~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~  338 (440)
                      |.+ ++...+...|..+...-++.     -...|..+...-  ..+.+....+..++.. .|...-...+..+-.-|...
T Consensus       142 yEk-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys~~  218 (711)
T COG1747         142 YEK-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYSEN  218 (711)
T ss_pred             HHH-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhccc
Confidence            554 88888999998887653321     112455544321  3567777777777754 34444555666666788889


Q ss_pred             CcHHHHHHHHHHHHhccCCcCHHhHHHHHHHH
Q 047359          339 RQIDKAIALHIKIEKLKGSLDVATYDVLLDGL  370 (440)
Q Consensus       339 ~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  370 (440)
                      .++.+|++++..+.+..-+ |...-..++.-+
T Consensus       219 eN~~eai~Ilk~il~~d~k-~~~ar~~~i~~l  249 (711)
T COG1747         219 ENWTEAIRILKHILEHDEK-DVWARKEIIENL  249 (711)
T ss_pred             cCHHHHHHHHHHHhhhcch-hhhHHHHHHHHH
Confidence            9999999999988886544 555555555443

>PRK09687 putative lyase; Provisional

Probab=86.14  E-value=20  Score=30.54  Aligned_cols=200  Identities=9%  Similarity=-0.052  Sum_probs=103.3

Q ss_pred             CHHhHHHHHHHHhhhccH----HHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCh-----HHHHHHHHHHHHcCCCCC
Q 047359          219 QDDTCGCMLKALSKEGRV----KEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQP-----EEVCGLLRDVVERGYIPC  289 (440)
Q Consensus       219 ~~~~~~~l~~~~~~~~~~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----~~a~~~~~~~~~~~~~~~  289 (440)
                      |...-...+.++.+.|+.    .++...+..+....  ++...-...+.++...+..     ..+...+.....   .++
T Consensus        67 d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~D--~d~~VR~~A~~aLG~~~~~~~~~~~~a~~~l~~~~~---D~~  141 (280)
T PRK09687         67 NPIERDIGADILSQLGMAKRCQDNVFNILNNLALED--KSACVRASAINATGHRCKKNPLYSPKIVEQSQITAF---DKS  141 (280)
T ss_pred             CHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhcC--CCHHHHHHHHHHHhcccccccccchHHHHHHHHHhh---CCC
Confidence            444444445555555542    34555555553322  3444444444444443321     122233322222   234


Q ss_pred             hhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCC-cHHHHHHHHHHHHhccCCcCHHhHHHHHH
Q 047359          290 AMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNR-QIDKAIALHIKIEKLKGSLDVATYDVLLD  368 (440)
Q Consensus       290 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  368 (440)
                      ..+-...+.++.+.++ +.+...+-.+.+.   ++...-...+.++.+.+ +.+.+...+..+..   .++..+-...+.
T Consensus       142 ~~VR~~a~~aLg~~~~-~~ai~~L~~~L~d---~~~~VR~~A~~aLg~~~~~~~~~~~~L~~~L~---D~~~~VR~~A~~  214 (280)
T PRK09687        142 TNVRFAVAFALSVIND-EAAIPLLINLLKD---PNGDVRNWAAFALNSNKYDNPDIREAFVAMLQ---DKNEEIRIEAII  214 (280)
T ss_pred             HHHHHHHHHHHhccCC-HHHHHHHHHHhcC---CCHHHHHHHHHHHhcCCCCCHHHHHHHHHHhc---CCChHHHHHHHH
Confidence            4444555666666665 4455555555542   34445455555555543 23455555555553   346666667777


Q ss_pred             HHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHHHHHHHhhh
Q 047359          369 GLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQVISG  438 (440)
Q Consensus       369 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~ll~a  438 (440)
                      ++.+.|+. .|...+-+..+.+.    .....+.++...|.. +|+..+.++.+.  .||..+-...+.+
T Consensus       215 aLg~~~~~-~av~~Li~~L~~~~----~~~~a~~ALg~ig~~-~a~p~L~~l~~~--~~d~~v~~~a~~a  276 (280)
T PRK09687        215 GLALRKDK-RVLSVLIKELKKGT----VGDLIIEAAGELGDK-TLLPVLDTLLYK--FDDNEIITKAIDK  276 (280)
T ss_pred             HHHccCCh-hHHHHHHHHHcCCc----hHHHHHHHHHhcCCH-hHHHHHHHHHhh--CCChhHHHHHHHH
Confidence            77777773 45555555544321    344677777777774 677777777763  3566655555444

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=86.05  E-value=44  Score=34.33  Aligned_cols=81  Identities=19%  Similarity=0.215  Sum_probs=47.2

Q ss_pred             HHHHHcCCCHHHHHHHHHHHHhcCCCCchh--hhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcC
Q 047359          297 VASQCGKGKWKEVEELLSAVLDKGLLLDSF--CCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDG  374 (440)
Q Consensus       297 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g  374 (440)
                      +.+|..+|+|.+|+.+..++...   -+..  +-..|+.-+...++.-+|-++..+....   |     .-.+..+++..
T Consensus       972 l~a~~~~~dWr~~l~~a~ql~~~---~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd---~-----~~av~ll~ka~ 1040 (1265)
T KOG1920|consen  972 LKAYKECGDWREALSLAAQLSEG---KDELVILAEELVSRLVEQRKHYEAAKILLEYLSD---P-----EEAVALLCKAK 1040 (1265)
T ss_pred             HHHHHHhccHHHHHHHHHhhcCC---HHHHHHHHHHHHHHHHHcccchhHHHHHHHHhcC---H-----HHHHHHHhhHh
Confidence            44555566666666665555321   1211  2245666677778888887777666542   1     22344566677


Q ss_pred             cHHHHHHHHHHHHH
Q 047359          375 RMEEAVRIFDYMKE  388 (440)
Q Consensus       375 ~~~~a~~~~~~~~~  388 (440)
                      .+++|.++.....+
T Consensus      1041 ~~~eAlrva~~~~~ 1054 (1265)
T KOG1920|consen 1041 EWEEALRVASKAKR 1054 (1265)
T ss_pred             HHHHHHHHHHhccc
Confidence            78888877665543

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=86.01  E-value=10  Score=30.92  Aligned_cols=85  Identities=6%  Similarity=-0.057  Sum_probs=51.3

Q ss_pred             HHcCCCHHHHHHHHHHHHhcCCCCchh-hhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHH-hHHHHHHHHHhcCcHH
Q 047359          300 QCGKGKWKEVEELLSAVLDKGLLLDSF-CCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVA-TYDVLLDGLFKDGRME  377 (440)
Q Consensus       300 ~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~g~~~  377 (440)
                      |.....++.|..-|.+....  .|+.. -|+.-+..+.+..+++.+.+--.+.++  +.||.. ...-+.........++
T Consensus        20 ~f~~k~y~~ai~~y~raI~~--nP~~~~Y~tnralchlk~~~~~~v~~dcrralq--l~~N~vk~h~flg~~~l~s~~~~   95 (284)
T KOG4642|consen   20 CFIPKRYDDAIDCYSRAICI--NPTVASYYTNRALCHLKLKHWEPVEEDCRRALQ--LDPNLVKAHYFLGQWLLQSKGYD   95 (284)
T ss_pred             ccchhhhchHHHHHHHHHhc--CCCcchhhhhHHHHHHHhhhhhhhhhhHHHHHh--cChHHHHHHHHHHHHHHhhcccc
Confidence            44456677777766666554  34443 344455566667777777776666665  344543 3334455566667777


Q ss_pred             HHHHHHHHHHH
Q 047359          378 EAVRIFDYMKE  388 (440)
Q Consensus       378 ~a~~~~~~~~~  388 (440)
                      +|+..+.+..+
T Consensus        96 eaI~~Lqra~s  106 (284)
T KOG4642|consen   96 EAIKVLQRAYS  106 (284)
T ss_pred             HHHHHHHHHHH
Confidence            88877777643

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=85.52  E-value=21  Score=30.16  Aligned_cols=137  Identities=9%  Similarity=0.024  Sum_probs=74.6

Q ss_pred             ChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHh-cC-ChhhHHHHHHHHHhc-CCCCcccccchHHHHHHHhhcCcHHH
Q 047359          127 DFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARR-YE-KTEVSDRIVGLMVEK-KLLPKHFLSGNDYVIQKLSDMGKTYA  203 (440)
Q Consensus       127 ~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~-~~-~~~~a~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~  203 (440)
                      .+.+|+++|+.......+--|..+...+++.... .+ ....-.++.+.+... +-.++  ..+...++..+++.+++.+
T Consensus       143 ~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~--~~vi~~Il~~L~~~~dW~k  220 (292)
T PF13929_consen  143 IVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLT--RNVIISILEILAESRDWNK  220 (292)
T ss_pred             HHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCC--hhHHHHHHHHHHhcccHHH
Confidence            3455556655332111233455555555555444 11 222222333333322 23344  5566667777777777777


Q ss_pred             HHHHHHHHHhc-CCCCCHHhHHHHHHHHhhhccHHHHHHHHHH-----HHHcCCCCChhhHHHHHHHH
Q 047359          204 AEMIFKRACDE-KIELQDDTCGCMLKALSKEGRVKEAIQIYHL-----ISERGITVRDSDYYAFVNVL  265 (440)
Q Consensus       204 a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-----~~~~~~~~~~~~~~~l~~~~  265 (440)
                      -.++++..... ++..|...|...|+...+.|+..-..++.++     +.+.++..+...-.++-..+
T Consensus       221 l~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF  288 (292)
T PF13929_consen  221 LFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELF  288 (292)
T ss_pred             HHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHH
Confidence            77777766554 5566777777777777777777766666554     23445555555444444433

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=85.38  E-value=9.7  Score=30.52  Aligned_cols=77  Identities=14%  Similarity=0.136  Sum_probs=57.8

Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccC--CcCHHhHHHHHHH
Q 047359          292 ELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKG--SLDVATYDVLLDG  369 (440)
Q Consensus       292 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~p~~~~~~~l~~~  369 (440)
                      |.+..+..+.+.+.+.+++...+.-.+..+. |..+-..+++.++-.|++++|..-++-.-....  .+-..+|..++.+
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkakPt-da~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAKPT-DAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcCCc-cccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            4455666777889999999999888877554 677788899999999999999988777665322  2344566666654

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=85.10  E-value=14  Score=27.62  Aligned_cols=50  Identities=14%  Similarity=0.180  Sum_probs=36.3

Q ss_pred             CchhHHHHHHHHHhcCC-hhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhc
Q 047359          111 SSVMYNLVIDFYSKKGD-FGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRY  161 (440)
Q Consensus       111 ~~~~~~~li~~~~~~~~-~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  161 (440)
                      +...|..++.+..+... ---+..+|+.+++ .+.+++..-|..++.++.+.
T Consensus        78 ~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~-~~~~~t~~dy~~li~~~l~g  128 (145)
T PF13762_consen   78 DNSSFHIIFKSLSNSSSAKLTSLTLFNFLKK-NDIEFTPSDYSCLIKAALRG  128 (145)
T ss_pred             ccchHHHHHHHHccChHHHHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHcC
Confidence            44567777777765555 3456778888877 77788888888888887654

>smart00028 TPR Tetratricopeptide repeats

Probab=84.96  E-value=2.3  Score=21.05  Aligned_cols=27  Identities=11%  Similarity=0.185  Sum_probs=17.5

Q ss_pred             hHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          396 SFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       396 ~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      ++..+...+...|++++|...+++.++
T Consensus         3 ~~~~~a~~~~~~~~~~~a~~~~~~~~~   29 (34)
T smart00028        3 ALYNLGNAYLKLGDYDEALEYYEKALE   29 (34)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            455566666667777777777766654

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.

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=84.77  E-value=2.7  Score=23.75  Aligned_cols=24  Identities=17%  Similarity=0.140  Sum_probs=14.4

Q ss_pred             HHHHHHcCCcHHHHHHHHHHHHhc
Q 047359          331 LMEYYCSNRQIDKAIALHIKIEKL  354 (440)
Q Consensus       331 l~~~~~~~~~~~~a~~~~~~~~~~  354 (440)
                      +..+|...|+.+.|.++++++...
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~~   28 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIEE   28 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHc
Confidence            455566666666666666666543

This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=84.70  E-value=13  Score=27.17  Aligned_cols=45  Identities=18%  Similarity=0.266  Sum_probs=19.7

Q ss_pred             HHHHHHHHHHHc-CCC-chhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          378 EAVRIFDYMKEL-KVV-SSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       378 ~a~~~~~~~~~~-~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      +.+.+++++.+. .+. .......|.-++.+.|++++++++.+.+++
T Consensus        53 ~GI~iLe~l~~~~~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~   99 (149)
T KOG3364|consen   53 EGIVILEDLLKSAHPERRRECLYYLAVGHYRLKEYSKSLRYVDALLE   99 (149)
T ss_pred             HhHHHHHHHhhhcCcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHh
Confidence            344444444432 222 333334444444455555555555554444

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=84.62  E-value=8.3  Score=33.14  Aligned_cols=93  Identities=13%  Similarity=-0.091  Sum_probs=62.5

Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHH
Q 047359          263 NVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQID  342 (440)
Q Consensus       263 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  342 (440)
                      +.|.+.|.+++|+..+....... +-+.+++..-..+|.+...+..|+.-.......+-. -...|+.-+.+-...|...
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia~~-P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~-Y~KAYSRR~~AR~~Lg~~~  182 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIAVY-PHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKL-YVKAYSRRMQARESLGNNM  182 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhccC-CCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHH-HHHHHHHHHHHHHHHhhHH
Confidence            46889999999999999887653 238888888888999999999888777666554211 2223333333444455566


Q ss_pred             HHHHHHHHHHhccCCcC
Q 047359          343 KAIALHIKIEKLKGSLD  359 (440)
Q Consensus       343 ~a~~~~~~~~~~~~~p~  359 (440)
                      +|.+-++...+  +.|+
T Consensus       183 EAKkD~E~vL~--LEP~  197 (536)
T KOG4648|consen  183 EAKKDCETVLA--LEPK  197 (536)
T ss_pred             HHHHhHHHHHh--hCcc
Confidence            66666666665  3444

>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=83.68  E-value=17  Score=28.20  Aligned_cols=45  Identities=16%  Similarity=0.149  Sum_probs=28.9

Q ss_pred             hhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCC
Q 047359          128 FGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLP  181 (440)
Q Consensus       128 ~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  181 (440)
                      +++|.+.|+....   ..|+...|+.-+...      ++|-+++.++.+.+..+
T Consensus        96 F~kA~~~FqkAv~---~~P~ne~Y~ksLe~~------~kap~lh~e~~~~~~~~  140 (186)
T PF06552_consen   96 FEKATEYFQKAVD---EDPNNELYRKSLEMA------AKAPELHMEIHKQGLGQ  140 (186)
T ss_dssp             HHHHHHHHHHHHH---H-TT-HHHHHHHHHH------HTHHHHHHHHHHSSS--
T ss_pred             HHHHHHHHHHHHh---cCCCcHHHHHHHHHH------HhhHHHHHHHHHHHhhh
Confidence            4566777777755   778888888877765      35677777777765433

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.

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=83.64  E-value=8.8  Score=26.29  Aligned_cols=49  Identities=12%  Similarity=0.268  Sum_probs=21.9

Q ss_pred             HHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 047359          122 YSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEK  177 (440)
Q Consensus       122 ~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  177 (440)
                      +...|++++|..+.+.+     ..||...|.+|..  .+.|..+....-+..+...
T Consensus        49 LmNrG~Yq~Al~l~~~~-----~~pdlepw~ALce--~rlGl~s~l~~rl~rla~s   97 (115)
T TIGR02508        49 LMNRGDYQSALQLGNKL-----CYPDLEPWLALCE--WRLGLGSALESRLNRLAAS   97 (115)
T ss_pred             HHccchHHHHHHhcCCC-----CCchHHHHHHHHH--HhhccHHHHHHHHHHHHhC
Confidence            34445555555544443     2355555544432  2444444444444444433

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.

>PRK09687 putative lyase; Provisional

Probab=83.08  E-value=28  Score=29.68  Aligned_cols=79  Identities=14%  Similarity=0.109  Sum_probs=33.9

Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHhccc-CCchhHHHHHHHHHhcCCh----hHHHHHHHHHhcCCCCCCchhhHHHH
Q 047359           80 PNKFTWSLVAQILCRSGKFEVVLGLLDSGI-YSSVMYNLVIDFYSKKGDF----GAAFDRLNEMCNGRNLTPGFSTYSSI  154 (440)
Q Consensus        80 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~~~~~~~li~~~~~~~~~----~~a~~~~~~~~~~~~~~p~~~~~~~l  154 (440)
                      +|.......+..+...|..+....+..-.. ++...-...+.++.+.|+.    +++...+..+..   -.|+...-...
T Consensus        35 ~d~~vR~~A~~aL~~~~~~~~~~~l~~ll~~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~---~D~d~~VR~~A  111 (280)
T PRK09687         35 HNSLKRISSIRVLQLRGGQDVFRLAIELCSSKNPIERDIGADILSQLGMAKRCQDNVFNILNNLAL---EDKSACVRASA  111 (280)
T ss_pred             CCHHHHHHHHHHHHhcCcchHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHh---cCCCHHHHHHH
Confidence            344444444455554443222222222111 4444444555555555543    345555555422   22444444444


Q ss_pred             HHHHHhc
Q 047359          155 LDGARRY  161 (440)
Q Consensus       155 ~~~~~~~  161 (440)
                      +.++...
T Consensus       112 ~~aLG~~  118 (280)
T PRK09687        112 INATGHR  118 (280)
T ss_pred             HHHHhcc
Confidence            4444443

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=82.54  E-value=25  Score=29.49  Aligned_cols=87  Identities=11%  Similarity=0.011  Sum_probs=46.7

Q ss_pred             HHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHH-----
Q 047359          192 IQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLC-----  266 (440)
Q Consensus       192 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-----  266 (440)
                      |.+++..+++.++....-+--+.--+..+.+...-|-.|.+.+.+..+.++-....+..-.-+...|..++..|.     
T Consensus        90 IQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~VLl  169 (309)
T PF07163_consen   90 IQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLHVLL  169 (309)
T ss_pred             HHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHHHHh
Confidence            556666666666554433332221122334555556667777777777776666655422223334555555443     


Q ss_pred             hcCChHHHHHHH
Q 047359          267 KEHQPEEVCGLL  278 (440)
Q Consensus       267 ~~~~~~~a~~~~  278 (440)
                      -.|.+++|+++.
T Consensus       170 PLG~~~eAeelv  181 (309)
T PF07163_consen  170 PLGHFSEAEELV  181 (309)
T ss_pred             ccccHHHHHHHH
Confidence            356677776665

Pex26 is a type II peroxisomal membrane protein that recruits Pex6-Pex1 complexes to peroxisomes []. Mutations in Pex26 can lead to human disorders [].; GO: 0032403 protein complex binding, 0045046 protein import into peroxisome membrane, 0005779 integral to peroxisomal membrane

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=82.45  E-value=22  Score=29.86  Aligned_cols=89  Identities=13%  Similarity=0.082  Sum_probs=63.0

Q ss_pred             HHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHc--
Q 047359          225 CMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCG--  302 (440)
Q Consensus       225 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--  302 (440)
                      .=|++++..+++.+++...-+--+.--+........-|-.|.+.+.+..+.++-..-....-.-+...|..++..|..  
T Consensus        88 vGIQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~V  167 (309)
T PF07163_consen   88 VGIQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLHV  167 (309)
T ss_pred             hhHHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHHH
Confidence            347889999999998876655544322233455666677789999999999888887764323334457777776655  


Q ss_pred             ---CCCHHHHHHHH
Q 047359          303 ---KGKWKEVEELL  313 (440)
Q Consensus       303 ---~~~~~~a~~~~  313 (440)
                         .|.+++|+++.
T Consensus       168 LlPLG~~~eAeelv  181 (309)
T PF07163_consen  168 LLPLGHFSEAEELV  181 (309)
T ss_pred             HhccccHHHHHHHH
Confidence               59999998887

Pex26 is a type II peroxisomal membrane protein that recruits Pex6-Pex1 complexes to peroxisomes []. Mutations in Pex26 can lead to human disorders [].; GO: 0032403 protein complex binding, 0045046 protein import into peroxisome membrane, 0005779 integral to peroxisomal membrane

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=82.03  E-value=6.2  Score=22.81  Aligned_cols=34  Identities=6%  Similarity=0.075  Sum_probs=23.5

Q ss_pred             HHhcccHHHHHHHHHHHHHCCCCCCHHHHHHHhh
Q 047359          404 LCHLKELRKAMKNHDEMLKMGHKPDEATYKQVIS  437 (440)
Q Consensus       404 ~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~ll~  437 (440)
                      ..+.|-..++..++++|.+.|+.-+...+..+++
T Consensus        12 Ak~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L~   45 (48)
T PF11848_consen   12 AKRRGLISEVKPLLDRLQQAGFRISPKLIEEILR   45 (48)
T ss_pred             HHHcCChhhHHHHHHHHHHcCcccCHHHHHHHHH
Confidence            3456666677777777777777777777766664

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane

Probab=81.61  E-value=7.2  Score=25.32  Aligned_cols=45  Identities=11%  Similarity=0.102  Sum_probs=18.9

Q ss_pred             cCCcHHHHHHHHHHHHhccCCcCH--HhHHHHHHHHHhcCcHHHHHH
Q 047359          337 SNRQIDKAIALHIKIEKLKGSLDV--ATYDVLLDGLFKDGRMEEAVR  381 (440)
Q Consensus       337 ~~~~~~~a~~~~~~~~~~~~~p~~--~~~~~l~~~~~~~g~~~~a~~  381 (440)
                      ..++.++|+..|+...+.-..|..  .++..++.+|+..|++.++++
T Consensus        18 ~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~   64 (80)
T PF10579_consen   18 HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLA   64 (80)
T ss_pred             ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444555555554443222111  133344444444444444443

Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=81.57  E-value=24  Score=27.84  Aligned_cols=90  Identities=14%  Similarity=0.049  Sum_probs=67.8

Q ss_pred             HHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhH-----HHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHH
Q 047359          331 LMEYYCSNRQIDKAIALHIKIEKLKGSLDVATY-----DVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLC  405 (440)
Q Consensus       331 l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~-----~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  405 (440)
                      +...+...+++++|..-++.....   |....+     -.|.+.....|.+++|...++.....+. .......-.+.+.
T Consensus        95 lAk~~ve~~~~d~A~aqL~~~l~~---t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w-~~~~~elrGDill  170 (207)
T COG2976          95 LAKAEVEANNLDKAEAQLKQALAQ---TKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESW-AAIVAELRGDILL  170 (207)
T ss_pred             HHHHHHhhccHHHHHHHHHHHHcc---chhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccH-HHHHHHHhhhHHH
Confidence            345678899999999999888754   222233     3455677889999999999988776532 2233455677899


Q ss_pred             hcccHHHHHHHHHHHHHCC
Q 047359          406 HLKELRKAMKNHDEMLKMG  424 (440)
Q Consensus       406 ~~g~~~~a~~~~~~m~~~~  424 (440)
                      ..|+-++|..-|++.++.+
T Consensus       171 ~kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         171 AKGDKQEARAAYEKALESD  189 (207)
T ss_pred             HcCchHHHHHHHHHHHHcc
Confidence            9999999999999999875

>KOG2063 consensus Vacuolar assembly/sorting proteins VPS39/VAM6/VPS3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=81.20  E-value=64  Score=32.48  Aligned_cols=59  Identities=14%  Similarity=0.221  Sum_probs=35.4

Q ss_pred             HHHHHHHHHccCCcchHHHHHHHHHhcCCccChHh---HHHHHH---HHHhccchhHHHHHHHHHHH
Q 047359           15 LSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSA---CNALLD---ALYRQNEIRLASCLYGAMVR   75 (440)
Q Consensus        15 ~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~---~~~ll~---~~~~~~~~~~a~~~~~~~~~   75 (440)
                      +..=+..+....++++|..+-+.....+  |...-   +.....   -+..+|++++|.+.|+++..
T Consensus       310 ~~~qi~~lL~~k~fe~ai~L~e~~~~~~--p~~~~~i~~~~~l~~a~~lf~q~~f~ea~~~F~~~~~  374 (877)
T KOG2063|consen  310 FEKQIQDLLQEKSFEEAISLAEILDSPN--PKEKRQISCIKILIDAFELFLQKQFEEAMSLFEKSEI  374 (877)
T ss_pred             hHHHHHHHHHhhhHHHHHHHHhccCCCC--hHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHhhcc
Confidence            5556667777777888887776655422  22111   111222   24467888888888888754

>PHA02875 ankyrin repeat protein; Provisional

Probab=81.01  E-value=44  Score=30.48  Aligned_cols=214  Identities=15%  Similarity=0.159  Sum_probs=104.8

Q ss_pred             HHHhcCChhHHHHHHHHHhcCCCCCCchhh--HHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhc
Q 047359          121 FYSKKGDFGAAFDRLNEMCNGRNLTPGFST--YSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDM  198 (440)
Q Consensus       121 ~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~--~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  198 (440)
                      ..++.|+.+-+..++    + .|..|+...  ..+.+..++..|+.    ++.+.+.+.|..|+.........+...+..
T Consensus         8 ~A~~~g~~~iv~~Ll----~-~g~~~n~~~~~g~tpL~~A~~~~~~----~~v~~Ll~~ga~~~~~~~~~~t~L~~A~~~   78 (413)
T PHA02875          8 DAILFGELDIARRLL----D-IGINPNFEIYDGISPIKLAMKFRDS----EAIKLLMKHGAIPDVKYPDIESELHDAVEE   78 (413)
T ss_pred             HHHHhCCHHHHHHHH----H-CCCCCCccCCCCCCHHHHHHHcCCH----HHHHHHHhCCCCccccCCCcccHHHHHHHC
Confidence            345567765544443    4 566665432  23344444555654    477777788766652111223356666778


Q ss_pred             CcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhh--HHHHHHHHHhcCChHHHHH
Q 047359          199 GKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSD--YYAFVNVLCKEHQPEEVCG  276 (440)
Q Consensus       199 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~a~~  276 (440)
                      |+.+.+..+++.-.......+..- .+.+...+..|+.+    +++.+.+.|..|+...  -.+.+...+..|+.+-+..
T Consensus        79 g~~~~v~~Ll~~~~~~~~~~~~~g-~tpL~~A~~~~~~~----iv~~Ll~~gad~~~~~~~g~tpLh~A~~~~~~~~v~~  153 (413)
T PHA02875         79 GDVKAVEELLDLGKFADDVFYKDG-MTPLHLATILKKLD----IMKLLIARGADPDIPNTDKFSPLHLAVMMGDIKGIEL  153 (413)
T ss_pred             CCHHHHHHHHHcCCcccccccCCC-CCHHHHHHHhCCHH----HHHHHHhCCCCCCCCCCCCCCHHHHHHHcCCHHHHHH
Confidence            888776666643221111111111 22334444556654    4455555665554321  1223444456677654444


Q ss_pred             HHHHHHHcCCCCC---hhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhh---hHHHHHHHHcCCcHHHHHHHHHH
Q 047359          277 LLRDVVERGYIPC---AMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFC---CSSLMEYYCSNRQIDKAIALHIK  350 (440)
Q Consensus       277 ~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~a~~~~~~  350 (440)
                      +    .+.|..++   ..-.+.+. ..+..|+.+-    .+.+.+.|..++...   ....+...+..|+.+    +.+.
T Consensus       154 L----l~~g~~~~~~d~~g~TpL~-~A~~~g~~ei----v~~Ll~~ga~~n~~~~~~~~t~l~~A~~~~~~~----iv~~  220 (413)
T PHA02875        154 L----IDHKACLDIEDCCGCTPLI-IAMAKGDIAI----CKMLLDSGANIDYFGKNGCVAALCYAIENNKID----IVRL  220 (413)
T ss_pred             H----HhcCCCCCCCCCCCCCHHH-HHHHcCCHHH----HHHHHhCCCCCCcCCCCCCchHHHHHHHcCCHH----HHHH
Confidence            3    34443332   22233333 3344566554    344556666655432   124444445566654    4455


Q ss_pred             HHhccCCcCHH
Q 047359          351 IEKLKGSLDVA  361 (440)
Q Consensus       351 ~~~~~~~p~~~  361 (440)
                      +.+.|..++..
T Consensus       221 Ll~~gad~n~~  231 (413)
T PHA02875        221 FIKRGADCNIM  231 (413)
T ss_pred             HHHCCcCcchH
Confidence            56677777653

---

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	440
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	6e-07
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-04
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-07

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 51.0 bits (120), Expect = 6e-07
 Identities = 36/286 (12%), Positives = 81/286 (28%), Gaps = 22/286 (7%)

Query: 7   GRDSQSDALSLVLDCYSHKGLF---MDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEI 63
               Q   L     C             L V+   R    +  +   NA++    RQ   
Sbjct: 122 QLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAF 181

Query: 64  RLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFE-----VVLGLLDSGIYSSVMYNLV 118
           +    +   +   G++P+  +++   Q + R  +        +  +   G+    ++  V
Sbjct: 182 KELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAV 241

Query: 119 IDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKK 178
           +     +     A  ++    +     P     S +L      +           +   K
Sbjct: 242 LLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDG---------RVSYPK 292

Query: 179 LLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKE 238
           L          +  Q   ++        + K     K           L+   ++  +  
Sbjct: 293 LHLPLKTLQCLFEKQLHMELASRVCVVSVEKPTLPSKEVKHARKTLKTLRDQWEK-ALCR 351

Query: 239 AIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVER 284
           A++      ER +       Y F+ +L       EV  +L  V++ 
Sbjct: 352 ALRETKNRLEREVYEGRFSLYPFLCLL----DEREVVRMLLQVLQA 393

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 42.9 bits (99), Expect = 2e-04
 Identities = 16/141 (11%), Positives = 43/141 (30%), Gaps = 5/141 (3%)

Query: 304 GKWKEVEELLSAVLD---KGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDV 360
            +      LL        K  LL     +++M  +       + + +   ++    + D+
Sbjct: 141 DQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDL 200

Query: 361 ATYDVLLDGLFKDGRMEEAV-RIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKN-HD 418
            +Y   L  + +  +    + R  + M +  +   + F  V+        + KA+     
Sbjct: 201 LSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKP 260

Query: 419 EMLKMGHKPDEATYKQVISGF 439
                   P      +++   
Sbjct: 261 TFSLPPQLPPPVNTSKLLRDV 281

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 42.5 bits (98), Expect = 2e-04
 Identities = 10/117 (8%), Positives = 29/117 (24%), Gaps = 4/117 (3%)

Query: 328 CSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMK 387
            + L++       +D   A   +  + + S                 ++  A  +     
Sbjct: 95  LARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHH 154

Query: 388 ELKVVSSSSFV----IVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQVISGFM 440
             +       +     V+         ++ +     +   G  PD  +Y   +    
Sbjct: 155 GQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMG 211

>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 = 51.0 bits (121), Expect = 6e-07
 Identities = 61/455 (13%), Positives = 128/455 (28%), Gaps = 144/455 (31%)

Query: 16  SLVLDCYS--HKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYR-QNEIRLASCLYGA 72
           S++   Y      L+ D  +V+        V  +     L  AL   +    +   + G 
Sbjct: 106 SMMTRMYIEQRDRLYNDN-QVFAKY----NVSRLQPYLKLRQALLELRPAKNVL--IDG- 157

Query: 73  MVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGIYSSVMYNLVIDFYSKKGDFGAAF 132
           ++  G    K    +   + C S K +  +   D  I+    +   ++            
Sbjct: 158 VLGSG----K--TWVALDV-CLSYKVQCKM---DFKIF----W---LNL-KNCNSPETVL 199

Query: 133 DRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVI 192
           + L ++     + P +++ S      +      +   +  L+  K          N  ++
Sbjct: 200 EMLQKLL--YQIDPNWTSRSDHSSNIK-LRIHSIQAELRRLLKSKPY-------ENCLLV 249

Query: 193 QKLSDMGKTYAAEMIFKRACDEK-IELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGI 251
             L ++              + K     + +C    K L                    +
Sbjct: 250 --LLNV-------------QNAKAWNAFNLSC----KIL--------------------L 270

Query: 252 TVRDSDYYAFVNVLCKEHQP--EEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEV 309
           T R      F++     H         L  D                           EV
Sbjct: 271 TTRFKQVTDFLSAATTTHISLDHHSMTLTPD---------------------------EV 303

Query: 310 EELLSAVLD---KGL---------LLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGS 357
           + LL   LD   + L            S    S+ +   +          H+  +KL   
Sbjct: 304 KSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNW-----KHVNCDKLTTI 358

Query: 358 LDVATYDVLLDGLFKDGRMEEAVRIFDY-----MKELKVV---SSSSFVIVVSRLCHLKE 409
           ++ ++ +VL    ++  +M + + +F          L ++      S V+VV    H   
Sbjct: 359 IE-SSLNVLEPAEYR--KMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYS 415

Query: 410 L-RKAMKN-----HDEMLKMGHKPDEATY--KQVI 436
           L  K  K          L++  K +      + ++
Sbjct: 416 LVEKQPKESTISIPSIYLELKVKLENEYALHRSIV 450

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	440
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.97
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.96
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.95
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.95
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.95
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.92
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.92
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.92
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.9
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.9
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.9
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.89
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.89
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.89
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.88
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.87
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.87
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.86
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.85
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.85
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.85
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.84
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.84
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.83
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.83
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.82
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.81
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.8
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.78
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.77
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.77
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.77
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.76
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.75
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.74
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.73
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.73
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.73
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.73
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.73
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.72
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.72
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.72
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.71
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.71
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.71
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.7
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.7
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.7
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.68
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.68
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.66
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.66
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.66
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.65
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.64
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.62
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.62
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.62
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.61
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.61
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.6
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.59
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.58
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.58
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.58
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.52
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.52
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.52
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.5
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.5
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.5
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.48
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.48
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.46
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.45
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.43
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.4
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.39
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.36
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.35
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.34
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.34
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.32
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.31
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.29
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.27
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.27
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.27
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.25
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.25
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.23
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.22
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.21
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.2
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.2
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.2
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.18
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.18
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.17
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.15
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.15
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.14
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.12
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.1
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.09
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.08
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.07
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.06
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.05
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.04
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.03
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	99.03
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.02
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	99.02
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.02
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	99.01
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.01
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.98
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.92
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.92
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.92
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.92
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.91
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.91
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.91
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.9
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.9
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.88
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.87
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.87
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.85
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.84
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.84
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.84
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.84
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.83
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.81
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.81
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.8
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.8
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.79
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.79
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.78
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.78
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.75
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.75
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.75
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.75
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.75
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.74
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.74
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.74
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.71
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.7
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.69
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.68
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.66
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.65
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.65
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.65
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.63
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.61
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.59
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.56
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.56
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.56
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.55
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.55
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.54
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.54
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.53
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.51
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.49
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.47
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.47
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.46
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.45
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.43
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.4
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.4
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.4
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.38
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.31
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.29
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.26
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.24
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.2
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.17
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.16
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.15
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.13
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.13
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.12
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.03
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.99
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.98
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.93
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.89
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.88
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.84
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.79
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.67
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.64
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.62
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.6
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.38
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.28
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	97.28
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.26
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.22
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.18
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.12
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.08
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	97.08
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	97.01
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.01
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.93
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.91
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.9
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.9
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.9
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.82
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.72
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.6
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.32
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.25
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.2
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.16
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.1
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	95.87
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	95.83
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	95.31
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	95.19
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	95.16
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	94.91
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	94.48
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	94.09
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	93.68
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	93.39
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	92.53
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	92.39
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	92.02
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	91.92
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	90.89
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	89.9
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	89.89
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	89.8
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	89.74
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	89.68
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	89.62
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	89.4
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	88.79
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	88.66
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	87.96
2p58_C	116	Putative type III secretion protein YSCG; type III	87.0
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	86.86
4a1g_A	152	Mitotic checkpoint serine/threonine-protein kinas;	85.91
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	85.5
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	85.37
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	85.22
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	84.95
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	84.25
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	83.53
2wvi_A	164	Mitotic checkpoint serine/threonine-protein kinase	83.28
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	83.19
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	83.0
3eiq_C	358	Programmed cell death protein 4; PDCD4, anti-oncog	80.71
4a1g_A	152	Mitotic checkpoint serine/threonine-protein kinas;	80.06

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=7.4e-40  Score=309.95  Aligned_cols=415  Identities=14%  Similarity=0.017  Sum_probs=360.0

Q ss_pred             CCChHhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHH
Q 047359            9 DSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLV   88 (440)
Q Consensus         9 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   88 (440)
                      .++...|+.++..+.+.|++++|+.+|+++...  .|+..++..++.+|.+.|++++|..+|+.+...  +++..+++.+
T Consensus        81 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l  156 (597)
T 2xpi_A           81 LSREDYLRLWRHDALMQQQYKCAAFVGEKVLDI--TGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLY--NRSSACRYLA  156 (597)
T ss_dssp             -CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGG--GTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHccCchHHHHHHHHHHhh--CCCchHHHHHHHHHHHcCcHHHHHHHHHHHhcc--ccchhHHHHH
Confidence            367889999999999999999999999999864  578889999999999999999999999998653  6788999999


Q ss_pred             HHHHHhcCChHHHHHHHhcccCC--------------------chhHHHHHHHHHhcCChhHHHHHHHHHhcCCC-----
Q 047359           89 AQILCRSGKFEVVLGLLDSGIYS--------------------SVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRN-----  143 (440)
Q Consensus        89 ~~~~~~~~~~~~a~~~~~~~~~~--------------------~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-----  143 (440)
                      +.+|.+.|++++|.++|+++.|+                    ..+|+.++.+|.+.|++++|.++|++|.+...     
T Consensus       157 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~  236 (597)
T 2xpi_A          157 AFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAKCYEA  236 (597)
T ss_dssp             HHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             HHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCchhhHH
Confidence            99999999999999999976533                    67899999999999999999999999865110     


Q ss_pred             ----------------------------------------------------------------CCCchhhHHHHHHHHH
Q 047359          144 ----------------------------------------------------------------LTPGFSTYSSILDGAR  159 (440)
Q Consensus       144 ----------------------------------------------------------------~~p~~~~~~~l~~~~~  159 (440)
                                                                                      .+++..+++.++.++.
T Consensus       237 ~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~  316 (597)
T 2xpi_A          237 FDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLF  316 (597)
T ss_dssp             HHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHH
Confidence                                                                            1256677888888888


Q ss_pred             hcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHH
Q 047359          160 RYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEA  239 (440)
Q Consensus       160 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  239 (440)
                      +.|++++|.++|+++.+.+  |++ ..++..++.++.+.|++++|.++++++.+..+ .+..+++.++..|.+.|++++|
T Consensus       317 ~~g~~~~A~~~~~~~~~~~--~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A  392 (597)
T 2xpi_A          317 VRSRFIDVLAITTKILEID--PYN-LDVYPLHLASLHESGEKNKLYLISNDLVDRHP-EKAVTWLAVGIYYLCVNKISEA  392 (597)
T ss_dssp             HTTCHHHHHHHHHHHHHHC--TTC-CTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TSHHHHHHHHHHHHHTTCHHHH
T ss_pred             HhcCHHHHHHHHHHHHHcC--ccc-HHHHHHHHHHHHHhCCHHHHHHHHHHHHhhCc-ccHHHHHHHHHHHHHhccHHHH
Confidence            9999999999999988765  332 77888899999999999999999998886544 3788999999999999999999


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhc
Q 047359          240 IQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDK  319 (440)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  319 (440)
                      .++|+++.+.... +..+|..++..+.+.|++++|.++|+.+.+.+ +.+..++..++.+|.+.|++++|.++|+++.+.
T Consensus       393 ~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  470 (597)
T 2xpi_A          393 RRYFSKSSTMDPQ-FGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYAL  470 (597)
T ss_dssp             HHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            9999999886543 67789999999999999999999999998764 457888999999999999999999999999887


Q ss_pred             CCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhc----cCCcC--HHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc
Q 047359          320 GLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKL----KGSLD--VATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVS  393 (440)
Q Consensus       320 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  393 (440)
                      .+. +..+|+.++..|.+.|++++|.++|+++.+.    +..|+  ..+|..++.+|.+.|++++|.+.|+++.+.+|.+
T Consensus       471 ~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  549 (597)
T 2xpi_A          471 FQY-DPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLSTND  549 (597)
T ss_dssp             CCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSCC
T ss_pred             CCC-ChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCC
Confidence            544 7889999999999999999999999999876    55777  7899999999999999999999999999998889


Q ss_pred             hhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHH-HHHHHh
Q 047359          394 SSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEA-TYKQVI  436 (440)
Q Consensus       394 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~-t~~~ll  436 (440)
                      +.+|..++.+|.+.|++++|.+.++++.+  +.|+.. .+..+-
T Consensus       550 ~~~~~~l~~~~~~~g~~~~A~~~~~~~l~--~~p~~~~~~~~l~  591 (597)
T 2xpi_A          550 ANVHTAIALVYLHKKIPGLAITHLHESLA--ISPNEIMASDLLK  591 (597)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhCCHHHHHHHHHHHHh--cCCCChHHHHHHH
Confidence            99999999999999999999999999998  467654 444443

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=1.3e-37  Score=294.67  Aligned_cols=401  Identities=14%  Similarity=0.039  Sum_probs=339.8

Q ss_pred             ccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHH
Q 047359           24 HKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLG  103 (440)
Q Consensus        24 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  103 (440)
                      +.|.+..+...+..+.    .++...|+.++..+.+.|++++|..+|+++.+.  .|+..++..++.+|.+.|++++|..
T Consensus        65 ~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~  138 (597)
T 2xpi_A           65 TDGSFLKERNAQNTDS----LSREDYLRLWRHDALMQQQYKCAAFVGEKVLDI--TGNPNDAFWLAQVYCCTGDYARAKC  138 (597)
T ss_dssp             ---------------------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             ccCccCCCCCccccch----HHHHHHHHHHHHHHHHccCchHHHHHHHHHHhh--CCCchHHHHHHHHHHHcCcHHHHHH
Confidence            3444445555554443    367889999999999999999999999999864  5788999999999999999999999


Q ss_pred             HHhccc---CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCC--------------CCCCchhhHHHHHHHHHhcCChhh
Q 047359          104 LLDSGI---YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGR--------------NLTPGFSTYSSILDGARRYEKTEV  166 (440)
Q Consensus       104 ~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~--------------~~~p~~~~~~~l~~~~~~~~~~~~  166 (440)
                      +|+++.   ++..+++.++.+|.+.|++++|.++|+++....              +..++..+|+.++.+|.+.|++++
T Consensus       139 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  218 (597)
T 2xpi_A          139 LLTKEDLYNRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDR  218 (597)
T ss_dssp             HHHHTCGGGTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHhccccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHH
Confidence            999985   788899999999999999999999999643312              234568899999999999999999


Q ss_pred             HHHHHHHHHhcCCCCcccccchHH--------------------------------------HHHHHhhcCcHHHHHHHH
Q 047359          167 SDRIVGLMVEKKLLPKHFLSGNDY--------------------------------------VIQKLSDMGKTYAAEMIF  208 (440)
Q Consensus       167 a~~~~~~~~~~~~~~~~~~~~~~~--------------------------------------l~~~~~~~~~~~~a~~~~  208 (440)
                      |.+.|+++.+.+  |+. ...+..                                      ++..|.+.|++++|.++|
T Consensus       219 A~~~~~~~~~~~--p~~-~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~  295 (597)
T 2xpi_A          219 AKECYKEALMVD--AKC-YEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYL  295 (597)
T ss_dssp             HHHHHHHHHHHC--TTC-HHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC--chh-hHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHH
Confidence            999999999865  432 223222                                      255667889999999999


Q ss_pred             HHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 047359          209 KRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIP  288 (440)
Q Consensus       209 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  288 (440)
                      +++.+.  .++..+++.++.+|.+.|++++|..+|+++.+.++. +..++..++.++.+.|++++|..+++.+.+.. +.
T Consensus       296 ~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~  371 (597)
T 2xpi_A          296 SSINGL--EKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPY-NLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PE  371 (597)
T ss_dssp             HTSTTG--GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TT
T ss_pred             HHhhcC--CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cc
Confidence            998876  478999999999999999999999999999987654 77889999999999999999999999998654 55


Q ss_pred             ChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHH
Q 047359          289 CAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLD  368 (440)
Q Consensus       289 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  368 (440)
                      +..++..++..|.+.|++++|.++|+++.+..+. +..+|+.++.+|.+.|++++|.++|+++.+.+. .+..+|..++.
T Consensus       372 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~  449 (597)
T 2xpi_A          372 KAVTWLAVGIYYLCVNKISEARRYFSKSSTMDPQ-FGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQ-GTHLPYLFLGM  449 (597)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTT-TCSHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-cchHHHHHHHH
Confidence            7889999999999999999999999999886543 678999999999999999999999999998654 37889999999


Q ss_pred             HHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHC----CCCCC--HHHHHHHhhhc
Q 047359          369 GLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKM----GHKPD--EATYKQVISGF  439 (440)
Q Consensus       369 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~----~~~p~--~~t~~~ll~a~  439 (440)
                      +|.+.|++++|.++|+++.+..+.++.+|..++..|.+.|++++|.++|+++.+.    +..|+  ..+|..+..+|
T Consensus       450 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~  526 (597)
T 2xpi_A          450 QHMQLGNILLANEYLQSSYALFQYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAY  526 (597)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHH
Confidence            9999999999999999999998889999999999999999999999999999875    77888  67888887665

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=100.00  E-value=5e-31  Score=235.73  Aligned_cols=377  Identities=11%  Similarity=0.045  Sum_probs=226.6

Q ss_pred             HHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCh
Q 047359           19 LDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKF   98 (440)
Q Consensus        19 i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   98 (440)
                      ...+.+.|++++|.+.++.+.+.. +.+...+..+...+...|++++|...++...+.. +.+..+|..+...+.+.|++
T Consensus         6 a~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~   83 (388)
T 1w3b_A            6 AHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCH
Confidence            445667777888888777777654 3345556666667777777777777777776653 34566777777777777777


Q ss_pred             HHHHHHHhccc---CC-chhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchh-hHHHHHHHHHhcCChhhHHHHHHH
Q 047359           99 EVVLGLLDSGI---YS-SVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFS-TYSSILDGARRYEKTEVSDRIVGL  173 (440)
Q Consensus        99 ~~a~~~~~~~~---~~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~  173 (440)
                      ++|...|+++.   |+ ..+|..+..++.+.|++++|.+.|+++.+   ..|+.. .+..+...+...|++++|.+.|++
T Consensus        84 ~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  160 (388)
T 1w3b_A           84 QEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQ---YNPDLYCVRSDLGNLLKALGRLEEAKACYLK  160 (388)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHH---HCTTCTHHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCcHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            77777776655   33 33466666666666666666666666655   334433 444555566666666666666666


Q ss_pred             HHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCC
Q 047359          174 MVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITV  253 (440)
Q Consensus       174 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  253 (440)
                      +.+..  |+. ..++..+...+...|++++|...|+++.+.++. +...+..+...+...|++++|...+++..+..+. 
T Consensus       161 al~~~--p~~-~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-  235 (388)
T 1w3b_A          161 AIETQ--PNF-AVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALSLSPN-  235 (388)
T ss_dssp             HHHHC--TTC-HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTT-
T ss_pred             HHHhC--CCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcC-
Confidence            66543  332 455666666666666666666666666655433 4455555666666666666666666665554322 


Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHH
Q 047359          254 RDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLME  333 (440)
Q Consensus       254 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  333 (440)
                      +..++..+...+...|++++|...++.+.+.+ +.+..++..+...+.+.|++++|...++++.+..+ .+..++..+..
T Consensus       236 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~  313 (388)
T 1w3b_A          236 HAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCP-THADSLNNLAN  313 (388)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-ccHHHHHHHHH
Confidence            34555556666666666666666666665543 22344555566666666666666666666655432 24555556666


Q ss_pred             HHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcc
Q 047359          334 YYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLK  408 (440)
Q Consensus       334 ~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  408 (440)
                      .+...|++++|.+.++++.+..+ .+..++..+...+.+.|++++|.+.|+++.+..|..+.++..+...+...|
T Consensus       314 ~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~~~~a~~~lg~~~~~~~  387 (388)
T 1w3b_A          314 IKREQGNIEEAVRLYRKALEVFP-EFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQ  387 (388)
T ss_dssp             HHHTTTCHHHHHHHHHHHTTSCT-TCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHhHHHHHHHcc
Confidence            66666666666666666655322 234555566666666666666666666666655555555555555554443

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=100.00  E-value=3.4e-30  Score=230.30  Aligned_cols=362  Identities=13%  Similarity=0.095  Sum_probs=319.9

Q ss_pred             HHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHhccc----CCchhHHHHHHHHHhcCChh
Q 047359           54 LDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGI----YSSVMYNLVIDFYSKKGDFG  129 (440)
Q Consensus        54 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~li~~~~~~~~~~  129 (440)
                      ...+.+.|++++|.+.++.+.+.. +.+...+..+...+...|++++|...++...    .+..+|..+..++.+.|+++
T Consensus         6 a~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~p~~~~~~~~lg~~~~~~g~~~   84 (388)
T 1w3b_A            6 AHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQ   84 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHH
Confidence            456778899999999999998764 3356677788888999999999999998876    45678999999999999999


Q ss_pred             HHHHHHHHHhcCCCCCCc-hhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHH
Q 047359          130 AAFDRLNEMCNGRNLTPG-FSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIF  208 (440)
Q Consensus       130 ~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  208 (440)
                      +|.+.|+++.+   ..|+ ..+|..+..++.+.|++++|.+.++++.+..  |+. ...+..+...+...|++++|.+.|
T Consensus        85 ~A~~~~~~al~---~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~-~~~~~~l~~~~~~~g~~~~A~~~~  158 (388)
T 1w3b_A           85 EAIEHYRHALR---LKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN--PDL-YCVRSDLGNLLKALGRLEEAKACY  158 (388)
T ss_dssp             HHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC--TTC-THHHHHHHHHHHTTSCHHHHHHHH
T ss_pred             HHHHHHHHHHH---cCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCc-HHHHHHHHHHHHHccCHHHHHHHH
Confidence            99999999987   5565 4579999999999999999999999999865  553 667788899999999999999999


Q ss_pred             HHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 047359          209 KRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIP  288 (440)
Q Consensus       209 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  288 (440)
                      +++.+..+. +..+|..+...+...|++++|...|+++.+.++. +...+..+...+...|++++|...++...+.. +.
T Consensus       159 ~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~  235 (388)
T 1w3b_A          159 LKAIETQPN-FAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PN  235 (388)
T ss_dssp             HHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TT
T ss_pred             HHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cC
Confidence            999987654 6788999999999999999999999999987654 56788899999999999999999999998864 34


Q ss_pred             ChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHH
Q 047359          289 CAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLD  368 (440)
Q Consensus       289 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  368 (440)
                      +..++..+...+...|++++|...++++.+..+. +..++..+...+.+.|++++|.+.++++.+..+ .+..++..+..
T Consensus       236 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~  313 (388)
T 1w3b_A          236 HAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPH-FPDAYCNLANALKEKGSVAEAEDCYNTALRLCP-THADSLNNLAN  313 (388)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSS-CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-ccHHHHHHHHH
Confidence            5778899999999999999999999999987644 677899999999999999999999999998743 47889999999


Q ss_pred             HHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCH
Q 047359          369 GLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDE  429 (440)
Q Consensus       369 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~  429 (440)
                      .+.+.|++++|.+.++++.+..|.+..++..++..+.+.|++++|...++++.+  +.|+.
T Consensus       314 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~--~~p~~  372 (388)
T 1w3b_A          314 IKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPTF  372 (388)
T ss_dssp             HHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT--TCTTC
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--hCCCC
Confidence            999999999999999999998888899999999999999999999999999998  56654

>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=100.00  E-value=2.9e-32  Score=247.29  Aligned_cols=205  Identities=12%  Similarity=0.165  Sum_probs=141.4

Q ss_pred             HHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhc---------cHH
Q 047359          167 SDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEG---------RVK  237 (440)
Q Consensus       167 a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---------~~~  237 (440)
                      +..+.+.+.+.+..+.. ...++.+|++|++.|++++|.++|++|.+.|+.||..+|+++|.+|++.+         +++
T Consensus         9 ~e~L~~~~~~k~~~~sp-e~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~   87 (501)
T 4g26_A            9 SENLSRKAKKKAIQQSP-EALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLS   87 (501)
T ss_dssp             ---------------CH-HHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHH
T ss_pred             HHHHHHHHHHhcccCCC-HHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHH
Confidence            33444455444443321 23456667777777777777777777777777777777777777776543         356


Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHH
Q 047359          238 EAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVL  317 (440)
Q Consensus       238 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  317 (440)
                      .|.++|++|.+.|+.||..||+++|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.
T Consensus        88 ~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~  167 (501)
T 4g26_A           88 RGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMV  167 (501)
T ss_dssp             HHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHH
Confidence            77777777777777777777777777777777777777777777777777777777777777777777777777777777


Q ss_pred             hcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHh
Q 047359          318 DKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFK  372 (440)
Q Consensus       318 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  372 (440)
                      +.|+.||..+|+.+|.+|++.|+.++|.+++++|.+.|..|+..||+.++..|..
T Consensus       168 ~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          168 ESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             HTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             hcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            7777777777777777777777777777777777777777777777777777664

>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=100.00  E-value=8.5e-32  Score=244.29  Aligned_cols=206  Identities=13%  Similarity=0.171  Sum_probs=179.7

Q ss_pred             HHHHHHHHHHhcCCCCCH-HhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCC---------hH
Q 047359          203 AAEMIFKRACDEKIELQD-DTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQ---------PE  272 (440)
Q Consensus       203 ~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---------~~  272 (440)
                      .+..+.+.+.+.+..+.+ ..++.+|.+|++.|++++|+++|++|.+.|+.||..+|+.+|.+|++.+.         .+
T Consensus         8 ~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~   87 (501)
T 4g26_A            8 PSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLS   87 (501)
T ss_dssp             ----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHH
T ss_pred             hHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHH
Confidence            455666777777665544 46888999999999999999999999999999999999999999987665         67


Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHH
Q 047359          273 EVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIE  352 (440)
Q Consensus       273 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  352 (440)
                      +|.++|++|.+.|+.||..+|+++|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.
T Consensus        88 ~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~  167 (501)
T 4g26_A           88 RGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMV  167 (501)
T ss_dssp             HHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHH
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC-chhhHHHHHHHHHhcc
Q 047359          353 KLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV-SSSSFVIVVSRLCHLK  408 (440)
Q Consensus       353 ~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g  408 (440)
                      +.|+.||..+|++|+.+|++.|+.++|.++|++|++.+.. +..+|+.++..|...+
T Consensus       168 ~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~~  224 (501)
T 4g26_A          168 ESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSEV  224 (501)
T ss_dssp             HTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSHH
T ss_pred             hcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcCc
Confidence            9999999999999999999999999999999999999988 8999999999887643

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.97  E-value=1.2e-26  Score=215.51  Aligned_cols=411  Identities=10%  Similarity=-0.044  Sum_probs=328.8

Q ss_pred             hHhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 047359           12 SDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQI   91 (440)
Q Consensus        12 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   91 (440)
                      ...+......+.+.|++++|+..|+++.+..  |+..+|..+..++.+.|++++|.+.++++.+.+ +.+..++..+..+
T Consensus         6 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~   82 (514)
T 2gw1_A            6 ALALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASA   82 (514)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHH
Confidence            4567778889999999999999999999875  789999999999999999999999999998875 3467789999999


Q ss_pred             HHhcCChHHHHHHHhccc---C-CchhHHHHHHHHHhcCChhHHHHHHHH------------------------------
Q 047359           92 LCRSGKFEVVLGLLDSGI---Y-SSVMYNLVIDFYSKKGDFGAAFDRLNE------------------------------  137 (440)
Q Consensus        92 ~~~~~~~~~a~~~~~~~~---~-~~~~~~~li~~~~~~~~~~~a~~~~~~------------------------------  137 (440)
                      +...|++++|...|+++.   | +......++..+........+.+.+..                              
T Consensus        83 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  162 (514)
T 2gw1_A           83 NEGLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVT  162 (514)
T ss_dssp             HHHTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHH
T ss_pred             HHHHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhH
Confidence            999999999999999876   2 333344444443332222222222211                              


Q ss_pred             -----HhcCCCCC--------C-chhhHHHHHHHHHh---cCChhhHHHHHHHHHh-----cCCCCc------ccccchH
Q 047359          138 -----MCNGRNLT--------P-GFSTYSSILDGARR---YEKTEVSDRIVGLMVE-----KKLLPK------HFLSGND  189 (440)
Q Consensus       138 -----~~~~~~~~--------p-~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~-----~~~~~~------~~~~~~~  189 (440)
                           +.. ....        | +...+......+..   .|++++|...++++.+     ....|+      .....+.
T Consensus       163 ~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  241 (514)
T 2gw1_A          163 SMASFFGI-FKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLE  241 (514)
T ss_dssp             HHHHHHTT-SCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHhh-cCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHH
Confidence                 100 0000        1 13344444444444   8999999999999988     321222      1156778


Q ss_pred             HHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcC
Q 047359          190 YVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEH  269 (440)
Q Consensus       190 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  269 (440)
                      .+...+...|++++|...++++.+..+.  ...+..+..++...|++++|...++.+.+.... +...+..+...+...|
T Consensus       242 ~~~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~  318 (514)
T 2gw1_A          242 HTGIFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLDSN-NSSVYYHRGQMNFILQ  318 (514)
T ss_dssp             HHHHHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTT-CTHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcC-CHHHHHHHHHHHHHhC
Confidence            8899999999999999999999887655  888999999999999999999999999887543 6678889999999999


Q ss_pred             ChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHH
Q 047359          270 QPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHI  349 (440)
Q Consensus       270 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  349 (440)
                      ++++|...++.+.+.. +.+...+..+...+...|++++|...++++.+..+. +...+..+...+...|++++|...++
T Consensus       319 ~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~  396 (514)
T 2gw1_A          319 NYDQAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRKFPE-APEVPNFFAEILTDKNDFDKALKQYD  396 (514)
T ss_dssp             CTTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHccc-CHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            9999999999998864 345678888999999999999999999999887543 67788899999999999999999999


Q ss_pred             HHHhccCC-cC----HHhHHHHHHHHHh---cCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHH
Q 047359          350 KIEKLKGS-LD----VATYDVLLDGLFK---DGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEML  421 (440)
Q Consensus       350 ~~~~~~~~-p~----~~~~~~l~~~~~~---~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  421 (440)
                      ++.+.... ++    ...+..+...+..   .|++++|.+.++++.+..+.++.++..+...+.+.|++++|...++++.
T Consensus       397 ~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~  476 (514)
T 2gw1_A          397 LAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLFEESA  476 (514)
T ss_dssp             HHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            99875432 12    3388899999999   9999999999999999988889999999999999999999999999999


Q ss_pred             HCCCCCCHHHHH
Q 047359          422 KMGHKPDEATYK  433 (440)
Q Consensus       422 ~~~~~p~~~t~~  433 (440)
                      +  +.|+.....
T Consensus       477 ~--~~~~~~~~~  486 (514)
T 2gw1_A          477 D--LARTMEEKL  486 (514)
T ss_dssp             H--HCSSHHHHH
T ss_pred             H--hccccHHHH
Confidence            8  467655433

>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=99.96  E-value=1.7e-25  Score=208.87  Aligned_cols=407  Identities=9%  Similarity=-0.002  Sum_probs=317.7

Q ss_pred             hHhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 047359           12 SDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQI   91 (440)
Q Consensus        12 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   91 (440)
                      ...|..+...+.+.|++++|++.|+.+.+.. +.+..++..+..++.+.|++++|.+.|+++.+.+ +.+..++..+..+
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~  102 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASA  102 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHH
Confidence            4667788899999999999999999999876 4578899999999999999999999999998875 3467889999999


Q ss_pred             HHhcCChHHHHHHHhcccCCchhHHHHHHHHHhcCChhHHHHHHHHHhcC-----CCCCCchhh----------------
Q 047359           92 LCRSGKFEVVLGLLDSGIYSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNG-----RNLTPGFST----------------  150 (440)
Q Consensus        92 ~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----~~~~p~~~~----------------  150 (440)
                      +...|++++|...|+.+..+....+..+..+...+...+|...++++...     ....|+...                
T Consensus       103 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  182 (537)
T 3fp2_A          103 NESLGNFTDAMFDLSVLSLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSS  182 (537)
T ss_dssp             HHHHTCHHHHHHHHHHHC-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHT
T ss_pred             HHHcCCHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHH
Confidence            99999999999999755533333334455566666677888888887541     011122111                


Q ss_pred             --------------HHHHHHHHH--------hcCChhhHHHHHHHHHhcCCCCccc------ccchHHHHHHHhhcCcHH
Q 047359          151 --------------YSSILDGAR--------RYEKTEVSDRIVGLMVEKKLLPKHF------LSGNDYVIQKLSDMGKTY  202 (440)
Q Consensus       151 --------------~~~l~~~~~--------~~~~~~~a~~~~~~~~~~~~~~~~~------~~~~~~l~~~~~~~~~~~  202 (440)
                                    ...+...+.        ..|++++|..+++.+.+..  |++.      ..++..+...+...|+++
T Consensus       183 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~~~~~g~~~~~~~~~~  260 (537)
T 3fp2_A          183 VNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSAN--TVDDPLRENAALALCYTGIFHFLKNNLL  260 (537)
T ss_dssp             SCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC----CCCHHHHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHC--CCcchhhHHHHHHHHHHHHHHHhcccHH
Confidence                          111111111        1247889999999988765  4320      124666778889999999


Q ss_pred             HHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 047359          203 AAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVV  282 (440)
Q Consensus       203 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  282 (440)
                      +|...+++..+..+  +...+..+...+...|++++|...++++.+.... +..++..+...+...|++++|...++.+.
T Consensus       261 ~A~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~  337 (537)
T 3fp2_A          261 DAQVLLQESINLHP--TPNSYIFLALTLADKENSQEFFKFFQKAVDLNPE-YPPTYYHRGQMYFILQDYKNAKEDFQKAQ  337 (537)
T ss_dssp             HHHHHHHHHHHHCC--CHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCC--CchHHHHHHHHHHHhcCHHHHHHHHHHHhccCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            99999999998754  4788889999999999999999999999887643 67789999999999999999999999998


Q ss_pred             HcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCc----
Q 047359          283 ERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSL----  358 (440)
Q Consensus       283 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p----  358 (440)
                      +.. +.+...+..+...+...|++++|...++++.+..+. +...+..+...+...|++++|.+.++++.+.....    
T Consensus       338 ~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~  415 (537)
T 3fp2_A          338 SLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLKFPT-LPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIH  415 (537)
T ss_dssp             HHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCS
T ss_pred             HhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhH
Confidence            864 345678889999999999999999999999887544 67788899999999999999999999998754221    


Q ss_pred             -CHHhHHHHHHHHHhc----------CcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCC
Q 047359          359 -DVATYDVLLDGLFKD----------GRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKP  427 (440)
Q Consensus       359 -~~~~~~~l~~~~~~~----------g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p  427 (440)
                       ....+..+...+...          |++++|...|+++.+..|.++.++..+...+.+.|++++|.+.|+++.+  +.|
T Consensus       416 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~--~~~  493 (537)
T 3fp2_A          416 VGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAI--LAR  493 (537)
T ss_dssp             STTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HC-
T ss_pred             HHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHH--hCC
Confidence             112244555677777          9999999999999999988899999999999999999999999999988  345


Q ss_pred             CH
Q 047359          428 DE  429 (440)
Q Consensus       428 ~~  429 (440)
                      +.
T Consensus       494 ~~  495 (537)
T 3fp2_A          494 TM  495 (537)
T ss_dssp             -C
T ss_pred             Cc
Confidence            43

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.95  E-value=8.3e-25  Score=199.49  Aligned_cols=310  Identities=14%  Similarity=0.043  Sum_probs=186.2

Q ss_pred             cChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHhccc----CCchhHHHHHH
Q 047359           45 PAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGI----YSSVMYNLVID  120 (440)
Q Consensus        45 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~li~  120 (440)
                      .+...+..+...+.+.|++++|..+|+++.+.. +.+..++..+..++...|++++|...|+++.    .+..++..+..
T Consensus        24 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~  102 (450)
T 2y4t_A           24 ADVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMDFTAARLQRGH  102 (450)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHH
Confidence            455666666667777777777777777766542 3356666666677777777777777776655    23455666777


Q ss_pred             HHHhcCChhHHHHHHHHHhcCCCCCCch----hhHHHH------------HHHHHhcCChhhHHHHHHHHHhcCCCCccc
Q 047359          121 FYSKKGDFGAAFDRLNEMCNGRNLTPGF----STYSSI------------LDGARRYEKTEVSDRIVGLMVEKKLLPKHF  184 (440)
Q Consensus       121 ~~~~~~~~~~a~~~~~~~~~~~~~~p~~----~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  184 (440)
                      +|.+.|++++|.+.|+++.+   ..|+.    ..+..+            ...+.+.|++++|...++.+.+..  |+. 
T Consensus       103 ~~~~~g~~~~A~~~~~~~~~---~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~-  176 (450)
T 2y4t_A          103 LLLKQGKLDEAEDDFKKVLK---SNPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC--VWD-  176 (450)
T ss_dssp             HHHHTTCHHHHHHHHHHHHT---SCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTC-
T ss_pred             HHHHcCCHHHHHHHHHHHHh---cCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCC-
Confidence            77777777777777777765   33432    333333            333566667777777776666543  322 


Q ss_pred             ccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHH---
Q 047359          185 LSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAF---  261 (440)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l---  261 (440)
                      ...+..++.+|.+.|++++|...|+++.+..+. +..++..+..+|...|++++|...|+++.+.... +...+..+   
T Consensus       177 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~~~~~  254 (450)
T 2y4t_A          177 AELRELRAECFIKEGEPRKAISDLKAASKLKND-NTEAFYKISTLYYQLGDHELSLSEVRECLKLDQD-HKRCFAHYKQV  254 (450)
T ss_dssp             HHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHCS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-hHHHHHHHHHH
Confidence            555666666666677777777766666654332 4566666666666777777777777666654322 22233222   


Q ss_pred             ---------HHHHHhcCChHHHHHHHHHHHHcCCCCC-----hhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhh
Q 047359          262 ---------VNVLCKEHQPEEVCGLLRDVVERGYIPC-----AMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFC  327 (440)
Q Consensus       262 ---------~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  327 (440)
                               ...+...|++++|...++.+.+..  |+     ...+..+...+.+.|++++|...++++.+..+. +...
T Consensus       255 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~-~~~~  331 (450)
T 2y4t_A          255 KKLNKLIESAEELIRDGRYTDATSKYESVMKTE--PSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQMEPD-NVNA  331 (450)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHH
Confidence                     555666666666666666666542  22     234555666666666666666666666554322 4556


Q ss_pred             hHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHH
Q 047359          328 CSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLL  367 (440)
Q Consensus       328 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~  367 (440)
                      |..+..+|...|++++|...++++.+..+. +...+..+.
T Consensus       332 ~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~  370 (450)
T 2y4t_A          332 LKDRAEAYLIEEMYDEAIQDYETAQEHNEN-DQQIREGLE  370 (450)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTSSS-CHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhCcc-hHHHHHHHH
Confidence            666666666666666666666666654222 333444443

>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=99.95  E-value=1.3e-24  Score=198.20  Aligned_cols=345  Identities=10%  Similarity=0.070  Sum_probs=277.6

Q ss_pred             HHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHhccc----CCchhHHHHHHHHHhcCChhHHHHHHHHHhcC
Q 047359           66 ASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGI----YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNG  141 (440)
Q Consensus        66 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  141 (440)
                      +...+..+.... +.+...+..+...+.+.|++++|..+|+++.    .+..+|..+..++...|++++|...|+++.+ 
T Consensus        11 ~~~~~~~~~~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~-   88 (450)
T 2y4t_A           11 VDLGTENLYFQS-MADVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQ-   88 (450)
T ss_dssp             -------------CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-
T ss_pred             cccccccccccc-HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHh-
Confidence            334444444332 4467789999999999999999999999877    4667899999999999999999999999987 


Q ss_pred             CCCCC-chhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccc---cchHHH------------HHHHhhcCcHHHHH
Q 047359          142 RNLTP-GFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFL---SGNDYV------------IQKLSDMGKTYAAE  205 (440)
Q Consensus       142 ~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~~~l------------~~~~~~~~~~~~a~  205 (440)
                        ..| +...+..+..++.+.|++++|...|+++.+..  |+. .   ..+..+            ...+...|++++|.
T Consensus        89 --~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~  163 (450)
T 2y4t_A           89 --LKMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSN--PSE-NEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAI  163 (450)
T ss_dssp             --HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC--CCH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             --cCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCC-hhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence              334 46688899999999999999999999998864  442 3   444444            45589999999999


Q ss_pred             HHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 047359          206 MIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERG  285 (440)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  285 (440)
                      ..++++.+..+. +...+..+..+|.+.|++++|...|+++.+... .+..++..+...+...|++++|...++.+.+..
T Consensus       164 ~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  241 (450)
T 2y4t_A          164 AFLDKILEVCVW-DAELRELRAECFIKEGEPRKAISDLKAASKLKN-DNTEAFYKISTLYYQLGDHELSLSEVRECLKLD  241 (450)
T ss_dssp             HHHHHHHHHCTT-CHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHC-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHhCCC-ChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            999999887654 778899999999999999999999999988653 367889999999999999999999999998763


Q ss_pred             CCCChhhHHHH------------HHHHHcCCCHHHHHHHHHHHHhcCCCCc----hhhhHHHHHHHHcCCcHHHHHHHHH
Q 047359          286 YIPCAMELSRF------------VASQCGKGKWKEVEELLSAVLDKGLLLD----SFCCSSLMEYYCSNRQIDKAIALHI  349 (440)
Q Consensus       286 ~~~~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~  349 (440)
                       +.+...+..+            ...+...|++++|...++++.+..+. +    ...+..+...+.+.|++++|...++
T Consensus       242 -p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  319 (450)
T 2y4t_A          242 -QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPS-IAEYTVRSKERICHCFSKDEKPVEAIRVCS  319 (450)
T ss_dssp             -TTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             -CChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-chHHHHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence             2233444444            78888999999999999999886433 2    3478888999999999999999999


Q ss_pred             HHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHH------------HHhcc-----cHHH
Q 047359          350 KIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSR------------LCHLK-----ELRK  412 (440)
Q Consensus       350 ~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~------------~~~~g-----~~~~  412 (440)
                      ++.+..+. +...|..+..+|...|++++|...++++.+..|.++.++..+..+            |...|     +.++
T Consensus       320 ~a~~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~~~y~~lg~~~~~~~~~  398 (450)
T 2y4t_A          320 EVLQMEPD-NVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRLLKQSQKRDYYKILGVKRNAKKQE  398 (450)
T ss_dssp             HHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHHHSCCSGGGSCSSTTCCTTH
T ss_pred             HHHHhCcc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHhhcccchhHHHHhCCCccCCHHH
Confidence            99886432 678999999999999999999999999999988888888887743            44444     5677


Q ss_pred             HHHHHHH-HHH
Q 047359          413 AMKNHDE-MLK  422 (440)
Q Consensus       413 a~~~~~~-m~~  422 (440)
                      +.+.+++ .++
T Consensus       399 ~~~~y~~~~l~  409 (450)
T 2y4t_A          399 IIKAYRKLALQ  409 (450)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            7888886 444

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.95  E-value=5.7e-24  Score=197.37  Aligned_cols=382  Identities=9%  Similarity=-0.053  Sum_probs=306.8

Q ss_pred             CCChHhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHH
Q 047359            9 DSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLV   88 (440)
Q Consensus         9 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   88 (440)
                      .|+..+|..+..++.+.|++++|+..|+.+.+.+ +.+..++..+..++.+.|++++|...|+.+.+.+ +++......+
T Consensus        36 ~p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~  113 (514)
T 2gw1_A           36 KEDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASANEGLGKFADAMFDLSVLSLNG-DFNDASIEPM  113 (514)
T ss_dssp             CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSS-SCCGGGTHHH
T ss_pred             CccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCccchHHHH
Confidence            3789999999999999999999999999999876 4567899999999999999999999999998876 3344444444


Q ss_pred             HHHHHhcCChHHHHHHHh--------------------------------------ccc-----------CCchhHHHHH
Q 047359           89 AQILCRSGKFEVVLGLLD--------------------------------------SGI-----------YSSVMYNLVI  119 (440)
Q Consensus        89 ~~~~~~~~~~~~a~~~~~--------------------------------------~~~-----------~~~~~~~~li  119 (440)
                      +..+........+.+.+.                                      ...           .+...+....
T Consensus       114 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  193 (514)
T 2gw1_A          114 LERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKPELTFANYDESNEADKELMNG  193 (514)
T ss_dssp             HHHHHHHHHHHHHTTC---------------------------CCCCHHHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHH
Confidence            444444332222222221                                      111           0133344444


Q ss_pred             HHHHh---cCChhHHHHHHHHHhc-----CCCC-------CCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCccc
Q 047359          120 DFYSK---KGDFGAAFDRLNEMCN-----GRNL-------TPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHF  184 (440)
Q Consensus       120 ~~~~~---~~~~~~a~~~~~~~~~-----~~~~-------~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  184 (440)
                      ..+..   .|++++|...|+++.+     ....       +.+...+..+...+...|++++|...++.+.+..  |+  
T Consensus       194 ~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--~~--  269 (514)
T 2gw1_A          194 LSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELF--PR--  269 (514)
T ss_dssp             HHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHC--CC--
T ss_pred             HHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cc--
Confidence            44554   8999999999999865     1111       1234577888889999999999999999999865  55  


Q ss_pred             ccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 047359          185 LSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNV  264 (440)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  264 (440)
                      ...+..+...+...|++++|...++++.+..+. +...+..+...+...|++++|...+++..+.... +...+..+...
T Consensus       270 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~  347 (514)
T 2gw1_A          270 VNSYIYMALIMADRNDSTEYYNYFDKALKLDSN-NSSVYYHRGQMNFILQNYDQAGKDFDKAKELDPE-NIFPYIQLACL  347 (514)
T ss_dssp             HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTT-CTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTCSS-CSHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcC-CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhChh-hHHHHHHHHHH
Confidence            678888999999999999999999999887654 6778999999999999999999999999987654 56788889999


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCC-c----hhhhHHHHHHHHc--
Q 047359          265 LCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLL-D----SFCCSSLMEYYCS--  337 (440)
Q Consensus       265 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~----~~~~~~l~~~~~~--  337 (440)
                      +...|++++|...++.+.+.. +.+...+..+...+...|++++|...++++.+..... +    ...+..+...+..  
T Consensus       348 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~  426 (514)
T 2gw1_A          348 AYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNP  426 (514)
T ss_dssp             TTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSC
T ss_pred             HHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhh
Confidence            999999999999999998764 3456788899999999999999999999997653321 1    3378889999999  


Q ss_pred             -CCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHH
Q 047359          338 -NRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIV  400 (440)
Q Consensus       338 -~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l  400 (440)
                       .|++++|...++++.+.... +..++..+...|.+.|++++|...|+++.+..+.++..+..+
T Consensus       427 ~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~  489 (514)
T 2gw1_A          427 TVENFIEATNLLEKASKLDPR-SEQAKIGLAQMKLQQEDIDEAITLFEESADLARTMEEKLQAI  489 (514)
T ss_dssp             CTTHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSHHHHHHHH
T ss_pred             hcCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhccccHHHHHHH
Confidence             99999999999999987543 677889999999999999999999999999988877666554

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.92  E-value=1.6e-21  Score=172.10  Aligned_cols=304  Identities=12%  Similarity=0.039  Sum_probs=179.5

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHhcCCCCCC-chhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHH
Q 047359          115 YNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTP-GFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQ  193 (440)
Q Consensus       115 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~  193 (440)
                      +..+...+...|++++|+..|+++.+   ..| +...+..+..++...|++++|...++.+.+..  |+. ...+..+..
T Consensus         6 ~~~~~~~~~~~g~~~~A~~~~~~~l~---~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~-~~~~~~l~~   79 (359)
T 3ieg_A            6 HLELGKKLLAAGQLADALSQFHAAVD---GDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK--MDF-TAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTC-HHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHh---hCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--CCc-chHHHHHHH
Confidence            44444445555555555555555443   122 23344444555555555555555555554432  221 344445555


Q ss_pred             HHhhcCcHHHHHHHHHHHHhcCCC--CCHHhHHHH------------HHHHhhhccHHHHHHHHHHHHHcCCCCChhhHH
Q 047359          194 KLSDMGKTYAAEMIFKRACDEKIE--LQDDTCGCM------------LKALSKEGRVKEAIQIYHLISERGITVRDSDYY  259 (440)
Q Consensus       194 ~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  259 (440)
                      .+...|++++|...++++.+..+.  .+...+..+            ...+...|++++|...++++.+..+. +...+.
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~  158 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVCVW-DAELRE  158 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHH
T ss_pred             HHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-chHHHH
Confidence            555555555555555555443220  022222222            45566667777777777776665432 455666


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhH----------
Q 047359          260 AFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCS----------  329 (440)
Q Consensus       260 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~----------  329 (440)
                      .+...+...|++++|...++.+.+.. +.+...+..+...+...|++++|...+++..+..+. +...+.          
T Consensus       159 ~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~~~~~~~~~  236 (359)
T 3ieg_A          159 LRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQD-HKRCFAHYKQVKKLNK  236 (359)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcc-chHHHHHHHHHHHHHH
Confidence            66666677777777777777666543 345556666666666677777777777766655332 222222          


Q ss_pred             --HHHHHHHcCCcHHHHHHHHHHHHhccCCcCH----HhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHH
Q 047359          330 --SLMEYYCSNRQIDKAIALHIKIEKLKGSLDV----ATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSR  403 (440)
Q Consensus       330 --~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  403 (440)
                        .+...+...|++++|...++++.+.... +.    ..+..+...+...|++++|...++++.+..|.++.++..+...
T Consensus       237 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  315 (359)
T 3ieg_A          237 LIESAEELIRDGRYTDATSKYESVMKTEPS-VAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQMEPDNVNALKDRAEA  315 (359)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccHHHHHHHHHH
Confidence              2245577778888888888877765433 22    2344566777788888888888888887777777788888888


Q ss_pred             HHhcccHHHHHHHHHHHHHCCCCCCHH
Q 047359          404 LCHLKELRKAMKNHDEMLKMGHKPDEA  430 (440)
Q Consensus       404 ~~~~g~~~~a~~~~~~m~~~~~~p~~~  430 (440)
                      +...|++++|...++++.+  +.|+..
T Consensus       316 ~~~~g~~~~A~~~~~~a~~--~~p~~~  340 (359)
T 3ieg_A          316 YLIEEMYDEAIQDYEAAQE--HNENDQ  340 (359)
T ss_dssp             HHHTTCHHHHHHHHHHHHT--TCTTCH
T ss_pred             HHHcCCHHHHHHHHHHHHh--cCCCCh
Confidence            8888888888888888877  456543

>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=99.92  E-value=2.3e-21  Score=180.89  Aligned_cols=371  Identities=10%  Similarity=-0.011  Sum_probs=284.4

Q ss_pred             CCChHhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHH
Q 047359            9 DSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLV   88 (440)
Q Consensus         9 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   88 (440)
                      +.++.+|..+..++.+.|++++|++.|+.+.+.+ +.+..++..+...+...|++++|...|+.+ ..  .|+..  ...
T Consensus        56 p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~-~~--~~~~~--~~~  129 (537)
T 3fp2_A           56 PNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASANESLGNFTDAMFDLSVL-SL--NGDFD--GAS  129 (537)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHH-C-------------
T ss_pred             CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHHcCCHHHHHHHHHHH-hc--CCCCC--hHH
Confidence            4577899999999999999999999999999876 457888999999999999999999999744 22  22221  112


Q ss_pred             HHHHHhcCChHHHHHHHhccc-------------------------------------CCch----hHHHHHHHHHh---
Q 047359           89 AQILCRSGKFEVVLGLLDSGI-------------------------------------YSSV----MYNLVIDFYSK---  124 (440)
Q Consensus        89 ~~~~~~~~~~~~a~~~~~~~~-------------------------------------~~~~----~~~~li~~~~~---  124 (440)
                      +..+...+....|...++++.                                     ....    ....+...+..   
T Consensus       130 ~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  209 (537)
T 3fp2_A          130 IEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNYDTAYALLSDALQRLYSATDE  209 (537)
T ss_dssp             --CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhccccccHHHHHHHHHHHHHHhhhh
Confidence            223333334445555554442                                     1111    12222222221   


Q ss_pred             -----cCChhHHHHHHHHHhcCCCCCCc--------hhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHH
Q 047359          125 -----KGDFGAAFDRLNEMCNGRNLTPG--------FSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYV  191 (440)
Q Consensus       125 -----~~~~~~a~~~~~~~~~~~~~~p~--------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l  191 (440)
                           .|++++|..+|+++.+   ..|+        ..++..+...+...|++++|...++.+.+..  |+  ...+..+
T Consensus       210 ~~~~a~~~~~~A~~~~~~~l~---~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~--~~--~~~~~~l  282 (537)
T 3fp2_A          210 GYLVANDLLTKSTDMYHSLLS---ANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINLH--PT--PNSYIFL  282 (537)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-----CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CC--HHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHH---HCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhcC--CC--chHHHHH
Confidence                 2588999999999987   4454        2346667778889999999999999999865  66  6788889


Q ss_pred             HHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCh
Q 047359          192 IQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQP  271 (440)
Q Consensus       192 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  271 (440)
                      ...+...|++++|...++++.+..+. +..++..+...+...|++++|...+++..+.... +...+..+...+...|++
T Consensus       283 ~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~g~~  360 (537)
T 3fp2_A          283 ALTLADKENSQEFFKFFQKAVDLNPE-YPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNPE-NVYPYIQLACLLYKQGKF  360 (537)
T ss_dssp             HHHTCCSSCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CSHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHhcCHHHHHHHHHHHhccCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCH
Confidence            99999999999999999999887654 6788999999999999999999999999987643 567888999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCC-----chhhhHHHHHHHHcC--------
Q 047359          272 EEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLL-----DSFCCSSLMEYYCSN--------  338 (440)
Q Consensus       272 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~--------  338 (440)
                      ++|...++.+.+.. +.+...+..+...+...|++++|...++++.+..+..     ....+......+...        
T Consensus       361 ~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~  439 (537)
T 3fp2_A          361 TESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQL  439 (537)
T ss_dssp             HHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----C
T ss_pred             HHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhh
Confidence            99999999998874 4456788899999999999999999999987653221     111233445667777        


Q ss_pred             --CcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhh
Q 047359          339 --RQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSS  396 (440)
Q Consensus       339 --~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  396 (440)
                        |++++|...++++.+..+. +...+..+...|.+.|++++|.+.|+++.+..+.+...
T Consensus       440 ~~~~~~~A~~~~~~a~~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~  498 (537)
T 3fp2_A          440 DEEKFNAAIKLLTKACELDPR-SEQAKIGLAQLKLQMEKIDEAIELFEDSAILARTMDEK  498 (537)
T ss_dssp             CHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CHHH
T ss_pred             hHhHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHH
Confidence              9999999999999987543 67889999999999999999999999999988775544

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.92  E-value=3.1e-21  Score=170.20  Aligned_cols=329  Identities=12%  Similarity=0.086  Sum_probs=223.2

Q ss_pred             ChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHhccc---C-CchhHHHHHHH
Q 047359           46 AVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGI---Y-SSVMYNLVIDF  121 (440)
Q Consensus        46 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~-~~~~~~~li~~  121 (440)
                      ++..+..+...+...|++++|...|+++.+.. +.+..++..+...+...|++++|...+++..   | +...+..+...
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~   80 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHL   80 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHH
Confidence            45667788888888999999999999987764 3467778888888888888888888888766   3 45667778888


Q ss_pred             HHhcCChhHHHHHHHHHhcCCCCCC---c-hhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhh
Q 047359          122 YSKKGDFGAAFDRLNEMCNGRNLTP---G-FSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSD  197 (440)
Q Consensus       122 ~~~~~~~~~a~~~~~~~~~~~~~~p---~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  197 (440)
                      +...|++++|...|++..+   ..|   + ...+..+.....                         ...+..+...+..
T Consensus        81 ~~~~~~~~~A~~~~~~~~~---~~~~~~~~~~~~~~l~~~~~-------------------------~~~~~~~a~~~~~  132 (359)
T 3ieg_A           81 LLKQGKLDEAEDDFKKVLK---SNPSEQEEKEAESQLVKADE-------------------------MQRLRSQALDAFD  132 (359)
T ss_dssp             HHHHTCHHHHHHHHHHHHT---SCCCHHHHHHHHHHHHHHHH-------------------------HHHHHHHHHHHHH
T ss_pred             HHHcCChHHHHHHHHHHHh---cCCcccChHHHHHHHHHHHH-------------------------HHHHHHHHHHHHH
Confidence            8888888888888888866   445   3 223333311000                         0111223445555


Q ss_pred             cCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHH
Q 047359          198 MGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGL  277 (440)
Q Consensus       198 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  277 (440)
                      .|++++|...++++.+..+. +...+..+...+...|++++|...++.+.+..+. +...+..+...+...|++++|...
T Consensus       133 ~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~  210 (359)
T 3ieg_A          133 GADYTAAITFLDKILEVCVW-DAELRELRAECFIKEGEPRKAISDLKAASKLKSD-NTEAFYKISTLYYQLGDHELSLSE  210 (359)
T ss_dssp             TTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSC-CHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHH
Confidence            56666666666655554332 4455555666666666666666666666554322 445555666666666666666666


Q ss_pred             HHHHHHcCCCCChhhH------------HHHHHHHHcCCCHHHHHHHHHHHHhcCCCCch----hhhHHHHHHHHcCCcH
Q 047359          278 LRDVVERGYIPCAMEL------------SRFVASQCGKGKWKEVEELLSAVLDKGLLLDS----FCCSSLMEYYCSNRQI  341 (440)
Q Consensus       278 ~~~~~~~~~~~~~~~~------------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~  341 (440)
                      ++...+.. +.+...+            ..+...+...|++++|...++++.+..+. +.    ..+..+...+...|++
T Consensus       211 ~~~a~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~la~~~~~~~~~  288 (359)
T 3ieg_A          211 VRECLKLD-QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPS-VAEYTVRSKERICHCFSKDEKP  288 (359)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhhC-ccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHHHHHccCH
Confidence            66665542 1112211            12355677889999999999998876543 22    2344577788999999


Q ss_pred             HHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcc
Q 047359          342 DKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLK  408 (440)
Q Consensus       342 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  408 (440)
                      ++|.+.+++..+..+. +..++..+...+...|++++|.+.|+++.+..|.++..+..+..+....+
T Consensus       289 ~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~~  354 (359)
T 3ieg_A          289 VEAIRICSEVLQMEPD-NVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNENDQQIREGLEKAQRLLK  354 (359)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHH
Confidence            9999999999886433 67889999999999999999999999999998888888777776655443

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.90  E-value=1.2e-19  Score=168.44  Aligned_cols=404  Identities=10%  Similarity=0.045  Sum_probs=296.8

Q ss_pred             CCChHhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHH
Q 047359            9 DSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLV   88 (440)
Q Consensus         9 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   88 (440)
                      +-|...|..++.. .+.|++++|..+|+++.+.. |.+...|...+..+.+.|++++|..+|+++++.  .|+...|...
T Consensus        10 P~~~~~w~~l~~~-~~~~~~~~a~~~~e~al~~~-P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~--~p~~~lw~~~   85 (530)
T 2ooe_A           10 PYDLDAWSILIRE-AQNQPIDKARKTYERLVAQF-PSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMK--VLHIDLWKCY   85 (530)
T ss_dssp             TTCHHHHHHHHHH-HHSSCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTT--CCCHHHHHHH
T ss_pred             CCCHHHHHHHHHH-HHhCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--CCChHHHHHH
Confidence            4467889999984 78999999999999999864 557788999999999999999999999999886  4687788777


Q ss_pred             HHHH-HhcCChHHHHH----HHhccc-------CCchhHHHHHHHHHh---------cCChhHHHHHHHHHhcCCCCCCc
Q 047359           89 AQIL-CRSGKFEVVLG----LLDSGI-------YSSVMYNLVIDFYSK---------KGDFGAAFDRLNEMCNGRNLTPG  147 (440)
Q Consensus        89 ~~~~-~~~~~~~~a~~----~~~~~~-------~~~~~~~~li~~~~~---------~~~~~~a~~~~~~~~~~~~~~p~  147 (440)
                      +... ...|+.+.|.+    +|++..       ++...|...+....+         .|++++|..+|++..+ ....+.
T Consensus        86 ~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~-~P~~~~  164 (530)
T 2ooe_A           86 LSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCV-NPMINI  164 (530)
T ss_dssp             HHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTT-SCCTTH
T ss_pred             HHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHh-chhhhH
Confidence            7533 45677776655    666543       345678777776655         7899999999999976 322211


Q ss_pred             hhhHHHHHHHH-------------HhcCChhhHHHHHHHHH------hcC---CCCcc------cccchHHHHHHHhhc-
Q 047359          148 FSTYSSILDGA-------------RRYEKTEVSDRIVGLMV------EKK---LLPKH------FLSGNDYVIQKLSDM-  198 (440)
Q Consensus       148 ~~~~~~l~~~~-------------~~~~~~~~a~~~~~~~~------~~~---~~~~~------~~~~~~~l~~~~~~~-  198 (440)
                      ...|.......             .+.++++.|..++....      +..   +.|+.      ....|...+...... 
T Consensus       165 ~~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~  244 (530)
T 2ooe_A          165 EQLWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNP  244 (530)
T ss_dssp             HHHHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCS
T ss_pred             HHHHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCC
Confidence            23443322211             12345667777666532      221   22321      012344333332221 


Q ss_pred             ---CcH----HHHHHHHHHHHhcCCCCCHHhHHHHHHHHhh-------hccHH-------HHHHHHHHHHHcCCCCChhh
Q 047359          199 ---GKT----YAAEMIFKRACDEKIELQDDTCGCMLKALSK-------EGRVK-------EAIQIYHLISERGITVRDSD  257 (440)
Q Consensus       199 ---~~~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~~-------~a~~~~~~~~~~~~~~~~~~  257 (440)
                         ++.    ..+..+|++.....+. ++..|..+...+.+       .|+++       +|..+|++..+.-.+.+...
T Consensus       245 ~~~~~~~~~~~~a~~~y~~al~~~p~-~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l  323 (530)
T 2ooe_A          245 LRTEDQTLITKRVMFAYEQCLLVLGH-HPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLL  323 (530)
T ss_dssp             SCCSCSHHHHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHH
T ss_pred             ccCCcchhHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHH
Confidence               232    4777889988876544 67888888888775       68877       89999999987322336788


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCh--hhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHH-
Q 047359          258 YYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCA--MELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEY-  334 (440)
Q Consensus       258 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-  334 (440)
                      |..++..+.+.|++++|..+++.+.+.  .|+.  ..|..++..+.+.|++++|.++|++..+.... +...+...... 
T Consensus       324 ~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~~-~~~~~~~~a~~~  400 (530)
T 2ooe_A          324 YFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALME  400 (530)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTTC-CTHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccCC-chHHHHHHHHHH
Confidence            899999999999999999999999985  4542  47888888888899999999999999876322 23333322222 


Q ss_pred             HHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchh----hHHHHHHHHHhcccH
Q 047359          335 YCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSS----SFVIVVSRLCHLKEL  410 (440)
Q Consensus       335 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~l~~~~~~~g~~  410 (440)
                      +...|+.++|..+|++..+..+. +...|..++..+.+.|+.++|..+|+++...++.++.    .|...+......|+.
T Consensus       401 ~~~~~~~~~A~~~~e~al~~~p~-~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~  479 (530)
T 2ooe_A          401 YYCSKDKSVAFKIFELGLKKYGD-IPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDL  479 (530)
T ss_dssp             HHHTCCHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCH
T ss_pred             HHHcCChhHHHHHHHHHHHHCCC-CHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCH
Confidence            34689999999999999987543 6789999999999999999999999999988655443    788888888899999


Q ss_pred             HHHHHHHHHHHH
Q 047359          411 RKAMKNHDEMLK  422 (440)
Q Consensus       411 ~~a~~~~~~m~~  422 (440)
                      +.+..+.+++.+
T Consensus       480 ~~~~~~~~r~~~  491 (530)
T 2ooe_A          480 ASILKVEKRRFT  491 (530)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999999887

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.90  E-value=1.2e-20  Score=164.55  Aligned_cols=291  Identities=12%  Similarity=0.007  Sum_probs=194.3

Q ss_pred             CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCC-chhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccch
Q 047359          110 YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTP-GFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGN  188 (440)
Q Consensus       110 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  188 (440)
                      .+...+..+...+...|++++|.++|+++.+   ..| +...+..++.++...|++++|...++++.+..  |++ ...+
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~---~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~-~~~~   93 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVME---KDPFHASCLPVHIGTLVELNKANELFYLSHKLVDLY--PSN-PVSW   93 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTS-THHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---cCCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC--cCC-HHHH
Confidence            5556667777777777777777777777765   223 33455556667777777777777777777653  332 5566


Q ss_pred             HHHHHHHhhcC-cHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 047359          189 DYVIQKLSDMG-KTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCK  267 (440)
Q Consensus       189 ~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  267 (440)
                      ..+...+...| ++++|...+++..+..+. +...|..+...+...|++++|...++++.+.... +...+..+...+..
T Consensus        94 ~~l~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~  171 (330)
T 3hym_B           94 FAVGCYYLMVGHKNEHARRYLSKATTLEKT-YGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKG-CHLPMLYIGLEYGL  171 (330)
T ss_dssp             HHHHHHHHHSCSCHHHHHHHHHHHHTTCTT-CTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTT-CSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccc-cHHHHHHHHHHHHH
Confidence            67777777777 777777777777765443 4556777777777777777777777777765433 34555567777777


Q ss_pred             cCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCC--------CCchhhhHHHHHHHHcCC
Q 047359          268 EHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGL--------LLDSFCCSSLMEYYCSNR  339 (440)
Q Consensus       268 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--------~~~~~~~~~l~~~~~~~~  339 (440)
                      .|++++|...++.+.+.. +.+...+..+...+...|++++|...++++.+...        ......+..+...|...|
T Consensus       172 ~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g  250 (330)
T 3hym_B          172 TNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLK  250 (330)
T ss_dssp             TTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTT
T ss_pred             HhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhc
Confidence            777777777777776653 33456666777777777777777777777765311        223456666777777777


Q ss_pred             cHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHH-HhcccH
Q 047359          340 QIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRL-CHLKEL  410 (440)
Q Consensus       340 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~~  410 (440)
                      ++++|...+++..+.... +...+..+...+.+.|++++|.+.++++.+..|.++..+..+..++ ...|+.
T Consensus       251 ~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~g~~  321 (330)
T 3hym_B          251 KYAEALDYHRQALVLIPQ-NASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTFSVTMLGHCIEMYIGDS  321 (330)
T ss_dssp             CHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSCCHHHHHHHHHHHHTTTTC-
T ss_pred             CHHHHHHHHHHHHhhCcc-chHHHHHHHHHHHHhccHHHHHHHHHHHHccCCCchHHHHHHHHHHHHHhCch
Confidence            777777777777765433 5566677777777777777777777777777666666777776666 344443

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.90  E-value=2.4e-20  Score=162.50  Aligned_cols=277  Identities=12%  Similarity=0.033  Sum_probs=197.4

Q ss_pred             CCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhH
Q 047359          144 LTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTC  223 (440)
Q Consensus       144 ~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  223 (440)
                      ...+...+..+...+...|++++|.++++++.+..  |++ ...+..++..+...|++++|...++++.+..+. +...+
T Consensus        18 ~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~--p~~-~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~   93 (330)
T 3hym_B           18 LQENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD--PFH-ASCLPVHIGTLVELNKANELFYLSHKLVDLYPS-NPVSW   93 (330)
T ss_dssp             --CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTC-TTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-STHHH
T ss_pred             chhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCC-hhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCcC-CHHHH
Confidence            34455566677777777788888888888777654  332 455666777777778888888888877776543 56677


Q ss_pred             HHHHHHHhhhc-cHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHc
Q 047359          224 GCMLKALSKEG-RVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCG  302 (440)
Q Consensus       224 ~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  302 (440)
                      ..+...+...| ++++|...|++..+.... +...+..+...+...|++++|...++.+.+.. +.+...+..+...+..
T Consensus        94 ~~l~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~  171 (330)
T 3hym_B           94 FAVGCYYLMVGHKNEHARRYLSKATTLEKT-YGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGL  171 (330)
T ss_dssp             HHHHHHHHHSCSCHHHHHHHHHHHHTTCTT-CTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHH
Confidence            77777777777 788888888877766533 45667777777778888888888888777653 2344556667777777


Q ss_pred             CCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccC--------CcCHHhHHHHHHHHHhcC
Q 047359          303 KGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKG--------SLDVATYDVLLDGLFKDG  374 (440)
Q Consensus       303 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--------~p~~~~~~~l~~~~~~~g  374 (440)
                      .|++++|...++++.+..+. +...+..+...+...|++++|...++++.+...        ..+..++..+...+...|
T Consensus       172 ~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g  250 (330)
T 3hym_B          172 TNNSKLAERFFSQALSIAPE-DPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLK  250 (330)
T ss_dssp             TTCHHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTT
T ss_pred             HhhHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhc
Confidence            78888888888877776543 566777777777888888888888877776421        223457777777788888


Q ss_pred             cHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCH
Q 047359          375 RMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDE  429 (440)
Q Consensus       375 ~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~  429 (440)
                      ++++|...++++.+..+.++.++..+...+.+.|++++|.+.++++.+  +.|+.
T Consensus       251 ~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--~~p~~  303 (330)
T 3hym_B          251 KYAEALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALG--LRRDD  303 (330)
T ss_dssp             CHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTT--TCSCC
T ss_pred             CHHHHHHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHc--cCCCc
Confidence            888888888888777777777777788888888888888888877766  34543

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.89  E-value=1.4e-18  Score=159.76  Aligned_cols=349  Identities=12%  Similarity=0.033  Sum_probs=183.5

Q ss_pred             hHhHHHHHHHHHc----cCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHh----ccchhHHHHHHHHHHHcCCCCChh
Q 047359           12 SDALSLVLDCYSH----KGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYR----QNEIRLASCLYGAMVRDGVSPNKF   83 (440)
Q Consensus        12 ~~~~~~li~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~   83 (440)
                      +..+..+-..|..    .+++++|+..|+...+.|   +...+..+...+..    .+++++|.+.|++..+.|   +..
T Consensus        39 ~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~  112 (490)
T 2xm6_A           39 AKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQ  112 (490)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHH
T ss_pred             HHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHH
Confidence            3444444444544    555666666666555542   34455555555555    555666666666655543   344


Q ss_pred             hHHHHHHHHHh----cCChHHHHHHHhccc--CCchhHHHHHHHHHh----cCChhHHHHHHHHHhcCCCCCCchhhHHH
Q 047359           84 TWSLVAQILCR----SGKFEVVLGLLDSGI--YSSVMYNLVIDFYSK----KGDFGAAFDRLNEMCNGRNLTPGFSTYSS  153 (440)
Q Consensus        84 ~~~~l~~~~~~----~~~~~~a~~~~~~~~--~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~p~~~~~~~  153 (440)
                      .+..|...|..    .+++++|...|++..  .+...+..+...|..    .+++++|++.|++..+ .+   +...+..
T Consensus       113 a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~-~~---~~~a~~~  188 (490)
T 2xm6_A          113 AQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAE-QG---NVWSCNQ  188 (490)
T ss_dssp             HHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH-TT---CHHHHHH
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHH-CC---CHHHHHH
Confidence            44555555555    455666666665544  334445555555554    4556666666665554 22   3444555


Q ss_pred             HHHHHHh----cCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhh----cCcHHHHHHHHHHHHhcCCCCCHHhHHH
Q 047359          154 ILDGARR----YEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSD----MGKTYAAEMIFKRACDEKIELQDDTCGC  225 (440)
Q Consensus       154 l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~  225 (440)
                      +...|..    .++.++|.+.+++..+.+   +  ...+..+...|..    .+++++|..+|++..+.+   +...+..
T Consensus       189 Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~--~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~  260 (490)
T 2xm6_A          189 LGYMYSRGLGVERNDAISAQWYRKSATSG---D--ELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFR  260 (490)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTT---C--HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHH
T ss_pred             HHHHHhcCCCCCcCHHHHHHHHHHHHHCC---C--HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHH
Confidence            5555554    555666666666555543   1  3344445555544    555666666666555432   2334444


Q ss_pred             HHHHHhh----hccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc-----CChHHHHHHHHHHHHcCCCCChhhHHHH
Q 047359          226 MLKALSK----EGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKE-----HQPEEVCGLLRDVVERGYIPCAMELSRF  296 (440)
Q Consensus       226 l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l  296 (440)
                      +...|..    .+++++|...|+...+.|   +...+..+...+...     +++++|...++...+.+   +...+..+
T Consensus       261 lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~l  334 (490)
T 2xm6_A          261 LGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQANL  334 (490)
T ss_dssp             HHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             HHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHH
Confidence            4444444    555666666666555543   233444455555444     55666666666555543   22344444


Q ss_pred             HHHHHcCC---CHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHc----CCcHHHHHHHHHHHHhccCCcCHHhHHHHHHH
Q 047359          297 VASQCGKG---KWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCS----NRQIDKAIALHIKIEKLKGSLDVATYDVLLDG  369 (440)
Q Consensus       297 ~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  369 (440)
                      ...|...|   ++++|.+.+++..+.+   +...+..+...|..    .+++++|.+.|++..+.+   +...+..|...
T Consensus       335 g~~y~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~---~~~a~~~Lg~~  408 (490)
T 2xm6_A          335 GAIYFRLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG---LSAAQVQLGEI  408 (490)
T ss_dssp             HHHHHHSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHH
T ss_pred             HHHHHhCCCcccHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC---CHHHHHHHHHH
Confidence            44444433   4555666666555542   34455555555555    556666666666655543   34455555555


Q ss_pred             HHh----cCcHHHHHHHHHHHHHcC
Q 047359          370 LFK----DGRMEEAVRIFDYMKELK  390 (440)
Q Consensus       370 ~~~----~g~~~~a~~~~~~~~~~~  390 (440)
                      |..    .++.++|...|++..+.+
T Consensus       409 y~~g~g~~~d~~~A~~~~~~A~~~~  433 (490)
T 2xm6_A          409 YYYGLGVERDYVQAWAWFDTASTND  433 (490)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHHH
T ss_pred             HHcCCCCCCCHHHHHHHHHHHHHCC
Confidence            555    556666666666665555

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.89  E-value=5.3e-18  Score=155.90  Aligned_cols=364  Identities=10%  Similarity=0.010  Sum_probs=304.5

Q ss_pred             chHHHHHHHHHhcCCccChHhHHHHHHHHHh----ccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHh----cCChHH
Q 047359           29 MDGLEVYRMMRVYGFVPAVSACNALLDALYR----QNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCR----SGKFEV  100 (440)
Q Consensus        29 ~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~  100 (440)
                      ..+++.++...+.   .+...+..+...+..    .+++++|...|++..+.|   +...+..|...|..    .++.++
T Consensus        24 ~~~~~~~~~~a~~---g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~   97 (490)
T 2xm6_A           24 NVNLEQLKQKAES---GEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQ   97 (490)
T ss_dssp             -CCHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHH
T ss_pred             hHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHH
Confidence            4456666666664   477788888888887    899999999999998864   56788889999998    899999


Q ss_pred             HHHHHhccc--CCchhHHHHHHHHHh----cCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHh----cCChhhHHHH
Q 047359          101 VLGLLDSGI--YSSVMYNLVIDFYSK----KGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARR----YEKTEVSDRI  170 (440)
Q Consensus       101 a~~~~~~~~--~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~  170 (440)
                      |.+.|++..  .+...+..|...|..    .+++++|...|++..+ .+   +...+..+...|..    .+++++|.+.
T Consensus        98 A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~-~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~  173 (490)
T 2xm6_A           98 AVIWYKKAALKGLPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAE-QG---RDSGQQSMGDAYFEGDGVTRDYVMAREW  173 (490)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH-TT---CHHHHHHHHHHHHHTSSSCCCHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHH-CC---CHHHHHHHHHHHHcCCCCCCCHHHHHHH
Confidence            999999977  566778888888988    8899999999999987 43   45677778888877    7899999999


Q ss_pred             HHHHHhcCCCCcccccchHHHHHHHhh----cCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhh----hccHHHHHHH
Q 047359          171 VGLMVEKKLLPKHFLSGNDYVIQKLSD----MGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSK----EGRVKEAIQI  242 (440)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~  242 (440)
                      |++..+.+   +  ...+..+...|..    .++.++|.+.|++..+.+   +...+..+...|..    .+++++|..+
T Consensus       174 ~~~a~~~~---~--~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~  245 (490)
T 2xm6_A          174 YSKAAEQG---N--VWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVL  245 (490)
T ss_dssp             HHHHHHTT---C--HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHH
T ss_pred             HHHHHHCC---C--HHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHH
Confidence            99998864   3  6678888888888    899999999999998864   56677778888876    7899999999


Q ss_pred             HHHHHHcCCCCChhhHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcC-----CCHHHHHHHH
Q 047359          243 YHLISERGITVRDSDYYAFVNVLCK----EHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGK-----GKWKEVEELL  313 (440)
Q Consensus       243 ~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----~~~~~a~~~~  313 (440)
                      |++..+.+   +...+..+...+..    .+++++|..+++...+.+   +...+..+...|...     +++++|...+
T Consensus       246 ~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~  319 (490)
T 2xm6_A          246 FSQSAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWY  319 (490)
T ss_dssp             HHHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHH
T ss_pred             HHHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHH
Confidence            99998875   44566777777777    899999999999998765   445667777777776     8999999999


Q ss_pred             HHHHhcCCCCchhhhHHHHHHHHcCC---cHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHh----cCcHHHHHHHHHHH
Q 047359          314 SAVLDKGLLLDSFCCSSLMEYYCSNR---QIDKAIALHIKIEKLKGSLDVATYDVLLDGLFK----DGRMEEAVRIFDYM  386 (440)
Q Consensus       314 ~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~  386 (440)
                      ++..+.+   +...+..+...|...|   +.++|.+.|++..+.+   +...+..|...|..    .++.++|.+.|++.
T Consensus       320 ~~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A  393 (490)
T 2xm6_A          320 TKSAEQG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNALLQGKGVKKDEQQAAIWMRKA  393 (490)
T ss_dssp             HHHHHTT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHH
T ss_pred             HHHHhcC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHH
Confidence            9998875   4566777877887766   8999999999999863   67788899999988    89999999999999


Q ss_pred             HHcCCCchhhHHHHHHHHHh----cccHHHHHHHHHHHHHCC
Q 047359          387 KELKVVSSSSFVIVVSRLCH----LKELRKAMKNHDEMLKMG  424 (440)
Q Consensus       387 ~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~  424 (440)
                      .+.+  ++.++..+...|..    .++.++|...|++..+.+
T Consensus       394 ~~~~--~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~  433 (490)
T 2xm6_A          394 AEQG--LSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTND  433 (490)
T ss_dssp             HHTT--CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHH
T ss_pred             HhCC--CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC
Confidence            9875  67888999999988    899999999999999865

>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=99.89  E-value=7.1e-21  Score=168.62  Aligned_cols=297  Identities=12%  Similarity=-0.004  Sum_probs=177.8

Q ss_pred             cCChHHHHH-HHhccc---C-----CchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCC-chhhHHHHHHHHHhcCCh
Q 047359           95 SGKFEVVLG-LLDSGI---Y-----SSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTP-GFSTYSSILDGARRYEKT  164 (440)
Q Consensus        95 ~~~~~~a~~-~~~~~~---~-----~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~  164 (440)
                      .|++++|.. .+++..   |     +...+..+...+.+.|++++|...|+++.+   ..| +...+..+..++.+.|++
T Consensus        38 ~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~l~~~~~~~g~~  114 (368)
T 1fch_A           38 LSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQ---QDPKHMEAWQYLGTTQAENEQE  114 (368)
T ss_dssp             --------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHH---SCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHCcCH
Confidence            355555555 555433   1     223355555555555555555555555554   222 233455555555555555


Q ss_pred             hhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHH
Q 047359          165 EVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYH  244 (440)
Q Consensus       165 ~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  244 (440)
                      ++|...++++.+..  |+. ..++..+...+...|++++|...++++....+.. ...+..+.       .....     
T Consensus       115 ~~A~~~~~~al~~~--~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~~-------~~~~~-----  178 (368)
T 1fch_A          115 LLAISALRRCLELK--PDN-QTALMALAVSFTNESLQRQACEILRDWLRYTPAY-AHLVTPAE-------EGAGG-----  178 (368)
T ss_dssp             HHHHHHHHHHHHHC--TTC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTT-GGGCC--------------------
T ss_pred             HHHHHHHHHHHhcC--CCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCc-HHHHHHHH-------HHhhh-----
Confidence            55555555555433  221 3444445555555555555555555554433221 11111000       00000     


Q ss_pred             HHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-ChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCC
Q 047359          245 LISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIP-CAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLL  323 (440)
Q Consensus       245 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  323 (440)
                            ..+ ...+. .+..+...|++++|...++.+.+..... +..++..+...+...|++++|...++++....+. 
T Consensus       179 ------~~~-~~~~~-~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~-  249 (368)
T 1fch_A          179 ------AGL-GPSKR-ILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPN-  249 (368)
T ss_dssp             --------------C-TTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-
T ss_pred             ------hcc-cHHHH-HHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-
Confidence                  000 00001 1223337788888888888887754211 4667778888888888888888888888776433 


Q ss_pred             chhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc----------
Q 047359          324 DSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVS----------  393 (440)
Q Consensus       324 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~----------  393 (440)
                      +...+..+...+...|++++|...++++.+..+. +...+..+..+|.+.|++++|...|+++.+..+.+          
T Consensus       250 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  328 (368)
T 1fch_A          250 DYLLWNKLGATLANGNQSEEAVAAYRRALELQPG-YIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAM  328 (368)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCC
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccch
Confidence            5678888888889999999999999988876432 67788888999999999999999999888766554          


Q ss_pred             -hhhHHHHHHHHHhcccHHHHHHHHHHH
Q 047359          394 -SSSFVIVVSRLCHLKELRKAMKNHDEM  420 (440)
Q Consensus       394 -~~~~~~l~~~~~~~g~~~~a~~~~~~m  420 (440)
                       ..+|..+..++...|++++|..++++.
T Consensus       329 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~  356 (368)
T 1fch_A          329 SENIWSTLRLALSMLGQSDAYGAADARD  356 (368)
T ss_dssp             CHHHHHHHHHHHHHHTCGGGHHHHHTTC
T ss_pred             hhHHHHHHHHHHHHhCChHhHHHhHHHH
Confidence             788999999999999999998887643

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.88  E-value=1.4e-18  Score=161.29  Aligned_cols=380  Identities=11%  Similarity=0.057  Sum_probs=279.0

Q ss_pred             HHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHhccc---CC
Q 047359           35 YRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGI---YS  111 (440)
Q Consensus        35 ~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~  111 (440)
                      |+...+.. +-+...|..++. +.+.|++++|..+|+++.+.. +.+...|..++..+.+.|++++|..+|++..   |+
T Consensus         2 le~al~~~-P~~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~~-P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~p~   78 (530)
T 2ooe_A            2 AEKKLEEN-PYDLDAWSILIR-EAQNQPIDKARKTYERLVAQF-PSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKVLH   78 (530)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHH-HHHSSCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTCCC
T ss_pred             hhhHhhhC-CCCHHHHHHHHH-HHHhCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Confidence            45555554 457889999998 478899999999999998863 4467789999999999999999999999987   87


Q ss_pred             chhHHHHHHHH-HhcCChhHHHH----HHHHHhcCCCCCC-chhhHHHHHHHHHh---------cCChhhHHHHHHHHHh
Q 047359          112 SVMYNLVIDFY-SKKGDFGAAFD----RLNEMCNGRNLTP-GFSTYSSILDGARR---------YEKTEVSDRIVGLMVE  176 (440)
Q Consensus       112 ~~~~~~li~~~-~~~~~~~~a~~----~~~~~~~~~~~~p-~~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~~  176 (440)
                      ...|..++... ...|+.++|.+    +|++.....|..| +...|...+.....         .|+++.|..+|++.++
T Consensus        79 ~~lw~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~  158 (530)
T 2ooe_A           79 IDLWKCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCV  158 (530)
T ss_dssp             HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTT
T ss_pred             hHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHh
Confidence            77777777533 45688877765    7777665345554 45577777766554         6889999999999988


Q ss_pred             cCCCCccc-ccchHHHHHHH-------------hhcCcHHHHHHHHHHH------HhcC---CCCC--------HHhHHH
Q 047359          177 KKLLPKHF-LSGNDYVIQKL-------------SDMGKTYAAEMIFKRA------CDEK---IELQ--------DDTCGC  225 (440)
Q Consensus       177 ~~~~~~~~-~~~~~~l~~~~-------------~~~~~~~~a~~~~~~~------~~~~---~~~~--------~~~~~~  225 (440)
                      .   |... ...|.......             ...+++..|..++...      .+..   +.|+        ...|..
T Consensus       159 ~---P~~~~~~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~  235 (530)
T 2ooe_A          159 N---PMINIEQLWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKK  235 (530)
T ss_dssp             S---CCTTHHHHHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHH
T ss_pred             c---hhhhHHHHHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHH
Confidence            3   3310 22332222211             1345677787777663      2221   2333        235555


Q ss_pred             HHHHHhhh----ccH----HHHHHHHHHHHHcCCCCChhhHHHHHHHHHh-------cCChH-------HHHHHHHHHHH
Q 047359          226 MLKALSKE----GRV----KEAIQIYHLISERGITVRDSDYYAFVNVLCK-------EHQPE-------EVCGLLRDVVE  283 (440)
Q Consensus       226 l~~~~~~~----~~~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~~-------~a~~~~~~~~~  283 (440)
                      .+......    ++.    +.+..+|++.....+ .+...|..++..+.+       .|+++       +|..+++...+
T Consensus       236 ~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~p-~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~  314 (530)
T 2ooe_A          236 YIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVLG-HHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAIS  314 (530)
T ss_dssp             HHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHcCCccCCcchhHHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHH
Confidence            54332221    222    477889999888643 367788888887775       68987       89999999986


Q ss_pred             cCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCc-hhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHh
Q 047359          284 RGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLD-SFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVAT  362 (440)
Q Consensus       284 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~  362 (440)
                      .-.+.+...+..++..+.+.|++++|..+|+++.+..+. + ...|..++..+.+.|+.++|.++|++..+.... +...
T Consensus       315 ~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~~-~~~~  392 (530)
T 2ooe_A          315 TLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHV  392 (530)
T ss_dssp             TTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSS-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTTC-CTHH
T ss_pred             HhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCcccc-CchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccCC-chHH
Confidence            323446778889999999999999999999999986332 3 257888888888999999999999999986322 3333


Q ss_pred             HHHHHHH-HHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHC
Q 047359          363 YDVLLDG-LFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKM  423 (440)
Q Consensus       363 ~~~l~~~-~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  423 (440)
                      |...... +...|+.++|..+|++..+..|.++..|..++..+.+.|+.++|..+|++.+..
T Consensus       393 ~~~~a~~~~~~~~~~~~A~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~  454 (530)
T 2ooe_A          393 YVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTS  454 (530)
T ss_dssp             HHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhc
Confidence            3333222 346899999999999999998889999999999999999999999999999985

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.87  E-value=1e-19  Score=161.21  Aligned_cols=304  Identities=8%  Similarity=-0.066  Sum_probs=213.5

Q ss_pred             HHHhccchhHHHH-HHHHHHHcCC-CC--ChhhHHHHHHHHHhcCChHHHHHHHhccc----CCchhHHHHHHHHHhcCC
Q 047359           56 ALYRQNEIRLASC-LYGAMVRDGV-SP--NKFTWSLVAQILCRSGKFEVVLGLLDSGI----YSSVMYNLVIDFYSKKGD  127 (440)
Q Consensus        56 ~~~~~~~~~~a~~-~~~~~~~~~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~li~~~~~~~~  127 (440)
                      .+...|++++|.+ .+++..+... .|  +...+..+...+.+.|++++|...|+++.    .+..++..+..++...|+
T Consensus        34 ~~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~  113 (368)
T 1fch_A           34 AHPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQ  113 (368)
T ss_dssp             ------------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTC
T ss_pred             hhHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcC
Confidence            4556688999998 8887654321 11  35668889999999999999999999987    456678999999999999


Q ss_pred             hhHHHHHHHHHhcCCCCCC-chhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHH
Q 047359          128 FGAAFDRLNEMCNGRNLTP-GFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEM  206 (440)
Q Consensus       128 ~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  206 (440)
                      +++|.+.|+++.+   ..| +..++..+..++...|++++|...++++.+..  |+. ...+..+...       ...  
T Consensus       114 ~~~A~~~~~~al~---~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~-~~~~~~~~~~-------~~~--  178 (368)
T 1fch_A          114 ELLAISALRRCLE---LKPDNQTALMALAVSFTNESLQRQACEILRDWLRYT--PAY-AHLVTPAEEG-------AGG--  178 (368)
T ss_dssp             HHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS--TTT-GGGCC-----------------
T ss_pred             HHHHHHHHHHHHh---cCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cCc-HHHHHHHHHH-------hhh--
Confidence            9999999999987   334 56788999999999999999999999999865  432 2222111000       000  


Q ss_pred             HHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCC-ChhhHHHHHHHHHhcCChHHHHHHHHHHHHcC
Q 047359          207 IFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITV-RDSDYYAFVNVLCKEHQPEEVCGLLRDVVERG  285 (440)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  285 (440)
                               ..+ ...+..+...+ ..|++++|...++++.+..+.. +..++..+...+...|++++|...++.+.+..
T Consensus       179 ---------~~~-~~~~~~~~~~~-~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  247 (368)
T 1fch_A          179 ---------AGL-GPSKRILGSLL-SDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR  247 (368)
T ss_dssp             -----------------CTTHHHH-HHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             ---------hcc-cHHHHHHHHHh-hcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence                     000 01111222223 7788888888888887764332 46677778888888888888888888887753


Q ss_pred             CCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCc-------
Q 047359          286 YIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSL-------  358 (440)
Q Consensus       286 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p-------  358 (440)
                       +.+...+..+...+...|++++|...++++.+..+. +...+..+..+|...|++++|...++++.+.....       
T Consensus       248 -~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  325 (368)
T 1fch_A          248 -PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPG-YIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEG  325 (368)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------C
T ss_pred             -cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccc
Confidence             345667888888888888888888888888776433 56778888888888999999999888887653321       


Q ss_pred             ---CHHhHHHHHHHHHhcCcHHHHHHHHHHHH
Q 047359          359 ---DVATYDVLLDGLFKDGRMEEAVRIFDYMK  387 (440)
Q Consensus       359 ---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  387 (440)
                         ...+|..+..+|...|+.++|..++++..
T Consensus       326 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l  357 (368)
T 1fch_A          326 GAMSENIWSTLRLALSMLGQSDAYGAADARDL  357 (368)
T ss_dssp             CCCCHHHHHHHHHHHHHHTCGGGHHHHHTTCH
T ss_pred             cchhhHHHHHHHHHHHHhCChHhHHHhHHHHH
Confidence               15788889999999999999988876443

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.87  E-value=1e-18  Score=160.21  Aligned_cols=368  Identities=12%  Similarity=-0.004  Sum_probs=245.5

Q ss_pred             cChHhHHHHHHHHHhccchhHHHHHHHHHHHc--------CCCCChhhHHHHHHHHHhcCChHHHHHHHhccc-------
Q 047359           45 PAVSACNALLDALYRQNEIRLASCLYGAMVRD--------GVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGI-------  109 (440)
Q Consensus        45 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-------  109 (440)
                      .....||.+...+...|++++|++.|++..+.        ..+....+|+.+..+|...|++++|...+++..       
T Consensus        49 ~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~  128 (472)
T 4g1t_A           49 FKATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFS  128 (472)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSC
T ss_pred             hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcc
Confidence            34567888989999999999999999877542        112235678889999999999999998887754       


Q ss_pred             -----CCchhHHHHHHHHHh--cCChhHHHHHHHHHhcCCCCCCchh-hHHHHHHH---HHhcCChhhHHHHHHHHHhcC
Q 047359          110 -----YSSVMYNLVIDFYSK--KGDFGAAFDRLNEMCNGRNLTPGFS-TYSSILDG---ARRYEKTEVSDRIVGLMVEKK  178 (440)
Q Consensus       110 -----~~~~~~~~li~~~~~--~~~~~~a~~~~~~~~~~~~~~p~~~-~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~  178 (440)
                           ....++..+..++..  .+++++|++.|++..+   +.|+.. .+..+..+   +...++.++|++.+++.++..
T Consensus       129 ~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~---~~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~  205 (472)
T 4g1t_A          129 SPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALE---KKPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN  205 (472)
T ss_dssp             CSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHH---HSTTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC
T ss_pred             cccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC
Confidence                 122345555555554  3578999999999877   556533 44444333   445677888999998888754


Q ss_pred             CCCcccccchHHHHHHHhh----cCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCC
Q 047359          179 LLPKHFLSGNDYVIQKLSD----MGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVR  254 (440)
Q Consensus       179 ~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  254 (440)
                        |+. ...+..+...+..    .+++++|.+.+++.....+. +..++..+...|...|++++|...+++..+..+. +
T Consensus       206 --p~~-~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~  280 (472)
T 4g1t_A          206 --PDN-QYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPG-VTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPN-N  280 (472)
T ss_dssp             --SSC-HHHHHHHHHHHHHCC------CHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-C
T ss_pred             --Ccc-hHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCcc-HHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCC-h
Confidence              442 4455555444443    46778899999988877654 6778888999999999999999999999887543 4


Q ss_pred             hhhHHHHHHHHHhc-------------------CChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHH
Q 047359          255 DSDYYAFVNVLCKE-------------------HQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSA  315 (440)
Q Consensus       255 ~~~~~~l~~~~~~~-------------------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  315 (440)
                      ..++..+..+|...                   +.+++|...++...+.. +.+...+..+...+...|++++|+..|++
T Consensus       281 ~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~k  359 (472)
T 4g1t_A          281 AYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQK  359 (472)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHH
Confidence            55666555554321                   23567777888877654 44567788899999999999999999999


Q ss_pred             HHhcCCCCchh--hhHHHHH-HHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC
Q 047359          316 VLDKGLLLDSF--CCSSLME-YYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV  392 (440)
Q Consensus       316 ~~~~~~~~~~~--~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  392 (440)
                      ..+..+.+...  .+..+.. .....|+.++|+..|.+..+.  .|+....         .+....+.+++++..+.+|.
T Consensus       360 aL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i--~~~~~~~---------~~~~~~l~~~~~~~l~~~p~  428 (472)
T 4g1t_A          360 EFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKI--NQKSREK---------EKMKDKLQKIAKMRLSKNGA  428 (472)
T ss_dssp             HHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHS--CCCCHHH---------HHHHHHHHHHHHHHHHHCC-
T ss_pred             HHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CcccHHH---------HHHHHHHHHHHHHHHHhCCC
Confidence            98875543322  2222222 245789999999999999874  4443322         22345566778888888888


Q ss_pred             chhhHHHHHHHHHhcccHHHHHHHHHHHHHCC-CCCCHHHH
Q 047359          393 SSSSFVIVVSRLCHLKELRKAMKNHDEMLKMG-HKPDEATY  432 (440)
Q Consensus       393 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~-~~p~~~t~  432 (440)
                      ++.+|..+...|...|++++|++.|++.++.+ ..|+..+|
T Consensus       429 ~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~  469 (472)
T 4g1t_A          429 DSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSW  469 (472)
T ss_dssp             CTTHHHHHHHHHHHHHHCC----------------------
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhc
Confidence            99999999999999999999999999998843 45555544

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.86  E-value=2.1e-19  Score=158.98  Aligned_cols=264  Identities=9%  Similarity=-0.040  Sum_probs=174.9

Q ss_pred             hHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHH
Q 047359          150 TYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKA  229 (440)
Q Consensus       150 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  229 (440)
                      .+..+...+.+.|++++|...|+++.+..  |+. ..++..+...+...|++++|...|+++.+..+. +..++..+..+
T Consensus        67 ~~~~~~~~~~~~g~~~~A~~~~~~al~~~--p~~-~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~  142 (365)
T 4eqf_A           67 GAFEEGLKRLKEGDLPVTILFMEAAILQD--PGD-AEAWQFLGITQAENENEQAAIVALQRCLELQPN-NLKALMALAVS  142 (365)
T ss_dssp             THHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC--cCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHH
Confidence            34555555555555555555555555543  222 445555556666666666666666665554332 45566666666


Q ss_pred             HhhhccHHHHHHHHHHHHHcCCCC---------ChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-CChhhHHHHHHH
Q 047359          230 LSKEGRVKEAIQIYHLISERGITV---------RDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYI-PCAMELSRFVAS  299 (440)
Q Consensus       230 ~~~~~~~~~a~~~~~~~~~~~~~~---------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~  299 (440)
                      |...|++++|...++++.+.....         ....+..+...+...|++++|...++.+.+.... ++..++..+...
T Consensus       143 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~  222 (365)
T 4eqf_A          143 YTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVL  222 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHH
T ss_pred             HHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHH
Confidence            666666666666666665543110         1122334466777788888888888888776421 156677888888


Q ss_pred             HHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHH
Q 047359          300 QCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEA  379 (440)
Q Consensus       300 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a  379 (440)
                      +...|++++|...++++.+..+. +..++..+..+|...|++++|...++++.+..+. +..++..+..+|.+.|++++|
T Consensus       223 ~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A  300 (365)
T 4eqf_A          223 FHLSGEFNRAIDAFNAALTVRPE-DYSLWNRLGATLANGDRSEEAVEAYTRALEIQPG-FIRSRYNLGISCINLGAYREA  300 (365)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHCCCHHHH
Confidence            88888888888888888776543 6778888888888999999999999888876433 577888888899999999999


Q ss_pred             HHHHHHHHHcCCC------------chhhHHHHHHHHHhcccHHHHHHHHHH
Q 047359          380 VRIFDYMKELKVV------------SSSSFVIVVSRLCHLKELRKAMKNHDE  419 (440)
Q Consensus       380 ~~~~~~~~~~~~~------------~~~~~~~l~~~~~~~g~~~~a~~~~~~  419 (440)
                      ...|+++.+..+.            +..+|..+..++...|+.+.+..+.++
T Consensus       301 ~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          301 VSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            9999988776544            357888999999999999888877655

>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=99.85  E-value=8e-20  Score=158.36  Aligned_cols=280  Identities=15%  Similarity=0.068  Sum_probs=127.0

Q ss_pred             ccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHH
Q 047359           24 HKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLG  103 (440)
Q Consensus        24 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  103 (440)
                      +.|++++|.+.++++..      +.+|..+..++.+.|++++|.+.|.+.      +|..+|..++..+...|++++|+.
T Consensus        15 ~~~~ld~A~~fae~~~~------~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~   82 (449)
T 1b89_A           15 HIGNLDRAYEFAERCNE------PAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVK   82 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCCC------hHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHH
Confidence            56778999999988832      248889999999999999999999652      567788888999999999999999


Q ss_pred             HHhccc---CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCC
Q 047359          104 LLDSGI---YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLL  180 (440)
Q Consensus       104 ~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  180 (440)
                      .++...   +++.+.+.++.+|.+.|+++++.++++        .|+..+|..+...|...|.+++|...|..+      
T Consensus        83 yl~~ark~~~~~~i~~~Li~~Y~Klg~l~e~e~f~~--------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a------  148 (449)
T 1b89_A           83 YLQMARKKARESYVETELIFALAKTNRLAELEEFIN--------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV------  148 (449)
T ss_dssp             --------------------------CHHHHTTTTT--------CC----------------CTTTHHHHHHHT------
T ss_pred             HHHHHHHhCccchhHHHHHHHHHHhCCHHHHHHHHc--------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh------
Confidence            777666   556778889999999999988876663        266678999999999999999999999854      


Q ss_pred             CcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHH
Q 047359          181 PKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYA  260 (440)
Q Consensus       181 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  260 (440)
                           ..|..++.++.+.|++++|.+.+.++      .++.+|..++.+|...|+++.|......+.     ..+.....
T Consensus       149 -----~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-----~~ad~l~~  212 (449)
T 1b89_A          149 -----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-----VHADELEE  212 (449)
T ss_dssp             -----TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-----TCHHHHHH
T ss_pred             -----hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-----hCHhhHHH
Confidence                 46888999999999999999999888      267899999999999999999966554322     23333556


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHh-cCCCC------chhhhHHHHH
Q 047359          261 FVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLD-KGLLL------DSFCCSSLME  333 (440)
Q Consensus       261 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~------~~~~~~~l~~  333 (440)
                      ++..|.+.|.+++|..+++...... +.....|+.+..+|++- ++++.++.++.... .+++|      +...|..+..
T Consensus       213 lv~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky-~p~k~~ehl~~~~~~ini~k~~~~~~~~~~w~e~~~  290 (449)
T 1b89_A          213 LINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVF  290 (449)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTT-CHHHHHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhc-CHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHH
Confidence            8888999999999999999888654 45566777777777764 34444444333221 22222      4667888888


Q ss_pred             HHHcCCcHHHHHHH
Q 047359          334 YYCSNRQIDKAIAL  347 (440)
Q Consensus       334 ~~~~~~~~~~a~~~  347 (440)
                      .|...++++.|...
T Consensus       291 ly~~~~e~d~A~~t  304 (449)
T 1b89_A          291 LYDKYEEYDNAIIT  304 (449)
T ss_dssp             HHHHTTCHHHHHHH
T ss_pred             HHHhhchHHHHHHH
Confidence            88899999988764

>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=99.85  E-value=3.3e-19  Score=155.06  Aligned_cols=264  Identities=8%  Similarity=-0.074  Sum_probs=174.1

Q ss_pred             hHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHH
Q 047359          150 TYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKA  229 (440)
Q Consensus       150 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  229 (440)
                      .+..+...+...|++++|...++++.+..  |+. ...+..+...+...|++++|...++++.+..+. +..++..+...
T Consensus        23 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~   98 (327)
T 3cv0_A           23 NPMEEGLSMLKLANLAEAALAFEAVCQAA--PER-EEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVS   98 (327)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcC-CHHHHHHHHHH
Confidence            34444445555555555555555555433  221 444555555555555555555555555554332 44455555555


Q ss_pred             HhhhccHHHHHHHHHHHHHcCCCCChhhHHHH--------------HH-HHHhcCChHHHHHHHHHHHHcCCCCChhhHH
Q 047359          230 LSKEGRVKEAIQIYHLISERGITVRDSDYYAF--------------VN-VLCKEHQPEEVCGLLRDVVERGYIPCAMELS  294 (440)
Q Consensus       230 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l--------------~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  294 (440)
                      +...|++++|...++++.+.... +...+..+              .. .+...|++++|...++.+.+.. +.+...+.
T Consensus        99 ~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  176 (327)
T 3cv0_A           99 HTNEHNANAALASLRAWLLSQPQ-YEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHA  176 (327)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTSTT-TTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHH
Confidence            66666666666666665554322 11222222              22 2556677788888887777654 33566777


Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcC
Q 047359          295 RFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDG  374 (440)
Q Consensus       295 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g  374 (440)
                      .+...+...|++++|...++++.+..+. +...+..+...+...|++++|...++++.+.... +...+..+...+.+.|
T Consensus       177 ~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~g  254 (327)
T 3cv0_A          177 SLGVLYNLSNNYDSAAANLRRAVELRPD-DAQLWNKLGATLANGNRPQEALDAYNRALDINPG-YVRVMYNMAVSYSNMS  254 (327)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhc
Confidence            7777888888888888888888776433 5677888888888888888888888888876433 5678888888888999


Q ss_pred             cHHHHHHHHHHHHHcCCC------------chhhHHHHHHHHHhcccHHHHHHHHHHHH
Q 047359          375 RMEEAVRIFDYMKELKVV------------SSSSFVIVVSRLCHLKELRKAMKNHDEML  421 (440)
Q Consensus       375 ~~~~a~~~~~~~~~~~~~------------~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  421 (440)
                      ++++|.+.++++.+..+.            ++.++..+..++.+.|++++|..++++..
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            999999999888877766            67788889999999999999988887544

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.85  E-value=1.8e-19  Score=159.41  Aligned_cols=267  Identities=9%  Similarity=-0.074  Sum_probs=203.4

Q ss_pred             CchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCC-chhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchH
Q 047359          111 SSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTP-GFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGND  189 (440)
Q Consensus       111 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  189 (440)
                      +...+..+...+.+.|++++|...|+++.+   ..| +..++..+..++.+.|++++|...|+++.+..  |+. ..++.
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~-~~~~~  137 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAIL---QDPGDAEAWQFLGITQAENENEQAAIVALQRCLELQ--PNN-LKALM  137 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTC-HHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCC-HHHHH
Confidence            344577777888888888888888888876   233 45677788888888888888888888887754  432 66777


Q ss_pred             HHHHHHhhcCcHHHHHHHHHHHHhcCCCC---------CHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCC-CChhhHH
Q 047359          190 YVIQKLSDMGKTYAAEMIFKRACDEKIEL---------QDDTCGCMLKALSKEGRVKEAIQIYHLISERGIT-VRDSDYY  259 (440)
Q Consensus       190 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~  259 (440)
                      .+...|...|++++|...++++.+..+..         ....+..+...+...|++++|...++++.+..+. ++..++.
T Consensus       138 ~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~  217 (365)
T 4eqf_A          138 ALAVSYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQT  217 (365)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHH
T ss_pred             HHHHHHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHH
Confidence            88888888888888888888887653220         1223334577888999999999999999887543 2577888


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCC
Q 047359          260 AFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNR  339 (440)
Q Consensus       260 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  339 (440)
                      .+...+...|++++|...++.+.+.. +.+..++..+...+...|++++|...++++.+..+. +...+..+..+|...|
T Consensus       218 ~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g  295 (365)
T 4eqf_A          218 GLGVLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPG-FIRSRYNLGISCINLG  295 (365)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHCC
Confidence            89999999999999999999998864 446778999999999999999999999999887543 5778889999999999


Q ss_pred             cHHHHHHHHHHHHhccCC-----------cCHHhHHHHHHHHHhcCcHHHHHHHHHH
Q 047359          340 QIDKAIALHIKIEKLKGS-----------LDVATYDVLLDGLFKDGRMEEAVRIFDY  385 (440)
Q Consensus       340 ~~~~a~~~~~~~~~~~~~-----------p~~~~~~~l~~~~~~~g~~~~a~~~~~~  385 (440)
                      ++++|...++++.+....           .+...|..+..++...|+.+.+.++.++
T Consensus       296 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          296 AYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             CCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            999999999999875322           1367889999999999999988877654

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.84  E-value=1.2e-18  Score=147.95  Aligned_cols=258  Identities=11%  Similarity=0.016  Sum_probs=160.5

Q ss_pred             HHHHhcCChhHHHHHHHHHhcCCCCCCch--hhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhh
Q 047359          120 DFYSKKGDFGAAFDRLNEMCNGRNLTPGF--STYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSD  197 (440)
Q Consensus       120 ~~~~~~~~~~~a~~~~~~~~~~~~~~p~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  197 (440)
                      +-....|+++.|+..++....   ..|+.  .....+.++|...|+++.|...++.    .-.|+  ..++..+...+..
T Consensus         7 ~~~~~~g~y~~ai~~~~~~~~---~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~--~~a~~~la~~~~~   77 (291)
T 3mkr_A            7 KNAFYIGSYQQCINEAQRVKP---SSPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPE--LQAVRMFAEYLAS   77 (291)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCC---CSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHH--HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHhccc---CCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChh--HHHHHHHHHHHcC
Confidence            445566777777777776643   44443  2445566777777777777765433    12233  5566667777777


Q ss_pred             cCcHHHHHHHHHHHHhcCCCC-CHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHH
Q 047359          198 MGKTYAAEMIFKRACDEKIEL-QDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCG  276 (440)
Q Consensus       198 ~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  276 (440)
                      .++.++|.+.++++...+..| +...+..+...+...|++++|++.+++      +.+...+..++..+.+.|++++|.+
T Consensus        78 ~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~  151 (291)
T 3mkr_A           78 HSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARK  151 (291)
T ss_dssp             STTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            777777777777776654333 344555555677777777777777765      2455666667777777777777777


Q ss_pred             HHHHHHHcCCCCChhhH---HHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHh
Q 047359          277 LLRDVVERGYIPCAMEL---SRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEK  353 (440)
Q Consensus       277 ~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  353 (440)
                      .++.+.+..  |+....   ...+..+...|++++|..+|+++.+..+ .+...++.+..++...|++++|...++++.+
T Consensus       152 ~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~p-~~~~~~~~la~~~~~~g~~~eA~~~l~~al~  228 (291)
T 3mkr_A          152 ELKKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCS-PTLLLLNGQAACHMAQGRWEAAEGVLQEALD  228 (291)
T ss_dssp             HHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            777776653  332211   1122333344667777777777766533 3566666666677777777777777777666


Q ss_pred             ccCCcCHHhHHHHHHHHHhcCcHHH-HHHHHHHHHHcCCCchhh
Q 047359          354 LKGSLDVATYDVLLDGLFKDGRMEE-AVRIFDYMKELKVVSSSS  396 (440)
Q Consensus       354 ~~~~p~~~~~~~l~~~~~~~g~~~~-a~~~~~~~~~~~~~~~~~  396 (440)
                      ..+. +..++..++..+...|+.++ +.++++++.+.+|.++.+
T Consensus       229 ~~p~-~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P~~~~~  271 (291)
T 3mkr_A          229 KDSG-HPETLINLVVLSQHLGKPPEVTNRYLSQLKDAHRSHPFI  271 (291)
T ss_dssp             HCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             hCCC-CHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCCChHH
Confidence            5433 55666666666666666654 456667777666665543

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.84  E-value=1.4e-17  Score=152.66  Aligned_cols=371  Identities=11%  Similarity=-0.046  Sum_probs=248.5

Q ss_pred             CCChHhHHHHHHHHHccCCcchHHHHHHHHHhc--------CCccChHhHHHHHHHHHhccchhHHHHHHHHHHHc----
Q 047359            9 DSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVY--------GFVPAVSACNALLDALYRQNEIRLASCLYGAMVRD----   76 (440)
Q Consensus         9 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~--------~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----   76 (440)
                      ......||.+...+...|++++|++.|++..+.        ..+....+|+.+..+|...|++++|...+++..+.    
T Consensus        48 ~~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~  127 (472)
T 4g1t_A           48 EFKATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKF  127 (472)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHS
T ss_pred             hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhc
Confidence            344678999999999999999999999987642        11224568999999999999999999999887542    


Q ss_pred             -C-CC-CChhhHHHHHHHHHhc--CChHHHHHHHhccc---CCc-hhHHHHHHH---HHhcCChhHHHHHHHHHhcCCCC
Q 047359           77 -G-VS-PNKFTWSLVAQILCRS--GKFEVVLGLLDSGI---YSS-VMYNLVIDF---YSKKGDFGAAFDRLNEMCNGRNL  144 (440)
Q Consensus        77 -~-~~-~~~~~~~~l~~~~~~~--~~~~~a~~~~~~~~---~~~-~~~~~li~~---~~~~~~~~~a~~~~~~~~~~~~~  144 (440)
                       + .. ....++..+..++...  +++++|+..|++..   |+. ..+..+..+   +...++.++|++.+++..+   +
T Consensus       128 ~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~---l  204 (472)
T 4g1t_A          128 SSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIR---L  204 (472)
T ss_dssp             CCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHH---H
T ss_pred             ccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhh---c
Confidence             1 11 1245566666566554  46899999999977   543 344444444   4456888999999999876   4


Q ss_pred             CCc-hhhHHHHHHHHHh----cCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCC
Q 047359          145 TPG-FSTYSSILDGARR----YEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQ  219 (440)
Q Consensus       145 ~p~-~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  219 (440)
                      .|+ ...+..+...+..    .+++++|.+.+++.....  |+. ..++..+...|...|++++|...+++..+..+. +
T Consensus       205 ~p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~--~~~-~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~  280 (472)
T 4g1t_A          205 NPDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA--PGV-TDVLRSAAKFYRRKDEPDKAIELLKKALEYIPN-N  280 (472)
T ss_dssp             CSSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC--SSC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-C
T ss_pred             CCcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC--ccH-HHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCC-h
Confidence            454 3455555444443    467889999999988765  443 677888999999999999999999999987655 5


Q ss_pred             HHhHHHHHHHHhhh-------------------ccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHH
Q 047359          220 DDTCGCMLKALSKE-------------------GRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRD  280 (440)
Q Consensus       220 ~~~~~~l~~~~~~~-------------------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  280 (440)
                      ..++..+..+|...                   +.++.|...++...+..+. +..++..+...+...|++++|...|+.
T Consensus       281 ~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~lg~~~~~~~~~~~A~~~~~k  359 (472)
T 4g1t_A          281 AYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEANDN-LFRVCSILASLHALADQYEEAEYYFQK  359 (472)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHCTT-TCCCHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcCCc-hhhhhhhHHHHHHHhccHHHHHHHHHH
Confidence            66677666665432                   3467788888888776543 567788899999999999999999999


Q ss_pred             HHHcCCCCChh--hHHHHHH-HHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCC
Q 047359          281 VVERGYIPCAM--ELSRFVA-SQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGS  357 (440)
Q Consensus       281 ~~~~~~~~~~~--~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  357 (440)
                      ..+....+...  .+..+.. .....|+.++|+..+++..+..  |+....         .+....+.+++++..+.++.
T Consensus       360 aL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~--~~~~~~---------~~~~~~l~~~~~~~l~~~p~  428 (472)
T 4g1t_A          360 EFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKIN--QKSREK---------EKMKDKLQKIAKMRLSKNGA  428 (472)
T ss_dssp             HHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSC--CCCHHH---------HHHHHHHHHHHHHHHHHCC-
T ss_pred             HHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--cccHHH---------HHHHHHHHHHHHHHHHhCCC
Confidence            98865333221  2222222 2346799999999999998864  333222         12234455666666665443


Q ss_pred             cCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHH
Q 047359          358 LDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVI  399 (440)
Q Consensus       358 p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  399 (440)
                       +..+|..+...|...|++++|++.|+++.+.++.+|.+...
T Consensus       429 -~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~  469 (472)
T 4g1t_A          429 -DSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSW  469 (472)
T ss_dssp             -CTTHHHHHHHHHHHHHHCC----------------------
T ss_pred             -CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhc
Confidence             67899999999999999999999999999988776555443

>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=99.83  E-value=3.4e-18  Score=148.66  Aligned_cols=264  Identities=12%  Similarity=-0.012  Sum_probs=187.1

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHhcCCCCCC-chhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHH
Q 047359          115 YNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTP-GFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQ  193 (440)
Q Consensus       115 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~  193 (440)
                      +..+...+...|++++|..+|+++.+   ..| +...+..+..++...|++++|...++++.+..  |+. ..++..+..
T Consensus        24 ~~~~a~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~-~~~~~~la~   97 (327)
T 3cv0_A           24 PMEEGLSMLKLANLAEAALAFEAVCQ---AAPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD--PKD-IAVHAALAV   97 (327)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTC-HHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--cCC-HHHHHHHHH
Confidence            44455555566666666666666554   122 34455555556666666666666666665543  322 445555666


Q ss_pred             HHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHH--------------HH-HHhhhccHHHHHHHHHHHHHcCCCCChhhH
Q 047359          194 KLSDMGKTYAAEMIFKRACDEKIELQDDTCGCM--------------LK-ALSKEGRVKEAIQIYHLISERGITVRDSDY  258 (440)
Q Consensus       194 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l--------------~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  258 (440)
                      .+...|++++|.+.++++.+..+. +...+..+              .. .+...|++++|...++++.+.... +...+
T Consensus        98 ~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~  175 (327)
T 3cv0_A           98 SHTNEHNANAALASLRAWLLSQPQ-YEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNPN-DAQLH  175 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTSTT-TTTC--------------------CCTTSHHHHHHHHHHHHHHHHHSTT-CHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCCC-CHHHH
Confidence            666666666666666666554332 22222222              22 377889999999999998887543 67788


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcC
Q 047359          259 YAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSN  338 (440)
Q Consensus       259 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  338 (440)
                      ..+...+...|++++|...++.+.+.. +.+...+..+...+...|++++|...++++.+..+. +...+..+...|...
T Consensus       176 ~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~  253 (327)
T 3cv0_A          176 ASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDINPG-YVRVMYNMAVSYSNM  253 (327)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHh
Confidence            888899999999999999999988764 345678888899999999999999999999877543 677888899999999


Q ss_pred             CcHHHHHHHHHHHHhccCCc-----------CHHhHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 047359          339 RQIDKAIALHIKIEKLKGSL-----------DVATYDVLLDGLFKDGRMEEAVRIFDYMKE  388 (440)
Q Consensus       339 ~~~~~a~~~~~~~~~~~~~p-----------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  388 (440)
                      |++++|.+.++++.+.....           +...|..+..++.+.|+.++|..++++..+
T Consensus       254 g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  314 (327)
T 3cv0_A          254 SQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNVE  314 (327)
T ss_dssp             TCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCSH
T ss_pred             ccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            99999999999998765442           467888999999999999999999875543

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.83  E-value=1.1e-17  Score=142.14  Aligned_cols=256  Identities=9%  Similarity=0.025  Sum_probs=140.9

Q ss_pred             HHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHH
Q 047359          158 ARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVK  237 (440)
Q Consensus       158 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  237 (440)
                      ....|++..|+..++......  |+........+.++|...|+++.|...++.    .-.|+..++..+...+...++.+
T Consensus         9 ~~~~g~y~~ai~~~~~~~~~~--p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~~~~   82 (291)
T 3mkr_A            9 AFYIGSYQQCINEAQRVKPSS--PERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHSRRD   82 (291)
T ss_dssp             HHHTTCHHHHHHHHHHSCCCS--HHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCSTTHH
T ss_pred             HHHHHHHHHHHHHHHhcccCC--chhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCCcHH
Confidence            344566666666555443322  321122334455666666666666654433    12334555556666666666666


Q ss_pred             HHHHHHHHHHHcCCCC-ChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHH
Q 047359          238 EAIQIYHLISERGITV-RDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAV  316 (440)
Q Consensus       238 ~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  316 (440)
                      +|++.++++...+..| +...+..+...+...|++++|+..++.      +.+...+..++..+.+.|++++|.+.++++
T Consensus        83 ~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~  156 (291)
T 3mkr_A           83 AIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKM  156 (291)
T ss_dssp             HHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            6666666666554333 333444445566666666666666655      244555666666666666666666666666


Q ss_pred             HhcCCCCchhhh---HHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc
Q 047359          317 LDKGLLLDSFCC---SSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVS  393 (440)
Q Consensus       317 ~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  393 (440)
                      .+..  |+....   ...+..+...|++++|..+|+++.+..+ .+...++.+..++.+.|++++|...|+++.+..|.+
T Consensus       157 ~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~p-~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~  233 (291)
T 3mkr_A          157 QDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCS-PTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGH  233 (291)
T ss_dssp             HHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence            6543  222111   1122333344666666666666665532 355566666666666666666666666666666666


Q ss_pred             hhhHHHHHHHHHhcccHHH-HHHHHHHHHHCCCCCCHH
Q 047359          394 SSSFVIVVSRLCHLKELRK-AMKNHDEMLKMGHKPDEA  430 (440)
Q Consensus       394 ~~~~~~l~~~~~~~g~~~~-a~~~~~~m~~~~~~p~~~  430 (440)
                      +.++..++..+...|+.++ +.++++++.+  +.|+..
T Consensus       234 ~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~--~~P~~~  269 (291)
T 3mkr_A          234 PETLINLVVLSQHLGKPPEVTNRYLSQLKD--AHRSHP  269 (291)
T ss_dssp             HHHHHHHHHHHHHTTCCHHHHHHHHHHHHH--HCTTCH
T ss_pred             HHHHHHHHHHHHHcCCCHHHHHHHHHHHHH--hCCCCh
Confidence            6666666666666666544 3456666655  345443

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.82  E-value=2.2e-17  Score=143.18  Aligned_cols=362  Identities=10%  Similarity=0.014  Sum_probs=174.2

Q ss_pred             CChHhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHH
Q 047359           10 SQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVA   89 (440)
Q Consensus        10 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   89 (440)
                      +++.+|+.+..++.+.|++++|++.|.+.      +|..+|..++..+...|++++|+..++..++.  .+++.+.+.++
T Consensus        30 ~~~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~--~~~~~i~~~Li  101 (449)
T 1b89_A           30 NEPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELI  101 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CChHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CccchhHHHHH
Confidence            45579999999999999999999999653      57779999999999999999999988877764  45678899999


Q ss_pred             HHHHhcCChHHHHHHHhcccCCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHH
Q 047359           90 QILCRSGKFEVVLGLLDSGIYSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDR  169 (440)
Q Consensus        90 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  169 (440)
                      .+|.+.|+++++.++++.  |+..+|+.+...|...|.+++|...|..+          ..|..++.++.+.|++++|.+
T Consensus       102 ~~Y~Klg~l~e~e~f~~~--pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a----------~n~~~LA~~L~~Lg~yq~AVe  169 (449)
T 1b89_A          102 FALAKTNRLAELEEFING--PNNAHIQQVGDRCYDEKMYDAAKLLYNNV----------SNFGRLASTLVHLGEYQAAVD  169 (449)
T ss_dssp             -------CHHHHTTTTTC--C----------------CTTTHHHHHHHT----------TCHHHHHHHHHTTTCHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHcC--CcHHHHHHHHHHHHHcCCHHHHHHHHHHh----------hhHHHHHHHHHHhccHHHHHH
Confidence            999999999999988865  77789999999999999999999999987          269999999999999999999


Q ss_pred             HHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHc
Q 047359          170 IVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISER  249 (440)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (440)
                      .+.++.      +  +.+|..++.+|...|+++.|......     +..++.-...++..|.+.|.+++|..+++.....
T Consensus       170 a~~KA~------~--~~~Wk~v~~aCv~~~ef~lA~~~~l~-----L~~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~l  236 (449)
T 1b89_A          170 GARKAN------S--TRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLEAALGL  236 (449)
T ss_dssp             HHHHHT------C--HHHHHHHHHHHHHTTCHHHHHHTTTT-----TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS
T ss_pred             HHHHcC------C--chhHHHHHHHHHHcCcHHHHHHHHHH-----HHhCHhhHHHHHHHHHHCCCHHHHHHHHHHHhCC
Confidence            999881      3  78999999999999999999665544     2234444567899999999999999999998876


Q ss_pred             CCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHH-cCCCC------ChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCC
Q 047359          250 GITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVE-RGYIP------CAMELSRFVASQCGKGKWKEVEELLSAVLDKGLL  322 (440)
Q Consensus       250 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  322 (440)
                      . +-....|+-+.-+|++- ++++..+.++.... -+++|      +...|..+...|...++++.|...   |.+.  .
T Consensus       237 e-~ah~~~ftel~il~~ky-~p~k~~ehl~~~~~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~t---m~~h--~  309 (449)
T 1b89_A          237 E-RAHMGMFTELAILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIIT---MMNH--P  309 (449)
T ss_dssp             T-TCCHHHHHHHHHHHHTT-CHHHHHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHH---HHHS--T
T ss_pred             c-HHHHHHHHHHHHHHHhc-CHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHHH---HHhC--C
Confidence            5 34566777777777654 44444444443322 23333      467889999999999999988764   3332  1


Q ss_pred             CchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHH-------------HHHHc
Q 047359          323 LDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFD-------------YMKEL  389 (440)
Q Consensus       323 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~-------------~~~~~  389 (440)
                      |+..-...+.....+..+.+--.+...-..+.    .+...+.|+.++...=|...+.++|+             .+...
T Consensus       310 ~~a~~~~~f~~~~~kv~n~elyYkai~fyl~~----~p~~l~~ll~~l~~~ld~~r~v~~~~~~~~l~l~~~yl~~v~~~  385 (449)
T 1b89_A          310 TDAWKEGQFKDIITKVANVELYYRAIQFYLEF----KPLLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNH  385 (449)
T ss_dssp             TTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH----CGGGHHHHHHHHGGGCCHHHHHHHHHHTTCTTTTHHHHHHHHTT
T ss_pred             hhhhhhHHHHHHHhchhHHHHHHHHHHHHHhc----CHHHHHHHHHHHHhccCcHHHHHHHHHcCCcHHHHHHHHHHHHh
Confidence            23333333444444444444333333333321    22234455555544444444444444             33332


Q ss_pred             CCCchhhHHHHHHHHHhcccHHHHHHHH
Q 047359          390 KVVSSSSFVIVVSRLCHLKELRKAMKNH  417 (440)
Q Consensus       390 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~  417 (440)
                      +  +..+=.++-..|....+++.-....
T Consensus       386 n--~~~vnealn~l~ieeed~~~lr~si  411 (449)
T 1b89_A          386 N--NKSVNESLNNLFITEEDYQALRTSI  411 (449)
T ss_dssp             C--CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             h--HHHHHHHHHHHHHhhhhHHHHHHHH
Confidence            2  2222334444555666665544433

>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=99.81  E-value=3.7e-16  Score=151.24  Aligned_cols=354  Identities=10%  Similarity=0.070  Sum_probs=266.4

Q ss_pred             ChHhHHHHHHHHHccCCcchHHHHHHHHHhcCC--ccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHH
Q 047359           11 QSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGF--VPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLV   88 (440)
Q Consensus        11 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l   88 (440)
                      ++.--...++.|...|.+.+|++++++..-.+-  .-+....+.++....+. +..+..+..+.....       ....+
T Consensus       984 ~PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~-------d~~eI 1055 (1630)
T 1xi4_A          984 DPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNY-------DAPDI 1055 (1630)
T ss_pred             CHHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhc-------cHHHH
Confidence            444446678889999999999999999984321  12346667777777666 556666666655421       13447


Q ss_pred             HHHHHhcCChHHHHHHHhcccCCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHH
Q 047359           89 AQILCRSGKFEVVLGLLDSGIYSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSD  168 (440)
Q Consensus        89 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  168 (440)
                      ...+...|.+++|..+|++........+.++.   ..+++++|.++.++..       +..+|..+..++...|++++|.
T Consensus      1056 A~Iai~lglyEEAf~IYkKa~~~~~A~~VLie---~i~nldrAiE~Aervn-------~p~vWsqLAKAql~~G~~kEAI 1125 (1630)
T 1xi4_A         1056 ANIAISNELFEEAFAIFRKFDVNTSAVQVLIE---HIGNLDRAYEFAERCN-------EPAVWSQLAKAQLQKGMVKEAI 1125 (1630)
T ss_pred             HHHHHhCCCHHHHHHHHHHcCCHHHHHHHHHH---HHhhHHHHHHHHHhcC-------CHHHHHHHHHHHHhCCCHHHHH
Confidence            77888899999999999997633333333322   6788999999988762       3568889999999999999999


Q ss_pred             HHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHH
Q 047359          169 RIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISE  248 (440)
Q Consensus       169 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (440)
                      ..|.+.      .+  ...|..++.++.+.|++++|.+++....+...  ++...+.++.+|++.+++++...+.    +
T Consensus      1126 dsYiKA------dD--~say~eVa~~~~~lGkyEEAIeyL~mArk~~~--e~~Idt~LafaYAKl~rleele~fI----~ 1191 (1630)
T 1xi4_A         1126 DSYIKA------DD--PSSYMEVVQAANTSGNWEELVKYLQMARKKAR--ESYVETELIFALAKTNRLAELEEFI----N 1191 (1630)
T ss_pred             HHHHhc------CC--hHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcc--cccccHHHHHHHHhhcCHHHHHHHH----h
Confidence            998664      23  67888899999999999999999998877653  3333445888999998888544332    2


Q ss_pred             cCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhh
Q 047359          249 RGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCC  328 (440)
Q Consensus       249 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  328 (440)
                         .++...+..+...|...|++++|..+|..+         ..|..+..++++.|++++|.+.+++.      .+..+|
T Consensus      1192 ---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aW 1253 (1630)
T 1xi4_A         1192 ---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTW 1253 (1630)
T ss_pred             ---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHH
Confidence               245567778999999999999999999985         37889999999999999999999877      266888


Q ss_pred             HHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHh--
Q 047359          329 SSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCH--  406 (440)
Q Consensus       329 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~--  406 (440)
                      ..+..+|...|++..|......+     ..++..+..++..|.+.|.+++|+.+++.....++.....|..+...|.+  
T Consensus      1254 kev~~acve~~Ef~LA~~cgl~I-----iv~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiLyaKy~ 1328 (1630)
T 1xi4_A         1254 KEVCFACVDGKEFRLAQMCGLHI-----VVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFK 1328 (1630)
T ss_pred             HHHHHHHhhhhHHHHHHHHHHhh-----hcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHHHHhCC
Confidence            88889999999999988876543     23667778999999999999999999998887775577777777666664  


Q ss_pred             cccHHHHHHHHHH
Q 047359          407 LKELRKAMKNHDE  419 (440)
Q Consensus       407 ~g~~~~a~~~~~~  419 (440)
                      .++..++.++|..
T Consensus      1329 peklmEhlk~f~~ 1341 (1630)
T 1xi4_A         1329 PQKMREHLELFWS 1341 (1630)
T ss_pred             HHHHHHHHHHHHH
Confidence            3455555555543

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.80  E-value=3.2e-17  Score=137.32  Aligned_cols=240  Identities=12%  Similarity=-0.005  Sum_probs=180.7

Q ss_pred             ccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCC--C----hhhH
Q 047359          185 LSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITV--R----DSDY  258 (440)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~----~~~~  258 (440)
                      ...+..+...+...|++++|...+++..+..  .+...+..+..++...|++++|...+++..+.....  +    ...+
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   82 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSF   82 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHH
Confidence            3455666677777777777777777776665  466677777777777777777777777766543211  1    4667


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcC
Q 047359          259 YAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSN  338 (440)
Q Consensus       259 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  338 (440)
                      ..+...+...|++++|...++.+.+..  |+.       ..+...|++++|...++++....+. +...+..+...+...
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~-------~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~  152 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLTEH--RTA-------DILTKLRNAEKELKKAEAEAYVNPE-KAEEARLEGKEYFTK  152 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--CCH-------HHHHHHHHHHHHHHHHHHHHHCCHH-HHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcC--chh-------HHHHHHhHHHHHHHHHHHHHHcCcc-hHHHHHHHHHHHHHh
Confidence            777778888888888888888887753  332       2355567888888888888876433 566778888889999


Q ss_pred             CcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHH
Q 047359          339 RQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHD  418 (440)
Q Consensus       339 ~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  418 (440)
                      |++++|...++++.+.... +...+..+...+...|++++|.+.++++.+..+.++.++..+..++...|++++|...++
T Consensus       153 ~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  231 (258)
T 3uq3_A          153 SDWPNAVKAYTEMIKRAPE-DARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLD  231 (258)
T ss_dssp             TCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            9999999999999886543 677888899999999999999999999999888888899999999999999999999999


Q ss_pred             HHHHC----CCCCCHHHHHHHhh
Q 047359          419 EMLKM----GHKPDEATYKQVIS  437 (440)
Q Consensus       419 ~m~~~----~~~p~~~t~~~ll~  437 (440)
                      +..+.    +..|+.......+.
T Consensus       232 ~a~~~~~~~~~~p~~~~~~~~l~  254 (258)
T 3uq3_A          232 AARTKDAEVNNGSSAREIDQLYY  254 (258)
T ss_dssp             HHHHHHHHHHTTTTHHHHHHHHH
T ss_pred             HHHHhChhhcCCCchHHHHHHHH
Confidence            88772    12276655544443

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=99.78  E-value=5.2e-15  Score=143.42  Aligned_cols=350  Identities=12%  Similarity=0.108  Sum_probs=199.7

Q ss_pred             HHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCC
Q 047359           18 VLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGK   97 (440)
Q Consensus        18 li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   97 (440)
                      +...+...|.+++|..+|++..     -.....+.++.   ..+++++|.++.++.      -+..+|..+..++...|+
T Consensus      1055 IA~Iai~lglyEEAf~IYkKa~-----~~~~A~~VLie---~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~ 1120 (1630)
T 1xi4_A         1055 IANIAISNELFEEAFAIFRKFD-----VNTSAVQVLIE---HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGM 1120 (1630)
T ss_pred             HHHHHHhCCCHHHHHHHHHHcC-----CHHHHHHHHHH---HHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCC
Confidence            3444555566666666666542     11112222222   445566666665543      134556666666666666


Q ss_pred             hHHHHHHHhcccCCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhc
Q 047359           98 FEVVLGLLDSGIYSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEK  177 (440)
Q Consensus        98 ~~~a~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  177 (440)
                      +++|+..|.+. .+...|..++.++.+.|++++|.+.|...++ .  .++....+.++.+|++.++++.....    ++ 
T Consensus      1121 ~kEAIdsYiKA-dD~say~eVa~~~~~lGkyEEAIeyL~mArk-~--~~e~~Idt~LafaYAKl~rleele~f----I~- 1191 (1630)
T 1xi4_A         1121 VKEAIDSYIKA-DDPSSYMEVVQAANTSGNWEELVKYLQMARK-K--ARESYVETELIFALAKTNRLAELEEF----IN- 1191 (1630)
T ss_pred             HHHHHHHHHhc-CChHHHHHHHHHHHHcCCHHHHHHHHHHHHh-h--cccccccHHHHHHHHhhcCHHHHHHH----Hh-
Confidence            66666666554 4455556666666666666666666666554 2  22222223366666666665543222    11 


Q ss_pred             CCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhh
Q 047359          178 KLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSD  257 (440)
Q Consensus       178 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  257 (440)
                        .++  ...+..+...|...|++++|..+|...         ..|..+..++.+.|+++.|.+.+++.      .+..+
T Consensus      1192 --~~n--~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA------~n~~a 1252 (1630)
T 1xi4_A         1192 --GPN--NAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRT 1252 (1630)
T ss_pred             --CCC--HHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHH
Confidence              123  344555666666666666666666653         25666666666666666666666654      23456


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHc
Q 047359          258 YYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCS  337 (440)
Q Consensus       258 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  337 (440)
                      |..+..+|...|++..|......+     ..+...+..++..|.+.|.+++|+.+++...... +-+...|+.+...|++
T Consensus      1253 Wkev~~acve~~Ef~LA~~cgl~I-----iv~~deLeeli~yYe~~G~feEAI~LlE~aL~Le-raH~gmftELaiLyaK 1326 (1630)
T 1xi4_A         1253 WKEVCFACVDGKEFRLAQMCGLHI-----VVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSK 1326 (1630)
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHhh-----hcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-hhHhHHHHHHHHHHHh
Confidence            666666666666666666544432     2344556677777888888888888887776554 2245566666666654


Q ss_pred             C--CcHHHHHHHHHHHHhccCCc------CHHhHHHHHHHHHhcCcHHHHHHHHH-------------HHHHcCCCchhh
Q 047359          338 N--RQIDKAIALHIKIEKLKGSL------DVATYDVLLDGLFKDGRMEEAVRIFD-------------YMKELKVVSSSS  396 (440)
Q Consensus       338 ~--~~~~~a~~~~~~~~~~~~~p------~~~~~~~l~~~~~~~g~~~~a~~~~~-------------~~~~~~~~~~~~  396 (440)
                      .  ++..++.+.|..-..  ++|      +...|.-++-.|.+.|+++.|....-             .... .+.++..
T Consensus      1327 y~peklmEhlk~f~~rin--i~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~tm~~h~~~a~~~~~Fk~~i~-kv~n~el 1403 (1630)
T 1xi4_A         1327 FKPQKMREHLELFWSRVN--IPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIIT-KVANVEL 1403 (1630)
T ss_pred             CCHHHHHHHHHHHHHhcc--cchHhHHHHHHHHHHHHHHHHHhcccHHHHHHHHHhccHhhhhhHHHHHHhc-ccccHHH
Confidence            3  344444444442222  221      45678888888888888888873222             1111 2336777


Q ss_pred             HHHHHHHHHhcc---------------cHHHHHHHHH
Q 047359          397 FVIVVSRLCHLK---------------ELRKAMKNHD  418 (440)
Q Consensus       397 ~~~l~~~~~~~g---------------~~~~a~~~~~  418 (440)
                      |...+..|...+               +++++.++|.
T Consensus      1404 yykai~Fyl~~~P~~lndLl~~l~~rlD~~R~V~l~~ 1440 (1630)
T 1xi4_A         1404 YYRAIQFYLEFKPLLLNDLLMVLSPRLDHTRAVNYFS 1440 (1630)
T ss_pred             HHHHHHHHHhhChHHHHHHHHHhhhcCChHHHHHHHH
Confidence            777777776665               6666666655

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.77  E-value=1.8e-16  Score=132.68  Aligned_cols=225  Identities=12%  Similarity=0.017  Sum_probs=144.5

Q ss_pred             hHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCC--C----HHhH
Q 047359          150 TYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIEL--Q----DDTC  223 (440)
Q Consensus       150 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~----~~~~  223 (440)
                      .+..+...+...|++++|...+++..+..  .+  ...+..+..++...|++++|...+++..+..+..  +    ..++
T Consensus         7 ~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~--~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   82 (258)
T 3uq3_A            7 KEKAEGNKFYKARQFDEAIEHYNKAWELH--KD--ITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSF   82 (258)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CC--THHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhh--cc--HHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHH
Confidence            34444555555555555555555555544  33  4455555555555555555555555554432211  1    3556


Q ss_pred             HHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcC
Q 047359          224 GCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGK  303 (440)
Q Consensus       224 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  303 (440)
                      ..+...+...|++++|...+++..+..  |+       ...+...|++++|...++.+.... +.+...+..+...+...
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~-------~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~  152 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLTEH--RT-------ADILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTK  152 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--CC-------HHHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcC--ch-------hHHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHh
Confidence            666666667777777777777666643  22       123455566777777777766643 23445666777777777


Q ss_pred             CCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHH
Q 047359          304 GKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIF  383 (440)
Q Consensus       304 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~  383 (440)
                      |++++|...++++.+..+. +...+..+...|...|++++|...+++..+.... +...|..+...+.+.|++++|.+.+
T Consensus       153 ~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~  230 (258)
T 3uq3_A          153 SDWPNAVKAYTEMIKRAPE-DARGYSNRAAALAKLMSFPEAIADCNKAIEKDPN-FVRAYIRKATAQIAVKEYASALETL  230 (258)
T ss_dssp             TCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHH-HHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            8888888888877766543 5667777788888888888888888888776433 5677778888888888888888888


Q ss_pred             HHHHHcC
Q 047359          384 DYMKELK  390 (440)
Q Consensus       384 ~~~~~~~  390 (440)
                      +++.+..
T Consensus       231 ~~a~~~~  237 (258)
T 3uq3_A          231 DAARTKD  237 (258)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHhC
Confidence            8877765

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.77  E-value=1e-16  Score=130.13  Aligned_cols=198  Identities=13%  Similarity=-0.020  Sum_probs=131.9

Q ss_pred             CHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHH
Q 047359          219 QDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVA  298 (440)
Q Consensus       219 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  298 (440)
                      +...+..+...+.+.|++++|...|++..+..+. +...+..+...+.+.|++++|...++...+.. +.+...+..+..
T Consensus         4 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~   81 (217)
T 2pl2_A            4 AEQNPLRLGVQLYALGRYDAALTLFERALKENPQ-DPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLSE   81 (217)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHH
Confidence            3344445555555555555555555555554332 44445555555555555555555555555442 223344555555


Q ss_pred             HHHcC-----------CCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHH
Q 047359          299 SQCGK-----------GKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLL  367 (440)
Q Consensus       299 ~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~  367 (440)
                      .+...           |++++|...+++..+..+. +...+..+..++...|++++|+..|++..+..  .+...+..+.
T Consensus        82 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la  158 (217)
T 2pl2_A           82 AYVALYRQAEDRERGKGYLEQALSVLKDAERVNPR-YAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALA  158 (217)
T ss_dssp             HHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHH
T ss_pred             HHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHH
Confidence            55555           8899999999998887554 67778888889999999999999999999887  5888899999


Q ss_pred             HHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHH
Q 047359          368 DGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEML  421 (440)
Q Consensus       368 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  421 (440)
                      .+|...|++++|+..|+++.+..|.++.++..+...+.+.|++++|...+++.-
T Consensus       159 ~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          159 ELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            999999999999999999999988888999999999999999999999888754

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.77  E-value=1.5e-18  Score=162.53  Aligned_cols=116  Identities=12%  Similarity=0.126  Sum_probs=88.0

Q ss_pred             ccchHHHHHHHhhcCcHHHHHHHHHHHH---hcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHH
Q 047359          185 LSGNDYVIQKLSDMGKTYAAEMIFKRAC---DEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAF  261 (440)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  261 (440)
                      ..+|+.+|++|++.|++++|.++|++|.   ..|+.||..|||+||.+|++.|++++|.++|++|.+.|+.||..||+++
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            4567777777777777777777776654   3467778888888888888888888888888888888888888888888


Q ss_pred             HHHHHhcCCh-HHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 047359          262 VNVLCKEHQP-EEVCGLLRDVVERGYIPCAMELSRFVASQ  300 (440)
Q Consensus       262 ~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  300 (440)
                      |.++++.|+. ++|.++|++|.+.|+.||..+|+.++...
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~  246 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEE  246 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHH
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChh
Confidence            8888777764 67777888888888888888777776544

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.76  E-value=4.5e-16  Score=140.87  Aligned_cols=376  Identities=9%  Similarity=-0.020  Sum_probs=251.1

Q ss_pred             HHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccch---hHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 047359           18 VLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEI---RLASCLYGAMVRDGVSPNKFTWSLVAQILCR   94 (440)
Q Consensus        18 li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   94 (440)
                      +...+.+.|++++|.+.|+...+.|   +..++..+...+...|+.   ++|..+|++..+.    ++..+..|...+..
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~~   81 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLAA   81 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC--------------------------------CHHHHHHHHHT
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHHh
Confidence            5667788899999999999998865   344555666666777777   8999999998753    55566677775555


Q ss_pred             cC-----ChHHHHHHHhccc--CCchhHHHHHHHHHhcCChhH---HHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCCh
Q 047359           95 SG-----KFEVVLGLLDSGI--YSSVMYNLVIDFYSKKGDFGA---AFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKT  164 (440)
Q Consensus        95 ~~-----~~~~a~~~~~~~~--~~~~~~~~li~~~~~~~~~~~---a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  164 (440)
                      .+     +.++|...|++..  .+...+..|...|...+..++   +.+.+....+ .|   +......+...|...+.+
T Consensus        82 ~~~~~~~~~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~-~g---~~~a~~~Lg~~y~~~~~~  157 (452)
T 3e4b_A           82 KPGATEAEHHEAESLLKKAFANGEGNTLIPLAMLYLQYPHSFPNVNAQQQISQWQA-AG---YPEAGLAQVLLYRTQGTY  157 (452)
T ss_dssp             C--CCHHHHHHHHHHHHHHHHTTCSSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHH-HT---CTTHHHHHHHHHHHHTCG
T ss_pred             CCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHH-CC---CHHHHHHHHHHHHcCCCc
Confidence            55     7789999998877  445578888888887765444   4444444433 22   345666777778888876


Q ss_pred             hhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcC---cHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhh----ccHH
Q 047359          165 EVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMG---KTYAAEMIFKRACDEKIELQDDTCGCMLKALSKE----GRVK  237 (440)
Q Consensus       165 ~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~  237 (440)
                      +.+......+.+.-...+  +..+..+...|...|   +.++|.+.|++..+.+.. +...+..+...|...    ++++
T Consensus       158 ~~~~~~a~~~~~~a~~~~--~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~-~a~~~~~Lg~~y~~g~~~~~d~~  234 (452)
T 3e4b_A          158 DQHLDDVERICKAALNTT--DICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTV-TAQRVDSVARVLGDATLGTPDEK  234 (452)
T ss_dssp             GGGHHHHHHHHHHHTTTC--TTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCS-CHHHHHHHHHHHTCGGGSSCCHH
T ss_pred             ccCHHHHHHHHHHHHcCC--HHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHhCCCCCCCCHH
Confidence            666655444444322233  557888899999999   999999999999888764 555556666677654    7899


Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHHH-H--HhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCC-----CHHHH
Q 047359          238 EAIQIYHLISERGITVRDSDYYAFVNV-L--CKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKG-----KWKEV  309 (440)
Q Consensus       238 ~a~~~~~~~~~~~~~~~~~~~~~l~~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----~~~~a  309 (440)
                      +|...|+... .|   +...+..+... +  ...+++++|..+|+...+.|   +...+..+...|. .|     ++++|
T Consensus       235 ~A~~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A  306 (452)
T 3e4b_A          235 TAQALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAA  306 (452)
T ss_dssp             HHHHHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHH
T ss_pred             HHHHHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHH
Confidence            9999999987 33   44566666666 4  46889999999999998876   5566777777776 45     99999


Q ss_pred             HHHHHHHHhcCCCCchhhhHHHHHHHHc----CCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHh----cCcHHHHHH
Q 047359          310 EELLSAVLDKGLLLDSFCCSSLMEYYCS----NRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFK----DGRMEEAVR  381 (440)
Q Consensus       310 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~  381 (440)
                      .+.|++.. .|   +......+...|..    ..+.++|...|++..+.|.   ......|...|..    ..+.++|..
T Consensus       307 ~~~~~~Aa-~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~~G~g~~~d~~~A~~  379 (452)
T 3e4b_A          307 EAHFEKAV-GR---EVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQ---NSADFAIAQLFSQGKGTKPDPLNAYV  379 (452)
T ss_dssp             HHHHHTTT-TT---CHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTC---TTHHHHHHHHHHSCTTBCCCHHHHHH
T ss_pred             HHHHHHHh-CC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhCh---HHHHHHHHHHHHhCCCCCCCHHHHHH
Confidence            99999887 32   66677777777766    4489999999999988753   4456667777764    468999999


Q ss_pred             HHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          382 IFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       382 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      +|+...+.|.++.......+......++..+|..+.++..+
T Consensus       380 ~~~~A~~~g~~~a~~~l~~l~~~~~~~~~~~a~~~~~~~~~  420 (452)
T 3e4b_A          380 FSQLAKAQDTPEANDLATQLEAPLTPAQRAEGQRLVQQELA  420 (452)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHH
Confidence            99999998866444444444444455677888888776554

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.75  E-value=1.6e-18  Score=162.43  Aligned_cols=151  Identities=18%  Similarity=0.136  Sum_probs=114.2

Q ss_pred             CHHhHHHHHHHHhhhccHHHHHHHHHHHHH---cCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHH
Q 047359          219 QDDTCGCMLKALSKEGRVKEAIQIYHLISE---RGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSR  295 (440)
Q Consensus       219 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  295 (440)
                      -..||+++|++|++.|++++|.++|.+|.+   .|+.||..|||+||.+|++.|++++|.++|++|.+.|+.||..||++
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYnt  205 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAA  205 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHH
Confidence            345888999999999999999998877653   47888889999999999999999999999999988888899999999


Q ss_pred             HHHHHHcCCC-HHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcC------HHhHHHHHH
Q 047359          296 FVASQCGKGK-WKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLD------VATYDVLLD  368 (440)
Q Consensus       296 l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~------~~~~~~l~~  368 (440)
                      +|.++++.|+ .++|.++|++|.+.|+.||..+|++++..+.+.    ..++..+++ ..+..|+      ..+...|.+
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv-~P~f~p~~~~~~~~~t~~LL~d  280 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKV-KPTFSLPPQLPPPVNTSKLLRD  280 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGG-CCCCCCCCCCCCCCCCCTTTHH
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHh-CcccCCCCCCcccccchHHHHH
Confidence            9988888887 477888899998888888988888887655443    333333333 2234433      334445556


Q ss_pred             HHHhcC
Q 047359          369 GLFKDG  374 (440)
Q Consensus       369 ~~~~~g  374 (440)
                      .|.+.+
T Consensus       281 l~s~d~  286 (1134)
T 3spa_A          281 VYAKDG  286 (1134)
T ss_dssp             HHCCCS
T ss_pred             HHccCC
Confidence            665554

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.74  E-value=2.5e-15  Score=126.81  Aligned_cols=248  Identities=10%  Similarity=-0.050  Sum_probs=142.2

Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCC--HHhHHHHHHH
Q 047359          152 SSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQ--DDTCGCMLKA  229 (440)
Q Consensus       152 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~  229 (440)
                      ......+...|++++|...+++..+..  |+. ...+..+..++...|++++|...+++..+....++  ...|..+...
T Consensus         7 ~~~a~~~~~~~~~~~A~~~~~~~l~~~--p~~-~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~   83 (272)
T 3u4t_A            7 FRYADFLFKNNNYAEAIEVFNKLEAKK--YNS-PYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKI   83 (272)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHHHTT--CCC-STTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHhC--CCc-HHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHH
Confidence            334445555566666666666555543  321 33555555566666666666666666555221111  2235566666


Q ss_pred             HhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHH
Q 047359          230 LSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEV  309 (440)
Q Consensus       230 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  309 (440)
                      +...|++++|...|++..+.... +...+..+...+...|++++|...++...+.. +.+...+..+...+...+++++|
T Consensus        84 ~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A  161 (272)
T 3u4t_A           84 LMKKGQDSLAIQQYQAAVDRDTT-RLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVKA  161 (272)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcccHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHHH
Confidence            66666666666666666665432 44566666666667777777777776666542 23344455555223333477777


Q ss_pred             HHHHHHHHhcCCCCchhhhHHHHHHHHcCCc---HHHHHHHHHHHHhcc-CCcC------HHhHHHHHHHHHhcCcHHHH
Q 047359          310 EELLSAVLDKGLLLDSFCCSSLMEYYCSNRQ---IDKAIALHIKIEKLK-GSLD------VATYDVLLDGLFKDGRMEEA  379 (440)
Q Consensus       310 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~-~~p~------~~~~~~l~~~~~~~g~~~~a  379 (440)
                      .+.++++.+..+. +...+..+...+...|+   .++|...++++.+.. ..|+      ..+|..+...|...|++++|
T Consensus       162 ~~~~~~a~~~~p~-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  240 (272)
T 3u4t_A          162 DSSFVKVLELKPN-IYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKA  240 (272)
T ss_dssp             HHHHHHHHHHSTT-CHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHhCcc-chHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHH
Confidence            7777777665432 34555556666666666   666777777666542 1122      24566677777777777777


Q ss_pred             HHHHHHHHHcCCCchhhHHHHHHHHH
Q 047359          380 VRIFDYMKELKVVSSSSFVIVVSRLC  405 (440)
Q Consensus       380 ~~~~~~~~~~~~~~~~~~~~l~~~~~  405 (440)
                      .+.|+++.+..|.++.++..+.....
T Consensus       241 ~~~~~~al~~~p~~~~a~~~l~~~~~  266 (272)
T 3u4t_A          241 DAAWKNILALDPTNKKAIDGLKMKLE  266 (272)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHC----
T ss_pred             HHHHHHHHhcCccHHHHHHHhhhhhc
Confidence            77777777777766666655544443

>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=99.73  E-value=2.2e-15  Score=125.69  Aligned_cols=213  Identities=13%  Similarity=0.062  Sum_probs=149.3

Q ss_pred             HHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 047359          220 DDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVAS  299 (440)
Q Consensus       220 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  299 (440)
                      ...+..+...+...|++++|...++++.+.... +...+..+...+...|++++|...++.+.+.. +.+...+..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEIDPS-SADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHH
Confidence            345555666666667777777777666665422 45566666667777777777777777766653 2345566667777


Q ss_pred             HHcCCCHHHHHHHHHHHHhcCCCC-chhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHH
Q 047359          300 QCGKGKWKEVEELLSAVLDKGLLL-DSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEE  378 (440)
Q Consensus       300 ~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  378 (440)
                      +...|++++|.+.++++...+..| +...+..+...+...|++++|.+.++++.+.... +...+..+...+...|++++
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~g~~~~  193 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRN-QPSVALEMADLLYKEREYVP  193 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHcCCHHH
Confidence            777777777777777776622223 4556677777788888888888888887775433 56677788888888888888


Q ss_pred             HHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHHHHHHHhh
Q 047359          379 AVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQVIS  437 (440)
Q Consensus       379 a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~ll~  437 (440)
                      |...++++.+..+.+...+..+...+...|++++|.+.++++.+  ..|+...+..++.
T Consensus       194 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~~l~  250 (252)
T 2ho1_A          194 ARQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKR--LYPGSLEYQEFQA  250 (252)
T ss_dssp             HHHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTSHHHHHHHT
T ss_pred             HHHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHH--HCCCCHHHHHHHh
Confidence            88888888887777777788888888888888888888888877  4566666555543

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.73  E-value=2.2e-15  Score=127.18  Aligned_cols=246  Identities=12%  Similarity=0.011  Sum_probs=198.7

Q ss_pred             ccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCC--hhhHHHHH
Q 047359          185 LSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVR--DSDYYAFV  262 (440)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~  262 (440)
                      ...+......+...|++++|...+++..+..+. +...+..+..++...|++++|...+++..+.+..++  ...|..+.
T Consensus         3 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg   81 (272)
T 3u4t_A            3 DDVEFRYADFLFKNNNYAEAIEVFNKLEAKKYN-SPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYG   81 (272)
T ss_dssp             --CHHHHHHHHHTTTCHHHHHHHHHHHHHTTCC-CSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHH
Confidence            345667788999999999999999999987654 566888899999999999999999999998432222  23488899


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHH
Q 047359          263 NVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQID  342 (440)
Q Consensus       263 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  342 (440)
                      ..+...|++++|...++...+.. +.+...+..+...+...|++++|...+++..+..+. +...+..+...+...++++
T Consensus        82 ~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~  159 (272)
T 3u4t_A           82 KILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTTT-DPKVFYELGQAYYYNKEYV  159 (272)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSCC-CHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCCC-cHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999864 346678999999999999999999999999877433 5666777773444456999


Q ss_pred             HHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCc---HHHHHHHHHHHHHcCCC--c------hhhHHHHHHHHHhcccHH
Q 047359          343 KAIALHIKIEKLKGSLDVATYDVLLDGLFKDGR---MEEAVRIFDYMKELKVV--S------SSSFVIVVSRLCHLKELR  411 (440)
Q Consensus       343 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~--~------~~~~~~l~~~~~~~g~~~  411 (440)
                      +|.+.++++.+..+. +...+..+...+...|+   +++|...++++.+....  +      ..++..+...|...|+++
T Consensus       160 ~A~~~~~~a~~~~p~-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  238 (272)
T 3u4t_A          160 KADSSFVKVLELKPN-IYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKV  238 (272)
T ss_dssp             HHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHhCcc-chHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHH
Confidence            999999999986443 56778888888888888   88899999988765422  1      257888999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHh
Q 047359          412 KAMKNHDEMLKMGHKPDEATYKQVI  436 (440)
Q Consensus       412 ~a~~~~~~m~~~~~~p~~~t~~~ll  436 (440)
                      +|.+.++++.+  +.|+.......+
T Consensus       239 ~A~~~~~~al~--~~p~~~~a~~~l  261 (272)
T 3u4t_A          239 KADAAWKNILA--LDPTNKKAIDGL  261 (272)
T ss_dssp             HHHHHHHHHHH--HCTTCHHHHHHH
T ss_pred             HHHHHHHHHHh--cCccHHHHHHHh
Confidence            99999999998  567766554443

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.73  E-value=4e-15  Score=121.62  Aligned_cols=213  Identities=8%  Similarity=0.011  Sum_probs=150.5

Q ss_pred             HHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 047359          220 DDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVAS  299 (440)
Q Consensus       220 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  299 (440)
                      ...+..+...+...|++++|...++.+.+.... +...+..+...+...|++++|...++.+.+.. +.+...+..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~   85 (225)
T 2vq2_A            8 SNIKTQLAMEYMRGQDYRQATASIEDALKSDPK-NELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWF   85 (225)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHH
Confidence            445566666666667777777777666665432 45566666667777777777777777776653 3345566677777


Q ss_pred             HHcC-CCHHHHHHHHHHHHhcCCCC-chhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHH
Q 047359          300 QCGK-GKWKEVEELLSAVLDKGLLL-DSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRME  377 (440)
Q Consensus       300 ~~~~-~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  377 (440)
                      +... |++++|...++++.+.+..| +...+..+...+...|++++|...++++.+.... +...+..+...+.+.|+++
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~  164 (225)
T 2vq2_A           86 LCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQ-FPPAFKELARTKMLAGQLG  164 (225)
T ss_dssp             HHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTCHH
T ss_pred             HHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CchHHHHHHHHHHHcCCHH
Confidence            7777 77888887777777622222 3456777777888888888888888888775433 5677778888888888888


Q ss_pred             HHHHHHHHHHHcCC-CchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHHHHHHHhh
Q 047359          378 EAVRIFDYMKELKV-VSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQVIS  437 (440)
Q Consensus       378 ~a~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~ll~  437 (440)
                      +|...++++.+..+ .++..+..+...+...|+.++|..+++.+.+  ..|+......+++
T Consensus       165 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~--~~p~~~~~~~~l~  223 (225)
T 2vq2_A          165 DADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQA--NFPYSEELQTVLT  223 (225)
T ss_dssp             HHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHC
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH--hCCCCHHHHHHhc
Confidence            88888888888877 6777777777778888888888888888776  3577666665554

>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=99.73  E-value=1.8e-15  Score=132.65  Aligned_cols=227  Identities=11%  Similarity=0.059  Sum_probs=107.0

Q ss_pred             hHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhcc-HHHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 047359          188 NDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGR-VKEAIQIYHLISERGITVRDSDYYAFVNVLC  266 (440)
Q Consensus       188 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  266 (440)
                      |..+...+.+.|++++|+..++++.+..+. +...|+.+..++...|+ +++|+..|++..+.... +...|..+..++.
T Consensus       100 ~~~lg~~~~~~g~~~~Al~~~~~al~l~P~-~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~-~~~a~~~~g~~~~  177 (382)
T 2h6f_A          100 YDYFRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRVLVE  177 (382)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCChHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHH
Confidence            333444444444444444444444443332 34444444444444443 55555555554444332 3444444444444


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHc-CCcHHHH-
Q 047359          267 KEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCS-NRQIDKA-  344 (440)
Q Consensus       267 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a-  344 (440)
                      ..|++++|+..++.+++.+ +-+...|..+..++...|++++|+..++++.+..+. +...|+.+..++.. .|..++| 
T Consensus       178 ~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~-~~~a~~~lg~~l~~l~~~~~eA~  255 (382)
T 2h6f_A          178 WLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYNDRAV  255 (382)
T ss_dssp             HHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCSHHH
T ss_pred             HccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCcchHHH
Confidence            5555555555555554432 223344444444444455555555555555544333 44445555555544 3333444 


Q ss_pred             ----HHHHHHHHhccCCcCHHhHHHHHHHHHhcC--cHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcc---------c
Q 047359          345 ----IALHIKIEKLKGSLDVATYDVLLDGLFKDG--RMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLK---------E  409 (440)
Q Consensus       345 ----~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g--~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---------~  409 (440)
                          ++.+++.++..+. +...|..+...+...|  ++++|.+.+.++ +..+.++.++..++.+|.+.|         .
T Consensus       256 ~~~el~~~~~Al~l~P~-~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~p~~~~al~~La~~~~~~~~~~~~~~~~~  333 (382)
T 2h6f_A          256 LEREVQYTLEMIKLVPH-NESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPSHSSPYLIAFLVDIYEDMLENQCDNKEDI  333 (382)
T ss_dssp             HHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTTCCCHHHHHHHHHHHHHHHHTTCSSHHHH
T ss_pred             HHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHccCccchHHHHHHHHHh-ccCCCCHHHHHHHHHHHHHHhcccccchHHH
Confidence                3455555544332 3445555555555554  355555555555 444445555555555555542         1


Q ss_pred             HHHHHHHHHHH
Q 047359          410 LRKAMKNHDEM  420 (440)
Q Consensus       410 ~~~a~~~~~~m  420 (440)
                      .++|+++++++
T Consensus       334 ~~~A~~~~~~l  344 (382)
T 2h6f_A          334 LNKALELCEIL  344 (382)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            35555555555

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.73  E-value=5.4e-15  Score=133.78  Aligned_cols=342  Identities=12%  Similarity=-0.012  Sum_probs=236.2

Q ss_pred             HHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCh---HHHHHHHhccc-CCchhHHHHHHHHHhcC--
Q 047359           53 LLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKF---EVVLGLLDSGI-YSSVMYNLVIDFYSKKG--  126 (440)
Q Consensus        53 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~~~-~~~~~~~~li~~~~~~~--  126 (440)
                      +...+.+.|++++|.++|++..+.|   +...+..|...|...|+.   ++|...|++.. .+...+..+...+...+  
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~~~~A~~~Lg~~~~~~~~~   85 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADTSPRAQARLGRLLAAKPGA   85 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC----------------------------CHHHHHHHHHTC--C
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHhCCCC
Confidence            5667788899999999999998876   334455566667778887   89999999877 55566777777566655  


Q ss_pred             ---ChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChh---hHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCc
Q 047359          127 ---DFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTE---VSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGK  200 (440)
Q Consensus       127 ---~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  200 (440)
                         ++++|+..|++..+ .|.   ...+..|...|...+..+   .+.+.+......|.     ......+...|...+.
T Consensus        86 ~~~~~~~A~~~~~~Aa~-~g~---~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~-----~~a~~~Lg~~y~~~~~  156 (452)
T 3e4b_A           86 TEAEHHEAESLLKKAFA-NGE---GNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGY-----PEAGLAQVLLYRTQGT  156 (452)
T ss_dssp             CHHHHHHHHHHHHHHHH-TTC---SSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTC-----TTHHHHHHHHHHHHTC
T ss_pred             CCcCHHHHHHHHHHHHH-CCC---HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCC-----HHHHHHHHHHHHcCCC
Confidence               78899999999987 443   226667777777666544   34555555544442     4566778888888884


Q ss_pred             H----HHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhc---cHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc----C
Q 047359          201 T----YAAEMIFKRACDEKIELQDDTCGCMLKALSKEG---RVKEAIQIYHLISERGITVRDSDYYAFVNVLCKE----H  269 (440)
Q Consensus       201 ~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~  269 (440)
                      +    +.+..+++.....    ++..+..+...|...|   +.++|+..|+...+.|.. +...+..+...|...    +
T Consensus       157 ~~~~~~~a~~~~~~a~~~----~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~-~a~~~~~Lg~~y~~g~~~~~  231 (452)
T 3e4b_A          157 YDQHLDDVERICKAALNT----TDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTV-TAQRVDSVARVLGDATLGTP  231 (452)
T ss_dssp             GGGGHHHHHHHHHHHTTT----CTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCS-CHHHHHHHHHHHTCGGGSSC
T ss_pred             cccCHHHHHHHHHHHHcC----CHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHhCCCCCCC
Confidence            4    4444455444433    4448888888999999   999999999999998854 555446677777554    7


Q ss_pred             ChHHHHHHHHHHHHcCCCCChhhHHHHHHH-H--HcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCC-----cH
Q 047359          270 QPEEVCGLLRDVVERGYIPCAMELSRFVAS-Q--CGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNR-----QI  341 (440)
Q Consensus       270 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----~~  341 (440)
                      ++++|..+|+... .|   +...+..+... +  ...+++++|.+.|++..+.|   +...+..+...|. .|     ++
T Consensus       232 d~~~A~~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~  303 (452)
T 3e4b_A          232 DEKTAQALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADA  303 (452)
T ss_dssp             CHHHHHHHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCH
T ss_pred             CHHHHHHHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCH
Confidence            9999999999988 43   45566666665 3  45799999999999999876   6667777777776 45     99


Q ss_pred             HHHHHHHHHHHhccCCcCHHhHHHHHHHHHh----cCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHh----cccHHHH
Q 047359          342 DKAIALHIKIEKLKGSLDVATYDVLLDGLFK----DGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCH----LKELRKA  413 (440)
Q Consensus       342 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a  413 (440)
                      ++|.+.|++.. .   -+...+..|...|..    ..+.++|...|++..+.|  ++.+...+...|..    ..+.++|
T Consensus       304 ~~A~~~~~~Aa-~---g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g--~~~A~~~Lg~~y~~G~g~~~d~~~A  377 (452)
T 3e4b_A          304 KAAEAHFEKAV-G---REVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNG--QNSADFAIAQLFSQGKGTKPDPLNA  377 (452)
T ss_dssp             HHHHHHHHTTT-T---TCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTT--CTTHHHHHHHHHHSCTTBCCCHHHH
T ss_pred             HHHHHHHHHHh-C---CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhC--hHHHHHHHHHHHHhCCCCCCCHHHH
Confidence            99999999888 3   366777788877776    449999999999998865  56677778887764    4589999


Q ss_pred             HHHHHHHHHCCC
Q 047359          414 MKNHDEMLKMGH  425 (440)
Q Consensus       414 ~~~~~~m~~~~~  425 (440)
                      ...|+...+.|.
T Consensus       378 ~~~~~~A~~~g~  389 (452)
T 3e4b_A          378 YVFSQLAKAQDT  389 (452)
T ss_dssp             HHHHHHHHTTCC
T ss_pred             HHHHHHHHHCCC
Confidence            999999988774

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.72  E-value=1.5e-15  Score=123.20  Aligned_cols=114  Identities=21%  Similarity=0.098  Sum_probs=47.7

Q ss_pred             CChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHH
Q 047359          269 HQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALH  348 (440)
Q Consensus       269 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  348 (440)
                      |++++|...++...+.. +.+...+..+...+...|++++|+..+++..+..  .+...+..+..+|...|++++|+..+
T Consensus        98 g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~~~A~~~~  174 (217)
T 2pl2_A           98 GYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALAELYLSMGRLDEALAQY  174 (217)
T ss_dssp             HHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCHHHHHHHH
Confidence            44444444444444432 1223344444444455555555555555554443  24444555555555555555555555


Q ss_pred             HHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHH
Q 047359          349 IKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYM  386 (440)
Q Consensus       349 ~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  386 (440)
                      ++..+..+. +...+..+...+...|++++|.+.|++.
T Consensus       175 ~~al~~~P~-~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          175 AKALEQAPK-DLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHHSTT-CHHHHHHHHHHHTC--------------
T ss_pred             HHHHHhCCC-ChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            555544322 3444455555555555555555555444

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.72  E-value=1.4e-15  Score=128.63  Aligned_cols=247  Identities=14%  Similarity=0.011  Sum_probs=151.4

Q ss_pred             CChhhHHHHHHHHHhcCC-CCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHH
Q 047359          162 EKTEVSDRIVGLMVEKKL-LPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAI  240 (440)
Q Consensus       162 ~~~~~a~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  240 (440)
                      |++++|...++++.+... .+......+..+...+...|++++|...|+++.+..+. +...+..+...+...|++++|.
T Consensus        19 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~A~   97 (275)
T 1xnf_A           19 LQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAAY   97 (275)
T ss_dssp             HHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHH
T ss_pred             chHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHccCHHHHH
Confidence            455556666665555421 11111445555666666666666666666666655433 4556666666677777777777


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcC
Q 047359          241 QIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKG  320 (440)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  320 (440)
                      ..|++..+..+. +...+..+...+...|++++|...++.+.+..  |+.......+..+...|++++|...+++.....
T Consensus        98 ~~~~~al~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~  174 (275)
T 1xnf_A           98 EAFDSVLELDPT-YNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS  174 (275)
T ss_dssp             HHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHhcCcc-ccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcC
Confidence            777766665432 45566666677777777777777777776643  333333333444455577777877777666543


Q ss_pred             CCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCc---CHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhH
Q 047359          321 LLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSL---DVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSF  397 (440)
Q Consensus       321 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  397 (440)
                      . ++... ..++..+...++.++|.+.+.+..+.....   +...+..+...|.+.|++++|...|+++.+..|.+... 
T Consensus       175 ~-~~~~~-~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~-  251 (275)
T 1xnf_A          175 D-KEQWG-WNIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFVE-  251 (275)
T ss_dssp             C-CCSTH-HHHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCHH-
T ss_pred             C-cchHH-HHHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchhHHH-
Confidence            2 23333 335666667777778888777776543211   24677888888888899999999888888876654333 


Q ss_pred             HHHHHHHHhcccHHHHHHHH
Q 047359          398 VIVVSRLCHLKELRKAMKNH  417 (440)
Q Consensus       398 ~~l~~~~~~~g~~~~a~~~~  417 (440)
                        ...++...|++++|++.+
T Consensus       252 --~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          252 --HRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             --HHHHHHHHHHHHHC----
T ss_pred             --HHHHHHHHHHHHhhHHHH
Confidence              355667778888887765

>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=99.72  E-value=3.6e-15  Score=130.81  Aligned_cols=249  Identities=7%  Similarity=-0.015  Sum_probs=180.4

Q ss_pred             hhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCc-HHHHHHHHHHHHhcCCCCCHHhHHHHH
Q 047359          149 STYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGK-TYAAEMIFKRACDEKIELQDDTCGCML  227 (440)
Q Consensus       149 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~  227 (440)
                      ..|..+...+.+.|++++|+..++++++..  |++ ..+|..+..++...|+ +++|+..++++....+. +...|..+.
T Consensus        98 ~a~~~lg~~~~~~g~~~~Al~~~~~al~l~--P~~-~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~-~~~a~~~~g  173 (382)
T 2h6f_A           98 DVYDYFRAVLQRDERSERAFKLTRDAIELN--AAN-YTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRR  173 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC--TTC-HHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHHhC--ccC-HHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCC-CHHHHHHHH
Confidence            355666666677777777777777777654  443 5667777777777775 77777777777776655 667777777


Q ss_pred             HHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHc-CCCH
Q 047359          228 KALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCG-KGKW  306 (440)
Q Consensus       228 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~  306 (440)
                      .++...|++++|+..|+++.+.... +...|..+..++...|++++|+..++.+++.+ +-+...|+.+..++.. .|..
T Consensus       174 ~~~~~~g~~~eAl~~~~kal~ldP~-~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~~~~  251 (382)
T 2h6f_A          174 VLVEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYN  251 (382)
T ss_dssp             HHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSC
T ss_pred             HHHHHccCHHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCcc
Confidence            7888888888888888888776654 66777777778888888888888888887764 3356677777777777 4554


Q ss_pred             HHH-----HHHHHHHHhcCCCCchhhhHHHHHHHHcCC--cHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcC-----
Q 047359          307 KEV-----EELLSAVLDKGLLLDSFCCSSLMEYYCSNR--QIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDG-----  374 (440)
Q Consensus       307 ~~a-----~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g-----  374 (440)
                      ++|     +..+++.....+. +...|..+..++...|  ++++|++.+.++ +.. ..+...+..+...|.+.|     
T Consensus       252 ~eA~~~~el~~~~~Al~l~P~-~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~-p~~~~al~~La~~~~~~~~~~~~  328 (382)
T 2h6f_A          252 DRAVLEREVQYTLEMIKLVPH-NESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPS-HSSPYLIAFLVDIYEDMLENQCD  328 (382)
T ss_dssp             SHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTT-CCCHHHHHHHHHHHHHHHHTTCS
T ss_pred             hHHHHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHccCccchHHHHHHHHHh-ccC-CCCHHHHHHHHHHHHHHhccccc
Confidence            666     4778887776544 6677888888888877  688888888887 432 235677888888888764     


Q ss_pred             ----cHHHHHHHHHHH-HHcCCCchhhHHHHHHHHHh
Q 047359          375 ----RMEEAVRIFDYM-KELKVVSSSSFVIVVSRLCH  406 (440)
Q Consensus       375 ----~~~~a~~~~~~~-~~~~~~~~~~~~~l~~~~~~  406 (440)
                          ..++|+++|+++ .+.+|.....|..+...+..
T Consensus       329 ~~~~~~~~A~~~~~~l~~~~DP~r~~~w~~~~~~l~~  365 (382)
T 2h6f_A          329 NKEDILNKALELCEILAKEKDTIRKEYWRYIGRSLQS  365 (382)
T ss_dssp             SHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHH
Confidence                258899999998 78877777777777666543

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.71  E-value=1.3e-15  Score=126.16  Aligned_cols=197  Identities=17%  Similarity=0.136  Sum_probs=99.8

Q ss_pred             hHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 047359          222 TCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQC  301 (440)
Q Consensus       222 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  301 (440)
                      .|..+...+...|++++|...|+++.+.... +...+..+...+...|++++|...++.+.+.. +.+...+..+...+.
T Consensus        25 ~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~  102 (243)
T 2q7f_A           25 TGGQQMGRGSEFGDYEKAAEAFTKAIEENKE-DAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNVYV  102 (243)
T ss_dssp             -----------------CCTTHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHHHH
Confidence            3444444445555555555555555443322 34444445555555555555555555554432 223444555555555


Q ss_pred             cCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHH
Q 047359          302 GKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVR  381 (440)
Q Consensus       302 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~  381 (440)
                      ..|++++|.+.++++.+.... +...+..+...+...|++++|...++++.+.... +...+..+...+.+.|++++|..
T Consensus       103 ~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~  180 (243)
T 2q7f_A          103 VKEMYKEAKDMFEKALRAGME-NGDLFYMLGTVLVKLEQPKLALPYLQRAVELNEN-DTEARFQFGMCLANEGMLDEALS  180 (243)
T ss_dssp             HTTCHHHHHHHHHHHHHHTCC-SHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHcCCHHHHHH
Confidence            555555555555555554322 4445555555666666666666666665554322 44555566666666666666666


Q ss_pred             HHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          382 IFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       382 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      .++++.+..+.++.++..+..++...|++++|...++++.+
T Consensus       181 ~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  221 (243)
T 2q7f_A          181 QFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAID  221 (243)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHH
T ss_pred             HHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHc
Confidence            66666666555555666666666666666666666666655

>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=99.71  E-value=6.3e-13  Score=124.38  Aligned_cols=422  Identities=9%  Similarity=-0.027  Sum_probs=289.1

Q ss_pred             CCChHhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccc---hhHHHHHHHHHHHcC-CCCChhh
Q 047359            9 DSQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNE---IRLASCLYGAMVRDG-VSPNKFT   84 (440)
Q Consensus         9 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~---~~~a~~~~~~~~~~~-~~~~~~~   84 (440)
                      +-|..+|..++..+.+.+.++.+..+|+.+...- +.+...|...+..-.+.++   ++.+.++|++.+... .+|++..
T Consensus        63 p~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~f-P~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~L  141 (679)
T 4e6h_A           63 PTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDRF-PLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLSL  141 (679)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHHH
T ss_pred             cCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHHH
Confidence            4678899999999999999999999999999864 5677888888888888888   999999999998763 1378888


Q ss_pred             HHHHHHHHHhcCCh--------HHHHHHHhccc--------CCchhHHHHHHHHHh---------cCChhHHHHHHHHHh
Q 047359           85 WSLVAQILCRSGKF--------EVVLGLLDSGI--------YSSVMYNLVIDFYSK---------KGDFGAAFDRLNEMC  139 (440)
Q Consensus        85 ~~~l~~~~~~~~~~--------~~a~~~~~~~~--------~~~~~~~~li~~~~~---------~~~~~~a~~~~~~~~  139 (440)
                      |...+....+.++.        +...++|+...        .+...|...+.....         .++++.+..+|++..
T Consensus       142 W~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~raL  221 (679)
T 4e6h_A          142 WLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTLL  221 (679)
T ss_dssp             HHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHHH
Confidence            88888776665553        33446666533        234567777765442         345778899999987


Q ss_pred             cCCCCCCchhhHHHHHHHHHh-------------cCChhhHHHHHHHHHhc--CC---CCcc------------------
Q 047359          140 NGRNLTPGFSTYSSILDGARR-------------YEKTEVSDRIVGLMVEK--KL---LPKH------------------  183 (440)
Q Consensus       140 ~~~~~~p~~~~~~~l~~~~~~-------------~~~~~~a~~~~~~~~~~--~~---~~~~------------------  183 (440)
                      . .....-..+|......-..             ..+++.|...+.++...  ++   .|..                  
T Consensus       222 ~-iP~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~~  300 (679)
T 4e6h_A          222 C-QPMDCLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQATESNLPKPNEYDVQ  300 (679)
T ss_dssp             T-SCCSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCCHH
T ss_pred             h-CccHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccccccchhccCCCCchhHHH
Confidence            5 2221122333322221111             11233344444443221  11   1110                  


Q ss_pred             cccchHHHHHHHhhcC-------cHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHH-HHHHHHHHcCCCCCh
Q 047359          184 FLSGNDYVIQKLSDMG-------KTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAI-QIYHLISERGITVRD  255 (440)
Q Consensus       184 ~~~~~~~l~~~~~~~~-------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~  255 (440)
                      ....|...+..-...+       ..+.+..+|++.....+. +...|...+..+...|+.++|. .+|++..... +.+.
T Consensus       301 ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~p~-~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~-P~s~  378 (679)
T 4e6h_A          301 QLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHVCF-APEIWFNMANYQGEKNTDSTVITKYLKLGQQCI-PNSA  378 (679)
T ss_dssp             HHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHTTT-CHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHC-TTCH
T ss_pred             HHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhC-CCCH
Confidence            0123333343332222       134456778888776544 7788888888888899999996 9999998754 3356


Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHHcC---------CCCC------------hhhHHHHHHHHHcCCCHHHHHHHHH
Q 047359          256 SDYYAFVNVLCKEHQPEEVCGLLRDVVERG---------YIPC------------AMELSRFVASQCGKGKWKEVEELLS  314 (440)
Q Consensus       256 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---------~~~~------------~~~~~~l~~~~~~~~~~~~a~~~~~  314 (440)
                      ..+...+....+.|++++|..+|+.+....         ..|+            ...|...+....+.|+.+.|..+|.
T Consensus       379 ~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~  458 (679)
T 4e6h_A          379 VLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFG  458 (679)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            667778888889999999999999987641         0131            2357777777778899999999999


Q ss_pred             HHHhcCCCCchhhhHHHHHHHHcC-CcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC-
Q 047359          315 AVLDKGLLLDSFCCSSLMEYYCSN-RQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV-  392 (440)
Q Consensus       315 ~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-  392 (440)
                      .+.+....+....|...+..-.+. ++.+.|.++|+...+.-. -+...|...+......|+.+.|..+|+++....++ 
T Consensus       459 ~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~p-~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~  537 (679)
T 4e6h_A          459 KCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKYFA-TDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDS  537 (679)
T ss_dssp             HHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSST
T ss_pred             HHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCC-CchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCH
Confidence            998761112233443333333344 458999999999998733 36667788888888899999999999999987763 


Q ss_pred             --chhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHHHHHHHhh
Q 047359          393 --SSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQVIS  437 (440)
Q Consensus       393 --~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~ll~  437 (440)
                        ....|...+..-.+.|+.+.+..+.+++.+.  .|+......+.+
T Consensus       538 ~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~--~P~~~~~~~f~~  582 (679)
T 4e6h_A          538 HLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEK--FPEVNKLEEFTN  582 (679)
T ss_dssp             THHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHH--STTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCcHHHHHHH
Confidence              5578888888888999999999999999983  566555554443

>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=99.71  E-value=5.9e-15  Score=123.01  Aligned_cols=209  Identities=11%  Similarity=-0.021  Sum_probs=141.4

Q ss_pred             ccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 047359          185 LSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNV  264 (440)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  264 (440)
                      ...+..+...+...|++++|...++++.+..+. +...+..+...+...|++++|...++++.+.... +...+..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEIDPS-SADAHAALAVVFQTEMEPKLADEEYRKALASDSR-NARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC-cHHHHHHHHHH
Confidence            344555555666666666666666666554332 4556666666677777777777777776665432 45566666777


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCC-ChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHH
Q 047359          265 LCKEHQPEEVCGLLRDVVERGYIP-CAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDK  343 (440)
Q Consensus       265 ~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  343 (440)
                      +...|++++|..+++.+.+.+..| +...+..+...+...|++++|...++++.+.... +...+..+...+...|++++
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~g~~~~  193 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRN-QPSVALEMADLLYKEREYVP  193 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHcCCHHH
Confidence            777777777777777776622223 4455666777777778888888888777766433 56677777788888888888


Q ss_pred             HHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhH
Q 047359          344 AIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSF  397 (440)
Q Consensus       344 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  397 (440)
                      |...++++.+... .+...+..+...+...|+.++|.+.++++.+..+.++...
T Consensus       194 A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  246 (252)
T 2ho1_A          194 ARQYYDLFAQGGG-QNARSLLLGIRLAKVFEDRDTAASYGLQLKRLYPGSLEYQ  246 (252)
T ss_dssp             HHHHHHHHHTTSC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSHHHH
T ss_pred             HHHHHHHHHHhCc-CcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCCHHHH
Confidence            8888888776543 3566777777888888888888888888888776655443

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.70  E-value=1.9e-15  Score=125.29  Aligned_cols=214  Identities=12%  Similarity=0.062  Sum_probs=148.7

Q ss_pred             ccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 047359          185 LSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNV  264 (440)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  264 (440)
                      ...+..+...+...|++++|...++++.+..+. +...+..+...+...|++++|...++++.+.... +...+..+...
T Consensus        23 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~  100 (243)
T 2q7f_A           23 SMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKE-DAIPYINFANLLSSVNELERALAFYDKALELDSS-AATAYYGAGNV  100 (243)
T ss_dssp             -------------------CCTTHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCc-chHHHHHHHHH
Confidence            445566666777777777777777777665443 5667777777777888888888888877776432 56677777778


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHH
Q 047359          265 LCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKA  344 (440)
Q Consensus       265 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  344 (440)
                      +...|++++|...++.+.+.. +.+...+..+...+...|++++|...++++.+.... +...+..+...+...|++++|
T Consensus       101 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A  178 (243)
T 2q7f_A          101 YVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNEN-DTEARFQFGMCLANEGMLDEA  178 (243)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHcCCHHHH
Confidence            888888888888888877654 345667777788888888888888888888776443 667778888888889999999


Q ss_pred             HHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHH
Q 047359          345 IALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSR  403 (440)
Q Consensus       345 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  403 (440)
                      ...++++.+.... +..++..+...|...|++++|.+.++++.+..+.++.++..+...
T Consensus       179 ~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l  236 (243)
T 2q7f_A          179 LSQFAAVTEQDPG-HADAFYNAGVTYAYKENREKALEMLDKAIDIQPDHMLALHAKKLL  236 (243)
T ss_dssp             HHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCTTCHHHHHHHTC-
T ss_pred             HHHHHHHHHhCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHccCcchHHHHHHHHHH
Confidence            9999888876433 577888888899999999999999999988887777666655443

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.70  E-value=2.2e-14  Score=117.23  Aligned_cols=211  Identities=9%  Similarity=-0.064  Sum_probs=145.5

Q ss_pred             ccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 047359          185 LSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNV  264 (440)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  264 (440)
                      ...+..+...+...|++++|.+.++++.+..+. +...+..+...+...|++++|...++++.+.... +..++..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~   85 (225)
T 2vq2_A            8 SNIKTQLAMEYMRGQDYRQATASIEDALKSDPK-NELAWLVRAEIYQYLKVNDKAQESFRQALSIKPD-SAEINNNYGWF   85 (225)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-ChHHHHHHHHH
Confidence            445555666666666666666666666655433 4556666677777777777777777777665432 45566667777


Q ss_pred             HHhc-CChHHHHHHHHHHHHcCCCC-ChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHH
Q 047359          265 LCKE-HQPEEVCGLLRDVVERGYIP-CAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQID  342 (440)
Q Consensus       265 ~~~~-~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  342 (440)
                      +... |++++|...++.+.+.+..| +...+..+...+...|++++|...++++.+..+. +...+..+...+...|+++
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~  164 (225)
T 2vq2_A           86 LCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQ-FPPAFKELARTKMLAGQLG  164 (225)
T ss_dssp             HHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTCHH
T ss_pred             HHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CchHHHHHHHHHHHcCCHH
Confidence            7777 77777777777776622122 2456667777777788888888888887766433 5667777888888888888


Q ss_pred             HHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHH
Q 047359          343 KAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFV  398 (440)
Q Consensus       343 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  398 (440)
                      +|...++++.+.....+...+..+...+...|+.+.|..+++.+.+..|.++....
T Consensus       165 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  220 (225)
T 2vq2_A          165 DADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANFPYSEELQT  220 (225)
T ss_dssp             HHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHH
Confidence            88888888877654236666777777778888888888888888777766555443

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.70  E-value=6.2e-14  Score=118.33  Aligned_cols=222  Identities=15%  Similarity=0.118  Sum_probs=135.1

Q ss_pred             ccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhh----hccHHHHHHHHHHHHHcCCCCChhhHHH
Q 047359          185 LSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSK----EGRVKEAIQIYHLISERGITVRDSDYYA  260 (440)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~  260 (440)
                      ..++..+...+...|++++|...|++..+.   -+...+..+...|..    .+++++|...|++..+.+   +...+..
T Consensus         6 ~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~   79 (273)
T 1ouv_A            6 PKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHL   79 (273)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             hHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHH
Confidence            334445555555556666666666555552   133455555555555    666666666666665554   4455555


Q ss_pred             HHHHHHh----cCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCCCchhhhHHHH
Q 047359          261 FVNVLCK----EHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCG----KGKWKEVEELLSAVLDKGLLLDSFCCSSLM  332 (440)
Q Consensus       261 l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  332 (440)
                      +...+..    .+++++|...++...+.+   +...+..+...|..    .+++++|...+++..+.+   +...+..+.
T Consensus        80 lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg  153 (273)
T 1ouv_A           80 LGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILG  153 (273)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             HHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHH
Confidence            5666666    666666666666666543   44555556666665    666666666666666653   344555555


Q ss_pred             HHHHc----CCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHh----cCcHHHHHHHHHHHHHcCCCchhhHHHHHHHH
Q 047359          333 EYYCS----NRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFK----DGRMEEAVRIFDYMKELKVVSSSSFVIVVSRL  404 (440)
Q Consensus       333 ~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  404 (440)
                      ..|..    .+++++|...+++..+.+   +...+..+...|..    .+++++|.+.|++..+.++  +..+..+...|
T Consensus       154 ~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~--~~a~~~l~~~~  228 (273)
T 1ouv_A          154 SLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELEN--GGGCFNLGAMQ  228 (273)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC--HHHHHHHHHHH
T ss_pred             HHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCC--HHHHHHHHHHH
Confidence            56655    667777777777666642   34556666666666    6777777777777666543  55666666666


Q ss_pred             Hh----cccHHHHHHHHHHHHHC
Q 047359          405 CH----LKELRKAMKNHDEMLKM  423 (440)
Q Consensus       405 ~~----~g~~~~a~~~~~~m~~~  423 (440)
                      ..    .+++++|.+.+++..+.
T Consensus       229 ~~g~~~~~~~~~A~~~~~~a~~~  251 (273)
T 1ouv_A          229 YNGEGVTRNEKQAIENFKKGCKL  251 (273)
T ss_dssp             HTTSSSSCCSTTHHHHHHHHHHH
T ss_pred             HcCCCcccCHHHHHHHHHHHHHc
Confidence            66    67777777777776664

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.68  E-value=4.1e-15  Score=125.74  Aligned_cols=248  Identities=15%  Similarity=-0.005  Sum_probs=183.8

Q ss_pred             hcCChhHHHHHHHHHhcCCCCC-C-chhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcH
Q 047359          124 KKGDFGAAFDRLNEMCNGRNLT-P-GFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKT  201 (440)
Q Consensus       124 ~~~~~~~a~~~~~~~~~~~~~~-p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  201 (440)
                      ..|++++|+..|+++.+..... | +...+..+...+...|++++|...++++.+..  |+. ...+..+...+...|++
T Consensus        17 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--~~~-~~~~~~la~~~~~~~~~   93 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR--PDM-PEVFNYLGIYLTQAGNF   93 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCC-HHHHHHHHHHHHHTTCH
T ss_pred             ccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC--CCc-HHHHHHHHHHHHHccCH
Confidence            4577889999999887721111 1 35577888888899999999999999988865  432 67888889999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHH
Q 047359          202 YAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDV  281 (440)
Q Consensus       202 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  281 (440)
                      ++|...+++..+..+. +...+..+..++...|++++|...++++.+..  |+.......+..+...|++++|...++..
T Consensus        94 ~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  170 (275)
T 1xnf_A           94 DAAYEAFDSVLELDPT-YNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQH  170 (275)
T ss_dssp             HHHHHHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCcc-ccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            9999999998887554 57788888999999999999999999988864  33334444555556778999999999888


Q ss_pred             HHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCC---chhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCc
Q 047359          282 VERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLL---DSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSL  358 (440)
Q Consensus       282 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p  358 (440)
                      .... +++... ..++..+...++.++|...+++........   +...+..+...|...|++++|...++++.+..  |
T Consensus       171 ~~~~-~~~~~~-~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p  246 (275)
T 1xnf_A          171 FEKS-DKEQWG-WNIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN--V  246 (275)
T ss_dssp             HHHS-CCCSTH-HHHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--C
T ss_pred             HhcC-CcchHH-HHHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC--c
Confidence            7753 333333 346677777888889999988876543211   25678888899999999999999999998853  3


Q ss_pred             CHHhHHHHHHHHHhcCcHHHHHHHH
Q 047359          359 DVATYDVLLDGLFKDGRMEEAVRIF  383 (440)
Q Consensus       359 ~~~~~~~l~~~~~~~g~~~~a~~~~  383 (440)
                      +.  +.....++...|++++|++.+
T Consensus       247 ~~--~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          247 HN--FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             TT--CHHHHHHHHHHHHHHHC----
T ss_pred             hh--HHHHHHHHHHHHHHHhhHHHH
Confidence            22  333455677888888887766

>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=99.68  E-value=1.1e-13  Score=116.68  Aligned_cols=226  Identities=11%  Similarity=0.045  Sum_probs=161.7

Q ss_pred             chhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhh----cCcHHHHHHHHHHHHhcCCCCCHHh
Q 047359          147 GFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSD----MGKTYAAEMIFKRACDEKIELQDDT  222 (440)
Q Consensus       147 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~  222 (440)
                      +..++..+...+...|++++|...|++..+.+   +  ...+..+...+..    .+++++|...|++..+.+   +...
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~---~--~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a   76 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---E--NSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNG   76 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---C--HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCC---C--HHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHH
Confidence            34455566666667777777777777766621   1  4556666677777    777777777777776654   5566


Q ss_pred             HHHHHHHHhh----hccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCCChhhHH
Q 047359          223 CGCMLKALSK----EGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCK----EHQPEEVCGLLRDVVERGYIPCAMELS  294 (440)
Q Consensus       223 ~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  294 (440)
                      +..+...|..    .+++++|+..|++..+.+   +...+..+...|..    .+++++|...++...+.+   +...+.
T Consensus        77 ~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~  150 (273)
T 1ouv_A           77 CHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCT  150 (273)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             HHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHH
Confidence            6777777777    777788887777777764   55667777777777    778888888888777754   445566


Q ss_pred             HHHHHHHc----CCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHc----CCcHHHHHHHHHHHHhccCCcCHHhHHHH
Q 047359          295 RFVASQCG----KGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCS----NRQIDKAIALHIKIEKLKGSLDVATYDVL  366 (440)
Q Consensus       295 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l  366 (440)
                      .+...+..    .+++++|...+++..+.+   +...+..+...|..    .+++++|.+.+++..+.+   +...+..+
T Consensus       151 ~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l  224 (273)
T 1ouv_A          151 ILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNL  224 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             HHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHH
Confidence            66666766    788888888888887763   45666777777777    888888888888887753   25667777


Q ss_pred             HHHHHh----cCcHHHHHHHHHHHHHcCCC
Q 047359          367 LDGLFK----DGRMEEAVRIFDYMKELKVV  392 (440)
Q Consensus       367 ~~~~~~----~g~~~~a~~~~~~~~~~~~~  392 (440)
                      ...|..    .+++++|.+.|++..+.++.
T Consensus       225 ~~~~~~g~~~~~~~~~A~~~~~~a~~~~~~  254 (273)
T 1ouv_A          225 GAMQYNGEGVTRNEKQAIENFKKGCKLGAK  254 (273)
T ss_dssp             HHHHHTTSSSSCCSTTHHHHHHHHHHHTCH
T ss_pred             HHHHHcCCCcccCHHHHHHHHHHHHHcCCH
Confidence            778887    88888888888888877654

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.66  E-value=3.3e-14  Score=112.26  Aligned_cols=174  Identities=11%  Similarity=-0.002  Sum_probs=130.4

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHH
Q 047359          254 RDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLME  333 (440)
Q Consensus       254 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  333 (440)
                      +...|..+...+...|++++|...|++..+.. +-+...+..+...+...|++++|...+......... +...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTT-SAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCch-hHHHHHHHHH
Confidence            34566666677777777777777777766653 335556667777777777777777777777665443 5556666777


Q ss_pred             HHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHH
Q 047359          334 YYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKA  413 (440)
Q Consensus       334 ~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  413 (440)
                      .+...++++.|.+.+.+..+..+. +...+..+...|.+.|++++|++.|+++.+.+|.++.++..+..+|.+.|++++|
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~~~-~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~A  160 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALNTV-YADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDEA  160 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHHH
Confidence            778888888888888888776443 6677888888888888888888888888888888888888888888889999999


Q ss_pred             HHHHHHHHHCCCCCCHHHH
Q 047359          414 MKNHDEMLKMGHKPDEATY  432 (440)
Q Consensus       414 ~~~~~~m~~~~~~p~~~t~  432 (440)
                      ++.|++.++  +.|+...|
T Consensus       161 ~~~~~~al~--~~p~~a~~  177 (184)
T 3vtx_A          161 VKYFKKALE--KEEKKAKY  177 (184)
T ss_dssp             HHHHHHHHH--TTHHHHHH
T ss_pred             HHHHHHHHh--CCccCHHH
Confidence            999988887  46765544

>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=99.66  E-value=4.1e-12  Score=118.96  Aligned_cols=392  Identities=9%  Similarity=0.000  Sum_probs=271.1

Q ss_pred             CcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCC---hHHHHH
Q 047359           27 LFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGK---FEVVLG  103 (440)
Q Consensus        27 ~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~  103 (440)
                      ...+-+..|+.....+ +-|...|..++..+.+.+.++.+..+|+.+... ++.....|...+..-.+.|+   ++.+..
T Consensus        47 ~~~d~i~~lE~~l~~n-p~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~  124 (679)
T 4e6h_A           47 DESDVIGKLNDMIEEQ-PTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDR-FPLMANIWCMRLSLEFDKMEELDAAVIEP  124 (679)
T ss_dssp             CCSCHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTC--CCCHHHHHH
T ss_pred             CCHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhhCCcchHHHHHH
Confidence            4566677778877776 569999999999999999999999999999886 45577889999998888898   999999


Q ss_pred             HHhccc------CCchhHHHHHHHHHhcCCh--------hHHHHHHHHHhcCCCC-CCc-hhhHHHHHHHHH--------
Q 047359          104 LLDSGI------YSSVMYNLVIDFYSKKGDF--------GAAFDRLNEMCNGRNL-TPG-FSTYSSILDGAR--------  159 (440)
Q Consensus       104 ~~~~~~------~~~~~~~~li~~~~~~~~~--------~~a~~~~~~~~~~~~~-~p~-~~~~~~l~~~~~--------  159 (440)
                      +|++..      |++..|...+....+.++.        +.+.++|+......|. .|+ ...|...+....        
T Consensus       125 lfeRal~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~  204 (679)
T 4e6h_A          125 VLARCLSKELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKF  204 (679)
T ss_dssp             HHHHHTCSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHH
T ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcH
Confidence            999976      4556677777666665554        3345788887664676 664 457777666443        


Q ss_pred             -hcCChhhHHHHHHHHHhcCCCCcccccchHH---HHHHHh----------hcCcHHHHHHHHHHHHhc--CCC------
Q 047359          160 -RYEKTEVSDRIVGLMVEKKLLPKHFLSGNDY---VIQKLS----------DMGKTYAAEMIFKRACDE--KIE------  217 (440)
Q Consensus       160 -~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~---l~~~~~----------~~~~~~~a~~~~~~~~~~--~~~------  217 (440)
                       ..++.+.+..+|+..+..  +......+|..   ......          ...+++.|...+.++...  ++.      
T Consensus       205 eeq~~~~~~R~iy~raL~i--P~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~  282 (679)
T 4e6h_A          205 EEQQRVQYIRKLYKTLLCQ--PMDCLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPIT  282 (679)
T ss_dssp             HHHHHHHHHHHHHHHHTTS--CCSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSS
T ss_pred             HHHhHHHHHHHHHHHHHhC--ccHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccc
Confidence             234567888999998853  11111222221   111110          112344455555543221  110      


Q ss_pred             ---------C--C------HHhHHHHHHHHhhhc-------cHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHH
Q 047359          218 ---------L--Q------DDTCGCMLKALSKEG-------RVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEE  273 (440)
Q Consensus       218 ---------~--~------~~~~~~l~~~~~~~~-------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  273 (440)
                               |  +      ...|...+.---..+       ..+.+..+|++.....+ .....|...+..+...|+.++
T Consensus       283 ~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~p-~~~~lW~~ya~~~~~~~~~~~  361 (679)
T 4e6h_A          283 LNQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHVC-FAPEIWFNMANYQGEKNTDST  361 (679)
T ss_dssp             STTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHSCCTT
T ss_pred             cccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHcC-CCHHHHHHHHHHHHhcCcHHH
Confidence                     1  0      123444444322221       23456678888877643 367788888888888999999


Q ss_pred             HH-HHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCC---------CC------------chhhhHHH
Q 047359          274 VC-GLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGL---------LL------------DSFCCSSL  331 (440)
Q Consensus       274 a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---------~~------------~~~~~~~l  331 (440)
                      |. .+++..... ++.+...+-..+......|++++|.++|+.+.....         .|            ....|...
T Consensus       362 a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y  440 (679)
T 4e6h_A          362 VITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVY  440 (679)
T ss_dssp             HHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHH
Confidence            97 999999875 345556677788888889999999999999876410         13            12367778


Q ss_pred             HHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhc-CcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccH
Q 047359          332 MEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKD-GRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKEL  410 (440)
Q Consensus       332 ~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~-g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  410 (440)
                      +....+.|+.+.|..+|.++.+....+....|...+..-.+. ++.+.|.++|+...+..+.++..|...+......|+.
T Consensus       441 ~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~p~~~~~w~~y~~fe~~~~~~  520 (679)
T 4e6h_A          441 MNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKYFATDGEYINKYLDFLIYVNEE  520 (679)
T ss_dssp             HHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhCCCH
Confidence            888888899999999999998761122334444443333444 4599999999999998777888888999988899999


Q ss_pred             HHHHHHHHHHHHCC
Q 047359          411 RKAMKNHDEMLKMG  424 (440)
Q Consensus       411 ~~a~~~~~~m~~~~  424 (440)
                      +.|..+|++.+...
T Consensus       521 ~~AR~lferal~~~  534 (679)
T 4e6h_A          521 SQVKSLFESSIDKI  534 (679)
T ss_dssp             HHHHHHHHHHTTTS
T ss_pred             HHHHHHHHHHHHhc
Confidence            99999999998853

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.66  E-value=1.4e-14  Score=129.76  Aligned_cols=292  Identities=12%  Similarity=0.011  Sum_probs=192.3

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCc-----hhhHHHHHHHHHhcCChhhHHHHHHHHHhc----CCCCcccc
Q 047359          115 YNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPG-----FSTYSSILDGARRYEKTEVSDRIVGLMVEK----KLLPKHFL  185 (440)
Q Consensus       115 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~  185 (440)
                      +......+...|++++|...|++..+   ..|+     ...+..+...+...|++++|...+++....    +..|. ..
T Consensus        12 l~~~g~~~~~~g~~~~A~~~~~~al~---~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~-~~   87 (406)
T 3sf4_A           12 LALEGERLCKSGDCRAGVSFFEAAVQ---VGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLG-EA   87 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH---HCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH-HH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHh---cCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHH-HH
Confidence            44445556666666666666666655   2222     234556666666677777777766665432    11111 14


Q ss_pred             cchHHHHHHHhhcCcHHHHHHHHHHHHhcCCC-C----CHHhHHHHHHHHhhhcc--------------------HHHHH
Q 047359          186 SGNDYVIQKLSDMGKTYAAEMIFKRACDEKIE-L----QDDTCGCMLKALSKEGR--------------------VKEAI  240 (440)
Q Consensus       186 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~----~~~~~~~l~~~~~~~~~--------------------~~~a~  240 (440)
                      .++..+...+...|++++|...+++..+.... +    ...++..+...|...|+                    +++|.
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            45666677777777777777777766543111 1    13366777777888888                    88888


Q ss_pred             HHHHHHHHc----CCC-CChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-CC----hhhHHHHHHHHHcCCCHHHHH
Q 047359          241 QIYHLISER----GIT-VRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYI-PC----AMELSRFVASQCGKGKWKEVE  310 (440)
Q Consensus       241 ~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~  310 (440)
                      ..+++..+.    +.. ....++..+...+...|++++|...++...+.... ++    ..++..+...+...|++++|.
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            887776442    111 12346777778888889999998888887653111 11    236777888888899999999


Q ss_pred             HHHHHHHhcCCC----C-chhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCC-c----CHHhHHHHHHHHHhcCcHHHHH
Q 047359          311 ELLSAVLDKGLL----L-DSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGS-L----DVATYDVLLDGLFKDGRMEEAV  380 (440)
Q Consensus       311 ~~~~~~~~~~~~----~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-p----~~~~~~~l~~~~~~~g~~~~a~  380 (440)
                      ..+++.......    + ...++..+...|...|++++|.+.+++..+.... +    ...++..+...|...|++++|.
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            999887643111    0 1456778888899999999999999988764211 1    1457788888999999999999


Q ss_pred             HHHHHHHHcCC----C--chhhHHHHHHHHHhcccH
Q 047359          381 RIFDYMKELKV----V--SSSSFVIVVSRLCHLKEL  410 (440)
Q Consensus       381 ~~~~~~~~~~~----~--~~~~~~~l~~~~~~~g~~  410 (440)
                      +.+++..+...    .  ...++..+...+...|+.
T Consensus       328 ~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  363 (406)
T 3sf4_A          328 HFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLS  363 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHh
Confidence            99998765421    1  345677788888777765

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.65  E-value=5.5e-15  Score=132.80  Aligned_cols=273  Identities=11%  Similarity=-0.023  Sum_probs=138.5

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCch-----hhHHHHHHHHHhcCChhhHHHHHHHHHhcC----CCCcccc
Q 047359          115 YNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGF-----STYSSILDGARRYEKTEVSDRIVGLMVEKK----LLPKHFL  185 (440)
Q Consensus       115 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~  185 (440)
                      +..+...+...|++++|...|++..+   ..|+.     ..+..+...+...|++++|...+++..+..    ..|. ..
T Consensus        51 l~~~g~~~~~~g~~~~A~~~~~~al~---~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~-~~  126 (411)
T 4a1s_A           51 LALEGERLCNAGDCRAGVAFFQAAIQ---AGTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLG-EA  126 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH---HCCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHH-HH
T ss_pred             HHHHHHHHHHhCcHHHHHHHHHHHHH---hcccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchH-HH
Confidence            44455666667777777777777665   22331     345566666666777777777776666531    0111 13


Q ss_pred             cchHHHHHHHhhcCcHHHHHHHHHHHHhcC-----CCCCHHhHHHHHHHHhhhcc-----------------HHHHHHHH
Q 047359          186 SGNDYVIQKLSDMGKTYAAEMIFKRACDEK-----IELQDDTCGCMLKALSKEGR-----------------VKEAIQIY  243 (440)
Q Consensus       186 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~-----------------~~~a~~~~  243 (440)
                      ..+..+...+...|++++|...+++..+..     ......++..+...|...|+                 +++|...+
T Consensus       127 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~  206 (411)
T 4a1s_A          127 KSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFY  206 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHH
Confidence            445555666666666666666666554421     01122344455555555555                 55555554


Q ss_pred             HHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCC
Q 047359          244 HLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGY-IPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLL  322 (440)
Q Consensus       244 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  322 (440)
                      ++..+..                               ...+. ......+..+...+...|++++|...+++..+....
T Consensus       207 ~~al~~~-------------------------------~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~  255 (411)
T 4a1s_A          207 QENLKLM-------------------------------RDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIARE  255 (411)
T ss_dssp             HHHHHHH-------------------------------HHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHH-------------------------------HHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHh
Confidence            4433210                               00000 011123444444455555555555555544432100


Q ss_pred             -Cc----hhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCC-----cCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC
Q 047359          323 -LD----SFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGS-----LDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV  392 (440)
Q Consensus       323 -~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  392 (440)
                       ++    ...+..+...|...|++++|.+.+++..+....     ....++..+...|...|++++|...+++..+....
T Consensus       256 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~  335 (411)
T 4a1s_A          256 FGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQE  335 (411)
T ss_dssp             HTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             cCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence             00    124455555566666666666666555542110     01344555666666666666666666655443211


Q ss_pred             ------chhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          393 ------SSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       393 ------~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                            ...++..+...|...|++++|...+++..+
T Consensus       336 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  371 (411)
T 4a1s_A          336 LGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQ  371 (411)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence                  233555666666666666666666666554

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.64  E-value=2.5e-14  Score=128.16  Aligned_cols=275  Identities=11%  Similarity=-0.012  Sum_probs=212.3

Q ss_pred             CchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcc---cccchHHHHHHHhhcCcHHHHHHHHHHHHhc----CCCC
Q 047359          146 PGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKH---FLSGNDYVIQKLSDMGKTYAAEMIFKRACDE----KIEL  218 (440)
Q Consensus       146 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~  218 (440)
                      +....+......+...|++++|...+++..+..  |++   ....+..+...+...|++++|...+++....    +..|
T Consensus         7 ~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~   84 (406)
T 3sf4_A            7 ASCLELALEGERLCKSGDCRAGVSFFEAAVQVG--TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQL   84 (406)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccH
Confidence            455566777888999999999999999999874  332   1246788899999999999999999987543    1111


Q ss_pred             -CHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCC-C----ChhhHHHHHHHHHhcCC--------------------hH
Q 047359          219 -QDDTCGCMLKALSKEGRVKEAIQIYHLISERGIT-V----RDSDYYAFVNVLCKEHQ--------------------PE  272 (440)
Q Consensus       219 -~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~----~~~~~~~l~~~~~~~~~--------------------~~  272 (440)
                       ...++..+...+...|++++|...+++..+.... +    ...++..+...+...|+                    ++
T Consensus        85 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~  164 (406)
T 3sf4_A           85 GEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQ  164 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHH
Confidence             2457788889999999999999999987654211 1    13477888888999999                    99


Q ss_pred             HHHHHHHHHHHc----CC-CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCC-Cc----hhhhHHHHHHHHcCCcHH
Q 047359          273 EVCGLLRDVVER----GY-IPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLL-LD----SFCCSSLMEYYCSNRQID  342 (440)
Q Consensus       273 ~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~  342 (440)
                      +|...++...+.    +. +....++..+...+...|++++|...+++..+.... ++    ..++..+...|...|+++
T Consensus       165 ~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  244 (406)
T 3sf4_A          165 AAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFE  244 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChH
Confidence            999998887542    11 112346778888899999999999999988753211 11    237788888999999999


Q ss_pred             HHHHHHHHHHhccCC-cC----HHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC------chhhHHHHHHHHHhcccHH
Q 047359          343 KAIALHIKIEKLKGS-LD----VATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV------SSSSFVIVVSRLCHLKELR  411 (440)
Q Consensus       343 ~a~~~~~~~~~~~~~-p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~------~~~~~~~l~~~~~~~g~~~  411 (440)
                      +|...+++..+.... ++    ..++..+...|...|++++|...++++.+....      ...++..+...|...|+++
T Consensus       245 ~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  324 (406)
T 3sf4_A          245 TASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHD  324 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHH
Confidence            999999998754211 11    457788899999999999999999988764322      2568889999999999999


Q ss_pred             HHHHHHHHHHH
Q 047359          412 KAMKNHDEMLK  422 (440)
Q Consensus       412 ~a~~~~~~m~~  422 (440)
                      +|...+++..+
T Consensus       325 ~A~~~~~~al~  335 (406)
T 3sf4_A          325 QAMHFAEKHLE  335 (406)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999998765

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.62  E-value=5.1e-14  Score=128.24  Aligned_cols=214  Identities=11%  Similarity=-0.029  Sum_probs=170.7

Q ss_pred             HHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccH-HHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHH
Q 047359          201 TYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRV-KEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLR  279 (440)
Q Consensus       201 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  279 (440)
                      ++++...++....... .+...+..+...+...|++ ++|+..|++..+.... +...+..+..+|...|++++|...++
T Consensus        84 ~~~al~~l~~~~~~~~-~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           84 MEKTLQQMEEVLGSAQ-VEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPE-LVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHTTCC-CCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCc-hhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            4556666665554433 3667777788888888888 8888888888776543 56778888888888888888888888


Q ss_pred             HHHHcCCCCChhhHHHHHHHHHcC---------CCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcC--------CcHH
Q 047359          280 DVVERGYIPCAMELSRFVASQCGK---------GKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSN--------RQID  342 (440)
Q Consensus       280 ~~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~~~~  342 (440)
                      ...+..  |+...+..+...+...         |++++|...+++..+..+. +...|..+..+|...        |+++
T Consensus       162 ~al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~~~~g~~~  238 (474)
T 4abn_A          162 GALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVL-DGRSWYILGNAYLSLYFNTGQNPKISQ  238 (474)
T ss_dssp             HHHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHhhccccchHH
Confidence            887754  5667778888888888         8899999999988887544 677888888888888        8899


Q ss_pred             HHHHHHHHHHhccCC--cCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHH
Q 047359          343 KAIALHIKIEKLKGS--LDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDE  419 (440)
Q Consensus       343 ~a~~~~~~~~~~~~~--p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  419 (440)
                      +|++.|++..+....  -+...|..+..+|...|++++|.+.|+++.+..|.++.++..+..++...|++++|++.+.+
T Consensus       239 ~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          239 QALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             HHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            999999999886431  27788899999999999999999999999999888888899999999999999999876543

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.62  E-value=4.2e-14  Score=127.04  Aligned_cols=277  Identities=13%  Similarity=0.077  Sum_probs=179.8

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHhccc---CCc-----hhHHHHHHHHHhcCChhHHHHHHHHHhcC---CCCCC-chhh
Q 047359           83 FTWSLVAQILCRSGKFEVVLGLLDSGI---YSS-----VMYNLVIDFYSKKGDFGAAFDRLNEMCNG---RNLTP-GFST  150 (440)
Q Consensus        83 ~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~-----~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~p-~~~~  150 (440)
                      ..+..+...+...|++++|...|++..   |+.     .++..+...+...|++++|...|++..+.   .+..| ....
T Consensus        49 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  128 (411)
T 4a1s_A           49 LELALEGERLCNAGDCRAGVAFFQAAIQAGTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKS  128 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHH
Confidence            445567788899999999999999987   442     46888999999999999999999998651   11122 3457


Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHhcCC----CCcccccchHHHHHHHhhcCc-----------------HHHHHHHHH
Q 047359          151 YSSILDGARRYEKTEVSDRIVGLMVEKKL----LPKHFLSGNDYVIQKLSDMGK-----------------TYAAEMIFK  209 (440)
Q Consensus       151 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~~-----------------~~~a~~~~~  209 (440)
                      +..+...+...|++++|...+++..+...    .|. ...++..+...+...|+                 +++|.+.++
T Consensus       129 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~  207 (411)
T 4a1s_A          129 SGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLS-EGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQ  207 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHH-HHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHH-HHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHH
Confidence            78888899999999999999999887521    122 25578888999999999                 777877777


Q ss_pred             HHHhcC----C-CCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 047359          210 RACDEK----I-ELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVER  284 (440)
Q Consensus       210 ~~~~~~----~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  284 (440)
                      +..+..    . .....++..+...+...|++++|...+++..+..... ..                            
T Consensus       208 ~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~-~~----------------------------  258 (411)
T 4a1s_A          208 ENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREF-GD----------------------------  258 (411)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH-TC----------------------------
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhc-CC----------------------------
Confidence            654321    0 0112244444445555555555555555443321000 00                            


Q ss_pred             CCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCC-----CchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCC--
Q 047359          285 GYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLL-----LDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGS--  357 (440)
Q Consensus       285 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--  357 (440)
                       .......+..+...+...|++++|...+++.......     ....++..+...|...|++++|.+.+++..+....  
T Consensus       259 -~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  337 (411)
T 4a1s_A          259 -RAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELG  337 (411)
T ss_dssp             -HHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHT
T ss_pred             -cHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC
Confidence             0000124455555666666666666666655432110     11345666777777888888888877777653111  


Q ss_pred             ---cCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcC
Q 047359          358 ---LDVATYDVLLDGLFKDGRMEEAVRIFDYMKELK  390 (440)
Q Consensus       358 ---p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  390 (440)
                         ....++..+...|.+.|++++|.+.+++..+..
T Consensus       338 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  373 (411)
T 4a1s_A          338 DRIGEARACWSLGNAHSAIGGHERALKYAEQHLQLA  373 (411)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             ChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHH
Confidence               113466777888888888888888888877653

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.62  E-value=4.1e-14  Score=123.20  Aligned_cols=277  Identities=12%  Similarity=-0.002  Sum_probs=155.2

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCc-----hhhHHHHHHHHHhcCChhhHHHHHHHHHhcCC---CCccccc
Q 047359          115 YNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPG-----FSTYSSILDGARRYEKTEVSDRIVGLMVEKKL---LPKHFLS  186 (440)
Q Consensus       115 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~  186 (440)
                      +......+...|++++|...|+++.+   ..|+     ...+..+...+...|++++|...+++..+...   .+.....
T Consensus         8 l~~~g~~~~~~g~~~~A~~~~~~al~---~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~   84 (338)
T 3ro2_A            8 LALEGERLCKSGDCRAGVSFFEAAVQ---VGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAK   84 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH---HCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHh---hCcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHH
Confidence            33444555666666666666666655   2232     23455555566666666666666666544210   0100133


Q ss_pred             chHHHHHHHhhcCcHHHHHHHHHHHHhcCCC-CC----HHhHHHHHHHHhhhcc-------------HHHHHHHHHHHHH
Q 047359          187 GNDYVIQKLSDMGKTYAAEMIFKRACDEKIE-LQ----DDTCGCMLKALSKEGR-------------VKEAIQIYHLISE  248 (440)
Q Consensus       187 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~-------------~~~a~~~~~~~~~  248 (440)
                      ++..+...+...|++++|...+++..+.... ++    ..++..+...+...|+             .+++...      
T Consensus        85 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~------  158 (338)
T 3ro2_A           85 ASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNA------  158 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHH------
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHH------
Confidence            4444455555555555555555544332110 01    1133344444444444             0000000      


Q ss_pred             cCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHc----CC-CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCC-
Q 047359          249 RGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVER----GY-IPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLL-  322 (440)
Q Consensus       249 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-  322 (440)
                                            +++|...++...+.    +. ......+..+...+...|++++|...+++..+.... 
T Consensus       159 ----------------------~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~  216 (338)
T 3ro2_A          159 ----------------------LQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEF  216 (338)
T ss_dssp             ----------------------HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHH
T ss_pred             ----------------------HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhc
Confidence                                  44444444443221    10 111234555666666677777777777666532110 


Q ss_pred             ----CchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCC-cC----HHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC-
Q 047359          323 ----LDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGS-LD----VATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV-  392 (440)
Q Consensus       323 ----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-  392 (440)
                          ....++..+...+...|++++|.+.+++..+.... ++    ..++..+...+...|++++|...++++.+..+. 
T Consensus       217 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~  296 (338)
T 3ro2_A          217 GDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQEL  296 (338)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhc
Confidence                11236667777888888888888888877653211 11    456777888888999999999998887654322 


Q ss_pred             -----chhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          393 -----SSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       393 -----~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                           ...++..+...+.+.|++++|...+++..+
T Consensus       297 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  331 (338)
T 3ro2_A          297 KDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  331 (338)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence                 245777888899999999999999998887

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.61  E-value=1.1e-12  Score=112.61  Aligned_cols=221  Identities=8%  Similarity=-0.083  Sum_probs=115.5

Q ss_pred             hhHHHHHHHHHhcCCCCcccccchHHHHHHHhh-------cCcH-------HHHHHHHHHHHhc-CCCCCHHhHHHHHHH
Q 047359          165 EVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSD-------MGKT-------YAAEMIFKRACDE-KIELQDDTCGCMLKA  229 (440)
Q Consensus       165 ~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~-------~~a~~~~~~~~~~-~~~~~~~~~~~l~~~  229 (440)
                      ++|..+|++.+...  |++ ...|..++..+..       .|++       ++|..+|++..+. .+. +...|..++..
T Consensus        33 ~~a~~~~~~al~~~--p~~-~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~-~~~~~~~~~~~  108 (308)
T 2ond_A           33 KRVMFAYEQCLLVL--GHH-PDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKK-NMLLYFAYADY  108 (308)
T ss_dssp             HHHHHHHHHHHHHH--TTC-HHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc--CCC-HHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcc-cHHHHHHHHHH
Confidence            45556666666543  332 4455555555542       3553       5666666666552 222 44456666666


Q ss_pred             HhhhccHHHHHHHHHHHHHcCCCCChh-hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHH-cCCCHH
Q 047359          230 LSKEGRVKEAIQIYHLISERGITVRDS-DYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQC-GKGKWK  307 (440)
Q Consensus       230 ~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~  307 (440)
                      +.+.|++++|..+|++..+..+. +.. .|..+...+.+.|++++|..+|+...+.. +++...|........ ..|+++
T Consensus       109 ~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~  186 (308)
T 2ond_A          109 EESRMKYEKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKS  186 (308)
T ss_dssp             HHHTTCHHHHHHHHHHHHTSSSS-CTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHH
T ss_pred             HHhcCCHHHHHHHHHHHHhcccc-CccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHH
Confidence            66666666666666666653221 122 55555555666666666666666665542 122233322222211 245666


Q ss_pred             HHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhcc-CCc--CHHhHHHHHHHHHhcCcHHHHHHHHH
Q 047359          308 EVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLK-GSL--DVATYDVLLDGLFKDGRMEEAVRIFD  384 (440)
Q Consensus       308 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~p--~~~~~~~l~~~~~~~g~~~~a~~~~~  384 (440)
                      +|..+|++..+..+. +...|..++..+.+.|+.++|..+|++..... ..|  ....|..++..+.+.|+.+.|..+++
T Consensus       187 ~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~  265 (308)
T 2ond_A          187 VAFKIFELGLKKYGD-IPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEK  265 (308)
T ss_dssp             HHHHHHHHHHHHHTT-CHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            666666665554322 44555555555556666666666666665542 222  23455555555555666666666666


Q ss_pred             HHHHcCCC
Q 047359          385 YMKELKVV  392 (440)
Q Consensus       385 ~~~~~~~~  392 (440)
                      ++.+..|.
T Consensus       266 ~a~~~~p~  273 (308)
T 2ond_A          266 RRFTAFRE  273 (308)
T ss_dssp             HHHHHTTT
T ss_pred             HHHHHccc
Confidence            66555554

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.61  E-value=2.4e-13  Score=120.83  Aligned_cols=231  Identities=10%  Similarity=-0.035  Sum_probs=174.5

Q ss_pred             HHHHHhhcCcHHHHHHHHHHHHhcC----CCC-CHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCC------CChhhHH
Q 047359          191 VIQKLSDMGKTYAAEMIFKRACDEK----IEL-QDDTCGCMLKALSKEGRVKEAIQIYHLISERGIT------VRDSDYY  259 (440)
Q Consensus       191 l~~~~~~~~~~~~a~~~~~~~~~~~----~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~------~~~~~~~  259 (440)
                      ....+...|++++|...+++..+.-    ..+ ...++..+...|...|+++.|...+++..+....      ....++.
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            5677788899999999999887641    111 2457888888999999999999999887664111      1235678


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCC-C----ChhhHHHHHHHHHcCCCHHHHHHHHHHHHhc----CC-CCchhhhH
Q 047359          260 AFVNVLCKEHQPEEVCGLLRDVVERGYI-P----CAMELSRFVASQCGKGKWKEVEELLSAVLDK----GL-LLDSFCCS  329 (440)
Q Consensus       260 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~  329 (440)
                      .+...|...|++++|...++...+.... +    ...++..+...|...|++++|...+++..+.    +. +....++.
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            8888999999999999999988753111 1    1247788899999999999999999998762    22 33466788


Q ss_pred             HHHHHHHcCCcHHHHHHHHHHHHhcc----CCcCHHhHHHHHHHHHhcCc---HHHHHHHHHHHHHcCCCchhhHHHHHH
Q 047359          330 SLMEYYCSNRQIDKAIALHIKIEKLK----GSLDVATYDVLLDGLFKDGR---MEEAVRIFDYMKELKVVSSSSFVIVVS  402 (440)
Q Consensus       330 ~l~~~~~~~~~~~~a~~~~~~~~~~~----~~p~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~~~~~~~~l~~  402 (440)
                      .+...|...|++++|.+.+++..+..    -......+..+...+...|+   .++|..++++... .+.....+..+..
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~-~~~~~~~~~~la~  347 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKML-YADLEDFAIDVAK  347 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTC-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcC-HHHHHHHHHHHHH
Confidence            88999999999999999999887642    11122345678888889998   7778877776611 1114567888999


Q ss_pred             HHHhcccHHHHHHHHHHHHH
Q 047359          403 RLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       403 ~~~~~g~~~~a~~~~~~m~~  422 (440)
                      .|...|++++|...+++..+
T Consensus       348 ~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          348 YYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHH
Confidence            99999999999999999875

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.60  E-value=9.2e-14  Score=120.94  Aligned_cols=277  Identities=13%  Similarity=0.061  Sum_probs=175.0

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHhccc---CC-----chhHHHHHHHHHhcCChhHHHHHHHHHhcC---CCCCC-chhh
Q 047359           83 FTWSLVAQILCRSGKFEVVLGLLDSGI---YS-----SVMYNLVIDFYSKKGDFGAAFDRLNEMCNG---RNLTP-GFST  150 (440)
Q Consensus        83 ~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~-----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~p-~~~~  150 (440)
                      ..+......+...|++++|...|++..   |+     ...+..+...+...|++++|.+.+++..+.   .+..| ....
T Consensus         6 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~   85 (338)
T 3ro2_A            6 LELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKA   85 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHH
Confidence            345566778899999999999999977   44     356888999999999999999999997651   11122 2457


Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHhcCCC---CcccccchHHHHHHHhhcCc--------------------HHHHHHH
Q 047359          151 YSSILDGARRYEKTEVSDRIVGLMVEKKLL---PKHFLSGNDYVIQKLSDMGK--------------------TYAAEMI  207 (440)
Q Consensus       151 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~--------------------~~~a~~~  207 (440)
                      +..+...+...|++++|...+++..+....   +.....++..+...+...|+                    +++|.+.
T Consensus        86 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~  165 (338)
T 3ro2_A           86 SGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDL  165 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHH
Confidence            788888999999999999999998875321   11112367778888888888                    7777777


Q ss_pred             HHHHHhc----CC-CCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 047359          208 FKRACDE----KI-ELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVV  282 (440)
Q Consensus       208 ~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  282 (440)
                      +++....    +. .....++..+...+...|++++|...+++..+....                              
T Consensus       166 ~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~------------------------------  215 (338)
T 3ro2_A          166 YEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKE------------------------------  215 (338)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH------------------------------
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHh------------------------------
Confidence            7665432    00 001223444444444555555555554444332100                              


Q ss_pred             HcCC-CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCC-----CchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccC
Q 047359          283 ERGY-IPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLL-----LDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKG  356 (440)
Q Consensus       283 ~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  356 (440)
                       .+. .....++..+...+...|++++|...+++.......     ....++..+...|...|++++|...+++..+...
T Consensus       216 -~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~  294 (338)
T 3ro2_A          216 -FGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQ  294 (338)
T ss_dssp             -HTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             -cCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHH
Confidence             000 001124455555566666666666666655432110     0134566667777788888888887777765321


Q ss_pred             C-----cCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcC
Q 047359          357 S-----LDVATYDVLLDGLFKDGRMEEAVRIFDYMKELK  390 (440)
Q Consensus       357 ~-----p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  390 (440)
                      .     ....++..+...|.+.|++++|...++++.+..
T Consensus       295 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  333 (338)
T 3ro2_A          295 ELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEIS  333 (338)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC-
T ss_pred             hcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHH
Confidence            1     113466777888888888888888888877653

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.59  E-value=6.1e-13  Score=104.87  Aligned_cols=170  Identities=15%  Similarity=0.055  Sum_probs=113.6

Q ss_pred             CHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHH
Q 047359          219 QDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVA  298 (440)
Q Consensus       219 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  298 (440)
                      ++.+|..+...|.+.|++++|+..|++..+..+. +...+..+..++.+.|++++|...+....... +.+...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPN-NVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHH
Confidence            4456666666666667777777777666665433 45566666666667777777777776666543 234445555566


Q ss_pred             HHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHH
Q 047359          299 SQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEE  378 (440)
Q Consensus       299 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  378 (440)
                      .+...++++.+...+.+.....+. +...+..+...|...|++++|++.|++..+..+. +..+|..+..+|.+.|++++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~~~-~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALNTV-YADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPG-FIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHhCCchhHHHHHHHHHHhcch-hhhHHHHHHHHHHHCCCHHH
Confidence            666677777777777777665433 5566667777777777777777777777765443 56677777777777777777


Q ss_pred             HHHHHHHHHHcCCC
Q 047359          379 AVRIFDYMKELKVV  392 (440)
Q Consensus       379 a~~~~~~~~~~~~~  392 (440)
                      |++.|+++.+.+|.
T Consensus       160 A~~~~~~al~~~p~  173 (184)
T 3vtx_A          160 AVKYFKKALEKEEK  173 (184)
T ss_dssp             HHHHHHHHHHTTHH
T ss_pred             HHHHHHHHHhCCcc
Confidence            77777777776544

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.58  E-value=2.4e-12  Score=110.45  Aligned_cols=181  Identities=10%  Similarity=0.013  Sum_probs=80.9

Q ss_pred             HHHHHHHHHHHHc-CCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-hh-hHHHHHHHHHcCCCHHHHHHHH
Q 047359          237 KEAIQIYHLISER-GITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPC-AM-ELSRFVASQCGKGKWKEVEELL  313 (440)
Q Consensus       237 ~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~-~~~~l~~~~~~~~~~~~a~~~~  313 (440)
                      ++|..+|++..+. .+ -+...|..++..+.+.|++++|..+|+.+.+.  .|+ .. .|..++..+.+.|++++|..+|
T Consensus        81 ~~A~~~~~rAl~~~~p-~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~  157 (308)
T 2ond_A           81 DEAANIYERAISTLLK-KNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHTTTTT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHH
Confidence            4555555555442 21 13334444555555555555555555555442  222 11 4444444444455555555555


Q ss_pred             HHHHhcCCCCchhhhHHHHHHH-HcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHc---
Q 047359          314 SAVLDKGLLLDSFCCSSLMEYY-CSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKEL---  389 (440)
Q Consensus       314 ~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---  389 (440)
                      ++..+..+. +...|....... ...|+.++|..+|++..+..+. +...|..++..+.+.|+.++|..+|+++.+.   
T Consensus       158 ~~a~~~~p~-~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l  235 (308)
T 2ond_A          158 KKAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGD-IPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  235 (308)
T ss_dssp             HHHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS
T ss_pred             HHHHhcCCC-CHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCC
Confidence            555443221 222222222111 1235555555555555443222 3444445555555555555555555555543   


Q ss_pred             CCC-chhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          390 KVV-SSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       390 ~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      .+. ....|..++..+.+.|+.++|..+++++.+
T Consensus       236 ~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~  269 (308)
T 2ond_A          236 PPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             CGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            111 333444444444455555555555555444

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.58  E-value=2.8e-14  Score=122.85  Aligned_cols=201  Identities=11%  Similarity=0.010  Sum_probs=104.5

Q ss_pred             hHHHHHHHHhhhccHHHHHHHHHHHHHc------C-CCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHc------CC-C
Q 047359          222 TCGCMLKALSKEGRVKEAIQIYHLISER------G-ITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVER------GY-I  287 (440)
Q Consensus       222 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-~  287 (440)
                      .+..+...|...|++++|...+++..+.      + ......++..+...+...|++++|...++.+.+.      +. +
T Consensus        71 ~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~  150 (311)
T 3nf1_A           71 MLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHP  150 (311)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCCh
Confidence            3444444555555555555555444332      1 1112334455555555566666666555555432      11 1


Q ss_pred             CChhhHHHHHHHHHcCCCHHHHHHHHHHHHhc------CCCC-chhhhHHHHHHHHcCCcHHHHHHHHHHHHhcc-----
Q 047359          288 PCAMELSRFVASQCGKGKWKEVEELLSAVLDK------GLLL-DSFCCSSLMEYYCSNRQIDKAIALHIKIEKLK-----  355 (440)
Q Consensus       288 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----  355 (440)
                      .....+..+...+...|++++|...++++.+.      +..| ...++..+...|...|++++|.+.++++.+..     
T Consensus       151 ~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  230 (311)
T 3nf1_A          151 DVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREF  230 (311)
T ss_dssp             HHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcC
Confidence            22334555666666667777776666666543      1111 23456666667777777777777777766431     


Q ss_pred             --CCcCH-------HhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          356 --GSLDV-------ATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       356 --~~p~~-------~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                        ..+..       ..+..+...+...+.+.++...++......+....++..+..+|.+.|++++|.+.+++..+
T Consensus       231 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          231 GSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             C------CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence              11111       12222233334455566666677777666555777888899999999999999999988876

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.58  E-value=2.8e-13  Score=120.33  Aligned_cols=232  Identities=9%  Similarity=-0.069  Sum_probs=148.2

Q ss_pred             HHHHHhcCChhhHHHHHHHHHhcCC-CCc--ccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCC------CCHHhHHH
Q 047359          155 LDGARRYEKTEVSDRIVGLMVEKKL-LPK--HFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIE------LQDDTCGC  225 (440)
Q Consensus       155 ~~~~~~~~~~~~a~~~~~~~~~~~~-~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~------~~~~~~~~  225 (440)
                      ...+...|++++|...+++..+.-. .++  ....++..+...+...|+++.|...+.+..+....      ....+++.
T Consensus       110 g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  189 (383)
T 3ulq_A          110 GMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSL  189 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHH
Confidence            3345556666666666666654310 011  01345566666666677777777666665542111      11346667


Q ss_pred             HHHHHhhhccHHHHHHHHHHHHHcCCC-----CChhhHHHHHHHHHhcCChHHHHHHHHHHHHc----CC-CCChhhHHH
Q 047359          226 MLKALSKEGRVKEAIQIYHLISERGIT-----VRDSDYYAFVNVLCKEHQPEEVCGLLRDVVER----GY-IPCAMELSR  295 (440)
Q Consensus       226 l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~  295 (440)
                      +...|...|++++|...+++..+....     ....++..+...+...|++++|...+++..+.    +. +....++..
T Consensus       190 lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  269 (383)
T 3ulq_A          190 FATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFL  269 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHH
Confidence            777788888888888888776543111     11236777778888888888888888887662    22 334556777


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhcC----CCCchhhhHHHHHHHHcCCc---HHHHHHHHHHHHhccCCc-CHHhHHHHH
Q 047359          296 FVASQCGKGKWKEVEELLSAVLDKG----LLLDSFCCSSLMEYYCSNRQ---IDKAIALHIKIEKLKGSL-DVATYDVLL  367 (440)
Q Consensus       296 l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~p-~~~~~~~l~  367 (440)
                      +...+...|++++|...+++..+..    -......+..+...|...|+   .++|+.++++.   +..| ....+..+.
T Consensus       270 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~la  346 (383)
T 3ulq_A          270 ITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDVA  346 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHHH
Confidence            8888888888888888888776431    11122235667777888888   66677766655   2222 334677788


Q ss_pred             HHHHhcCcHHHHHHHHHHHHHc
Q 047359          368 DGLFKDGRMEEAVRIFDYMKEL  389 (440)
Q Consensus       368 ~~~~~~g~~~~a~~~~~~~~~~  389 (440)
                      ..|...|++++|...+++..+.
T Consensus       347 ~~y~~~g~~~~A~~~~~~al~~  368 (383)
T 3ulq_A          347 KYYHERKNFQKASAYFLKVEQV  368 (383)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHH
Confidence            8899999999999999887653

>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=99.52  E-value=2.3e-12  Score=105.39  Aligned_cols=206  Identities=10%  Similarity=-0.007  Sum_probs=155.3

Q ss_pred             CCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHH
Q 047359          218 LQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFV  297 (440)
Q Consensus       218 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  297 (440)
                      .|+..+......+...|++++|...|++..+....++...+..+..++...|++++|...++...+.. +.+...+..+.
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHH
Confidence            35678888888899999999999999999887764577777778888999999999999999988764 33566788888


Q ss_pred             HHHHcCCCHHHHHHHHHHHHhcCCCCch-------hhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcC---HHhHHHHH
Q 047359          298 ASQCGKGKWKEVEELLSAVLDKGLLLDS-------FCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLD---VATYDVLL  367 (440)
Q Consensus       298 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~---~~~~~~l~  367 (440)
                      ..+...|++++|...+++..+..+. +.       ..|..+...+...|++++|++.+++..+.  .|+   ...+..+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~  160 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAVPG-NATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHH
Confidence            8899999999999999999876543 34       45777777888899999999999998875  444   45677777


Q ss_pred             HHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHHHHHHHh
Q 047359          368 DGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQVI  436 (440)
Q Consensus       368 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~ll  436 (440)
                      .+|...|     ...++++...+..++..+....  ....+.+++|+..+++..+  +.|+......++
T Consensus       161 ~~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~--l~p~~~~~~~~l  220 (228)
T 4i17_A          161 VLFYNNG-----ADVLRKATPLASSNKEKYASEK--AKADAAFKKAVDYLGEAVT--LSPNRTEIKQMQ  220 (228)
T ss_dssp             HHHHHHH-----HHHHHHHGGGTTTCHHHHHHHH--HHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHH
T ss_pred             HHHHHHH-----HHHHHHHHhcccCCHHHHHHHH--HHHHHHHHHHHHHHHHHhh--cCCCCHHHHHHH
Confidence            7775544     3445666655544444444333  3456778999999999998  567766554444

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.52  E-value=9.9e-13  Score=119.76  Aligned_cols=195  Identities=8%  Similarity=-0.101  Sum_probs=103.6

Q ss_pred             ccchHHHHHHHhhcCcH-HHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHH
Q 047359          185 LSGNDYVIQKLSDMGKT-YAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVN  263 (440)
Q Consensus       185 ~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  263 (440)
                      ...+..+...+...|++ ++|++.|++..+..+. +...|..+..+|...|++++|...|++..+..  |+...+..+..
T Consensus       102 a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~lg~  178 (474)
T 4abn_A          102 AQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPE-LVEAWNQLGEVYWKKGDVTSAHTCFSGALTHC--KNKVSLQNLSM  178 (474)
T ss_dssp             HHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTC--CCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCHHHHHHHHH
Confidence            33444444444444444 4444444444443322 34445555555555555555555555554443  23344444455


Q ss_pred             HHHhc---------CChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcC--------CCHHHHHHHHHHHHhcCCC--Cc
Q 047359          264 VLCKE---------HQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGK--------GKWKEVEELLSAVLDKGLL--LD  324 (440)
Q Consensus       264 ~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~--~~  324 (440)
                      .+...         |++++|...+++..+.. +.+...+..+..+|...        |++++|...|++..+..+.  .+
T Consensus       179 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~  257 (474)
T 4abn_A          179 VLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKASSN  257 (474)
T ss_dssp             HHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGGGC
T ss_pred             HHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCcccC
Confidence            55554         55555555555555442 22344455555555555        5666666666666654320  25


Q ss_pred             hhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHH
Q 047359          325 SFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFD  384 (440)
Q Consensus       325 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~  384 (440)
                      ...|..+..+|...|++++|.+.|++..+.... +...+..+...+...|++++|.+.+.
T Consensus       258 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~a~~~l~~~~~~lg~~~eAi~~~~  316 (474)
T 4abn_A          258 PDLHLNRATLHKYEESYGEALEGFSQAAALDPA-WPEPQQREQQLLEFLSRLTSLLESKG  316 (474)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            556666666666667777777776666665333 44556666666666666666665443

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.52  E-value=7.1e-12  Score=111.01  Aligned_cols=230  Identities=10%  Similarity=-0.069  Sum_probs=160.6

Q ss_pred             HHHHHHhhcCcHHHHHHHHHHHHhcCCC-C----CHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCC-----CC-ChhhH
Q 047359          190 YVIQKLSDMGKTYAAEMIFKRACDEKIE-L----QDDTCGCMLKALSKEGRVKEAIQIYHLISERGI-----TV-RDSDY  258 (440)
Q Consensus       190 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~-~~~~~  258 (440)
                      .....+...|++++|...+++..+.... +    ...++..+...|...|+++.|...+++..+...     .+ ...++
T Consensus       106 ~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  185 (378)
T 3q15_A          106 FRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSL  185 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHH
T ss_pred             HHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHH
Confidence            3455667778888888888887653211 1    234677777888888888888888887665311     11 23466


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHc----CCC-CChhhHHHHHHHHHcCCCHHHHHHHHHHHHh-----cCCCCchhhh
Q 047359          259 YAFVNVLCKEHQPEEVCGLLRDVVER----GYI-PCAMELSRFVASQCGKGKWKEVEELLSAVLD-----KGLLLDSFCC  328 (440)
Q Consensus       259 ~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~  328 (440)
                      ..+...+...|++++|...++...+.    +.. ....++..+...|...|++++|...+++..+     ..+. ...++
T Consensus       186 ~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~-~~~~~  264 (378)
T 3q15_A          186 FVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDL-LPKVL  264 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGG-HHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChh-HHHHH
Confidence            77788888888998888888887653    111 1234677788888888999999999888876     3332 36677


Q ss_pred             HHHHHHHHcCCcHHHHHHHHHHHHhccC----CcCHHhHHHHHHHHHhcCc---HHHHHHHHHHHHHcCCC-chhhHHHH
Q 047359          329 SSLMEYYCSNRQIDKAIALHIKIEKLKG----SLDVATYDVLLDGLFKDGR---MEEAVRIFDYMKELKVV-SSSSFVIV  400 (440)
Q Consensus       329 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~p~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~-~~~~~~~l  400 (440)
                      ..+...|.+.|++++|...+++..+...    ......+..+...+...|+   ..+|...+++..  ..+ ....+..+
T Consensus       265 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~--~~~~~~~~~~~l  342 (378)
T 3q15_A          265 FGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKN--LHAYIEACARSA  342 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTT--CHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCC--ChhHHHHHHHHH
Confidence            7888889999999999999988876422    1123345566666777777   777777776521  112 44567788


Q ss_pred             HHHHHhcccHHHHHHHHHHHHH
Q 047359          401 VSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       401 ~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      ...|...|++++|...|++..+
T Consensus       343 a~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          343 AAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH
Confidence            8899999999999999988765

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.50  E-value=1.6e-13  Score=118.08  Aligned_cols=238  Identities=14%  Similarity=0.018  Sum_probs=118.7

Q ss_pred             hHHHHHHHHHhcCChhhHHHHHHHHHhcC------CCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhc------C-C
Q 047359          150 TYSSILDGARRYEKTEVSDRIVGLMVEKK------LLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDE------K-I  216 (440)
Q Consensus       150 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~  216 (440)
                      ++..+...+...|++++|...++++.+..      ..|. ....+..+...+...|++++|...+++....      + .
T Consensus        29 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  107 (311)
T 3nf1_A           29 TLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPD-VATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDH  107 (311)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHH-HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHH-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCC
Confidence            44444444555555555555555444320      0111 1334445555555555555555555554432      1 1


Q ss_pred             CCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHc------CC-CCChhhHHHHHHHHHhcCChHHHHHHHHHHHHc-----
Q 047359          217 ELQDDTCGCMLKALSKEGRVKEAIQIYHLISER------GI-TVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVER-----  284 (440)
Q Consensus       217 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----  284 (440)
                      .....++..+...+...|++++|...+++..+.      +. +.....+..+...+...|++++|..+++.+.+.     
T Consensus       108 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~  187 (311)
T 3nf1_A          108 PAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKL  187 (311)
T ss_dssp             HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTS
T ss_pred             hHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHh
Confidence            112344555556666666666666666655443      11 112344555666666666666666666666543     


Q ss_pred             -C-CCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhc-------CCCCchh-------hhHHHHHHHHcCCcHHHHHHHH
Q 047359          285 -G-YIPCAMELSRFVASQCGKGKWKEVEELLSAVLDK-------GLLLDSF-------CCSSLMEYYCSNRQIDKAIALH  348 (440)
Q Consensus       285 -~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~-------~~~~l~~~~~~~~~~~~a~~~~  348 (440)
                       + .+....++..+...+...|++++|...++++.+.       ...+...       .+..+...+...+.+.++...+
T Consensus       188 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  267 (311)
T 3nf1_A          188 GPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWY  267 (311)
T ss_dssp             CTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC---
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHH
Confidence             1 1112335556666666677777777777666542       1111111       1122222333445555666666


Q ss_pred             HHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHc
Q 047359          349 IKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKEL  389 (440)
Q Consensus       349 ~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  389 (440)
                      ....... ..+..++..+..+|.+.|++++|.+.|+++.+.
T Consensus       268 ~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  307 (311)
T 3nf1_A          268 KACKVDS-PTVTTTLKNLGALYRRQGKFEAAETLEEAAMRS  307 (311)
T ss_dssp             ------C-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             hhcCCCC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            6665432 225567888899999999999999999888764

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.50  E-value=2.8e-11  Score=107.17  Aligned_cols=237  Identities=10%  Similarity=-0.017  Sum_probs=110.8

Q ss_pred             HHHHHHhcCChhHHHHHHHHHhcCCCCCCc----hhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCC----CcccccchH
Q 047359          118 VIDFYSKKGDFGAAFDRLNEMCNGRNLTPG----FSTYSSILDGARRYEKTEVSDRIVGLMVEKKLL----PKHFLSGND  189 (440)
Q Consensus       118 li~~~~~~~~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~~  189 (440)
                      ....+...|++++|+..|++..+.....++    ..++..+..++...|+++.|...+++..+....    +.....++.
T Consensus       107 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  186 (378)
T 3q15_A          107 RGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLF  186 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHH
T ss_pred             HHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHH
Confidence            344456677777777777776541111122    235556666666677777777666665542110    001133444


Q ss_pred             HHHHHHhhcCcHHHHHHHHHHHHhcCC-----CCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 047359          190 YVIQKLSDMGKTYAAEMIFKRACDEKI-----ELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNV  264 (440)
Q Consensus       190 ~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  264 (440)
                      .+...|...|++++|.+.+++..+...     .....++..+..+|...|++++|...+++..+..              
T Consensus       187 ~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~--------------  252 (378)
T 3q15_A          187 VIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVS--------------  252 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH--------------
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH--------------
Confidence            555555555555555555555443110     0011233444444444455555554444443310              


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCC----CchhhhHHHHHHHHcCCc
Q 047359          265 LCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLL----LDSFCCSSLMEYYCSNRQ  340 (440)
Q Consensus       265 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~l~~~~~~~~~  340 (440)
                                       ...+.+....++..+...+.+.|++++|...+++..+....    .....+..+...|...++
T Consensus       253 -----------------~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~  315 (378)
T 3q15_A          253 -----------------REKVPDLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVD  315 (378)
T ss_dssp             -----------------HHHCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCC
T ss_pred             -----------------HhhCChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCc
Confidence                             00011112334444455555555555555555554432111    111223334444445555


Q ss_pred             ---HHHHHHHHHHHHhccCCc-CHHhHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 047359          341 ---IDKAIALHIKIEKLKGSL-DVATYDVLLDGLFKDGRMEEAVRIFDYMKE  388 (440)
Q Consensus       341 ---~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  388 (440)
                         ..+|+..+++.   +..| ....+..+...|...|++++|...|+++.+
T Consensus       316 ~~~~~~al~~~~~~---~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          316 ERKIHDLLSYFEKK---NLHAYIEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHHHHHHHHT---TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC---CChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence               44454444431   1111 223445566666666666666666666543

>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=99.50  E-value=8e-13  Score=104.22  Aligned_cols=163  Identities=16%  Similarity=0.079  Sum_probs=105.0

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHH
Q 047359          257 DYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYC  336 (440)
Q Consensus       257 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  336 (440)
                      .+..+...+...|++++|...++.+.+.. +.+...+..+...+...|++++|...++++.+..+. +...+..+...+.
T Consensus        10 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~   87 (186)
T 3as5_A           10 YYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADAPD-NVKVATVLGLTYV   87 (186)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHH
Confidence            34444555555566666666555554432 234445555566666666666666666666554322 4555666666677


Q ss_pred             cCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHH
Q 047359          337 SNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKN  416 (440)
Q Consensus       337 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  416 (440)
                      ..|++++|.+.++++.+... .+...+..+...+...|++++|.+.++++.+..+.++.++..++..+...|++++|...
T Consensus        88 ~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~  166 (186)
T 3as5_A           88 QVQKYDLAVPLLIKVAEANP-INFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEALPH  166 (186)
T ss_dssp             HHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhcCc-HhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHHHH
Confidence            77777777777777766533 25566677777777777777777777777777666777777777777777777777777


Q ss_pred             HHHHHH
Q 047359          417 HDEMLK  422 (440)
Q Consensus       417 ~~~m~~  422 (440)
                      ++++.+
T Consensus       167 ~~~~~~  172 (186)
T 3as5_A          167 FKKANE  172 (186)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            777765

>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=99.48  E-value=2.6e-12  Score=121.73  Aligned_cols=165  Identities=12%  Similarity=0.056  Sum_probs=117.9

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHH
Q 047359          255 DSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEY  334 (440)
Q Consensus       255 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  334 (440)
                      ...++.+...+.+.|++++|+..|++.++.. +-+...+..+..+|.+.|++++|+..|++..+..+. +...|..+..+
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~-~~~a~~nLg~~   86 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPT-FADAYSNMGNT   86 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHH
Confidence            4556666666666677777777776666653 234556666777777777777777777777666443 56677777777


Q ss_pred             HHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHH
Q 047359          335 YCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAM  414 (440)
Q Consensus       335 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  414 (440)
                      |...|++++|++.|++.++.... +...|..+..+|.+.|++++|++.|+++.+..|.++.++..++.++...|++++|.
T Consensus        87 l~~~g~~~~A~~~~~kAl~l~P~-~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~~A~  165 (723)
T 4gyw_A           87 LKEMQDVQGALQCYTRAIQINPA-FADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWTDYD  165 (723)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCTTHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHHHHH
Confidence            77777777777777777775443 56677777778888888888888888888777777777888888888888888777


Q ss_pred             HHHHHHHH
Q 047359          415 KNHDEMLK  422 (440)
Q Consensus       415 ~~~~~m~~  422 (440)
                      +.++++++
T Consensus       166 ~~~~kal~  173 (723)
T 4gyw_A          166 ERMKKLVS  173 (723)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            77777654

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.48  E-value=3.7e-11  Score=106.25  Aligned_cols=301  Identities=10%  Similarity=-0.091  Sum_probs=196.8

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchh----hHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcc---cccc
Q 047359          115 YNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFS----TYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKH---FLSG  187 (440)
Q Consensus       115 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~  187 (440)
                      .......+...|++++|...+++... ..-..+..    .+..+...+...|++++|...+++..........   ...+
T Consensus        17 ~~~~a~~~~~~g~~~~A~~~~~~al~-~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~   95 (373)
T 1hz4_A           17 NALRAQVAINDGNPDEAERLAKLALE-ELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWS   95 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH-TCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHH-cCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHH
Confidence            34455567778999999999998776 22111221    4556667788889999999999888775321110   0122


Q ss_pred             hHHHHHHHhhcCcHHHHHHHHHHHHhcC----CC--C-CHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCC----Chh
Q 047359          188 NDYVIQKLSDMGKTYAAEMIFKRACDEK----IE--L-QDDTCGCMLKALSKEGRVKEAIQIYHLISERGITV----RDS  256 (440)
Q Consensus       188 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~  256 (440)
                      +..+...+...|++++|...+++.....    ..  | ....+..+...+...|++++|...+++..+.....    ...
T Consensus        96 ~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  175 (373)
T 1hz4_A           96 LIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQ  175 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHH
Confidence            4567778888899999999888876532    11  2 23455667778888899999999998877653221    224


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCh-hhHH-----HHHHHHHcCCCHHHHHHHHHHHHhcCCCCc---hhh
Q 047359          257 DYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCA-MELS-----RFVASQCGKGKWKEVEELLSAVLDKGLLLD---SFC  327 (440)
Q Consensus       257 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~-----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~  327 (440)
                      ++..+...+...|++++|...++........++. ..+.     ..+..+...|++++|...+++.......+.   ...
T Consensus       176 ~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~  255 (373)
T 1hz4_A          176 CLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQ  255 (373)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHH
Confidence            5667777888889999999998887654212211 1121     223346678999999888888765432211   223


Q ss_pred             hHHHHHHHHcCCcHHHHHHHHHHHHhcc----CCcCH-HhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHH
Q 047359          328 CSSLMEYYCSNRQIDKAIALHIKIEKLK----GSLDV-ATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVS  402 (440)
Q Consensus       328 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~p~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  402 (440)
                      +..+...+...|++++|...+++.....    ..++. ..+..+..++...|+.++|...+++........     ....
T Consensus       256 ~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~~~~~-----g~~~  330 (373)
T 1hz4_A          256 WRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANRT-----GFIS  330 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHH-----CCCH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhccc-----cHHH
Confidence            5566778888899999998888876532    11122 255666777888899999998888887753221     1233


Q ss_pred             HHHhcccHHHHHHHHHHHHHC
Q 047359          403 RLCHLKELRKAMKNHDEMLKM  423 (440)
Q Consensus       403 ~~~~~g~~~~a~~~~~~m~~~  423 (440)
                      .+...|  +....+++.+...
T Consensus       331 ~~~~~g--~~~~~ll~~~~~~  349 (373)
T 1hz4_A          331 HFVIEG--EAMAQQLRQLIQL  349 (373)
T ss_dssp             HHHTTH--HHHHHHHHHHHHT
T ss_pred             HHHHcc--HHHHHHHHHHHhC
Confidence            445555  5677777777774

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.46  E-value=1.1e-10  Score=103.14  Aligned_cols=299  Identities=12%  Similarity=0.046  Sum_probs=193.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHhccc---CCc------hhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchh----hH
Q 047359           85 WSLVAQILCRSGKFEVVLGLLDSGI---YSS------VMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFS----TY  151 (440)
Q Consensus        85 ~~~l~~~~~~~~~~~~a~~~~~~~~---~~~------~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~----~~  151 (440)
                      .......+...|++++|...+++..   |+.      .+++.+...+...|++++|.+.+++......-.++..    ++
T Consensus        17 ~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~   96 (373)
T 1hz4_A           17 NALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSL   96 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            3444556677889999988887754   221      1456667778888999999998888765111112221    24


Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHhcCC---C---CcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCC----CHH
Q 047359          152 SSILDGARRYEKTEVSDRIVGLMVEKKL---L---PKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIEL----QDD  221 (440)
Q Consensus       152 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~  221 (440)
                      ..+...+...|++++|...+++..+...   .   |. ....+..+...+...|++++|...+++........    ...
T Consensus        97 ~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  175 (373)
T 1hz4_A           97 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPM-HEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQ  175 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTH-HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcH-HHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHH
Confidence            5566778888999999999988887421   1   21 13455667788888899999999998877643321    234


Q ss_pred             hHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCCh-hhHH-----HHHHHHHhcCChHHHHHHHHHHHHcCCCCC---hhh
Q 047359          222 TCGCMLKALSKEGRVKEAIQIYHLISERGITVRD-SDYY-----AFVNVLCKEHQPEEVCGLLRDVVERGYIPC---AME  292 (440)
Q Consensus       222 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~-----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~  292 (440)
                      ++..+...+...|++++|...+++.......++. ..+.     ..+..+...|++++|...++........+.   ...
T Consensus       176 ~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~  255 (373)
T 1hz4_A          176 CLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQ  255 (373)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHH
Confidence            5677778888889999999999887654222111 1121     233446788999999998888765432111   224


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhc----CCCCch-hhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHH
Q 047359          293 LSRFVASQCGKGKWKEVEELLSAVLDK----GLLLDS-FCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLL  367 (440)
Q Consensus       293 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~  367 (440)
                      +..+...+...|++++|...++.....    +..++. ..+..+..++...|+.++|...+++.......      ...+
T Consensus       256 ~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~~~~------~g~~  329 (373)
T 1hz4_A          256 WRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANR------TGFI  329 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH------HCCC
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhcc------ccHH
Confidence            566777788889999999988887643    211122 25556677788889999999988888764211      1122


Q ss_pred             HHHHhcCcHHHHHHHHHHHHHcCCC
Q 047359          368 DGLFKDGRMEEAVRIFDYMKELKVV  392 (440)
Q Consensus       368 ~~~~~~g~~~~a~~~~~~~~~~~~~  392 (440)
                      ..+...|  +....+++.+....+.
T Consensus       330 ~~~~~~g--~~~~~ll~~~~~~~~~  352 (373)
T 1hz4_A          330 SHFVIEG--EAMAQQLRQLIQLNTL  352 (373)
T ss_dssp             HHHHTTH--HHHHHHHHHHHHTTCS
T ss_pred             HHHHHcc--HHHHHHHHHHHhCCCC
Confidence            3333444  5566666666665543

>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=99.45  E-value=3e-11  Score=98.76  Aligned_cols=206  Identities=12%  Similarity=-0.023  Sum_probs=162.4

Q ss_pred             ccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 047359          185 LSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNV  264 (440)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  264 (440)
                      +..+......+...|++++|...|++..+..+.++...+..+..++...|++++|+..+++..+..+. +...+..+...
T Consensus         7 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~   85 (228)
T 4i17_A            7 PNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYN-LANAYIGKSAA   85 (228)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCS-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcc-hHHHHHHHHHH
Confidence            56788889999999999999999999999877567788888999999999999999999999987654 66788999999


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCh-------hhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCc---hhhhHHHHHH
Q 047359          265 LCKEHQPEEVCGLLRDVVERGYIPCA-------MELSRFVASQCGKGKWKEVEELLSAVLDKGLLLD---SFCCSSLMEY  334 (440)
Q Consensus       265 ~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~  334 (440)
                      +...|++++|...++...+.. +.+.       ..|..+...+...|++++|...+++..+.  .|+   ...+..+..+
T Consensus        86 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~~~  162 (228)
T 4i17_A           86 YRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLGVL  162 (228)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHHHH
T ss_pred             HHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHHHH
Confidence            999999999999999999864 2233       45777888888999999999999999886  344   4566677777


Q ss_pred             HHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHH
Q 047359          335 YCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVS  402 (440)
Q Consensus       335 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  402 (440)
                      |...|     ...++++...+.. +...|....  ....+.+++|...+++..+..|.++.+...+..
T Consensus       163 ~~~~~-----~~~~~~a~~~~~~-~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~~~~~~~~l~~  222 (228)
T 4i17_A          163 FYNNG-----ADVLRKATPLASS-NKEKYASEK--AKADAAFKKAVDYLGEAVTLSPNRTEIKQMQDQ  222 (228)
T ss_dssp             HHHHH-----HHHHHHHGGGTTT-CHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHH-----HHHHHHHHhcccC-CHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHH
Confidence            75443     4445555554322 344444433  345677999999999999998887776655544

>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=99.43  E-value=1.4e-11  Score=96.98  Aligned_cols=166  Identities=14%  Similarity=0.022  Sum_probs=93.7

Q ss_pred             HHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHc
Q 047359          223 CGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCG  302 (440)
Q Consensus       223 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  302 (440)
                      +..+...+...|++++|...++++.+... .+...+..+...+...|++++|...++.+.+.. +.+...+..+...+..
T Consensus        11 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~   88 (186)
T 3as5_A           11 YRDKGISHAKAGRYSQAVMLLEQVYDADA-FDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYVQ   88 (186)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHTTTCCTTS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhCc-cChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHH
Confidence            34444445555555555555555444322 134445555555555555555555555555442 2234455555555556


Q ss_pred             CCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHH
Q 047359          303 KGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRI  382 (440)
Q Consensus       303 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~  382 (440)
                      .|++++|.+.++++....+. +...+..+...+...|++++|.+.++++.+.... +...+..+...+...|++++|.+.
T Consensus        89 ~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~  166 (186)
T 3as5_A           89 VQKYDLAVPLLIKVAEANPI-NFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPN-EGKVHRAIAFSYEQMGRHEEALPH  166 (186)
T ss_dssp             HTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHhcCcH-hHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHcCCHHHHHHH
Confidence            66666666666666554322 4555666666666667777777776666655322 455666666777777777777777


Q ss_pred             HHHHHHcCCC
Q 047359          383 FDYMKELKVV  392 (440)
Q Consensus       383 ~~~~~~~~~~  392 (440)
                      ++++.+..+.
T Consensus       167 ~~~~~~~~~~  176 (186)
T 3as5_A          167 FKKANELDEG  176 (186)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHcCCC
Confidence            7766655444

>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=99.40  E-value=1.7e-11  Score=116.10  Aligned_cols=164  Identities=12%  Similarity=0.034  Sum_probs=81.7

Q ss_pred             ccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 047359          185 LSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNV  264 (440)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  264 (440)
                      ..+++.+...+.+.|++++|++.|++..+..+. +...|..+..+|.+.|++++|+..|++..+.... +...|..+..+
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~-~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~-~~~a~~nLg~~   86 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALEVFPE-FAAAHSNLASVLQQQGKLQEALMHYKEAIRISPT-FADAYSNMGNT   86 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHH
Confidence            334444444444445555555444444444332 3444455555555555555555555555444322 34445555555


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHH
Q 047359          265 LCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKA  344 (440)
Q Consensus       265 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  344 (440)
                      +...|++++|.+.+++..+.+ +-+...+..+...+...|++++|++.|++..+..+. +...+..+..++...|++++|
T Consensus        87 l~~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~-~~~a~~~L~~~l~~~g~~~~A  164 (723)
T 4gyw_A           87 LKEMQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPD-FPDAYCNLAHCLQIVCDWTDY  164 (723)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCCTTH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHhhhhhHHHhcccHHHH
Confidence            555555555555555554432 223344555555555555555555555555554332 344555555555555555555


Q ss_pred             HHHHHHHH
Q 047359          345 IALHIKIE  352 (440)
Q Consensus       345 ~~~~~~~~  352 (440)
                      .+.++++.
T Consensus       165 ~~~~~kal  172 (723)
T 4gyw_A          165 DERMKKLV  172 (723)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            55555544

>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=99.39  E-value=1.3e-11  Score=104.42  Aligned_cols=227  Identities=13%  Similarity=-0.004  Sum_probs=157.6

Q ss_pred             hhcCcHHHHHHHHHHHHh-------cCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHc------CC-CCChhhHHHH
Q 047359          196 SDMGKTYAAEMIFKRACD-------EKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISER------GI-TVRDSDYYAF  261 (440)
Q Consensus       196 ~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l  261 (440)
                      ...|++++|...+++..+       ........++..+...|...|++++|...+++..+.      +- +....++..+
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            345666666666666544       222334667888999999999999999999998765      21 2235678889


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHc------C-CCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhc------CCCC-chhh
Q 047359          262 VNVLCKEHQPEEVCGLLRDVVER------G-YIPCAMELSRFVASQCGKGKWKEVEELLSAVLDK------GLLL-DSFC  327 (440)
Q Consensus       262 ~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~-~~~~  327 (440)
                      ...+...|++++|...++.+.+.      . .+....++..+...+...|++++|...+++..+.      +-.| ...+
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            99999999999999999998764      1 1234567888899999999999999999998765      1122 3567


Q ss_pred             hHHHHHHHHcCCcHHHHHHHHHHHHhcc-------CCcCH-HhHHHHHHHHHhcCc------HHHHHHHHHHHHHcCCCc
Q 047359          328 CSSLMEYYCSNRQIDKAIALHIKIEKLK-------GSLDV-ATYDVLLDGLFKDGR------MEEAVRIFDYMKELKVVS  393 (440)
Q Consensus       328 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------~~p~~-~~~~~l~~~~~~~g~------~~~a~~~~~~~~~~~~~~  393 (440)
                      +..+...|...|++++|.+.++++.+..       ..+.. ..|..+...+...+.      +..+...++......+..
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            8888899999999999999999988641       12222 233333333333222      333333333332222225


Q ss_pred             hhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          394 SSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       394 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      ..++..+...|...|++++|...+++.++
T Consensus       252 ~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          252 NTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            67889999999999999999999999876

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.36  E-value=1.1e-10  Score=99.23  Aligned_cols=213  Identities=8%  Similarity=-0.060  Sum_probs=138.0

Q ss_pred             cHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHc----CCCCC-hhhHHHHHHHHHhcCChHHH
Q 047359          200 KTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISER----GITVR-DSDYYAFVNVLCKEHQPEEV  274 (440)
Q Consensus       200 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~~~~~~a  274 (440)
                      ++++|...|.+.               ...|...|++++|...|.+..+.    |..++ ..+|..+..+|...|++++|
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            467777766665               33456677788887777766543    21111 35677777778888888888


Q ss_pred             HHHHHHHHHcCCC---C--ChhhHHHHHHHHHcC-CCHHHHHHHHHHHHhcCCCC-c----hhhhHHHHHHHHcCCcHHH
Q 047359          275 CGLLRDVVERGYI---P--CAMELSRFVASQCGK-GKWKEVEELLSAVLDKGLLL-D----SFCCSSLMEYYCSNRQIDK  343 (440)
Q Consensus       275 ~~~~~~~~~~~~~---~--~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~-~----~~~~~~l~~~~~~~~~~~~  343 (440)
                      ...++...+....   +  -..++..+...|... |++++|+..+++..+..... +    ..++..+...+...|++++
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            8887777643110   1  134677777788885 88888888888876542111 1    3457777888888888899


Q ss_pred             HHHHHHHHHhccCCcCH------HhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchh-----hHHHHHHHHH--hcccH
Q 047359          344 AIALHIKIEKLKGSLDV------ATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSS-----SFVIVVSRLC--HLKEL  410 (440)
Q Consensus       344 a~~~~~~~~~~~~~p~~------~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-----~~~~l~~~~~--~~g~~  410 (440)
                      |+..|++..+.......      ..|..+..++...|++++|...|++..+..|....     .+..++.++.  ..+++
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            98888888875443221      14667777888888999999888888776665221     3444555554  45678


Q ss_pred             HHHHHHHHHHHHCCCCCCH
Q 047359          411 RKAMKNHDEMLKMGHKPDE  429 (440)
Q Consensus       411 ~~a~~~~~~m~~~~~~p~~  429 (440)
                      ++|+..|+++..  +.|+.
T Consensus       257 ~~A~~~~~~~~~--l~~~~  273 (292)
T 1qqe_A          257 SEHCKEFDNFMR--LDKWK  273 (292)
T ss_dssp             HHHHHHHTTSSC--CCHHH
T ss_pred             HHHHHHhccCCc--cHHHH
Confidence            888887776654  34443

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.35  E-value=3.6e-10  Score=94.12  Aligned_cols=249  Identities=8%  Similarity=-0.050  Sum_probs=134.2

Q ss_pred             HHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcC
Q 047359          120 DFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMG  199 (440)
Q Consensus       120 ~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  199 (440)
                      +-..-.|.+..++.-...+.   ...++ ..-.-+.+++...|+++..         ....|.  ...+..+...+ ..+
T Consensus        21 kn~fy~G~yq~~i~e~~~~~---~~~~~-~~~~~~~Rs~iAlg~~~~~---------~~~~~~--~~a~~~la~~~-~~~   84 (310)
T 3mv2_B           21 KQNYYTGNFVQCLQEIEKFS---KVTDN-TLLFYKAKTLLALGQYQSQ---------DPTSKL--GKVLDLYVQFL-DTK   84 (310)
T ss_dssp             HHHHTTTCHHHHTHHHHTSS---CCCCH-HHHHHHHHHHHHTTCCCCC---------CSSSTT--HHHHHHHHHHH-TTT
T ss_pred             HHHHHhhHHHHHHHHHHhcC---ccchH-HHHHHHHHHHHHcCCCccC---------CCCCHH--HHHHHHHHHHh-ccc
Confidence            33445677777766333221   12222 2333345667777766531         111121  22333233222 222


Q ss_pred             cHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCC-CCChhhHHHHHHHHHhcCChHHHHHHH
Q 047359          200 KTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGI-TVRDSDYYAFVNVLCKEHQPEEVCGLL  278 (440)
Q Consensus       200 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~  278 (440)
                          |...+++....+ .++..++..+..++...|++++|++++.+....+. .-+...+...+..+.+.|+++.|.+.+
T Consensus        85 ----a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l  159 (310)
T 3mv2_B           85 ----NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIF  159 (310)
T ss_dssp             ----CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ----HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHH
Confidence                566666665544 23444555666777777777777777777665543 124556666777777777777777777


Q ss_pred             HHHHHcCCCC-----ChhhHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHH
Q 047359          279 RDVVERGYIP-----CAMELSRFVASQCG----KGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHI  349 (440)
Q Consensus       279 ~~~~~~~~~~-----~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  349 (440)
                      +.|.+.  .|     +..+...++.++..    .+++.+|..+|+++.+..  |+..+...++.++...|++++|.+.++
T Consensus       160 ~~~~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~--p~~~~~~lLln~~~~~g~~~eAe~~L~  235 (310)
T 3mv2_B          160 DNYTNA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTF--PTWKTQLGLLNLHLQQRNIAEAQGIVE  235 (310)
T ss_dssp             HHHHHH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTS--CSHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHhc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhC--CCcccHHHHHHHHHHcCCHHHHHHHHH
Confidence            777664  34     24444445444222    236777777777765542  332222333446667777777777777


Q ss_pred             HHHhccC---------CcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchh
Q 047359          350 KIEKLKG---------SLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSS  395 (440)
Q Consensus       350 ~~~~~~~---------~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  395 (440)
                      .+.+..+         .-++.+...++......|+  +|.++++++.+..|.++.
T Consensus       236 ~l~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~hp~  288 (310)
T 3mv2_B          236 LLLSDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHEHAF  288 (310)
T ss_dssp             HHHSHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCCHH
T ss_pred             HHHHhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCChH
Confidence            6554310         1144455455544445565  667777777777666443

>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=99.34  E-value=3.1e-11  Score=102.05  Aligned_cols=230  Identities=14%  Similarity=0.023  Sum_probs=161.4

Q ss_pred             HhcCChhhHHHHHHHHHhc-----CCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhc------CC-CCCHHhHHHH
Q 047359          159 RRYEKTEVSDRIVGLMVEK-----KLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDE------KI-ELQDDTCGCM  226 (440)
Q Consensus       159 ~~~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l  226 (440)
                      ...|+++.|...+++.++.     +..+.....++..+...+...|++++|...+++..+.      +. .....++..+
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            4578888888888887763     1121122677889999999999999999999998764      21 2235678889


Q ss_pred             HHHHhhhccHHHHHHHHHHHHHc------C-CCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHc------C-CCCChhh
Q 047359          227 LKALSKEGRVKEAIQIYHLISER------G-ITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVER------G-YIPCAME  292 (440)
Q Consensus       227 ~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~  292 (440)
                      ...|...|++++|...+++..+.      . .+....++..+...+...|++++|...++.+.+.      + .+....+
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            99999999999999999998765      1 1224567888999999999999999999998765      1 1223567


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhc-------CCCCch-hhhHHHHHHHHcCCcHH------HHHHHHHHHHhccCCc
Q 047359          293 LSRFVASQCGKGKWKEVEELLSAVLDK-------GLLLDS-FCCSSLMEYYCSNRQID------KAIALHIKIEKLKGSL  358 (440)
Q Consensus       293 ~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~-~~~~~l~~~~~~~~~~~------~a~~~~~~~~~~~~~p  358 (440)
                      +..+...+...|++++|...+++..+.       ...+.. ..+..+...+...+...      .+...++.... ....
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~  250 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV-DSPT  250 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC-CCHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC-CCHH
Confidence            888999999999999999999998764       112222 23333333333333322      22222222111 1122


Q ss_pred             CHHhHHHHHHHHHhcCcHHHHHHHHHHHHHc
Q 047359          359 DVATYDVLLDGLFKDGRMEEAVRIFDYMKEL  389 (440)
Q Consensus       359 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  389 (440)
                      ...++..+...|...|++++|...++++.+.
T Consensus       251 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          251 VNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3457888999999999999999999988753

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.34  E-value=3.1e-09  Score=96.66  Aligned_cols=205  Identities=9%  Similarity=-0.063  Sum_probs=134.1

Q ss_pred             HHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHH
Q 047359          201 TYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRD  280 (440)
Q Consensus       201 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  280 (440)
                      .+.+..+|+++....+. ++..|...+..+.+.|+.+.|..++++....  +.+...+.    .|......++.   ++.
T Consensus       195 ~~Rv~~~ye~al~~~p~-~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~----~y~~~~e~~~~---~~~  264 (493)
T 2uy1_A          195 ESRMHFIHNYILDSFYY-AEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSL----YYGLVMDEEAV---YGD  264 (493)
T ss_dssp             HHHHHHHHHHHHHHTTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHH----HHHHHTTCTHH---HHH
T ss_pred             HHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHH----HHHhhcchhHH---HHH
Confidence            34567788888776543 5778888888888889999999999998887  22322222    12221111221   222


Q ss_pred             HHHcC------------CCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHc-CCcHHHHHHH
Q 047359          281 VVERG------------YIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCS-NRQIDKAIAL  347 (440)
Q Consensus       281 ~~~~~------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~  347 (440)
                      +.+.-            .......|...+....+.++.+.|..+|+.. .. ...+...|......-.. .++.+.|..+
T Consensus       265 l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~i  342 (493)
T 2uy1_A          265 LKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNI  342 (493)
T ss_dssp             HHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHH
T ss_pred             HHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHH
Confidence            22110            0111245666666666778899999999998 32 22233344322222222 3369999999


Q ss_pred             HHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          348 HIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       348 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      |+...+.-.. ++..+...++...+.|+.+.|..+|+.+.    .....|...+..-...|+.+.+..+++++..
T Consensus       343 fe~al~~~~~-~~~~~~~yid~e~~~~~~~~aR~l~er~~----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          343 FSSGLLKHPD-STLLKEEFFLFLLRIGDEENARALFKRLE----KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHSC----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHH----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            9999876432 34556667787788999999999999872    3677888888877888999999998888764

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.32  E-value=3e-09  Score=88.62  Aligned_cols=60  Identities=10%  Similarity=0.004  Sum_probs=28.4

Q ss_pred             HHHHHHHhhcCcHHHHHHHHHHHHhcCC-CCCHHhHHHHHHHHhhhccHHHHHHHHHHHHH
Q 047359          189 DYVIQKLSDMGKTYAAEMIFKRACDEKI-ELQDDTCGCMLKALSKEGRVKEAIQIYHLISE  248 (440)
Q Consensus       189 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  248 (440)
                      ..+..++...|++++|++++.+....+. .-+...+..++..+.+.|+.+.|.+.++.|.+
T Consensus       104 ~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~  164 (310)
T 3mv2_B          104 YLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTN  164 (310)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            3444455555555555555554444332 11333444444555555555555555555544

>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=99.31  E-value=1.5e-10  Score=85.72  Aligned_cols=128  Identities=16%  Similarity=0.195  Sum_probs=94.2

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHh
Q 047359          293 LSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFK  372 (440)
Q Consensus       293 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  372 (440)
                      +..+...+...|++++|..+++++.+.... +...+..+...+...|++++|...++++.+.+.. +...+..+...+..
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~   81 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELDPR-SAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPR-SAEAWYNLGNAYYK   81 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcCCc-chhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCC-chHHHHHHHHHHHH
Confidence            455566666677777777777777665433 4556666777777777888888888777765432 55667777778888


Q ss_pred             cCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          373 DGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       373 ~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      .|++++|.+.++++.+..+.+...+..++..+.+.|++++|...++++.+
T Consensus        82 ~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           82 QGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            88888888888888877766777778888888888888888888888776

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.29  E-value=4.2e-10  Score=94.01  Aligned_cols=207  Identities=11%  Similarity=-0.017  Sum_probs=126.4

Q ss_pred             ccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCC--HHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCC-C-ChhhHHH
Q 047359          185 LSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQ--DDTCGCMLKALSKEGRVKEAIQIYHLISERGIT-V-RDSDYYA  260 (440)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~  260 (440)
                      ...+..+...+.+.|++++|...|+++.+..+...  ...+..+..+|.+.|++++|...|+...+..+. | ....+..
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            55566677777788888888888888777654311  456667777777788888888888877775431 1 1344555


Q ss_pred             HHHHHHh--------cCChHHHHHHHHHHHHcCCCCCh-hhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHH
Q 047359          261 FVNVLCK--------EHQPEEVCGLLRDVVERGYIPCA-MELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSL  331 (440)
Q Consensus       261 l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  331 (440)
                      +..++..        .|++++|...|+.+.+..  |+. .....+              ..+......    ....+..+
T Consensus        95 lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~--------------~~~~~~~~~----~~~~~~~l  154 (261)
T 3qky_A           95 RAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDAT--------------QKIRELRAK----LARKQYEA  154 (261)
T ss_dssp             HHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHH--------------HHHHHHHHH----HHHHHHHH
T ss_pred             HHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHH--------------HHHHHHHHH----HHHHHHHH
Confidence            6666666        777777777777776653  322 111111              111111100    01123556


Q ss_pred             HHHHHcCCcHHHHHHHHHHHHhccCCc--CHHhHHHHHHHHHhc----------CcHHHHHHHHHHHHHcCCCchh---h
Q 047359          332 MEYYCSNRQIDKAIALHIKIEKLKGSL--DVATYDVLLDGLFKD----------GRMEEAVRIFDYMKELKVVSSS---S  396 (440)
Q Consensus       332 ~~~~~~~~~~~~a~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~----------g~~~~a~~~~~~~~~~~~~~~~---~  396 (440)
                      ...|...|++++|+..|+++.+..+..  ....+..+..+|...          |++++|...|+++.+..|.++.   +
T Consensus       155 a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a  234 (261)
T 3qky_A          155 ARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDSPLLRTA  234 (261)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTCTHHHHH
T ss_pred             HHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCChHHHHH
Confidence            677888888888888888888754321  234666777777755          7888888888888887776543   3


Q ss_pred             HHHHHHHHHhcccHH
Q 047359          397 FVIVVSRLCHLKELR  411 (440)
Q Consensus       397 ~~~l~~~~~~~g~~~  411 (440)
                      ...+...+.+.|+++
T Consensus       235 ~~~l~~~~~~~~~~~  249 (261)
T 3qky_A          235 EELYTRARQRLTELE  249 (261)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhh
Confidence            333444444444433

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.27  E-value=5.9e-10  Score=89.43  Aligned_cols=135  Identities=11%  Similarity=0.066  Sum_probs=90.3

Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcC
Q 047359          295 RFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDG  374 (440)
Q Consensus       295 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g  374 (440)
                      .+...+...|++++|...+++..+..+. +...+..+..++...|++++|...|++..+..+. +...|..+...|...|
T Consensus        59 ~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~  136 (208)
T 3urz_A           59 ELALAYKKNRNYDKAYLFYKELLQKAPN-NVDCLEACAEMQVCRGQEKDALRMYEKILQLEAD-NLAANIFLGNYYYLTA  136 (208)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHh
Confidence            3667777788888888888888776544 6677777888888888888888888888876544 5667777777766554


Q ss_pred             c--HHHHHHHHHHHHHcCCC-chhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 047359          375 R--MEEAVRIFDYMKELKVV-SSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQV  435 (440)
Q Consensus       375 ~--~~~a~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~l  435 (440)
                      +  .+.+...++....  +. ....+.....++...|++++|+..|++.++  +.|+......+
T Consensus       137 ~~~~~~~~~~~~~~~~--~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~--l~P~~~~~~~l  196 (208)
T 3urz_A          137 EQEKKKLETDYKKLSS--PTKMQYARYRDGLSKLFTTRYEKARNSLQKVIL--RFPSTEAQKTL  196 (208)
T ss_dssp             HHHHHHHHHHHC---C--CCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTT--TSCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhC--CCchhHHHHHHHHHHHHccCHHHHHHHHHHHHH--hCCCHHHHHHH
Confidence            3  3444555555432  22 223445556666777888888888888877  56776555443

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.27  E-value=7.3e-09  Score=87.20  Aligned_cols=218  Identities=11%  Similarity=0.007  Sum_probs=103.0

Q ss_pred             hhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcC--cHHHHHHHHHHHHhcCCCCCHHhHHHHHHHH----hhh---cc
Q 047359          165 EVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMG--KTYAAEMIFKRACDEKIELQDDTCGCMLKAL----SKE---GR  235 (440)
Q Consensus       165 ~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~---~~  235 (440)
                      ++|+...+.++..+  |+. ..+|+.-...+...|  +++++++.++.+...+++ +..+|+.-...+    ...   ++
T Consensus        50 ~~aL~~t~~~L~~n--P~~-~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~~~~~~l~~~~~  125 (306)
T 3dra_A           50 ERALHITELGINEL--ASH-YTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEK-NYQIWNYRQLIIGQIMELNNNDFD  125 (306)
T ss_dssp             HHHHHHHHHHHHHC--TTC-HHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHHHHHTTTCCC
T ss_pred             HHHHHHHHHHHHHC--cHH-HHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHHHHHHhccccCC
Confidence            45666666665543  432 444555555555555  555555555555554443 334444333333    222   44


Q ss_pred             HHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHH
Q 047359          236 VKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSA  315 (440)
Q Consensus       236 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  315 (440)
                      +++++.+++.+.+...+ +..+|+.-...+.+.|.++                                 .+++++.+++
T Consensus       126 ~~~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~---------------------------------~~~EL~~~~~  171 (306)
T 3dra_A          126 PYREFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHN---------------------------------DAKELSFVDK  171 (306)
T ss_dssp             THHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTT---------------------------------CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccC---------------------------------hHHHHHHHHH
Confidence            45555555555544332 3444444444444444444                                 0044444444


Q ss_pred             HHhcCCCCchhhhHHHHHHHHcCCc------HHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHH-HHHHHHHHHH
Q 047359          316 VLDKGLLLDSFCCSSLMEYYCSNRQ------IDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEE-AVRIFDYMKE  388 (440)
Q Consensus       316 ~~~~~~~~~~~~~~~l~~~~~~~~~------~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~-a~~~~~~~~~  388 (440)
                      +.+..+. |...|+.-.......+.      ++++++.+++++...+. |...|+.+...+.+.|+... +..+..++.+
T Consensus       172 ~i~~d~~-N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~p~-n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~  249 (306)
T 3dra_A          172 VIDTDLK-NNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKCPQ-NPSTWNYLLGIHERFDRSITQLEEFSLQFVD  249 (306)
T ss_dssp             HHHHCTT-CHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCCGGGGHHHHHTTEE
T ss_pred             HHHhCCC-CHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHhCCC-CccHHHHHHHHHHhcCCChHHHHHHHHHHHh
Confidence            4444333 44444444333434333      45555555555554433 45555555555555444222 3334444333


Q ss_pred             cC---CCchhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          389 LK---VVSSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       389 ~~---~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      .+   +.++.++..++.++.+.|+.++|.++++.+.+
T Consensus       250 ~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~~  286 (306)
T 3dra_A          250 LEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLKS  286 (306)
T ss_dssp             GGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Confidence            32   33555555555555555555555555555543

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.27  E-value=7.2e-10  Score=92.55  Aligned_cols=191  Identities=8%  Similarity=0.005  Sum_probs=124.2

Q ss_pred             CHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCC--hhhHHHHHHHHHhcCChHHHHHHHHHHHHcCC--CCChhhHH
Q 047359          219 QDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVR--DSDYYAFVNVLCKEHQPEEVCGLLRDVVERGY--IPCAMELS  294 (440)
Q Consensus       219 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~  294 (440)
                      +...+......+.+.|++++|...|+.+.+..+...  ...+..+..++.+.|++++|...|+.+.+...  +.....+.
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~   93 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEY   93 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHH
Confidence            445566666777777777777777777776543211  45566667777777777777777777776531  11123455


Q ss_pred             HHHHHHHc--------CCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHH
Q 047359          295 RFVASQCG--------KGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVL  366 (440)
Q Consensus       295 ~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l  366 (440)
                      .+..++..        .|++++|...|+++.+..+. +......+.              .+..+...    ....+..+
T Consensus        94 ~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~a~~--------------~~~~~~~~----~~~~~~~l  154 (261)
T 3qky_A           94 ERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPN-HELVDDATQ--------------KIRELRAK----LARKQYEA  154 (261)
T ss_dssp             HHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTT-CTTHHHHHH--------------HHHHHHHH----HHHHHHHH
T ss_pred             HHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcC-chhHHHHHH--------------HHHHHHHH----HHHHHHHH
Confidence            55566666        67777777777777665322 111111111              11111110    11124677


Q ss_pred             HHHHHhcCcHHHHHHHHHHHHHcCCC---chhhHHHHHHHHHhc----------ccHHHHHHHHHHHHHCCCCCCHH
Q 047359          367 LDGLFKDGRMEEAVRIFDYMKELKVV---SSSSFVIVVSRLCHL----------KELRKAMKNHDEMLKMGHKPDEA  430 (440)
Q Consensus       367 ~~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~~~~l~~~~~~~----------g~~~~a~~~~~~m~~~~~~p~~~  430 (440)
                      ...|.+.|++++|+..|+++.+..|.   .+..+..+..+|...          |++++|...++++.+  ..|+..
T Consensus       155 a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~--~~p~~~  229 (261)
T 3qky_A          155 ARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQ--IFPDSP  229 (261)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHH--HCTTCT
T ss_pred             HHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHH--HCCCCh
Confidence            88899999999999999999998777   446888888888866          999999999999988  356653

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.25  E-value=1.6e-08  Score=85.09  Aligned_cols=242  Identities=8%  Similarity=-0.015  Sum_probs=169.8

Q ss_pred             HhcC-ChhHHHHHHHHHhcCCCCCCchh-hHHHHHHHHHhcC--ChhhHHHHHHHHHhcCCCCcccccchHHHHHHH---
Q 047359          123 SKKG-DFGAAFDRLNEMCNGRNLTPGFS-TYSSILDGARRYE--KTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKL---  195 (440)
Q Consensus       123 ~~~~-~~~~a~~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~---  195 (440)
                      .+.| ..++|+++++.+..   +.|+.. .|+.--.++...+  +++++++.++.++...  |.+ ..+|+.-...+   
T Consensus        43 ~~~~e~s~~aL~~t~~~L~---~nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n--Pk~-y~aW~~R~~iL~~~  116 (306)
T 3dra_A           43 MKAEEYSERALHITELGIN---ELASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN--EKN-YQIWNYRQLIIGQI  116 (306)
T ss_dssp             HHTTCCSHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC--TTC-CHHHHHHHHHHHHH
T ss_pred             HHcCCCCHHHHHHHHHHHH---HCcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC--ccc-HHHHHHHHHHHHHH
Confidence            3444 44799999999987   777655 5677677777888  9999999999999876  543 56666655555   


Q ss_pred             -hhc---CcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHH--HHHHHHHHHHHcCCCCChhhHHHHHHHHHhcC
Q 047359          196 -SDM---GKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVK--EAIQIYHLISERGITVRDSDYYAFVNVLCKEH  269 (440)
Q Consensus       196 -~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  269 (440)
                       ...   +++++++.+++.+.+..++ +..+|+.-.-.+.+.|+++  ++++.++.+.+.++. +...|+.-...+...+
T Consensus       117 ~~~l~~~~~~~~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~  194 (306)
T 3dra_A          117 MELNNNDFDPYREFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKK  194 (306)
T ss_dssp             HHHTTTCCCTHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSG
T ss_pred             HHhccccCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcc
Confidence             555   7899999999999998776 8888888888888888888  999999999988765 6666665555554443


Q ss_pred             ChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHH-HHHHHH
Q 047359          270 QPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQID-KAIALH  348 (440)
Q Consensus       270 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~a~~~~  348 (440)
                      ..                .             ....++++++.++++....+. |...|+.+-..+.+.|+.. .+..+.
T Consensus       195 ~~----------------~-------------~~~~~~eEl~~~~~aI~~~p~-n~SaW~y~~~ll~~~~~~~~~~~~~~  244 (306)
T 3dra_A          195 HL----------------A-------------TDNTIDEELNYVKDKIVKCPQ-NPSTWNYLLGIHERFDRSITQLEEFS  244 (306)
T ss_dssp             GG----------------C-------------CHHHHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCCGGGGHHHH
T ss_pred             cc----------------c-------------hhhhHHHHHHHHHHHHHhCCC-CccHHHHHHHHHHhcCCChHHHHHHH
Confidence            30                0             001245666666666666554 6666766666666666533 344555


Q ss_pred             HHHHhcc--CCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHH-cCCCchhhHHHHHH
Q 047359          349 IKIEKLK--GSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKE-LKVVSSSSFVIVVS  402 (440)
Q Consensus       349 ~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~~~~l~~  402 (440)
                      .++.+.+  -..+...+..+...|.+.|+.++|.++++.+.+ .+|.....|...+.
T Consensus       245 ~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~~~~Dpir~~yW~~~~~  301 (306)
T 3dra_A          245 LQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLKSKYNPIRSNFWDYQIS  301 (306)
T ss_dssp             HTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCGGGHHHHHHHHH
T ss_pred             HHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhccChHHHHHHHHHHh
Confidence            5555433  123667777888888888888888888888876 56666666655443

>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=99.25  E-value=2.1e-10  Score=109.29  Aligned_cols=174  Identities=11%  Similarity=-0.076  Sum_probs=143.3

Q ss_pred             hhhccHHHHHHHHHHHH--------HcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHc
Q 047359          231 SKEGRVKEAIQIYHLIS--------ERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCG  302 (440)
Q Consensus       231 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  302 (440)
                      ...|++++|++.+++..        +... .+...+..+..++...|++++|...++.+.+.+ +.+...+..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p-~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFS-ESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCT-TCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccc-cchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHH
Confidence            67899999999999988        4332 356678888889999999999999999988763 3466788888888999


Q ss_pred             CCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHH
Q 047359          303 KGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRI  382 (440)
Q Consensus       303 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~  382 (440)
                      .|++++|.+.|++..+..+. +...+..+..+|...|++++ ++.|++..+.+.. +...|..+..++.+.|++++|++.
T Consensus       480 ~g~~~~A~~~~~~al~l~P~-~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTFPG-ELAPKLALAATAELAGNTDE-HKFYQTVWSTNDG-VISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCc-hHHHHHHHHHHHHHcCCHHHHHHH
Confidence            99999999999999887654 67788888889999999999 9999999887554 677888999999999999999999


Q ss_pred             HHHHHHcCCCchhhHHHHHHHHHhccc
Q 047359          383 FDYMKELKVVSSSSFVIVVSRLCHLKE  409 (440)
Q Consensus       383 ~~~~~~~~~~~~~~~~~l~~~~~~~g~  409 (440)
                      |+++.+.++.+..++..+..++...|+
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            999999888888888888888876554

>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=99.23  E-value=5.9e-11  Score=89.67  Aligned_cols=138  Identities=10%  Similarity=0.010  Sum_probs=65.6

Q ss_pred             cCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHH
Q 047359          268 EHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIAL  347 (440)
Q Consensus       268 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  347 (440)
                      .|++++|+..++...... +.+...+..+...|.+.|++++|++.|++..+..+. +...|..+..+|...|++++|+..
T Consensus        10 ~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~   87 (150)
T 4ga2_A           10 KADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQER-DPKAHRFLGLLYELEENTDKAVEC   87 (150)
T ss_dssp             HHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCchHHHHHH
Confidence            344444444444443321 112223334444555555555555555555544332 444555555555555555555555


Q ss_pred             HHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHH-HHHHHHcCCCchhhHHHHHHHHHhcc
Q 047359          348 HIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRI-FDYMKELKVVSSSSFVIVVSRLCHLK  408 (440)
Q Consensus       348 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~-~~~~~~~~~~~~~~~~~l~~~~~~~g  408 (440)
                      |++..+..+. +...|..+...|.+.|+.++|.+. ++++.+..|.++.+|......+.+.|
T Consensus        88 ~~~al~~~p~-~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           88 YRRSVELNPT-QKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHCTT-CHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCHHHHHHHHHHHHTCC
T ss_pred             HHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhC
Confidence            5555554322 344555555555555555443332 35555555555555554444444444

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.22  E-value=4.6e-10  Score=95.32  Aligned_cols=200  Identities=12%  Similarity=0.006  Sum_probs=139.9

Q ss_pred             HHHHhhcCcHHHHHHHHHHHHhc----CCCC-CHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCC---C--ChhhHHHH
Q 047359          192 IQKLSDMGKTYAAEMIFKRACDE----KIEL-QDDTCGCMLKALSKEGRVKEAIQIYHLISERGIT---V--RDSDYYAF  261 (440)
Q Consensus       192 ~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~--~~~~~~~l  261 (440)
                      ...|...|++++|...|.+..+.    +..+ ...+|+.+..+|.+.|++++|+..+++..+....   +  -..++..+
T Consensus        44 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~l  123 (292)
T 1qqe_A           44 ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFEL  123 (292)
T ss_dssp             HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            44566778888888888776553    1111 1457888888888889999998888877654211   1  13467788


Q ss_pred             HHHHHhc-CChHHHHHHHHHHHHcCCCC-C----hhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchh------hhH
Q 047359          262 VNVLCKE-HQPEEVCGLLRDVVERGYIP-C----AMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSF------CCS  329 (440)
Q Consensus       262 ~~~~~~~-~~~~~a~~~~~~~~~~~~~~-~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------~~~  329 (440)
                      ...|... |++++|...+++..+..... +    ..++..+...+...|++++|...+++..+..+.....      .+.
T Consensus       124 g~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  203 (292)
T 1qqe_A          124 GEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFL  203 (292)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHH
T ss_pred             HHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHH
Confidence            8888886 99999999999887642111 1    3467888889999999999999999998865443221      456


Q ss_pred             HHHHHHHcCCcHHHHHHHHHHHHhccCC-cC---HHhHHHHHHHHH--hcCcHHHHHHHHHHHHHcCC
Q 047359          330 SLMEYYCSNRQIDKAIALHIKIEKLKGS-LD---VATYDVLLDGLF--KDGRMEEAVRIFDYMKELKV  391 (440)
Q Consensus       330 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~-p~---~~~~~~l~~~~~--~~g~~~~a~~~~~~~~~~~~  391 (440)
                      .+..++...|++++|...+++..+..+. ++   ...+..++.++.  ..+++++|+..|+.+...+|
T Consensus       204 ~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~l~~  271 (292)
T 1qqe_A          204 KKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDK  271 (292)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCccHH
Confidence            7777888999999999999998864221 11   113445566664  45778889888877766543

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.21  E-value=1e-08  Score=93.34  Aligned_cols=340  Identities=10%  Similarity=-0.006  Sum_probs=199.5

Q ss_pred             ccC-CcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCC-hHHH
Q 047359           24 HKG-LFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGK-FEVV  101 (440)
Q Consensus        24 ~~~-~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a  101 (440)
                      +.| +++.|..+|+.+...  -|.              |+++.+..+|++.+..  .|+...|...+....+.++ .+..
T Consensus         6 ~~~~~i~~aR~vyer~l~~--~P~--------------~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~i   67 (493)
T 2uy1_A            6 KMGVELSSPSAIMEHARRL--YMS--------------KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFKL   67 (493)
T ss_dssp             ------CCHHHHHHHHHHH--HHT--------------TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----CT
T ss_pred             HcCcchHHHHHHHHHHHHH--CCC--------------CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHHH
Confidence            456 488888888888764  244              8899999999999874  5788899888887777663 3445


Q ss_pred             HHHHhccc-------CCchhHHHHHHHHH----hcCChhHHHHHHHHHhcCCCCCCc--hhhHHHHHHHHHhcCChhhHH
Q 047359          102 LGLLDSGI-------YSSVMYNLVIDFYS----KKGDFGAAFDRLNEMCNGRNLTPG--FSTYSSILDGARRYEKTEVSD  168 (440)
Q Consensus       102 ~~~~~~~~-------~~~~~~~~li~~~~----~~~~~~~a~~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~~~~~~a~  168 (440)
                      ..+|+...       .+...|...+..+.    ..++.+.+.++|++...   +++.  ...|...... .+......+.
T Consensus        68 ~~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~---~P~~~~~~lw~~Y~~f-E~~~~~~~~~  143 (493)
T 2uy1_A           68 YEVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQ---TPMGSLSELWKDFENF-ELELNKITGK  143 (493)
T ss_dssp             HHHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHT---SCCTTHHHHHHHHHHH-HHHHCHHHHH
T ss_pred             HHHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHh---ChhhhHHHHHHHHHHH-HHHhccccHH
Confidence            55555533       34456666666543    24567778888888876   2221  1122222111 1111122222


Q ss_pred             HHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhh-------ccHHHHHH
Q 047359          169 RIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKE-------GRVKEAIQ  241 (440)
Q Consensus       169 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-------~~~~~a~~  241 (440)
                      ++..+.                       .+.+..|..+++.+...-...+...|...+.--...       +..+.+..
T Consensus       144 ~~~~~~-----------------------~~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~  200 (493)
T 2uy1_A          144 KIVGDT-----------------------LPIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHF  200 (493)
T ss_dssp             HHHHHH-----------------------HHHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHH
T ss_pred             HHHHHH-----------------------hHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHH
Confidence            222211                       112333444444433211111334555544432211       11456778


Q ss_pred             HHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcC-
Q 047359          242 IYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKG-  320 (440)
Q Consensus       242 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-  320 (440)
                      +|+++....+ .+...|...+..+.+.|+++.|..+++.....  +.+...+..    |....+.++.   ++.+.+.- 
T Consensus       201 ~ye~al~~~p-~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~~----y~~~~e~~~~---~~~l~~~~~  270 (493)
T 2uy1_A          201 IHNYILDSFY-YAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSLY----YGLVMDEEAV---YGDLKRKYS  270 (493)
T ss_dssp             HHHHHHHHTT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHH----HHHHTTCTHH---HHHHHHHTC
T ss_pred             HHHHHHHcCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHHH----HHhhcchhHH---HHHHHHHHH
Confidence            9999888643 35778888888889999999999999999987  333333322    2221111111   22222110 


Q ss_pred             -----------CCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhc-CcHHHHHHHHHHHHH
Q 047359          321 -----------LLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKD-GRMEEAVRIFDYMKE  388 (440)
Q Consensus       321 -----------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~-g~~~~a~~~~~~~~~  388 (440)
                                 .......|...+....+.++.+.|..+|++. +. ...+...|......-... ++.+.|..+|+...+
T Consensus       271 ~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~  348 (493)
T 2uy1_A          271 MGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLL  348 (493)
T ss_dssp             ----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHH
T ss_pred             hhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHH
Confidence                       0112245666677777788899999999999 32 223444554333332233 369999999999998


Q ss_pred             cCCCchhhHHHHHHHHHhcccHHHHHHHHHHH
Q 047359          389 LKVVSSSSFVIVVSRLCHLKELRKAMKNHDEM  420 (440)
Q Consensus       389 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  420 (440)
                      ..+.++..+...+....+.|+.+.|..+|+++
T Consensus       349 ~~~~~~~~~~~yid~e~~~~~~~~aR~l~er~  380 (493)
T 2uy1_A          349 KHPDSTLLKEEFFLFLLRIGDEENARALFKRL  380 (493)
T ss_dssp             HCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHS
T ss_pred             HCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            87667777777888888899999999998886

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.20  E-value=4.1e-09  Score=85.68  Aligned_cols=184  Identities=7%  Similarity=-0.044  Sum_probs=122.7

Q ss_pred             CHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCC--hhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChh----h
Q 047359          219 QDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVR--DSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAM----E  292 (440)
Q Consensus       219 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~  292 (440)
                      +...+..+...+.+.|++++|...|+++.+..+...  ...+..+..++.+.|++++|...++.+.+..  |+..    .
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~--P~~~~~~~a   80 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN--PTHPNIDYV   80 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTTHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCCcHHHH
Confidence            445566677788899999999999999988643321  3567778888999999999999999988764  3322    3


Q ss_pred             HHHHHHHHHc------------------CCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhc
Q 047359          293 LSRFVASQCG------------------KGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKL  354 (440)
Q Consensus       293 ~~~l~~~~~~------------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  354 (440)
                      +..+..++..                  .|++++|...|+++.+..+. +...+.....              ...+...
T Consensus        81 ~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~-~~~a~~a~~~--------------l~~~~~~  145 (225)
T 2yhc_A           81 MYMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGYPN-SQYTTDATKR--------------LVFLKDR  145 (225)
T ss_dssp             HHHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTCTT-CTTHHHHHHH--------------HHHHHHH
T ss_pred             HHHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHCcC-ChhHHHHHHH--------------HHHHHHH
Confidence            3344444433                  34555555555555554221 1111111100              0000000


Q ss_pred             cCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCch---hhHHHHHHHHHhcccHHHHHHHHHHHHHC
Q 047359          355 KGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSS---SSFVIVVSRLCHLKELRKAMKNHDEMLKM  423 (440)
Q Consensus       355 ~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  423 (440)
                          .......+...|.+.|++++|+..|+++.+..|.++   .++..+..++.+.|++++|.+.++.+...
T Consensus       146 ----~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~  213 (225)
T 2yhc_A          146 ----LAKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAAN  213 (225)
T ss_dssp             ----HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHC
T ss_pred             ----HHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh
Confidence                001113456778899999999999999999887744   67889999999999999999999998874

>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=99.20  E-value=6.6e-11  Score=89.40  Aligned_cols=133  Identities=12%  Similarity=0.036  Sum_probs=110.3

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCc
Q 047359          296 FVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGR  375 (440)
Q Consensus       296 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  375 (440)
                      |...+...|++++|+..++......+. +...+..+...|...|++++|++.|++.++..+. +..+|..+..+|.+.|+
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~~~p~-~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~   80 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTPSPRQ-KSIKGFYFAKLYYEAKEYDLAKKYICTYINVQER-DPKAHRFLGLLYELEEN   80 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSCSHHH-HHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHcChHHHHHHHHHHhcccCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCc
Confidence            344556678999999999988765322 4556778889999999999999999999987655 78899999999999999


Q ss_pred             HHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHH-HHHHHHCCCCCCHHHH
Q 047359          376 MEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKN-HDEMLKMGHKPDEATY  432 (440)
Q Consensus       376 ~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~-~~~m~~~~~~p~~~t~  432 (440)
                      +++|+..|+++.+.+|.++.++..+...|.+.|++++|.+. +++..+  +.|+....
T Consensus        81 ~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~--l~P~~~~~  136 (150)
T 4ga2_A           81 TDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAK--LFPGSPAV  136 (150)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHH--HSTTCHHH
T ss_pred             hHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHH--hCcCCHHH
Confidence            99999999999999999999999999999999999877665 588887  56766543

>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=99.20  E-value=1.8e-09  Score=79.67  Aligned_cols=127  Identities=18%  Similarity=0.199  Sum_probs=60.6

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCc
Q 047359          261 FVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQ  340 (440)
Q Consensus       261 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  340 (440)
                      +...+...|++++|..+++.+.+.+ +.+...+..+...+...|++++|...++++...+.. +...+..+...+...|+
T Consensus         7 l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~   84 (136)
T 2fo7_A            7 LGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPR-SAEAWYNLGNAYYKQGD   84 (136)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCC-chHHHHHHHHHHHHhcC
Confidence            3344444444444444444444332 122333444444444445555555555544443222 33444445555555555


Q ss_pred             HHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcC
Q 047359          341 IDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELK  390 (440)
Q Consensus       341 ~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  390 (440)
                      +++|.+.++++.+.... +...+..+...+.+.|++++|...++++.+.+
T Consensus        85 ~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  133 (136)
T 2fo7_A           85 YDEAIEYYQKALELDPR-SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD  133 (136)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHHccHHHHHHHHHHHHccC
Confidence            55555555555544222 34455555555556666666666665555443

>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=99.18  E-value=4.6e-09  Score=84.45  Aligned_cols=175  Identities=13%  Similarity=0.038  Sum_probs=90.3

Q ss_pred             HHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCC----CHHHHHHHHH
Q 047359          239 AIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKG----KWKEVEELLS  314 (440)
Q Consensus       239 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~~  314 (440)
                      |++.|++..+.|   +...+..+...+...+++++|..+|+...+.+   +...+..+...|.. +    ++++|.+.|+
T Consensus         5 A~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~   77 (212)
T 3rjv_A            5 PGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAE   77 (212)
T ss_dssp             TTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHH
Confidence            334444444432   33444444445555555555555555555443   23344444444444 3    5555555555


Q ss_pred             HHHhcCCCCchhhhHHHHHHHHc----CCcHHHHHHHHHHHHhccCC-cCHHhHHHHHHHHHh----cCcHHHHHHHHHH
Q 047359          315 AVLDKGLLLDSFCCSSLMEYYCS----NRQIDKAIALHIKIEKLKGS-LDVATYDVLLDGLFK----DGRMEEAVRIFDY  385 (440)
Q Consensus       315 ~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~-p~~~~~~~l~~~~~~----~g~~~~a~~~~~~  385 (440)
                      +..+.+   +...+..+...|..    .+++++|.+.|++..+.+.. .+...+..|...|..    .++.++|...|++
T Consensus        78 ~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~  154 (212)
T 3rjv_A           78 KAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKG  154 (212)
T ss_dssp             HHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHH
T ss_pred             HHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence            555443   34444455555544    55666666666666554321 014455555555555    5566666666666


Q ss_pred             HHHcCCCchhhHHHHHHHHHhc-c-----cHHHHHHHHHHHHHCC
Q 047359          386 MKELKVVSSSSFVIVVSRLCHL-K-----ELRKAMKNHDEMLKMG  424 (440)
Q Consensus       386 ~~~~~~~~~~~~~~l~~~~~~~-g-----~~~~a~~~~~~m~~~~  424 (440)
                      ..+. +.++.++..+...|... |     ++++|...|++..+.|
T Consensus       155 A~~~-~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          155 SSSL-SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHT-SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHc-CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            6555 22444555555555432 2     5666666666666654

>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=99.18  E-value=3.7e-09  Score=100.68  Aligned_cols=173  Identities=10%  Similarity=-0.086  Sum_probs=107.1

Q ss_pred             hhcCcHHHHHHHHHHHH--------hcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 047359          196 SDMGKTYAAEMIFKRAC--------DEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCK  267 (440)
Q Consensus       196 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  267 (440)
                      ...|++++|.+.+++..        +..+. +...+..+..++.+.|++++|+..|++..+.+.. +...+..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~-~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSE-SVELPLMEVRALLDLGDVAKATRKLDDLAERVGW-RWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTT-CSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccccc-chhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcc-hHHHHHHHHHHHHH
Confidence            56667777777777666        33222 4456666666677777777777777776665432 45566666666777


Q ss_pred             cCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHH
Q 047359          268 EHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIAL  347 (440)
Q Consensus       268 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  347 (440)
                      .|++++|...|+++.+.. +.+...+..+..++.+.|++++ .+.|++..+.++. +...|..+..++...|++++|++.
T Consensus       480 ~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDG-VISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCc-hHHHHHHHHHHHHHcCCHHHHHHH
Confidence            777777777777776653 2344556666666777777777 7777777665443 555666667777777777777777


Q ss_pred             HHHHHhccCCcCHHhHHHHHHHHHhcC
Q 047359          348 HIKIEKLKGSLDVATYDVLLDGLFKDG  374 (440)
Q Consensus       348 ~~~~~~~~~~p~~~~~~~l~~~~~~~g  374 (440)
                      |+++.+.+.. +...+..+..++...+
T Consensus       557 ~~~al~l~P~-~~~a~~~~~~~~~~~~  582 (681)
T 2pzi_A          557 LDEVPPTSRH-FTTARLTSAVTLLSGR  582 (681)
T ss_dssp             HHTSCTTSTT-HHHHHHHHHHHTC---
T ss_pred             HHhhcccCcc-cHHHHHHHHHHHHccC
Confidence            7766654322 3445555555554433

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.17  E-value=1.3e-09  Score=92.18  Aligned_cols=165  Identities=13%  Similarity=-0.017  Sum_probs=119.7

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhH-HHH
Q 047359          254 RDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCS-SLM  332 (440)
Q Consensus       254 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~  332 (440)
                      +...+..+...+...|++++|...++.+.+.. +.+...+..+...+...|++++|...++++....  |+..... ...
T Consensus       116 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~~~~  192 (287)
T 3qou_A          116 EEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQD--QDTRYQGLVAQ  192 (287)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG--CSHHHHHHHHH
T ss_pred             chhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhh--cchHHHHHHHH
Confidence            44555666667777788888888888777653 3355667777777778888888888887776553  3333222 222


Q ss_pred             HHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc--hhhHHHHHHHHHhcccH
Q 047359          333 EYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVS--SSSFVIVVSRLCHLKEL  410 (440)
Q Consensus       333 ~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~  410 (440)
                      ..+...++.+.|...+++.....+. +...+..+...+...|++++|...|+++.+..|.+  ..++..++..+...|+.
T Consensus       193 ~~l~~~~~~~~a~~~l~~al~~~P~-~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~  271 (287)
T 3qou_A          193 IELLXQAADTPEIQQLQQQVAENPE-DAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTG  271 (287)
T ss_dssp             HHHHHHHTSCHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTT
T ss_pred             HHHHhhcccCccHHHHHHHHhcCCc-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCC
Confidence            2355667777788888888876544 67788888888888888888888888888888774  77888888888888888


Q ss_pred             HHHHHHHHHHHH
Q 047359          411 RKAMKNHDEMLK  422 (440)
Q Consensus       411 ~~a~~~~~~m~~  422 (440)
                      ++|...+++.+.
T Consensus       272 ~~a~~~~r~al~  283 (287)
T 3qou_A          272 DALASXYRRQLY  283 (287)
T ss_dssp             CHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHH
Confidence            888888877653

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=99.15  E-value=5.9e-10  Score=86.82  Aligned_cols=161  Identities=10%  Similarity=-0.010  Sum_probs=107.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHH-HH
Q 047359          258 YYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEY-YC  336 (440)
Q Consensus       258 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~  336 (440)
                      +......+...|++++|...++...+.. +.+...+..+...+...|++++|...++++....+  +...+...... +.
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p--~~~~~~~~~~~~~~   85 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEYQ--DNSYKSLIAKLELH   85 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGC--CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccC--ChHHHHHHHHHHHH
Confidence            4445556666777777777777665542 23455666666777777777777777776655432  32222221111 11


Q ss_pred             cCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC--chhhHHHHHHHHHhcccHHHHH
Q 047359          337 SNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV--SSSSFVIVVSRLCHLKELRKAM  414 (440)
Q Consensus       337 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~  414 (440)
                      ..++...|...+++..+..+. +...+..+...+...|++++|...|+++.+..|.  ++..+..+...+...|+.++|.
T Consensus        86 ~~~~~~~a~~~~~~al~~~P~-~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~  164 (176)
T 2r5s_A           86 QQAAESPELKRLEQELAANPD-NFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIA  164 (176)
T ss_dssp             HHHTSCHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHH
T ss_pred             hhcccchHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHH
Confidence            222233467778887775443 5778888888888899999999999988888776  3568888888888889988888


Q ss_pred             HHHHHHHH
Q 047359          415 KNHDEMLK  422 (440)
Q Consensus       415 ~~~~~m~~  422 (440)
                      ..|++.+.
T Consensus       165 ~~y~~al~  172 (176)
T 2r5s_A          165 SKYRRQLY  172 (176)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            88887654

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=99.15  E-value=1e-09  Score=102.65  Aligned_cols=165  Identities=8%  Similarity=-0.069  Sum_probs=118.2

Q ss_pred             hccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHH
Q 047359          233 EGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEEL  312 (440)
Q Consensus       233 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  312 (440)
                      .|++++|...+++..+.... +...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQ-DFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             -------------------C-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            47888899999888776533 56778888888889999999999999988764 34567788888888889999999999


Q ss_pred             HHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhc---CcHHHHHHHHHHHHHc
Q 047359          313 LSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKD---GRMEEAVRIFDYMKEL  389 (440)
Q Consensus       313 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~---g~~~~a~~~~~~~~~~  389 (440)
                      +++..+.... +...+..+..+|...|++++|.+.+++..+.... +...+..+...+...   |+.++|.+.++++.+.
T Consensus        80 ~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           80 LQQASDAAPE-HPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPE-EPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            9988877544 6678888888899999999999999988876543 567788888888888   8999999999999888


Q ss_pred             CCCchhhHHHHH
Q 047359          390 KVVSSSSFVIVV  401 (440)
Q Consensus       390 ~~~~~~~~~~l~  401 (440)
                      ++.+...+..+.
T Consensus       158 ~p~~~~~~~~l~  169 (568)
T 2vsy_A          158 GVGAVEPFAFLS  169 (568)
T ss_dssp             TCCCSCHHHHTT
T ss_pred             CCcccChHHHhC
Confidence            887665555544

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.14  E-value=1.2e-08  Score=82.88  Aligned_cols=189  Identities=10%  Similarity=-0.077  Sum_probs=135.1

Q ss_pred             ccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCC--HHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCCh--hhHHH
Q 047359          185 LSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQ--DDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRD--SDYYA  260 (440)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~  260 (440)
                      ...+..+...+.+.|++++|...|+++.+..+...  ...+..+..++.+.|++++|+..|+++.+..+....  ..+..
T Consensus         4 ~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~   83 (225)
T 2yhc_A            4 PNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYM   83 (225)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHH
Confidence            44566778889999999999999999998755422  357788899999999999999999999987543221  23444


Q ss_pred             HHHHHHh------------------cCChHHHHHHHHHHHHcCCCCChh-hHHHHHHHHHcCCCHHHHHHHHHHHHhcCC
Q 047359          261 FVNVLCK------------------EHQPEEVCGLLRDVVERGYIPCAM-ELSRFVASQCGKGKWKEVEELLSAVLDKGL  321 (440)
Q Consensus       261 l~~~~~~------------------~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  321 (440)
                      +..++..                  .|++++|...|+.+.+..  |+.. .......              +..+...  
T Consensus        84 ~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--P~~~~a~~a~~~--------------l~~~~~~--  145 (225)
T 2yhc_A           84 RGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY--PNSQYTTDATKR--------------LVFLKDR--  145 (225)
T ss_dssp             HHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTC--TTCTTHHHHHHH--------------HHHHHHH--
T ss_pred             HHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC--cCChhHHHHHHH--------------HHHHHHH--
Confidence            4555543                  578999999999998763  4432 2221111              1111100  


Q ss_pred             CCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcC--HHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc
Q 047359          322 LLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLD--VATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVS  393 (440)
Q Consensus       322 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  393 (440)
                        .......+...|.+.|++++|+..|+++++..+...  ...+..+..+|.+.|+.++|.+.++.+...+|.+
T Consensus       146 --~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~~  217 (225)
T 2yhc_A          146 --LAKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSNT  217 (225)
T ss_dssp             --HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSCC
T ss_pred             --HHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCc
Confidence              011123456778899999999999999998643311  2568889999999999999999999998887763

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.12  E-value=2.8e-09  Score=85.49  Aligned_cols=128  Identities=11%  Similarity=-0.030  Sum_probs=88.2

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCc
Q 047359          261 FVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQ  340 (440)
Q Consensus       261 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  340 (440)
                      +..++.+.|++++|...++...+.. +.+...+..+...+...|++++|...|++..+..+. +...+..+...|...|+
T Consensus        60 lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~  137 (208)
T 3urz_A           60 LALAYKKNRNYDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEAD-NLAANIFLGNYYYLTAE  137 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHhH
Confidence            6777788888888888888887764 345667778888888888888888888888877544 56677777777655543


Q ss_pred             --HHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC
Q 047359          341 --IDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV  392 (440)
Q Consensus       341 --~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  392 (440)
                        ...+...++....  ..|....+.....++...|++++|+..|+++.+..|.
T Consensus       138 ~~~~~~~~~~~~~~~--~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P~  189 (208)
T 3urz_A          138 QEKKKLETDYKKLSS--PTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFPS  189 (208)
T ss_dssp             HHHHHHHHHHC---C--CCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSCC
T ss_pred             HHHHHHHHHHHHHhC--CCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC
Confidence              3444555555432  2333334445566677788888888888888887665

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=99.10  E-value=3.3e-09  Score=99.28  Aligned_cols=156  Identities=8%  Similarity=-0.076  Sum_probs=120.2

Q ss_pred             cCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHH
Q 047359          198 MGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGL  277 (440)
Q Consensus       198 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  277 (440)
                      .|++++|.+.+++..+..+. +...+..+...+...|++++|...+++..+.... +...+..+...+...|++++|...
T Consensus         2 ~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQ-DFVAWLMLADAELGMGDTTAGEMAVQRGLALHPG-HPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             -------------------C-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTT-CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHH
Confidence            47889999999998876554 6788999999999999999999999999987643 677889999999999999999999


Q ss_pred             HHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcC---CcHHHHHHHHHHHHhc
Q 047359          278 LRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSN---RQIDKAIALHIKIEKL  354 (440)
Q Consensus       278 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~  354 (440)
                      +++..+.. +.+...+..+...+...|++++|.+.+++..+.... +...+..+...+...   |+.++|.+.+++..+.
T Consensus        80 ~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           80 LQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPE-EPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            99998874 445678889999999999999999999999887554 677888899999999   9999999999999987


Q ss_pred             cCC
Q 047359          355 KGS  357 (440)
Q Consensus       355 ~~~  357 (440)
                      +..
T Consensus       158 ~p~  160 (568)
T 2vsy_A          158 GVG  160 (568)
T ss_dssp             TCC
T ss_pred             CCc
Confidence            544

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=99.09  E-value=5.3e-09  Score=81.37  Aligned_cols=158  Identities=11%  Similarity=0.014  Sum_probs=88.5

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHhccc----CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHH-H
Q 047359           84 TWSLVAQILCRSGKFEVVLGLLDSGI----YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDG-A  158 (440)
Q Consensus        84 ~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~-~  158 (440)
                      .+..+...+...|++++|...|++..    .+...+..+..++.+.|++++|...|++..+   ..|+...+..+... +
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~---~~p~~~~~~~~~~~~~   84 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPL---EYQDNSYKSLIAKLEL   84 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCG---GGCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhh---ccCChHHHHHHHHHHH
Confidence            34455556666777777777777665    3445566677777777777777777777654   33332222211111 1


Q ss_pred             HhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCC-CHHhHHHHHHHHhhhccHH
Q 047359          159 RRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIEL-QDDTCGCMLKALSKEGRVK  237 (440)
Q Consensus       159 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~  237 (440)
                      ...+....+...+++..+..  |++ ...+..+...+...|++++|...|+++.+..+.+ +...+..+...+...|+.+
T Consensus        85 ~~~~~~~~a~~~~~~al~~~--P~~-~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~  161 (176)
T 2r5s_A           85 HQQAAESPELKRLEQELAAN--PDN-FELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGN  161 (176)
T ss_dssp             HHHHTSCHHHHHHHHHHHHS--TTC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSC
T ss_pred             HhhcccchHHHHHHHHHHhC--CCC-HHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCC
Confidence            12222334566666665543  432 4555556666666666666666666666554432 2345556666666666666


Q ss_pred             HHHHHHHHHH
Q 047359          238 EAIQIYHLIS  247 (440)
Q Consensus       238 ~a~~~~~~~~  247 (440)
                      +|...|++..
T Consensus       162 ~A~~~y~~al  171 (176)
T 2r5s_A          162 AIASKYRRQL  171 (176)
T ss_dssp             HHHHHHHHHH
T ss_pred             cHHHHHHHHH
Confidence            6666665543

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.08  E-value=3.9e-09  Score=76.79  Aligned_cols=103  Identities=15%  Similarity=0.081  Sum_probs=73.8

Q ss_pred             hhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHh
Q 047359          327 CCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCH  406 (440)
Q Consensus       327 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  406 (440)
                      .+......|.+.|++++|++.|++.++..+. +...|..+..+|.+.|++++|+..|+++.+.++.++.+|..+..++..
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~   93 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKRDPE-NAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAACLVA   93 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHH
Confidence            4555666777777777777777777765443 566777777777777777777777777777777777777777777777


Q ss_pred             cccHHHHHHHHHHHHHCCCCCCHHHH
Q 047359          407 LKELRKAMKNHDEMLKMGHKPDEATY  432 (440)
Q Consensus       407 ~g~~~~a~~~~~~m~~~~~~p~~~t~  432 (440)
                      .|++++|++.|++.++  +.|+....
T Consensus        94 ~~~~~~A~~~~~~al~--l~P~~~~a  117 (126)
T 4gco_A           94 MREWSKAQRAYEDALQ--VDPSNEEA  117 (126)
T ss_dssp             TTCHHHHHHHHHHHHH--HCTTCHHH
T ss_pred             CCCHHHHHHHHHHHHH--HCcCCHHH
Confidence            7777777777777777  45655433

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.07  E-value=3.3e-09  Score=79.60  Aligned_cols=104  Identities=13%  Similarity=-0.004  Sum_probs=85.2

Q ss_pred             chhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHH
Q 047359          324 DSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSR  403 (440)
Q Consensus       324 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  403 (440)
                      +...+..+...+.+.|++++|...|+++.+..+. +...|..+..+|...|++++|+..|+++.+.+|.++..|..+..+
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~lg~~  113 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFY-NVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFHTGQC  113 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHHHHHH
Confidence            3445667777888888888888888888886544 677888888888888999999999998888888888888888888


Q ss_pred             HHhcccHHHHHHHHHHHHHCCCCCCHH
Q 047359          404 LCHLKELRKAMKNHDEMLKMGHKPDEA  430 (440)
Q Consensus       404 ~~~~g~~~~a~~~~~~m~~~~~~p~~~  430 (440)
                      |.+.|++++|...|++.++  +.||..
T Consensus       114 ~~~lg~~~eA~~~~~~al~--l~~~~~  138 (151)
T 3gyz_A          114 QLRLKAPLKAKECFELVIQ--HSNDEK  138 (151)
T ss_dssp             HHHTTCHHHHHHHHHHHHH--HCCCHH
T ss_pred             HHHcCCHHHHHHHHHHHHH--hCCCHH
Confidence            8899999999999988887  456654

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=99.06  E-value=7.8e-09  Score=88.42  Aligned_cols=226  Identities=9%  Similarity=-0.053  Sum_probs=154.3

Q ss_pred             hcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHH
Q 047359          160 RYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEA  239 (440)
Q Consensus       160 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  239 (440)
                      ..|++++|.+++++..+..  +.    .+      +...++++.|...|.+.               ...|...|++++|
T Consensus         3 ~~~~~~eA~~~~~~a~k~~--~~----~~------~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A   55 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYL--KT----SF------MKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQA   55 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHH--CC----CS------SSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHH
T ss_pred             ccchHHHHHHHHHHHHHHc--cc----cc------cCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHH
Confidence            3567888888888877642  11    00      11146777777777654               3466778899999


Q ss_pred             HHHHHHHHHcCC----CC-ChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCC---CC--ChhhHHHHHHHHHcCCCHHHH
Q 047359          240 IQIYHLISERGI----TV-RDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGY---IP--CAMELSRFVASQCGKGKWKEV  309 (440)
Q Consensus       240 ~~~~~~~~~~~~----~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~~~~~~~~~~~a  309 (440)
                      ...|.+..+...    .+ -..+|..+...|...|++++|...++...+...   .+  ...++..+...|.. |++++|
T Consensus        56 ~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A  134 (307)
T 2ifu_A           56 KDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKA  134 (307)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHH
Confidence            888887755311    11 134677888888899999999999988765311   11  23567778888888 999999


Q ss_pred             HHHHHHHHhcCCCC-----chhhhHHHHHHHHcCCcHHHHHHHHHHHHhccC----CcC-HHhHHHHHHHHHhcCcHHHH
Q 047359          310 EELLSAVLDKGLLL-----DSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKG----SLD-VATYDVLLDGLFKDGRMEEA  379 (440)
Q Consensus       310 ~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~p~-~~~~~~l~~~~~~~g~~~~a  379 (440)
                      +..+++..+.....     ...++..+...|...|++++|+..|++..+...    .+. ...+..++.++...|++++|
T Consensus       135 ~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A  214 (307)
T 2ifu_A          135 VHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAA  214 (307)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHH
Confidence            99999887542111     145677888899999999999999999886421    111 23566677788888999999


Q ss_pred             HHHHHHHHHcCCCch-----hhHHHHHHHHHhcccHHHHHH
Q 047359          380 VRIFDYMKELKVVSS-----SSFVIVVSRLCHLKELRKAMK  415 (440)
Q Consensus       380 ~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~g~~~~a~~  415 (440)
                      ...|++.. ..|...     .....++.++ ..|+.+.+.+
T Consensus       215 ~~~~~~al-~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          215 QKCVRESY-SIPGFSGSEDCAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHHHHHT-TSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HHHHHHHh-CCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHH
Confidence            99999988 666521     2344455555 5667665555

>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=99.05  E-value=5.7e-08  Score=77.97  Aligned_cols=177  Identities=10%  Similarity=-0.055  Sum_probs=105.8

Q ss_pred             HHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcC----ChHHHHHHHH
Q 047359          204 AEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEH----QPEEVCGLLR  279 (440)
Q Consensus       204 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~~  279 (440)
                      |.+.|++..+.   -++..+..+...|...+++++|...|++..+.|   +...+..+...|.. +    ++++|..+|+
T Consensus         5 A~~~~~~aa~~---g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~   77 (212)
T 3rjv_A            5 PGSQYQQQAEA---GDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAE   77 (212)
T ss_dssp             TTHHHHHHHHT---TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHC---CCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHH
Confidence            34444444443   244555556666666666666666666666554   33445555555555 4    6666666666


Q ss_pred             HHHHcCCCCChhhHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCC-CchhhhHHHHHHHHc----CCcHHHHHHHHHH
Q 047359          280 DVVERGYIPCAMELSRFVASQCG----KGKWKEVEELLSAVLDKGLL-LDSFCCSSLMEYYCS----NRQIDKAIALHIK  350 (440)
Q Consensus       280 ~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~a~~~~~~  350 (440)
                      ...+.+   +...+..|...|..    .+++++|.+.|++..+.+.. .+...+..|...|..    .+++++|...|++
T Consensus        78 ~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~  154 (212)
T 3rjv_A           78 KAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKG  154 (212)
T ss_dssp             HHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHH
T ss_pred             HHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence            666543   34455555555655    56777777777777665431 024556666666666    6677777777777


Q ss_pred             HHhccCCcCHHhHHHHHHHHHhc-C-----cHHHHHHHHHHHHHcCCC
Q 047359          351 IEKLKGSLDVATYDVLLDGLFKD-G-----RMEEAVRIFDYMKELKVV  392 (440)
Q Consensus       351 ~~~~~~~p~~~~~~~l~~~~~~~-g-----~~~~a~~~~~~~~~~~~~  392 (440)
                      ..+.  ..+...+..|...|... |     +.++|...|++..+.|.+
T Consensus       155 A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~~  200 (212)
T 3rjv_A          155 SSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGFD  200 (212)
T ss_dssp             HHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTCH
T ss_pred             HHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCCH
Confidence            7765  12344566666666543 2     677777777777776543

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=99.04  E-value=1.1e-07  Score=80.63  Aligned_cols=163  Identities=17%  Similarity=0.104  Sum_probs=120.3

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCC-CCCh----hhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCC-c----hhhhH
Q 047359          260 AFVNVLCKEHQPEEVCGLLRDVVERGY-IPCA----MELSRFVASQCGKGKWKEVEELLSAVLDKGLLL-D----SFCCS  329 (440)
Q Consensus       260 ~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~----~~~~~  329 (440)
                      ..+..+...|++++|..+++...+... .|+.    ..+..+...+...+++++|...+++..+..... +    ..+++
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            345667788999999999988876421 2221    123346666777789999999999998743222 2    22688


Q ss_pred             HHHHHHHcCCcHHHHHHHHHHHHhc-----cCCcC-HHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC------chhhH
Q 047359          330 SLMEYYCSNRQIDKAIALHIKIEKL-----KGSLD-VATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV------SSSSF  397 (440)
Q Consensus       330 ~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~------~~~~~  397 (440)
                      .+...|...|++++|...++++.+.     +..+. ..++..+...|.+.|++++|...+++..+....      -..++
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~  239 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLY  239 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHH
Confidence            8888999999999999999998842     11222 347788999999999999999999988754322      25688


Q ss_pred             HHHHHHHHhccc-HHHHHHHHHHHHH
Q 047359          398 VIVVSRLCHLKE-LRKAMKNHDEMLK  422 (440)
Q Consensus       398 ~~l~~~~~~~g~-~~~a~~~~~~m~~  422 (440)
                      ..+..++.+.|+ +++|.+.+++...
T Consensus       240 ~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          240 YQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            999999999994 6999999988764

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.03  E-value=9.5e-09  Score=86.87  Aligned_cols=166  Identities=9%  Similarity=-0.024  Sum_probs=121.1

Q ss_pred             CHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHH-HH
Q 047359          219 QDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSR-FV  297 (440)
Q Consensus       219 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-l~  297 (440)
                      +...+..+...+...|++++|...|++..+..+. +...+..+...+.+.|++++|...++.+....  |+...... ..
T Consensus       116 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~~~~  192 (287)
T 3qou_A          116 EEELXAQQAMQLMQESNYTDALPLLXDAWQLSNQ-NGEIGLLLAETLIALNRSEDAEAVLXTIPLQD--QDTRYQGLVAQ  192 (287)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTS-CHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG--CSHHHHHHHHH
T ss_pred             chhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCCc-chhHHHHHHHHHHHCCCHHHHHHHHHhCchhh--cchHHHHHHHH
Confidence            4456666777778888888888888888776543 56677778888888888888888888876653  44332222 22


Q ss_pred             HHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCc-CHHhHHHHHHHHHhcCcH
Q 047359          298 ASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSL-DVATYDVLLDGLFKDGRM  376 (440)
Q Consensus       298 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~  376 (440)
                      ..+...++.+.|...+++.....+. +...+..+...+...|++++|...+.++.+..+.. +...+..++..+...|+.
T Consensus       193 ~~l~~~~~~~~a~~~l~~al~~~P~-~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~  271 (287)
T 3qou_A          193 IELLXQAADTPEIQQLQQQVAENPE-DAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTG  271 (287)
T ss_dssp             HHHHHHHTSCHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTT
T ss_pred             HHHHhhcccCccHHHHHHHHhcCCc-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCC
Confidence            2345566777788888888776544 67778888888888888888888888888765432 256788888888888888


Q ss_pred             HHHHHHHHHHHH
Q 047359          377 EEAVRIFDYMKE  388 (440)
Q Consensus       377 ~~a~~~~~~~~~  388 (440)
                      ++|...+++...
T Consensus       272 ~~a~~~~r~al~  283 (287)
T 3qou_A          272 DALASXYRRQLY  283 (287)
T ss_dssp             CHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHH
Confidence            888888776543

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=99.03  E-value=1.2e-09  Score=82.15  Aligned_cols=95  Identities=14%  Similarity=-0.004  Sum_probs=53.2

Q ss_pred             hhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHh
Q 047359          327 CCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCH  406 (440)
Q Consensus       327 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  406 (440)
                      .+..+...+...|++++|...|++.....+. +...|..+..+|...|++++|+..|+++.+.+|.++..+..+..++..
T Consensus        23 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~  101 (148)
T 2vgx_A           23 QLYSLAFNQYQSGXYEDAHXVFQALCVLDHY-DSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHAAECLLQ  101 (148)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHHH
Confidence            3444455555555555555555555554332 445555555555555666666666665555555555555555555555


Q ss_pred             cccHHHHHHHHHHHHH
Q 047359          407 LKELRKAMKNHDEMLK  422 (440)
Q Consensus       407 ~g~~~~a~~~~~~m~~  422 (440)
                      .|++++|...|++.++
T Consensus       102 ~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A          102 XGELAEAESGLFLAQE  117 (148)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            6666666655555554

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=99.02  E-value=1.9e-08  Score=80.96  Aligned_cols=131  Identities=8%  Similarity=-0.075  Sum_probs=96.5

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHH
Q 047359          257 DYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYC  336 (440)
Q Consensus       257 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  336 (440)
                      .+..+...+...|++++|...++...    .|+...+..+...+...|++++|...+++....... +...+..+..+|.
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~lg~~~~   82 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKH-LAVAYFQRGMLYY   82 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHH
Confidence            34556667777888888888887763    456677778888888888888888888888776533 5667777778888


Q ss_pred             cCCcHHHHHHHHHHHHhccCCc---------------CHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC
Q 047359          337 SNRQIDKAIALHIKIEKLKGSL---------------DVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV  392 (440)
Q Consensus       337 ~~~~~~~a~~~~~~~~~~~~~p---------------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  392 (440)
                      ..|++++|.+.+++..+.....               ....+..+..+|.+.|++++|.+.|+++.+..+.
T Consensus        83 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~  153 (213)
T 1hh8_A           83 QTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSE  153 (213)
T ss_dssp             HTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCS
T ss_pred             HcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCcc
Confidence            8888888888888887753321               1256777777888888888888888888777665

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=99.02  E-value=2.8e-09  Score=83.04  Aligned_cols=123  Identities=12%  Similarity=0.124  Sum_probs=54.5

Q ss_pred             hcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHH-HHcCCcH--HH
Q 047359          267 KEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEY-YCSNRQI--DK  343 (440)
Q Consensus       267 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~--~~  343 (440)
                      ..|++++|...++...+.. +.+...+..+...+...|++++|...+++.....+. +...+..+..+ +...|++  ++
T Consensus        22 ~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~l~~~~~~~~~~~   99 (177)
T 2e2e_A           22 SQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGE-NAELYAALATVLYYQASQHMTAQ   99 (177)
T ss_dssp             -----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTCCCHH
T ss_pred             hccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhcCCcchHH
Confidence            3444555555555544432 223344444445555555555555555555443222 33344444444 4444444  55


Q ss_pred             HHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC
Q 047359          344 AIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV  392 (440)
Q Consensus       344 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  392 (440)
                      |...++++.+..+. +...+..+...|...|++++|...|+++.+..+.
T Consensus       100 A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~  147 (177)
T 2e2e_A          100 TRAMIDKALALDSN-EITALMLLASDAFMQANYAQAIELWQKVMDLNSP  147 (177)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCT
T ss_pred             HHHHHHHHHHhCCC-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCC
Confidence            55555554443222 3344444444555555555555555555544444

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.02  E-value=1.2e-08  Score=74.12  Aligned_cols=111  Identities=10%  Similarity=0.000  Sum_probs=91.6

Q ss_pred             hhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHH
Q 047359          291 MELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGL  370 (440)
Q Consensus       291 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  370 (440)
                      ..+......+.+.|++++|++.|++..+..+. +...|..+..+|...|++++|+..+++.++.+.. +...|..+..++
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~   91 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKRDPE-NAILYSNRAACLTKLMEFQRALDDCDTCIRLDSK-FIKGYIRKAACL   91 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhh-hhHHHHHHHHHH
Confidence            34566777888889999999999888877554 6778888888999999999999999998886544 677888899999


Q ss_pred             HhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHH
Q 047359          371 FKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSR  403 (440)
Q Consensus       371 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  403 (440)
                      ...|++++|.+.|+++.+..|.+..++..+..+
T Consensus        92 ~~~~~~~~A~~~~~~al~l~P~~~~a~~~l~~~  124 (126)
T 4gco_A           92 VAMREWSKAQRAYEDALQVDPSNEEAREGVRNC  124 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHCcCCHHHHHHHHHh
Confidence            999999999999999999988888777766543

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=99.01  E-value=1.8e-07  Score=79.57  Aligned_cols=226  Identities=10%  Similarity=0.029  Sum_probs=106.9

Q ss_pred             ChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcC-cHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhh-c-cHHHH
Q 047359          163 KTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMG-KTYAAEMIFKRACDEKIELQDDTCGCMLKALSKE-G-RVKEA  239 (440)
Q Consensus       163 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~-~~~~a  239 (440)
                      ..++|+++++.++..+  |+. ..+|+.--..+...| .+++++.+++.+...+++ +..+|+.-...+... + +++++
T Consensus        69 ~se~AL~lt~~~L~~n--P~~-ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL~~l~~~~~~~E  144 (349)
T 3q7a_A           69 KSERALELTEIIVRMN--PAH-YTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLLDRISPQDPVSE  144 (349)
T ss_dssp             CSHHHHHHHHHHHHHC--TTC-HHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHHHHCCSCCHHH
T ss_pred             CCHHHHHHHHHHHHhC--chh-HHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhcCCChHHH
Confidence            3345666666665543  332 344444444444445 355555555555555444 444555444444443 4 45555


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhc
Q 047359          240 IQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDK  319 (440)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  319 (440)
                      +.+++.+.+...+ +...|+.-...+.+.+.++.              .+             ...+.++++.++++.+.
T Consensus       145 L~~~~k~L~~dpk-Ny~AW~~R~wvl~~l~~~~~--------------~~-------------~~~~~eELe~~~k~I~~  196 (349)
T 3q7a_A          145 IEYIHGSLLPDPK-NYHTWAYLHWLYSHFSTLGR--------------IS-------------EAQWGSELDWCNEMLRV  196 (349)
T ss_dssp             HHHHHHHTSSCTT-CHHHHHHHHHHHHHHHHTTC--------------CC-------------HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCC-CHHHHHHHHHHHHHhccccc--------------cc-------------hhhHHHHHHHHHHHHHh
Confidence            5555555544332 33444333333333333320              00             00012455555555554


Q ss_pred             CCCCchhhhHHHHHHHHcCCc-------HHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcH----------------
Q 047359          320 GLLLDSFCCSSLMEYYCSNRQ-------IDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRM----------------  376 (440)
Q Consensus       320 ~~~~~~~~~~~l~~~~~~~~~-------~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~----------------  376 (440)
                      .+. |...|+.....+.+.++       ++++++.+++.+...+. |...|+.+-..+.+.|+.                
T Consensus       197 dp~-N~SAW~~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~~~P~-n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~  274 (349)
T 3q7a_A          197 DGR-NNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIHLIPH-NVSAWNYLRGFLKHFSLPLVPILPAILPYTASKL  274 (349)
T ss_dssp             CTT-CHHHHHHHHHHHTTSTTCCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC---
T ss_pred             CCC-CHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcCCCcccccccccccccccc
Confidence            433 44455555444444443       45555555555554433 455555544444444432                


Q ss_pred             ----HHHHHHHHHHHHcC------CCchhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          377 ----EEAVRIFDYMKELK------VVSSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       377 ----~~a~~~~~~~~~~~------~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                          ....++..++....      +.++.++..++..|...|+.++|.++++.+.+
T Consensus       275 ~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~  330 (349)
T 3q7a_A          275 NPDIETVEAFGFPMPSDPLPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSS  330 (349)
T ss_dssp             -----------CCCCC-CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cccchhHHHHHHHHHhcccccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Confidence                22222222332222      33666777777777777777777777777654

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=99.01  E-value=2.7e-08  Score=76.39  Aligned_cols=130  Identities=10%  Similarity=0.110  Sum_probs=99.8

Q ss_pred             hhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHH
Q 047359          291 MELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGL  370 (440)
Q Consensus       291 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  370 (440)
                      ..+..+...+...|++++|...+++..+.... +...+..+...+...|++++|...+++..+.... +...+..+..++
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~a~~~   91 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASN   91 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHH
Confidence            34556666777788888888888888776443 5677778888888888899998888888876433 567788888888


Q ss_pred             HhcCcHHHHHHHHHHHHHcCCCchhhHHHH--HHHHHhcccHHHHHHHHHHHHH
Q 047359          371 FKDGRMEEAVRIFDYMKELKVVSSSSFVIV--VSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       371 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l--~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      ...|++++|.+.++++.+..+.+...+..+  +..+...|++++|+..+++...
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            899999999999999988887766666444  4447788899999988877643

>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=98.98  E-value=1.2e-08  Score=87.21  Aligned_cols=199  Identities=11%  Similarity=-0.027  Sum_probs=148.1

Q ss_pred             hcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHH
Q 047359          197 DMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCG  276 (440)
Q Consensus       197 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  276 (440)
                      ..|++++|.+++++..+.... .         .+...++++.|...|...               ...|...|++++|..
T Consensus         3 ~~~~~~eA~~~~~~a~k~~~~-~---------~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~   57 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYLKT-S---------FMKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKD   57 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCC-C---------SSSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHccc-c---------ccCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHH
Confidence            357788899888887764221 0         111157888888887765               456778899999999


Q ss_pred             HHHHHHHcCC----C-CChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCC---CC--chhhhHHHHHHHHcCCcHHHHHH
Q 047359          277 LLRDVVERGY----I-PCAMELSRFVASQCGKGKWKEVEELLSAVLDKGL---LL--DSFCCSSLMEYYCSNRQIDKAIA  346 (440)
Q Consensus       277 ~~~~~~~~~~----~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~~~~~~~~~~~a~~  346 (440)
                      .+....+...    . .-..+|+.+...|...|++++|...+++..+...   .+  ...++..+...|.. |++++|++
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            9988765311    1 1134788888899999999999999998865311   11  23567788888888 99999999


Q ss_pred             HHHHHHhccCCc-----CHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc------hhhHHHHHHHHHhcccHHHHHH
Q 047359          347 LHIKIEKLKGSL-----DVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVS------SSSFVIVVSRLCHLKELRKAMK  415 (440)
Q Consensus       347 ~~~~~~~~~~~p-----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~------~~~~~~l~~~~~~~g~~~~a~~  415 (440)
                      .+++..+.....     ...++..+...|.+.|++++|+..|+++.+..+.+      ...+..++.++...|++++|..
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            999988642211     14578889999999999999999999988754331      2366777788888899999999


Q ss_pred             HHHHHH
Q 047359          416 NHDEML  421 (440)
Q Consensus       416 ~~~~m~  421 (440)
                      .|++.+
T Consensus       217 ~~~~al  222 (307)
T 2ifu_A          217 CVRESY  222 (307)
T ss_dssp             HHHHHT
T ss_pred             HHHHHh
Confidence            999988

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.92  E-value=5.4e-08  Score=70.46  Aligned_cols=113  Identities=16%  Similarity=0.157  Sum_probs=63.5

Q ss_pred             hhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHH
Q 047359          291 MELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGL  370 (440)
Q Consensus       291 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  370 (440)
                      ..+..+...+...|++++|.+.++++.+.... +...+..+...+...|++++|...++++.+.... +..++..+...+
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~   87 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHH
Confidence            34445555555556666666666655544322 3445555555666666666666666666554322 445555666666


Q ss_pred             HhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHH
Q 047359          371 FKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLC  405 (440)
Q Consensus       371 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  405 (440)
                      ...|++++|...++++.+..|.++..+..+...+.
T Consensus        88 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  122 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQ  122 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            66666666666666666665555555555544443

>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=98.92  E-value=1.6e-08  Score=85.20  Aligned_cols=194  Identities=12%  Similarity=-0.068  Sum_probs=102.0

Q ss_pred             HHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 047359          220 DDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVAS  299 (440)
Q Consensus       220 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  299 (440)
                      ...+..+...+.+.|++++|...|++..+.... +...+..+..++.+.|++++|...++...+.. +.+...+..+..+
T Consensus         4 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   81 (281)
T 2c2l_A            4 AQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQC   81 (281)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            344555555566666666666666666554332 45555666666666666666666666665542 2344556666666


Q ss_pred             HHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHH
Q 047359          300 QCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEA  379 (440)
Q Consensus       300 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a  379 (440)
                      +...|++++|...+++..+..+. +...+...+....+   ..++.. +..........+......+...  ..|+.++|
T Consensus        82 ~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~~~~~~~~---~~~~~~-~~~~~~~~~~~~~~i~~~l~~l--~~~~~~~A  154 (281)
T 2c2l_A           82 QLEMESYDEAIANLQRAYSLAKE-QRLNFGDDIPSALR---IAKKKR-WNSIEERRIHQESELHSYLTRL--IAAERERE  154 (281)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHH-TTCCCCSHHHHHHH---HHHHHH-HHHHHHTCCCCCCHHHHHHHHH--HHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCcc-chhhHHHHHHHHHH---HHHHHH-HHHHHHHHHhhhHHHHHHHHHH--HHHHHHHH
Confidence            66666677776666666543211 11111111211111   111111 1112222233333333333222  25777778


Q ss_pred             HHHHHHHHHcCCCchhhHHHHHHHHHhc-ccHHHHHHHHHHHHH
Q 047359          380 VRIFDYMKELKVVSSSSFVIVVSRLCHL-KELRKAMKNHDEMLK  422 (440)
Q Consensus       380 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~a~~~~~~m~~  422 (440)
                      .+.+++..+..+.+......+...+.+. +.+++|.++|.++.+
T Consensus       155 ~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          155 LEECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HTTTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            7777777777666555555555555554 567778888877654

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.92  E-value=4.3e-08  Score=71.96  Aligned_cols=118  Identities=10%  Similarity=0.024  Sum_probs=75.6

Q ss_pred             ChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHH
Q 047359          289 CAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLD  368 (440)
Q Consensus       289 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  368 (440)
                      +...+..+...+...|++++|...+++..+.... +...+..+...+...|++++|.+.+++..+.... +...+..+..
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~   92 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPK-DAKLYSNRAACYTKLLEFQLALKDCEECIQLEPT-FIKGYTRKAA   92 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTT-CHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC-chHHHHHHHH
Confidence            3345555666666666666666666666655332 4556666666677777777777777776665332 4566666777


Q ss_pred             HHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcc
Q 047359          369 GLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLK  408 (440)
Q Consensus       369 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  408 (440)
                      ++.+.|++++|.+.|++..+..+.+...+..+..++.+.|
T Consensus        93 ~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           93 ALEAMKDYTKAMDVYQKALDLDSSCKEAADGYQRCMMAQY  132 (133)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCGGGTHHHHHHHHHHHHHT
T ss_pred             HHHHHhhHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhc
Confidence            7777777777777777777666666666666666665544

>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=98.92  E-value=9.7e-07  Score=75.14  Aligned_cols=262  Identities=8%  Similarity=-0.004  Sum_probs=155.4

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchh-hHHHHHHHHHhcC-ChhhHHHHHHHHHhcCCCCcccccchHHHHH
Q 047359          116 NLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFS-TYSSILDGARRYE-KTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQ  193 (440)
Q Consensus       116 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~  193 (440)
                      +.+-....+.+..++|+++++.+..   +.|+.. .|+.--.++...| .+++++..++.++...  |.+ ..+|+.-..
T Consensus        58 ~~~r~~~~~~e~se~AL~lt~~~L~---~nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n--PKn-y~aW~hR~w  131 (349)
T 3q7a_A           58 DYFRAIAAKEEKSERALELTEIIVR---MNPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN--LKS-YQVWHHRLL  131 (349)
T ss_dssp             HHHHHHHHTTCCSHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT--CCC-HHHHHHHHH
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHH---hCchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC--CCc-HHHHHHHHH
Confidence            3333444555666899999999987   667654 5666666677778 5999999999999866  543 677877777


Q ss_pred             HHhhc-C-cHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHH--------HHHHHHHHHHHcCCCCChhhHHHHHH
Q 047359          194 KLSDM-G-KTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVK--------EAIQIYHLISERGITVRDSDYYAFVN  263 (440)
Q Consensus       194 ~~~~~-~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~l~~  263 (440)
                      .+.+. + ++++++++++.+.+..++ |...|+--.-.+.+.|.++        ++++.++++.+..+. +...|+....
T Consensus       132 lL~~l~~~~~~~EL~~~~k~L~~dpk-Ny~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~-N~SAW~~R~~  209 (349)
T 3q7a_A          132 LLDRISPQDPVSEIEYIHGSLLPDPK-NYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR-NNSAWGWRWY  209 (349)
T ss_dssp             HHHHHCCSCCHHHHHHHHHHTSSCTT-CHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHHhcCCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            77776 7 889999999999988766 7888887777776666666        788888888877654 6667777666


Q ss_pred             HHHhcCC-------hHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHH
Q 047359          264 VLCKEHQ-------PEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYC  336 (440)
Q Consensus       264 ~~~~~~~-------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  336 (440)
                      .+.+.+.       ++++++.++.++... +-|...|+-+-..+.+.|+...  .++..     +.|...   ..+..  
T Consensus       210 lL~~l~~~~~~~~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~~~~--~~~~~-----~~~~~~---~~~~~--  276 (349)
T 3q7a_A          210 LRVSRPGAETSSRSLQDELIYILKSIHLI-PHNVSAWNYLRGFLKHFSLPLV--PILPA-----ILPYTA---SKLNP--  276 (349)
T ss_dssp             HHTTSTTCCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCSG--GGHHH-----HGGGTC----------
T ss_pred             HHHhccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCCcc--ccccc-----cccccc---ccccc--
Confidence            6666554       345555555555442 2233444333333332222100  00000     000000   00000  


Q ss_pred             cCCcHHHHHHHHHHHHhcc-----CCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHH-HcCCCchhhHHHHH
Q 047359          337 SNRQIDKAIALHIKIEKLK-----GSLDVATYDVLLDGLFKDGRMEEAVRIFDYMK-ELKVVSSSSFVIVV  401 (440)
Q Consensus       337 ~~~~~~~a~~~~~~~~~~~-----~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-~~~~~~~~~~~~l~  401 (440)
                         ......++...+...+     -.++...+..|+..|...|+.++|.++++.+. +.+|.....|...+
T Consensus       277 ---~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~~dpir~~yw~~~~  344 (349)
T 3q7a_A          277 ---DIETVEAFGFPMPSDPLPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSEYDQMRAGYWEFRR  344 (349)
T ss_dssp             ------------CCCCC-CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCGGGHHHHHHHH
T ss_pred             ---cchhHHHHHHHHHhcccccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhhChHHHHHHHHHH
Confidence               0111112222222111     12466677778888888888888888888876 34444444444433

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.91  E-value=5.7e-09  Score=77.93  Aligned_cols=92  Identities=14%  Similarity=0.009  Sum_probs=45.9

Q ss_pred             HHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhccc
Q 047359          330 SLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKE  409 (440)
Q Consensus       330 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  409 (440)
                      .+...+...|++++|...|++.....+. +...|..+..+|.+.|++++|+..|+++.+.+|.++..+..+..++...|+
T Consensus        23 ~~a~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~  101 (142)
T 2xcb_A           23 ALGFNQYQAGKWDDAQKIFQALCMLDHY-DARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECHLQLGD  101 (142)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHccHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHcCC
Confidence            3344444555555555555555443322 344444555555555555555555555555554444555555555555555


Q ss_pred             HHHHHHHHHHHHH
Q 047359          410 LRKAMKNHDEMLK  422 (440)
Q Consensus       410 ~~~a~~~~~~m~~  422 (440)
                      +++|...|++.++
T Consensus       102 ~~~A~~~~~~al~  114 (142)
T 2xcb_A          102 LDGAESGFYSARA  114 (142)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            5555555555444

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.91  E-value=3.6e-08  Score=72.13  Aligned_cols=119  Identities=12%  Similarity=0.010  Sum_probs=84.5

Q ss_pred             hhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHH
Q 047359          290 AMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDG  369 (440)
Q Consensus       290 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  369 (440)
                      ...+..+...+...|++++|...+++.....+. +...+..+...+...|++++|.+.+++..+.... +...+..+...
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~   89 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIELNPA-NAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPA-YSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCcc-CHHHHHHHHHH
Confidence            445556666677777777777777777665432 5566677777777778888888888777765332 46677777777


Q ss_pred             HHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccH
Q 047359          370 LFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKEL  410 (440)
Q Consensus       370 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  410 (440)
                      +...|++++|...++++.+..+.++..+..+..++.+.|++
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhcC
Confidence            88888888888888888777777777777777777766653

>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=98.91  E-value=3.8e-08  Score=71.63  Aligned_cols=96  Identities=15%  Similarity=0.038  Sum_probs=66.2

Q ss_pred             hhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHH
Q 047359          326 FCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLC  405 (440)
Q Consensus       326 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  405 (440)
                      ..+..+...+...|++++|+..|++..+..+. +...|..+..++.+.|++++|+..++++.+.+|.++..+..+..++.
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            5 EEARLEGKEYFTKSDWPNAVKAYTEMIKRAPE-DARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            34555556666777777777777777665433 55666777777777777777777777777776666777777777777


Q ss_pred             hcccHHHHHHHHHHHHH
Q 047359          406 HLKELRKAMKNHDEMLK  422 (440)
Q Consensus       406 ~~g~~~~a~~~~~~m~~  422 (440)
                      ..|++++|...+++..+
T Consensus        84 ~~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           84 AVKEYASALETLDAART  100 (126)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHH
Confidence            77777777777777665

>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=98.90  E-value=1.6e-07  Score=75.43  Aligned_cols=130  Identities=9%  Similarity=-0.056  Sum_probs=106.9

Q ss_pred             HhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 047359          221 DTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQ  300 (440)
Q Consensus       221 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  300 (440)
                      ..+..+...+...|++++|...|++..    .|+...+..+...+...|++++|...++...+.. +.+...+..+...+
T Consensus         7 ~~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~   81 (213)
T 1hh8_A            7 ISLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLY   81 (213)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHH
Confidence            345667778888999999999998773    4577888889999999999999999999988764 44667888888999


Q ss_pred             HcCCCHHHHHHHHHHHHhcCCCCch----------------hhhHHHHHHHHcCCcHHHHHHHHHHHHhccC
Q 047359          301 CGKGKWKEVEELLSAVLDKGLLLDS----------------FCCSSLMEYYCSNRQIDKAIALHIKIEKLKG  356 (440)
Q Consensus       301 ~~~~~~~~a~~~~~~~~~~~~~~~~----------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  356 (440)
                      ...|++++|...+++..+.... +.                ..+..+..+|...|++++|.+.+++..+...
T Consensus        82 ~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p  152 (213)
T 1hh8_A           82 YQTEKYDLAIKDLKEALIQLRG-NQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKS  152 (213)
T ss_dssp             HHTTCHHHHHHHHHHHHHTTTT-CSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HHcccHHHHHHHHHHHHHhCCC-ccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCc
Confidence            9999999999999999876433 22                6777888889999999999999999988543

>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=98.90  E-value=5.4e-08  Score=84.20  Aligned_cols=129  Identities=11%  Similarity=-0.044  Sum_probs=94.1

Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCC--------------chhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCC
Q 047359          292 ELSRFVASQCGKGKWKEVEELLSAVLDKGLLL--------------DSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGS  357 (440)
Q Consensus       292 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  357 (440)
                      .+..+...+.+.|++++|...|++........              ....|..+..+|.+.|++++|+..+++.++....
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            34444455555555555555555555443221              1467778888888888888888888888886543


Q ss_pred             cCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHH-HHHHHHHH
Q 047359          358 LDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKA-MKNHDEML  421 (440)
Q Consensus       358 p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a-~~~~~~m~  421 (440)
                       +...|..+..+|...|++++|+..|+++.+..|.+..++..+..++.+.|+.++| ...+++|.
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             6778888888888899999999999988888888888888888888888888888 44566654

>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=98.88  E-value=2.5e-06  Score=72.25  Aligned_cols=132  Identities=8%  Similarity=-0.031  Sum_probs=66.3

Q ss_pred             hcCChh-hHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCc----------HHHHHHHHHHHHhcCCCCCHHhHHHHHH
Q 047359          160 RYEKTE-VSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGK----------TYAAEMIFKRACDEKIELQDDTCGCMLK  228 (440)
Q Consensus       160 ~~~~~~-~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~  228 (440)
                      +.|.++ +|+...+.++..+  |++ ..+|+.--..+...+.          +++++.+++.+...+++ +..+|+.-..
T Consensus        41 ~~~e~s~eaL~~t~~~L~~n--P~~-ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PK-ny~aW~hR~w  116 (331)
T 3dss_A           41 QAGELDESVLELTSQILGAN--PDF-ATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCW  116 (331)
T ss_dssp             HTTCCSHHHHHHHHHHHTTC--TTC-HHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHHC--chh-HHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            445543 5677777776644  442 3444443333333322          45555555555555444 5555555544


Q ss_pred             HHhhhc--cHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCC-hHHHHHHHHHHHHcCCCCChhhHHHHH
Q 047359          229 ALSKEG--RVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQ-PEEVCGLLRDVVERGYIPCAMELSRFV  297 (440)
Q Consensus       229 ~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~  297 (440)
                      .+...+  ++++++.+++.+.+..+. +...|+.-...+...|. ++++++.+..+.+.+ +-|...|+...
T Consensus       117 lL~~l~~~~~~~EL~~~~k~l~~dpr-Ny~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~-p~N~SAW~~R~  186 (331)
T 3dss_A          117 LLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRS  186 (331)
T ss_dssp             HHHHCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-SCCHHHHHHHH
T ss_pred             HHhccCcccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC-CCCHHHHHHHH
Confidence            444444  255666666666555443 44455544444445555 355555555555543 23444444333

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.87  E-value=7.1e-07  Score=75.67  Aligned_cols=166  Identities=16%  Similarity=0.107  Sum_probs=114.2

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-----hhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCC---Cc--hh
Q 047359          257 DYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPC-----AMELSRFVASQCGKGKWKEVEELLSAVLDKGLL---LD--SF  326 (440)
Q Consensus       257 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~--~~  326 (440)
                      .+...+..+...|++++|.+.++...+......     ...+..+...+...|++++|...+++..+....   +.  ..
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  156 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHH
Confidence            344456667778888888888877766432111     112334555667778888888888888753221   11  34


Q ss_pred             hhHHHHHHHHcCCcHHHHHHHHHHHHhc---cC-Cc--CHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC------ch
Q 047359          327 CCSSLMEYYCSNRQIDKAIALHIKIEKL---KG-SL--DVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV------SS  394 (440)
Q Consensus       327 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~-~p--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~------~~  394 (440)
                      +++.+...|...|++++|...+++..+.   .. .+  ...++..+...|.+.|++++|...+++..+....      -.
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            6778888888999999999999888732   11 11  1257788888899999999999999887643211      25


Q ss_pred             hhHHHHHHHHHhcccHHHH-HHHHHHHHH
Q 047359          395 SSFVIVVSRLCHLKELRKA-MKNHDEMLK  422 (440)
Q Consensus       395 ~~~~~l~~~~~~~g~~~~a-~~~~~~m~~  422 (440)
                      .++..+..+|.+.|++++| ...+++...
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            6788888899999999999 776777653

>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=4.3e-07  Score=76.99  Aligned_cols=166  Identities=12%  Similarity=0.049  Sum_probs=90.8

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHhcCCCCCCchh----hHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCccc---ccchH
Q 047359          117 LVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFS----TYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHF---LSGND  189 (440)
Q Consensus       117 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~  189 (440)
                      ..+..+...|++++|..++++..+.....|+..    .+..+...+...+++++|...+++..+......+.   ..+++
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            346677788888888888888776222333321    22335555566677788888887777643222110   12456


Q ss_pred             HHHHHHhhcCcHHHHHHHHHHHHhc-----CCCC-CHHhHHHHHHHHhhhccHHHHHHHHHHHHHc----CCCCC-hhhH
Q 047359          190 YVIQKLSDMGKTYAAEMIFKRACDE-----KIEL-QDDTCGCMLKALSKEGRVKEAIQIYHLISER----GITVR-DSDY  258 (440)
Q Consensus       190 ~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~  258 (440)
                      .+...|...|++++|...++++.+.     +..+ ...++..+...|.+.|++++|...+++..+.    +..+. ..+|
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~  239 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLY  239 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHH
Confidence            6666666777777777666666531     1111 1224555556666666666666666554432    11111 3345


Q ss_pred             HHHHHHHHhcCC-hHHHHHHHHHHH
Q 047359          259 YAFVNVLCKEHQ-PEEVCGLLRDVV  282 (440)
Q Consensus       259 ~~l~~~~~~~~~-~~~a~~~~~~~~  282 (440)
                      ..+..++.+.|+ +++|...++...
T Consensus       240 ~~lg~~~~~~g~~~~~A~~~~~~Al  264 (293)
T 3u3w_A          240 YQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHH
Confidence            555555555553 355555555543

>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=98.85  E-value=5.4e-08  Score=70.87  Aligned_cols=106  Identities=16%  Similarity=0.144  Sum_probs=74.5

Q ss_pred             hhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc-------hhhHHH
Q 047359          327 CCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVS-------SSSFVI  399 (440)
Q Consensus       327 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-------~~~~~~  399 (440)
                      .+..+...+.+.|++++|++.|++.++..+. +...|..+..+|.+.|++++|++.+++..+.++.+       ..+|..
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~-~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELDPS-NITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            4555667777777888888877777775443 56677777777888888888888887777655442       135666


Q ss_pred             HHHHHHhcccHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 047359          400 VVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQV  435 (440)
Q Consensus       400 l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~l  435 (440)
                      +..++...|++++|++.|++.+.  ..||..+...+
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~--~~~~~~~~~~l  122 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLS--EFRDPELVKKV  122 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH--HSCCHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHh--hCcCHHHHHHH
Confidence            77777788888888888888776  45666555443

>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=98.84  E-value=2.6e-08  Score=74.77  Aligned_cols=106  Identities=16%  Similarity=0.034  Sum_probs=81.4

Q ss_pred             ChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHH
Q 047359          289 CAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLD  368 (440)
Q Consensus       289 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  368 (440)
                      +...+..+...+...|++++|...|+......+. +...|..+..+|...|++++|+..|++.....+. +...+..+..
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~lg~   97 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHY-DSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIX-EPRFPFHAAE   97 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CchHHHHHHH
Confidence            3445666777777888888888888888776544 6777778888888888888888888888876543 5677788888


Q ss_pred             HHHhcCcHHHHHHHHHHHHHcCCCchhh
Q 047359          369 GLFKDGRMEEAVRIFDYMKELKVVSSSS  396 (440)
Q Consensus       369 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~  396 (440)
                      +|...|++++|.+.|+++.+..+.++..
T Consensus        98 ~~~~~g~~~~A~~~~~~al~~~p~~~~~  125 (148)
T 2vgx_A           98 CLLQXGELAEAESGLFLAQELIANXPEF  125 (148)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHTTCGGG
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCcCCCcc
Confidence            8888888888888888888876664433

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.84  E-value=2.8e-08  Score=81.69  Aligned_cols=134  Identities=12%  Similarity=-0.002  Sum_probs=86.0

Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcC--HHhHHHHHHHHHh
Q 047359          295 RFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLD--VATYDVLLDGLFK  372 (440)
Q Consensus       295 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~--~~~~~~l~~~~~~  372 (440)
                      .+...+...|++++|.++|..+...+  |+......+...+.+.+++++|+..|+...... .|.  ...+..+..++..
T Consensus       107 ayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a~~~LG~al~~  183 (282)
T 4f3v_A          107 GFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAAGVAHGVAAAN  183 (282)
T ss_dssp             HHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHHHHHHHHHHHH
Confidence            34555666777777777777776543  333244445556777788888888776444321 111  2356677777888


Q ss_pred             cCcHHHHHHHHHHHHHcC--CC-chhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHHHHH
Q 047359          373 DGRMEEAVRIFDYMKELK--VV-SSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYK  433 (440)
Q Consensus       373 ~g~~~~a~~~~~~~~~~~--~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~  433 (440)
                      .|++++|+..|++.....  |. .+........++.+.|+.++|...|+++..  ..|+...+.
T Consensus       184 LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a--~~P~~~~~~  245 (282)
T 4f3v_A          184 LALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQT--THPEPKVAA  245 (282)
T ss_dssp             TTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HSCCHHHHH
T ss_pred             CCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCcHHHHH
Confidence            888888888888776433  22 445667777777788888888888888877  356633333

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.84  E-value=8.5e-08  Score=71.86  Aligned_cols=102  Identities=13%  Similarity=0.032  Sum_probs=76.0

Q ss_pred             hhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHH
Q 047359          290 AMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDG  369 (440)
Q Consensus       290 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  369 (440)
                      ...+..+...+.+.|++++|...|++.....+. +...|..+..+|...|++++|+..|++..+..+. +...|..+..+
T Consensus        36 ~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~-~~~~~~~lg~~  113 (151)
T 3gyz_A           36 MDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFY-NVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKN-DYTPVFHTGQC  113 (151)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSS-CCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCC-CcHHHHHHHHH
Confidence            345666666777778888888888888776544 6677777778888888888888888888776544 56677778888


Q ss_pred             HHhcCcHHHHHHHHHHHHHcCCCc
Q 047359          370 LFKDGRMEEAVRIFDYMKELKVVS  393 (440)
Q Consensus       370 ~~~~g~~~~a~~~~~~~~~~~~~~  393 (440)
                      |.+.|++++|...|+++.+..+.+
T Consensus       114 ~~~lg~~~eA~~~~~~al~l~~~~  137 (151)
T 3gyz_A          114 QLRLKAPLKAKECFELVIQHSNDE  137 (151)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCCCH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCH
Confidence            888888888888888887776553

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.84  E-value=7.3e-07  Score=73.31  Aligned_cols=186  Identities=11%  Similarity=-0.018  Sum_probs=82.5

Q ss_pred             ccCCcchHHHHHHHHHhcCCccChHhHHHH-------HHHHHhccchhHHHHHHHHHHHcCCCCCh--------------
Q 047359           24 HKGLFMDGLEVYRMMRVYGFVPAVSACNAL-------LDALYRQNEIRLASCLYGAMVRDGVSPNK--------------   82 (440)
Q Consensus        24 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~l-------l~~~~~~~~~~~a~~~~~~~~~~~~~~~~--------------   82 (440)
                      +.++...|.+.|.++.+.. +-....|..+       ...+.+.++..++...+..-.+  +.|+.              
T Consensus        18 ~~~d~~~A~~~F~~a~~~d-P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~~~~g~y~~~   94 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYD-ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhC-hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCccccc
Confidence            4677777777777777654 2345566655       3444444444444444444333  22221              


Q ss_pred             --------hhHHHHHHHHHhcCChHHHHHHHhccc---CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCc--hh
Q 047359           83 --------FTWSLVAQILCRSGKFEVVLGLLDSGI---YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPG--FS  149 (440)
Q Consensus        83 --------~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~--~~  149 (440)
                              .....+...+...|++++|.++|+.+.   |+......+...+.+.+++++|+..|+...+ .. .|.  ..
T Consensus        95 ~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~-~~-d~~~~~~  172 (282)
T 4f3v_A           95 TYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAGSEHLVAWMKAVVYGAAERWTDVIDQVKSAGK-WP-DKFLAGA  172 (282)
T ss_dssp             EEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTTCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGG-CS-CHHHHHH
T ss_pred             ccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHcCCHHHHHHHHHHhhc-cC-CcccHHH
Confidence                    112223344445555555555555544   2222333333344555555555555543322 00 010  11


Q ss_pred             hHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhc
Q 047359          150 TYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDE  214 (440)
Q Consensus       150 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  214 (440)
                      .+..+..++...|++++|+..|++.......|............++.+.|+.++|...|+++...
T Consensus       173 a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          173 AGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            33344444445555555555555444222112211223333444444444444444444444443

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.83  E-value=1.1e-07  Score=75.81  Aligned_cols=157  Identities=9%  Similarity=-0.047  Sum_probs=76.9

Q ss_pred             hhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHc----CC-CCChhhHHHHHHHHHcCCC
Q 047359          231 SKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVER----GY-IPCAMELSRFVASQCGKGK  305 (440)
Q Consensus       231 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~  305 (440)
                      ...|++++|.++++.+.. ........+..+...+...|++++|...+++..+.    +. +.....+..+...+...|+
T Consensus         3 ~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~   81 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLA-HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGN   81 (203)
T ss_dssp             ----CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             cccccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCC
Confidence            345677777774444433 22224455666666666677777777766666541    11 1122345555555556666


Q ss_pred             HHHHHHHHHHHHhc----CCCC--chhhhHHHHHHHHcCCcHHHHHHHHHHHHhccC---CcC--HHhHHHHHHHHHhcC
Q 047359          306 WKEVEELLSAVLDK----GLLL--DSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKG---SLD--VATYDVLLDGLFKDG  374 (440)
Q Consensus       306 ~~~a~~~~~~~~~~----~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~p~--~~~~~~l~~~~~~~g  374 (440)
                      +++|...+++..+.    +-.|  ....+..+...+...|++++|...+++..+...   .+.  ..++..+...+...|
T Consensus        82 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g  161 (203)
T 3gw4_A           82 WDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEK  161 (203)
T ss_dssp             HHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCc
Confidence            66666666555432    1011  122344455555555666666665555543210   011  122344555555555


Q ss_pred             cHHHHHHHHHHHHH
Q 047359          375 RMEEAVRIFDYMKE  388 (440)
Q Consensus       375 ~~~~a~~~~~~~~~  388 (440)
                      ++++|.+.+++..+
T Consensus       162 ~~~~A~~~~~~al~  175 (203)
T 3gw4_A          162 NLLEAQQHWLRARD  175 (203)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            55555555555543

>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=98.81  E-value=1.4e-05  Score=67.79  Aligned_cols=250  Identities=9%  Similarity=0.037  Sum_probs=141.5

Q ss_pred             HhcCChh-HHHHHHHHHhcCCCCCCchh-hHHHHHHHHHhcCC----------hhhHHHHHHHHHhcCCCCcccccchHH
Q 047359          123 SKKGDFG-AAFDRLNEMCNGRNLTPGFS-TYSSILDGARRYEK----------TEVSDRIVGLMVEKKLLPKHFLSGNDY  190 (440)
Q Consensus       123 ~~~~~~~-~a~~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~~~  190 (440)
                      .+.|.+. +|+++++.+..   +.|+.. .|+.--.++...+.          +++++.+++.+....  |.+ ..+|+.
T Consensus        40 ~~~~e~s~eaL~~t~~~L~---~nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~--PKn-y~aW~h  113 (331)
T 3dss_A           40 RQAGELDESVLELTSQILG---ANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN--PKS-YGTWHH  113 (331)
T ss_dssp             HHTTCCSHHHHHHHHHHHT---TCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC--TTC-HHHHHH
T ss_pred             HHcCCCCHHHHHHHHHHHH---HCchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC--CCC-HHHHHH
Confidence            4556654 78888888876   666544 34433333333332          567778888887755  443 667777


Q ss_pred             HHHHHhhcC--cHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhcc-HHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 047359          191 VIQKLSDMG--KTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGR-VKEAIQIYHLISERGITVRDSDYYAFVNVLCK  267 (440)
Q Consensus       191 l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  267 (440)
                      -...+...+  ++++++.+++.+.+..+. |...|+.-...+...|. ++++++.++.+.+..+. |...|+.....+..
T Consensus       114 R~wlL~~l~~~~~~~EL~~~~k~l~~dpr-Ny~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~-N~SAW~~R~~ll~~  191 (331)
T 3dss_A          114 RCWLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQ  191 (331)
T ss_dssp             HHHHHHHCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHH
T ss_pred             HHHHHhccCcccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHH
Confidence            777777777  478888888888887766 77778777777777777 58888888888887655 66677666655544


Q ss_pred             cCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcC---------
Q 047359          268 EHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSN---------  338 (440)
Q Consensus       268 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---------  338 (440)
                      .+....+             ++.        .-...+.++++++.+.......+. |...|+.+-..+.+.         
T Consensus       192 l~~~~~~-------------~~~--------~~~~~~~~~eEle~~~~ai~~~P~-d~SaW~Y~r~ll~~~~~~~~~~~~  249 (331)
T 3dss_A          192 LHPQPDS-------------GPQ--------GRLPENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGAGSGRCELSVE  249 (331)
T ss_dssp             HSCCC---------------------------CCCHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHSSSCGGGCCHH
T ss_pred             hhhcccc-------------ccc--------cccchHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccCccccchH
Confidence            3210000             000        000012234444444444444332 344444333333322         


Q ss_pred             --CcHHHHHHHHHHHHhccCCcCH-HhHHHHH---HHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHH
Q 047359          339 --RQIDKAIALHIKIEKLKGSLDV-ATYDVLL---DGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRL  404 (440)
Q Consensus       339 --~~~~~a~~~~~~~~~~~~~p~~-~~~~~l~---~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  404 (440)
                        +.++++++.++++.+..  |+. ..+..++   ......|..+++...+.++.+.+|....-|..+...+
T Consensus       250 ~~~~l~~el~~~~elle~~--pd~~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~Dp~r~~~y~d~~~~~  319 (331)
T 3dss_A          250 KSTVLQSELESCKELQELE--PENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLRSKF  319 (331)
T ss_dssp             HHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHCGGGHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhC--cccchHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCcchhhHHHHHHHHH
Confidence              34566666666666643  332 1221111   1112345666777777777777666555555544433

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.81  E-value=6.9e-08  Score=69.55  Aligned_cols=100  Identities=7%  Similarity=-0.065  Sum_probs=83.5

Q ss_pred             hhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHh
Q 047359          327 CCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCH  406 (440)
Q Consensus       327 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  406 (440)
                      .+..+...+.+.|++++|...+++..+..+. +...|..+..++...|++++|+..|+++.+.+|.++.++..+..++..
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTN   97 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            4556667788999999999999999886544 777888899999999999999999999999998888899999999999


Q ss_pred             cccHHHHHHHHHHHHHCCCCCCH
Q 047359          407 LKELRKAMKNHDEMLKMGHKPDE  429 (440)
Q Consensus       407 ~g~~~~a~~~~~~m~~~~~~p~~  429 (440)
                      .|++++|+..+++.++  ..|+.
T Consensus        98 ~g~~~~A~~~~~~al~--~~P~~  118 (121)
T 1hxi_A           98 EHNANAALASLRAWLL--SQPQY  118 (121)
T ss_dssp             HHHHHHHHHHHHHHHC-------
T ss_pred             cCCHHHHHHHHHHHHH--hCcCC
Confidence            9999999999999887  45543

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.80  E-value=1.7e-07  Score=67.68  Aligned_cols=102  Identities=17%  Similarity=0.241  Sum_probs=90.8

Q ss_pred             hhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHH
Q 047359          325 SFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRL  404 (440)
Q Consensus       325 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  404 (440)
                      ...+..+...+...|++++|.+.++++.+... .+...+..+...+.+.|++++|...++++.+..+.++..+..+...+
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~   87 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc-CcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHH
Confidence            56778888899999999999999999998643 36778899999999999999999999999998888889999999999


Q ss_pred             HhcccHHHHHHHHHHHHHCCCCCCH
Q 047359          405 CHLKELRKAMKNHDEMLKMGHKPDE  429 (440)
Q Consensus       405 ~~~g~~~~a~~~~~~m~~~~~~p~~  429 (440)
                      ...|++++|...++++.+.  .|+.
T Consensus        88 ~~~~~~~~A~~~~~~~~~~--~~~~  110 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALEL--DPNN  110 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CTTC
T ss_pred             HHhcCHHHHHHHHHHHHHh--CCCc
Confidence            9999999999999999883  4544

>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=98.80  E-value=3.8e-07  Score=69.82  Aligned_cols=127  Identities=9%  Similarity=-0.072  Sum_probs=74.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHc
Q 047359          258 YYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCS  337 (440)
Q Consensus       258 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  337 (440)
                      +..+...+...|++++|...++...+.. +.+...+..+...+...|++++|...+++..+..+. +...+..+..++..
T Consensus        16 ~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~a~~~~~   93 (166)
T 1a17_A           16 LKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNMA   93 (166)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHH
Confidence            4444555555666666666666655542 224455556666666666666666666666655332 45566666667777


Q ss_pred             CCcHHHHHHHHHHHHhccCCcCHHhHH--HHHHHHHhcCcHHHHHHHHHHHH
Q 047359          338 NRQIDKAIALHIKIEKLKGSLDVATYD--VLLDGLFKDGRMEEAVRIFDYMK  387 (440)
Q Consensus       338 ~~~~~~a~~~~~~~~~~~~~p~~~~~~--~l~~~~~~~g~~~~a~~~~~~~~  387 (440)
                      .|++++|...+++..+.... +...+.  ..+..+.+.|++++|.+.++...
T Consensus        94 ~~~~~~A~~~~~~a~~~~p~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           94 LGKFRAALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             TTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            77777777777777665332 333332  23333566677777777766554

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.79  E-value=2.6e-06  Score=72.15  Aligned_cols=167  Identities=12%  Similarity=-0.052  Sum_probs=115.8

Q ss_pred             hHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCCh-----hhHHHHHHHHHhcCChHHHHHHHHHHHHcCC---CCC--hh
Q 047359          222 TCGCMLKALSKEGRVKEAIQIYHLISERGITVRD-----SDYYAFVNVLCKEHQPEEVCGLLRDVVERGY---IPC--AM  291 (440)
Q Consensus       222 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~--~~  291 (440)
                      .+...+..+...|++++|.+.+.+..+.....+.     ..+..+...+...|++++|...++...+...   .+.  ..
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  156 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHH
Confidence            3444566677778888888888777665322111     2233455556777888888888888765321   111  34


Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHHHh---cCCC-C--chhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCC-----cCH
Q 047359          292 ELSRFVASQCGKGKWKEVEELLSAVLD---KGLL-L--DSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGS-----LDV  360 (440)
Q Consensus       292 ~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~-~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----p~~  360 (440)
                      +++.+...|...|++++|...+++..+   .... +  ...++..+...|...|++++|...+++..+....     .-.
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            677888888889999999999988862   2111 1  1257788888999999999999999988754211     115


Q ss_pred             HhHHHHHHHHHhcCcHHHH-HHHHHHHHH
Q 047359          361 ATYDVLLDGLFKDGRMEEA-VRIFDYMKE  388 (440)
Q Consensus       361 ~~~~~l~~~~~~~g~~~~a-~~~~~~~~~  388 (440)
                      .+|..+..+|.+.|++++| ...+++...
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            6788899999999999999 777877654

>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=98.79  E-value=1.9e-07  Score=67.84  Aligned_cols=110  Identities=12%  Similarity=-0.005  Sum_probs=77.1

Q ss_pred             hhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHH
Q 047359          291 MELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGL  370 (440)
Q Consensus       291 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  370 (440)
                      ..+..+...+...|++++|...|++..+..+. +...|..+..+|...|++++|+..+++..+..+. +...|..+..++
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~   82 (126)
T 3upv_A            5 EEARLEGKEYFTKSDWPNAVKAYTEMIKRAPE-DARGYSNRAAALAKLMSFPEAIADCNKAIEKDPN-FVRAYIRKATAQ   82 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHH
Confidence            34555666677777777777777777766443 5667777777788888888888888887776443 566777777888


Q ss_pred             HhcCcHHHHHHHHHHHHHcC------CCchhhHHHHHH
Q 047359          371 FKDGRMEEAVRIFDYMKELK------VVSSSSFVIVVS  402 (440)
Q Consensus       371 ~~~g~~~~a~~~~~~~~~~~------~~~~~~~~~l~~  402 (440)
                      ...|++++|...|+++.+..      +.+..++..+..
T Consensus        83 ~~~~~~~~A~~~~~~al~~~p~~~~~p~~~~~~~~l~~  120 (126)
T 3upv_A           83 IAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYK  120 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHHHHhCcccCCchhHHHHHHHHHH
Confidence            88888888888888877766      445444444443

>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=98.78  E-value=2.3e-07  Score=66.22  Aligned_cols=96  Identities=19%  Similarity=0.057  Sum_probs=60.3

Q ss_pred             hhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHH
Q 047359          326 FCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLC  405 (440)
Q Consensus       326 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  405 (440)
                      ..+..+...+...|++++|...+++..+.... +...+..+...+...|++++|...++++.+..+.++..+..+..++.
T Consensus         5 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~   83 (118)
T 1elw_A            5 NELKEKGNKALSVGNIDDALQCYSEAIKLDPH-NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALE   83 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            34455555666666666666666666654322 45556666666666666666666666666666556666666666666


Q ss_pred             hcccHHHHHHHHHHHHH
Q 047359          406 HLKELRKAMKNHDEMLK  422 (440)
Q Consensus       406 ~~g~~~~a~~~~~~m~~  422 (440)
                      ..|++++|...+++..+
T Consensus        84 ~~~~~~~A~~~~~~~~~  100 (118)
T 1elw_A           84 FLNRFEEAKRTYEEGLK  100 (118)
T ss_dssp             HTTCHHHHHHHHHHHHT
T ss_pred             HHhhHHHHHHHHHHHHH
Confidence            66666666666666665

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.78  E-value=1.3e-07  Score=70.48  Aligned_cols=104  Identities=13%  Similarity=0.055  Sum_probs=76.9

Q ss_pred             hhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHH
Q 047359          291 MELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGL  370 (440)
Q Consensus       291 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  370 (440)
                      ..+..+...+...|++++|...|+......+. +...|..+..+|...|++++|...|++..+..+. +...+..+..+|
T Consensus        19 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~   96 (142)
T 2xcb_A           19 EQLYALGFNQYQAGKWDDAQKIFQALCMLDHY-DARYFLGLGACRQSLGLYEQALQSYSYGALMDIN-EPRFPFHAAECH   96 (142)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CcHHHHHHHHHH
Confidence            34555666677778888888888887776543 6667777777888888888888888888876543 566777788888


Q ss_pred             HhcCcHHHHHHHHHHHHHcCCCchhh
Q 047359          371 FKDGRMEEAVRIFDYMKELKVVSSSS  396 (440)
Q Consensus       371 ~~~g~~~~a~~~~~~~~~~~~~~~~~  396 (440)
                      ...|++++|.+.|+++.+..|.++..
T Consensus        97 ~~~g~~~~A~~~~~~al~~~p~~~~~  122 (142)
T 2xcb_A           97 LQLGDLDGAESGFYSARALAAAQPAH  122 (142)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHTCGGG
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCCcch
Confidence            88888888888888887776654443

>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=98.75  E-value=1.5e-07  Score=73.10  Aligned_cols=119  Identities=12%  Similarity=0.155  Sum_probs=68.5

Q ss_pred             cCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHH-HHhcCcH--HH
Q 047359          302 GKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDG-LFKDGRM--EE  378 (440)
Q Consensus       302 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~-~~~~g~~--~~  378 (440)
                      ..|++++|...+++.....+. +...+..+...|...|++++|...+++..+.... +...+..+..+ +...|++  ++
T Consensus        22 ~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~l~~~~~~~~~~~   99 (177)
T 2e2e_A           22 SQQNPEAQLQALQDKIRANPQ-NSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGE-NAELYAALATVLYYQASQHMTAQ   99 (177)
T ss_dssp             -----CCCCHHHHHHHHHCCS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTCCCHH
T ss_pred             hccCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhcCCcchHH
Confidence            345566666666665554332 4455566666666666666666666666654332 44555555555 5566665  66


Q ss_pred             HHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          379 AVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       379 a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      |...++++.+.+|.++..+..+...+...|++++|...++++.+
T Consensus       100 A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  143 (177)
T 2e2e_A          100 TRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMD  143 (177)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHh
Confidence            66666666666555566666666666666666666666666665

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.75  E-value=1.3e-07  Score=66.97  Aligned_cols=99  Identities=13%  Similarity=0.039  Sum_probs=79.8

Q ss_pred             chhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC--chhhHHHHH
Q 047359          324 DSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV--SSSSFVIVV  401 (440)
Q Consensus       324 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~l~  401 (440)
                      +...+..+...+...|++++|...+++..+.... +...+..+...+...|++++|.+.++++.+..+.  +...+..+.
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~   83 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPE-ESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKA   83 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHH
Confidence            4456667777788888888888888888776433 5667778888888888888888888888888887  788888888


Q ss_pred             HHHHhc-ccHHHHHHHHHHHHHC
Q 047359          402 SRLCHL-KELRKAMKNHDEMLKM  423 (440)
Q Consensus       402 ~~~~~~-g~~~~a~~~~~~m~~~  423 (440)
                      .++... |++++|.+.+++..+.
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           84 DALRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             HHHTTCSSCSHHHHHHHHHHGGG
T ss_pred             HHHHHHhCCHHHHHHHHHHHhhc
Confidence            888888 8888888888888773

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.75  E-value=2.2e-07  Score=73.89  Aligned_cols=154  Identities=9%  Similarity=-0.063  Sum_probs=68.5

Q ss_pred             hcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhc----CC-CCchhhhHHHHHHHHcCCcH
Q 047359          267 KEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDK----GL-LLDSFCCSSLMEYYCSNRQI  341 (440)
Q Consensus       267 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~  341 (440)
                      ..|++++|.++++.+.. ........+..+...+...|++++|...+++....    +. .....++..+...|...|++
T Consensus         4 ~~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   82 (203)
T 3gw4_A            4 EAHDYALAERQAQALLA-HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNW   82 (203)
T ss_dssp             ---CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             ccccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCH
Confidence            34555555553333322 11123344455555555555555555555554431    11 11223444455555555555


Q ss_pred             HHHHHHHHHHHhc----cCCc--CHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcC----CC--chhhHHHHHHHHHhccc
Q 047359          342 DKAIALHIKIEKL----KGSL--DVATYDVLLDGLFKDGRMEEAVRIFDYMKELK----VV--SSSSFVIVVSRLCHLKE  409 (440)
Q Consensus       342 ~~a~~~~~~~~~~----~~~p--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~----~~--~~~~~~~l~~~~~~~g~  409 (440)
                      ++|.+.+++..+.    +..|  ....+..+...+...|++++|...+++..+..    ..  ...++..+...+...|+
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            5555555554432    1011  12334455555555555555555555544221    11  11233445555555555


Q ss_pred             HHHHHHHHHHHH
Q 047359          410 LRKAMKNHDEML  421 (440)
Q Consensus       410 ~~~a~~~~~~m~  421 (440)
                      +++|...+++..
T Consensus       163 ~~~A~~~~~~al  174 (203)
T 3gw4_A          163 LLEAQQHWLRAR  174 (203)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            555555555544

>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=98.75  E-value=4.5e-07  Score=64.72  Aligned_cols=111  Identities=16%  Similarity=0.021  Sum_probs=80.4

Q ss_pred             hhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHH
Q 047359          291 MELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGL  370 (440)
Q Consensus       291 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  370 (440)
                      ..+..+...+...|++++|...+++.....+. +...+..+...+...|++++|...+++..+.... +...+..+..++
T Consensus         5 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~   82 (118)
T 1elw_A            5 NELKEKGNKALSVGNIDDALQCYSEAIKLDPH-NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPD-WGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcc-cHHHHHHHHHHH
Confidence            44556666677777888888887777765433 5666777777788888888888888888776433 566777788888


Q ss_pred             HhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHH
Q 047359          371 FKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSR  403 (440)
Q Consensus       371 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  403 (440)
                      ...|++++|.+.+++..+.++.++..+..+...
T Consensus        83 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  115 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLKHEANNPQLKEGLQNM  115 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHh
Confidence            888888888888888888777766665555443

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.75  E-value=1.3e-07  Score=72.51  Aligned_cols=108  Identities=12%  Similarity=0.035  Sum_probs=88.6

Q ss_pred             ChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHH
Q 047359          289 CAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLD  368 (440)
Q Consensus       289 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  368 (440)
                      +...+..+...+...|++++|...|++..+..+. +...|..+..+|...|++++|+..+++.++.... +...|..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIAPA-NPIYLSNRAAAYSASGQHEKAAEDAELATVVDPK-YSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            4556777888888899999999999998887544 6778888888899999999999999998887544 6778888888


Q ss_pred             HHHhcCcHHHHHHHHHHHHHcCCCchhhHH
Q 047359          369 GLFKDGRMEEAVRIFDYMKELKVVSSSSFV  398 (440)
Q Consensus       369 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  398 (440)
                      +|...|++++|.+.|+++.+..+.+...+.
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~  117 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEAEGNGGSDAM  117 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHSSSCCHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhCCCchHHHH
Confidence            999999999999999999888877655443

>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=98.74  E-value=1.8e-07  Score=78.76  Aligned_cols=191  Identities=10%  Similarity=-0.058  Sum_probs=102.1

Q ss_pred             cchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHH
Q 047359          186 SGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVL  265 (440)
Q Consensus       186 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  265 (440)
                      ..+..+...+.+.|++++|...|++.....+. +...|..+..+|.+.|++++|...+++..+.... +...+..+..++
T Consensus         5 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~   82 (281)
T 2c2l_A            5 QELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLGQCQ   82 (281)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHH
Confidence            34455566666666666666666666655433 5556666666677777777777777766665432 455666666777


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCh-hhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHH
Q 047359          266 CKEHQPEEVCGLLRDVVERGYIPCA-MELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKA  344 (440)
Q Consensus       266 ~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  344 (440)
                      ...|++++|...++...+.+  |+. ..+...+....+   ..++.. +..........+......+.. + ..|+.++|
T Consensus        83 ~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~~~~~~~---~~~~~~-~~~~~~~~~~~~~~i~~~l~~-l-~~~~~~~A  154 (281)
T 2c2l_A           83 LEMESYDEAIANLQRAYSLA--KEQRLNFGDDIPSALR---IAKKKR-WNSIEERRIHQESELHSYLTR-L-IAAERERE  154 (281)
T ss_dssp             HHTTCHHHHHHHHHHHHHHH--HHTTCCCCSHHHHHHH---HHHHHH-HHHHHHTCCCCCCHHHHHHHH-H-HHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHHH---HHHHHH-HHHHHHHHHhhhHHHHHHHHH-H-HHHHHHHH
Confidence            77777777777777665532  111 111111111111   111111 111222223333333333322 2 25778888


Q ss_pred             HHHHHHHHhccCCcCH-HhHHHHHHHHHhc-CcHHHHHHHHHHHHH
Q 047359          345 IALHIKIEKLKGSLDV-ATYDVLLDGLFKD-GRMEEAVRIFDYMKE  388 (440)
Q Consensus       345 ~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~-g~~~~a~~~~~~~~~  388 (440)
                      .+.+++..+.  .|+. .....+...+.+. +.+++|.++|+++.+
T Consensus       155 ~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          155 LEECQRNHEG--HEDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HTTTSGGGTT--TSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHhhhcc--ccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            8877776664  3333 3333343344444 667788888887754

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.74  E-value=2.2e-07  Score=68.06  Aligned_cols=104  Identities=13%  Similarity=0.007  Sum_probs=92.3

Q ss_pred             CchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHH
Q 047359          323 LDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVS  402 (440)
Q Consensus       323 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  402 (440)
                      .+...+..+...+...|++++|...+++..+.... +...+..+...+...|++++|.+.++++.+..+.+...+..+..
T Consensus        14 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~   92 (133)
T 2lni_A           14 DLALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPK-DAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAA   92 (133)
T ss_dssp             CHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTT-CHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHH
Confidence            35667888888999999999999999999986443 67889999999999999999999999999998888999999999


Q ss_pred             HHHhcccHHHHHHHHHHHHHCCCCCCH
Q 047359          403 RLCHLKELRKAMKNHDEMLKMGHKPDE  429 (440)
Q Consensus       403 ~~~~~g~~~~a~~~~~~m~~~~~~p~~  429 (440)
                      ++.+.|++++|.+.+++..+  ..|+.
T Consensus        93 ~~~~~~~~~~A~~~~~~~~~--~~p~~  117 (133)
T 2lni_A           93 ALEAMKDYTKAMDVYQKALD--LDSSC  117 (133)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH--HCGGG
T ss_pred             HHHHHhhHHHHHHHHHHHHH--hCCCc
Confidence            99999999999999999987  34544

>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=98.74  E-value=2.9e-07  Score=73.02  Aligned_cols=97  Identities=23%  Similarity=0.122  Sum_probs=75.0

Q ss_pred             hhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHH
Q 047359          326 FCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLC  405 (440)
Q Consensus       326 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  405 (440)
                      ..+..+..+|...|++++|+..+++..+.... +...+..+..+|...|++++|.+.|+++.+..|.+..++..+..++.
T Consensus        89 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~  167 (198)
T 2fbn_A           89 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKN-NVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVN  167 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHH
Confidence            56777888889999999999999999886443 67788889999999999999999999999998888889999999888


Q ss_pred             hcccHHHHH-HHHHHHHHC
Q 047359          406 HLKELRKAM-KNHDEMLKM  423 (440)
Q Consensus       406 ~~g~~~~a~-~~~~~m~~~  423 (440)
                      ..|+.+++. ..+..|...
T Consensus       168 ~~~~~~~~~~~~~~~~f~~  186 (198)
T 2fbn_A          168 KLKEARKKDKLTFGGMFDK  186 (198)
T ss_dssp             HHHHHHC------------
T ss_pred             HHHHHHHHHHHHHHHHhcc
Confidence            888887777 556666553

>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=98.71  E-value=4.2e-07  Score=67.08  Aligned_cols=99  Identities=17%  Similarity=0.107  Sum_probs=50.5

Q ss_pred             ChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHH
Q 047359          289 CAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLD  368 (440)
Q Consensus       289 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  368 (440)
                      +...+..+...+...|++++|...++......+. +...+..+..++...|++++|...+++..+.... +...+..+..
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~   85 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLGQ   85 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcC-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCch-hHHHHHHHHH
Confidence            3344455555555555555555555555544322 3444555555555555555555555555544322 3445555555


Q ss_pred             HHHhcCcHHHHHHHHHHHHHc
Q 047359          369 GLFKDGRMEEAVRIFDYMKEL  389 (440)
Q Consensus       369 ~~~~~g~~~~a~~~~~~~~~~  389 (440)
                      ++...|++++|...|+++.+.
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHH
Confidence            555555555555555555444

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.70  E-value=4.1e-07  Score=69.62  Aligned_cols=101  Identities=13%  Similarity=-0.047  Sum_probs=72.0

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHH
Q 047359          254 RDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLME  333 (440)
Q Consensus       254 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  333 (440)
                      +...+..+...+...|++++|...|+...+.. +.+...+..+..++...|++++|+..+++..+..+. +...|..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPK-YSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            34556667777777778888888777777653 335666777777777778888888877777776543 5667777777


Q ss_pred             HHHcCCcHHHHHHHHHHHHhccC
Q 047359          334 YYCSNRQIDKAIALHIKIEKLKG  356 (440)
Q Consensus       334 ~~~~~~~~~~a~~~~~~~~~~~~  356 (440)
                      +|...|++++|.+.|++..+...
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~~p  110 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEAEG  110 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHS
T ss_pred             HHHHccCHHHHHHHHHHHHHhCC
Confidence            77777888888887777776543

>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=98.69  E-value=5.2e-07  Score=66.57  Aligned_cols=98  Identities=12%  Similarity=-0.040  Sum_probs=60.2

Q ss_pred             chhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHH
Q 047359          324 DSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSR  403 (440)
Q Consensus       324 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  403 (440)
                      +...+..+...+...|++++|...|++..+.... +...|..+..++...|++++|...++++.+.++.++..+..+..+
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~   86 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQC   86 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcC-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHHH
Confidence            3445555566666666666666666666654332 455566666666666666666666666666665566666666666


Q ss_pred             HHhcccHHHHHHHHHHHHH
Q 047359          404 LCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       404 ~~~~g~~~~a~~~~~~m~~  422 (440)
                      +...|++++|...|++..+
T Consensus        87 ~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           87 QLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHH
Confidence            6666666666666666554

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.68  E-value=5.7e-07  Score=65.54  Aligned_cols=103  Identities=14%  Similarity=0.066  Sum_probs=91.1

Q ss_pred             chhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHH
Q 047359          324 DSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSR  403 (440)
Q Consensus       324 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  403 (440)
                      +...+..+...+...|++++|...+++..+.... +...+..+...+...|++++|.+.+++..+..+.++..+..+...
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~   89 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELNPA-NAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHH
Confidence            4567778888999999999999999999986443 678889999999999999999999999999988888999999999


Q ss_pred             HHhcccHHHHHHHHHHHHHCCCCCCH
Q 047359          404 LCHLKELRKAMKNHDEMLKMGHKPDE  429 (440)
Q Consensus       404 ~~~~g~~~~a~~~~~~m~~~~~~p~~  429 (440)
                      +...|++++|...+++..+.  .|+.
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~--~p~~  113 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALEL--DPDN  113 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--STTC
T ss_pred             HHHhCCHHHHHHHHHHHHhc--Cccc
Confidence            99999999999999999884  4543

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.66  E-value=8.3e-07  Score=66.38  Aligned_cols=94  Identities=11%  Similarity=-0.088  Sum_probs=44.5

Q ss_pred             hhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcC----HHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHH
Q 047359          327 CCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLD----VATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVS  402 (440)
Q Consensus       327 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  402 (440)
                      .+..+...+...|++++|.+.|++..+..  |+    ...+..+..+|...|++++|...+++..+..+.++..+..+..
T Consensus        30 ~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~  107 (148)
T 2dba_A           30 QLRKEGNELFKCGDYGGALAAYTQALGLD--ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRRSQ  107 (148)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHc--ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHHHH
Confidence            33344444444444444444444444421  22    3344444444555555555555555554444444444445555


Q ss_pred             HHHhcccHHHHHHHHHHHHH
Q 047359          403 RLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       403 ~~~~~g~~~~a~~~~~~m~~  422 (440)
                      ++...|++++|...+++..+
T Consensus       108 ~~~~~~~~~~A~~~~~~al~  127 (148)
T 2dba_A          108 ALEKLGRLDQAVLDLQRCVS  127 (148)
T ss_dssp             HHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            55555555555555555444

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.65  E-value=3.6e-07  Score=69.75  Aligned_cols=61  Identities=11%  Similarity=0.083  Sum_probs=30.7

Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          362 TYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       362 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      .|..+..+|.+.|++++|+..++++.+.+|.++.+|..+..++...|++++|...|++.++
T Consensus        65 ~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~  125 (162)
T 3rkv_A           65 LYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLR  125 (162)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHh
Confidence            4444444455555555555555555554444444555555555555555555555555444

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.65  E-value=8.7e-07  Score=76.61  Aligned_cols=96  Identities=13%  Similarity=-0.045  Sum_probs=72.0

Q ss_pred             hhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHH
Q 047359          290 AMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDG  369 (440)
Q Consensus       290 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  369 (440)
                      ...+..+..++.+.|++++|...+++..+..+. +...+..+..+|...|++++|+..|+++.+..+. +...+..+..+
T Consensus       196 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~a~~~l~~~  273 (336)
T 1p5q_A          196 LASHLNLAMCHLKLQAFSAAIESCNKALELDSN-NEKGLSRRGEAHLAVNDFELARADFQKVLQLYPN-NKAAKTQLAVC  273 (336)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHH
Confidence            356777777888888888888888888776544 6677778888888888888888888888876443 56677788888


Q ss_pred             HHhcCcHHHH-HHHHHHHH
Q 047359          370 LFKDGRMEEA-VRIFDYMK  387 (440)
Q Consensus       370 ~~~~g~~~~a-~~~~~~~~  387 (440)
                      +.+.|+.++| ...++.|.
T Consensus       274 ~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          274 QQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            8888888877 34555554

>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=98.65  E-value=4.8e-07  Score=65.96  Aligned_cols=99  Identities=10%  Similarity=0.116  Sum_probs=50.1

Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCC--cC----HHhHHH
Q 047359          292 ELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGS--LD----VATYDV  365 (440)
Q Consensus       292 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--p~----~~~~~~  365 (440)
                      .+..+...+...|++++|...+++.....+. +...+..+...+...|++++|...+++..+....  ++    ..++..
T Consensus         6 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (131)
T 1elr_A            6 KEKELGNDAYKKKDFDTALKHYDKAKELDPT-NMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHH
Confidence            3444555555555555555555555544322 3444555555555555555555555555543221  11    344445


Q ss_pred             HHHHHHhcCcHHHHHHHHHHHHHcCC
Q 047359          366 LLDGLFKDGRMEEAVRIFDYMKELKV  391 (440)
Q Consensus       366 l~~~~~~~g~~~~a~~~~~~~~~~~~  391 (440)
                      +...+...|++++|.+.|+++.+..+
T Consensus        85 la~~~~~~~~~~~A~~~~~~~~~~~~  110 (131)
T 1elr_A           85 IGNSYFKEEKYKDAIHFYNKSLAEHR  110 (131)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhCC
Confidence            55555555555555555555555433

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.63  E-value=1.6e-06  Score=64.74  Aligned_cols=115  Identities=15%  Similarity=0.012  Sum_probs=85.7

Q ss_pred             ChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCC--chhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHH
Q 047359          289 CAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLL--DSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVL  366 (440)
Q Consensus       289 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l  366 (440)
                      +...+..+...+...|++++|...+++..+.....  ....+..+...|...|++++|...+++..+.... +...+..+
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~  105 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGG-DVKALYRR  105 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSC-CHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCcc-CHHHHHHH
Confidence            44556667777778888888888888887654321  0566777788888888888888888888876433 56777888


Q ss_pred             HHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHH
Q 047359          367 LDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRL  404 (440)
Q Consensus       367 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  404 (440)
                      ..++...|++++|...|++..+..+.+...+..+....
T Consensus       106 a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~  143 (148)
T 2dba_A          106 SQALEKLGRLDQAVLDLQRCVSLEPKNKVFQEALRNIS  143 (148)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHH
Confidence            88888899999999999988888777766666555443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.61  E-value=1.1e-06  Score=63.97  Aligned_cols=97  Identities=15%  Similarity=0.074  Sum_probs=49.4

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhcCCCCch---hhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcC---HHhHHHHHHH
Q 047359          296 FVASQCGKGKWKEVEELLSAVLDKGLLLDS---FCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLD---VATYDVLLDG  369 (440)
Q Consensus       296 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~---~~~~~~l~~~  369 (440)
                      +...+...|++++|...++.+.+..+. +.   ..+..+..++...|++++|...++++.+..+. +   ...+..+..+
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~la~~   85 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPT-HDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-STTHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHH
Confidence            344455555666666666555554322 12   24444555555555555555555555554322 1   3344455555


Q ss_pred             HHhcCcHHHHHHHHHHHHHcCCCch
Q 047359          370 LFKDGRMEEAVRIFDYMKELKVVSS  394 (440)
Q Consensus       370 ~~~~g~~~~a~~~~~~~~~~~~~~~  394 (440)
                      +...|++++|...|+++.+..|.++
T Consensus        86 ~~~~g~~~~A~~~~~~~~~~~p~~~  110 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVATQYPGSD  110 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTSH
T ss_pred             HHHcCCHHHHHHHHHHHHHHCCCCh
Confidence            5555555555555555555544433

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.59  E-value=8.6e-08  Score=68.68  Aligned_cols=85  Identities=11%  Similarity=-0.089  Sum_probs=43.5

Q ss_pred             CCcHHHHHHHHHHHHhccC--CcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHH
Q 047359          338 NRQIDKAIALHIKIEKLKG--SLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMK  415 (440)
Q Consensus       338 ~~~~~~a~~~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  415 (440)
                      .|++++|+..|++..+.+.  +.+...+..+..+|...|++++|+..|+++.+..|.++.++..+..++...|++++|+.
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~   82 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGVE   82 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHHH
Confidence            3455555555555554321  11234455555555555555555555555555555555555555555555555555555


Q ss_pred             HHHHHHH
Q 047359          416 NHDEMLK  422 (440)
Q Consensus       416 ~~~~m~~  422 (440)
                      .+++.++
T Consensus        83 ~~~~al~   89 (117)
T 3k9i_A           83 LLLKIIA   89 (117)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5555554

>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=98.56  E-value=1.3e-07  Score=74.96  Aligned_cols=104  Identities=11%  Similarity=0.007  Sum_probs=82.2

Q ss_pred             hhhHHHHHHHHcCCcHHHHHHHHHHHHhccCC-c--------------CHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcC
Q 047359          326 FCCSSLMEYYCSNRQIDKAIALHIKIEKLKGS-L--------------DVATYDVLLDGLFKDGRMEEAVRIFDYMKELK  390 (440)
Q Consensus       326 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-p--------------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  390 (440)
                      ..+..+...+...|++++|...|++..+.... |              ....+..+..+|.+.|++++|+..++++.+..
T Consensus        39 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~  118 (198)
T 2fbn_A           39 FDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID  118 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            34455556666677777777777766654222 1              13678889999999999999999999999998


Q ss_pred             CCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHHH
Q 047359          391 VVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEAT  431 (440)
Q Consensus       391 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t  431 (440)
                      +.+..++..+..++...|++++|...|++..+  +.|+...
T Consensus       119 p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~--~~p~~~~  157 (198)
T 2fbn_A          119 KNNVKALYKLGVANMYFGFLEEAKENLYKAAS--LNPNNLD  157 (198)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HSTTCHH
T ss_pred             cccHHHHHHHHHHHHHcccHHHHHHHHHHHHH--HCCCcHH
Confidence            88999999999999999999999999999988  4565543

>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=98.56  E-value=3.8e-07  Score=82.80  Aligned_cols=119  Identities=9%  Similarity=0.101  Sum_probs=86.1

Q ss_pred             HHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHH
Q 047359          298 ASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRME  377 (440)
Q Consensus       298 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  377 (440)
                      ..+.+.|++++|.+.+++..+..+. +...+..+..+|.+.|++++|++.+++..+.... +...+..+..+|...|+++
T Consensus        14 ~~~~~~g~~~~A~~~~~~Al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~lg~~~~~~g~~~   91 (477)
T 1wao_1           14 NDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNMALGKFR   91 (477)
T ss_dssp             SSTTTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHH
Confidence            3455677888888888887776443 5677777888888888888888888888876433 5667778888888888888


Q ss_pred             HHHHHHHHHHHcCCCchhhHHHHHHH--HHhcccHHHHHHHHH
Q 047359          378 EAVRIFDYMKELKVVSSSSFVIVVSR--LCHLKELRKAMKNHD  418 (440)
Q Consensus       378 ~a~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~a~~~~~  418 (440)
                      +|.+.|+++.+..+.+...+..+..+  +.+.|++++|++.++
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            88888888888777766666666666  777788888888877

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.56  E-value=9e-07  Score=63.62  Aligned_cols=99  Identities=15%  Similarity=-0.058  Sum_probs=71.9

Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHH
Q 047359          292 ELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLF  371 (440)
Q Consensus       292 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  371 (440)
                      .+..+...+.+.|++++|...+++..+..+. +...|..+..++...|++++|+..+++..+..+. +...+..+..++.
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~~~~~la~~~~   96 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHT   96 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence            3445566677778888888888888776544 6667777777888888888888888888876544 5667777888888


Q ss_pred             hcCcHHHHHHHHHHHHHcCCC
Q 047359          372 KDGRMEEAVRIFDYMKELKVV  392 (440)
Q Consensus       372 ~~g~~~~a~~~~~~~~~~~~~  392 (440)
                      ..|++++|...++++.+..|.
T Consensus        97 ~~g~~~~A~~~~~~al~~~P~  117 (121)
T 1hxi_A           97 NEHNANAALASLRAWLLSQPQ  117 (121)
T ss_dssp             HHHHHHHHHHHHHHHHC----
T ss_pred             HcCCHHHHHHHHHHHHHhCcC
Confidence            888888888888888776554

>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=98.55  E-value=1.4e-06  Score=63.48  Aligned_cols=95  Identities=11%  Similarity=0.111  Sum_probs=53.6

Q ss_pred             hhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc-------hhhHHH
Q 047359          327 CCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVS-------SSSFVI  399 (440)
Q Consensus       327 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-------~~~~~~  399 (440)
                      .+..+...+...|++++|...+++..+.... +...+..+...+...|++++|...++++.+..+.+       ..++..
T Consensus         6 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (131)
T 1elr_A            6 KEKELGNDAYKKKDFDTALKHYDKAKELDPT-NMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHH
Confidence            3444555555666666666666665554322 44555555556666666666666666555544332       445555


Q ss_pred             HHHHHHhcccHHHHHHHHHHHHH
Q 047359          400 VVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       400 l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      +..++...|++++|.+.++++.+
T Consensus        85 la~~~~~~~~~~~A~~~~~~~~~  107 (131)
T 1elr_A           85 IGNSYFKEEKYKDAIHFYNKSLA  107 (131)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHH
Confidence            55666666666666666666555

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.55  E-value=8.5e-06  Score=73.29  Aligned_cols=57  Identities=9%  Similarity=0.025  Sum_probs=30.0

Q ss_pred             HHHHHhhcCcHHHHHHHHHHHHhcCCCCCH----------------HhHHHHHHHHhhhccHHHHHHHHHHHH
Q 047359          191 VIQKLSDMGKTYAAEMIFKRACDEKIELQD----------------DTCGCMLKALSKEGRVKEAIQIYHLIS  247 (440)
Q Consensus       191 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----------------~~~~~l~~~~~~~~~~~~a~~~~~~~~  247 (440)
                      -...+.+.|++++|.+.|..+.+.......                ..+..+...|.+.|++++|.+.+..+.
T Consensus        10 ~a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~   82 (434)
T 4b4t_Q           10 EARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHST   82 (434)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            345566667777777777766654332111                123444555555555555555555443

>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=98.54  E-value=4.5e-06  Score=61.88  Aligned_cols=106  Identities=16%  Similarity=0.098  Sum_probs=73.9

Q ss_pred             HHHHHHHcCCcHHHHHHHHHHHHhccCCc------C-----HHhHHHHHHHHHhcCcHHHHHHHHHHHHHc-------CC
Q 047359          330 SLMEYYCSNRQIDKAIALHIKIEKLKGSL------D-----VATYDVLLDGLFKDGRMEEAVRIFDYMKEL-------KV  391 (440)
Q Consensus       330 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~p------~-----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-------~~  391 (440)
                      .....+...|++++|+..|++.++..+..      +     ...|..+..++.+.|++++|+..+++..+.       +|
T Consensus        16 ~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~p   95 (159)
T 2hr2_A           16 SDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQ   95 (159)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTS
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCC
Confidence            33444555566666666666665543220      1     237888888888888888888888888888       87


Q ss_pred             CchhhH----HHHHHHHHhcccHHHHHHHHHHHHH-----CCCCCCHHHHHHH
Q 047359          392 VSSSSF----VIVVSRLCHLKELRKAMKNHDEMLK-----MGHKPDEATYKQV  435 (440)
Q Consensus       392 ~~~~~~----~~l~~~~~~~g~~~~a~~~~~~m~~-----~~~~p~~~t~~~l  435 (440)
                      .+...|    +....++...|++++|+..|++.++     .|+.+........
T Consensus        96 d~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~~~~~~~~~~~  148 (159)
T 2hr2_A           96 DEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERMMEV  148 (159)
T ss_dssp             THHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCCTTHHHHHHH
T ss_pred             chHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHH
Confidence            777888    8888888889999999998888875     4555554444333

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.54  E-value=5.2e-06  Score=60.29  Aligned_cols=92  Identities=11%  Similarity=0.028  Sum_probs=60.8

Q ss_pred             HHHHHHHcCCcHHHHHHHHHHHHhccCCcCH---HhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc---hhhHHHHHHH
Q 047359          330 SLMEYYCSNRQIDKAIALHIKIEKLKGSLDV---ATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVS---SSSFVIVVSR  403 (440)
Q Consensus       330 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~~~~l~~~  403 (440)
                      .+...+...|++++|...|+++.+..+. +.   ..+..+..++.+.|++++|...|+++.+..|.+   +.++..+..+
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~   85 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHH
Confidence            3455566677777777777777664332 22   355666667777777777777777777666665   5566667777


Q ss_pred             HHhcccHHHHHHHHHHHHH
Q 047359          404 LCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       404 ~~~~g~~~~a~~~~~~m~~  422 (440)
                      +...|++++|...|+++.+
T Consensus        86 ~~~~g~~~~A~~~~~~~~~  104 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVAT  104 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHH
Confidence            7777777777777777666

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.53  E-value=1.7e-06  Score=61.02  Aligned_cols=102  Identities=13%  Similarity=-0.025  Sum_probs=69.8

Q ss_pred             hhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCC-cCHHhHHHHHH
Q 047359          290 AMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGS-LDVATYDVLLD  368 (440)
Q Consensus       290 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-p~~~~~~~l~~  368 (440)
                      ...+..+...+...|++++|...+++..+.... +...+..+...+...|++++|.+.+++..+.... .+...+..+..
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~   84 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPE-ESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKAD   84 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHH
Confidence            445556666677777777777777777665433 5556667777777777777777777777764221 03566777777


Q ss_pred             HHHhc-CcHHHHHHHHHHHHHcCCC
Q 047359          369 GLFKD-GRMEEAVRIFDYMKELKVV  392 (440)
Q Consensus       369 ~~~~~-g~~~~a~~~~~~~~~~~~~  392 (440)
                      ++.+. |++++|.+.++++....+.
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~p~  109 (112)
T 2kck_A           85 ALRYIEGKEVEAEIAEARAKLEHHH  109 (112)
T ss_dssp             HHTTCSSCSHHHHHHHHHHGGGCCC
T ss_pred             HHHHHhCCHHHHHHHHHHHhhcccC
Confidence            77777 8888888888777776655

>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=98.51  E-value=2.4e-06  Score=77.27  Aligned_cols=129  Identities=12%  Similarity=-0.007  Sum_probs=88.6

Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCC--------------chhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCC
Q 047359          292 ELSRFVASQCGKGKWKEVEELLSAVLDKGLLL--------------DSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGS  357 (440)
Q Consensus       292 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  357 (440)
                      .+..+...+.+.|++++|...|++..+.....              ....|..+..+|.+.|++++|+..++++++....
T Consensus       270 ~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~  349 (457)
T 1kt0_A          270 IVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLDSA  349 (457)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCc
Confidence            34444555555555555555555555432221              1467777888888888888888888888876544


Q ss_pred             cCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHH-HHHHHH
Q 047359          358 LDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMK-NHDEML  421 (440)
Q Consensus       358 p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~-~~~~m~  421 (440)
                       +...|..+..+|...|++++|+..|+++.+..|.+..++..+..++.+.|+.+++.. .+++|.
T Consensus       350 -~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~f  413 (457)
T 1kt0_A          350 -NEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQKKAKEHNERDRRIYANMF  413 (457)
T ss_dssp             -CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             -cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             677888888888888888888888888888887777888888888888888877764 444443

>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=98.49  E-value=2.4e-06  Score=61.97  Aligned_cols=99  Identities=7%  Similarity=0.044  Sum_probs=65.8

Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCC--cC----HHhHHH
Q 047359          292 ELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGS--LD----VATYDV  365 (440)
Q Consensus       292 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--p~----~~~~~~  365 (440)
                      .+..+...+.+.|++++|+..|++..+..+. +...|..+..+|...|++++|++.+++.++....  ++    ..+|..
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~-~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELDPS-NITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            3455666667777777777777777665443 5666777777777777777777777777654321  11    235666


Q ss_pred             HHHHHHhcCcHHHHHHHHHHHHHcCC
Q 047359          366 LLDGLFKDGRMEEAVRIFDYMKELKV  391 (440)
Q Consensus       366 l~~~~~~~g~~~~a~~~~~~~~~~~~  391 (440)
                      +..++...|++++|++.|++..+..+
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~~~~  114 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLSEFR  114 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhhCc
Confidence            77777778888888888887776543

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.47  E-value=1.9e-06  Score=65.41  Aligned_cols=131  Identities=12%  Similarity=-0.000  Sum_probs=79.8

Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHHHhcCCC-Cc----hhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCC----c-CHH
Q 047359          292 ELSRFVASQCGKGKWKEVEELLSAVLDKGLL-LD----SFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGS----L-DVA  361 (440)
Q Consensus       292 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----p-~~~  361 (440)
                      ++..+...+...|++++|...+++..+.... ++    ..++..+...+...|++++|.+.+++..+....    + ...
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            3444444555555555555555554432110 01    134555666677777777777777766543111    0 134


Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHHHHcCC----C--chhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          362 TYDVLLDGLFKDGRMEEAVRIFDYMKELKV----V--SSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       362 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~----~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      .+..+...+...|++++|.+.+++..+...    .  ...++..+...+...|++++|.+.+++..+
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            566677777888888888888877654321    1  245677788888888888888888888765

>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=98.47  E-value=2.3e-06  Score=74.78  Aligned_cols=122  Identities=10%  Similarity=0.052  Sum_probs=91.3

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHh----------------cCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccC
Q 047359          293 LSRFVASQCGKGKWKEVEELLSAVLD----------------KGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKG  356 (440)
Q Consensus       293 ~~~l~~~~~~~~~~~~a~~~~~~~~~----------------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  356 (440)
                      +..+...+.+.|++++|...|++..+                .. ..+...|..+..+|.+.|++++|++.+++.++...
T Consensus       226 ~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~-~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p  304 (370)
T 1ihg_A          226 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQ-PVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDP  304 (370)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHH-HHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCc
Confidence            33344445555555555555555543                11 11456778888889999999999999999988644


Q ss_pred             CcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHH
Q 047359          357 SLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKN  416 (440)
Q Consensus       357 ~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  416 (440)
                      . +...|..+..+|...|++++|.+.|+++.+..|.+...+..+..++...++.+++.+.
T Consensus       305 ~-~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~~~~~~~~~a~k~  363 (370)
T 1ihg_A          305 S-NTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKIKAQKDKEKA  363 (370)
T ss_dssp             T-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             h-hHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3 6778888999999999999999999999999888888888888888888887777553

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.46  E-value=1.4e-05  Score=71.78  Aligned_cols=199  Identities=8%  Similarity=-0.051  Sum_probs=125.9

Q ss_pred             HHHHHHhcCChhhHHHHHHHHHhcCCCCcccc--------------cchHHHHHHHhhcCcHHHHHHHHHHHHhcCCC-C
Q 047359          154 ILDGARRYEKTEVSDRIVGLMVEKKLLPKHFL--------------SGNDYVIQKLSDMGKTYAAEMIFKRACDEKIE-L  218 (440)
Q Consensus       154 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~  218 (440)
                      -.+.+.+.|++++|.+.+..+.+.........              ..+..+...|...|++++|.+.+..+.+.... +
T Consensus        10 ~a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~   89 (434)
T 4b4t_Q           10 EARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFA   89 (434)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcc
Confidence            35667889999999999999998754332101              12567899999999999999999987653211 1


Q ss_pred             CHH----hHHHHHHHHhhhccHHHHHHHHHHHHHc----CCCC-ChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-
Q 047359          219 QDD----TCGCMLKALSKEGRVKEAIQIYHLISER----GITV-RDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIP-  288 (440)
Q Consensus       219 ~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-  288 (440)
                      +..    +.+.+-..+...|+++.|..+++.....    +..+ -..++..+...+...|++++|..+++.+...-... 
T Consensus        90 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~  169 (434)
T 4b4t_Q           90 KSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLD  169 (434)
T ss_dssp             HHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSS
T ss_pred             chHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcc
Confidence            221    2333334445568888888888776542    2222 23456677777888888888888887765431111 


Q ss_pred             ----ChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcC--C-CC-c--hhhhHHHHHHHHcCCcHHHHHHHHHHHH
Q 047359          289 ----CAMELSRFVASQCGKGKWKEVEELLSAVLDKG--L-LL-D--SFCCSSLMEYYCSNRQIDKAIALHIKIE  352 (440)
Q Consensus       289 ----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~-~~-~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~  352 (440)
                          ....+..++..|...|++++|..++++.....  . .| .  ...+..+...+...|++++|...|.+..
T Consensus       170 ~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~  243 (434)
T 4b4t_Q          170 DKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESF  243 (434)
T ss_dssp             CSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHH
T ss_pred             cchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence                12356666677777777777777777665321  1 11 1  1234445555666677777766665554

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.45  E-value=2.4e-06  Score=65.09  Aligned_cols=76  Identities=7%  Similarity=-0.008  Sum_probs=61.3

Q ss_pred             chhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCch-hhHHHH
Q 047359          324 DSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSS-SSFVIV  400 (440)
Q Consensus       324 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~l  400 (440)
                      +...|..+..+|.+.|++++|+..+++.++..+. +...|..+..+|...|++++|...|++..+..|.++ .+...+
T Consensus        62 ~~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~l  138 (162)
T 3rkv_A           62 NIPLYANMSQCYLNIGDLHEAEETSSEVLKREET-NEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAAASVVAREM  138 (162)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCc-chHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCCHHHHHHHH
Confidence            3457778888888999999999999999887544 677888899999999999999999999998887766 434333

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=98.43  E-value=7.7e-07  Score=65.81  Aligned_cols=98  Identities=10%  Similarity=0.084  Sum_probs=67.5

Q ss_pred             cCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCc----------HHHHHHHHHHHHHcCCCchhhHHHHHHHHHh
Q 047359          337 SNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGR----------MEEAVRIFDYMKELKVVSSSSFVIVVSRLCH  406 (440)
Q Consensus       337 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~----------~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  406 (440)
                      +.+.+++|.+.+++..+..+. +...|..+..++...++          +++|+..|+++.+.+|....+|+.+..+|..
T Consensus        14 r~~~feeA~~~~~~Ai~l~P~-~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~   92 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKSNPL-DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTS   92 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHH
Confidence            344566666666666665443 55566666666665554          4588888888888887777788888888876


Q ss_pred             cc-----------cHHHHHHHHHHHHHCCCCCCHHHHHHHhh
Q 047359          407 LK-----------ELRKAMKNHDEMLKMGHKPDEATYKQVIS  437 (440)
Q Consensus       407 ~g-----------~~~~a~~~~~~m~~~~~~p~~~t~~~ll~  437 (440)
                      .|           ++++|++.|++.++  +.|+...|...+.
T Consensus        93 lg~l~P~~~~a~g~~~eA~~~~~kAl~--l~P~~~~y~~al~  132 (158)
T 1zu2_A           93 FAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLE  132 (158)
T ss_dssp             HHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHH
T ss_pred             hcccCcchhhhhccHHHHHHHHHHHHH--hCCCCHHHHHHHH
Confidence            64           78888888888887  6777777665543

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.40  E-value=1.3e-06  Score=75.64  Aligned_cols=148  Identities=12%  Similarity=-0.011  Sum_probs=82.1

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHH
Q 047359          255 DSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEY  334 (440)
Q Consensus       255 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  334 (440)
                      ...+..+...+.+.|++++|...|+......  |+...       +...++.+++...+          ....|..+..+
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~-------~~~~~~~~~~~~~l----------~~~~~~nla~~  239 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAYM--GDDFM-------FQLYGKYQDMALAV----------KNPCHLNIAAC  239 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHHS--CHHHH-------HTCCHHHHHHHHHH----------HTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHh--ccchh-------hhhcccHHHHHHHH----------HHHHHHHHHHH
Confidence            3445566666777777788877777776642  33221       22233333333222          12367788889


Q ss_pred             HHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHH-HhcccHHHH
Q 047359          335 YCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRL-CHLKELRKA  413 (440)
Q Consensus       335 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~~~~a  413 (440)
                      |.+.|++++|+..+++.++.... +...|..+..+|...|++++|...|+++.+..|.+..++..+.... ...+..+++
T Consensus       240 ~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a  318 (338)
T 2if4_A          240 LIKLKRYDEAIGHCNIVLTEEEK-NPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQ  318 (338)
T ss_dssp             HHTTTCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------------
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999986543 6788999999999999999999999999988888777777777663 355677888


Q ss_pred             HHHHHHHHH
Q 047359          414 MKNHDEMLK  422 (440)
Q Consensus       414 ~~~~~~m~~  422 (440)
                      ...|++|..
T Consensus       319 ~~~~~~~l~  327 (338)
T 2if4_A          319 KEMYKGIFK  327 (338)
T ss_dssp             ---------
T ss_pred             HHHHHHhhC
Confidence            889998876

>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=98.40  E-value=2.2e-05  Score=72.61  Aligned_cols=173  Identities=9%  Similarity=-0.045  Sum_probs=120.3

Q ss_pred             HHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCC----------hHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCC-
Q 047359          236 VKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQ----------PEEVCGLLRDVVERGYIPCAMELSRFVASQCGKG-  304 (440)
Q Consensus       236 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-  304 (440)
                      .++|++.++.+.+.++. +...|+.--.++...|+          ++++++.++.+.+.+ +-+..+|.--...+.+.+ 
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 DESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPE  122 (567)
T ss_dssp             SHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSS
T ss_pred             CHHHHHHHHHHHHHCch-hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHccc
Confidence            35667777777665543 44455554444444444          677777777777654 335556666666666667 


Q ss_pred             -CHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCC-cHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhc---------
Q 047359          305 -KWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNR-QIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKD---------  373 (440)
Q Consensus       305 -~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~---------  373 (440)
                       +++++.+.++++.+..+. +...|+.-..++...| .++++++.++++++..+. |...|+.....+.+.         
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 PNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQ  200 (567)
T ss_dssp             CCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCCSSSC
T ss_pred             ccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCC-CccHHHHHHHHHHhhccccccccc
Confidence             668888888888877655 6777777777777777 778888888888776555 667777666665552         


Q ss_pred             -----CcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHH
Q 047359          374 -----GRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRK  412 (440)
Q Consensus       374 -----g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  412 (440)
                           +.++++.+.++++...+|.+..+|+.+...+.+.++.++
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                 567889999999998888888888888888877776443

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.40  E-value=6.5e-07  Score=64.00  Aligned_cols=92  Identities=15%  Similarity=0.016  Sum_probs=61.0

Q ss_pred             CCCHHHHHHHHHHHHhcC--CCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHH
Q 047359          303 KGKWKEVEELLSAVLDKG--LLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAV  380 (440)
Q Consensus       303 ~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~  380 (440)
                      .|++++|+..|++..+.+  -+.+...+..+..+|...|++++|+..+++..+..+. +...+..+..++...|++++|.
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPN-HQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHcCCHHHHH
Confidence            466667777777776653  1124456667777777778888888888777776544 5667777777777888888888


Q ss_pred             HHHHHHHHcCCCchh
Q 047359          381 RIFDYMKELKVVSSS  395 (440)
Q Consensus       381 ~~~~~~~~~~~~~~~  395 (440)
                      ..+++..+..+.++.
T Consensus        82 ~~~~~al~~~p~~~~   96 (117)
T 3k9i_A           82 ELLLKIIAETSDDET   96 (117)
T ss_dssp             HHHHHHHHHHCCCHH
T ss_pred             HHHHHHHHhCCCcHH
Confidence            888877777666443

>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=98.38  E-value=2.4e-05  Score=72.44  Aligned_cols=158  Identities=11%  Similarity=-0.010  Sum_probs=130.2

Q ss_pred             CChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCC----------HHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcC
Q 047359          269 HQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGK----------WKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSN  338 (440)
Q Consensus       269 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  338 (440)
                      ...++|++.++.+...+ +-+...|+.--..+...|+          ++++.+.++.+.+..++ +..+|+.-..++.+.
T Consensus        43 ~~~eeal~~~~~~l~~n-P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK-~y~aW~hR~w~l~~l  120 (567)
T 1dce_A           43 ELDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRL  120 (567)
T ss_dssp             CCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHc
Confidence            34568899999998865 3345556665555555566          89999999999998776 888898888888899


Q ss_pred             C--cHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcC-cHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhc--------
Q 047359          339 R--QIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDG-RMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHL--------  407 (440)
Q Consensus       339 ~--~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------  407 (440)
                      +  +++++++.++++.+...+ +...|+.-...+.+.| .++++.+.++++.+.++.+..+|+.....+.+.        
T Consensus       121 ~~~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~~  199 (567)
T 1dce_A          121 PEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGP  199 (567)
T ss_dssp             SSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSS
T ss_pred             ccccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhcccccccc
Confidence            9  779999999999998766 8889998888888889 899999999999999999999999888887763        


Q ss_pred             ------ccHHHHHHHHHHHHHCCCCCCHHH
Q 047359          408 ------KELRKAMKNHDEMLKMGHKPDEAT  431 (440)
Q Consensus       408 ------g~~~~a~~~~~~m~~~~~~p~~~t  431 (440)
                            +.++++++.++++..  +.|+..+
T Consensus       200 ~~~~~~~~~~eel~~~~~ai~--~~P~~~s  227 (567)
T 1dce_A          200 QGRLPENVLLKELELVQNAFF--TDPNDQS  227 (567)
T ss_dssp             CCSSCHHHHHHHHHHHHHHHH--HCSSCSH
T ss_pred             cccccHHHHHHHHHHHHHHHh--hCCCCcc
Confidence                  678999999999988  4566543

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.31  E-value=1e-05  Score=61.33  Aligned_cols=98  Identities=17%  Similarity=0.147  Sum_probs=58.8

Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHHHhcCCC-----CchhhhHHHHHHHHcCCcHHHHHHHHHHHHhcc----CC-cCHH
Q 047359          292 ELSRFVASQCGKGKWKEVEELLSAVLDKGLL-----LDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLK----GS-LDVA  361 (440)
Q Consensus       292 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~-p~~~  361 (440)
                      ++..+...+...|++++|...+++..+....     .....+..+...+...|++++|.+.+++..+..    .. ....
T Consensus        51 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~  130 (164)
T 3ro3_A           51 AYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGR  130 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHH
Confidence            3444555555556666666666555432100     013345566667777777777777777766431    11 1134


Q ss_pred             hHHHHHHHHHhcCcHHHHHHHHHHHHHc
Q 047359          362 TYDVLLDGLFKDGRMEEAVRIFDYMKEL  389 (440)
Q Consensus       362 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~  389 (440)
                      .+..+...+...|++++|.+.+++..+.
T Consensus       131 ~~~~la~~~~~~g~~~~A~~~~~~a~~~  158 (164)
T 3ro3_A          131 ACWSLGNAYTALGNHDQAMHFAEKHLEI  158 (164)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            5667777888888888888888877653

>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=98.29  E-value=5.1e-06  Score=75.45  Aligned_cols=121  Identities=16%  Similarity=0.045  Sum_probs=76.0

Q ss_pred             HHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCC
Q 047359          226 MLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGK  305 (440)
Q Consensus       226 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  305 (440)
                      +...+.+.|++++|.+.|++..+.... +...+..+..++.+.|++++|...+++..+.. +.+...+..+..+|...|+
T Consensus        12 lg~~~~~~g~~~~A~~~~~~Al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~   89 (477)
T 1wao_1           12 QANDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGK   89 (477)
T ss_dssp             SSSSTTTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCC
Confidence            344566777777777777777776433 46667777777777777777777777777653 3345566667777777777


Q ss_pred             HHHHHHHHHHHHhcCCCCchhhhHHHHHH--HHcCCcHHHHHHHHH
Q 047359          306 WKEVEELLSAVLDKGLLLDSFCCSSLMEY--YCSNRQIDKAIALHI  349 (440)
Q Consensus       306 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~  349 (440)
                      +++|.+.+++..+..+. +...+..+..+  +.+.|++++|++.++
T Consensus        90 ~~eA~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           90 FRAALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHHHSTT-CTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            77777777777665432 33344444444  666677777777766

>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=98.26  E-value=8.6e-06  Score=71.21  Aligned_cols=105  Identities=11%  Similarity=0.040  Sum_probs=89.3

Q ss_pred             hhhHHHHHHHHcCCcHHHHHHHHHHHHhcc--------------CC-cCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcC
Q 047359          326 FCCSSLMEYYCSNRQIDKAIALHIKIEKLK--------------GS-LDVATYDVLLDGLFKDGRMEEAVRIFDYMKELK  390 (440)
Q Consensus       326 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------------~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  390 (440)
                      ..+..+...+.+.|++++|++.|++.++.-              .. .+...|..+..+|.+.|++++|++.++++.+..
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  303 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID  303 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC
Confidence            346677788999999999999999988610              11 245688899999999999999999999999999


Q ss_pred             CCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHHHH
Q 047359          391 VVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATY  432 (440)
Q Consensus       391 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~  432 (440)
                      +.+..++..+..+|...|++++|+..|+++.+  +.|+....
T Consensus       304 p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~--l~P~~~~~  343 (370)
T 1ihg_A          304 PSNTKALYRRAQGWQGLKEYDQALADLKKAQE--IAPEDKAI  343 (370)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHH
T ss_pred             chhHHHHHHHHHHHHHccCHHHHHHHHHHHHH--hCCCCHHH
Confidence            88999999999999999999999999999988  46765433

>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=98.24  E-value=1.4e-05  Score=72.22  Aligned_cols=105  Identities=14%  Similarity=0.061  Sum_probs=90.3

Q ss_pred             chhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcC--------------HHhHHHHHHHHHhcCcHHHHHHHHHHHHHc
Q 047359          324 DSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLD--------------VATYDVLLDGLFKDGRMEEAVRIFDYMKEL  389 (440)
Q Consensus       324 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~--------------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  389 (440)
                      ....+..+...|.+.|++++|+..|++.++......              ...|..+..+|.+.|++++|+..++++.+.
T Consensus       267 ~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  346 (457)
T 1kt0_A          267 QAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGL  346 (457)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            455677788899999999999999999998644321              578899999999999999999999999999


Q ss_pred             CCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHH
Q 047359          390 KVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEA  430 (440)
Q Consensus       390 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  430 (440)
                      .+.+..+|..+..+|...|++++|+..|+++++  +.|+..
T Consensus       347 ~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~--l~P~~~  385 (457)
T 1kt0_A          347 DSANEKGLYRRGEAQLLMNEFESAKGDFEKVLE--VNPQNK  385 (457)
T ss_dssp             STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TC----
T ss_pred             CCccHHHHHHHHHHHHHccCHHHHHHHHHHHHH--hCCCCH
Confidence            998999999999999999999999999999998  567654

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.20  E-value=1.8e-06  Score=60.83  Aligned_cols=94  Identities=9%  Similarity=-0.045  Sum_probs=66.4

Q ss_pred             chhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc------hhhH
Q 047359          324 DSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVS------SSSF  397 (440)
Q Consensus       324 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~------~~~~  397 (440)
                      +...+..+...+...|++++|.+.+++..+..+. +...+..+..++.+.|++++|++.++++.+..|.+      ...+
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~   81 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQ-NPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEHVAIRSKLQ   81 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTSHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccHHHHHHHHH
Confidence            4455666777777888888888888887776433 56677778888888888888888888888777665      5556


Q ss_pred             HHHHHHHHhcccHHHHHHHHH
Q 047359          398 VIVVSRLCHLKELRKAMKNHD  418 (440)
Q Consensus       398 ~~l~~~~~~~g~~~~a~~~~~  418 (440)
                      ..+..++...|+.+.|...++
T Consensus        82 ~~~~~~~~~~~~~~~a~~~~~  102 (111)
T 2l6j_A           82 YRLELAQGAVGSVQIPVVEVD  102 (111)
T ss_dssp             HHHHHHHHHHHCCCCCSSSSS
T ss_pred             HHHHHHHHHHHhHhhhHhHHH
Confidence            666666666666555554443

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.17  E-value=1.3e-05  Score=56.80  Aligned_cols=82  Identities=17%  Similarity=0.135  Sum_probs=54.4

Q ss_pred             HHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHH
Q 047359          308 EVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMK  387 (440)
Q Consensus       308 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  387 (440)
                      .|...+++..+..+. +...+..+...|...|++++|+..+++..+.... +...|..+..+|...|++++|...|++..
T Consensus         3 ~a~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLAQGTD-NMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPT-YSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHTTTCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCC-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            355666666665433 5566666777777777777777777777765433 45566677777777777777777777776


Q ss_pred             HcCC
Q 047359          388 ELKV  391 (440)
Q Consensus       388 ~~~~  391 (440)
                      +..+
T Consensus        81 ~~~~   84 (115)
T 2kat_A           81 AAAQ   84 (115)
T ss_dssp             HHHH
T ss_pred             Hhcc
Confidence            6544

>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=98.16  E-value=1.2e-05  Score=59.55  Aligned_cols=98  Identities=19%  Similarity=0.179  Sum_probs=66.4

Q ss_pred             HHHHcCCCHHHHHHHHHHHHhcCCCC-----------chhhhHHHHHHHHcCCcHHHHHHHHHHHHhc-------cCCcC
Q 047359          298 ASQCGKGKWKEVEELLSAVLDKGLLL-----------DSFCCSSLMEYYCSNRQIDKAIALHIKIEKL-------KGSLD  359 (440)
Q Consensus       298 ~~~~~~~~~~~a~~~~~~~~~~~~~~-----------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~p~  359 (440)
                      ..+.+.|++++|...|++..+..+..           +...|..+..++.+.|++++|+..+++.++.       .+. +
T Consensus        19 ~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd-~   97 (159)
T 2hr2_A           19 QRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQD-E   97 (159)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTST-H
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCc-h
Confidence            33444455555555555554432210           1237777888888888888888888888875       332 4


Q ss_pred             HHhH----HHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhh
Q 047359          360 VATY----DVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSS  396 (440)
Q Consensus       360 ~~~~----~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  396 (440)
                      ...|    .....++...|++++|+..|++..+..|.+...
T Consensus        98 ~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~  138 (159)
T 2hr2_A           98 GKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGE  138 (159)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSC
T ss_pred             HHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHH
Confidence            5577    888889999999999999999988876554433

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.15  E-value=2.7e-05  Score=52.25  Aligned_cols=82  Identities=17%  Similarity=0.166  Sum_probs=51.8

Q ss_pred             hhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHH
Q 047359          325 SFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRL  404 (440)
Q Consensus       325 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  404 (440)
                      ...+..+...+...|++++|...+++..+.... +...+..+..++.+.|++++|...+++..+..|.++..+..+..++
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~   87 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAK   87 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHH
Confidence            344555666666667777777777666654332 4556666666777777777777777777766666666666665555


Q ss_pred             Hhc
Q 047359          405 CHL  407 (440)
Q Consensus       405 ~~~  407 (440)
                      .+.
T Consensus        88 ~~~   90 (91)
T 1na3_A           88 QKQ   90 (91)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            443

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.13  E-value=9.6e-05  Score=54.25  Aligned_cols=110  Identities=14%  Similarity=0.092  Sum_probs=63.8

Q ss_pred             CHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHh----cCcHHHHH
Q 047359          305 KWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFK----DGRMEEAV  380 (440)
Q Consensus       305 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~  380 (440)
                      ++++|.+.|++..+.|. |+..    +...|...+..++|.+.|++..+.|   +...+..|...|..    .++.++|.
T Consensus        10 d~~~A~~~~~~aa~~g~-~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~   81 (138)
T 1klx_A           10 DLKKAIQYYVKACELNE-MFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   81 (138)
T ss_dssp             HHHHHHHHHHHHHHTTC-TTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHcCCC-Hhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHH
Confidence            45566666666655541 1221    4445555555666666666666542   44555555556655    56666666


Q ss_pred             HHHHHHHHcCCCchhhHHHHHHHHHh----cccHHHHHHHHHHHHHCC
Q 047359          381 RIFDYMKELKVVSSSSFVIVVSRLCH----LKELRKAMKNHDEMLKMG  424 (440)
Q Consensus       381 ~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~  424 (440)
                      +.|++..+.+  ++.++..+...|..    .++.++|.+.|++..+.|
T Consensus        82 ~~~~~Aa~~g--~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           82 QYYSKACGLN--DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHTT--CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCC--CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            6666666543  45556666666665    566666666666666654

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.13  E-value=1.1e-05  Score=69.78  Aligned_cols=153  Identities=14%  Similarity=-0.017  Sum_probs=85.5

Q ss_pred             CHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHH
Q 047359          219 QDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVA  298 (440)
Q Consensus       219 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  298 (440)
                      ....+..+...+.+.|++++|...|++..+..  |+...       +...++.+++...+.          ...|..+..
T Consensus       178 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla~  238 (338)
T 2if4_A          178 AADRRKMDGNSLFKEEKLEEAMQQYEMAIAYM--GDDFM-------FQLYGKYQDMALAVK----------NPCHLNIAA  238 (338)
T ss_dssp             HHHHHHHHHHHTCSSSCCHHHHHHHHHHHHHS--CHHHH-------HTCCHHHHHHHHHHH----------THHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHh--ccchh-------hhhcccHHHHHHHHH----------HHHHHHHHH
Confidence            34567778888999999999999999988753  33221       222333333332221          236777888


Q ss_pred             HHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHH-HHhcCcHH
Q 047359          299 SQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDG-LFKDGRME  377 (440)
Q Consensus       299 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~-~~~~g~~~  377 (440)
                      ++.+.|++++|...+++..+.... +...|..+..+|...|++++|...|++..+.... +...+..+... ....+..+
T Consensus       239 ~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~-~~~a~~~L~~l~~~~~~~~~  316 (338)
T 2if4_A          239 CLIKLKRYDEAIGHCNIVLTEEEK-NPKALFRRGKAKAELGQMDSARDDFRKAQKYAPD-DKAIRRELRALAEQEKALYQ  316 (338)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-------------------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHHH
Confidence            888999999999999999887543 6778888889999999999999999988775332 34455555544 33456677


Q ss_pred             HHHHHHHHHHHcCCC
Q 047359          378 EAVRIFDYMKELKVV  392 (440)
Q Consensus       378 ~a~~~~~~~~~~~~~  392 (440)
                      .+...|.++....+.
T Consensus       317 ~a~~~~~~~l~~~p~  331 (338)
T 2if4_A          317 KQKEMYKGIFKGKDE  331 (338)
T ss_dssp             ---------------
T ss_pred             HHHHHHHHhhCCCCC
Confidence            788888888776655

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.12  E-value=3.4e-05  Score=54.66  Aligned_cols=78  Identities=12%  Similarity=-0.038  Sum_probs=34.8

Q ss_pred             HHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHh
Q 047359          274 VCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEK  353 (440)
Q Consensus       274 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  353 (440)
                      +...++...+.. +.+...+..+...+...|++++|...+++.....+. +...|..+..+|...|++++|...|++..+
T Consensus         4 a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A            4 ITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPT-YSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             HHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344444444332 223334444444444455555555555544443322 333444444444455555555555544443

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.03  E-value=7.5e-05  Score=67.43  Aligned_cols=124  Identities=12%  Similarity=-0.021  Sum_probs=87.7

Q ss_pred             HHHcCCCHHHHHHHHHHHHhc-----CCC-C-chhhhHHHHHHHHcCCcHHHHHHHHHHHHhc-----cC-CcC-HHhHH
Q 047359          299 SQCGKGKWKEVEELLSAVLDK-----GLL-L-DSFCCSSLMEYYCSNRQIDKAIALHIKIEKL-----KG-SLD-VATYD  364 (440)
Q Consensus       299 ~~~~~~~~~~a~~~~~~~~~~-----~~~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~-~p~-~~~~~  364 (440)
                      .+...|++++|+.++++.++.     |.. | ...+++.|..+|...|++++|..++++..+.     |. .|+ ..+++
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            345678888888888777642     111 1 2346778888888888888888888887642     21 222 34678


Q ss_pred             HHHHHHHhcCcHHHHHHHHHHHHH-----cCCCch---hhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          365 VLLDGLFKDGRMEEAVRIFDYMKE-----LKVVSS---SSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       365 ~l~~~~~~~g~~~~a~~~~~~~~~-----~~~~~~---~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      .|...|...|++++|+.+++++.+     .|+..+   .+...+..++...|.+++|..++.++++
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            888888889999999888887653     466533   3455677777788888999988888875

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.99  E-value=1.5e-05  Score=56.04  Aligned_cols=96  Identities=13%  Similarity=0.034  Sum_probs=70.9

Q ss_pred             CChHhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCC-------h
Q 047359           10 SQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPN-------K   82 (440)
Q Consensus        10 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-------~   82 (440)
                      ++...+..+...+.+.|++++|++.|+...+.. +.+...+..+..++.+.|++++|.+.+++..+.  .|+       .
T Consensus         2 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~   78 (111)
T 2l6j_A            2 SQFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY--TSTAEHVAIRS   78 (111)
T ss_dssp             THHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--CSSTTSHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCccHHHHHH
Confidence            456777888888889999999999999988765 446778888888888999999999999988875  344       3


Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHhcc
Q 047359           83 FTWSLVAQILCRSGKFEVVLGLLDSG  108 (440)
Q Consensus        83 ~~~~~l~~~~~~~~~~~~a~~~~~~~  108 (440)
                      ..+..+..++...|+.+.|...++++
T Consensus        79 ~~~~~~~~~~~~~~~~~~a~~~~~~~  104 (111)
T 2l6j_A           79 KLQYRLELAQGAVGSVQIPVVEVDEL  104 (111)
T ss_dssp             HHHHHHHHHHHHHHCCCCCSSSSSSC
T ss_pred             HHHHHHHHHHHHHHhHhhhHhHHHHh
Confidence            44555555566666665555555444

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.98  E-value=4.9e-05  Score=52.20  Aligned_cols=65  Identities=20%  Similarity=0.185  Sum_probs=38.4

Q ss_pred             chhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHc
Q 047359          324 DSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKEL  389 (440)
Q Consensus       324 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  389 (440)
                      +...+..+...|...|++++|+..|++..+..+. +...|..+..+|...|++++|.+.|++..+.
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l   70 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPD-YVGTYYHLGKLYERLDRTDDAIDTYAQGIEV   70 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            3445555666666666666666666666655433 4445666666666666666666666665544

>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=97.93  E-value=0.00041  Score=50.84  Aligned_cols=110  Identities=15%  Similarity=0.103  Sum_probs=56.6

Q ss_pred             ChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHc----CCcHHHHH
Q 047359          270 QPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCS----NRQIDKAI  345 (440)
Q Consensus       270 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~  345 (440)
                      ++++|..+|+...+.+ .|...    +...|...+.+++|.+.|++..+.|   +...+..+...|..    .++.++|.
T Consensus        10 d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~   81 (138)
T 1klx_A           10 DLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   81 (138)
T ss_dssp             HHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHH
Confidence            3444555555554443 11111    3344444445555555555555542   34444445555554    55666666


Q ss_pred             HHHHHHHhccCCcCHHhHHHHHHHHHh----cCcHHHHHHHHHHHHHcC
Q 047359          346 ALHIKIEKLKGSLDVATYDVLLDGLFK----DGRMEEAVRIFDYMKELK  390 (440)
Q Consensus       346 ~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~  390 (440)
                      +.|++..+.|   +...+..|...|..    .++.++|.+.|++..+.|
T Consensus        82 ~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           82 QYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            6666665542   34455555555555    566666666666665554

>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=97.89  E-value=4.5e-05  Score=56.40  Aligned_cols=91  Identities=9%  Similarity=-0.020  Sum_probs=65.8

Q ss_pred             CCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCc----------HHHHHHHHHHHHhccCCcCHHhHHHHHHHHHh
Q 047359          303 KGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQ----------IDKAIALHIKIEKLKGSLDVATYDVLLDGLFK  372 (440)
Q Consensus       303 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  372 (440)
                      .+.+++|.+.++...+..+. +...|..+..++...++          +++|+..|++.++..+. +...|..+..+|..
T Consensus        15 ~~~feeA~~~~~~Ai~l~P~-~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~-~~~A~~~LG~ay~~   92 (158)
T 1zu2_A           15 ILLFEQIRQDAENTYKSNPL-DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNAYTS   92 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHH
Confidence            34566677777777666544 56666666666666554          45888888888886554 66788888888887


Q ss_pred             cC-----------cHHHHHHHHHHHHHcCCCchh
Q 047359          373 DG-----------RMEEAVRIFDYMKELKVVSSS  395 (440)
Q Consensus       373 ~g-----------~~~~a~~~~~~~~~~~~~~~~  395 (440)
                      .|           ++++|++.|+++.+.+|.+..
T Consensus        93 lg~l~P~~~~a~g~~~eA~~~~~kAl~l~P~~~~  126 (158)
T 1zu2_A           93 FAFLTPDETEAKHNFDLATQFFQQAVDEQPDNTH  126 (158)
T ss_dssp             HHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHH
T ss_pred             hcccCcchhhhhccHHHHHHHHHHHHHhCCCCHH
Confidence            64           899999999999998877543

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.88  E-value=0.00011  Score=66.35  Aligned_cols=126  Identities=12%  Similarity=-0.004  Sum_probs=92.7

Q ss_pred             HHHhcCChHHHHHHHHHHHHcC---CCC----ChhhHHHHHHHHHcCCCHHHHHHHHHHHHhc-----CCC-C-chhhhH
Q 047359          264 VLCKEHQPEEVCGLLRDVVERG---YIP----CAMELSRFVASQCGKGKWKEVEELLSAVLDK-----GLL-L-DSFCCS  329 (440)
Q Consensus       264 ~~~~~~~~~~a~~~~~~~~~~~---~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~-~-~~~~~~  329 (440)
                      .+...|++++|+.++++..+..   +.|    ...+++.|...|...|++++|+.++++..+.     |.. | ...+++
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            3557889999999888876431   112    3457888899999999999999998887642     322 2 234678


Q ss_pred             HHHHHHHcCCcHHHHHHHHHHHHhc-----cCC-cC-HHhHHHHHHHHHhcCcHHHHHHHHHHHHHc
Q 047359          330 SLMEYYCSNRQIDKAIALHIKIEKL-----KGS-LD-VATYDVLLDGLFKDGRMEEAVRIFDYMKEL  389 (440)
Q Consensus       330 ~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~-p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  389 (440)
                      .|...|...|++++|+.++++..+.     |.. |+ ..+...+..++...+.+++|+.+++++++.
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8888999999999999999888742     321 22 234566777888899999999999998764

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.84  E-value=9.9e-05  Score=50.64  Aligned_cols=63  Identities=13%  Similarity=0.095  Sum_probs=33.9

Q ss_pred             HHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          360 VATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       360 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      ...+..+...|...|++++|+..|+++.+.+|.++.+|..+..+|...|++++|.+.+++.++
T Consensus         7 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            7 PFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            344455555555555555555555555555555555555555555555555555555555443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.79  E-value=0.00018  Score=48.08  Aligned_cols=69  Identities=14%  Similarity=0.294  Sum_probs=61.7

Q ss_pred             CHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCH
Q 047359          359 DVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDE  429 (440)
Q Consensus       359 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~  429 (440)
                      +...+..+...+...|++++|...+++..+..+.++..+..+..++.+.|++++|...+++..+.  .|+.
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~p~~   76 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNN   76 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTC
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CCCC
Confidence            45678888899999999999999999999998888899999999999999999999999999883  4543

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.67  E-value=0.00046  Score=50.46  Aligned_cols=85  Identities=13%  Similarity=0.033  Sum_probs=41.1

Q ss_pred             HHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCC---cHHHHHHHHHHHHhccCCc--CHHhHHHHHHHHHhcCcHHHHH
Q 047359          306 WKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNR---QIDKAIALHIKIEKLKGSL--DVATYDVLLDGLFKDGRMEEAV  380 (440)
Q Consensus       306 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~g~~~~a~  380 (440)
                      ...+.+-|.+....+. ++..+.-.+..++++.+   +.++++.+++...+.. .|  +...+..|.-+|.+.|++++|.
T Consensus        14 l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~   91 (152)
T 1pc2_A           14 LLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKAL   91 (152)
T ss_dssp             HHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHH
T ss_pred             HHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHH
Confidence            3344444444444333 34444444444555554   3445555555555542 12  2334444444555555555555


Q ss_pred             HHHHHHHHcCCC
Q 047359          381 RIFDYMKELKVV  392 (440)
Q Consensus       381 ~~~~~~~~~~~~  392 (440)
                      +.++.+.+..|.
T Consensus        92 ~y~~~lL~ieP~  103 (152)
T 1pc2_A           92 KYVRGLLQTEPQ  103 (152)
T ss_dssp             HHHHHHHHHCTT
T ss_pred             HHHHHHHhcCCC
Confidence            555555555544

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.64  E-value=0.00024  Score=48.47  Aligned_cols=82  Identities=12%  Similarity=0.090  Sum_probs=54.5

Q ss_pred             HHHHHHcCCcHHHHHHHHHHHHhccCCcCHH-hHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhccc
Q 047359          331 LMEYYCSNRQIDKAIALHIKIEKLKGSLDVA-TYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKE  409 (440)
Q Consensus       331 l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  409 (440)
                      ....+...|++++|.+.+++..+.... +.. .+..+..+|...|++++|.+.|+++.+.+|.+..++..        +.
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~--------~~   76 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPV-GKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPALQAR--------KM   76 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSS-THHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHH--------HH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHH--------HH
Confidence            344566777888888888877775433 455 77777777888888888888888888777775555422        44


Q ss_pred             HHHHHHHHHHHH
Q 047359          410 LRKAMKNHDEML  421 (440)
Q Consensus       410 ~~~a~~~~~~m~  421 (440)
                      +.++...+++..
T Consensus        77 ~~~a~~~~~~~~   88 (99)
T 2kc7_A           77 VMDILNFYNKDM   88 (99)
T ss_dssp             HHHHHHHHCCTT
T ss_pred             HHHHHHHHHHHh
Confidence            555555554443

>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=97.62  E-value=0.0021  Score=54.83  Aligned_cols=73  Identities=14%  Similarity=0.104  Sum_probs=49.8

Q ss_pred             cCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHHHHH
Q 047359          358 LDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYK  433 (440)
Q Consensus       358 p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~  433 (440)
                      .+..+|..+...+...|++++|...++++...+ ++...|..+...+.-.|++++|.+.+++...  +.|...||.
T Consensus       275 ~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln-~s~~a~~llG~~~~~~G~~~eA~e~~~~Alr--L~P~~~t~~  347 (372)
T 3ly7_A          275 NLSIIYQIKAVSALVKGKTDESYQAINTGIDLE-MSWLNYVLLGKVYEMKGMNREAADAYLTAFN--LRPGANTLY  347 (372)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HSCSHHHHH
T ss_pred             cCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCcChHH
Confidence            355666666666666677777777777777776 3455566666777777777777777777776  456666654

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.60  E-value=0.00055  Score=45.92  Aligned_cols=66  Identities=8%  Similarity=0.117  Sum_probs=50.7

Q ss_pred             cCHHhHHHHHHHHHhcCc---HHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHC
Q 047359          358 LDVATYDVLLDGLFKDGR---MEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKM  423 (440)
Q Consensus       358 p~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  423 (440)
                      .+...+..+..++...++   .++|..++++..+.+|.++.+...+...+.+.|++++|+..|+++++.
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            356666777777654444   688888888888888888888888888888888888888888888873

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.38  E-value=0.00065  Score=46.22  Aligned_cols=62  Identities=18%  Similarity=0.401  Sum_probs=55.4

Q ss_pred             HHHHHHhcCcHHHHHHHHHHHHHcCCCchh-hHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCH
Q 047359          366 LLDGLFKDGRMEEAVRIFDYMKELKVVSSS-SFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDE  429 (440)
Q Consensus       366 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~  429 (440)
                      ....+.+.|++++|.+.|+++.+..+.++. .+..+..++...|++++|.+.|++.++.  .|+.
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~   68 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL--NPDS   68 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTS
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCc
Confidence            456778899999999999999999988888 9999999999999999999999999983  4554

>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=97.28  E-value=0.0015  Score=57.96  Aligned_cols=86  Identities=7%  Similarity=-0.046  Sum_probs=63.8

Q ss_pred             cCCcHHHHHHHHHHHHhcc---CC---cC-HHhHHHHHHHHHhcCcHHHHHHHHHHHHH-----cCCC---chhhHHHHH
Q 047359          337 SNRQIDKAIALHIKIEKLK---GS---LD-VATYDVLLDGLFKDGRMEEAVRIFDYMKE-----LKVV---SSSSFVIVV  401 (440)
Q Consensus       337 ~~~~~~~a~~~~~~~~~~~---~~---p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~~~---~~~~~~~l~  401 (440)
                      ..|++++|+.++++..+..   +.   |+ ..+++.|..+|...|++++|+.+++++.+     .|+.   ...+++.|.
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            3467888888888776531   11   22 35778888888889999999888887753     4555   334688888


Q ss_pred             HHHHhcccHHHHHHHHHHHHH
Q 047359          402 SRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       402 ~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      ..|..+|++++|..++++.++
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            899999999999999888765

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=97.28  E-value=2.1e-05  Score=68.44  Aligned_cols=245  Identities=11%  Similarity=0.035  Sum_probs=156.8

Q ss_pred             ChHhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHH
Q 047359           11 QSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQ   90 (440)
Q Consensus        11 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   90 (440)
                      .+.+|+.|..+....++..+|++.|-+.      .|+..|..++....+.|.+++-.+.+...++..  .++..=+.|+-
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsyIkA------~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~--ke~~IDteLi~  124 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIF  124 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSSCCC------SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC--CSTTTTHHHHH
T ss_pred             CccHHHHHHHHHHccCchHHHHHHHHhC------CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccHHHHHH
Confidence            4567888888888888888887755322      366678899999999999999999888776653  34455568999


Q ss_pred             HHHhcCChHHHHHHHhcccCCchhHHHHHHHHHhcCChhHHHHHHHHHhcC-------------------CCCCCchhhH
Q 047359           91 ILCRSGKFEVVLGLLDSGIYSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNG-------------------RNLTPGFSTY  151 (440)
Q Consensus        91 ~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-------------------~~~~p~~~~~  151 (440)
                      +|++.++..+-.+++..  |+..-...+.+-|...|.++.|.-+|..+..-                   ..-.-++.||
T Consensus       125 ayAk~~rL~elEefl~~--~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktW  202 (624)
T 3lvg_A          125 ALAKTNRLAELEEFING--PNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTW  202 (624)
T ss_dssp             HHHTSCSSSTTTSTTSC--CSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSH
T ss_pred             HHHhhCcHHHHHHHHcC--CCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHH
Confidence            99999987654443322  66666677777777778877777666655320                   1112366789


Q ss_pred             HHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHh
Q 047359          152 SSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALS  231 (440)
Q Consensus       152 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  231 (440)
                      ..+-.+|...+.+..|.-.--.++-.   |+    -...++..|-..|.+++.+.+++..... -+....+|+-|.-.|+
T Consensus       203 KeV~~ACvd~~EfrLAqicGLniIvh---ad----eL~elv~~YE~~G~f~ELIsLlEaglgl-ErAHmGmFTELaILYs  274 (624)
T 3lvg_A          203 KEVCFACVDGKEFRLAQMCGLHIVVH---AD----ELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYS  274 (624)
T ss_dssp             HHHTHHHHHSCTTTTTTHHHHHHHCC---SS----CCSGGGSSSSTTCCCTTSTTTHHHHTTS-TTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHhCchHHHHHHHhcchhccc---HH----HHHHHHHHHHhCCCHHHHHHHHHHHhCC-CchhHHHHHHHHHHHH
Confidence            99999999998888776554444322   11    2233666778888888888888776632 2345667777777776


Q ss_pred             hhccHHHHHHHHHHHHHc-CCCC------ChhhHHHHHHHHHhcCChHHH
Q 047359          232 KEGRVKEAIQIYHLISER-GITV------RDSDYYAFVNVLCKEHQPEEV  274 (440)
Q Consensus       232 ~~~~~~~a~~~~~~~~~~-~~~~------~~~~~~~l~~~~~~~~~~~~a  274 (440)
                      +- ++++..+.++....+ +++-      ....|.-++-.|..-.++|.|
T Consensus       275 KY-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA  323 (624)
T 3lvg_A          275 KF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNA  323 (624)
T ss_dssp             SS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHH
T ss_pred             hc-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHH
Confidence            54 333333333221111 1110      223455555555555555544

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.26  E-value=0.015  Score=56.89  Aligned_cols=102  Identities=11%  Similarity=0.069  Sum_probs=54.1

Q ss_pred             HHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHhcccCCchhHHHHHHHHHhcCChhH
Q 047359           51 NALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGIYSSVMYNLVIDFYSKKGDFGA  130 (440)
Q Consensus        51 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~~~~~~  130 (440)
                      ..++..+.+.|..+.|.++.+.         .   ..-.......|++++|.++.+.+ .+...|..+...+.+.|+++.
T Consensus       633 ~~~~~~l~~~~~~~~a~~~~~~---------~---~~~f~~~l~~~~~~~A~~~~~~~-~~~~~W~~la~~al~~~~~~~  699 (814)
T 3mkq_A          633 TKIARFLEGQEYYEEALNISPD---------Q---DQKFELALKVGQLTLARDLLTDE-SAEMKWRALGDASLQRFNFKL  699 (814)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCCC---------H---HHHHHHHHHHTCHHHHHHHHTTC-CCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHhCCChHHheecCCC---------c---chheehhhhcCCHHHHHHHHHhh-CcHhHHHHHHHHHHHcCCHHH
Confidence            5555556666666666654421         1   01123344566666666665544 344566666666666666666


Q ss_pred             HHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHH
Q 047359          131 AFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMV  175 (440)
Q Consensus       131 a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  175 (440)
                      |.+.|..+..          |..+...+...|+.+...++.+...
T Consensus       700 A~~~y~~~~d----------~~~l~~l~~~~~~~~~~~~~~~~a~  734 (814)
T 3mkq_A          700 AIEAFTNAHD----------LESLFLLHSSFNNKEGLVTLAKDAE  734 (814)
T ss_dssp             HHHHHHHHTC----------HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHccC----------hhhhHHHHHHcCCHHHHHHHHHHHH
Confidence            6666666643          3334444444555554444433333

>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=97.22  E-value=0.0033  Score=53.61  Aligned_cols=137  Identities=12%  Similarity=0.064  Sum_probs=91.0

Q ss_pred             ccChHhHHHHHHHHHh--c---cchhHHHHHHHHHHHcCCCCC-hhhHHHHHHHHHh---cC--C------hHHHHHHHh
Q 047359           44 VPAVSACNALLDALYR--Q---NEIRLASCLYGAMVRDGVSPN-KFTWSLVAQILCR---SG--K------FEVVLGLLD  106 (440)
Q Consensus        44 ~~~~~~~~~ll~~~~~--~---~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~---~~--~------~~~a~~~~~  106 (440)
                      +.+..+|...+++...  .   .+..+|..+|++.++.  .|+ ...|..+.-++..   .+  .      ...+.+...
T Consensus       191 p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l--DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~  268 (372)
T 3ly7_A          191 PHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS--SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIV  268 (372)
T ss_dssp             CSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHH
Confidence            5677788877766543  2   3357889999998876  454 3444433333321   11  0      112222222


Q ss_pred             ccc---CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcc
Q 047359          107 SGI---YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKH  183 (440)
Q Consensus       107 ~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  183 (440)
                      .+.   .+..+|..+...+...|++++|...+++...   +.|+...|..+...+.-.|++++|.+.+++....+  |. 
T Consensus       269 a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~---Ln~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~--P~-  342 (372)
T 3ly7_A          269 TLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGID---LEMSWLNYVLLGKVYEMKGMNREAADAYLTAFNLR--PG-  342 (372)
T ss_dssp             TCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH---HCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CS-
T ss_pred             hcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHh---cCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CC-
Confidence            222   5666777777777778999999999999988   45888788788888889999999999999988865  55 


Q ss_pred             cccchH
Q 047359          184 FLSGND  189 (440)
Q Consensus       184 ~~~~~~  189 (440)
                       ..+|.
T Consensus       343 -~~t~~  347 (372)
T 3ly7_A          343 -ANTLY  347 (372)
T ss_dssp             -HHHHH
T ss_pred             -cChHH
Confidence             44443

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.18  E-value=0.0028  Score=43.58  Aligned_cols=77  Identities=12%  Similarity=0.057  Sum_probs=56.7

Q ss_pred             chhhhHHHHHHHHcCCcHHHHHHHHHHHHhcc------CCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhH
Q 047359          324 DSFCCSSLMEYYCSNRQIDKAIALHIKIEKLK------GSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSF  397 (440)
Q Consensus       324 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  397 (440)
                      +..-+..+...+...|+++.|...++...+..      ..+....+..|..++.+.|+++.|...++++.+..|.++.+.
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            44455677778888888888888888877642      123456778888888888888888888888888877766554


Q ss_pred             HHH
Q 047359          398 VIV  400 (440)
Q Consensus       398 ~~l  400 (440)
                      ..+
T Consensus        84 ~n~   86 (104)
T 2v5f_A           84 GNL   86 (104)
T ss_dssp             HHH
T ss_pred             hhH
Confidence            433

>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=0.0033  Score=55.85  Aligned_cols=90  Identities=18%  Similarity=0.074  Sum_probs=61.0

Q ss_pred             HHHHcCCcHHHHHHHHHHHHhcc---CCcC----HHhHHHHHHHHHhcCcHHHHHHHHHHHHH-----cCCCc---hhhH
Q 047359          333 EYYCSNRQIDKAIALHIKIEKLK---GSLD----VATYDVLLDGLFKDGRMEEAVRIFDYMKE-----LKVVS---SSSF  397 (440)
Q Consensus       333 ~~~~~~~~~~~a~~~~~~~~~~~---~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~~~~---~~~~  397 (440)
                      ..+.+.|++++|+.++++..+..   +.|+    ..+++.|..+|...|++++|+.+++++.+     .|+..   ..++
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            34456677777777777776431   1121    34677777788888888888888776652     34442   3467


Q ss_pred             HHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          398 VIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       398 ~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      +.|...|...|++++|..++++.++
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            7788888888888888888887764

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.08  E-value=0.008  Score=43.92  Aligned_cols=87  Identities=13%  Similarity=0.071  Sum_probs=54.3

Q ss_pred             HHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcC---cHHHHHHHHHHHHHcC-CC-chhhHHHHHHHHHhcccHHHHHH
Q 047359          341 IDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDG---RMEEAVRIFDYMKELK-VV-SSSSFVIVVSRLCHLKELRKAMK  415 (440)
Q Consensus       341 ~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~-~~-~~~~~~~l~~~~~~~g~~~~a~~  415 (440)
                      ...+.+-|.+..+.+. ++..+...+..++++.+   +.++++.+|++..+.+ |. +...+..+..++.+.|++++|.+
T Consensus        14 l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~~   92 (152)
T 1pc2_A           14 LLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALK   92 (152)
T ss_dssp             HHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHH
T ss_pred             HHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHH
Confidence            4445555555555444 46666666666676666   5557777777766665 42 45566666666777777777777


Q ss_pred             HHHHHHHCCCCCCHH
Q 047359          416 NHDEMLKMGHKPDEA  430 (440)
Q Consensus       416 ~~~~m~~~~~~p~~~  430 (440)
                      .++.+++  ++|+..
T Consensus        93 y~~~lL~--ieP~n~  105 (152)
T 1pc2_A           93 YVRGLLQ--TEPQNN  105 (152)
T ss_dssp             HHHHHHH--HCTTCH
T ss_pred             HHHHHHh--cCCCCH
Confidence            7777766  456543

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=97.08  E-value=0.00044  Score=60.38  Aligned_cols=212  Identities=12%  Similarity=0.027  Sum_probs=140.5

Q ss_pred             CChHhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHH
Q 047359           10 SQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVA   89 (440)
Q Consensus        10 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   89 (440)
                      -|+..|..+|....+.|.+++-++.+...++..  .++..=+.|+-+|++.++..+..+++.       .||..-...+.
T Consensus        81 ~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~--ke~~IDteLi~ayAk~~rL~elEefl~-------~~N~A~iq~VG  151 (624)
T 3lvg_A           81 DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVG  151 (624)
T ss_dssp             SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC--CSTTTTHHHHHHHHTSCSSSTTTSTTS-------CCSSSCTHHHH
T ss_pred             CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccHHHHHHHHHhhCcHHHHHHHHc-------CCCcccHHHHH
Confidence            466778889999999999999999998887653  344555689999999998766554432       36666667788


Q ss_pred             HHHHhcCChHHHHHHHhccc-------------------------CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCC
Q 047359           90 QILCRSGKFEVVLGLLDSGI-------------------------YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNL  144 (440)
Q Consensus        90 ~~~~~~~~~~~a~~~~~~~~-------------------------~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~  144 (440)
                      +-|...|.++.|.-+|..+.                         .++.+|-.+-.+|...+.+.-|.-.--.+.-    
T Consensus       152 Drcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWKeV~~ACvd~~EfrLAqicGLniIv----  227 (624)
T 3lvg_A          152 DRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVV----  227 (624)
T ss_dssp             HHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHC----
T ss_pred             HHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHHHHHHHhCchHHHHHHHhcchhcc----
Confidence            88888888888888877654                         5667899999999999998887655444432    


Q ss_pred             CCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhc-CCC------
Q 047359          145 TPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDE-KIE------  217 (440)
Q Consensus       145 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~------  217 (440)
                      .||  -...++..|-..|.+++.+.+++.-..  +.--+ ...|+-|.-.|++- ++++..+.++....+ +++      
T Consensus       228 had--eL~elv~~YE~~G~f~ELIsLlEaglg--lErAH-mGmFTELaILYsKY-~PeKlmEHlklf~sriNipKvirac  301 (624)
T 3lvg_A          228 HAD--ELEELINYYQDRGYFEELITMLEAALG--LERAH-MGMFTELAILYSKF-KPQKMREHLELFWSRVNIPKVLRAA  301 (624)
T ss_dssp             CSS--CCSGGGSSSSTTCCCTTSTTTHHHHTT--STTCC-HHHHHHHHHHHHSS-CTTHHHHHHTTSSSSSCCTTTHHHH
T ss_pred             cHH--HHHHHHHHHHhCCCHHHHHHHHHHHhC--CCchh-HHHHHHHHHHHHhc-CHHHHHHHHHHHHHhccHHHHHHHH
Confidence            122  122345557778888888888777653  22221 56677777777665 344444444332221 111      


Q ss_pred             CCHHhHHHHHHHHhhhccHHHHH
Q 047359          218 LQDDTCGCMLKALSKEGRVKEAI  240 (440)
Q Consensus       218 ~~~~~~~~l~~~~~~~~~~~~a~  240 (440)
                      -....|..++-.|.+-.+++.|.
T Consensus       302 E~ahLW~ElvfLY~~ydE~DnA~  324 (624)
T 3lvg_A          302 EQAHLWAELVFLYDKYEEYDNAI  324 (624)
T ss_dssp             TTTTCHHHHHHHHHHHTCHHHHH
T ss_pred             HHHhhHHHHHHHHhcchhHHHHH
Confidence            12335666666676666666554

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=97.01  E-value=0.046  Score=38.53  Aligned_cols=138  Identities=14%  Similarity=0.107  Sum_probs=72.9

Q ss_pred             hcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHH
Q 047359          267 KEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIA  346 (440)
Q Consensus       267 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  346 (440)
                      -.|..++..++..+....   .+..-+|.++--....-+-+-..++++.+-+.   .|.          ...|++.....
T Consensus        19 ldG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGki---FDi----------s~C~NlKrVi~   82 (172)
T 1wy6_A           19 LDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDL----------DKCQNLKSVVE   82 (172)
T ss_dssp             HTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCG----------GGCSCTHHHHH
T ss_pred             HhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhh---cCc----------HhhhcHHHHHH
Confidence            356666666666666553   23334444444433334444444444433221   121          12333333333


Q ss_pred             HHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCC
Q 047359          347 LHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGH  425 (440)
Q Consensus       347 ~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  425 (440)
                      .+-.+-     .+...+..-+..+...|+-+.-.+++..+....++++.....+..+|.+.|+..+|.+++.++.+.|+
T Consensus        83 C~~~~n-----~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A           83 CGVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             HHHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHhc-----chHHHHHHHHHHHHHhccHhHHHHHHHHHhccCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhh
Confidence            332221     13444555566666677777777777665444444666677777777777777777777777776664

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.01  E-value=0.013  Score=57.27  Aligned_cols=151  Identities=10%  Similarity=-0.007  Sum_probs=70.2

Q ss_pred             HhcCChHHHHH-HHhcccCCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHHHH
Q 047359           93 CRSGKFEVVLG-LLDSGIYSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIV  171 (440)
Q Consensus        93 ~~~~~~~~a~~-~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  171 (440)
                      ...+++++|.+ ++..+. +......++..+.+.|..+.|+++.+.-.             .-.......|+++.|.++.
T Consensus       610 ~~~~~~~~a~~~~l~~i~-~~~~~~~~~~~l~~~~~~~~a~~~~~~~~-------------~~f~~~l~~~~~~~A~~~~  675 (814)
T 3mkq_A          610 TLRGEIEEAIENVLPNVE-GKDSLTKIARFLEGQEYYEEALNISPDQD-------------QKFELALKVGQLTLARDLL  675 (814)
T ss_dssp             HHTTCHHHHHHHTGGGCC-CHHHHHHHHHHHHHTTCHHHHHHHCCCHH-------------HHHHHHHHHTCHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHhcCC-chHHHHHHHHHHHhCCChHHheecCCCcc-------------hheehhhhcCCHHHHHHHH
Confidence            34556666655 443322 01122555555556666666554432110             0122334556666666554


Q ss_pred             HHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCC
Q 047359          172 GLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGI  251 (440)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  251 (440)
                      +.+      .+  ...|..+...+.+.++++.|++.|.++.+         |..+...+...|+.+...++-+.....|.
T Consensus       676 ~~~------~~--~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~~~  738 (814)
T 3mkq_A          676 TDE------SA--EMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETTGK  738 (814)
T ss_dssp             TTC------CC--HHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             Hhh------Cc--HhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHcCc
Confidence            322      12  45566666666666666666666665542         22333334444555444444433333321


Q ss_pred             CCChhhHHHHHHHHHhcCChHHHHHHHHH
Q 047359          252 TVRDSDYYAFVNVLCKEHQPEEVCGLLRD  280 (440)
Q Consensus       252 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  280 (440)
                            ++....++.+.|++++|.+++.+
T Consensus       739 ------~~~A~~~~~~~g~~~~a~~~~~~  761 (814)
T 3mkq_A          739 ------FNLAFNAYWIAGDIQGAKDLLIK  761 (814)
T ss_dssp             ------HHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             ------hHHHHHHHHHcCCHHHHHHHHHH
Confidence                  22333334444555555544443

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.93  E-value=0.0091  Score=41.91  Aligned_cols=79  Identities=13%  Similarity=0.029  Sum_probs=38.2

Q ss_pred             HHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHH---HHHHHHHHHHcC-CC-chhhHHHHHHHHHhcccHHHHHHHH
Q 047359          343 KAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEE---AVRIFDYMKELK-VV-SSSSFVIVVSRLCHLKELRKAMKNH  417 (440)
Q Consensus       343 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~---a~~~~~~~~~~~-~~-~~~~~~~l~~~~~~~g~~~~a~~~~  417 (440)
                      .+.+-|.+....|. |+..+-..+.+++.+..+...   ++.+++.+...+ |. .......+.-++.+.|++++|.+.+
T Consensus        19 ~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~   97 (126)
T 1nzn_A           19 KFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYV   97 (126)
T ss_dssp             HHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            33334443333322 344444455555555444333   555555555444 22 3344455555555555555555555


Q ss_pred             HHHHH
Q 047359          418 DEMLK  422 (440)
Q Consensus       418 ~~m~~  422 (440)
                      +.+++
T Consensus        98 ~~lL~  102 (126)
T 1nzn_A           98 RGLLQ  102 (126)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            55555

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.91  E-value=0.012  Score=40.37  Aligned_cols=64  Identities=14%  Similarity=0.073  Sum_probs=36.9

Q ss_pred             hhHHHHHHHHHcCCCHHHHHHHHHHHHhcC------CCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhc
Q 047359          291 MELSRFVASQCGKGKWKEVEELLSAVLDKG------LLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKL  354 (440)
Q Consensus       291 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  354 (440)
                      ..+..+...+...++++.|...++...+..      -.+....+..+..+|.+.|+++.|...++++.+.
T Consensus         6 ~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            6 EDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            344455666666666666666666655421      1123445566666666666666666666666653

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=96.90  E-value=0.0082  Score=49.07  Aligned_cols=86  Identities=12%  Similarity=0.062  Sum_probs=45.1

Q ss_pred             HHHHHHHHHHHhcCCCC-chhhhHHHHHHHHcC-----CcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhc-CcHHHH
Q 047359          307 KEVEELLSAVLDKGLLL-DSFCCSSLMEYYCSN-----RQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKD-GRMEEA  379 (440)
Q Consensus       307 ~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~-g~~~~a  379 (440)
                      ..|...+++..+..+.- +...|..+...|...     |+.++|.+.|++.++.+..-+..++......++.. |+.+++
T Consensus       180 ~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~a  259 (301)
T 3u64_A          180 HAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAGF  259 (301)
T ss_dssp             HHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHHH
T ss_pred             HHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHHH
Confidence            44555555555542210 133555555555552     66666666666666543322344555555555553 666666


Q ss_pred             HHHHHHHHHcCCC
Q 047359          380 VRIFDYMKELKVV  392 (440)
Q Consensus       380 ~~~~~~~~~~~~~  392 (440)
                      .+.+++.....+.
T Consensus       260 ~~~L~kAL~a~p~  272 (301)
T 3u64_A          260 DEALDRALAIDPE  272 (301)
T ss_dssp             HHHHHHHHHCCGG
T ss_pred             HHHHHHHHcCCCC
Confidence            6666666655444

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.90  E-value=0.015  Score=38.84  Aligned_cols=68  Identities=12%  Similarity=0.071  Sum_probs=36.5

Q ss_pred             chhhhHHHHHHHHcCCc---HHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC
Q 047359          324 DSFCCSSLMEYYCSNRQ---IDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV  392 (440)
Q Consensus       324 ~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  392 (440)
                      +...+..+..++...++   .++|..++++..+..+. +......+...+.+.|++++|+..|+++.+..+.
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~-~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~   75 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPY-NEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP   75 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            34444444444433332   45666666666654333 4445555555566666666666666666655544

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=96.90  E-value=0.027  Score=40.57  Aligned_cols=66  Identities=11%  Similarity=0.029  Sum_probs=47.1

Q ss_pred             CCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHH
Q 047359          338 NRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRL  404 (440)
Q Consensus       338 ~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  404 (440)
                      .++.++|.++|+.+++..-+- ...|-.....-.++|+.+.|.+++.+....++.+...+...+.-+
T Consensus        73 i~D~d~aR~vy~~a~~~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~~le~a~~nl  138 (161)
T 4h7y_A           73 IQEPDDARDYFQMARANCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPLEMLEIALRNL  138 (161)
T ss_dssp             HHCGGGCHHHHHHHHHHCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcHHHHHHHHHhh
Confidence            367788888888887653332 666766677777888888888888888887777766666655543

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=96.82  E-value=0.0041  Score=55.17  Aligned_cols=63  Identities=8%  Similarity=-0.007  Sum_probs=31.8

Q ss_pred             hhHHHHHHHHHcCCCHHHHHHHHHHHHhc-----CCC-Cc-hhhhHHHHHHHHcCCcHHHHHHHHHHHHh
Q 047359          291 MELSRFVASQCGKGKWKEVEELLSAVLDK-----GLL-LD-SFCCSSLMEYYCSNRQIDKAIALHIKIEK  353 (440)
Q Consensus       291 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~-~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  353 (440)
                      .+++.+..+|...|++++|+.++++..+.     |.. |+ ..+++.|...|...|++++|+.++++..+
T Consensus       341 ~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          341 HMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHhccCHHHHHHHHHHHHH
Confidence            34555555555555555555555554321     111 11 22455555566666666666666655543

>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=96.72  E-value=0.0065  Score=53.98  Aligned_cols=61  Identities=7%  Similarity=-0.151  Sum_probs=28.5

Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHHHhc-----CCC-C-chhhhHHHHHHHHcCCcHHHHHHHHHHHH
Q 047359          292 ELSRFVASQCGKGKWKEVEELLSAVLDK-----GLL-L-DSFCCSSLMEYYCSNRQIDKAIALHIKIE  352 (440)
Q Consensus       292 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  352 (440)
                      +++.+...|...|++++|+.++++....     |.. | ...+++.|...|...|++++|+.++++..
T Consensus       331 ~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          331 VLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMKVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            3444444454455555555554444321     111 1 12234455555555555555555555554

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.60  E-value=0.11  Score=36.75  Aligned_cols=138  Identities=14%  Similarity=0.064  Sum_probs=72.6

Q ss_pred             hccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHH
Q 047359          233 EGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEEL  312 (440)
Q Consensus       233 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  312 (440)
                      .|..++..++..+.....   +..-||-++.-....-+-+-..++++.+-+.   -|.          ..+|++.....-
T Consensus        20 dG~v~qGveii~k~~~ss---ni~E~NW~ICNiiD~a~C~y~v~vLd~IGki---FDi----------s~C~NlKrVi~C   83 (172)
T 1wy6_A           20 DGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDL----------DKCQNLKSVVEC   83 (172)
T ss_dssp             TTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCG----------GGCSCTHHHHHH
T ss_pred             hhhHHHHHHHHHHHcCCC---CccccceeeeecchhhchhHHHHHHHHHhhh---cCc----------HhhhcHHHHHHH
Confidence            466666666666665542   3344555555444444545555555544332   111          112333333222


Q ss_pred             HHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC
Q 047359          313 LSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV  392 (440)
Q Consensus       313 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  392 (440)
                      +-.+-     .+.......+......|+-++-.+++..+.. +.+|++...-.+..+|.+.|+..+|.+++.++-+.|.+
T Consensus        84 ~~~~n-----~~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           84 GVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             HHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHhc-----chHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            22211     1344455556666666776666666666543 23456666666677777777777777777776666654

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=96.32  E-value=0.061  Score=38.83  Aligned_cols=54  Identities=11%  Similarity=0.079  Sum_probs=37.1

Q ss_pred             CCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCc
Q 047359          304 GKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSL  358 (440)
Q Consensus       304 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p  358 (440)
                      +++++|.++|+.+.+.+-+. ...|....+.-.+.|++..|.+++.+.+..+.+|
T Consensus        74 ~D~d~aR~vy~~a~~~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~  127 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVP  127 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBC
T ss_pred             cCHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCc
Confidence            67777777777776543332 5556566666667888888888888887776664

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.25  E-value=0.24  Score=37.19  Aligned_cols=44  Identities=14%  Similarity=0.091  Sum_probs=19.4

Q ss_pred             hcCChHHHHHHHhcccCCchhHHHHHHHHHhcCChhHHHHHHHHH
Q 047359           94 RSGKFEVVLGLLDSGIYSSVMYNLVIDFYSKKGDFGAAFDRLNEM  138 (440)
Q Consensus        94 ~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  138 (440)
                      ..|+++.|.++.+.+ .+...|..|.......|+++-|.+.|...
T Consensus        17 ~lg~l~~A~e~a~~l-~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~   60 (177)
T 3mkq_B           17 EYGNLDAALDEAKKL-NDSITWERLIQEALAQGNASLAEMIYQTQ   60 (177)
T ss_dssp             HTTCHHHHHHHHHHH-CCHHHHHHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             hcCCHHHHHHHHHHh-CCHHHHHHHHHHHHHcCChHHHHHHHHHh
Confidence            344444444443332 23334444444444444444444444444

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.20  E-value=0.062  Score=37.73  Aligned_cols=91  Identities=11%  Similarity=0.010  Sum_probs=57.9

Q ss_pred             CHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHH---HHHHHHHHHhcc-CCcCHHhHHHHHHHHHhcCcHHHHH
Q 047359          305 KWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDK---AIALHIKIEKLK-GSLDVATYDVLLDGLFKDGRMEEAV  380 (440)
Q Consensus       305 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~-~~p~~~~~~~l~~~~~~~g~~~~a~  380 (440)
                      .+..+.+-+......|. |+..+--.+..++.+..+...   ++.+++.+.+.+ +.-.....-.|.-++.+.|+++.|.
T Consensus        16 ~l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~   94 (126)
T 1nzn_A           16 DLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKAL   94 (126)
T ss_dssp             HHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHH
Confidence            34455555555554443 455555566667777665554   777777777653 1113445556677788888888888


Q ss_pred             HHHHHHHHcCCCchhh
Q 047359          381 RIFDYMKELKVVSSSS  396 (440)
Q Consensus       381 ~~~~~~~~~~~~~~~~  396 (440)
                      +.++.+.+..|.+..+
T Consensus        95 ~~~~~lL~~eP~n~QA  110 (126)
T 1nzn_A           95 KYVRGLLQTEPQNNQA  110 (126)
T ss_dssp             HHHHHHHHHCTTCHHH
T ss_pred             HHHHHHHHhCCCCHHH
Confidence            8888888887765443

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.16  E-value=0.27  Score=36.90  Aligned_cols=46  Identities=20%  Similarity=0.091  Sum_probs=23.7

Q ss_pred             HhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHH
Q 047359          195 LSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLI  246 (440)
Q Consensus       195 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  246 (440)
                      ..+.|+++.|.++.+.+      .+...|..+.......|+++-|.+.|...
T Consensus        15 AL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~   60 (177)
T 3mkq_B           15 ALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQ   60 (177)
T ss_dssp             HHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             HHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHh
Confidence            34445555555554443      13445555555555555555555555543

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=96.10  E-value=0.46  Score=38.98  Aligned_cols=84  Identities=14%  Similarity=0.027  Sum_probs=50.6

Q ss_pred             hHHHHHHHHHhcCCCCCCc---hhhHHHHHHHHHhc-----CChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhc-C
Q 047359          129 GAAFDRLNEMCNGRNLTPG---FSTYSSILDGARRY-----EKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDM-G  199 (440)
Q Consensus       129 ~~a~~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~  199 (440)
                      ..|...+++..+   +.|+   ...|..+...|.+.     |+.++|.+.|++.++.+  |+....++......++.. |
T Consensus       180 ~~A~a~lerAle---LDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~Ln--P~~~id~~v~YA~~l~~~~g  254 (301)
T 3u64_A          180 HAAVMMLERACD---LWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYC--SAHDPDHHITYADALCIPLN  254 (301)
T ss_dssp             HHHHHHHHHHHH---HCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHC--CTTCSHHHHHHHHHTTTTTT
T ss_pred             HHHHHHHHHHHH---hCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhC--CCCCchHHHHHHHHHHHhcC
Confidence            455566666655   5555   33566666666663     67777777777776654  322245555566666663 6


Q ss_pred             cHHHHHHHHHHHHhcCCC
Q 047359          200 KTYAAEMIFKRACDEKIE  217 (440)
Q Consensus       200 ~~~~a~~~~~~~~~~~~~  217 (440)
                      +.+.+.+.+++.....+.
T Consensus       255 d~~~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          255 NRAGFDEALDRALAIDPE  272 (301)
T ss_dssp             CHHHHHHHHHHHHHCCGG
T ss_pred             CHHHHHHHHHHHHcCCCC
Confidence            667777777766665555

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.87  E-value=0.91  Score=40.47  Aligned_cols=187  Identities=12%  Similarity=0.051  Sum_probs=95.6

Q ss_pred             CChhhHHHHHHHHHhcC-----CCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHh----h
Q 047359          162 EKTEVSDRIVGLMVEKK-----LLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALS----K  232 (440)
Q Consensus       162 ~~~~~a~~~~~~~~~~~-----~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~  232 (440)
                      |+++.|.+.+-.+.+..     ....  ......++..|...|+++...+.+..+.+..-.. ......++..+.    .
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~--~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~ql-k~ai~~~V~~~~~~l~~  106 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASS--KEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQL-KLSIQYMIQKVMEYLKS  106 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTC--HHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTS-HHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhH--HHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhh-HHHHHHHHHHHHHHHhc
Confidence            67777777776665431     1122  4445667778888888888777776655432221 112223332221    2


Q ss_pred             hccHHHHHHHHHHHHHc--CCC-----C---ChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-----hhhHHHHH
Q 047359          233 EGRVKEAIQIYHLISER--GIT-----V---RDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPC-----AMELSRFV  297 (440)
Q Consensus       233 ~~~~~~a~~~~~~~~~~--~~~-----~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~  297 (440)
                      ....+....  ....+.  .+.     .   .......+...+...|++.+|.+++..+...-...+     ...+...+
T Consensus       107 ~~~~d~~~~--~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~  184 (445)
T 4b4t_P          107 SKSLDLNTR--ISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQM  184 (445)
T ss_dssp             HCTTHHHHH--HHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHH
T ss_pred             CCchhHHHH--HHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            222221111  111111  111     1   011224556667777777777777777653211111     12445556


Q ss_pred             HHHHcCCCHHHHHHHHHHHHh----cCCCCc--hhhhHHHHHHHHcCCcHHHHHHHHHHHHh
Q 047359          298 ASQCGKGKWKEVEELLSAVLD----KGLLLD--SFCCSSLMEYYCSNRQIDKAIALHIKIEK  353 (440)
Q Consensus       298 ~~~~~~~~~~~a~~~~~~~~~----~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  353 (440)
                      +.|...+++.+|..+++++..    ....|+  ...+...+..+...+++.+|-+.|.++.+
T Consensus       185 rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~  246 (445)
T 4b4t_P          185 ELSILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQ  246 (445)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            666677777777777776532    111121  12345555666667777777766666654

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=95.83  E-value=0.2  Score=35.29  Aligned_cols=72  Identities=14%  Similarity=0.122  Sum_probs=41.1

Q ss_pred             CCcCHHhHHHHHHHHHhcCc---HHHHHHHHHHHHHcCCC-chhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCH
Q 047359          356 GSLDVATYDVLLDGLFKDGR---MEEAVRIFDYMKELKVV-SSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDE  429 (440)
Q Consensus       356 ~~p~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~  429 (440)
                      ..|+..+--.+.+++.+..+   ..+++.+++.+.+.++. ....+..+.-++.+.|++++|.+..+.+++  +.|+.
T Consensus        36 ~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~--~eP~N  111 (134)
T 3o48_A           36 PTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERNN  111 (134)
T ss_dssp             GGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT--TCTTC
T ss_pred             CCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh--hCCCC
Confidence            34455555555555555443   33456666666655554 445556666666666666666666666666  45554

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=95.31  E-value=0.25  Score=46.83  Aligned_cols=53  Identities=23%  Similarity=0.191  Sum_probs=42.3

Q ss_pred             HHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHH
Q 047359          368 DGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEM  420 (440)
Q Consensus       368 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  420 (440)
                      +.|...|+++.|+++-++....-|.+-.+|..|..+|...|+++.|+-.+..+
T Consensus       345 ~FLl~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          345 NFLLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHHhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            34556788888888888888877778888888888888888888888877776

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=95.19  E-value=0.56  Score=33.57  Aligned_cols=70  Identities=14%  Similarity=0.126  Sum_probs=34.1

Q ss_pred             cCHHhHHHHHHHHHhcCc---HHHHHHHHHHHHHcCCC-chhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCH
Q 047359          358 LDVATYDVLLDGLFKDGR---MEEAVRIFDYMKELKVV-SSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDE  429 (440)
Q Consensus       358 p~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~  429 (440)
                      |+..+--.+.+++.+..+   ..+++.+++.+...++. .......+.-++.+.|++++|.+..+.+++  +.|+.
T Consensus        37 vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~--~eP~n  110 (144)
T 1y8m_A           37 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERNN  110 (144)
T ss_dssp             SCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH--TCCCC
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHh--cCCCc
Confidence            444444444444444432   23445555555544443 334444555555555555555555555555  34543

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=95.16  E-value=0.11  Score=45.53  Aligned_cols=69  Identities=7%  Similarity=0.079  Sum_probs=50.0

Q ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHH-----CCCCCCHHH
Q 047359          363 YDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLK-----MGHKPDEAT  431 (440)
Q Consensus       363 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~-----~~~~p~~~t  431 (440)
                      ...++..+...|++++|...++.+....|.+...+..++.++.+.|+..+|++.|+++.+     .|+.|+..+
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l  247 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  247 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            345566667777777777777777777777777777777888888887778777777643     477777654

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=94.91  E-value=3.1  Score=40.61  Aligned_cols=257  Identities=11%  Similarity=-0.010  Sum_probs=127.8

Q ss_pred             HHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCC-------CCCHHhHHHHH--
Q 047359          157 GARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKI-------ELQDDTCGCML--  227 (440)
Q Consensus       157 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-------~~~~~~~~~l~--  227 (440)
                      +....|+.+++..++......+...+.....-..+.-+....|..+++..++.......-       .+....-..+.  
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            345667777777776655442101111122223333445555555567776666554321       01111122222  


Q ss_pred             HHHhhhccHHHHHHHHHHHHHcCCCCChhhHH--HHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHH--HHHHHHHcC
Q 047359          228 KALSKEGRVKEAIQIYHLISERGITVRDSDYY--AFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELS--RFVASQCGK  303 (440)
Q Consensus       228 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~  303 (440)
                      .+|.-.++ +++.+.+..+....-. ......  ++...+.-.|+.+....++..+.+..   +.....  .+.-++...
T Consensus       463 la~~GS~~-eev~e~L~~~L~dd~~-~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~---~e~vrR~aalgLGll~~  537 (963)
T 4ady_A          463 LAAMGSAN-IEVYEALKEVLYNDSA-TSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ---HGNITRGLAVGLALINY  537 (963)
T ss_dssp             HHSTTCCC-HHHHHHHHHHHHTCCH-HHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS---CHHHHHHHHHHHHHHTT
T ss_pred             HHhcCCCC-HHHHHHHHHHHhcCCH-HHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHhhhC
Confidence            22233333 3455555555543211 111122  23333456677777777777766532   222333  333334466


Q ss_pred             CCHHHHHHHHHHHHhcCCCCchhhhH--HHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHH
Q 047359          304 GKWKEVEELLSAVLDKGLLLDSFCCS--SLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVR  381 (440)
Q Consensus       304 ~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~  381 (440)
                      |+.+.+..+++.+... ..|....-.  .+.-+|+..|+.....+++..+.+. ...+......+.-++...|+.+.+.+
T Consensus       538 g~~e~~~~li~~L~~~-~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d-~~d~VRraAViaLGlI~~g~~e~v~r  615 (963)
T 4ady_A          538 GRQELADDLITKMLAS-DESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSD-SNDDVRRAAVIALGFVLLRDYTTVPR  615 (963)
T ss_dssp             TCGGGGHHHHHHHHHC-SCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHC-SCHHHHHHHHHHHHHHTSSSCSSHHH
T ss_pred             CChHHHHHHHHHHHhC-CCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccC-CcHHHHHHHHHHHHhhccCCHHHHHH
Confidence            8888888888877653 122222222  2334567778877777788887764 22233333344445555677666667


Q ss_pred             HHHHHHHcCCCchhhHHHHHHHH--HhcccH-HHHHHHHHHHHH
Q 047359          382 IFDYMKELKVVSSSSFVIVVSRL--CHLKEL-RKAMKNHDEMLK  422 (440)
Q Consensus       382 ~~~~~~~~~~~~~~~~~~l~~~~--~~~g~~-~~a~~~~~~m~~  422 (440)
                      +++.+.+.+  ++.+-.....++  ...|.. .+++.++..+..
T Consensus       616 lv~~L~~~~--d~~VR~gAalALGli~aGn~~~~aid~L~~L~~  657 (963)
T 4ady_A          616 IVQLLSKSH--NAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK  657 (963)
T ss_dssp             HTTTGGGCS--CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT
T ss_pred             HHHHHHhcC--CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc
Confidence            766555433  333333333333  333332 567778887764

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=94.48  E-value=0.75  Score=46.73  Aligned_cols=83  Identities=19%  Similarity=0.061  Sum_probs=50.1

Q ss_pred             chHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCH----HhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHH
Q 047359          187 GNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQD----DTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFV  262 (440)
Q Consensus       187 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  262 (440)
                      -|..++..+.+.+.++.+.++-....+....-+.    ..|..+.+.+...|++++|...+-.+.....+  ......++
T Consensus       901 YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r--~~cLr~LV  978 (1139)
T 4fhn_B          901 YYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLK--KSCLLDFV  978 (1139)
T ss_dssp             HHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSC--HHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHH--HHHHHHHH
Confidence            4556667777777777777666655543221111    24666777777778888777777776654432  34555566


Q ss_pred             HHHHhcCCh
Q 047359          263 NVLCKEHQP  271 (440)
Q Consensus       263 ~~~~~~~~~  271 (440)
                      ..++..|..
T Consensus       979 ~~lce~~~~  987 (1139)
T 4fhn_B          979 NQLTKQGKI  987 (1139)
T ss_dssp             HHHHHHCCH
T ss_pred             HHHHhCCCh
Confidence            666555543

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=94.09  E-value=0.63  Score=44.23  Aligned_cols=52  Identities=13%  Similarity=0.148  Sum_probs=30.1

Q ss_pred             HHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHH
Q 047359          334 YYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYM  386 (440)
Q Consensus       334 ~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  386 (440)
                      .+...|+++.|+++-++....-+. +-.+|..|..+|...|+++.|+-.+..+
T Consensus       346 FLl~K~~~elAL~~Ak~AV~~aPs-eF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          346 FLLNRGDYELALGVSNTSTELALD-SFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHhccCcHHHHHHHHHHHHhcCch-hhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            344556666666666666554222 3456666666666666666666655544

>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=93.68  E-value=4.5  Score=37.68  Aligned_cols=115  Identities=9%  Similarity=-0.029  Sum_probs=59.5

Q ss_pred             ChHHHHHHHHHHHHcCCCCChhh----HHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHH
Q 047359          270 QPEEVCGLLRDVVERGYIPCAME----LSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAI  345 (440)
Q Consensus       270 ~~~~a~~~~~~~~~~~~~~~~~~----~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  345 (440)
                      +++.|...+....+... .+...    ...+.......+...++...+.......  ++.....-.+....+.|+++.|.
T Consensus       229 d~~~A~~~~~~~~~~~~-~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~e~~~r~Alr~~d~~~a~  305 (618)
T 1qsa_A          229 DAENARLMIPSLAQAQQ-LNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGTGDRRGLN  305 (618)
T ss_dssp             CHHHHHHHHHHHHHHTT-CCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CHHHHHHHHHhhhhccC-CCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhccccC--CChHHHHHHHHHHHHCCCHHHHH
Confidence            66777777777654331 12222    1222222333342445555555544332  22222333444445667777777


Q ss_pred             HHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHH
Q 047359          346 ALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKE  388 (440)
Q Consensus       346 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  388 (440)
                      ..|+.|...... .....--+..++...|+.++|..+|+.+..
T Consensus       306 ~~~~~l~~~~~~-~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          306 TWLARLPMEAKE-KDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHSCTTGGG-SHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHccccccc-cHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            777766543211 233334455566677777777777777764

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=93.39  E-value=4.1  Score=36.28  Aligned_cols=189  Identities=11%  Similarity=0.059  Sum_probs=114.7

Q ss_pred             cCcHHHHHHHHHHHHhc-----CCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHH----hc
Q 047359          198 MGKTYAAEMIFKRACDE-----KIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLC----KE  268 (440)
Q Consensus       198 ~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~  268 (440)
                      .|+++.|.+.+..+.+.     +..........++..|...|+++...+.+..+...... .......+++.+.    ..
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~q-lk~ai~~~V~~~~~~l~~~  107 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQ-LKLSIQYMIQKVMEYLKSS  107 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTT-SHHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhh-hHHHHHHHHHHHHHHHhcC
Confidence            37888888887766542     23345667788889999999999888877766554222 1223334443332    23


Q ss_pred             CChHHHHH--HHHHHHHcCCCCC--------hhhHHHHHHHHHcCCCHHHHHHHHHHHHhc--CCCCc---hhhhHHHHH
Q 047359          269 HQPEEVCG--LLRDVVERGYIPC--------AMELSRFVASQCGKGKWKEVEELLSAVLDK--GLLLD---SFCCSSLME  333 (440)
Q Consensus       269 ~~~~~a~~--~~~~~~~~~~~~~--------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~---~~~~~~l~~  333 (440)
                      ...+....  +.+...  .+...        ......|...+...|++.+|..++..+...  +....   ...+...++
T Consensus       108 ~~~d~~~~~~~i~~l~--~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~r  185 (445)
T 4b4t_P          108 KSLDLNTRISVIETIR--VVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQME  185 (445)
T ss_dssp             CTTHHHHHHHHHHCCS--SSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHH
T ss_pred             CchhHHHHHHHHHHHH--HHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            33222111  111111  11111        122345677788889999999999888643  22211   235666677


Q ss_pred             HHHcCCcHHHHHHHHHHHHhc----cCCcC--HHhHHHHHHHHHhcCcHHHHHHHHHHHHHc
Q 047359          334 YYCSNRQIDKAIALHIKIEKL----KGSLD--VATYDVLLDGLFKDGRMEEAVRIFDYMKEL  389 (440)
Q Consensus       334 ~~~~~~~~~~a~~~~~~~~~~----~~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  389 (440)
                      .|...+++.+|..+++++...    ...|+  ...+...+..+...+++.+|.+.|.++.+.
T Consensus       186 l~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~~  247 (445)
T 4b4t_P          186 LSILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQT  247 (445)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            888889999998888887531    12222  234566677777888888888887777653

>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=92.53  E-value=0.51  Score=41.21  Aligned_cols=57  Identities=12%  Similarity=0.038  Sum_probs=28.8

Q ss_pred             HHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHhcc
Q 047359           51 NALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSG  108 (440)
Q Consensus        51 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  108 (440)
                      ..++..+...|+++++...+..+.... +-+...+..+|.++.+.|+..+|++.|+..
T Consensus       175 ~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~  231 (388)
T 2ff4_A          175 TAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRV  231 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            344444555555555555555554432 224445555555555555555555555443

>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=92.39  E-value=2.1  Score=30.27  Aligned_cols=74  Identities=15%  Similarity=-0.026  Sum_probs=47.2

Q ss_pred             CCchhhhHHHHHHHHcCCc---HHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchh
Q 047359          322 LLDSFCCSSLMEYYCSNRQ---IDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSS  395 (440)
Q Consensus       322 ~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  395 (440)
                      .|+..+--.+..++.+..+   ..+++.+++.+.+.+..-....+-.|.-++.+.|++++|.+..+.+.+..|.+..
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~eP~N~Q  113 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQ  113 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCTTCHH
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCCHH
Confidence            3455544445555555543   4467777777776543223455666777788888888888888888877776443

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=92.02  E-value=6.4  Score=40.06  Aligned_cols=21  Identities=14%  Similarity=0.050  Sum_probs=11.7

Q ss_pred             HHHHHHhcCChHHHHHHHhcc
Q 047359           88 VAQILCRSGKFEVVLGLLDSG  108 (440)
Q Consensus        88 l~~~~~~~~~~~~a~~~~~~~  108 (440)
                      +..++...|++++|.+.|.+.
T Consensus       848 ~g~~~L~~ge~~~A~~~F~ka  868 (1139)
T 4fhn_B          848 KALIYLKSKEAVKAVRCFKTT  868 (1139)
T ss_dssp             HHHHHHHTTCHHHHHHHHHTC
T ss_pred             HHHHHHhcCCHHHHHHHHHHH
Confidence            444555556666666666553

>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=91.92  E-value=5.8  Score=34.44  Aligned_cols=95  Identities=7%  Similarity=-0.064  Sum_probs=51.2

Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHhcCCC---CcccccchHHHHHHHhhcCcHHHHHHHHHHHHhc--CCCCCHHhHHHH-
Q 047359          153 SILDGARRYEKTEVSDRIVGLMVEKKLL---PKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDE--KIELQDDTCGCM-  226 (440)
Q Consensus       153 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l-  226 (440)
                      .++..|...|++.+|.+++..+.+.-..   +......+..-++.|...+++.++...+......  .+.+++.+...+ 
T Consensus       104 kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~a~i~  183 (394)
T 3txn_A          104 RLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQGALD  183 (394)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHHHHHH
Confidence            4566666677777776666666553111   1112334555566677777777777777665432  122333322211 


Q ss_pred             ---HHHHh-hhccHHHHHHHHHHHH
Q 047359          227 ---LKALS-KEGRVKEAIQIYHLIS  247 (440)
Q Consensus       227 ---~~~~~-~~~~~~~a~~~~~~~~  247 (440)
                         ...+. ..+++..|...|-+..
T Consensus       184 ~~~Gi~~l~~~rdyk~A~~~F~eaf  208 (394)
T 3txn_A          184 LQSGILHAADERDFKTAFSYFYEAF  208 (394)
T ss_dssp             HHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             HHhhHHHHHhccCHHHHHHHHHHHH
Confidence               22334 5677777777665543

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=90.89  E-value=2.4  Score=31.36  Aligned_cols=70  Identities=14%  Similarity=0.126  Sum_probs=43.2

Q ss_pred             CCCCCChHh--HHHHHHHHHccCCcchHHHHHHHHHhcC-CccCh-------HhHHHHHHHHHhccchhHHHHHHHHHHH
Q 047359            6 EGRDSQSDA--LSLVLDCYSHKGLFMDGLEVYRMMRVYG-FVPAV-------SACNALLDALYRQNEIRLASCLYGAMVR   75 (440)
Q Consensus         6 ~g~~~~~~~--~~~li~~~~~~~~~~~A~~~~~~~~~~~-~~~~~-------~~~~~ll~~~~~~~~~~~a~~~~~~~~~   75 (440)
                      +|.-|.-..  +-.-++.+...|.++.|.-+.+.+.... ..|+.       .++..+.+++...|++..|...|++.++
T Consensus        12 ~~~~~~~~~~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq   91 (167)
T 3ffl_A           12 SGLVPRGSHMNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQ   91 (167)
T ss_dssp             ---------CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCCCCCccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            455454433  3344677888899999988888765421 12331       2566677888899999999999998643

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=89.90  E-value=0.89  Score=36.68  Aligned_cols=59  Identities=22%  Similarity=0.165  Sum_probs=45.6

Q ss_pred             HHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC
Q 047359          333 EYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV  392 (440)
Q Consensus       333 ~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  392 (440)
                      ....+.|++++|++....-++..+. |...-..|+..++-.|+++.|.+-++...+.+|.
T Consensus         5 ~~ll~~g~L~~al~~~~~~VR~~P~-da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l~p~   63 (273)
T 1zbp_A            5 KNALSEGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIKLFPE   63 (273)
T ss_dssp             HHHTTTTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGG
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCch
Confidence            3456778888888888877776554 6677777888888888888888888888887766

>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=89.89  E-value=3.3  Score=31.72  Aligned_cols=56  Identities=9%  Similarity=-0.087  Sum_probs=39.1

Q ss_pred             CCcHHHHHHHHHHHHhccCCc-CHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc
Q 047359          338 NRQIDKAIALHIKIEKLKGSL-DVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVS  393 (440)
Q Consensus       338 ~~~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  393 (440)
                      .+....+.++|..|...|+-- -...|......+...|++++|.++|+.-.+.+..+
T Consensus        92 ~~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A~P  148 (202)
T 3esl_A           92 SNNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENNCRP  148 (202)
T ss_dssp             TTCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBS
T ss_pred             ccccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcc
Confidence            344667778888887776643 34566777777778888888888888777765444

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=89.80  E-value=3.1  Score=27.63  Aligned_cols=63  Identities=21%  Similarity=0.186  Sum_probs=37.7

Q ss_pred             CcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHH
Q 047359           27 LFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQ   90 (440)
Q Consensus        27 ~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   90 (440)
                      +.-+..+-++.+......|++....+.+++|-+.+++..|..+|+-.+.+- .+...+|..+++
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~-~~~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCchhhHHHHHH
Confidence            344555556666666666777777777777777777777777777664432 222344555543

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=89.74  E-value=8  Score=32.28  Aligned_cols=25  Identities=8%  Similarity=0.054  Sum_probs=17.1

Q ss_pred             chhhhHHHHHHHHcCCcHHHHHHHH
Q 047359          324 DSFCCSSLMEYYCSNRQIDKAIALH  348 (440)
Q Consensus       324 ~~~~~~~l~~~~~~~~~~~~a~~~~  348 (440)
                      ++.....+...|.+.|++.+|...|
T Consensus       133 dp~LH~~~a~~~~~e~~~~~A~~H~  157 (312)
T 2wpv_A          133 DPYLHNTIGSKLLEGDFVYEAERYF  157 (312)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CHHHHHHHHHHHhhcCCHHHHHHHH
Confidence            5556666777777777777776655

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=89.68  E-value=4.9  Score=29.71  Aligned_cols=114  Identities=11%  Similarity=-0.031  Sum_probs=56.6

Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHhcC-CCCch-------hhhHHHHHHHHcCCcHHHHHHHHHHHHhcc-CCc-CHHhHH
Q 047359          295 RFVASQCGKGKWKEVEELLSAVLDKG-LLLDS-------FCCSSLMEYYCSNRQIDKAIALHIKIEKLK-GSL-DVATYD  364 (440)
Q Consensus       295 ~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~p-~~~~~~  364 (440)
                      .-++.+...+.++.|+-+.+.+.... ..|+.       .++..+..++...+++.+|...|++.++.. .-+ +..+..
T Consensus        25 dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~~~  104 (167)
T 3ffl_A           25 DHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKVRP  104 (167)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC--------
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCccc
Confidence            33455556677777766666544321 12221       134455566667777777777777654321 101 111110


Q ss_pred             HHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHH
Q 047359          365 VLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEM  420 (440)
Q Consensus       365 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  420 (440)
                      .+.    .......        ...-+.+.+.-..+..+|.+.|++++|+.+++..
T Consensus       105 ~~~----~~ss~p~--------s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~I  148 (167)
T 3ffl_A          105 STG----NSASTPQ--------SQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGI  148 (167)
T ss_dssp             ------------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTS
T ss_pred             ccc----ccCCCcc--------cccccchHHHHHHHHHHHHHHCCHHHHHHHHhcC
Confidence            110    0000000        0000113456667889999999999999998764

>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=89.62  E-value=9.7  Score=33.08  Aligned_cols=241  Identities=9%  Similarity=-0.019  Sum_probs=135.6

Q ss_pred             ccchHHHHHHHhhcCcHHHHHHHHHHHHhcCC-CC---CHHhHHHHHHHHhhh-ccHHHHHHHHHHHHHcCCCCChhhH-
Q 047359          185 LSGNDYVIQKLSDMGKTYAAEMIFKRACDEKI-EL---QDDTCGCMLKALSKE-GRVKEAIQIYHLISERGITVRDSDY-  258 (440)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~---~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~-  258 (440)
                      ......+...|.+.|+.++..+++......-. -|   .......++..+... +..+.-.++..+..+..-. +..+| 
T Consensus        19 e~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~-~~r~fl   97 (394)
T 3txn_A           19 EQGILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAKQ-EKRTFL   97 (394)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHH-TTCHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHH-HHHHHH
Confidence            56677889999999999999999987754311 11   223466777777764 3344444555444432111 22334 


Q ss_pred             -----HHHHHHHHhcCChHHHHHHHHHHHHcCCCCCh-----hhHHHHHHHHHcCCCHHHHHHHHHHHHhc--CCCCchh
Q 047359          259 -----YAFVNVLCKEHQPEEVCGLLRDVVERGYIPCA-----MELSRFVASQCGKGKWKEVEELLSAVLDK--GLLLDSF  326 (440)
Q Consensus       259 -----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~  326 (440)
                           ..++..|...|++.+|.+++..+.+.=-..|.     ..+..-++.|...+++.++...+......  .+.+++.
T Consensus        98 r~~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~  177 (394)
T 3txn_A           98 RQSLEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPK  177 (394)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHH
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHH
Confidence                 25788899999999999999888764112221     23555667788889999999999887542  2223333


Q ss_pred             hhHHH----HHHHH-cCCcHHHHHHHHHHHHhccCC---c---CHHhHHHHHHHHHhcCcHHHHHHHHH-HHHHcCCC-c
Q 047359          327 CCSSL----MEYYC-SNRQIDKAIALHIKIEKLKGS---L---DVATYDVLLDGLFKDGRMEEAVRIFD-YMKELKVV-S  393 (440)
Q Consensus       327 ~~~~l----~~~~~-~~~~~~~a~~~~~~~~~~~~~---p---~~~~~~~l~~~~~~~g~~~~a~~~~~-~~~~~~~~-~  393 (440)
                      .-..+    ...+. ..+++..|...|-+..+.-..   |   +...|..|. +.. .++..+...++. +....-.. .
T Consensus       178 i~a~i~~~~Gi~~l~~~rdyk~A~~~F~eaf~~f~~~~~~~~~~~lkYlvL~-aLl-~~~r~el~~~l~~~~~~~~~~pe  255 (394)
T 3txn_A          178 VQGALDLQSGILHAADERDFKTAFSYFYEAFEGFDSVDSVKALTSLKYMLLC-KIM-LGQSDDVNQLVSGKLAITYSGRD  255 (394)
T ss_dssp             HHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH-HHH-TTCGGGHHHHHHSHHHHTTCSHH
T ss_pred             HHHHHHHHhhHHHHHhccCHHHHHHHHHHHHhcccccccHHHHHHHHHHHHH-HHH-cCCHHHHHHHhccccccccCCcc
Confidence            22211    22355 789999998888776532111   1   112232222 222 233222223222 21111111 2


Q ss_pred             hhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHH
Q 047359          394 SSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEA  430 (440)
Q Consensus       394 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  430 (440)
                      ...+..++.+ ...+++.+...+++.... .+..|..
T Consensus       256 i~~l~~L~~a-~~~~dl~~f~~iL~~~~~-~l~~D~~  290 (394)
T 3txn_A          256 IDAMKSVAEA-SHKRSLADFQAALKEYKK-ELAEDVI  290 (394)
T ss_dssp             HHHHHHHHHH-HHTTCHHHHHHHHHHSTT-TTTTSHH
T ss_pred             HHHHHHHHHH-HHhCCHHHHHHHHHHHHH-HHhcChH
Confidence            2334455554 456677777777766543 2445554

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=89.40  E-value=3.8  Score=36.27  Aligned_cols=100  Identities=5%  Similarity=-0.098  Sum_probs=64.9

Q ss_pred             hHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhc---CCCCCHHh--HH
Q 047359          150 TYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDE---KIELQDDT--CG  224 (440)
Q Consensus       150 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~--~~  224 (440)
                      +...+...+.+.|+++.|.+.+.++......+.+-...+..+++.+...+++..+...+.++...   +..|+...  ..
T Consensus       133 ~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk~  212 (429)
T 4b4t_R          133 AWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYKT  212 (429)
T ss_dssp             CCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHHH
Confidence            56677778888888888888888887754444444667777788888888888888888776542   22222211  11


Q ss_pred             HHHHHHhhhccHHHHHHHHHHHHHc
Q 047359          225 CMLKALSKEGRVKEAIQIYHLISER  249 (440)
Q Consensus       225 ~l~~~~~~~~~~~~a~~~~~~~~~~  249 (440)
                      .-...+...+++..|-..|-+....
T Consensus       213 ~~gl~~l~~r~f~~Aa~~f~e~~~t  237 (429)
T 4b4t_R          213 YYGIHCLAVRNFKEAAKLLVDSLAT  237 (429)
T ss_dssp             HHHHGGGGTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhChHHHHHHHHHHHhcc
Confidence            1122334567888888877776554

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=88.79  E-value=5.1  Score=28.73  Aligned_cols=73  Identities=15%  Similarity=-0.027  Sum_probs=45.6

Q ss_pred             CCchhhhHHHHHHHHcCCc---HHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCch
Q 047359          322 LLDSFCCSSLMEYYCSNRQ---IDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSS  394 (440)
Q Consensus       322 ~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  394 (440)
                      .|+..+--.+..++.+..+   ..+++.+++.+.+.+..-.....-.|.-++.+.|++++|.+..+.+.+..|.+.
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP~n~  111 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNK  111 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCCCCH
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcH
Confidence            3455544445555555543   446677777777654332444555666677788888888888888877776644

>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=88.66  E-value=3.9  Score=27.20  Aligned_cols=45  Identities=7%  Similarity=0.098  Sum_probs=21.0

Q ss_pred             HHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHH
Q 047359          308 EVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIE  352 (440)
Q Consensus       308 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  352 (440)
                      +..+-++.+....+-|++.+....+++|-+.+++..|.++++-++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK   72 (109)
T 1v54_E           28 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVK   72 (109)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            334444444444444444444444444444444444444444443

>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=87.96  E-value=5.5  Score=28.13  Aligned_cols=57  Identities=14%  Similarity=0.088  Sum_probs=41.5

Q ss_pred             hHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHhccc----CCchhHHHHHH
Q 047359           64 RLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGI----YSSVMYNLVID  120 (440)
Q Consensus        64 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~li~  120 (440)
                      =+..+-++.+...++.|++......+++|.+.+|+..|.++|+-++    +...+|..++.
T Consensus        70 wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~~~~~~iY~y~lq  130 (152)
T 2y69_E           70 WELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVIQ  130 (152)
T ss_dssp             HHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhcCCchhhHHHHHH
Confidence            3456666666667778888888888888888888888888888776    44445766663

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=87.00  E-value=4.4  Score=26.79  Aligned_cols=54  Identities=11%  Similarity=0.002  Sum_probs=23.6

Q ss_pred             chhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHhccc-CCchhHHH
Q 047359           62 EIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGI-YSSVMYNL  117 (440)
Q Consensus        62 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~~~~~~~  117 (440)
                      ..++|..+-+.+...|.  ...+-..-+..+...|++++|..+.+... ||...|..
T Consensus        22 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~A   76 (116)
T 2p58_C           22 YHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLAYPDLEPWLA   76 (116)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSCCGGGHHHHH
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHH
Confidence            35566666666655432  11111112223444455555555544444 44444433

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=86.86  E-value=3.9  Score=33.02  Aligned_cols=118  Identities=14%  Similarity=0.095  Sum_probs=77.5

Q ss_pred             HHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCC--cCHHhHHHHHHHHHhcCc
Q 047359          298 ASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGS--LDVATYDVLLDGLFKDGR  375 (440)
Q Consensus       298 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--p~~~~~~~l~~~~~~~g~  375 (440)
                      ....+.|+++++++....-.+..+. |...-..+++.+|-.|++++|.+-++...+....  |....|..+|.+-...  
T Consensus         5 ~~ll~~g~L~~al~~~~~~VR~~P~-da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l~p~~~~~a~~yr~lI~aE~~R--   81 (273)
T 1zbp_A            5 KNALSEGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQAR--   81 (273)
T ss_dssp             HHHTTTTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHH--
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchhhHHHHHHHHHHHHHHHH--
Confidence            4566789999999999988888665 8888889999999999999999999988875332  2223444444431100  


Q ss_pred             HHHHHHHHHHHHHcCCC--chhhHHHHHHHHH--hcccHHHHHHHHHHHHH
Q 047359          376 MEEAVRIFDYMKELKVV--SSSSFVIVVSRLC--HLKELRKAMKNHDEMLK  422 (440)
Q Consensus       376 ~~~a~~~~~~~~~~~~~--~~~~~~~l~~~~~--~~g~~~~a~~~~~~m~~  422 (440)
                          .++|.--..-+..  ++.-...++.+..  ..|+.++|..+-.++.+
T Consensus        82 ----~~vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e  128 (273)
T 1zbp_A           82 ----KDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEE  128 (273)
T ss_dssp             ----HHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             ----HHHHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHh
Confidence                0111111111111  3334445555554  56999999999888865

>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=85.91  E-value=6.7  Score=28.54  Aligned_cols=49  Identities=16%  Similarity=0.217  Sum_probs=24.9

Q ss_pred             HHHHHHHHHHcCCC--chhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCC
Q 047359          379 AVRIFDYMKELKVV--SSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKP  427 (440)
Q Consensus       379 a~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p  427 (440)
                      +..+|..|..+++.  -...|......+...|++++|.++|+.-++.+-.|
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            44555555554444  33444445555555555555555555555544444

>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=85.50  E-value=8  Score=29.67  Aligned_cols=55  Identities=11%  Similarity=0.035  Sum_probs=39.3

Q ss_pred             ChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCC
Q 047359          163 KTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIEL  218 (440)
Q Consensus       163 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  218 (440)
                      ....+..+|..|...|+-... ...|......+...|++.+|.++|+.-.+.+-.|
T Consensus        94 ~~~~p~~if~~L~~~~IG~~~-AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A~P  148 (202)
T 3esl_A           94 NFHESENTFKYMFNKGIGTKL-SLFYEEFSKLLENAQFFLEAKVLLELGAENNCRP  148 (202)
T ss_dssp             CHHHHHHHHHHHHHHTSSTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBS
T ss_pred             ccCCHHHHHHHHHHCCCcHHH-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcc
Confidence            355778888888887765553 5566677777777788888888777777766665

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=85.37  E-value=16  Score=30.83  Aligned_cols=82  Identities=10%  Similarity=-0.008  Sum_probs=43.9

Q ss_pred             CchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHH
Q 047359          323 LDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVS  402 (440)
Q Consensus       323 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~  402 (440)
                      -++.....+...|.+.+++.+|...|-    .|-.+....+..++.-+...+...+              ........+-
T Consensus       134 Gdp~LH~~ig~~~~~e~~~~~Ae~H~i----lg~~~s~~~~a~mL~ew~~~~~~~e--------------~dlfiaRaVL  195 (336)
T 3lpz_A          134 GDPELHHVVGTLYVEEGEFEAAEKHLV----LGTKESPEVLARMEYEWYKQDESHT--------------APLYCARAVL  195 (336)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHT----TSCTTHHHHHHHHHHHHHHTSCGGG--------------HHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHccCCHHHHHHHHH----hcCCchHHHHHHHHHHHHHhcCCcc--------------HHHHHHHHHH
Confidence            356666677778888888888877662    2333333555444444433332111              1112222333


Q ss_pred             HHHhcccHHHHHHHHHHHHH
Q 047359          403 RLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       403 ~~~~~g~~~~a~~~~~~m~~  422 (440)
                      -|.-.++...|..+++.+.+
T Consensus       196 ~yL~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          196 PYLLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHH
Confidence            45566777777776666553

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=85.22  E-value=4.2  Score=26.85  Aligned_cols=73  Identities=15%  Similarity=0.075  Sum_probs=32.8

Q ss_pred             chhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHhccc-CCchhHHHHHHHHHhcCChhHHHHHHHHH
Q 047359           62 EIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGI-YSSVMYNLVIDFYSKKGDFGAAFDRLNEM  138 (440)
Q Consensus        62 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~~  138 (440)
                      ..++|..+-+.+...|.  ...+-..-+..+...|++++|..+.+... ||...|..|-  -.+.|..+++..-+.++
T Consensus        21 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALc--e~rlGl~s~le~rL~~l   94 (115)
T 2uwj_G           21 CHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALC--EWHLGLGAALDRRLAGL   94 (115)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHH--HHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHH--HHhcccHHHHHHHHHHH
Confidence            35666666666655432  11111122233445555555555555544 4444444332  22344444444444344

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=84.95  E-value=14  Score=29.92  Aligned_cols=21  Identities=10%  Similarity=0.126  Sum_probs=9.8

Q ss_pred             cCChHHHHHHHHHHHHcCCCC
Q 047359          268 EHQPEEVCGLLRDVVERGYIP  288 (440)
Q Consensus       268 ~~~~~~a~~~~~~~~~~~~~~  288 (440)
                      .+.......+++.+.+.|..+
T Consensus       192 ~~~~~~~~~i~~~Ll~~g~~~  212 (285)
T 1wdy_A          192 SSDDSDVEAITHLLLDHGADV  212 (285)
T ss_dssp             CSCTTTHHHHHHHHHHTTCCS
T ss_pred             ccccchHHHHHHHHHHcCCCC
Confidence            344444444555555554433

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=84.25  E-value=33  Score=33.68  Aligned_cols=24  Identities=8%  Similarity=0.164  Sum_probs=14.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHhcc
Q 047359           85 WSLVAQILCRSGKFEVVLGLLDSG  108 (440)
Q Consensus        85 ~~~l~~~~~~~~~~~~a~~~~~~~  108 (440)
                      |..++++..+.++.+.+.++|.++
T Consensus       233 y~~a~~~ai~LnD~~li~~if~~l  256 (963)
T 4ady_A          233 YLTLNKVVVNLNDAGLALQLFKKL  256 (963)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHH
Confidence            444555556666666666666664

>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=83.53  E-value=9.7  Score=26.93  Aligned_cols=46  Identities=15%  Similarity=0.050  Sum_probs=23.5

Q ss_pred             HHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHc
Q 047359          344 AIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKEL  389 (440)
Q Consensus       344 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  389 (440)
                      ..+-++.+....+.|++......+.+|.+.+|+..|.++|+-++.+
T Consensus        72 lrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K  117 (152)
T 2y69_E           72 LRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK  117 (152)
T ss_dssp             HHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            3333444444444555555555555555555555555555555433

>2wvi_A Mitotic checkpoint serine/threonine-protein kinase BUB1 beta; tumor suppressor, TPR, apoptosis, cell division, cell cycle, kinetochore, transferase; 1.80A {Homo sapiens} PDB: 3si5_A

Probab=83.28  E-value=9.9  Score=28.09  Aligned_cols=53  Identities=9%  Similarity=-0.016  Sum_probs=32.9

Q ss_pred             HHHHHHHHHHhccCCc-CHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchh
Q 047359          343 KAIALHIKIEKLKGSL-DVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSS  395 (440)
Q Consensus       343 ~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  395 (440)
                      .+.++|..|...|+-. -...|......+...|++.+|.++|+.-.+.+..+..
T Consensus        78 ~p~~if~~L~~~~IG~~~AlfY~~wA~~lE~~~~~~~A~~Iy~~Gi~~~A~P~~  131 (164)
T 2wvi_A           78 EPLDMYSYLHNQGIGVSLAQFYISWAEEYEARENFRKADAIFQEGIQQKAEPLE  131 (164)
T ss_dssp             CHHHHHHHHHHTTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBSHH
T ss_pred             CHHHHHHHHHHCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHH
Confidence            3556677777666532 3345566666666777777777777777766544443

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=83.19  E-value=14  Score=29.93  Aligned_cols=15  Identities=7%  Similarity=-0.035  Sum_probs=6.5

Q ss_pred             HHHHHHHHHhccCCc
Q 047359          344 AIALHIKIEKLKGSL  358 (440)
Q Consensus       344 a~~~~~~~~~~~~~p  358 (440)
                      ..++.+.+.+.|..+
T Consensus       198 ~~~i~~~Ll~~g~~~  212 (285)
T 1wdy_A          198 VEAITHLLLDHGADV  212 (285)
T ss_dssp             HHHHHHHHHHTTCCS
T ss_pred             HHHHHHHHHHcCCCC
Confidence            334444444444433

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=83.00  E-value=24  Score=31.13  Aligned_cols=100  Identities=10%  Similarity=-0.039  Sum_probs=70.9

Q ss_pred             ccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCC--CCHHhHHHHHHHHhhhccHHHHHHHHHHHHHc---CCCCChhhH-
Q 047359          185 LSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIE--LQDDTCGCMLKALSKEGRVKEAIQIYHLISER---GITVRDSDY-  258 (440)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~-  258 (440)
                      ..+...+...|.+.|+++.|.+.+.++......  .-...+-..+..+...+++..+...+.+....   +..|+.... 
T Consensus       131 ~~~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~l  210 (429)
T 4b4t_R          131 AQAWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRY  210 (429)
T ss_dssp             SSCCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHH
Confidence            557888999999999999999999999875332  23456777888999999999999999887543   322222111 


Q ss_pred             -HHHHHHHHhcCChHHHHHHHHHHHHc
Q 047359          259 -YAFVNVLCKEHQPEEVCGLLRDVVER  284 (440)
Q Consensus       259 -~~l~~~~~~~~~~~~a~~~~~~~~~~  284 (440)
                       ..-...+...+++..|...|-+....
T Consensus       211 k~~~gl~~l~~r~f~~Aa~~f~e~~~t  237 (429)
T 4b4t_R          211 KTYYGIHCLAVRNFKEAAKLLVDSLAT  237 (429)
T ss_dssp             HHHHHHGGGGTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhChHHHHHHHHHHHhcc
Confidence             11112234578898888888776543

>3eiq_C Programmed cell death protein 4; PDCD4, anti-oncogene, apoptosis, cell cycle, nucleus, phosph RNA-binding, ATP-binding, helicase, hydrolase; 3.50A {Mus musculus}

Probab=80.71  E-value=26  Score=29.92  Aligned_cols=75  Identities=7%  Similarity=0.005  Sum_probs=37.8

Q ss_pred             cchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhcc--HHHHHHHHHHHHHcCCCCChhhHHHHHH
Q 047359          186 SGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGR--VKEAIQIYHLISERGITVRDSDYYAFVN  263 (440)
Q Consensus       186 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~  263 (440)
                      .....++.-|...++.++|...++++.....  .......++..-...++  -+.+-.++..+.. ++-+.......+..
T Consensus        55 k~~~~ii~EYf~~~d~~Ea~~~l~eL~~p~~--~~~~v~~~I~~aLdr~~~erE~~s~LLs~L~~-~~ls~~~i~~gf~~  131 (358)
T 3eiq_C           55 KTLTPIIQEYFEHGDTNEVAEMLRDLNLGEM--KSGVPVLAVSLALEGKASHREMTSKLLSDLCG-TVMSTNDVEKSFDK  131 (358)
T ss_dssp             HHHHHHHHHHHHHCCHHHHHHHHHTTTCCGG--GGGHHHHHHHHHTTSCHHHHHHHHHHHHTTTT-TSCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCHHHHHHHHHHhCCchh--HHHHHHHHHHHHhcCChHHHHHHHHHHHHHHh-CCCCHHHHHHHHHH
Confidence            3456677778888888888888877643221  22233333333222222  2334455555553 44434433333333

>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=80.06  E-value=15  Score=26.74  Aligned_cols=53  Identities=9%  Similarity=0.026  Sum_probs=32.2

Q ss_pred             hhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCC
Q 047359          165 EVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIEL  218 (440)
Q Consensus       165 ~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  218 (440)
                      +.+..+|..|...|+-... ...|......+...|++.+|.++|+.-.+.+-.|
T Consensus        82 ~dp~~if~~L~~~~IG~~~-AlfYe~wA~~lE~~g~~~~A~~Vy~~Gi~~~A~P  134 (152)
T 4a1g_A           82 SDLHQFFEFLYNHGIGTLS-SPLYIAWAGHLEAQGELQHASAVLQRGIQNQAEP  134 (152)
T ss_dssp             SCHHHHHHHHHTTTTTTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBS
T ss_pred             CCHHHHHHHHHHCCCcHHH-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcc
Confidence            3466677777666654442 4455556666666666666666666666655554

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	440
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.96
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.95
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.74
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.72
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.46
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.45
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.38
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.34
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.34
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.34
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.34
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.33
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.31
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.31
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	99.0
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.89
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.88
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.87
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.82
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.82
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.8
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.8
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.79
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.76
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.73
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.68
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.65
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.61
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.56
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.54
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.51
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.51
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.5
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.41
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.39
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.33
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.31
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.3
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.3
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.28
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.28
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.27
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.23
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.2
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.2
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.12
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.06
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.03
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.89
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.81
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.73
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.61
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.54
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.27
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	97.02
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	96.91
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.82
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.71
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.05
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	95.57
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	95.1
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	92.16
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	89.56
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	88.14

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.96  E-value=1.7e-24  Score=191.08  Aligned_cols=380  Identities=11%  Similarity=0.037  Sum_probs=261.0

Q ss_pred             HHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCC
Q 047359           18 VLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGK   97 (440)
Q Consensus        18 li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   97 (440)
                      +...+.+.|++++|++.++++.+.. +-+...+..+...+.+.|++++|...|++..+.. +-+..++..+..++.+.|+
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~   82 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhcc
Confidence            3456677889999999998888764 3467778888888888899999999998887764 2356678888888888888


Q ss_pred             hHHHHHHHhccc----CCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHHHHHH
Q 047359           98 FEVVLGLLDSGI----YSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGL  173 (440)
Q Consensus        98 ~~~a~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  173 (440)
                      +++|...+....    .+...+..........+....+......... . ..................+....+...+..
T Consensus        83 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (388)
T d1w3ba_          83 LQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQ-Y-NPDLYCVRSDLGNLLKALGRLEEAKACYLK  160 (388)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHH-H-CTTCTHHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccc-c-ccccccccccccccccccchhhhhHHHHHH
Confidence            888888887766    2333344444455555555555555554443 1 112333344445555566666777776666


Q ss_pred             HHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCC
Q 047359          174 MVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITV  253 (440)
Q Consensus       174 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  253 (440)
                      .....  |+. ...+..+...+...|+++.|...+++..+..+. +...+..+...+...|++++|...++.....+.. 
T Consensus       161 ~~~~~--~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-  235 (388)
T d1w3ba_         161 AIETQ--PNF-AVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALSLSPN-  235 (388)
T ss_dssp             HHHHC--TTC-HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTT-
T ss_pred             hhccC--cch-hHHHHhhcccccccCcHHHHHHHHHHHHHhCcc-cHHHHHHHhhhhhccccHHHHHHHHHHhHHHhhh-
Confidence            66543  332 556666777777778888888877777765443 5566777777777777888887777777765543 


Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHH
Q 047359          254 RDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLME  333 (440)
Q Consensus       254 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  333 (440)
                      +...+..+...+.+.|++++|...++.+.+.. +.+...+..+...+...|++++|.+.++......+ .+...+..+..
T Consensus       236 ~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~  313 (388)
T d1w3ba_         236 HAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCP-THADSLNNLAN  313 (388)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCC-ccchhhhHHHH
Confidence            45566667777777777777777777777653 33455666777777777777777777777766543 25566677777


Q ss_pred             HHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhccc
Q 047359          334 YYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKE  409 (440)
Q Consensus       334 ~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  409 (440)
                      .+...|++++|++.+++..+..+. +..++..+..+|.+.|++++|.+.|+++.+..|.++.+|..++.+|.+.||
T Consensus       314 ~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         314 IKREQGNIEEAVRLYRKALEVFPE-FAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHTTTCHHHHHHHHHHHTTSCTT-CHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC
Confidence            777777777777777777764332 455677777777777777777777777777777777777777777776664

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.95  E-value=3.6e-23  Score=182.40  Aligned_cols=371  Identities=12%  Similarity=0.068  Sum_probs=305.5

Q ss_pred             HHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHhccc---C-CchhHHHHHHHHHhcCCh
Q 047359           53 LLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQILCRSGKFEVVLGLLDSGI---Y-SSVMYNLVIDFYSKKGDF  128 (440)
Q Consensus        53 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~-~~~~~~~li~~~~~~~~~  128 (440)
                      +...+.+.|++++|.+.++++.+.. +-+...+..+..++.+.|++++|...|++..   | +..+|..+..++.+.|++
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~g~~   83 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhhhhccc
Confidence            3456778899999999999998764 3367789999999999999999999999976   4 456789999999999999


Q ss_pred             hHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHH
Q 047359          129 GAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIF  208 (440)
Q Consensus       129 ~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  208 (440)
                      ++|++.+....+ .. ..+..............+....+..............   ..............+....+...+
T Consensus        84 ~~A~~~~~~~~~-~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~  158 (388)
T d1w3ba_          84 QEAIEHYRHALR-LK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDL---YCVRSDLGNLLKALGRLEEAKACY  158 (388)
T ss_dssp             HHHHHHHHHHHH-HC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTC---THHHHHHHHHHHTTSCHHHHHHHH
T ss_pred             cccccccccccc-cc-ccccccccccccccccccccccccccccccccccccc---ccccccccccccccchhhhhHHHH
Confidence            999999999977 22 1233344455555566667777666666655544322   445556677778888888998888


Q ss_pred             HHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 047359          209 KRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIP  288 (440)
Q Consensus       209 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  288 (440)
                      .......+. +...+..+...+...|++++|...++...+..+. +...+..+...+...|++++|...++.....+ +.
T Consensus       159 ~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~  235 (388)
T d1w3ba_         159 LKAIETQPN-FAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PN  235 (388)
T ss_dssp             HHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TT
T ss_pred             HHhhccCcc-hhHHHHhhcccccccCcHHHHHHHHHHHHHhCcc-cHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hh
Confidence            888776544 5677888889999999999999999999887543 56788889999999999999999999998765 44


Q ss_pred             ChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHH
Q 047359          289 CAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLD  368 (440)
Q Consensus       289 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  368 (440)
                      +...+..+...+.+.|++++|...+++..+..+. +...+..+...+...|++++|.+.++....... .+...+..+..
T Consensus       236 ~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~  313 (388)
T d1w3ba_         236 HAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPH-FPDAYCNLANALKEKGSVAEAEDCYNTALRLCP-THADSLNNLAN  313 (388)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSS-CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCC-ccchhhhHHHH
Confidence            5667888889999999999999999999887554 677888999999999999999999999887643 47788899999


Q ss_pred             HHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCH-HHHHHHh
Q 047359          369 GLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDE-ATYKQVI  436 (440)
Q Consensus       369 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~-~t~~~ll  436 (440)
                      .+.+.|++++|++.|+++.+..|.++.++..+..+|.+.|++++|...|++.++  +.|+. ..|..+-
T Consensus       314 ~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--l~P~~~~a~~~lg  380 (388)
T d1w3ba_         314 IKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPTFADAYSNMG  380 (388)
T ss_dssp             HHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT--TCTTCHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHH
Confidence            999999999999999999999888999999999999999999999999999998  57764 4555443

>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=99.74  E-value=7.7e-16  Score=131.48  Aligned_cols=244  Identities=16%  Similarity=0.071  Sum_probs=134.1

Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhh
Q 047359          153 SILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSK  232 (440)
Q Consensus       153 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  232 (440)
                      .....+.+.|++++|...|+++++..  |++ ..+|..+..++...|++++|...+.+..+..+. +...+..+..+|..
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~--P~~-~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~   99 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQD--PKH-MEAWQYLGTTQAENEQELLAISALRRCLELKPD-NQTALMALAVSFTN   99 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSC--TTC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC--CCC-HHHHHHHHHHHHHcCChHHHHHHHHhhhccccc-cccccccccccccc
Confidence            34556677777888888887777654  443 566777777777777777777777777766544 56667777777777


Q ss_pred             hccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHH
Q 047359          233 EGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEEL  312 (440)
Q Consensus       233 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  312 (440)
                      .|++++|.+.++......... ...+........ .                   .+.......+..+...+.+.+|...
T Consensus       100 ~~~~~~A~~~~~~~~~~~~~~-~~~~~~~~~~~~-~-------------------~~~~~~~~~~~~~~~~~~~~~a~~~  158 (323)
T d1fcha_         100 ESLQRQACEILRDWLRYTPAY-AHLVTPAEEGAG-G-------------------AGLGPSKRILGSLLSDSLFLEVKEL  158 (323)
T ss_dssp             TTCHHHHHHHHHHHHHTSTTT-GGGCC-----------------------------------CTTHHHHHHHHHHHHHHH
T ss_pred             cccccccccchhhHHHhccch-HHHHHhhhhhhh-h-------------------cccccchhhHHHHHHhhHHHHHHHH
Confidence            777777777777776643211 000000000000 0                   0000000011111222344455555


Q ss_pred             HHHHHhcCCC-CchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCC
Q 047359          313 LSAVLDKGLL-LDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKV  391 (440)
Q Consensus       313 ~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  391 (440)
                      +.+.....+. ++...+..+...+...|++++|+..+++.....+. +...|..+...|.+.|++++|.+.|+++.+..|
T Consensus       159 ~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p  237 (323)
T d1fcha_         159 FLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPN-DYLLWNKLGATLANGNQSEEAVAAYRRALELQP  237 (323)
T ss_dssp             HHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccccc-cccchhhhhhcccccccchhHHHHHHHHHHHhh
Confidence            5555443221 23344555555555666666666666665554332 345555566666666666666666666665555


Q ss_pred             CchhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          392 VSSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       392 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      .++.++..++.+|.+.|++++|++.|++.++
T Consensus       238 ~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         238 GYIRSRYNLGISCINLGAHREAVEHFLEALN  268 (323)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            5555666666666666666666666665554

>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=99.72  E-value=3.3e-15  Score=127.45  Aligned_cols=269  Identities=12%  Similarity=-0.015  Sum_probs=188.0

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHhcCCCCCCc-hhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHH
Q 047359          116 NLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPG-FSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQK  194 (440)
Q Consensus       116 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~  194 (440)
                      -.....+.+.|++++|+..|+++.+   ..|+ ..+|..+..++...|+++.|...+.+..+..  |+. ...+..+...
T Consensus        23 ~~~g~~~~~~g~~~~A~~~~~~al~---~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~-~~~~~~la~~   96 (323)
T d1fcha_          23 FEEGLRRLQEGDLPNAVLLFEAAVQ---QDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK--PDN-QTALMALAVS   96 (323)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH---SCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTC-HHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc--ccc-cccccccccc
Confidence            3456778899999999999999987   5564 5688999999999999999999999998864  554 7788889999


Q ss_pred             HhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHH
Q 047359          195 LSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEV  274 (440)
Q Consensus       195 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  274 (440)
                      +...|++++|.+.++......+.. ...+....... ..                   .+.......+..+...+.+.++
T Consensus        97 ~~~~~~~~~A~~~~~~~~~~~~~~-~~~~~~~~~~~-~~-------------------~~~~~~~~~~~~~~~~~~~~~a  155 (323)
T d1fcha_          97 FTNESLQRQACEILRDWLRYTPAY-AHLVTPAEEGA-GG-------------------AGLGPSKRILGSLLSDSLFLEV  155 (323)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTSTTT-GGGCC-----------------------------------CTTHHHHHHHHHHHH
T ss_pred             ccccccccccccchhhHHHhccch-HHHHHhhhhhh-hh-------------------cccccchhhHHHHHHhhHHHHH
Confidence            999999999999999988754321 11100000000 00                   0000011111223344556667


Q ss_pred             HHHHHHHHHcCC-CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHh
Q 047359          275 CGLLRDVVERGY-IPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEK  353 (440)
Q Consensus       275 ~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  353 (440)
                      ...+....+... .++...+..+...+...|++++|...+++.....+. +...|..+...|...|++++|.+.+++..+
T Consensus       156 ~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  234 (323)
T d1fcha_         156 KELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPN-DYLLWNKLGATLANGNQSEEAVAAYRRALE  234 (323)
T ss_dssp             HHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccccc-cccchhhhhhcccccccchhHHHHHHHHHH
Confidence            777776665431 234456677777788888888888888888776544 567788888888899999999999998887


Q ss_pred             ccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCch-----------hhHHHHHHHHHhcccHHHH
Q 047359          354 LKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSS-----------SSFVIVVSRLCHLKELRKA  413 (440)
Q Consensus       354 ~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-----------~~~~~l~~~~~~~g~~~~a  413 (440)
                      ..+. +..+|..+..+|.+.|++++|++.|+++.+..|.+.           ..|..+-.++...|+.+.+
T Consensus       235 ~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~  304 (323)
T d1fcha_         235 LQPG-YIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAY  304 (323)
T ss_dssp             HCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGH
T ss_pred             Hhhc-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            6433 566788888899999999999999998877544422           2445555566555655444

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.46  E-value=2.3e-11  Score=102.26  Aligned_cols=197  Identities=7%  Similarity=-0.045  Sum_probs=112.4

Q ss_pred             hHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcC-cHHHHHHHHHHHHhcCCCCCHHhHHHHHH
Q 047359          150 TYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMG-KTYAAEMIFKRACDEKIELQDDTCGCMLK  228 (440)
Q Consensus       150 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  228 (440)
                      .++.+...+.+.+.+++|++.++++++.+  |++ ..+|+....++...| ++++|+..++...+..+. +..+|..+..
T Consensus        45 a~~~~~~~~~~~e~~~~Al~~~~~ai~ln--P~~-~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~-~~~a~~~~~~  120 (315)
T d2h6fa1          45 VYDYFRAVLQRDERSERAFKLTRDAIELN--AAN-YTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRV  120 (315)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHHC--TTC-HHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHHHC--CCC-hHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHh-hhhHHHHHhH
Confidence            44555555666667777777777777643  543 455666666666654 466666666666665554 5566666666


Q ss_pred             HHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCC---
Q 047359          229 ALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGK---  305 (440)
Q Consensus       229 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---  305 (440)
                      .+.+.|++++|+..++.+.+..+. +...|..+...+...|++++|+..++.+++.+ +.+...|+.+...+.+.+.   
T Consensus       121 ~~~~l~~~~eAl~~~~kal~~dp~-n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~~~~  198 (315)
T d2h6fa1         121 LVEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYND  198 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHhhccHHHHHHHHhhhhhhhhc-chHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHHHccccch
Confidence            666666666666666666665443 55566666666666666666666666666653 2244445544444433332   


Q ss_pred             ---HHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhc
Q 047359          306 ---WKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKL  354 (440)
Q Consensus       306 ---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  354 (440)
                         +++|.+.+.+..+..+. +...|..+...+... ..+++.+.++...+.
T Consensus       199 ~~~~~~ai~~~~~al~~~P~-~~~~~~~l~~ll~~~-~~~~~~~~~~~~~~l  248 (315)
T d2h6fa1         199 RAVLEREVQYTLEMIKLVPH-NESAWNYLKGILQDR-GLSKYPNLLNQLLDL  248 (315)
T ss_dssp             HHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTTT-CGGGCHHHHHHHHHH
T ss_pred             hhhhHHhHHHHHHHHHhCCC-chHHHHHHHHHHHhc-ChHHHHHHHHHHHHh
Confidence               45555555555554332 444444444433322 234555555555443

>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=99.45  E-value=1.1e-10  Score=97.96  Aligned_cols=187  Identities=10%  Similarity=0.038  Sum_probs=133.0

Q ss_pred             ccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHH
Q 047359          234 GRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELL  313 (440)
Q Consensus       234 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  313 (440)
                      +..++|..+|++..+...+.+...+...+....+.|+++.|..+++.+.+.........|...+....+.|+++.|.++|
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            34577778888877654444556677777777788888888888888876543233446777777777788888888888


Q ss_pred             HHHHhcCCCCchhhhHHHHHH-HHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC
Q 047359          314 SAVLDKGLLLDSFCCSSLMEY-YCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV  392 (440)
Q Consensus       314 ~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  392 (440)
                      +.+.+.++. +...|...... +...|+.+.|..+|+.+.+..+. +...|...+..+.+.|+.+.|..+|++..+..+.
T Consensus       158 ~~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~-~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~  235 (308)
T d2onda1         158 KKAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGD-IPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  235 (308)
T ss_dssp             HHHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS
T ss_pred             HHHHHhCCC-cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhhh-hHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC
Confidence            888776543 33333333332 34457888888888888876433 5677888888888888888888888888776554


Q ss_pred             c----hhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          393 S----SSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       393 ~----~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      +    ...|...+..-...|+.+.+..+++++.+
T Consensus       236 ~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         236 PPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             CGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            2    23677777777778888888888888766

>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=99.38  E-value=7.9e-11  Score=98.88  Aligned_cols=232  Identities=9%  Similarity=0.066  Sum_probs=182.6

Q ss_pred             ccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhc-cHHHHHHHHHHHHHcCCCCChhhHHHHHH
Q 047359          185 LSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEG-RVKEAIQIYHLISERGITVRDSDYYAFVN  263 (440)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  263 (440)
                      ..+++.+...+.+.+..++|++.++++.+.++. +...|+....++...| ++++|+..++...+..+. +..+|..+..
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~-~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~-~~~a~~~~~~  120 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRV  120 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHh-hhhHHHHHhH
Confidence            556677778888899999999999999998776 7778888888888766 589999999999887765 6788888999


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCc---
Q 047359          264 VLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQ---  340 (440)
Q Consensus       264 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---  340 (440)
                      .+.+.|++++|+..++.+.+.. +.+...|..+...+...|++++|++.++++.+.++. +...|+.+...+.+.+.   
T Consensus       121 ~~~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~-n~~a~~~r~~~l~~~~~~~~  198 (315)
T d2h6fa1         121 LVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYND  198 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCc-cHHHHHHHHHHHHHccccch
Confidence            9999999999999999999864 456788888999999999999999999999988655 66778777766665554   


Q ss_pred             ---HHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC--chhhHHHHHHHHHhc--ccHHHH
Q 047359          341 ---IDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV--SSSSFVIVVSRLCHL--KELRKA  413 (440)
Q Consensus       341 ---~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~l~~~~~~~--g~~~~a  413 (440)
                         +++|++.+.+.++..+. +...|..+...+...| .+++.+.++...+..+.  ++..+..++..|...  +..+.+
T Consensus       199 ~~~~~~ai~~~~~al~~~P~-~~~~~~~l~~ll~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~  276 (315)
T d2h6fa1         199 RAVLEREVQYTLEMIKLVPH-NESAWNYLKGILQDRG-LSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNK  276 (315)
T ss_dssp             HHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTTTC-GGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSH
T ss_pred             hhhhHHhHHHHHHHHHhCCC-chHHHHHHHHHHHhcC-hHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHH
Confidence               67888888888886544 6777777766655444 57788888888777666  555666677766543  555667


Q ss_pred             HHHHHHHHH
Q 047359          414 MKNHDEMLK  422 (440)
Q Consensus       414 ~~~~~~m~~  422 (440)
                      ...+++..+
T Consensus       277 ~~~~~ka~~  285 (315)
T d2h6fa1         277 EDILNKALE  285 (315)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            777776654

>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=99.34  E-value=9.1e-10  Score=94.39  Aligned_cols=295  Identities=11%  Similarity=-0.068  Sum_probs=185.0

Q ss_pred             HHHHHHhcCChhHHHHHHHHHhcCCCCCCc------hhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCC---Ccccccch
Q 047359          118 VIDFYSKKGDFGAAFDRLNEMCNGRNLTPG------FSTYSSILDGARRYEKTEVSDRIVGLMVEKKLL---PKHFLSGN  188 (440)
Q Consensus       118 li~~~~~~~~~~~a~~~~~~~~~~~~~~p~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~  188 (440)
                      ....+...|++++|++++++..+   ..|+      ...+..+..++...|++++|...+++..+....   +......+
T Consensus        18 rA~~~~~~g~~~~A~~~~~~aL~---~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~   94 (366)
T d1hz4a_          18 RAQVAINDGNPDEAERLAKLALE---ELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSL   94 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH---TCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHh---hCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHH
Confidence            34556677777777777777665   2232      224555666777778888888877776653211   11113344


Q ss_pred             HHHHHHHhhcCcHHHHHHHHHHHHhc----CCC--C-CHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCC----CCChhh
Q 047359          189 DYVIQKLSDMGKTYAAEMIFKRACDE----KIE--L-QDDTCGCMLKALSKEGRVKEAIQIYHLISERGI----TVRDSD  257 (440)
Q Consensus       189 ~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~  257 (440)
                      ..+...+...|++..+...+......    ...  + ....+..+...+...|+++.+...+........    ......
T Consensus        95 ~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  174 (366)
T d1hz4a_          95 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQC  174 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHH
Confidence            55666777778888888777765432    111  1 122445566777788888888888887765422    222344


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcC----CCC--ChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCc---hhhh
Q 047359          258 YYAFVNVLCKEHQPEEVCGLLRDVVERG----YIP--CAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLD---SFCC  328 (440)
Q Consensus       258 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~  328 (440)
                      +......+...++...+...+.......    ..+  ....+..+...+...|++++|...++.........+   ...+
T Consensus       175 ~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  254 (366)
T d1hz4a_         175 LAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQW  254 (366)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHH
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHH
Confidence            5555666777888888888777665421    111  122345556667778999999988887765433222   2345


Q ss_pred             HHHHHHHHcCCcHHHHHHHHHHHHhc----cCCcC-HHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC---------ch
Q 047359          329 SSLMEYYCSNRQIDKAIALHIKIEKL----KGSLD-VATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV---------SS  394 (440)
Q Consensus       329 ~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~---------~~  394 (440)
                      ..+..++...|++++|...+++....    +..|+ ...+..+...|.+.|++++|.+.+++..+....         ..
T Consensus       255 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l~~~~~~~~~~~~~~  334 (366)
T d1hz4a_         255 RNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANRTGFISHFVIEG  334 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCCCHHHHTTH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhhcCcHHHHHHHH
Confidence            55777888999999999999887642    33333 346777888899999999999999887653221         11


Q ss_pred             hhHHHHHHHHHhcccHHHHHH
Q 047359          395 SSFVIVVSRLCHLKELRKAMK  415 (440)
Q Consensus       395 ~~~~~l~~~~~~~g~~~~a~~  415 (440)
                      ..+..++..+...++.+++..
T Consensus       335 ~~~~~~~~~l~~~~~l~e~e~  355 (366)
T d1hz4a_         335 EAMAQQLRQLIQLNTLPELEQ  355 (366)
T ss_dssp             HHHHHHHHHHHHTTCSCHHHH
T ss_pred             HHHHHHHHHHHhcCCChHHHH
Confidence            234445555666666655544

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.34  E-value=3e-12  Score=109.26  Aligned_cols=268  Identities=10%  Similarity=-0.030  Sum_probs=176.4

Q ss_pred             hcCChhHHHHHHHHHhcCCCCCCchh-hHHHHH---HH-------HHhcCChhhHHHHHHHHHhcCCCCcccccchHHHH
Q 047359          124 KKGDFGAAFDRLNEMCNGRNLTPGFS-TYSSIL---DG-------ARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVI  192 (440)
Q Consensus       124 ~~~~~~~a~~~~~~~~~~~~~~p~~~-~~~~l~---~~-------~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~  192 (440)
                      ..+..++|++++++..+   ..|+.. .|+..-   ..       +...|++++|+..++...+..  |++ ...|..+.
T Consensus        41 ~~~~~~~al~~~~~~l~---~~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~--pk~-~~~~~~~~  114 (334)
T d1dcea1          41 AGELDESVLELTSQILG---ANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN--PKS-YGTWHHRC  114 (334)
T ss_dssp             TTCCSHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC--TTC-HHHHHHHH
T ss_pred             cccccHHHHHHHHHHHH---HCCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC--CCc-HHHHHHhh
Confidence            33445788888888876   556654 333222   22       223344677888888887754  443 55566666


Q ss_pred             HHHhhcC--cHHHHHHHHHHHHhcCCCCCHHhHH-HHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcC
Q 047359          193 QKLSDMG--KTYAAEMIFKRACDEKIELQDDTCG-CMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEH  269 (440)
Q Consensus       193 ~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  269 (440)
                      .++...+  ++++|...+.++.+..+. +...+. .....+...+.++.|+..++.+.+.++. +...|..+...+.+.|
T Consensus       115 ~~~~~~~~~~~~~a~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~-~~~a~~~l~~~~~~~~  192 (334)
T d1dcea1         115 WLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLH  192 (334)
T ss_dssp             HHHHTCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHHHHS
T ss_pred             HHHHHhccccHHHHHHHHHHHHhhCch-hhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhc
Confidence            6655554  478888888888776554 344443 4446666778888888888888877654 6777888888888888


Q ss_pred             ChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHH
Q 047359          270 QPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHI  349 (440)
Q Consensus       270 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  349 (440)
                      ++++|...+....+.  .|..   ......+...+..+++...+.......+ ++...+..+...+...++.++|...+.
T Consensus       193 ~~~~A~~~~~~~~~~--~~~~---~~~~~~~~~l~~~~~a~~~~~~~l~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~  266 (334)
T d1dcea1         193 PQPDSGPQGRLPENV--LLKE---LELVQNAFFTDPNDQSAWFYHRWLLGRA-EPLFRCELSVEKSTVLQSELESCKELQ  266 (334)
T ss_dssp             CCCCSSSCCSSCHHH--HHHH---HHHHHHHHHHCSSCSHHHHHHHHHHSCC-CCSSSCCCCHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhHHh--HHHH---HHHHHHHHHhcchhHHHHHHHHHHHhCc-chhhHHHHHHHHHHHHhhHHHHHHHHH
Confidence            887776555443332  1111   1122233344556667777777766543 245556666777777888888888888


Q ss_pred             HHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHh
Q 047359          350 KIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCH  406 (440)
Q Consensus       350 ~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  406 (440)
                      +..+..+. +..++..+..++...|+.++|.+.++++.+.+|.....|..+...+.-
T Consensus       267 ~~~~~~p~-~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~~~y~~~L~~~~~~  322 (334)
T d1dcea1         267 ELEPENKW-CLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLRSKFLL  322 (334)
T ss_dssp             HHCTTCHH-HHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHH
T ss_pred             HHHhhCch-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcccHHHHHHHHHHHhH
Confidence            77765332 556777788888888888999988888888887777777777666653

>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=99.34  E-value=5e-10  Score=96.05  Aligned_cols=268  Identities=10%  Similarity=-0.004  Sum_probs=193.8

Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHhcCCCCccc----ccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCC-C----CHHhH
Q 047359          153 SILDGARRYEKTEVSDRIVGLMVEKKLLPKHF----LSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIE-L----QDDTC  223 (440)
Q Consensus       153 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~----~~~~~  223 (440)
                      .....+...|++++|.+.+++.++..  |+..    ..++..+...+...|++++|...+++..+.... +    ....+
T Consensus        17 lrA~~~~~~g~~~~A~~~~~~aL~~~--~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~   94 (366)
T d1hz4a_          17 LRAQVAINDGNPDEAERLAKLALEEL--PPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSL   94 (366)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTC--CTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhC--cCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHH
Confidence            34556788999999999999998754  3311    235667888999999999999999988653211 1    12345


Q ss_pred             HHHHHHHhhhccHHHHHHHHHHHHHc----CCCCC---hhhHHHHHHHHHhcCChHHHHHHHHHHHHcCC----CCChhh
Q 047359          224 GCMLKALSKEGRVKEAIQIYHLISER----GITVR---DSDYYAFVNVLCKEHQPEEVCGLLRDVVERGY----IPCAME  292 (440)
Q Consensus       224 ~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~  292 (440)
                      ..+...+...|++..+...+......    +....   ...+..+...+...|+++.+...+........    ......
T Consensus        95 ~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  174 (366)
T d1hz4a_          95 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQC  174 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHH
Confidence            66677888899999999988876542    11111   23455667788899999999999988876422    222344


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhcC--CC--C--chhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCc---CHHhH
Q 047359          293 LSRFVASQCGKGKWKEVEELLSAVLDKG--LL--L--DSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSL---DVATY  363 (440)
Q Consensus       293 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~--~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p---~~~~~  363 (440)
                      +......+...++...+...+.+.....  ..  +  ....+......+...|++++|...+.+..+.....   ....+
T Consensus       175 ~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  254 (366)
T d1hz4a_         175 LAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQW  254 (366)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHH
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHH
Confidence            5556666777899999988887765421  11  1  12345566677889999999999998877653322   23455


Q ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHHc----CCC--chhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          364 DVLLDGLFKDGRMEEAVRIFDYMKEL----KVV--SSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       364 ~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      ..+...+...|++++|...++++...    +..  ...++..+...|.+.|++++|.+.+++.++
T Consensus       255 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         255 RNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            66888999999999999999987632    222  456788899999999999999999998765

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.34  E-value=6.1e-12  Score=107.30  Aligned_cols=260  Identities=8%  Similarity=-0.051  Sum_probs=190.6

Q ss_pred             HhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHH----------HhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHH
Q 047359          159 RRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQK----------LSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLK  228 (440)
Q Consensus       159 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~----------~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  228 (440)
                      .+.+..++|..+++.+++..  |+. ...|+..-..          +...|++++|+.+++...+.++. +...|..+..
T Consensus        40 ~~~~~~~~al~~~~~~l~~~--P~~-~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~pk-~~~~~~~~~~  115 (334)
T d1dcea1          40 QAGELDESVLELTSQILGAN--PDF-ATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCW  115 (334)
T ss_dssp             HTTCCSHHHHHHHHHHHHHC--TTC-HHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             hcccccHHHHHHHHHHHHHC--CCc-HHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhCCC-cHHHHHHhhH
Confidence            33344589999999998865  663 3444332222          33345688899999999887665 6677777766


Q ss_pred             HHhhhc--cHHHHHHHHHHHHHcCCCCChhhH-HHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCC
Q 047359          229 ALSKEG--RVKEAIQIYHLISERGITVRDSDY-YAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGK  305 (440)
Q Consensus       229 ~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  305 (440)
                      ++...+  ++++|...+..+.+.... +...+ ......+...+.+++|+..++.+.+.+ +-+...|..+...+...|+
T Consensus       116 ~~~~~~~~~~~~a~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~-p~~~~a~~~l~~~~~~~~~  193 (334)
T d1dcea1         116 LLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHP  193 (334)
T ss_dssp             HHHTCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSC
T ss_pred             HHHHhccccHHHHHHHHHHHHhhCch-hhhhhhhHHHHHHHhccccHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcC
Confidence            666654  589999999999887554 34444 344567778899999999999988775 3467778888888888888


Q ss_pred             HHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHH
Q 047359          306 WKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDY  385 (440)
Q Consensus       306 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  385 (440)
                      +++|...+....+..  |+   .......+...+..+++...+........ ++...+..++..+...|+.++|...+.+
T Consensus       194 ~~~A~~~~~~~~~~~--~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~  267 (334)
T d1dcea1         194 QPDSGPQGRLPENVL--LK---ELELVQNAFFTDPNDQSAWFYHRWLLGRA-EPLFRCELSVEKSTVLQSELESCKELQE  267 (334)
T ss_dssp             CCCSSSCCSSCHHHH--HH---HHHHHHHHHHHCSSCSHHHHHHHHHHSCC-CCSSSCCCCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhHHhH--HH---HHHHHHHHHHhcchhHHHHHHHHHHHhCc-chhhHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            887766655444321  11   12233345556777788888888776543 3555667777888889999999999999


Q ss_pred             HHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHHHH
Q 047359          386 MKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATY  432 (440)
Q Consensus       386 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~  432 (440)
                      ....+|.+..++..++.++.+.|++++|++.+++..+  +.|+...|
T Consensus       268 ~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~--ldP~~~~y  312 (334)
T d1dcea1         268 LEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKA--VDPMRAAY  312 (334)
T ss_dssp             HCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHH--HCGGGHHH
T ss_pred             HHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--HCcccHHH
Confidence            9988877889999999999999999999999999998  67876544

>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=99.33  E-value=4.2e-11  Score=98.01  Aligned_cols=202  Identities=12%  Similarity=0.001  Sum_probs=104.8

Q ss_pred             ccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHH
Q 047359          185 LSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNV  264 (440)
Q Consensus       185 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  264 (440)
                      ..++..+..+|.+.|++++|...|++..+..+. ++.+|+.+..++.+.|++++|+..|++..+..+. +..++..+..+
T Consensus        37 a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~  114 (259)
T d1xnfa_          37 AQLLYERGVLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPT-YNYAHLNRGIA  114 (259)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCC-CHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhh-hhhhHHHHHHH
Confidence            345555666666667777777777666665544 5666666777777777777777777776665433 34556666666


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCc----
Q 047359          265 LCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQ----  340 (440)
Q Consensus       265 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----  340 (440)
                      +...|++++|...++...+.. +.+......+...+.+.+..+.+..+........  ++...++ ++..+.....    
T Consensus       115 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~-~~~~~~~~~~~~~~  190 (259)
T d1xnfa_         115 LYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSD--KEQWGWN-IVEFYLGNISEQTL  190 (259)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSC--CCSTHHH-HHHHHTTSSCHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccc--hhhhhhh-HHHHHHHHHHHHHH
Confidence            667777777777777666543 1222222222333333344444444433333321  1111111 2222221111    


Q ss_pred             HHHHHHHHHHHHhccCCc-CHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCch
Q 047359          341 IDKAIALHIKIEKLKGSL-DVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSS  394 (440)
Q Consensus       341 ~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  394 (440)
                      .+.+...+......  .| ...+|..+...|...|++++|.+.|++..+..|.+.
T Consensus       191 ~~~~~~~~~~~~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~  243 (259)
T d1xnfa_         191 MERLKADATDNTSL--AEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNF  243 (259)
T ss_dssp             HHHHHHHCCSHHHH--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTC
T ss_pred             HHHHHHHHHHhhhc--CcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCH
Confidence            11111111111111  11 123555666677777777777777777776666543

>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=99.31  E-value=1.3e-10  Score=94.96  Aligned_cols=222  Identities=10%  Similarity=-0.073  Sum_probs=154.0

Q ss_pred             cHHHHHHHHHHHHhcCCCC---CHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHH
Q 047359          200 KTYAAEMIFKRACDEKIEL---QDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCG  276 (440)
Q Consensus       200 ~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  276 (440)
                      +.+.++.-++++.......   ...+|..+..+|.+.|++++|+..|++..+..+. +..+|..+..++.+.|++++|..
T Consensus        14 ~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~-~~~a~~~lg~~~~~~g~~~~A~~   92 (259)
T d1xnfa_          14 QQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAAYE   92 (259)
T ss_dssp             HHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCC-CHHHHhhhchHHHHHHHHHHhhh
Confidence            4455666666665543221   2346777888999999999999999999987654 67889999999999999999999


Q ss_pred             HHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccC
Q 047359          277 LLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKG  356 (440)
Q Consensus       277 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  356 (440)
                      .|+.+.+.. +.+..++..+...+...|++++|...++...+..+. +......+...+.+.+..+.+..+.........
T Consensus        93 ~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  170 (259)
T d1xnfa_          93 AFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPN-DPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDK  170 (259)
T ss_dssp             HHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCC
T ss_pred             hhhHHHHHH-hhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhccc-cHHHHHHHHHHHHHhhhHHHHHHHHHHhhccch
Confidence            999999864 335667888889999999999999999999887543 444444444455566666666555555554322


Q ss_pred             CcCHHhHHHHHHHHHhc----CcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCH
Q 047359          357 SLDVATYDVLLDGLFKD----GRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDE  429 (440)
Q Consensus       357 ~p~~~~~~~l~~~~~~~----g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~  429 (440)
                        +...+. ++..+...    +..+.+...+.......+....++..+...+...|++++|...|++.+.  ..|+.
T Consensus       171 --~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~--~~p~~  242 (259)
T d1xnfa_         171 --EQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVA--NNVHN  242 (259)
T ss_dssp             --CSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TCCTT
T ss_pred             --hhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--cCCCC
Confidence              222222 22222222    2233333333333333333456788899999999999999999999987  46764

>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=99.31  E-value=8.3e-10  Score=92.48  Aligned_cols=192  Identities=7%  Similarity=-0.075  Sum_probs=150.2

Q ss_pred             CcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHH
Q 047359          199 GKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLL  278 (440)
Q Consensus       199 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  278 (440)
                      +..++|..+|++..+...+.+...|...+....+.|+++.|..+|+.+.+.........|...+..+.+.|+.+.|.++|
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            34678888998888765555667788888888899999999999999988655444557888899999999999999999


Q ss_pred             HHHHHcCCCCChhhHHHHHHH-HHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccC-
Q 047359          279 RDVVERGYIPCAMELSRFVAS-QCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKG-  356 (440)
Q Consensus       279 ~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-  356 (440)
                      +.+.+.. +.+...|...... +...|+.+.|..+|+.+....+. +...|...+....+.|+.+.|..+|++..+... 
T Consensus       158 ~~al~~~-~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~-~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~  235 (308)
T d2onda1         158 KKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGD-IPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  235 (308)
T ss_dssp             HHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS
T ss_pred             HHHHHhC-CCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhhh-hHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC
Confidence            9988764 2333444443332 33468999999999999886433 677889999999999999999999999887643 


Q ss_pred             CcC--HHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC
Q 047359          357 SLD--VATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV  392 (440)
Q Consensus       357 ~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  392 (440)
                      .|.  ...|...+..-...|+.+.+.++++++.+.-+.
T Consensus       236 ~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~~~  273 (308)
T d2onda1         236 PPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFRE  273 (308)
T ss_dssp             CGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTT
T ss_pred             ChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcc
Confidence            332  357888888888899999999999998876554

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.00  E-value=6.7e-09  Score=72.54  Aligned_cols=103  Identities=19%  Similarity=0.126  Sum_probs=81.1

Q ss_pred             HHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccH
Q 047359          331 LMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKEL  410 (440)
Q Consensus       331 l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  410 (440)
                      -...+...|++++|+..|++.++..+. +...|..+..+|.+.|++++|+..++++.+.+|.++..|..+..++...|++
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLDPH-NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCc-chhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCH
Confidence            345677788888888888888876544 6777888888888888888888888888888888888888888888888888


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHh
Q 047359          411 RKAMKNHDEMLKMGHKPDEATYKQVI  436 (440)
Q Consensus       411 ~~a~~~~~~m~~~~~~p~~~t~~~ll  436 (440)
                      ++|+..|++..+  +.|+...+...+
T Consensus        88 ~~A~~~~~~a~~--~~p~~~~~~~~l  111 (117)
T d1elwa_          88 EEAKRTYEEGLK--HEANNPQLKEGL  111 (117)
T ss_dssp             HHHHHHHHHHHT--TCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHH--hCCCCHHHHHHH
Confidence            888888888887  567665554433

>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=98.89  E-value=4.3e-08  Score=68.30  Aligned_cols=105  Identities=15%  Similarity=0.013  Sum_probs=86.8

Q ss_pred             HHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcH
Q 047359          297 VASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRM  376 (440)
Q Consensus       297 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  376 (440)
                      ...+...|++++|+..|++..+..+. +...|..+..+|...|++++|+..+.+.++.++. +...|..+..++...|++
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKLDPH-NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPD-WGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCc-chhhhhcccccccccccccccchhhhhHHHhccc-hhhHHHHHHHHHHHccCH
Confidence            45577788999999999988887654 7778888888999999999999999999887654 778888899999999999


Q ss_pred             HHHHHHHHHHHHcCCCchhhHHHHHHH
Q 047359          377 EEAVRIFDYMKELKVVSSSSFVIVVSR  403 (440)
Q Consensus       377 ~~a~~~~~~~~~~~~~~~~~~~~l~~~  403 (440)
                      ++|+..|++..+..|.++.++..+...
T Consensus        88 ~~A~~~~~~a~~~~p~~~~~~~~l~~l  114 (117)
T d1elwa_          88 EEAKRTYEEGLKHEANNPQLKEGLQNM  114 (117)
T ss_dssp             HHHHHHHHHHHTTCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            999999999998888877776665543

>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=98.88  E-value=6.6e-08  Score=71.73  Aligned_cols=119  Identities=9%  Similarity=0.069  Sum_probs=95.0

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCc
Q 047359          296 FVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGR  375 (440)
Q Consensus       296 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  375 (440)
                      ....|.+.|++++|...|++..+..+. +...|..+..+|...|++++|.+.|+++++..+. +...|..++.++...|+
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~-~~~a~~~~g~~~~~~g~   93 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNMALGK   93 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHhhhccccchh-hhhhhhhhHHHHHhccccchHHHHHHHHHHHccc-chHHHHHHHHHHHHcCC
Confidence            345677889999999999999887655 7778888888999999999999999999887544 66788899999999999


Q ss_pred             HHHHHHHHHHHHHcCCCchhhHHHHHHHH--HhcccHHHHHHH
Q 047359          376 MEEAVRIFDYMKELKVVSSSSFVIVVSRL--CHLKELRKAMKN  416 (440)
Q Consensus       376 ~~~a~~~~~~~~~~~~~~~~~~~~l~~~~--~~~g~~~~a~~~  416 (440)
                      +++|...++++....|.++.++..+..+.  ...+.+++|...
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            99999999999998887777766655443  344556666554

>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=98.87  E-value=9e-08  Score=73.31  Aligned_cols=125  Identities=9%  Similarity=-0.068  Sum_probs=75.1

Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHH
Q 047359          263 NVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQID  342 (440)
Q Consensus       263 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  342 (440)
                      ..+...|++++|++.|..+    .+|+..++..+..++...|++++|++.|++..+..+. +...|..+..+|.+.|+++
T Consensus        13 ~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~-~~~a~~~~g~~~~~~g~~~   87 (192)
T d1hh8a_          13 VLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKH-LAVAYFQRGMLYYQTEKYD   87 (192)
T ss_dssp             HHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhh-hhhhHHHHHHHHHhhccHH
Confidence            3445666777777666543    2345556666666677777777777777777666544 5556666666677777777


Q ss_pred             HHHHHHHHHHhccCC-c--------------CHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC
Q 047359          343 KAIALHIKIEKLKGS-L--------------DVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV  392 (440)
Q Consensus       343 ~a~~~~~~~~~~~~~-p--------------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  392 (440)
                      +|.+.|++....... +              ...++..+..++.+.|++++|.+.++.+.+..+.
T Consensus        88 ~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~  152 (192)
T d1hh8a_          88 LAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSE  152 (192)
T ss_dssp             HHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCS
T ss_pred             HHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence            777776666543110 0              0123445555666666666666666666655443

>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=98.82  E-value=5.1e-08  Score=72.36  Aligned_cols=98  Identities=15%  Similarity=0.145  Sum_probs=88.8

Q ss_pred             HHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccH
Q 047359          331 LMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKEL  410 (440)
Q Consensus       331 l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  410 (440)
                      ....|.+.|++++|+..|++.++..+. +...|..+..+|...|++++|+..|+++.+.+|.+..+|..++.++...|++
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~   94 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKF   94 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHcCCHHHHHHHhhhccccchh-hhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCCH
Confidence            455788999999999999999998655 7889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHH
Q 047359          411 RKAMKNHDEMLKMGHKPDEAT  431 (440)
Q Consensus       411 ~~a~~~~~~m~~~~~~p~~~t  431 (440)
                      ++|...+++...  +.|+...
T Consensus        95 ~eA~~~~~~a~~--~~p~~~~  113 (159)
T d1a17a_          95 RAALRDYETVVK--VKPHDKD  113 (159)
T ss_dssp             HHHHHHHHHHHH--HSTTCHH
T ss_pred             HHHHHHHHHHHH--cCCCCHH
Confidence            999999999998  4566543

>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=98.82  E-value=3.6e-08  Score=68.05  Aligned_cols=92  Identities=7%  Similarity=-0.071  Sum_probs=81.5

Q ss_pred             HHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcc
Q 047359          329 SSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLK  408 (440)
Q Consensus       329 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  408 (440)
                      -.+...+.+.|++++|+..+++.++..+. +...|..+..++.+.|++++|+..|+++.+.+|.++.++..+...|...|
T Consensus        20 ~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g   98 (112)
T d1hxia_          20 MEEGLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEH   98 (112)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHhhhcccccc-cchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHCC
Confidence            34566788899999999999999987654 68889999999999999999999999999999889999999999999999


Q ss_pred             cHHHHHHHHHHHH
Q 047359          409 ELRKAMKNHDEML  421 (440)
Q Consensus       409 ~~~~a~~~~~~m~  421 (440)
                      ++++|++.+++.+
T Consensus        99 ~~~~A~~~l~~~l  111 (112)
T d1hxia_          99 NANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHh
Confidence            9999999998864

>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=98.80  E-value=1.9e-08  Score=78.18  Aligned_cols=100  Identities=12%  Similarity=-0.072  Sum_probs=75.5

Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHH
Q 047359          253 VRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLM  332 (440)
Q Consensus       253 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  332 (440)
                      |+...+......+.+.|++++|+..|+.+++.. +.+...|..+..+|.+.|++++|+..+++..+..+. +...|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~-~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTT-CHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCC-cHHHHHHHH
Confidence            566666777778888888888888888877764 446667777788888888888888888888766443 566777788


Q ss_pred             HHHHcCCcHHHHHHHHHHHHhc
Q 047359          333 EYYCSNRQIDKAIALHIKIEKL  354 (440)
Q Consensus       333 ~~~~~~~~~~~a~~~~~~~~~~  354 (440)
                      .+|...|++++|+..|+++.+.
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l  101 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSL  101 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHh
Confidence            8888888888888888877664

>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=98.80  E-value=4e-08  Score=76.28  Aligned_cols=120  Identities=16%  Similarity=0.100  Sum_probs=95.2

Q ss_pred             CChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHH
Q 047359          288 PCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLL  367 (440)
Q Consensus       288 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~  367 (440)
                      |+...+......+.+.|++++|+..|++.....+. +...|..+..+|.+.|++++|+..|++.++..+. +...|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~-~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~-~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTT-CHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCC-cHHHHHHHH
Confidence            66777777888899999999999999999887654 7788889999999999999999999999875443 577888999


Q ss_pred             HHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhccc
Q 047359          368 DGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKE  409 (440)
Q Consensus       368 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  409 (440)
                      .+|.+.|++++|...|+++.+..|.+...+...+..+...+.
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~l~~~~  121 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALRIAK  121 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHH
Confidence            999999999999999999887665433334344444444443

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.79  E-value=1.3e-07  Score=77.92  Aligned_cols=127  Identities=11%  Similarity=0.032  Sum_probs=53.6

Q ss_pred             HHHHhhcCcHHHHHHHHHHHHhcC----C-CCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCC-----CCChhhHHHH
Q 047359          192 IQKLSDMGKTYAAEMIFKRACDEK----I-ELQDDTCGCMLKALSKEGRVKEAIQIYHLISERGI-----TVRDSDYYAF  261 (440)
Q Consensus       192 ~~~~~~~~~~~~a~~~~~~~~~~~----~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~l  261 (440)
                      ...|...|++++|.+.|.+..+..    - ..-..+|..+..+|.+.|++++|...++...+...     .....++..+
T Consensus        44 a~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l  123 (290)
T d1qqea_          44 ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFEL  123 (290)
T ss_dssp             HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHH
Confidence            344455555555555555443311    0 00123445555555555555555555554433200     0011223333


Q ss_pred             HHHHHh-cCChHHHHHHHHHHHHc----CCCC-ChhhHHHHHHHHHcCCCHHHHHHHHHHHHh
Q 047359          262 VNVLCK-EHQPEEVCGLLRDVVER----GYIP-CAMELSRFVASQCGKGKWKEVEELLSAVLD  318 (440)
Q Consensus       262 ~~~~~~-~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  318 (440)
                      ...|.. .|++++|...++...+.    +.++ ...++..+...+...|++++|...++++..
T Consensus       124 ~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~  186 (290)
T d1qqea_         124 GEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIK  186 (290)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHH
Confidence            333322 35555555555544321    1000 112334444445555555555555555443

>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=98.76  E-value=3.8e-07  Score=69.73  Aligned_cols=125  Identities=12%  Similarity=-0.043  Sum_probs=68.6

Q ss_pred             HHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCc
Q 047359          121 FYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGK  200 (440)
Q Consensus       121 ~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  200 (440)
                      .+...|++++|++.|+++.     +|+..+|..+..++...|++++|++.|++.++.+  |+. ...|..+..++.+.|+
T Consensus        14 ~~~~~~d~~~Al~~~~~i~-----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld--p~~-~~a~~~~g~~~~~~g~   85 (192)
T d1hh8a_          14 LAADKKDWKGALDAFSAVQ-----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD--KHL-AVAYFQRGMLYYQTEK   85 (192)
T ss_dssp             HHHHTTCHHHHHHHHHTSS-----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTC-HHHHHHHHHHHHHTTC
T ss_pred             HHHHCCCHHHHHHHHHhcC-----CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh--hhh-hhhHHHHHHHHHhhcc
Confidence            4455566666665555432     2444455555555666666666666666655543  332 4455555566666666


Q ss_pred             HHHHHHHHHHHHhcCCC--------------C-CHHhHHHHHHHHhhhccHHHHHHHHHHHHHcCCCC
Q 047359          201 TYAAEMIFKRACDEKIE--------------L-QDDTCGCMLKALSKEGRVKEAIQIYHLISERGITV  253 (440)
Q Consensus       201 ~~~a~~~~~~~~~~~~~--------------~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  253 (440)
                      +++|.+.|++.......              + ...++..+..++.+.|++++|.+.+....+..+.+
T Consensus        86 ~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~  153 (192)
T d1hh8a_          86 YDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  153 (192)
T ss_dssp             HHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             HHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCc
Confidence            66666555555432100              0 11344455666777777777777777766654443

>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=98.73  E-value=4.1e-07  Score=74.93  Aligned_cols=209  Identities=9%  Similarity=-0.039  Sum_probs=144.8

Q ss_pred             CcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHc----CCCC-ChhhHHHHHHHHHhcCChHH
Q 047359          199 GKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISER----GITV-RDSDYYAFVNVLCKEHQPEE  273 (440)
Q Consensus       199 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~  273 (440)
                      +++++|.++|.+.               ...|...|++++|.+.|.+..+.    +-.+ -..+|..+..+|.+.|++++
T Consensus        31 ~~~~~Aa~~y~~a---------------a~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~   95 (290)
T d1qqea_          31 YKFEEAADLCVQA---------------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVN   95 (290)
T ss_dssp             HHHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             ccHHHHHHHHHHH---------------HHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHH
Confidence            3467777666554               55788899999999999988653    1111 23578888999999999999


Q ss_pred             HHHHHHHHHHcCC-----CCChhhHHHHHHHHH-cCCCHHHHHHHHHHHHhc----CCCC-chhhhHHHHHHHHcCCcHH
Q 047359          274 VCGLLRDVVERGY-----IPCAMELSRFVASQC-GKGKWKEVEELLSAVLDK----GLLL-DSFCCSSLMEYYCSNRQID  342 (440)
Q Consensus       274 a~~~~~~~~~~~~-----~~~~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~  342 (440)
                      |...++...+...     .....++..+...|. ..|++++|.+.+++..+.    +..+ ...++..+...+...|+++
T Consensus        96 A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~  175 (290)
T d1qqea_          96 AVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYI  175 (290)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHH
Confidence            9999998764311     112345556666664 469999999999987642    1111 1345777889999999999


Q ss_pred             HHHHHHHHHHhccCCcCH------HhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC--c---hhhHHHHHHHHHh--ccc
Q 047359          343 KAIALHIKIEKLKGSLDV------ATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV--S---SSSFVIVVSRLCH--LKE  409 (440)
Q Consensus       343 ~a~~~~~~~~~~~~~p~~------~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--~---~~~~~~l~~~~~~--~g~  409 (440)
                      +|.+.++++.........      ..+...+..+...|+++.|.+.+++..+..+.  +   ......++.++..  .+.
T Consensus       176 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~  255 (290)
T d1qqea_         176 EASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQ  255 (290)
T ss_dssp             HHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTT
T ss_pred             HHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHH
Confidence            999999998875332111      12345556777899999999999999887665  2   2245566666654  345


Q ss_pred             HHHHHHHHHHHHH
Q 047359          410 LRKAMKNHDEMLK  422 (440)
Q Consensus       410 ~~~a~~~~~~m~~  422 (440)
                      +++|+..|+++.+
T Consensus       256 ~~eai~~y~~~~~  268 (290)
T d1qqea_         256 LSEHCKEFDNFMR  268 (290)
T ss_dssp             HHHHHHHHTTSSC
T ss_pred             HHHHHHHHHHHhh
Confidence            7888888876544

>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=98.68  E-value=8.4e-08  Score=66.95  Aligned_cols=98  Identities=11%  Similarity=0.035  Sum_probs=45.1

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCC---cHHHHHHHHHHHHhccCCcCH-HhHHHHHHHHH
Q 047359          296 FVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNR---QIDKAIALHIKIEKLKGSLDV-ATYDVLLDGLF  371 (440)
Q Consensus       296 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~p~~-~~~~~l~~~~~  371 (440)
                      ++..+...+++++|++.|++....++. +..++..+..++.+.+   +.++|+.+++++...+..|+. .++..+..+|.
T Consensus         5 l~n~~~~~~~l~~Ae~~Y~~aL~~~p~-~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y~   83 (122)
T d1nzna_           5 VLNELVSVEDLLKFEKKFQSEKAAGSV-SKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNY   83 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHSCC-CHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHH
Confidence            444444445555555555555544332 4444444444444332   223355555554443332221 24444455555


Q ss_pred             hcCcHHHHHHHHHHHHHcCCCch
Q 047359          372 KDGRMEEAVRIFDYMKELKVVSS  394 (440)
Q Consensus       372 ~~g~~~~a~~~~~~~~~~~~~~~  394 (440)
                      +.|++++|++.|+++.+..|.+.
T Consensus        84 ~~g~~~~A~~~~~~aL~~~P~~~  106 (122)
T d1nzna_          84 RLKEYEKALKYVRGLLQTEPQNN  106 (122)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCH
T ss_pred             HHhhhHHHHHHHHHHHHhCcCCH
Confidence            55555555555555555544433

>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=98.65  E-value=1.6e-07  Score=65.49  Aligned_cols=104  Identities=13%  Similarity=0.084  Sum_probs=76.4

Q ss_pred             HHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcC---cHHHHHHHHHHHHHcCCCc--hhhHHHHHHH
Q 047359          329 SSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDG---RMEEAVRIFDYMKELKVVS--SSSFVIVVSR  403 (440)
Q Consensus       329 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~~~~--~~~~~~l~~~  403 (440)
                      ..++..+...+++++|.+.|++....++. +..++..+..++.+.+   ++++|+++++++...++.+  ..++..++.+
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~-~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAGSV-SKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSCC-CHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            35666777788888888888888876554 6677778888877644   4456888888887766552  3477788888


Q ss_pred             HHhcccHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 047359          404 LCHLKELRKAMKNHDEMLKMGHKPDEATYKQV  435 (440)
Q Consensus       404 ~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~l  435 (440)
                      |.+.|++++|++.|+++++  +.|+..-...+
T Consensus        82 y~~~g~~~~A~~~~~~aL~--~~P~~~~A~~l  111 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQ--TEPQNNQAKEL  111 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHH--HCTTCHHHHHH
T ss_pred             HHHHhhhHHHHHHHHHHHH--hCcCCHHHHHH
Confidence            8888888888888888888  56776544443

>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=98.61  E-value=2.1e-05  Score=63.43  Aligned_cols=224  Identities=17%  Similarity=0.149  Sum_probs=119.1

Q ss_pred             chHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhh----hccHHHHHHHHHHHHHcCCCCChhhHHHHH
Q 047359          187 GNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSK----EGRVKEAIQIYHLISERGITVRDSDYYAFV  262 (440)
Q Consensus       187 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  262 (440)
                      .+..|...+.+.+++++|.+.|++..+.|   +...+..|...|..    ..+...|...+......+..   .....+.
T Consensus         4 ~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~~---~a~~~l~   77 (265)
T d1ouva_           4 ELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNYS---NGCHLLG   77 (265)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH---HHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccccc---chhhccc
Confidence            34445555555566666666666655543   33344444444443    34566666666665554421   2222222


Q ss_pred             HHHH----hcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHH----cCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHH
Q 047359          263 NVLC----KEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQC----GKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEY  334 (440)
Q Consensus       263 ~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  334 (440)
                      ..+.    ...+.+.|...++...+.|...   ....+...+.    .......+...+......+   +...+..+...
T Consensus        78 ~~~~~~~~~~~~~~~a~~~~~~a~~~g~~~---a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~L~~~  151 (265)
T d1ouva_          78 NLYYSGQGVSQNTNKALQYYSKACDLKYAE---GCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSL  151 (265)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHTTCHH---HHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHH
T ss_pred             cccccccccchhhHHHHHHHhhhhhhhhhh---HHHhhcccccCCCcccchhHHHHHHhhhhhccc---ccchhhhhhhh
Confidence            2222    1345566666666665554221   1112211222    2344555666665555432   44455555555


Q ss_pred             HHc----CCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHh----cCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHh
Q 047359          335 YCS----NRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFK----DGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCH  406 (440)
Q Consensus       335 ~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  406 (440)
                      |..    ..+...+...++...+.|   +......+...|..    ..+.+.|...|++..+.|  ++..+..|...|.+
T Consensus       152 ~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g--~~~a~~~LG~~y~~  226 (265)
T d1ouva_         152 YDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE--NGGGCFNLGAMQYN  226 (265)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHT
T ss_pred             hccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc--CHHHHHHHHHHHHc
Confidence            553    345566666666666543   44455555555554    457788888888777764  55666667666654


Q ss_pred             ----cccHHHHHHHHHHHHHCCCCC
Q 047359          407 ----LKELRKAMKNHDEMLKMGHKP  427 (440)
Q Consensus       407 ----~g~~~~a~~~~~~m~~~~~~p  427 (440)
                          ..+.++|.+.|++..+.|..+
T Consensus       227 G~g~~~n~~~A~~~~~kAa~~g~~~  251 (265)
T d1ouva_         227 GEGVTRNEKQAIENFKKGCKLGAKG  251 (265)
T ss_dssp             TSSSSCCSTTHHHHHHHHHHHTCHH
T ss_pred             CCCCccCHHHHHHHHHHHHHCcCHH
Confidence                336777888888777766433

>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=98.56  E-value=7e-07  Score=66.69  Aligned_cols=119  Identities=10%  Similarity=-0.053  Sum_probs=87.6

Q ss_pred             hHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCc--------------hhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCC
Q 047359          292 ELSRFVASQCGKGKWKEVEELLSAVLDKGLLLD--------------SFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGS  357 (440)
Q Consensus       292 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  357 (440)
                      .+......+.+.|++++|+..|.+.........              ..+|+.+..+|.+.|++++|+..+++.++..+.
T Consensus        15 ~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~p~   94 (170)
T d1p5qa1          15 IVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELDSN   94 (170)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhcccc
Confidence            445556678888999999999998876522111              234555677788888888888888888876544


Q ss_pred             cCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHH
Q 047359          358 LDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELR  411 (440)
Q Consensus       358 p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  411 (440)
                       +...|..+..+|...|++++|...|+++.+.+|.++.+...+.....+.+...
T Consensus        95 -~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~~~~~  147 (170)
T d1p5qa1          95 -NEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQL  147 (170)
T ss_dssp             -CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHH
T ss_pred             -chhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHH
Confidence             67788888888888888888888888888888877777776666655444433

>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=98.54  E-value=2.9e-06  Score=63.19  Aligned_cols=115  Identities=12%  Similarity=-0.090  Sum_probs=81.9

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC--------------hhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCC
Q 047359          257 DYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPC--------------AMELSRFVASQCGKGKWKEVEELLSAVLDKGLL  322 (440)
Q Consensus       257 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  322 (440)
                      .+......+.+.|++++|...|...++......              ..+|+.+..+|.+.|++++|+..++......+.
T Consensus        15 ~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~p~   94 (170)
T d1p5qa1          15 IVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELDSN   94 (170)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhcccc
Confidence            445556678888899999999888876421111              134566777888889999999999888887654


Q ss_pred             CchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhc
Q 047359          323 LDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKD  373 (440)
Q Consensus       323 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  373 (440)
                       ++..+..+..+|...|++++|+..|++..+..+. +......+.....+.
T Consensus        95 -~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~-n~~~~~~l~~~~~~~  143 (170)
T d1p5qa1          95 -NEKGLSRRGEAHLAVNDFELARADFQKVLQLYPN-NKAAKTQLAVCQQRI  143 (170)
T ss_dssp             -CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHH
T ss_pred             -chhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHH
Confidence             7778888888888999999999999988886433 444544444444333

>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=98.51  E-value=8.2e-07  Score=60.99  Aligned_cols=90  Identities=17%  Similarity=-0.021  Sum_probs=69.7

Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcC
Q 047359          295 RFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDG  374 (440)
Q Consensus       295 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g  374 (440)
                      .+...+.+.|++++|...+++.....+. +...|..+..++.+.|++++|+..+++..+..+. +...|..+...|...|
T Consensus        21 ~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~la~~y~~~g   98 (112)
T d1hxia_          21 EEGLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHTNEH   98 (112)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhcccccc-cchhhhhhhhhhhhhhhHHHhhcccccccccccc-cccchHHHHHHHHHCC
Confidence            3455667778888888888888776544 6777888888888888888888888888876544 5777888888888888


Q ss_pred             cHHHHHHHHHHH
Q 047359          375 RMEEAVRIFDYM  386 (440)
Q Consensus       375 ~~~~a~~~~~~~  386 (440)
                      ++++|.+.+++.
T Consensus        99 ~~~~A~~~l~~~  110 (112)
T d1hxia_          99 NANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHH
Confidence            888888888765

>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=98.51  E-value=1.7e-06  Score=63.19  Aligned_cols=74  Identities=9%  Similarity=-0.007  Sum_probs=59.1

Q ss_pred             HhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHHHHHHHh
Q 047359          361 ATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQVI  436 (440)
Q Consensus       361 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~ll  436 (440)
                      .+|..+..+|.+.|++++|++.++++.+.+|.+..+|..++.++...|++++|+..|++.++  +.|+.......+
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~--l~P~n~~~~~~l  141 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAAS--LNPNNLDIRNSY  141 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HSTTCHHHHHHH
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHH
Confidence            46677788888888888888888888888888888888888888888888888888888887  567665544433

>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=98.50  E-value=1.2e-06  Score=61.90  Aligned_cols=91  Identities=11%  Similarity=0.131  Sum_probs=50.9

Q ss_pred             HHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCch-------hhHHHHHHH
Q 047359          331 LMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSS-------SSFVIVVSR  403 (440)
Q Consensus       331 l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-------~~~~~l~~~  403 (440)
                      +...+...|++++|++.|++.++.++. +...+..+..+|.+.|++++|++.++++.+..+.++       .+|..+...
T Consensus        10 ~G~~~~~~~~y~~Ai~~y~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~~   88 (128)
T d1elra_          10 LGNDAYKKKDFDTALKHYDKAKELDPT-NMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNS   88 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHH
Confidence            444555666666666666666655433 455556666666666666666666666555443322       234444445


Q ss_pred             HHhcccHHHHHHHHHHHHH
Q 047359          404 LCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       404 ~~~~g~~~~a~~~~~~m~~  422 (440)
                      +...+++++|++.|++...
T Consensus        89 ~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          89 YFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHh
Confidence            5555666666666665554

>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=98.41  E-value=3e-07  Score=81.90  Aligned_cols=227  Identities=11%  Similarity=-0.008  Sum_probs=108.3

Q ss_pred             hHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHH
Q 047359          166 VSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHL  245 (440)
Q Consensus       166 ~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  245 (440)
                      +|.+.+++..+..  |+. ...+..+...+...+++++|   ++++...++. .....+.  ....-...+..+.+.++.
T Consensus         4 eA~q~~~qA~~l~--p~~-a~a~~~la~~~~~~~~l~ea---ye~~i~~dp~-~a~~~~~--e~~Lw~~~y~~~ie~~r~   74 (497)
T d1ya0a1           4 QSAQYLRQAEVLK--ADM-TDSKLGPAEVWTSRQALQDL---YQKMLVTDLE-YALDKKV--EQDLWNHAFKNQITTLQG   74 (497)
T ss_dssp             HHHHHHHHHHHHH--GGG-TCSSSCSSSSHHHHHHHHHH---HHHHHHHCHH-HHHHHTH--HHHHHHHHTHHHHHHHHH
T ss_pred             HHHHHHHHHHHcC--CCC-HHHHhhHHHHHHHHchHHHH---HHHHHHcChh-hHHHHhH--HHHHHHHHHHHHHHHHHH
Confidence            5677777777643  543 55666677777777777765   5555543221 0111111  111111223455566666


Q ss_pred             HHHcCCCCChhhHHHHHHHH--HhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCC
Q 047359          246 ISERGITVRDSDYYAFVNVL--CKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLL  323 (440)
Q Consensus       246 ~~~~~~~~~~~~~~~l~~~~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  323 (440)
                      ..+....++..-.......+  ...+.++.++..+....+.. +++...+..+...+.+.|+.+.|...+.......   
T Consensus        75 ~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---  150 (497)
T d1ya0a1          75 QAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---  150 (497)
T ss_dssp             HHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC--------------------------------CCHHHHHH---
T ss_pred             hcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---
Confidence            55544333333222222221  12233444443333332221 2344455566666666777777776666554431   


Q ss_pred             chhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHH
Q 047359          324 DSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSR  403 (440)
Q Consensus       324 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  403 (440)
                      ...++..+...+...|++++|...|++..+..+. +...|+.|...+...|+..+|...|.+.....++.+.++..|...
T Consensus       151 ~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~-~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~~~~~a~~nL~~~  229 (497)
T d1ya0a1         151 CQHCLVHLGDIARYRNQTSQAESYYRHAAQLVPS-NGQPYNQLAILASSKGDHLTTIFYYCRSIAVKFPFPAASTNLQKA  229 (497)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-BSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSBCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHH
Confidence            1245556666777777777777777777775443 556777777777777777777777777777776666666666665


Q ss_pred             HHh
Q 047359          404 LCH  406 (440)
Q Consensus       404 ~~~  406 (440)
                      +.+
T Consensus       230 ~~~  232 (497)
T d1ya0a1         230 LSK  232 (497)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

>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=98.39  E-value=6.7e-06  Score=59.95  Aligned_cols=79  Identities=20%  Similarity=0.075  Sum_probs=67.8

Q ss_pred             hhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHH
Q 047359          326 FCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLC  405 (440)
Q Consensus       326 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  405 (440)
                      .+|+.+..+|.+.|++++|++.++++++..+. +..+|..+..++...|++++|...|++..+.+|.+..+...+..+..
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~-~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~  146 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKN-NVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVN  146 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhccccccch-hhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            46777888999999999999999999987544 78899999999999999999999999999999888877766655443

>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=98.33  E-value=2.1e-05  Score=58.30  Aligned_cols=95  Identities=15%  Similarity=0.069  Sum_probs=73.9

Q ss_pred             hhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHH
Q 047359          326 FCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLC  405 (440)
Q Consensus       326 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  405 (440)
                      .+|+.+..+|.+.|++++|+..+++.++..+. +...|..+..++...|++++|...|+++.+.+|.++.+...+.....
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~-~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~  143 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLDSA-NEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFMCQK  143 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcccc-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            34566777888999999999999999987554 77888899999999999999999999999998888887777776665


Q ss_pred             hcccHH-HHHHHHHHHH
Q 047359          406 HLKELR-KAMKNHDEML  421 (440)
Q Consensus       406 ~~g~~~-~a~~~~~~m~  421 (440)
                      +.+... ...+++..|.
T Consensus       144 ~~~~~~e~~kk~~~~~f  160 (168)
T d1kt1a1         144 KAKEHNERDRRTYANMF  160 (168)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHH
Confidence            555443 3444555543

>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=98.31  E-value=5.4e-06  Score=61.61  Aligned_cols=74  Identities=16%  Similarity=0.136  Sum_probs=65.0

Q ss_pred             HhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHHHHHHHh
Q 047359          361 ATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATYKQVI  436 (440)
Q Consensus       361 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~~~ll  436 (440)
                      .+|..+..+|.+.|++++|+..++++.+.+|.+..+|..+..++...|++++|...|+++++  +.|+.......+
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~--l~P~n~~~~~~l  138 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLE--VNPQNKAARLQI  138 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--SCTTCHHHHHHH
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHH
Confidence            35667888999999999999999999999999999999999999999999999999999998  677766554433

>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=98.30  E-value=0.00047  Score=55.15  Aligned_cols=148  Identities=11%  Similarity=0.041  Sum_probs=83.5

Q ss_pred             hccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHH----hcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHc----CC
Q 047359          233 EGRVKEAIQIYHLISERGITVRDSDYYAFVNVLC----KEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCG----KG  304 (440)
Q Consensus       233 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~  304 (440)
                      ..+.+.|...++...+.|..   .....+...+.    .......+...+......   .+...+..+...+..    ..
T Consensus        87 ~~~~~~a~~~~~~a~~~g~~---~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L~~~~~~~~~~~~  160 (265)
T d1ouva_          87 SQNTNKALQYYSKACDLKYA---EGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTILGSLYDAGRGTPK  160 (265)
T ss_dssp             CCCHHHHHHHHHHHHHTTCH---HHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCC
T ss_pred             chhhHHHHHHHhhhhhhhhh---hHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhhhhhhhccCCCccc
Confidence            34556666666666655432   11222222222    123345555555554443   234445555555553    35


Q ss_pred             CHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHc----CCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHh----cCcH
Q 047359          305 KWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCS----NRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFK----DGRM  376 (440)
Q Consensus       305 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~  376 (440)
                      +...+...++...+.|   +......+...|..    ..+.++|...|++..+.|   ++..+..|...|.+    ..+.
T Consensus       161 ~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~~y~~G~g~~~n~  234 (265)
T d1ouva_         161 DLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNGEGVTRNE  234 (265)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCS
T ss_pred             ccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHHHHHcCCCCccCH
Confidence            5666777777666654   44444445444543    457888888888887765   44555666666664    3467


Q ss_pred             HHHHHHHHHHHHcCCC
Q 047359          377 EEAVRIFDYMKELKVV  392 (440)
Q Consensus       377 ~~a~~~~~~~~~~~~~  392 (440)
                      +.|.+.|++..+.|..
T Consensus       235 ~~A~~~~~kAa~~g~~  250 (265)
T d1ouva_         235 KQAIENFKKGCKLGAK  250 (265)
T ss_dssp             TTHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHHCcCH
Confidence            7888888888776643

>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=98.30  E-value=9.7e-06  Score=60.30  Aligned_cols=77  Identities=8%  Similarity=0.019  Sum_probs=46.6

Q ss_pred             hhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHH
Q 047359          327 CCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRL  404 (440)
Q Consensus       327 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  404 (440)
                      .+..+..++.+.|++++|+..++++++..+. +...|..+..++...|++++|++.|+++.+..|.+..+...+..+.
T Consensus        79 ~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~-~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l~~~~  155 (169)
T d1ihga1          79 CVLNIGACKLKMSDWQGAVDSCLEALEIDPS-NTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVK  155 (169)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhcccchhhhhhhhhhhhhhh-hhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            4445555666666666666666666664433 4556666666666666666666666666666666555555554443

>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=98.28  E-value=6.1e-06  Score=61.43  Aligned_cols=72  Identities=13%  Similarity=0.053  Sum_probs=64.2

Q ss_pred             CHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHHHH
Q 047359          359 DVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEATY  432 (440)
Q Consensus       359 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~t~  432 (440)
                      ....|..+..++.+.|++++|+..++++.+..|.++.+|..++.++.+.|++++|++.|++.++  +.|+....
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~--l~p~n~~~  147 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQE--IAPEDKAI  147 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHH--hCCCCHHH
Confidence            3456777889999999999999999999999999999999999999999999999999999998  56765443

>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=98.28  E-value=2e-06  Score=76.40  Aligned_cols=228  Identities=9%  Similarity=-0.075  Sum_probs=131.7

Q ss_pred             HHHHHHHHHhcCCCCCCchh-hHHHHHHHHHhcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHH
Q 047359          130 AAFDRLNEMCNGRNLTPGFS-TYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIF  208 (440)
Q Consensus       130 ~a~~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  208 (440)
                      +|.+.|++..+   ++|+.. .+..+..++...+++++|   +++++..+  |+. ...++. -..+. ...+..+.+.+
T Consensus         4 eA~q~~~qA~~---l~p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~d--p~~-a~~~~~-e~~Lw-~~~y~~~ie~~   72 (497)
T d1ya0a1           4 QSAQYLRQAEV---LKADMTDSKLGPAEVWTSRQALQDL---YQKMLVTD--LEY-ALDKKV-EQDLW-NHAFKNQITTL   72 (497)
T ss_dssp             HHHHHHHHHHH---HHGGGTCSSSCSSSSHHHHHHHHHH---HHHHHHHC--HHH-HHHHTH-HHHHH-HHHTHHHHHHH
T ss_pred             HHHHHHHHHHH---cCCCCHHHHhhHHHHHHHHchHHHH---HHHHHHcC--hhh-HHHHhH-HHHHH-HHHHHHHHHHH
Confidence            68889999876   677644 666777788888888765   66666543  320 111111 11111 11245566777


Q ss_pred             HHHHhcCCCCCHHhHHHHHHH--HhhhccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 047359          209 KRACDEKIELQDDTCGCMLKA--LSKEGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGY  286 (440)
Q Consensus       209 ~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  286 (440)
                      +...+....++..-.......  ....+.++.++..+....+..+ ++...+..+...+.+.|+.++|...+....... 
T Consensus        73 r~~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-  150 (497)
T d1ya0a1          73 QGQAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVDL-PCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI-  150 (497)
T ss_dssp             HHHHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC--------------------------------CCHHHHHH-
T ss_pred             HHhcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCh-hhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC-
Confidence            776665444443332222222  2234556666655554443322 345667777888889999999998887766532 


Q ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHH
Q 047359          287 IPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVL  366 (440)
Q Consensus       287 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l  366 (440)
                        ...++..+...+...|++++|...|++..+..+. +...|+.+...+...|+..+|...|.+..... .|...++..|
T Consensus       151 --~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~-~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL  226 (497)
T d1ya0a1         151 --CQHCLVHLGDIARYRNQTSQAESYYRHAAQLVPS-NGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNL  226 (497)
T ss_dssp             --HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-BSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHH
T ss_pred             --HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHH
Confidence              2356777888999999999999999999988655 77899999999999999999999999998764 4577788888


Q ss_pred             HHHHHhcC
Q 047359          367 LDGLFKDG  374 (440)
Q Consensus       367 ~~~~~~~g  374 (440)
                      ...+.+..
T Consensus       227 ~~~~~~~~  234 (497)
T d1ya0a1         227 QKALSKAL  234 (497)
T ss_dssp             HHHHHHHT
T ss_pred             HHHHHHhh
Confidence            87776543

>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=98.27  E-value=1.5e-05  Score=59.51  Aligned_cols=120  Identities=10%  Similarity=0.100  Sum_probs=84.2

Q ss_pred             HHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHH
Q 047359          298 ASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRME  377 (440)
Q Consensus       298 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  377 (440)
                      ......|++++|...|......-.  ....        ......+.+...-..+...    ....+..+...+.+.|+++
T Consensus        19 ~~~~~~g~~e~A~~~~~~AL~l~r--G~~l--------~~~~~~~w~~~~r~~l~~~----~~~a~~~la~~~~~~g~~~   84 (179)
T d2ff4a2          19 VHAAAAGRFEQASRHLSAALREWR--GPVL--------DDLRDFQFVEPFATALVED----KVLAHTAKAEAEIACGRAS   84 (179)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTCC--SSTT--------GGGTTSTTHHHHHHHHHHH----HHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCc--cccc--------ccCcchHHHHHHHHHHHHH----HHHHHHHHHHHHHHCCCch
Confidence            345667888888888888776421  1100        0000111111111122221    3456778889999999999


Q ss_pred             HHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHH-----CCCCCCHHH
Q 047359          378 EAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLK-----MGHKPDEAT  431 (440)
Q Consensus       378 ~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~-----~~~~p~~~t  431 (440)
                      +|+..++++.+..|.+...|..++.+|.+.|+..+|++.|+++.+     .|+.|...+
T Consensus        85 ~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          85 AVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            999999999999999999999999999999999999999998754     689998765

>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=98.23  E-value=0.00082  Score=55.11  Aligned_cols=292  Identities=10%  Similarity=0.059  Sum_probs=142.8

Q ss_pred             CChHhHHHHHHHHHccCCcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHH
Q 047359           10 SQSDALSLVLDCYSHKGLFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVA   89 (440)
Q Consensus        10 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   89 (440)
                      ||..--..+.+.|.+.|.++.|..+|..+.         -|..++..+.+.++++.|.+++.+.      -+..+|..+.
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~---------d~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~~   76 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVS---------NFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVC   76 (336)
T ss_dssp             C----------------CTTTHHHHHHHTT---------CHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCC---------CHHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHHH
Confidence            444444556667777788888888877554         2666777777777777777766543      2456777777


Q ss_pred             HHHHhcCChHHHHHHHhcccCCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHHhcCChhhHHH
Q 047359           90 QILCRSGKFEVVLGLLDSGIYSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDR  169 (440)
Q Consensus        90 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  169 (440)
                      ..+.+......+..+-.....+......++..|-..|.+++...++..... . -.++...++.++..|++.+.    .+
T Consensus        77 ~~l~~~~e~~la~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~-~-~~~~~~~~~~L~~lyak~~~----~k  150 (336)
T d1b89a_          77 FACVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALG-L-ERAHMGMFTELAILYSKFKP----QK  150 (336)
T ss_dssp             HHHHHTTCHHHHHHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT-S-TTCCHHHHHHHHHHHHTTCH----HH
T ss_pred             HHHHhCcHHHHHHHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHc-C-CccchHHHHHHHHHHHHhCh----HH
Confidence            777777666554332222223344445677777777777777777776643 1 23345566667777766432    23


Q ss_pred             HHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHHHHc
Q 047359          170 IVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLISER  249 (440)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  249 (440)
                      +.+.+...+..-     -...+++.|.+.+-                      |..++-.|.+.|.++.|..+.-.   .
T Consensus       151 l~e~l~~~s~~y-----~~~k~~~~c~~~~l----------------------~~elv~Ly~~~~~~~~A~~~~i~---~  200 (336)
T d1b89a_         151 MREHLELFWSRV-----NIPKVLRAAEQAHL----------------------WAELVFLYDKYEEYDNAIITMMN---H  200 (336)
T ss_dssp             HHHHHHHHSTTS-----CHHHHHHHHHTTTC----------------------HHHHHHHHHHTTCHHHHHHHHHH---S
T ss_pred             HHHHHHhccccC-----CHHHHHHHHHHcCC----------------------hHHHHHHHHhcCCHHHHHHHHHH---c
Confidence            333333321101     11112233332222                      33344455555666655544322   1


Q ss_pred             CCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhH
Q 047359          250 GITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCS  329 (440)
Q Consensus       250 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  329 (440)
                        .++..-....+..+.+..+++...++.....+.  .|  ...+.++......-+..+                     
T Consensus       201 --~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~--~p--~~i~~lL~~v~~~~d~~r---------------------  253 (336)
T d1b89a_         201 --PTDAWKEGQFKDIITKVANVELYYRAIQFYLEF--KP--LLLNDLLMVLSPRLDHTR---------------------  253 (336)
T ss_dssp             --TTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH--CG--GGHHHHHHHHGGGCCHHH---------------------
T ss_pred             --chhhhhHHHHHHHHHccCChHHHHHHHHHHHHc--CH--HHHHHHHHHhccCCCHHH---------------------
Confidence              122333344555555656655555555544432  12  223334433333333322                     


Q ss_pred             HHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHH
Q 047359          330 SLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIF  383 (440)
Q Consensus       330 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~  383 (440)
                       ++..+.+.+++.....+++...+.|   +..+.+++...|...++++.-.+..
T Consensus       254 -~V~~~~k~~~l~li~p~Le~v~~~n---~~~vn~al~~lyie~~d~~~l~~~i  303 (336)
T d1b89a_         254 -AVNYFSKVKQLPLVKPYLRSVQNHN---NKSVNESLNNLFITEEDYQALRTSI  303 (336)
T ss_dssp             -HHHHHHHTTCTTTTHHHHHHHHTTC---CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             -HHHHHHhcCCcHHHHHHHHHHHHcC---hHHHHHHHHHHHhCcchhHHHHHHH
Confidence             3333344455555555665554433   3356677777777777765544433

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.20  E-value=3.5e-06  Score=60.78  Aligned_cols=69  Identities=7%  Similarity=-0.068  Sum_probs=33.7

Q ss_pred             cCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcC----------CcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHH
Q 047359          302 GKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSN----------RQIDKAIALHIKIEKLKGSLDVATYDVLLDGLF  371 (440)
Q Consensus       302 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  371 (440)
                      +.+.+++|...++...+..+. +...+..+..++...          +.+++|+..|++.++..+. +..+|..+..+|.
T Consensus         9 r~~~fe~A~~~~e~al~~~P~-~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~-~~~a~~~lG~~y~   86 (145)
T d1zu2a1           9 RILLFEQIRQDAENTYKSNPL-DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNAYT   86 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHccHHHHHHHHHHHHhhCCc-chHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcch-hhHHHhhHHHHHH
Confidence            345566666666666655433 455555555555432          2234455555555443322 3444444444444


Q ss_pred             h
Q 047359          372 K  372 (440)
Q Consensus       372 ~  372 (440)
                      .
T Consensus        87 ~   87 (145)
T d1zu2a1          87 S   87 (145)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=98.20  E-value=0.00098  Score=54.64  Aligned_cols=279  Identities=8%  Similarity=-0.008  Sum_probs=132.2

Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHhcccCCchhHHHHHHHHHhcCChhHHHHHHHHHhcCCCCCCchhhHHHHHHHHH
Q 047359           80 PNKFTWSLVAQILCRSGKFEVVLGLLDSGIYSSVMYNLVIDFYSKKGDFGAAFDRLNEMCNGRNLTPGFSTYSSILDGAR  159 (440)
Q Consensus        80 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~  159 (440)
                      ||..-...+...|.+.|.++.|..++..+.    -|..++..+.+.++++.|.+++.+..       +..+|..+...+.
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~----d~~rl~~~~v~l~~~~~avd~~~k~~-------~~~~~k~~~~~l~   80 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVS----NFGRLASTLVHLGEYQAAVDGARKAN-------STRTWKEVCFACV   80 (336)
T ss_dssp             C----------------CTTTHHHHHHHTT----CHHHHHHHHHTTTCHHHHHHHHHHHT-------CHHHHHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCC----CHHHHHHHHHhhccHHHHHHHHHHcC-------CHHHHHHHHHHHH
Confidence            444444556666777777777777776543    35666677777777777777766552       3446666666666


Q ss_pred             hcCChhhHHHHHHHHHhcCCCCcccccchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHH
Q 047359          160 RYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEA  239 (440)
Q Consensus       160 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  239 (440)
                      +......+     .+.......+  ......++..|-..|.++....+++..... -..+...++.++..|++.+. ++ 
T Consensus        81 ~~~e~~la-----~i~~~~~~~~--~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~~-~k-  150 (336)
T d1b89a_          81 DGKEFRLA-----QMCGLHIVVH--ADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFKP-QK-  150 (336)
T ss_dssp             HTTCHHHH-----HHTTTTTTTC--HHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTCH-HH-
T ss_pred             hCcHHHHH-----HHHHHHhhcC--HHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhCh-HH-
Confidence            65544332     1112222222  334455667777777777777777766543 23355566667777766532 22 


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhc
Q 047359          240 IQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDK  319 (440)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  319 (440)
                        +.+.+...+   +......++..|.+.+.++++.-++..                      .|+++.|..++-   ..
T Consensus       151 --l~e~l~~~s---~~y~~~k~~~~c~~~~l~~elv~Ly~~----------------------~~~~~~A~~~~i---~~  200 (336)
T d1b89a_         151 --MREHLELFW---SRVNIPKVLRAAEQAHLWAELVFLYDK----------------------YEEYDNAIITMM---NH  200 (336)
T ss_dssp             --HHHHHHHHS---TTSCHHHHHHHHHTTTCHHHHHHHHHH----------------------TTCHHHHHHHHH---HS
T ss_pred             --HHHHHHhcc---ccCCHHHHHHHHHHcCChHHHHHHHHh----------------------cCCHHHHHHHHH---Hc
Confidence              333333211   112233345555555555555444443                      333333322211   11


Q ss_pred             CCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHH-------------HHHHHHHhcCcHHHHHHHHHHH
Q 047359          320 GLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYD-------------VLLDGLFKDGRMEEAVRIFDYM  386 (440)
Q Consensus       320 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~-------------~l~~~~~~~g~~~~a~~~~~~~  386 (440)
                        .++..-....+..+.+..+.+...++.....+.  .|  ...+             .++..+.+.++......+++..
T Consensus       201 --~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~--~p--~~i~~lL~~v~~~~d~~r~V~~~~k~~~l~li~p~Le~v  274 (336)
T d1b89a_         201 --PTDAWKEGQFKDIITKVANVELYYRAIQFYLEF--KP--LLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSV  274 (336)
T ss_dssp             --TTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH--CG--GGHHHHHHHHGGGCCHHHHHHHHHHTTCTTTTHHHHHHH
T ss_pred             --chhhhhHHHHHHHHHccCChHHHHHHHHHHHHc--CH--HHHHHHHHHhccCCCHHHHHHHHHhcCCcHHHHHHHHHH
Confidence              112222233333344444444333333333321  11  1122             2333444455555555556555


Q ss_pred             HHcCCCchhhHHHHHHHHHhcccHHHHHHHH
Q 047359          387 KELKVVSSSSFVIVVSRLCHLKELRKAMKNH  417 (440)
Q Consensus       387 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  417 (440)
                      .+.+  +..+.+++...|...++++.-.+..
T Consensus       275 ~~~n--~~~vn~al~~lyie~~d~~~l~~~i  303 (336)
T d1b89a_         275 QNHN--NKSVNESLNNLFITEEDYQALRTSI  303 (336)
T ss_dssp             HTTC--CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHcC--hHHHHHHHHHHHhCcchhHHHHHHH
Confidence            5433  4467888888899888865544433

>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=98.12  E-value=1.8e-05  Score=55.49  Aligned_cols=95  Identities=9%  Similarity=0.128  Sum_probs=66.1

Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCC-cC-----HHhHHHHHH
Q 047359          295 RFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGS-LD-----VATYDVLLD  368 (440)
Q Consensus       295 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-p~-----~~~~~~l~~  368 (440)
                      .+...+...|++++|+..|.+..+.++. +...+..+..+|.+.|++++|++.++++++.... +.     ..+|..+..
T Consensus         9 ~~G~~~~~~~~y~~Ai~~y~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~   87 (128)
T d1elra_           9 ELGNDAYKKKDFDTALKHYDKAKELDPT-NMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGN   87 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHH
Confidence            4555677777888888888777776544 6667777777888888888888888877764321 11     135566667


Q ss_pred             HHHhcCcHHHHHHHHHHHHHcC
Q 047359          369 GLFKDGRMEEAVRIFDYMKELK  390 (440)
Q Consensus       369 ~~~~~g~~~~a~~~~~~~~~~~  390 (440)
                      .+...+++++|++.|++.....
T Consensus        88 ~~~~~~~~~~A~~~~~kal~~~  109 (128)
T d1elra_          88 SYFKEEKYKDAIHFYNKSLAEH  109 (128)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhCCHHHHHHHHHHHHhcC
Confidence            7777788888888887776654

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.06  E-value=2.3e-05  Score=56.30  Aligned_cols=68  Identities=10%  Similarity=-0.078  Sum_probs=30.8

Q ss_pred             hcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcC----------CCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHH
Q 047359          267 KEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGK----------GKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYC  336 (440)
Q Consensus       267 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  336 (440)
                      +.+.+++|...++...+.. |.+...+..+..++...          +.+++|+..+++..+..+. +..+|..+..+|.
T Consensus         9 r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~-~~~a~~~lG~~y~   86 (145)
T d1zu2a1           9 RILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNAYT   86 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcch-hhHHHhhHHHHHH
Confidence            3444555555555555543 23334444444444321          2334555555555544333 3444444444443

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=98.03  E-value=7.5e-06  Score=65.43  Aligned_cols=119  Identities=13%  Similarity=0.057  Sum_probs=57.2

Q ss_pred             cCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHH
Q 047359          302 GKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVR  381 (440)
Q Consensus       302 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~  381 (440)
                      +.|++++|+..+++..+..+. +...+..+...++..|++++|.+.++...+..+. +...+..+...+...+..+++..
T Consensus         8 ~~G~l~eAl~~l~~al~~~P~-d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~-~~~~~~~l~~ll~a~~~~~~a~~   85 (264)
T d1zbpa1           8 SEGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIKLFPE-YLPGASQLRHLVKAAQARKDFAQ   85 (264)
T ss_dssp             TTTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGG-GHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHhccccHHHHH
Confidence            446666666666666655443 5556666666666666666666666666654222 22333333333332222222221


Q ss_pred             HHHHHHHcCCC-chhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          382 IFDYMKELKVV-SSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       382 ~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                      -.......+.+ +...+......+...|+.++|.+.++++.+
T Consensus        86 ~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e  127 (264)
T d1zbpa1          86 GAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEE  127 (264)
T ss_dssp             SCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHh
Confidence            11111111111 223333344455566666666666666655

>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=97.89  E-value=0.00022  Score=53.00  Aligned_cols=60  Identities=12%  Similarity=0.063  Sum_probs=36.0

Q ss_pred             cchHHHHHHHhhcCcHHHHHHHHHHHHhcCCCCCHHhHHHHHHHHhhhccHHHHHHHHHHH
Q 047359          186 SGNDYVIQKLSDMGKTYAAEMIFKRACDEKIELQDDTCGCMLKALSKEGRVKEAIQIYHLI  246 (440)
Q Consensus       186 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  246 (440)
                      ..+..+...+.+.|++++|...++.+....+. +...|..++.+|.+.|+..+|++.|+++
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~~P~-~e~~~~~l~~al~~~Gr~~eAl~~y~~~  127 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFEHPY-REPLWTQLITAYYLSDRQSDALGAYRRV  127 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCchHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            34445556666666666666666666655443 5556666666666666666666666654

>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=97.81  E-value=1.3e-05  Score=64.07  Aligned_cols=126  Identities=14%  Similarity=0.052  Sum_probs=63.8

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHH
Q 047359          266 CKEHQPEEVCGLLRDVVERGYIPCAMELSRFVASQCGKGKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAI  345 (440)
Q Consensus       266 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  345 (440)
                      .+.|++++|+..+++.++.. +.+...+..+...++..|++++|.+.++...+..+. +...+..+...+...+..+++.
T Consensus         7 L~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~-~~~~~~~l~~ll~a~~~~~~a~   84 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPE-YLPGASQLRHLVKAAQARKDFA   84 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGG-GHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHhccccHHHH
Confidence            34566666666666666653 345566666666666667777776666666655322 2233333333322222222211


Q ss_pred             HHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCc
Q 047359          346 ALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVS  393 (440)
Q Consensus       346 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  393 (440)
                      .-.......+..++...+......+...|+.++|.+.++++.+..+..
T Consensus        85 ~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~  132 (264)
T d1zbpa1          85 QGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEK  132 (264)
T ss_dssp             TSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCC
T ss_pred             HHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCC
Confidence            110000000111122233344555667788888888887777665553

>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=97.73  E-value=0.00013  Score=53.04  Aligned_cols=91  Identities=15%  Similarity=0.005  Sum_probs=64.5

Q ss_pred             HHHHHcCCcHHHHHHHHHHHHhccCC-c----------CHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCC-------C-
Q 047359          332 MEYYCSNRQIDKAIALHIKIEKLKGS-L----------DVATYDVLLDGLFKDGRMEEAVRIFDYMKELKV-------V-  392 (440)
Q Consensus       332 ~~~~~~~~~~~~a~~~~~~~~~~~~~-p----------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~-------~-  392 (440)
                      ...+...|++++|++.|++.++.... |          ....|+.+..+|.+.|++++|.+.+++..+..+       . 
T Consensus        16 g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~   95 (156)
T d2hr2a1          16 AQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDE   95 (156)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccc
Confidence            33455667777777777777653221 1          135677888888889999888888887764321       1 


Q ss_pred             ---chhhHHHHHHHHHhcccHHHHHHHHHHHHH
Q 047359          393 ---SSSSFVIVVSRLCHLKELRKAMKNHDEMLK  422 (440)
Q Consensus       393 ---~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  422 (440)
                         ...+++.+..+|...|++++|+..|++.++
T Consensus        96 ~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          96 GKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence               123577788999999999999999998775

>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=97.61  E-value=0.00032  Score=45.74  Aligned_cols=72  Identities=13%  Similarity=0.107  Sum_probs=48.8

Q ss_pred             HHHHHHHHcCCcHHHHHHHHHHHHhccC-----CcC-HHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHH
Q 047359          329 SSLMEYYCSNRQIDKAIALHIKIEKLKG-----SLD-VATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIV  400 (440)
Q Consensus       329 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l  400 (440)
                      -.+...+.+.|++++|+..|++..+...     .++ ..++..|..++.+.|++++|+..++++.+.+|.++.+++.+
T Consensus         9 ~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~~Nl   86 (95)
T d1tjca_           9 FELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGNL   86 (95)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCHHHHHHH
Confidence            3456666777777777777777664321     111 34677777788888888888888888888777766666655

>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=0.00018  Score=47.05  Aligned_cols=69  Identities=10%  Similarity=0.024  Sum_probs=57.0

Q ss_pred             HHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCC-------chhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHH
Q 047359          360 VATYDVLLDGLFKDGRMEEAVRIFDYMKELKVV-------SSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEA  430 (440)
Q Consensus       360 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-------~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  430 (440)
                      ...+..+...+.+.|++++|+..|+++.+..+.       ...++..+..++.+.|++++|+..++++++  +.|+..
T Consensus         5 addc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~--l~P~~~   80 (95)
T d1tjca_           5 AEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE--LDPEHQ   80 (95)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHH--hCcCCH
Confidence            344557788999999999999999998765332       246789999999999999999999999998  567753

>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=97.27  E-value=0.00098  Score=48.17  Aligned_cols=92  Identities=22%  Similarity=0.177  Sum_probs=61.8

Q ss_pred             HHHcCCCHHHHHHHHHHHHhcCCC-C----------chhhhHHHHHHHHcCCcHHHHHHHHHHHHhcc-----CCcC---
Q 047359          299 SQCGKGKWKEVEELLSAVLDKGLL-L----------DSFCCSSLMEYYCSNRQIDKAIALHIKIEKLK-----GSLD---  359 (440)
Q Consensus       299 ~~~~~~~~~~a~~~~~~~~~~~~~-~----------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~p~---  359 (440)
                      .+...|++++|+..|++..+.... |          ...+|+.+..+|...|++++|.+.+++.++..     ..++   
T Consensus        18 ~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~   97 (156)
T d2hr2a1          18 RQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGK   97 (156)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccc
Confidence            334456666666666666542111 1          13467777888888888888888888876531     1111   


Q ss_pred             --HHhHHHHHHHHHhcCcHHHHHHHHHHHHHcC
Q 047359          360 --VATYDVLLDGLFKDGRMEEAVRIFDYMKELK  390 (440)
Q Consensus       360 --~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  390 (440)
                        ...+..+..+|...|++++|+..|+++.+..
T Consensus        98 ~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~  130 (156)
T d2hr2a1          98 LWISAVYSRALALDGLGRGAEAMPEFKKVVEMI  130 (156)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             hhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhh
Confidence              2356778899999999999999999987653

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=97.02  E-value=0.018  Score=39.79  Aligned_cols=81  Identities=15%  Similarity=0.147  Sum_probs=41.8

Q ss_pred             CcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHh----cCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHh----cccH
Q 047359          339 RQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFK----DGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCH----LKEL  410 (440)
Q Consensus       339 ~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~  410 (440)
                      .+.++|.+.+++..+.|   ++.....|...|..    ..+.+.|.++|++..+.+  ++.+...|...|..    ..+.
T Consensus        37 ~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~g--~~~a~~~Lg~~y~~G~gv~~d~  111 (133)
T d1klxa_          37 INKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN--DQDGCLILGYKQYAGKGVVKNE  111 (133)
T ss_dssp             SCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSSSCCCH
T ss_pred             cCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHHHHHhhhhccC--cchHHHHHHHHHHcCCccCCCH
Confidence            34555555555555543   23333334443332    335566666666665543  34444445554443    3456


Q ss_pred             HHHHHHHHHHHHCC
Q 047359          411 RKAMKNHDEMLKMG  424 (440)
Q Consensus       411 ~~a~~~~~~m~~~~  424 (440)
                      ++|.++|++..+.|
T Consensus       112 ~~A~~~~~~Aa~~G  125 (133)
T d1klxa_         112 KQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHCC
Confidence            66666666666655

>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=96.91  E-value=0.0064  Score=40.80  Aligned_cols=71  Identities=14%  Similarity=0.129  Sum_probs=39.6

Q ss_pred             cCHHhHHHHHHHHHhc---CcHHHHHHHHHHHHHcCCC-chhhHHHHHHHHHhcccHHHHHHHHHHHHHCCCCCCHH
Q 047359          358 LDVATYDVLLDGLFKD---GRMEEAVRIFDYMKELKVV-SSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGHKPDEA  430 (440)
Q Consensus       358 p~~~~~~~l~~~~~~~---g~~~~a~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  430 (440)
                      |+..+--....++.+.   .+.++++.+|+++.+.++. ....+..+..+|.+.|++++|.+.++.+++  +.|+..
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~--ieP~n~  107 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERNNK  107 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCTTCH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc--cCCCcH
Confidence            3444444455555543   2345566666666655544 234556666666666666666666666666  455543

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=96.82  E-value=0.03  Score=37.15  Aligned_cols=65  Identities=23%  Similarity=0.176  Sum_probs=37.2

Q ss_pred             HhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHHHCCC
Q 047359          361 ATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEMLKMGH  425 (440)
Q Consensus       361 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  425 (440)
                      ..++.-++.+.++|+-+.-.+++..+.+.+-.++.....+..+|.+.|...++-+++.++.+.|+
T Consensus        87 e~vdlALd~lv~~~kkd~Ld~i~~~l~kn~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          87 EHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            33444455555666666666666665554444666666666666666666666666666666554

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=96.71  E-value=0.044  Score=37.70  Aligned_cols=81  Identities=19%  Similarity=0.171  Sum_probs=40.9

Q ss_pred             CCHHHHHHHHHHHHhcCCCCchhhhHHHHHHHHc----CCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHh----cCc
Q 047359          304 GKWKEVEELLSAVLDKGLLLDSFCCSSLMEYYCS----NRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFK----DGR  375 (440)
Q Consensus       304 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~  375 (440)
                      .+.++|.+.+++..+.|   ++.....|...|..    ..+.++|.++|++..+.|   ++.....|...|..    ..+
T Consensus        37 ~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d  110 (133)
T d1klxa_          37 INKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKN  110 (133)
T ss_dssp             SCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCC
T ss_pred             cCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHHHHHhhhhccC---cchHHHHHHHHHHcCCccCCC
Confidence            34455555555555443   23333333333332    335666666666666554   23334444444443    346


Q ss_pred             HHHHHHHHHHHHHcC
Q 047359          376 MEEAVRIFDYMKELK  390 (440)
Q Consensus       376 ~~~a~~~~~~~~~~~  390 (440)
                      .++|.++|++..+.|
T Consensus       111 ~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_         111 EKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHCC
Confidence            666777776666654

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=96.05  E-value=0.098  Score=34.64  Aligned_cols=137  Identities=14%  Similarity=0.132  Sum_probs=74.5

Q ss_pred             hccHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHHc-CCCCChhhHHHHHHHHHcCCCHHHHHH
Q 047359          233 EGRVKEAIQIYHLISERGITVRDSDYYAFVNVLCKEHQPEEVCGLLRDVVER-GYIPCAMELSRFVASQCGKGKWKEVEE  311 (440)
Q Consensus       233 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~  311 (440)
                      .|..++..++..+.....   +..-|+.++.-....-+-+...+.++.+-+. ++.|.. ....++.++...+       
T Consensus        15 dG~ve~Gveii~k~~~ss---~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls~C~-Nlk~vv~C~~~~n-------   83 (161)
T d1wy6a1          15 DGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQ-NLKSVVECGVINN-------   83 (161)
T ss_dssp             TTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCS-CTHHHHHHHHHTT-------
T ss_pred             hhhHHhHHHHHHHHcccC---CccccceeeeecccccchHHHHHHHHHHhhhcCchhhh-cHHHHHHHHHHhc-------
Confidence            455666666666655542   3344555555555555555555555554332 111100 1112222222221       


Q ss_pred             HHHHHHhcCCCCchhhhHHHHHHHHcCCcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCC
Q 047359          312 LLSAVLDKGLLLDSFCCSSLMEYYCSNRQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKV  391 (440)
Q Consensus       312 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  391 (440)
                                 .+...+...+......|+-+.-.++++.+.+. -+|++...-.+..+|.+.|+..++.+++.++-+.|.
T Consensus        84 -----------~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          84 -----------TLNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             -----------CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             -----------chHHHHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence                       13444555666667777777777777776653 455666677777777777777777777777777665


Q ss_pred             C
Q 047359          392 V  392 (440)
Q Consensus       392 ~  392 (440)
                      .
T Consensus       152 K  152 (161)
T d1wy6a1         152 K  152 (161)
T ss_dssp             H
T ss_pred             H
Confidence            4

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.57  E-value=0.14  Score=34.10  Aligned_cols=74  Identities=15%  Similarity=-0.022  Sum_probs=48.1

Q ss_pred             CchhhhHHHHHHHHcC---CcHHHHHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHHHcCCCchhh
Q 047359          323 LDSFCCSSLMEYYCSN---RQIDKAIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMKELKVVSSSS  396 (440)
Q Consensus       323 ~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  396 (440)
                      |+..+--....++.+.   .+.++++.+++++.+.+..-....+..|.-+|.+.|++++|.+.++.+.+..|.+..+
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            3443433444445544   3566788888888765322123466677778888888888888888888887775544

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=95.10  E-value=0.82  Score=38.78  Aligned_cols=50  Identities=12%  Similarity=0.028  Sum_probs=20.7

Q ss_pred             HHHHHhcCChHHHHHHHhcccCCchhHHHHHHHHHhcCChhHHHHHHHHH
Q 047359           89 AQILCRSGKFEVVLGLLDSGIYSSVMYNLVIDFYSKKGDFGAAFDRLNEM  138 (440)
Q Consensus        89 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~  138 (440)
                      +..+.+.++++.....+...+.+...-.....+....|+.++|...+..+
T Consensus        79 l~~L~~~~~w~~~~~~~~~~p~~~~~~c~~~~A~~~~g~~~~a~~~~~~l  128 (450)
T d1qsaa1          79 VNELARREDWRGLLAFSPEKPGTTEAQCNYYYAKWNTGQSEEAWQGAKEL  128 (450)
T ss_dssp             HHHHHHTTCHHHHHHHCCSCCSSHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhccCHHHHHHhccCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            33444445544444433322222222333344444445554444444433

>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=92.16  E-value=2.9  Score=35.22  Aligned_cols=53  Identities=8%  Similarity=-0.111  Sum_probs=40.0

Q ss_pred             HHHHHhcCcHHHHHHHHHHHHHcCCCchhhHHHHHHHHHhcccHHHHHHHHHHHH
Q 047359          367 LDGLFKDGRMEEAVRIFDYMKELKVVSSSSFVIVVSRLCHLKELRKAMKNHDEML  421 (440)
Q Consensus       367 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  421 (440)
                      +..+...|....|...+..+....  ++.....+.....+.|.++.|+....+..
T Consensus       388 a~~L~~~g~~~~A~~e~~~l~~~~--~~~~~~~la~lA~~~g~~~~aI~a~~~~~  440 (450)
T d1qsaa1         388 VRELMYWNLDNTARSEWANLVKSK--SKTEQAQLARYAFNNQWWDLSVQATIAGK  440 (450)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTC--CHHHHHHHHHHHHHTTCHHHHHHHHHHTT
T ss_pred             HHHHHHcCCchHHHHHHHHHHhCC--CHHHHHHHHHHHHHCCChhHHHHHHHHHH
Confidence            455678899999999888776532  55566677777888999999988776653

>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=89.56  E-value=1.5  Score=27.35  Aligned_cols=63  Identities=21%  Similarity=0.186  Sum_probs=39.3

Q ss_pred             CcchHHHHHHHHHhcCCccChHhHHHHHHHHHhccchhHHHHHHHHHHHcCCCCChhhHHHHHH
Q 047359           27 LFMDGLEVYRMMRVYGFVPAVSACNALLDALYRQNEIRLASCLYGAMVRDGVSPNKFTWSLVAQ   90 (440)
Q Consensus        27 ~~~~A~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   90 (440)
                      +.-++.+-++.+......|++....+.+++|-+.+++..|..+|+-.+... .++...|..+++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~-~~~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCcHHHHHHHHH
Confidence            344555666666666667777777777777777777777777777665432 223445555443

>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=88.14  E-value=1.9  Score=26.84  Aligned_cols=44  Identities=16%  Similarity=0.048  Sum_probs=21.0

Q ss_pred             HHHHHHHHHhccCCcCHHhHHHHHHHHHhcCcHHHHHHHHHHHH
Q 047359          344 AIALHIKIEKLKGSLDVATYDVLLDGLFKDGRMEEAVRIFDYMK  387 (440)
Q Consensus       344 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  387 (440)
                      +.+-++.+....+.|++....+-+++|.+.+++..|.++|+.++
T Consensus        25 ~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK   68 (105)
T d1v54e_          25 LRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVK   68 (105)
T ss_dssp             HHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            33333344444444555555555555555555555555555444