Citrus Sinensis ID: 047221

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------51
Protein Sequence
MKLSKSSKKNLRYLSIANPYFCLRYLFSNSSQSYFSCNLKTLVSPKPSPIPSLNSDQFQSKPTSNPSYSFISSIGSSSFCHLTHPSCHSSQNLYFSNCNGSCRSQISKLGLLTSRCISSFAMVNGPYATPKQVSEIIELLRSGDSETESKLLSMSVSLSNASVIEILRVLNSEKVSALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSLGSSVEAR
Secondary Structure (PSIPRED)
cccccccHHHcccccccccHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHccccccccccHHHHHHHHHHHccHHHHcccccccccHHHccccccccHHHHHHHHHHHHcccHHHHHHHHcccccccHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHccccccEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccc
Secondary Structure Prediction (SSPRO)
ccccHHcHHHccccccccccEEHHHHHcccccccHHHHHHHHcccccccccccHHHHHccccccccHHHHHHcccHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHcccccccEEEHHHHccccccccHHHHHHHHHHHccHHHHHHHHcccccccHHHHHHHHHHccccHHHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccc
Coil and Loop (DISEMBL)
mklsksskknlrylsiANPYFCLRYLfsnssqsyfscnlktlvspkpspipslnsdqfqskptsnpsysfissigsssfchlthpschssqnlyfsncngscrsqISKLGLLTSRCISSfamvngpyatpkQVSEIIELLRSGDSETESKLLSMSVSLSNASVIEILRVLNSEKVSALCFLKYMREImpefyknsdicslvidncgrlddYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTERKVSYYNILIKEMCrrcdfkgpRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMlgrnchpdaitYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLhdknnnpvMAKNVLSEMmknglrpnVSVYRRVLKHLHTSHQEHMAKCLSSRysslslgssvear
Flexible Loop (DISEMBL)
mklsksskknlryLSIANPYFCLRYLFSNSSQSYFSCNLKTLVSPKPSPIPSLNSDQFQSKPTSNPSYSFISSIGSSSFCHLTHPSCHSSQNLYFSNCNGSCRSQISKLGLLTSRCISSFAMVNGPYATPKQVSEIIELLRSGDSETESKLLSMSVSLSNASVIEILRVLNSEKVSALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSsrysslslgssvear
Low Complexity Region (SEG)
MKLSKSSKKNLRYLSIANPYFCLRYLFSNSSQSYFSCNLKTLVSPKPSPIPSLNSDQFQSKPTsnpsysfissigsssFCHLTHPSCHSSQNLYFSNCNGSCRSQISKLGLLTSRCISSFAMVNGPYATPKQVSEIIELLRSGDSETESKLLSMSVSLSNASVIEILRVLNSEKVSALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKClssrysslslgssVEAR
Disordered region (IsUnstruct)
**********LRYLSIANPYFCLRYLFSNSSQSYFSCNLKTL****************************ISSIGSSSFCHLTHPSCHSSQNLYFSNCNGSCRSQISKLGLLTSRCISSFAMVNGPYATPKQVSEIIELL***************VSLSNASVIEILRVLNSEKVSALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLH***********VL*****NGLRPNVSVYRRVLKHLHT**************************
Disordered Region (DISOPRED)
*************LSIANPYFCLRYLFSNSSQSYFSCN***************NSDQFQSKPTSNPSYSFISSIGSSSFCHLTHPSCHSSQNLYFSNCNGSCRSQISKLGLLTSRCISSFAMVNGPYATPKQVSEIIELLRSGDSETESKLLSMSVSLSNASVIEILRVLNSEKVSALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSLGSSVE*R
Disordered Region (DISEMBL)
********KNLRYLSIANPYFCLRYLFSNSSQSYFSCNLKTLVSPKPSPIP****************YSFISSIGSSSFCHLTHPSCHSSQNLYFSNCNGSCRSQISKLGLLTSRCISSFAMVNGPYATPKQVSEIIELLRSGDSETESKLLSMSVSLSNASVIEILRVLNSEKVSALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSR*************
Disordered Region (DISPRO)
MKLSKSSKKNLRYLSIANPYFCLRYLFSNSSQSYFSCNLKTLVSPKPSPIPSLNSDQFQSKPTSNPSYSFISSIGSSSFCHLTHPSCHSSQNLYFSNCNGSCRSQISKLGLLTSRCISSFAMVNGPYATPKQVSEIIELLRSGDSETESKLLSMSVSLSNASVIEILRVLNSEKVSALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSLG******
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MKLSKSSKKNLRYLSIANPYFCLRYLFSNSSQSYFSCNLKTLVSPKPSPIPSLNSDQFQSKPTSNPSYSFISSIGSSSFCHLTHPSCHSSQNLYFSNCNGSCRSQISKLGLLTSRCISSFAMVNGPYATPKQVSEIIELLRSGDSETESKLLSMSVSLSNASVIEILRVLNSEKVSALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSLGSSVEAR
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	509	2.2.26 [Sep-21-2011]
Q9LPX2	644	Pentatricopeptide repeat-	yes	no	0.341	0.270	0.324	5e-19
Q3EDF8	598	Pentatricopeptide repeat-	no	no	0.359	0.306	0.302	3e-18
Q0WKV3	637	Pentatricopeptide repeat-	no	no	0.351	0.281	0.306	1e-17
Q9M302	659	Pentatricopeptide repeat-	no	no	0.357	0.276	0.286	7e-17
Q9ASZ8	621	Pentatricopeptide repeat-	no	no	0.387	0.317	0.278	2e-16
Q9FIX3	747	Pentatricopeptide repeat-	no	no	0.381	0.259	0.295	7e-16
Q0WVK7	741	Pentatricopeptide repeat-	no	no	0.353	0.242	0.266	1e-15
Q6NQ83	619	Pentatricopeptide repeat-	no	no	0.440	0.361	0.269	1e-15
Q76C99	791	Protein Rf1, mitochondria	N/A	no	0.359	0.231	0.279	1e-15
Q9SFV9	880	Pentatricopeptide repeat-	no	no	0.479	0.277	0.282	1e-15

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

 Score = 96.3 bits (238), Expect = 5e-19,   Method: Compositional matrix adjust.
 Identities = 58/179 (32%), Positives = 88/179 (49%)

Query: 300 NILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLG 359
           N L+  +C          L+  M + G +P  +TY  VL V+CK+GQ A A ELL +M  
Sbjct: 197 NTLVNGLCLNGKVSDAVVLIDRMVETGFQPNEVTYGPVLNVMCKSGQTALAMELLRKMEE 256

Query: 360 RNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYED 419
           RN   DA+ Y I I   C+ G  D AFN FN+M  +G +  + T+   I G+    R++D
Sbjct: 257 RNIKLDAVKYSIIIDGLCKDGSLDNAFNLFNEMEIKGFKADIITYNTLIGGFCNAGRWDD 316

Query: 420 AYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVL 478
             K +     +  S + + +S+L     K      A  +L EMM+ G+ PN   Y  ++
Sbjct: 317 GAKLLRDMIKRKISPNVVTFSVLIDSFVKEGKLREADQLLKEMMQRGIAPNTITYNSLI 375

Arabidopsis thaliana (taxid: 3702)

>sp|Q3EDF8|PPR28_ARATH Pentatricopeptide repeat-containing protein At1g09900 OS=Arabidopsis thaliana GN=At1g09900 PE=2 SV=1

 Score = 93.6 bits (231), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 59/195 (30%), Positives = 87/195 (44%)

Query: 296 VSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLE 355
           V  +NILI  +CR+       D+L +M Q GC+P +L+YN +L   CK  +   A E LE
Sbjct: 344 VVTFNILINFLCRKGLLGRAIDILEKMPQHGCQPNSLSYNPLLHGFCKEKKMDRAIEYLE 403

Query: 356 EMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFY 415
            M+ R C+PD +TY   +   C+ GK + A    NQ+  +G  P L T+   I G     
Sbjct: 404 RMVSRGCYPDIVTYNTMLTALCKDGKVEDAVEILNQLSSKGCSPVLITYNTVIDGLAKAG 463

Query: 416 RYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYR 475
           +   A K +     K      + YS L     +      A     E  + G+RPN   + 
Sbjct: 464 KTGKAIKLLDEMRAKDLKPDTITYSSLVGGLSREGKVDEAIKFFHEFERMGIRPNAVTFN 523

Query: 476 RVLKHLHTSHQEHMA 490
            ++  L  S Q   A
Sbjct: 524 SIMLGLCKSRQTDRA 538

Arabidopsis thaliana (taxid: 3702)

>sp|Q0WKV3|PPR36_ARATH Pentatricopeptide repeat-containing protein At1g12300, mitochondrial OS=Arabidopsis thaliana GN=At1g12300 PE=2 SV=1

 Score = 92.0 bits (227), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 56/183 (30%), Positives = 90/183 (49%), Gaps = 4/183 (2%)

Query: 318 LLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSC 377
           L+ +M + GC+P  +TY  VL V+CK+GQ A A ELL +M  RN   DA+ Y I I   C
Sbjct: 215 LIDKMVEYGCQPNAVTYGPVLNVMCKSGQTALAMELLRKMEERNIKLDAVKYSIIIDGLC 274

Query: 378 RVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNM 437
           + G  D AFN FN+M  +G+   + T+   I G+    R++D  K +     +  + + +
Sbjct: 275 KHGSLDNAFNLFNEMEMKGITTNIITYNILIGGFCNAGRWDDGAKLLRDMIKRKINPNVV 334

Query: 438 LYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVL----KHLHTSHQEHMAKCL 493
            +S+L     K      A+ +  EM+  G+ P+   Y  ++    K  H      M   +
Sbjct: 335 TFSVLIDSFVKEGKLREAEELHKEMIHRGIAPDTITYTSLIDGFCKENHLDKANQMVDLM 394

Query: 494 SSR 496
            S+
Sbjct: 395 VSK 397

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M302|PP270_ARATH Pentatricopeptide repeat-containing protein At3g48810 OS=Arabidopsis thaliana GN=At3g48810 PE=2 SV=1

 Score = 89.4 bits (220), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 61/213 (28%), Positives = 92/213 (43%), Gaps = 31/213 (14%)

Query: 293 ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGC------------------------- 327
           E  V  YN+L+K +C+     G + LLVEM   GC                         
Sbjct: 178 EPNVFTYNVLLKALCKNNKVDGAKKLLVEMSNKGCCPDAVSYTTVISSMCEVGLVKEGRE 237

Query: 328 -----EPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKF 382
                EP+   YN ++  LCK      A EL+ EM+ +   P+ I+Y   I   C  G+ 
Sbjct: 238 LAERFEPVVSVYNALINGLCKEHDYKGAFELMREMVEKGISPNVISYSTLINVLCNSGQI 297

Query: 383 DVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNML-YSL 441
           ++AF+F  QM+KRG  P + T ++ +KG F+     DA          +    N++ Y+ 
Sbjct: 298 ELAFSFLTQMLKRGCHPNIYTLSSLVKGCFLRGTTFDALDLWNQMIRGFGLQPNVVAYNT 357

Query: 442 LASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVY 474
           L      + N V A +V S M + G  PN+  Y
Sbjct: 358 LVQGFCSHGNIVKAVSVFSHMEEIGCSPNIRTY 390

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ASZ8|PPR37_ARATH Pentatricopeptide repeat-containing protein At1g12620 OS=Arabidopsis thaliana GN=At1g12620 PE=2 SV=1

 Score = 87.4 bits (215), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 56/201 (27%), Positives = 92/201 (45%), Gaps = 4/201 (1%)

Query: 300 NILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLG 359
           N L+  +C          L+  M + G +P  +TY  VL V+CK+GQ A A ELL +M  
Sbjct: 181 NALVNGLCLNGKVSDAVLLIDRMVETGFQPNEVTYGPVLKVMCKSGQTALAMELLRKMEE 240

Query: 360 RNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYED 419
           R    DA+ Y I I   C+ G  D AFN FN+M  +G +  +  +   I+G+    R++D
Sbjct: 241 RKIKLDAVKYSIIIDGLCKDGSLDNAFNLFNEMEIKGFKADIIIYTTLIRGFCYAGRWDD 300

Query: 420 AYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLK 479
             K +     +  +   + +S L     K      A+ +  EM++ G+ P+   Y  ++ 
Sbjct: 301 GAKLLRDMIKRKITPDVVAFSALIDCFVKEGKLREAEELHKEMIQRGISPDTVTYTSLID 360

Query: 480 HLHTSHQ----EHMAKCLSSR 496
                +Q     HM   + S+
Sbjct: 361 GFCKENQLDKANHMLDLMVSK 381

Arabidopsis thaliana (taxid: 3702)

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

 Score = 85.9 bits (211), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 59/200 (29%), Positives = 93/200 (46%), Gaps = 6/200 (3%)

Query: 216 QLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEM 275
           + L+   V  +C NE+ +  L    S K    +  +RV+  +N  G S  V    ALI  
Sbjct: 366 EFLDQMRVRGLCPNERTYTTLVDGFSQKGYMNEA-YRVLREMNDNGFSPSVVTYNALING 424

Query: 276 FSVLGLYEMAKYVIKKTERK-----VSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPI 330
             V G  E A  V++  + K     V  Y+ ++   CR  D      +  EM + G +P 
Sbjct: 425 HCVTGKMEDAIAVLEDMKEKGLSPDVVSYSTVLSGFCRSYDVDEALRVKREMVEKGIKPD 484

Query: 331 TLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFN 390
           T+TY+ ++   C+  +  +AC+L EEML     PD  TY   I   C  G  + A    N
Sbjct: 485 TITYSSLIQGFCEQRRTKEACDLYEEMLRVGLPPDEFTYTALINAYCMEGDLEKALQLHN 544

Query: 391 QMVKRGLQPRLATHAAFIKG 410
           +MV++G+ P + T++  I G
Sbjct: 545 EMVEKGVLPDVVTYSVLING 564

Arabidopsis thaliana (taxid: 3702)

>sp|Q0WVK7|PPR12_ARATH Pentatricopeptide repeat-containing protein At1g05670, mitochondrial OS=Arabidopsis thaliana GN=At1g05670 PE=2 SV=1

 Score = 85.5 bits (210), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 49/184 (26%), Positives = 85/184 (46%)

Query: 296 VSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLE 355
           V  Y  LI  +C+  D     +LL EM ++G +P   TYN ++  LCK+G   +A +L+ 
Sbjct: 456 VVTYTTLIDGLCKEGDLDSANELLHEMWKIGLQPNIFTYNSIVNGLCKSGNIEEAVKLVG 515

Query: 356 EMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFY 415
           E      + D +TY   +   C+ G+ D A     +M+ +GLQP + T    + G+ +  
Sbjct: 516 EFEAAGLNADTVTYTTLMDAYCKSGEMDKAQEILKEMLGKGLQPTIVTFNVLMNGFCLHG 575

Query: 416 RYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYR 475
             ED  K +     K  + +   ++ L   +   NN   A  +  +M   G+ P+   Y 
Sbjct: 576 MLEDGEKLLNWMLAKGIAPNATTFNSLVKQYCIRNNLKAATAIYKDMCSRGVGPDGKTYE 635

Query: 476 RVLK 479
            ++K
Sbjct: 636 NLVK 639

Arabidopsis thaliana (taxid: 3702)

>sp|Q6NQ83|PP247_ARATH Pentatricopeptide repeat-containing protein At3g22470, mitochondrial OS=Arabidopsis thaliana GN=At3g22470 PE=2 SV=1

 Score = 85.5 bits (210), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 62/230 (26%), Positives = 101/230 (43%)

Query: 277 SVLGLYEMAKYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNY 336
           S L L    K   +  +  V  Y+I+I  +C+   F     L  EM   G +   +TY+ 
Sbjct: 226 SALALDLFRKMEERNIKASVVQYSIVIDSLCKDGSFDDALSLFNEMEMKGIKADVVTYSS 285

Query: 337 VLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRG 396
           ++G LC +G+  D  ++L EM+GRN  PD +T+   I    + GK   A   +N+M+ RG
Sbjct: 286 LIGGLCNDGKWDDGAKMLREMIGRNIIPDVVTFSALIDVFVKEGKLLEAKELYNEMITRG 345

Query: 397 LQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAK 456
           + P   T+ + I G+       +A +   L   K      + YS+L + + K        
Sbjct: 346 IAPDTITYNSLIDGFCKENCLHEANQMFDLMVSKGCEPDIVTYSILINSYCKAKRVDDGM 405

Query: 457 NVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSLGSSV 506
            +  E+   GL PN   Y  ++     S + + AK L     S  +  SV
Sbjct: 406 RLFREISSKGLIPNTITYNTLVLGFCQSGKLNAAKELFQEMVSRGVPPSV 455

Arabidopsis thaliana (taxid: 3702)

>sp|Q76C99|RF1_ORYSI Protein Rf1, mitochondrial OS=Oryza sativa subsp. indica GN=Rf1 PE=2 SV=1

 Score = 85.1 bits (209), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 52/186 (27%), Positives = 86/186 (46%)

Query: 296 VSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLE 355
           V  YN +I  +C+        ++L  M + G  P  +TYN +L   C +GQ  +A   L+
Sbjct: 231 VVTYNSIIAALCKAQAMDKAMEVLNTMVKNGVMPDCMTYNSILHGYCSSGQPKEAIGFLK 290

Query: 356 EMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFY 415
           +M      PD +TY + + Y C+ G+   A   F+ M KRGL+P + T+   ++GY    
Sbjct: 291 KMRSDGVEPDVVTYSLLMDYLCKNGRCMEARKIFDSMTKRGLKPEITTYGTLLQGYATKG 350

Query: 416 RYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYR 475
              + +  + L         + ++S+L   + K      A  V S+M + GL PN   Y 
Sbjct: 351 ALVEMHGLLDLMVRNGIHPDHYVFSILICAYAKQGKVDQAMLVFSKMRQQGLNPNAVTYG 410

Query: 476 RVLKHL 481
            V+  L
Sbjct: 411 AVIGIL 416

Reduces the expression of the cytoplasmic male sterility (CMS)-associated mitochondrial gene ORF79, encoding a cytotoxic peptide. Can restore male fertility by blocking ORF79 production via endonucleolytic cleavage of dicistronic ATP6/ORF79 mRNA. Promotes the editing of ATP6 mRNAs independently of its cleavage function.

Oryza sativa subsp. indica (taxid: 39946)

>sp|Q9SFV9|PP218_ARATH Pentatricopeptide repeat-containing protein At3g07290, mitochondrial OS=Arabidopsis thaliana GN=At3g07290 PE=2 SV=1

 Score = 85.1 bits (209), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 70/248 (28%), Positives = 113/248 (45%), Gaps = 4/248 (1%)

Query: 250 IWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTERKVSYYNILIKEMCRR 309
           I ++  VL+   G+ L+ G    + +   L ++++    +      VSY +ILI  +C  
Sbjct: 221 ILKIGFVLDSHIGTSLLLGFCRGLNLRDALKVFDVMSKEVTCAPNSVSY-SILIHGLCEV 279

Query: 310 CDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITY 369
              +    L  +M + GC+P T TY  ++  LC  G    A  L +EM+ R C P+  TY
Sbjct: 280 GRLEEAFGLKDQMGEKGCQPSTRTYTVLIKALCDRGLIDKAFNLFDEMIPRGCKPNVHTY 339

Query: 370 EIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYV-VLSA 428
            + I   CR GK + A     +MVK  + P + T+ A I GY    R   A++ + V+  
Sbjct: 340 TVLIDGLCRDGKIEEANGVCRKMVKDRIFPSVITYNALINGYCKDGRVVPAFELLTVMEK 399

Query: 429 DKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHL-HTSHQE 487
              K +      L+  L  +   P  A ++L  M+ NGL P++  Y  ++  L    H  
Sbjct: 400 RACKPNVRTFNELMEGLC-RVGKPYKAVHLLKRMLDNGLSPDIVSYNVLIDGLCREGHMN 458

Query: 488 HMAKCLSS 495
              K LSS
Sbjct: 459 TAYKLLSS 466

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	509
359495268	582	PREDICTED: pentatricopeptide repeat-cont	0.752	0.658	0.569	1e-120
255569134	430	pentatricopeptide repeat-containing prot	0.736	0.872	0.543	1e-109
224146290	432	predicted protein [Populus trichocarpa]	0.797	0.939	0.519	1e-106
449447209	494	PREDICTED: pentatricopeptide repeat-cont	0.850	0.876	0.422	2e-88
356573667	390	PREDICTED: putative pentatricopeptide re	0.736	0.961	0.432	3e-76
358345964	448	Pentatricopeptide repeat-containing prot	0.738	0.839	0.416	2e-75
293332843	430	uncharacterized protein LOC100381604 [Ze	0.730	0.865	0.376	3e-58
358346864	327	Pentatricopeptide repeat-containing prot	0.634	0.987	0.385	4e-57
242042461	422	hypothetical protein SORBIDRAFT_01g04926	0.721	0.869	0.365	5e-57
115450361	436	Os03g0119700 [Oryza sativa Japonica Grou	0.671	0.784	0.358	5e-53

>gi|359495268|ref|XP_003634944.1| PREDICTED: pentatricopeptide repeat-containing protein At5g16420, mitochondrial-like [Vitis vinifera]

 Score =  437 bits (1125), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 218/383 (56%), Positives = 277/383 (72%)

Query: 126 PYATPKQVSEIIELLRSGDSETESKLLSMSVSLSNASVIEILRVLNSEKVSALCFLKYMR 185
           P  +PK++SEII+++RS + + E KL  M++ LS ASV EI RVLN E++SA+ F +++ 
Sbjct: 199 PNMSPKRISEIIKVIRSDEIDMEVKLNLMNLRLSVASVTEIFRVLNLERLSAMRFFEWIS 258

Query: 186 EIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKAL 245
                  +N DICSL+IDNCGRL DYETMR LL DFN  +VCL  KAFGF+PV   SKA 
Sbjct: 259 HSRSGLSRNYDICSLIIDNCGRLGDYETMRCLLKDFNSKRVCLTSKAFGFVPVFTLSKAS 318

Query: 246 TKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTERKVSYYNILIKE 305
               + +++EVL+ VGG C  SG+  LIEMFSV G +EMAK+V++ TERK SYYNIL++E
Sbjct: 319 IMDFVRKLIEVLDDVGGVCRRSGLFGLIEMFSVSGSFEMAKFVMEITERKTSYYNILVRE 378

Query: 306 MCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPD 365
           MCR+C+FK  RDLL EMR  GC P   TYNY+L  LCKN +D +AC +LEEM    C PD
Sbjct: 379 MCRKCNFKEARDLLDEMRLFGCRPNAKTYNYLLSSLCKNNRDDEACNVLEEMQEAGCPPD 438

Query: 366 AITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVV 425
           A+T+EIFI Y+ R+GK D A  F +QMV RGL+PRL THAAFIKGYF   RYE+AY+YVV
Sbjct: 439 ALTFEIFIYYTYRLGKLDFAIKFLDQMVSRGLEPRLTTHAAFIKGYFHSRRYEEAYEYVV 498

Query: 426 LSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSH 485
            S   YK  SNM+YSLLASLH +N N + A+ +L EM++ GL+PN SVY+RVL+HL  S 
Sbjct: 499 DSGVTYKWPSNMIYSLLASLHQRNGNLISAQKILIEMIEKGLKPNFSVYKRVLEHLDKSG 558

Query: 486 QEHMAKCLSSRYSSLSLGSSVEA 508
           +E +A  L SR+SSLS  SS E 
Sbjct: 559 REDLAGDLRSRFSSLSFQSSTET 581

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255569134|ref|XP_002525536.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223535215|gb|EEF36894.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  402 bits (1034), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 205/377 (54%), Positives = 267/377 (70%), Gaps = 2/377 (0%)

Query: 126 PYATPKQVSEIIELLRSGDSETESKLLSMSVSLSNASVIEILRVLNSEKVSALCFLKYMR 185
           P AT KQVS II LL + D+E E+KL S+ V LS  SV  + +VLN EK SAL F  ++R
Sbjct: 54  PKATRKQVSVIIGLLITEDNELETKLNSLGVRLSIGSVRWVFQVLNREKKSALQFFHWIR 113

Query: 186 EIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKAL 245
              PE   NSDICSLVIDNCG LDDY+ MR LL+ F++ ++ L +KAF +L +  S + L
Sbjct: 114 RWQPELEGNSDICSLVIDNCGHLDDYKAMRCLLDGFSLQRLFLTKKAFEYLQLTSSKEEL 173

Query: 246 TKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTERKVSYYNILIKE 305
            KK    VV++L ++GG+   +GV +LIEMFS LG ++MAK+VI+KT RK+SYYN+LI+E
Sbjct: 174 LKKATQNVVDILQEIGGTSYGTGVPSLIEMFSDLGSFDMAKFVIEKTGRKLSYYNVLIRE 233

Query: 306 MCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPD 365
           +CRR DFK  RDL+ E+ + GC P   TYNY++  L KNG++ADACE+ +EM   +C PD
Sbjct: 234 LCRRGDFKAARDLMDEIGKEGCNPSAHTYNYIISSLLKNGKNADACEVFQEMQDNDCPPD 293

Query: 366 AITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVV 425
           A+T+EIFI  SC  GK D AF FF+ MV RGL+PRL THAAFIKG+F   +YE AYKYVV
Sbjct: 294 ALTFEIFIYNSCNEGKLDNAFEFFDDMVARGLEPRLLTHAAFIKGFFNSQQYEKAYKYVV 353

Query: 426 LSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSH 485
            S DKY  SSN+ YSLLA+LH K  N V A+N+LSEM+K GLRP+ +V+ +V KHL  S 
Sbjct: 354 GSDDKY--SSNVNYSLLANLHQKQGNLVDAENILSEMIKKGLRPHFNVFMKVKKHLMKSG 411

Query: 486 QEHMAKCLSSRYSSLSL 502
            E +A  L  ++  L +
Sbjct: 412 NEELATSLQKKFLQLEV 428

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224146290|ref|XP_002325952.1| predicted protein [Populus trichocarpa] gi|222862827|gb|EEF00334.1| predicted protein [Populus trichocarpa]

 Score =  391 bits (1005), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 218/420 (51%), Positives = 284/420 (67%), Gaps = 14/420 (3%)

Query: 88  HSSQ--NLYF--SNCNGSCRSQISKLGLLTSRCISSFAMVNG---PYATPKQVSEIIELL 140
           H+SQ  NLYF  S+ +G  R      G  TS       M  G   P A  KQV+ II+L+
Sbjct: 16  HNSQSLNLYFFKSSIHGYLR------GYKTSSFDVYKEMGTGRVRPKAMQKQVAYIIDLI 69

Query: 141 RSGDSETESKLLSMSVSLSNASVIEILRVLNSEKVSALCFLKYMREIMPEFYKNSDICSL 200
           +  + + E KL S+SV LS ASV  +  VLNSEKVSAL F +++R   PE   NSDICSL
Sbjct: 70  KRDEYDLEYKLGSLSVKLSIASVTLVFHVLNSEKVSALRFFRWIRHWQPELRCNSDICSL 129

Query: 201 VIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQV 260
           VIDNCGRLDDY+ MR LLN+FN  Q+CL +KAF FL V+  +     +   RV+ +L +V
Sbjct: 130 VIDNCGRLDDYDAMRSLLNEFNENQLCLTKKAFEFLHVMNVTNESLVESTQRVIVLLLEV 189

Query: 261 GGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLV 320
            GSC    V +LIEMFSVLG ++M ++V+KKTERK+SYY I I+EMCRRCDFKG RD+  
Sbjct: 190 RGSCY-GWVSSLIEMFSVLGSFDMVEFVMKKTERKISYYYIFIREMCRRCDFKGVRDIQD 248

Query: 321 EMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVG 380
           EMR+ G E     YNY++  L KNG+ ADAC++L EM  ++C PDA+T+EIFI Y C  G
Sbjct: 249 EMRKEGFELNARIYNYLISCLLKNGEYADACKVLTEMQDKDCPPDALTFEIFIYYCCNNG 308

Query: 381 KFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYS 440
           K ++A ++F+++V RGL+PRL+THAAFIKG+F   +YE+AYKYVV S  KYK +S M YS
Sbjct: 309 KTEIACHYFDEIVARGLEPRLSTHAAFIKGFFNSEQYEEAYKYVVDSDKKYKCTSCMNYS 368

Query: 441 LLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSL 500
           LLA LH K  N V+A+N+LSEM+K GLRP   VY +V   L+ S +E +A  L  ++  L
Sbjct: 369 LLARLHQKRGNLVIAQNILSEMIKKGLRPYFKVYMKVFNCLNKSGRETLATDLQEQFHQL 428

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449447209|ref|XP_004141361.1| PREDICTED: pentatricopeptide repeat-containing protein At1g05670, mitochondrial-like [Cucumis sativus] gi|449498723|ref|XP_004160616.1| PREDICTED: pentatricopeptide repeat-containing protein At1g05670, mitochondrial-like [Cucumis sativus]

 Score =  333 bits (853), Expect = 2e-88,   Method: Compositional matrix adjust.
 Identities = 191/452 (42%), Positives = 277/452 (61%), Gaps = 19/452 (4%)

Query: 72  SSIGSSSFCHLTHPSCHSSQNLYFSNCNG---------------SCRSQISKLGLLTSRC 116
           S+ GSS  C+ T  S  S     F  CNG               SCR+  S   L   +C
Sbjct: 46  SAAGSSLICNSTSQSVPSL--CLFERCNGGTSDLNLALFRHHYRSCRA-FSSFSLEKRQC 102

Query: 117 ISSFAMVNGPYATPKQVSEIIELLRSGDSETESKLLSMSVSLSNASVIEILRVLNSEKVS 176
            +    V+    T  Q+S II ++R    + ESKL S +V L+N  V +IL +LN  K+S
Sbjct: 103 GTGNLNVSKRNVTSNQLSNIINIIRENQEDLESKLDSPNVRLTNVLVGQILEMLNKHKIS 162

Query: 177 ALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFL 236
           A  F  ++     +F  NSD+ SL+IDN GRLDDYE +  +L +F +  + LN KAFGFL
Sbjct: 163 ASRFFNWVSVQSCKFPCNSDVYSLLIDNFGRLDDYEGILPVLIEFGLKGIELNHKAFGFL 222

Query: 237 PVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTERKV 296
            + +S++   K  + ++V++LN+ GG+C +SG+ ALIEMF  LG + MAK+VI+ TE++ 
Sbjct: 223 -LPLSNEHSMKLSVVKLVKLLNEAGGTCRLSGIMALIEMFCSLGSFGMAKFVIEITEKRS 281

Query: 297 SYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEE 356
           S+Y I+++E C++ DF+G R  L EMRQVGC P     NY+L  LCKN +  +A  LLEE
Sbjct: 282 SFYYIIVREKCKQKDFEGARCTLDEMRQVGCIPDAGILNYLLSSLCKNDKFGEAHNLLEE 341

Query: 357 MLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYR 416
           ML +NC P+++T+EI I + C++G  + A  + + MV  GL PRL+THAAF+K YF   R
Sbjct: 342 MLEQNCSPNSLTFEIIICHLCKIGNIESALGYLDMMVAGGLMPRLSTHAAFVKSYFSSQR 401

Query: 417 YEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRR 476
           YE+AY+Y V S+ KY ++ N  YSLLA+LH+K  N V A+ +LSE+M  GL+P+  VY R
Sbjct: 402 YEEAYQYAVDSSLKYVTTQNATYSLLATLHEKRGNLVDAQKILSELMDAGLKPHFHVYTR 461

Query: 477 VLKHLHTSHQEHMAKCLSSRYSSLSLGSSVEA 508
           +LK L    +  +A  L  + S++SL S ++ 
Sbjct: 462 LLKKLQVQGRGDLANDLKRKISNVSLQSGIQT 493

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356573667|ref|XP_003554979.1| PREDICTED: putative pentatricopeptide repeat-containing protein At3g16890, mitochondrial-like [Glycine max]

 Score =  292 bits (748), Expect = 3e-76,   Method: Compositional matrix adjust.
 Identities = 162/375 (43%), Positives = 241/375 (64%)

Query: 126 PYATPKQVSEIIELLRSGDSETESKLLSMSVSLSNASVIEILRVLNSEKVSALCFLKYMR 185
           P+AT +Q  +II L+R    E  SKL SM+VSLS+ASV++I ++L SEKVSAL F  +++
Sbjct: 13  PHATSEQFYQIIALIREDVDELGSKLNSMNVSLSDASVVDIFQILASEKVSALQFFDFLK 72

Query: 186 EIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKAL 245
              PE   + DI SL I+NCG L +YE M  +L+ F+  +V L  KAFGFL  L   KA 
Sbjct: 73  GSDPELCCDPDIGSLFINNCGLLGNYEAMVPVLSGFSHRRVFLGMKAFGFLLDLGLDKAS 132

Query: 246 TKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTERKVSYYNILIKE 305
           + + + +V+ V N+VGG     GV+ LIEMF + G +E+A++VI+   RKV +Y++L++ 
Sbjct: 133 SMECVRKVMAVFNKVGGMYQSCGVQLLIEMFGLSGSFEIAEFVIRTAGRKVKHYHVLMRI 192

Query: 306 MCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPD 365
           +C+  D K   DL+ EM++ GC+    TYN +L  LCKNG+  +A +LLE M       +
Sbjct: 193 LCKSGDCKRVSDLVKEMKRSGCDMDVSTYNLLLSCLCKNGKIDEAWQLLEAMEKNYGLTN 252

Query: 366 AITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVV 425
           A +++I I + C+  +FD      ++M  +G++P + THAA IK YF   +YE+A++YV+
Sbjct: 253 AHSFDILINFLCKRRQFDSVLKLLDKMFLKGIEPSILTHAAIIKSYFESGKYEEAHEYVI 312

Query: 426 LSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSH 485
            SA++   SSN  Y LLA+L  KN N ++A  VLSEMM  GL+PN SVY+++ KHL    
Sbjct: 313 GSANRLSYSSNANYGLLATLQLKNGNVLLACKVLSEMMDKGLKPNFSVYKKIRKHLEKKD 372

Query: 486 QEHMAKCLSSRYSSL 500
           ++ ++  L  RYSSL
Sbjct: 373 EKDLSLELLRRYSSL 387

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358345964|ref|XP_003637044.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|358346621|ref|XP_003637365.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355502979|gb|AES84182.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355503300|gb|AES84503.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  290 bits (741), Expect = 2e-75,   Method: Compositional matrix adjust.
 Identities = 157/377 (41%), Positives = 237/377 (62%), Gaps = 1/377 (0%)

Query: 124 NGPYATPKQVSEIIELLRSGDSETESKLLSMSVSLSNASVIEILRVLNSEKVSALCFLKY 183
           N PYAT KQVS+II ++  GD+  E +L  M+VSLS ASVI I   L S++VSAL F  +
Sbjct: 70  NKPYATSKQVSQIIAMVIEGDNGLEHRLNMMNVSLSMASVIYIFDALASQRVSALMFFHW 129

Query: 184 MREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSK 243
           +    PE   + +I   V+DNCG L D++ M  +L DFN  +VCL  +AF FL VL   +
Sbjct: 130 LNVSHPELCCDPEIGCCVVDNCGLLRDFDAMVPILRDFNSKRVCLGRRAFRFLVVLWLDE 189

Query: 244 ALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTERKVSYYNILI 303
             ++  I R+V VL +VGG C  SGV+ LIE+ S  G++++A++VI +  R V  YN L+
Sbjct: 190 D-SRMDIVRIVNVLKEVGGVCQSSGVKVLIELLSFSGIFDVAEFVIGEAGRNVDRYNFLL 248

Query: 304 KEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCH 363
           + +C+R D++   DL+ +M+++G EP   TYN ++  L K G  A+AC++LE M   N  
Sbjct: 249 RMICKRGDYERVVDLVEKMKKIGVEPNGSTYNLLISCLFKIGNFAEACQVLETMENENGL 308

Query: 364 PDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKY 423
               T++  I   C+ G+ D+A  F ++M  +G++P   THAA IK YF   +Y++A++Y
Sbjct: 309 SKEFTFDTIIRLLCKHGQIDLALKFIDKMTLKGVEPCSLTHAAVIKCYFELGKYDEAHEY 368

Query: 424 VVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHT 483
           VV+ A K   SSN  Y+LLASLH K  + ++++ +L EMM  GL+PN SVY ++ K+   
Sbjct: 369 VVVCAGKNSYSSNENYTLLASLHFKKGSVLLSQRILHEMMDKGLKPNYSVYMKIRKYFEK 428

Query: 484 SHQEHMAKCLSSRYSSL 500
            ++  ++  LS RY+SL
Sbjct: 429 KNKTDLSLELSRRYTSL 445

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|293332843|ref|NP_001167893.1| uncharacterized protein LOC100381604 [Zea mays] gi|223944699|gb|ACN26433.1| unknown [Zea mays] gi|414864420|tpg|DAA42977.1| TPA: hypothetical protein ZEAMMB73_690405 [Zea mays]

 Score =  232 bits (592), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 142/377 (37%), Positives = 211/377 (55%), Gaps = 5/377 (1%)

Query: 136 IIELLRSGDSETESKLLSM-SVSLSNASVIEILRVLNSEKVSALCFLKYMREIMPEFYKN 194
           I+ L+ +G    E+ L  + S  LS+  V  +LR L    V A  F  +   +   F   
Sbjct: 45  IVCLVVAGGGGLEADLDRLFSAVLSHGLVSSVLRALTDRGVPAERFFAWASSLGRGFSPG 104

Query: 195 SDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFL-PVLISSKALTKKGIWR- 252
               +L+++N GRLDDY  M + L   +  ++ L ++AF FL P   SS++ + +   R 
Sbjct: 105 PRAYNLLVENAGRLDDYGAMSRALALMSERRLSLTDRAFAFLAPSSGSSRSGSVEDAARA 164

Query: 253 VVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTERKVSYYNILIKEMCRRCDF 312
           V+  L+ VGG C  SGV +L++  + +G ++ A  VI++T RKV YYN+L+   C+  DF
Sbjct: 165 VLRALDGVGGPCRASGVFSLVKALASIGEFDAAVLVIEETARKVRYYNVLVAAKCKAGDF 224

Query: 313 KGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEM--LGRNCHPDAITYE 370
            G R++  EMR+ G +P   T+NY+LG L K G+ A+AC L+E M  L R+  P ++TYE
Sbjct: 225 VGAREVFDEMRRSGSDPDANTWNYLLGCLLKKGRLAEACGLVEAMERLKRSEIPSSLTYE 284

Query: 371 IFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADK 430
           I   ++C+ GK D A    +QM    L PR+  H+AFIKGYF   R EDA KYV   + +
Sbjct: 285 ILTYHACKAGKMDSAMQILDQMFSENLTPRITIHSAFIKGYFYAGRIEDACKYVSDMSTR 344

Query: 431 YKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMA 490
            + S N  YSLLA L  K+   + A  VL E+M+ GLRP+ S Y +V K LH   + ++A
Sbjct: 345 DRHSVNRNYSLLAKLLWKSGRTIDAGRVLYELMEKGLRPDHSAYVKVAKDLHKMGKGNLA 404

Query: 491 KCLSSRYSSLSLGSSVE 507
             L   +   S+ S  E
Sbjct: 405 CELKMMFQRFSVNSRSE 421

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358346864|ref|XP_003637484.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355503419|gb|AES84622.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  229 bits (583), Expect = 4e-57,   Method: Compositional matrix adjust.
 Identities = 131/340 (38%), Positives = 200/340 (58%), Gaps = 17/340 (5%)

Query: 161 ASVIEILRVLNSEKVSALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLND 220
           ASVI I   L S++VSAL F  ++    PE   + +I   V+DNCG L D++ M  +L D
Sbjct: 2   ASVIYIFDALASQRVSALMFFHWLNVSHPELCCDPEIGCCVVDNCGLLRDFDAMVPILRD 61

Query: 221 FNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLG 280
           FN  +VCL  +AF FL VL   +  ++  I R+V VL +VGG C  SGV+ LIE+ S  G
Sbjct: 62  FNSKRVCLGRRAFRFLVVLWLDED-SRMDIVRIVNVLKEVGGVCQSSGVKVLIELLSFSG 120

Query: 281 LYEMAKYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGV 340
           ++++A++VI +  R V  YN L++ +C+R D++   DL+ +M                  
Sbjct: 121 IFDVAEFVIGEAGRNVDRYNFLLRMICKRGDYERVVDLVEKM----------------NC 164

Query: 341 LCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPR 400
           L K G  A+AC++LE M   N      T++  I   C+ G+ D+A  F ++M  +G++P 
Sbjct: 165 LFKIGNFAEACQVLETMENENGLSKEFTFDTIIRLLCKHGQIDLALKFIDKMTLKGVEPC 224

Query: 401 LATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLS 460
             THAA IK YF   +Y++A++YVV+ A K   SSN  Y+LLASLH K  + ++++ +L 
Sbjct: 225 SLTHAAVIKCYFELGKYDEAHEYVVVCAGKNSYSSNENYTLLASLHFKKGSVLLSQRILH 284

Query: 461 EMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSL 500
           EMM  GL+PN SVY ++ K+    ++  ++  LS RY+SL
Sbjct: 285 EMMDKGLKPNYSVYMKIRKYFEKKNKTDLSLELSRRYTSL 324

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242042461|ref|XP_002468625.1| hypothetical protein SORBIDRAFT_01g049260 [Sorghum bicolor] gi|241922479|gb|EER95623.1| hypothetical protein SORBIDRAFT_01g049260 [Sorghum bicolor]

 Score =  228 bits (581), Expect = 5e-57,   Method: Compositional matrix adjust.
 Identities = 136/372 (36%), Positives = 199/372 (53%), Gaps = 5/372 (1%)

Query: 136 IIELLRSGDSETESKLLSM-SVSLSNASVIEILRVLNSEKVSALCFLKYMREIMPEFYKN 194
           I+ L+ +G    E+ L  + + +LS+  V   LR L    V A  F  +   +   F   
Sbjct: 45  IVRLVAAGGGGLEADLDRLFAATLSHGLVSSALRALTDSGVPAERFFAWASSLGRGFSPG 104

Query: 195 SDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKAL--TKKGIWR 252
               +L+++N GRL D   M + L   +   + L ++AF FL +   S      +     
Sbjct: 105 PRAHNLLVENTGRLGDCGAMSRALALMSERMLPLTDRAFAFLALSSGSSRSGSVEDSTTS 164

Query: 253 VVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTERKVSYYNILIKEMCRRCDF 312
           V+  L+ VGG C  SGV +L++  + +G ++ A  VI++T RKV YYN+L+   C+  DF
Sbjct: 165 VLRALDGVGGPCRASGVFSLVKALASIGEFDAAVSVIEETTRKVRYYNVLVAAKCKAGDF 224

Query: 313 KGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCH--PDAITYE 370
            G R++  EMR+ G +P   T+NY+LG L KNG+ A+AC L+E M    C   P+++TYE
Sbjct: 225 VGAREVFDEMRKSGSDPDANTWNYLLGCLLKNGRLAEACGLVEAMERLKCSEIPNSLTYE 284

Query: 371 IFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADK 430
           I   ++C+ GK D A    NQM    L PR+  H+AFIKGYF   R EDA KYV   + +
Sbjct: 285 ILTYHACKAGKMDSAMQILNQMFSENLTPRITIHSAFIKGYFYAGRIEDACKYVNDMSTR 344

Query: 431 YKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMA 490
            + S N  YSLLA L  K+   V A  VL E+M  GLRP+ S Y +V K LH   +  +A
Sbjct: 345 DRHSVNRNYSLLAKLLRKSGRTVDAGRVLYELMDKGLRPDHSAYVKVAKDLHKMGRGDLA 404

Query: 491 KCLSSRYSSLSL 502
             L   +   S+
Sbjct: 405 SELKMMFQRFSV 416

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|115450361|ref|NP_001048781.1| Os03g0119700 [Oryza sativa Japonica Group] gi|113547252|dbj|BAF10695.1| Os03g0119700, partial [Oryza sativa Japonica Group]

 Score =  215 bits (547), Expect = 5e-53,   Method: Compositional matrix adjust.
 Identities = 126/351 (35%), Positives = 194/351 (55%), Gaps = 9/351 (2%)

Query: 136 IIELLRSGDSETESKLLSMSVSLSNASVIEILRVLNSEKVSALCFLKYMREIMPEFYKNS 195
           I+ L+ +G    E+ L  +  +LS+  V   LR L    + A  F  ++  +   F  ++
Sbjct: 65  IVRLVAAGGRSLEADLDRLDPALSHPIVSATLRALTDRGLPAARFFDWL-ALRRGFSPSA 123

Query: 196 DICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVE 255
              +L+++N G L DY  M + +   +  +V L E+AF FL    +S+   +     ++ 
Sbjct: 124 HAHNLLVENAGSLADYRAMSRAMESMSTRRVPLTERAFAFLN---TSQGSARDTAIAILA 180

Query: 256 VLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTERKVSYYNILIKEMCRRCDFKGP 315
            L++VGG C  SGV +L++  + +G ++ A  VI++T R   YYN LI   C+  DF G 
Sbjct: 181 TLDEVGGPCRASGVFSLVKALASIGEFDAAMSVIQETARGARYYNALIAVKCKTGDFHGA 240

Query: 316 RDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCH---PDAITYEIF 372
           R++  EMR+ G  P + ++NY+LG L KNG+ A+ACEL+E M  R+ H   P+++TYEI 
Sbjct: 241 REVFDEMRRSGFGPNSNSWNYLLGCLLKNGRVAEACELVEAM-ERSEHNDIPNSLTYEIL 299

Query: 373 IVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYK 432
             ++C+ G+ D A    +QM    L PR+  H AFIKGY    R +DA +YV   + + +
Sbjct: 300 AYHACKAGRMDSAMRILDQMFLEKLTPRITIHTAFIKGYLYAGRIDDACRYVSAMSTRDR 359

Query: 433 SSSNMLYSLLASLHDKNNNPVMAKNVLSEMM-KNGLRPNVSVYRRVLKHLH 482
            S N  YSLLA L  K    V A  +L E+M K  L P+ S Y RV+K LH
Sbjct: 360 RSVNRNYSLLAKLLCKAGMIVDAGRILYELMEKEALLPDHSAYIRVIKDLH 410

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	509
TAIR|locus:2099458	659	AT3G48810 "AT3G48810" [Arabido	0.504	0.389	0.309	1.2e-17
TAIR|locus:1009023134	644	AT1G12775 [Arabidopsis thalian	0.349	0.276	0.338	5.2e-17
TAIR|locus:2024296	598	AT1G09900 "AT1G09900" [Arabido	0.455	0.387	0.263	1.6e-16
TAIR|locus:2034760	637	AT1G12300 [Arabidopsis thalian	0.349	0.279	0.322	5.2e-16
TAIR|locus:2098495	880	AT3G07290 "AT3G07290" [Arabido	0.752	0.435	0.261	6.9e-16
TAIR|locus:2096099	599	AT3G62470 "AT3G62470" [Arabido	0.703	0.597	0.197	7.6e-15
TAIR|locus:2185455	598	AT5G14820 "AT5G14820" [Arabido	0.703	0.598	0.194	2.7e-14
TAIR|locus:2077061	619	AT3G22470 "AT3G22470" [Arabido	0.422	0.347	0.269	2.9e-14
TAIR|locus:2038451	323	AT1G63230 [Arabidopsis thalian	0.440	0.693	0.255	3.8e-14
TAIR|locus:2084978	602	AT3G04760 [Arabidopsis thalian	0.410	0.347	0.275	4.6e-14

TAIR|locus:2099458 AT3G48810 "AT3G48810" [Arabidopsis thaliana (taxid:3702)]

 Score = 245 (91.3 bits), Expect = 1.2e-17, P = 1.2e-17
 Identities = 88/284 (30%), Positives = 142/284 (50%)

Query:   223 VYQVCLNEKAFGFLPVLISS----KALTKK----GIWRV-VEVLNQVGGSC--LVSGVRA 271
             +Y V  + K  GF P + +     KAL K     G  ++ VE+ N+  G C   VS    
Sbjct:   165 IYMVYRDMKRDGFEPNVFTYNVLLKALCKNNKVDGAKKLLVEMSNK--GCCPDAVSYTTV 222

Query:   272 LIEMFSVLGLYEMAKYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPIT 331
             +  M  V GL +  + + ++ E  VS YN LI  +C+  D+KG  +L+ EM + G  P  
Sbjct:   223 ISSMCEV-GLVKEGRELAERFEPVVSVYNALINGLCKEHDYKGAFELMREMVEKGISPNV 281

Query:   332 LTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSC--RVGKFDVAFNFF 389
             ++Y+ ++ VLC +GQ   A   L +ML R CHP+  T    +V  C  R   FD A + +
Sbjct:   282 ISYSTLINVLCNSGQIELAFSFLTQMLKRGCHPNIYTLSS-LVKGCFLRGTTFD-ALDLW 339

Query:   390 NQMVKR-GLQPRLATHAAFIKGYFIFYRYEDAYKYV-VLS-ADKYKSSSNM-LYSLLASL 445
             NQM++  GLQP +  +   ++G   F  + +  K V V S  ++   S N+  Y  L + 
Sbjct:   340 NQMIRGFGLQPNVVAYNTLVQG---FCSHGNIVKAVSVFSHMEEIGCSPNIRTYGSLING 396

Query:   446 HDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHL--HTSHQE 487
               K  +   A  + ++M+ +G  PNV VY  +++ L  H+  +E
Sbjct:   397 FAKRGSLDGAVYIWNKMLTSGCCPNVVVYTNMVEALCRHSKFKE 440

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0048445 "carpel morphogenesis" evidence=RCA

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

 Score = 239 (89.2 bits), Expect = 5.2e-17, P = 5.2e-17
 Identities = 61/180 (33%), Positives = 91/180 (50%)

Query:   300 NILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLG 359
             N L+  +C          L+  M + G +P  +TY  VL V+CK+GQ A A ELL +M  
Sbjct:   197 NTLVNGLCLNGKVSDAVVLIDRMVETGFQPNEVTYGPVLNVMCKSGQTALAMELLRKMEE 256

Query:   360 RNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYED 419
             RN   DA+ Y I I   C+ G  D AFN FN+M  +G +  + T+   I G+    R++D
Sbjct:   257 RNIKLDAVKYSIIIDGLCKDGSLDNAFNLFNEMEIKGFKADIITYNTLIGGFCNAGRWDD 316

Query:   420 AYKYVVLSADKYKSSSNML-YSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVL 478
               K ++    K K S N++ +S+L     K      A  +L EMM+ G+ PN   Y  ++
Sbjct:   317 GAK-LLRDMIKRKISPNVVTFSVLIDSFVKEGKLREADQLLKEMMQRGIAPNTITYNSLI 375

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2024296 AT1G09900 "AT1G09900" [Arabidopsis thaliana (taxid:3702)]

 Score = 234 (87.4 bits), Expect = 1.6e-16, P = 1.6e-16
 Identities = 62/235 (26%), Positives = 107/235 (45%)

Query:   246 TKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKK--TERKVSYYNILI 303
             T+K   +++E+L   G    V     +I  +   G    A  V+ +      V  YN ++
Sbjct:   153 TRKAA-KILEILEGSGAVPDVITYNVMISGYCKAGEINNALSVLDRMSVSPDVVTYNTIL 211

Query:   304 KEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCH 363
             + +C     K   ++L  M Q  C P  +TY  ++   C++     A +LL+EM  R C 
Sbjct:   212 RSLCDSGKLKQAMEVLDRMLQRDCYPDVITYTILIEATCRDSGVGHAMKLLDEMRDRGCT 271

Query:   364 PDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKY 423
             PD +TY + +   C+ G+ D A  F N M   G QP + TH   ++      R+ DA K 
Sbjct:   272 PDVVTYNVLVNGICKEGRLDEAIKFLNDMPSSGCQPNVITHNIILRSMCSTGRWMDAEKL 331

Query:   424 VVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVL 478
             +     K  S S + +++L +   +      A ++L +M ++G +PN   Y  +L
Sbjct:   332 LADMLRKGFSPSVVTFNILINFLCRKGLLGRAIDILEKMPQHGCQPNSLSYNPLL 386

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0016020 "membrane" evidence=IDA

TAIR|locus:2034760 AT1G12300 [Arabidopsis thaliana (taxid:3702)]

 Score = 230 (86.0 bits), Expect = 5.2e-16, P = 5.2e-16
 Identities = 58/180 (32%), Positives = 92/180 (51%)

Query:   300 NILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLG 359
             N L+  +C          L+ +M + GC+P  +TY  VL V+CK+GQ A A ELL +M  
Sbjct:   197 NTLVNGLCLSGKEAEAMLLIDKMVEYGCQPNAVTYGPVLNVMCKSGQTALAMELLRKMEE 256

Query:   360 RNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYED 419
             RN   DA+ Y I I   C+ G  D AFN FN+M  +G+   + T+   I G+    R++D
Sbjct:   257 RNIKLDAVKYSIIIDGLCKHGSLDNAFNLFNEMEMKGITTNIITYNILIGGFCNAGRWDD 316

Query:   420 AYKYVVLSADKYKSSSNML-YSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVL 478
               K ++    K K + N++ +S+L     K      A+ +  EM+  G+ P+   Y  ++
Sbjct:   317 GAK-LLRDMIKRKINPNVVTFSVLIDSFVKEGKLREAEELHKEMIHRGIAPDTITYTSLI 375

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2098495 AT3G07290 "AT3G07290" [Arabidopsis thaliana (taxid:3702)]

 Score = 231 (86.4 bits), Expect = 6.9e-16, P = 6.9e-16
 Identities = 110/420 (26%), Positives = 187/420 (44%)

Query:    88 HSSQNLYFSNCNGSCRSQISKLGLLTSR-CISSFAMV--NGPYA-TPKQVSEIIELLRSG 143
             +SS     S+ N +  SQ+  L    +  C+  F  V  +  Y   P Q +++++L+ S 
Sbjct:    57 NSSLKSLVSHMNPNVASQVISLQRSDNDICVRFFMWVCKHSSYCFDPTQKNQLLKLIVS- 115

Query:   144 DSETESKLLSMSVSLSNASVIEILRVLNSEKVSAL-CFLKYMREIMPEFYKNSDICSLVI 202
                  S L  ++ ++  A + E  R    E +  + CF + +RE+   F  N    S ++
Sbjct:   116 -----SGLYRVAHAVIVALIKECSRC-EKEMLKLMYCFDE-LREVFG-FRLNYPCYSSLL 167

Query:   203 DNCGRLD----DYETMRQLLND-FNV----YQVCLN---EKAFGFLPVLISSKALTKKGI 250
              +  +LD     Y T R++  D F V    Y+  +N   +  +     +  SK L K G 
Sbjct:   168 MSLAKLDLGFLAYVTYRRMEADGFVVGMIDYRTIVNALCKNGYTEAAEMFMSKIL-KIGF 226

Query:   251 WRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTERKVSYYNILIKEMCRRC 310
               V++  + +G S L+   R L  +   L ++++    +      VSY +ILI  +C   
Sbjct:   227 --VLD--SHIGTSLLLGFCRGL-NLRDALKVFDVMSKEVTCAPNSVSY-SILIHGLCEVG 280

Query:   311 DFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYE 370
               +    L  +M + GC+P T TY  ++  LC  G    A  L +EM+ R C P+  TY 
Sbjct:   281 RLEEAFGLKDQMGEKGCQPSTRTYTVLIKALCDRGLIDKAFNLFDEMIPRGCKPNVHTYT 340

Query:   371 IFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYV-VLSAD 429
             + I   CR GK + A     +MVK  + P + T+ A I GY    R   A++ + V+   
Sbjct:   341 VLIDGLCRDGKIEEANGVCRKMVKDRIFPSVITYNALINGYCKDGRVVPAFELLTVMEKR 400

Query:   430 KYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHM 489
               K +      L+  L  +   P  A ++L  M+ NGL P++  Y  ++  L    + HM
Sbjct:   401 ACKPNVRTFNELMEGLC-RVGKPYKAVHLLKRMLDNGLSPDIVSYNVLIDGL--CREGHM 457

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2096099 AT3G62470 "AT3G62470" [Arabidopsis thaliana (taxid:3702)]

 Score = 219 (82.2 bits), Expect = 7.6e-15, P = 7.6e-15
 Identities = 72/365 (19%), Positives = 154/365 (42%)

Query:   131 KQVSEIIELLRSGDSETESKLLSMSVSLSNASVIEILRVLNSEKVSALCFLKYMREIMPE 190
             ++V ++I+ L + D   E+ L  M + LS+  ++E+L      +  A  F  +  E    
Sbjct:   132 ERVCKVIDELFALDRNMEAVLDEMKLDLSHDLIVEVLERFRHARKPAFRFFCWAAE-RQG 190

Query:   191 FYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGI 250
             F  +S   + ++    +   +ETM  +L +     + L  + F       ++    KK +
Sbjct:   191 FAHDSRTYNSMMSILAKTRQFETMVSVLEEMGTKGL-LTMETFTIAMKAFAAAKERKKAV 249

Query:   251 WRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTERKVS----YYNILIKEM 306
               + E++ +      V  +  L++      L + A+ +  K + + +     Y +L+   
Sbjct:   250 G-IFELMKKYKFKIGVETINCLLDSLGRAKLGKEAQVLFDKLKERFTPNMMTYTVLLNGW 308

Query:   307 CRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDA 366
             CR  +      +  +M   G +P  + +N +L  L ++ + +DA +L   M  +   P+ 
Sbjct:   309 CRVRNLIEAARIWNDMIDQGLKPDIVAHNVMLEGLLRSRKKSDAIKLFHVMKSKGPCPNV 368

Query:   367 ITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVL 426
              +Y I I   C+    + A  +F+ MV  GLQP  A +   I G+    + +  Y+ +  
Sbjct:   369 RSYTIMIRDFCKQSSMETAIEYFDDMVDSGLQPDAAVYTCLITGFGTQKKLDTVYELLKE 428

Query:   427 SADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQ 486
               +K        Y+ L  L      P  A  + ++M++N + P++  +  ++K    +  
Sbjct:   429 MQEKGHPPDGKTYNALIKLMANQKMPEHATRIYNKMIQNEIEPSIHTFNMIMKSYFMARN 488

Query:   487 EHMAK 491
               M +
Sbjct:   489 YEMGR 493

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2185455 AT5G14820 "AT5G14820" [Arabidopsis thaliana (taxid:3702)]

 Score = 214 (80.4 bits), Expect = 2.7e-14, P = 2.7e-14
 Identities = 71/365 (19%), Positives = 153/365 (41%)

Query:   131 KQVSEIIELLRSGDSETESKLLSMSVSLSNASVIEILRVLNSEKVSALCFLKYMREIMPE 190
             ++V ++I+ L + D   E+ L  M + LS+  ++E+L      +  A  F  +  E    
Sbjct:   131 ERVCKVIDELFALDRNMEAVLDEMKLDLSHDLIVEVLERFRHARKPAFRFFCWAAE-RQG 189

Query:   191 FYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGI 250
             F  +S   + ++    +   +ETM  +L +     + L  + F       ++    KK +
Sbjct:   190 FAHDSRTYNSMMSILAKTRQFETMVSVLEEMGTKGL-LTMETFTIAMKAFAAAKERKKAV 248

Query:   251 WRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTERKVS----YYNILIKEM 306
               + E++ +      V  +  L++      L + A+ +  K + + +     Y +L+   
Sbjct:   249 G-IFELMKKYKFKIGVETINCLLDSLGRAKLGKEAQVLFDKLKERFTPNMMTYTVLLNGW 307

Query:   307 CRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDA 366
             CR  +      +  +M   G +P  + +N +L  L ++ + +DA +L   M  +   P+ 
Sbjct:   308 CRVRNLIEAARIWNDMIDHGLKPDIVAHNVMLEGLLRSMKKSDAIKLFHVMKSKGPCPNV 367

Query:   367 ITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVL 426
              +Y I I   C+    + A  +F+ MV  GLQP  A +   I G+    + +  Y+ +  
Sbjct:   368 RSYTIMIRDFCKQSSMETAIEYFDDMVDSGLQPDAAVYTCLITGFGTQKKLDTVYELLKE 427

Query:   427 SADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQ 486
               +K        Y+ L  L      P     + ++M++N + P++  +  ++K    +  
Sbjct:   428 MQEKGHPPDGKTYNALIKLMANQKMPEHGTRIYNKMIQNEIEPSIHTFNMIMKSYFVARN 487

Query:   487 EHMAK 491
               M +
Sbjct:   488 YEMGR 492

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2077061 AT3G22470 "AT3G22470" [Arabidopsis thaliana (taxid:3702)]

 Score = 214 (80.4 bits), Expect = 2.9e-14, P = 2.9e-14
 Identities = 58/215 (26%), Positives = 96/215 (44%)

Query:   277 SVLGLYEMAKYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNY 336
             S L L    K   +  +  V  Y+I+I  +C+   F     L  EM   G +   +TY+ 
Sbjct:   226 SALALDLFRKMEERNIKASVVQYSIVIDSLCKDGSFDDALSLFNEMEMKGIKADVVTYSS 285

Query:   337 VLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRG 396
             ++G LC +G+  D  ++L EM+GRN  PD +T+   I    + GK   A   +N+M+ RG
Sbjct:   286 LIGGLCNDGKWDDGAKMLREMIGRNIIPDVVTFSALIDVFVKEGKLLEAKELYNEMITRG 345

Query:   397 LQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAK 456
             + P   T+ + I G+       +A +   L   K      + YS+L + + K        
Sbjct:   346 IAPDTITYNSLIDGFCKENCLHEANQMFDLMVSKGCEPDIVTYSILINSYCKAKRVDDGM 405

Query:   457 NVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAK 491
              +  E+   GL PN   Y  ++     S + + AK
Sbjct:   406 RLFREISSKGLIPNTITYNTLVLGFCQSGKLNAAK 440

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2038451 AT1G63230 [Arabidopsis thaliana (taxid:3702)]

 Score = 205 (77.2 bits), Expect = 3.8e-14, P = 3.8e-14
 Identities = 58/227 (25%), Positives = 107/227 (47%)

Query:   252 RVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTERKVSYYNILIKEMCRRCD 311
             R+VE  +Q  G+ +++G+  + +  S L L  ++K      +  V  YN +I  +C+   
Sbjct:    35 RMVEEGHQPYGT-IINGLCKMGDTESALNL--LSKMEETHIKAHVVIYNAIIDRLCKDGH 91

Query:   312 FKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEI 371
                 ++L  EM   G  P  +TY+ ++   C++G+  DA +LL +M+ R  +PD +T+  
Sbjct:    92 HIHAQNLFTEMHDKGIFPDVITYSGMIDSFCRSGRWTDAEQLLRDMIERQINPDVVTFSA 151

Query:   372 FIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKY 431
              I    + GK   A   +  M++RG+ P   T+ + I G+    R  DA + +   A K 
Sbjct:   152 LINALVKEGKVSEAEEIYGDMLRRGIFPTTITYNSMIDGFCKQDRLNDAKRMLDSMASKS 211

Query:   432 KSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVL 478
              S   + +S L + + K         +  EM + G+  N   Y  ++
Sbjct:   212 CSPDVVTFSTLINGYCKAKRVDNGMEIFCEMHRRGIVANTVTYTTLI 258

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2084978 AT3G04760 [Arabidopsis thaliana (taxid:3702)]

 Score = 212 (79.7 bits), Expect = 4.6e-14, P = 4.6e-14
 Identities = 60/218 (27%), Positives = 103/218 (47%)

Query:   269 VRALIEMFSVLGLYEMAKYV-IKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGC 327
             +R + +   V   +EM + + +K  E  V  YNIL++ +  +  ++    L+ +M    C
Sbjct:   270 IRGMCKEGMVDRAFEMVRNLELKGCEPDVISYNILLRALLNQGKWEEGEKLMTKMFSEKC 329

Query:   328 EPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFN 387
             +P  +TY+ ++  LC++G+  +A  LL+ M  +   PDA +Y+  I   CR G+ DVA  
Sbjct:   330 DPNVVTYSILITTLCRDGKIEEAMNLLKLMKEKGLTPDAYSYDPLIAAFCREGRLDVAIE 389

Query:   388 FFNQMVKRGLQPRLATH----AAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLA 443
             F   M+  G  P +  +    A   K        E   K   +      SS N ++S L 
Sbjct:   390 FLETMISDGCLPDIVNYNTVLATLCKNGKADQALEIFGKLGEVGCSPNSSSYNTMFSALW 449

Query:   444 SLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHL 481
             S  DK    + A +++ EMM NG+ P+   Y  ++  L
Sbjct:   450 SSGDK----IRALHMILEMMSNGIDPDEITYNSMISCL 483

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0009507 "chloroplast" evidence=IDA

GO:0010103 "stomatal complex morphogenesis" evidence=RCA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: fgenesh4_pg.C_LG_XIX000687 hypothetical protein (432 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	509
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-07
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-06
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-06
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	5e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	9e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	4e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.001

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

 Score = 49.7 bits (120), Expect = 3e-08
 Identities = 17/45 (37%), Positives = 24/45 (53%)

Query: 329 PITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFI 373
           P  +TYN ++   CK G+  +A +L  EM  R   P+  TY I I
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILI 45

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

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

 Score = 47.8 bits (115), Expect = 1e-07
 Identities = 19/48 (39%), Positives = 28/48 (58%)

Query: 364 PDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGY 411
           PD +TY   I   C+ GK + A   FN+M KRG++P + T++  I G 
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 49.9 bits (119), Expect = 3e-06
 Identities = 29/103 (28%), Positives = 49/103 (47%)

Query: 299 YNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEML 358
           Y+ L+       ++K   +L  +++ +   P   T N ++  LC+  Q   A E+L EM 
Sbjct: 687 YSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMK 746

Query: 359 GRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRL 401
                P+ ITY I +V S R    DV  +  +Q  + G++P L
Sbjct: 747 RLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNL 789

Length = 1060

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

 Score = 43.5 bits (104), Expect = 4e-06
 Identities = 15/45 (33%), Positives = 24/45 (53%)

Query: 299 YNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCK 343
           YN LI   C++   +    L  EM++ G +P   TY+ ++  LCK
Sbjct: 6   YNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 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 = 45.6 bits (108), Expect = 5e-05
 Identities = 25/84 (29%), Positives = 37/84 (44%), Gaps = 2/84 (2%)

Query: 328 EPITLTYNYVLGVLCKNGQDAD-ACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAF 386
            P   T+N ++ V C + QD D A  +L  +       D   Y   I    + GK D  F
Sbjct: 434 NPTLSTFNMLMSV-CASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMF 492

Query: 387 NFFNQMVKRGLQPRLATHAAFIKG 410
             F++MV  G++  + T  A I G
Sbjct: 493 EVFHEMVNAGVEANVHTFGALIDG 516

Length = 1060

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

 Score = 39.3 bits (93), Expect = 9e-05
 Identities = 11/34 (32%), Positives = 16/34 (47%)

Query: 360 RNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMV 393
           +   PD +TY   I   CR G+ D A    ++M 
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 38.5 bits (91), Expect = 2e-04
 Identities = 14/32 (43%), Positives = 22/32 (68%)

Query: 326 GCEPITLTYNYVLGVLCKNGQDADACELLEEM 357
           G +P  +TYN ++  LC+ G+  +A ELL+EM
Sbjct: 2   GLKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

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

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

 Score = 37.4 bits (88), Expect = 4e-04
 Identities = 15/34 (44%), Positives = 20/34 (58%)

Query: 333 TYNYVLGVLCKNGQDADACELLEEMLGRNCHPDA 366
           TYN ++  LCK G+  +A EL +EM  R   PD 
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

>gnl|CDD|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 36.0 bits (84), Expect = 0.001
 Identities = 9/34 (26%), Positives = 15/34 (44%)

Query: 366 AITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQP 399
             TY   ++   + G  D+A     +M   GL+P
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	509
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.89
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.88
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.88
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.87
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.78
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.74
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.73
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.71
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.7
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.66
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.65
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.65
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.64
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.64
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.62
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.61
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.57
PRK14574	822	hmsH outer membrane protein; Provisional	99.56
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.53
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.51
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.49
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.47
PRK14574	822	hmsH outer membrane protein; Provisional	99.46
KOG1126	638	consensus DNA-binding cell division cycle control	99.46
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.46
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.4
PF13041	50	PPR_2: PPR repeat family	99.38
KOG1126	638	consensus DNA-binding cell division cycle control	99.37
PF13041	50	PPR_2: PPR repeat family	99.36
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.34
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.34
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.34
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.33
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.32
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.32
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.31
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.26
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.26
KOG2076	895	consensus RNA polymerase III transcription factor	99.26
PRK12370	553	invasion protein regulator; Provisional	99.23
PRK12370	553	invasion protein regulator; Provisional	99.21
KOG2076	895	consensus RNA polymerase III transcription factor	99.19
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.18
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.17
KOG2003	840	consensus TPR repeat-containing protein [General f	99.16
KOG2003	840	consensus TPR repeat-containing protein [General f	99.14
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.13
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.09
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.07
KOG1129	478	consensus TPR repeat-containing protein [General f	99.07
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.03
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.02
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.01
PRK11189	296	lipoprotein NlpI; Provisional	98.97
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.96
KOG0495	913	consensus HAT repeat protein [RNA processing and m	98.95
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	98.91
PRK11189	296	lipoprotein NlpI; Provisional	98.87
KOG0547	606	consensus Translocase of outer mitochondrial membr	98.86
KOG1915	677	consensus Cell cycle control protein (crooked neck	98.86
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.82
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.81
KOG1129	478	consensus TPR repeat-containing protein [General f	98.81
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.79
PF12854	34	PPR_1: PPR repeat	98.78
PF12854	34	PPR_1: PPR repeat	98.77
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.76
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	98.75
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.7
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.68
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.67
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.66
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.66
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.61
KOG1915	677	consensus Cell cycle control protein (crooked neck	98.61
PRK04841	903	transcriptional regulator MalT; Provisional	98.61
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.54
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.53
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.52
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.5
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.49
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.47
KOG0547	606	consensus Translocase of outer mitochondrial membr	98.47
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.46
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.36
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.36
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.32
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.31
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.31
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.3
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.3
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.29
PRK04841	903	transcriptional regulator MalT; Provisional	98.28
PLN02789	320	farnesyltranstransferase	98.28
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.26
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.24
KOG1125	579	consensus TPR repeat-containing protein [General f	98.22
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.21
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.2
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.19
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.18
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.17
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.16
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.16
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.15
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.14
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.14
PLN02789	320	farnesyltranstransferase	98.13
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.12
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.12
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.1
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.07
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.06
PRK15359	144	type III secretion system chaperone protein SscB;	98.05
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.04
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.99
KOG1125	579	consensus TPR repeat-containing protein [General f	97.97
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	97.97
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.97
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.94
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.94
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.92
PRK15359	144	type III secretion system chaperone protein SscB;	97.92
KOG2376	652	consensus Signal recognition particle, subunit Srp	97.91
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.91
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.88
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.86
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.86
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.85
KOG2376	652	consensus Signal recognition particle, subunit Srp	97.83
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	97.82
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	97.79
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.77
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.76
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.75
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.72
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	97.69
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.68
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	97.6
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.6
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.58
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	97.56
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.54
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.53
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.51
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.51
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.51
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.42
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.4
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.39
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.37
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	97.34
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.33
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.31
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.26
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.18
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.17
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.16
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.14
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.13
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.12
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.11
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.09
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.02
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.0
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	96.98
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	96.94
PF12688	120	TPR_5: Tetratrico peptide repeat	96.91
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	96.89
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	96.89
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	96.89
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.84
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.83
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	96.69
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	96.61
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	96.6
COG4700	251	Uncharacterized protein conserved in bacteria cont	96.57
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.55
PF12688	120	TPR_5: Tetratrico peptide repeat	96.53
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.5
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.49
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.47
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.45
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	96.43
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.43
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	96.42
PRK10803	263	tol-pal system protein YbgF; Provisional	96.41
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.41
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.37
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	96.3
KOG0553	304	consensus TPR repeat-containing protein [General f	96.29
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	96.25
PRK10803	263	tol-pal system protein YbgF; Provisional	96.15
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.13
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	96.1
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	95.98
KOG3941	406	consensus Intermediate in Toll signal transduction	95.94
KOG0553	304	consensus TPR repeat-containing protein [General f	95.9
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	95.87
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	95.8
KOG3941	406	consensus Intermediate in Toll signal transduction	95.79
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.67
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	95.53
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	95.53
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.5
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	95.5
PF13371	73	TPR_9: Tetratricopeptide repeat	95.49
PF13371	73	TPR_9: Tetratricopeptide repeat	95.46
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.46
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.43
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	95.38
KOG1585	308	consensus Protein required for fusion of vesicles	95.36
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	95.35
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.25
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.12
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	95.11
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.05
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	95.0
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	94.99
KOG2041	1189	consensus WD40 repeat protein [General function pr	94.96
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	94.89
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	94.88
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	94.84
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	94.73
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	94.59
COG4105	254	ComL DNA uptake lipoprotein [General function pred	94.4
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	94.36
COG4700	251	Uncharacterized protein conserved in bacteria cont	94.22
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	94.13
PRK15331	165	chaperone protein SicA; Provisional	93.98
PRK15331	165	chaperone protein SicA; Provisional	93.7
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	93.69
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	93.64
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	93.6
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	93.52
KOG2610	491	consensus Uncharacterized conserved protein [Funct	93.47
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	93.44
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	93.41
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	93.38
KOG2610	491	consensus Uncharacterized conserved protein [Funct	92.83
PF13512	142	TPR_18: Tetratricopeptide repeat	92.76
KOG4555	175	consensus TPR repeat-containing protein [Function	92.32
COG0457	291	NrfG FOG: TPR repeat [General function prediction	92.2
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	92.16
COG3629	280	DnrI DNA-binding transcriptional activator of the	91.68
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	91.57
COG3118	304	Thioredoxin domain-containing protein [Posttransla	91.56
KOG4555	175	consensus TPR repeat-containing protein [Function	91.55
COG3629	280	DnrI DNA-binding transcriptional activator of the	91.53
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	91.27
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	91.12
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	91.01
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	90.82
KOG1941	518	consensus Acetylcholine receptor-associated protei	90.59
KOG1585	308	consensus Protein required for fusion of vesicles	90.22
PF13512	142	TPR_18: Tetratricopeptide repeat	90.17
KOG4570	418	consensus Uncharacterized conserved protein [Funct	90.06
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	90.03
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	90.02
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	89.99
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	89.95
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	89.94
PF13929	292	mRNA_stabil: mRNA stabilisation	89.88
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	89.82
COG1747	711	Uncharacterized N-terminal domain of the transcrip	89.07
COG3118	304	Thioredoxin domain-containing protein [Posttransla	89.0
PF13428	44	TPR_14: Tetratricopeptide repeat	89.0
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	88.93
COG3947	361	Response regulator containing CheY-like receiver a	88.8
KOG4570	418	consensus Uncharacterized conserved protein [Funct	88.41
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	88.06
KOG1550	552	consensus Extracellular protein SEL-1 and related	87.71
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	87.48
COG3898	531	Uncharacterized membrane-bound protein [Function u	87.23
PF13428	44	TPR_14: Tetratricopeptide repeat	87.14
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	86.88
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	86.45
COG4105	254	ComL DNA uptake lipoprotein [General function pred	86.32
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	85.04
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	84.75
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	84.67
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	84.31
KOG1941	518	consensus Acetylcholine receptor-associated protei	83.78
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	83.7
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	83.31
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	83.25
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	82.58
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	82.53
PRK11906	458	transcriptional regulator; Provisional	82.32
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	81.99
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	81.44
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	80.94
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	80.93
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	80.32
PF13431	34	TPR_17: Tetratricopeptide repeat	80.05

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=8.2e-57  Score=480.12  Aligned_cols=347  Identities=15%  Similarity=0.154  Sum_probs=335.3

Q ss_pred             CCCCHHHHHHHHHHHhcCCc--hHHHHHHHh--hccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHH
Q 047221          156 VSLSNASVIEILRVLNSEKV--SALCFLKYM--REIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEK  231 (509)
Q Consensus       156 ~~~~~~~~~~ll~~~~~~~~--~A~~~~~~~--~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~  231 (509)
                      ..|+..+|+.+|.+|++.|+  .|.++|+.|  .++.|+..    +||.||.+|++.|++++|.++|++|.+.|+.||..
T Consensus       433 ~~pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~----tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~Pdvv  508 (1060)
T PLN03218        433 RNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCK----LYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVH  508 (1060)
T ss_pred             CCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHH----HHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHH
Confidence            45999999999999999996  899999999  66666666    99999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc-------CCCHHHHHHHHH
Q 047221          232 AFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT-------ERKVSYYNILIK  304 (509)
Q Consensus       232 ~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~~~~~~~li~  304 (509)
                      +|+.+|.+|+. .|++++|.++|+.|.+.|+.||..+|+.||.+|++.|++++|.++|++|       .||.++|++||.
T Consensus       509 TynaLI~gy~k-~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~  587 (1060)
T PLN03218        509 TFGALIDGCAR-AGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMK  587 (1060)
T ss_pred             HHHHHHHHHHH-CcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHH
Confidence            99999996664 5559999999999999999999999999999999999999999999988       479999999999


Q ss_pred             HHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHH
Q 047221          305 EMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDV  384 (509)
Q Consensus       305 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  384 (509)
                      +|++.|++++|.++|++|.+.|+.|+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+++|.+|++.|++++
T Consensus       588 ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~ee  667 (1060)
T PLN03218        588 ACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDK  667 (1060)
T ss_pred             HHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 047221          385 AFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       385 a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      |.++|++|.+.|+.||..+|++||.+|+++|++++|.++|++|.+.|+.||..+|+.||.+|++.|++++|+++|++|.+
T Consensus       668 A~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~  747 (1060)
T PLN03218        668 AFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKR  747 (1060)
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCcc
Q 047221          465 NGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSLGSSVE  507 (509)
Q Consensus       465 ~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~~  507 (509)
                      .|+.||..||+.++.+|++.|++++|.+++++|.+.|+.|+..
T Consensus       748 ~Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~  790 (1060)
T PLN03218        748 LGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLV  790 (1060)
T ss_pred             cCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHH
Confidence            9999999999999999999999999999999999999999864

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.4e-56  Score=478.28  Aligned_cols=376  Identities=13%  Similarity=0.152  Sum_probs=349.7

Q ss_pred             CChHhHHHHHHHHhcCC-----chHHHHHHhCCCCCCHHHHHHHHHHHhcCCc--hHHHHHHHh--hccCCCCccChhHH
Q 047221          128 ATPKQVSEIIELLRSGD-----SETESKLLSMSVSLSNASVIEILRVLNSEKV--SALCFLKYM--REIMPEFYKNSDIC  198 (509)
Q Consensus       128 ~~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~~~ll~~~~~~~~--~A~~~~~~~--~~~~p~~~~~~~~~  198 (509)
                      ++...+..++..+.+.+     ..++..|.+.|+.||..+|+.+|.+|++.|+  .|.++|+.|  .++.|+..    +|
T Consensus       435 pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~Pdvv----Ty  510 (1060)
T PLN03218        435 PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVH----TF  510 (1060)
T ss_pred             CCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHH----HH
Confidence            56667777777776533     3577788889999999999999999999996  899999999  56666655    99


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHH--cCCCCCHHHHHHHHHHH
Q 047221          199 SLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQ--VGGSCLVSGVRALIEMF  276 (509)
Q Consensus       199 ~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~--~g~~~~~~~~~~li~~~  276 (509)
                      |.||.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|+.. |++++|.++|++|.+  .|+.||..+|++||.+|
T Consensus       511 naLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~-G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay  589 (1060)
T PLN03218        511 GALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQS-GAVDRAFDVLAEMKAETHPIDPDHITVGALMKAC  589 (1060)
T ss_pred             HHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHC-CCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999966655 559999999999986  68999999999999999


Q ss_pred             HhcCCHHHHHHHHHHc-----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHH
Q 047221          277 SVLGLYEMAKYVIKKT-----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADAC  351 (509)
Q Consensus       277 ~~~g~~~~A~~~~~~m-----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~  351 (509)
                      +++|++++|.++|++|     .++..+||.+|.+|++.|++++|.++|++|.+.|+.||..||+.+|.+|++.|++++|.
T Consensus       590 ~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~  669 (1060)
T PLN03218        590 ANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAF  669 (1060)
T ss_pred             HHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHH
Confidence            9999999999999998     57889999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 047221          352 ELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKY  431 (509)
Q Consensus       352 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  431 (509)
                      ++|++|.+.|+.||..+|++||.+|++.|++++|.++|++|.+.|+.||..+||+||.+|++.|++++|.++|++|.+.|
T Consensus       670 ~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~G  749 (1060)
T PLN03218        670 EILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLG  749 (1060)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh----c-------------------CCHH
Q 047221          432 KSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHT----S-------------------HQEH  488 (509)
Q Consensus       432 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~----~-------------------g~~~  488 (509)
                      +.||..||+.+|.+|++.|++++|.+++++|.+.|+.||..+|++++..|.+    +                   +..+
T Consensus       750 i~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~  829 (1060)
T PLN03218        750 LCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTS  829 (1060)
T ss_pred             CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHH
Confidence            9999999999999999999999999999999999999999999999976542    1                   2346


Q ss_pred             HHHHHHHHHHhCCCCCCccC
Q 047221          489 MAKCLSSRYSSLSLGSSVEA  508 (509)
Q Consensus       489 ~a~~~~~~m~~~~~~~~~~~  508 (509)
                      +|..+|++|.+.|+.|+..|
T Consensus       830 ~Al~lf~eM~~~Gi~Pd~~T  849 (1060)
T PLN03218        830 WALMVYRETISAGTLPTMEV  849 (1060)
T ss_pred             HHHHHHHHHHHCCCCCCHHH
Confidence            89999999999999999654

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

Probab=100.00  E-value=1.5e-55  Score=467.01  Aligned_cols=366  Identities=14%  Similarity=0.117  Sum_probs=341.5

Q ss_pred             CCChHhHHHHHHHHhcCC-----chHHHHHHhCCCCCCHHHHHHHHHHHhcCCc--hHHHHHHHhhccCCCCccChhHHH
Q 047221          127 YATPKQVSEIIELLRSGD-----SETESKLLSMSVSLSNASVIEILRVLNSEKV--SALCFLKYMREIMPEFYKNSDICS  199 (509)
Q Consensus       127 ~~~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~~~ll~~~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~  199 (509)
                      .++...+..++..+.+.+     ..++..+.+.|+.||..+++.++..|++.|+  .|.++|+.|    |.  +|..+||
T Consensus       120 ~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m----~~--~~~~t~n  193 (697)
T PLN03081        120 TLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEM----PE--RNLASWG  193 (697)
T ss_pred             CCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHhcCCCHHHHHHHHhcC----CC--CCeeeHH
Confidence            457778888888877632     4577788888999999999999999999996  899999999    32  3455999


Q ss_pred             HHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 047221          200 LVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVL  279 (509)
Q Consensus       200 ~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  279 (509)
                      ++|.+|++.|++++|.++|++|.+.|+.||..+|+.++.++...+ ..+.+.+++..+.+.|+.+|..+|++||++|+++
T Consensus       194 ~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~-~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~  272 (697)
T PLN03081        194 TIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLG-SARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKC  272 (697)
T ss_pred             HHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCC-cHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHC
Confidence            999999999999999999999999999999999999999776554 5999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 047221          280 GLYEMAKYVIKKT-ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEML  358 (509)
Q Consensus       280 g~~~~A~~~~~~m-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~  358 (509)
                      |++++|.++|++| ++|+++||+||.+|++.|++++|+++|++|.+.|+.||..||++++.+|++.|++++|.+++.+|.
T Consensus       273 g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~  352 (697)
T PLN03081        273 GDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLI  352 (697)
T ss_pred             CCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHH
Confidence            9999999999999 589999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHH
Q 047221          359 GRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNML  438 (509)
Q Consensus       359 ~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~  438 (509)
                      +.|+.||..+|++||++|++.|++++|.++|++|.+    ||..+||+||.+|++.|+.++|.++|++|.+.|+.||..|
T Consensus       353 ~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T  428 (697)
T PLN03081        353 RTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVT  428 (697)
T ss_pred             HhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHH
Confidence            999999999999999999999999999999999964    6999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHH-CCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCc
Q 047221          439 YSLLASLHDKNNNPVMAKNVLSEMMK-NGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSLGSSV  506 (509)
Q Consensus       439 ~~~li~~~~~~g~~~~a~~~~~~m~~-~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~  506 (509)
                      |+.++.+|++.|++++|.++|++|.+ .|+.|+..+|++++++|++.|++++|.+++++|   ++.|+.
T Consensus       429 ~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~---~~~p~~  494 (697)
T PLN03081        429 FLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRA---PFKPTV  494 (697)
T ss_pred             HHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHC---CCCCCH
Confidence            99999999999999999999999986 699999999999999999999999999998765   455654

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=4.4e-53  Score=458.44  Aligned_cols=351  Identities=14%  Similarity=0.109  Sum_probs=297.5

Q ss_pred             chHHHHHHhCCCCCCHHHHHHHHHHHhcCCc--hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhh
Q 047221          145 SETESKLLSMSVSLSNASVIEILRVLNSEKV--SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFN  222 (509)
Q Consensus       145 ~~~~~~l~~~~~~~~~~~~~~ll~~~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~  222 (509)
                      .+++..+.+.|+.|+..+++.+|.+|++.|+  .|.++|+.|    |.  +|.++||++|.+|++.|++++|.++|++|.
T Consensus       207 ~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m----~~--~d~~s~n~li~~~~~~g~~~eAl~lf~~M~  280 (857)
T PLN03077        207 REVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRM----PR--RDCISWNAMISGYFENGECLEGLELFFTMR  280 (857)
T ss_pred             HHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcC----CC--CCcchhHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            3456667777888899999999999999996  899999999    33  455699999999999999999999999999


Q ss_pred             hCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc-CCCHHHHHH
Q 047221          223 VYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT-ERKVSYYNI  301 (509)
Q Consensus       223 ~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~~~~~~~  301 (509)
                      +.|+.||..||+.++.+|... ++.+.+.+++..|.+.|+.||..+||+||.+|+++|++++|.++|++| .+|.++||+
T Consensus       281 ~~g~~Pd~~ty~~ll~a~~~~-g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~  359 (857)
T PLN03077        281 ELSVDPDLMTITSVISACELL-GDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTA  359 (857)
T ss_pred             HcCCCCChhHHHHHHHHHHhc-CChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHH
Confidence            999999999999999966654 559999999999999999999999999999999999999999999999 589999999


Q ss_pred             HHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCC
Q 047221          302 LIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGK  381 (509)
Q Consensus       302 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  381 (509)
                      ||.+|++.|++++|+++|++|.+.|+.||..||+.+|.+|++.|++++|.++++.|.+.|+.|+..+||+||.+|++.|+
T Consensus       360 li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~  439 (857)
T PLN03077        360 MISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKC  439 (857)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCC
Confidence            99999999999999999999999999999999999999999999999999999999999999988888888888888888


Q ss_pred             hHHHHHHHHHHHHC------------------------------CCCCCHHHHH--------------------------
Q 047221          382 FDVAFNFFNQMVKR------------------------------GLQPRLATHA--------------------------  405 (509)
Q Consensus       382 ~~~a~~~~~~m~~~------------------------------g~~p~~~~~~--------------------------  405 (509)
                      +++|.++|++|.+.                              ++.||..||+                          
T Consensus       440 ~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g  519 (857)
T PLN03077        440 IDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTG  519 (857)
T ss_pred             HHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhC
Confidence            88888887776432                              2344443333                          


Q ss_pred             ---------HHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHH
Q 047221          406 ---------AFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRR  476 (509)
Q Consensus       406 ---------~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~  476 (509)
                               +||++|+++|++++|.++|+.|     .+|..+||+||.+|+++|+.++|+++|++|.+.|+.||..||+.
T Consensus       520 ~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~-----~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~  594 (857)
T PLN03077        520 IGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-----EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFIS  594 (857)
T ss_pred             CCccceechHHHHHHHHcCCHHHHHHHHHhc-----CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHH
Confidence                     2333344444444444444433     56778888888888888888888888888888888888888888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHH-hCCCCCCcc
Q 047221          477 VLKHLHTSHQEHMAKCLSSRYS-SLSLGSSVE  507 (509)
Q Consensus       477 ll~~~~~~g~~~~a~~~~~~m~-~~~~~~~~~  507 (509)
                      ++.+|.+.|++++|.++|++|. +.|+.|+.+
T Consensus       595 ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~  626 (857)
T PLN03077        595 LLCACSRSGMVTQGLEYFHSMEEKYSITPNLK  626 (857)
T ss_pred             HHHHHhhcChHHHHHHHHHHHHHHhCCCCchH
Confidence            8888888888888888888888 678888754

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

Probab=100.00  E-value=2.1e-52  Score=443.03  Aligned_cols=343  Identities=15%  Similarity=0.128  Sum_probs=322.1

Q ss_pred             HHHHhC-CCCCCHHHHHHHHHHHhcCCc--hHHHHHHHh--hccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhh
Q 047221          149 SKLLSM-SVSLSNASVIEILRVLNSEKV--SALCFLKYM--REIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNV  223 (509)
Q Consensus       149 ~~l~~~-~~~~~~~~~~~ll~~~~~~~~--~A~~~~~~~--~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~  223 (509)
                      ..|... +..|+..+|+.+|.+|++.+.  .|.+++..|  .|+.|+..    +||.||.+|++.|+++.|.++|++|.+
T Consensus       111 ~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~----~~n~Li~~y~k~g~~~~A~~lf~~m~~  186 (697)
T PLN03081        111 EILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQY----MMNRVLLMHVKCGMLIDARRLFDEMPE  186 (697)
T ss_pred             HHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchH----HHHHHHHHHhcCCCHHHHHHHHhcCCC
Confidence            344443 478999999999999999885  799999999  67777666    999999999999999999999999964


Q ss_pred             CCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc-----CCCHHH
Q 047221          224 YQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT-----ERKVSY  298 (509)
Q Consensus       224 ~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-----~~~~~~  298 (509)
                          ||..+|+.++.+++.. |+.++|.++|++|.+.|..|+..+|+.++.+|++.|..+.+.+++..+     .+|..+
T Consensus       187 ----~~~~t~n~li~~~~~~-g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~  261 (697)
T PLN03081        187 ----RNLASWGTIIGGLVDA-GNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFV  261 (697)
T ss_pred             ----CCeeeHHHHHHHHHHC-cCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCcccee
Confidence                7999999999977655 559999999999999999999999999999999999999999998876     589999


Q ss_pred             HHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH
Q 047221          299 YNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCR  378 (509)
Q Consensus       299 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  378 (509)
                      ||+||.+|++.|++++|.++|++|.    .+|.++||+||.+|++.|++++|.++|++|.+.|+.||..||+++|.+|++
T Consensus       262 ~n~Li~~y~k~g~~~~A~~vf~~m~----~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~  337 (697)
T PLN03081        262 SCALIDMYSKCGDIEDARCVFDGMP----EKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSR  337 (697)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHhCC----CCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Confidence            9999999999999999999999997    579999999999999999999999999999999999999999999999999


Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHH
Q 047221          379 VGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNV  458 (509)
Q Consensus       379 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~  458 (509)
                      .|++++|.+++.+|.+.|+.||..+|++||++|+++|++++|.++|++|.+    ||..+||+||.+|+++|+.++|+++
T Consensus       338 ~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~t~n~lI~~y~~~G~~~~A~~l  413 (697)
T PLN03081        338 LALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLISWNALIAGYGNHGRGTKAVEM  413 (697)
T ss_pred             ccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHcCCHHHHHHH
Confidence            999999999999999999999999999999999999999999999999964    6899999999999999999999999


Q ss_pred             HHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-CCCCCCccC
Q 047221          459 LSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSS-LSLGSSVEA  508 (509)
Q Consensus       459 ~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~-~~~~~~~~~  508 (509)
                      |++|.+.|+.||..||++++.+|.+.|++++|.++|++|.+ .|+.|+.++
T Consensus       414 f~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~  464 (697)
T PLN03081        414 FERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMH  464 (697)
T ss_pred             HHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccc
Confidence            99999999999999999999999999999999999999985 799998754

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=4.7e-51  Score=442.63  Aligned_cols=345  Identities=14%  Similarity=0.100  Sum_probs=322.4

Q ss_pred             hHHHHHHhCCCCCCHHHHHHHHHHHhcCCc--hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhh
Q 047221          146 ETESKLLSMSVSLSNASVIEILRVLNSEKV--SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNV  223 (509)
Q Consensus       146 ~~~~~l~~~~~~~~~~~~~~ll~~~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~  223 (509)
                      +++..+.+.|..||..+++.+|.+|++.|+  +|.++|+.|.  .|+    ..+||++|.+|++.|++++|.++|++|.+
T Consensus       309 ~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~--~~d----~~s~n~li~~~~~~g~~~~A~~lf~~M~~  382 (857)
T PLN03077        309 EMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME--TKD----AVSWTAMISGYEKNGLPDKALETYALMEQ  382 (857)
T ss_pred             HHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCC--CCC----eeeHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence            456667777888899999999999999886  7999999993  244    44999999999999999999999999999


Q ss_pred             CCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc-CCCHHHHHHH
Q 047221          224 YQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT-ERKVSYYNIL  302 (509)
Q Consensus       224 ~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~~~~~~~l  302 (509)
                      .|+.||..||+.++.+|+. .+++++|.++++.|.+.|+.++..+||+||++|+++|++++|.++|++| ++|.++||.+
T Consensus       383 ~g~~Pd~~t~~~ll~a~~~-~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~m  461 (857)
T PLN03077        383 DNVSPDEITIASVLSACAC-LGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSI  461 (857)
T ss_pred             hCCCCCceeHHHHHHHHhc-cchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHH
Confidence            9999999999999996654 5559999999999999999999999999999999999999999999999 6899999999


Q ss_pred             HHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCh
Q 047221          303 IKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKF  382 (509)
Q Consensus       303 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~  382 (509)
                      |.+|++.|+.++|+++|++|.. ++.||..||+.+|.+|++.|+++.+.+++..|.+.|+.+|..++|+||++|+++|++
T Consensus       462 i~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~  540 (857)
T PLN03077        462 IAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRM  540 (857)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCH
Confidence            9999999999999999999986 689999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHH
Q 047221          383 DVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEM  462 (509)
Q Consensus       383 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  462 (509)
                      ++|.++|++|     .+|..+||+||.+|++.|+.++|.++|++|.+.|+.||..||+.+|.+|++.|++++|.++|++|
T Consensus       541 ~~A~~~f~~~-----~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M  615 (857)
T PLN03077        541 NYAWNQFNSH-----EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSM  615 (857)
T ss_pred             HHHHHHHHhc-----CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHH
Confidence            9999999987     67999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             H-HCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCc
Q 047221          463 M-KNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSLGSSV  506 (509)
Q Consensus       463 ~-~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~~  506 (509)
                      . +.|+.|+..+|++++++|++.|++++|++++++|.   ++|+.
T Consensus       616 ~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m~---~~pd~  657 (857)
T PLN03077        616 EEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMP---ITPDP  657 (857)
T ss_pred             HHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHCC---CCCCH
Confidence            9 67999999999999999999999999999999983   56654

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.89  E-value=5e-20  Score=183.18  Aligned_cols=295  Identities=12%  Similarity=0.114  Sum_probs=209.5

Q ss_pred             HHhccCCHHHHHHHHHHhhhCCCccCH-HHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHhc
Q 047221          204 NCGRLDDYETMRQLLNDFNVYQVCLNE-KAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCL---VSGVRALIEMFSVL  279 (509)
Q Consensus       204 ~~~~~g~~~~A~~l~~~m~~~~~~p~~-~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~---~~~~~~li~~~~~~  279 (509)
                      .+...|++++|...|+++.+.+  |+. .++..+.. ++...|++++|..+++.+.+.+..++   ..++..+...|.+.
T Consensus        44 ~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~-~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~  120 (389)
T PRK11788         44 NFLLNEQPDKAIDLFIEMLKVD--PETVELHLALGN-LFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKA  120 (389)
T ss_pred             HHHhcCChHHHHHHHHHHHhcC--cccHHHHHHHHH-HHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHC
Confidence            4456677777777777776542  333 34444444 33344457777777777766432221   24567778888888


Q ss_pred             CCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCC----hHHHHHHHHHHHhcCChHHHH
Q 047221          280 GLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPI----TLTYNYVLGVLCKNGQDADAC  351 (509)
Q Consensus       280 g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~----~~t~~~li~~~~~~g~~~~a~  351 (509)
                      |+++.|..+|+++    +.+..+++.++..+.+.|++++|.+.++.+.+.+..++    ...+..+...+.+.|++++|.
T Consensus       121 g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  200 (389)
T PRK11788        121 GLLDRAEELFLQLVDEGDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAAR  200 (389)
T ss_pred             CCHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHH
Confidence            8888888888876    24567788888888888888888888888877643222    123456667778888888888


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 047221          352 ELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKY  431 (509)
Q Consensus       352 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  431 (509)
                      +.|+++.+.. +.+...+..+...+.+.|++++|.++++++.+.+......+++.++.+|.+.|++++|...++++.+..
T Consensus       201 ~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~  279 (389)
T PRK11788        201 ALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEY  279 (389)
T ss_pred             HHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            8888887753 234556777778888888888888888888765322224567788888888888888888888887763


Q ss_pred             CCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh---cCCHHHHHHHHHHHHhCCCCCCc
Q 047221          432 KSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHT---SHQEHMAKCLSSRYSSLSLGSSV  506 (509)
Q Consensus       432 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~---~g~~~~a~~~~~~m~~~~~~~~~  506 (509)
                        |+...+..++..+.+.|++++|.++++++.+.  .|+..++..++..+..   .|+.+++..++++|.+.+++|+.
T Consensus       280 --p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p  353 (389)
T PRK11788        280 --PGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKP  353 (389)
T ss_pred             --CCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCC
Confidence              55556677888888888888888888888764  5888888877777664   45788888888888877766653

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.88  E-value=1.9e-19  Score=179.06  Aligned_cols=312  Identities=14%  Similarity=0.059  Sum_probs=250.6

Q ss_pred             HHhCCCCCCHHHHHHHHHHHhcCCchHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccC-
Q 047221          151 LLSMSVSLSNASVIEILRVLNSEKVSALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLN-  229 (509)
Q Consensus       151 l~~~~~~~~~~~~~~ll~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~-  229 (509)
                      ..+.........+..+........++|+..|..+....|+   +..+|..+...+.+.|++++|..+++.+...+..++ 
T Consensus        28 ~~~~~~~~~~~y~~g~~~~~~~~~~~A~~~~~~al~~~p~---~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~  104 (389)
T PRK11788         28 QQKESNRLSRDYFKGLNFLLNEQPDKAIDLFIEMLKVDPE---TVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTRE  104 (389)
T ss_pred             hhhhhhhccHHHHHHHHHHhcCChHHHHHHHHHHHhcCcc---cHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHH
Confidence            3444445555555555554445556899999999666674   455899999999999999999999999987643222 


Q ss_pred             --HHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc---CCC------HHH
Q 047221          230 --EKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT---ERK------VSY  298 (509)
Q Consensus       230 --~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~------~~~  298 (509)
                        ...+..+...+ ...|++++|..+|+.+.+.. +.+..+++.++.+|.+.|++++|.+.++.+   .++      ...
T Consensus       105 ~~~~~~~~La~~~-~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  182 (389)
T PRK11788        105 QRLLALQELGQDY-LKAGLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHF  182 (389)
T ss_pred             HHHHHHHHHHHHH-HHCCCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHH
Confidence              23455666644 45566999999999998753 456788999999999999999999999987   221      224


Q ss_pred             HHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH
Q 047221          299 YNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCR  378 (509)
Q Consensus       299 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  378 (509)
                      |..+...+.+.|++++|.+.|+++.+.. +.+...+..+...|.+.|++++|.++++++.+.+......+++.++.+|.+
T Consensus       183 ~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~  261 (389)
T PRK11788        183 YCELAQQALARGDLDAARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQA  261 (389)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHH
Confidence            5678888999999999999999998764 334667888889999999999999999999876433234678899999999


Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh---CCChHHH
Q 047221          379 VGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDK---NNNPVMA  455 (509)
Q Consensus       379 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~---~g~~~~a  455 (509)
                      .|++++|...++++.+.  .|+...+..++..+.+.|++++|..+++++.+.  .|+..+++.++..+..   .|+.+++
T Consensus       262 ~g~~~~A~~~l~~~~~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a  337 (389)
T PRK11788        262 LGDEAEGLEFLRRALEE--YPGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKES  337 (389)
T ss_pred             cCCHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhH
Confidence            99999999999999876  466667789999999999999999999998876  6899999988888775   5689999


Q ss_pred             HHHHHHHHHCCCCcCHH
Q 047221          456 KNVLSEMMKNGLRPNVS  472 (509)
Q Consensus       456 ~~~~~~m~~~g~~p~~~  472 (509)
                      +.++++|.+.+++|++.
T Consensus       338 ~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        338 LLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             HHHHHHHHHHHHhCCCC
Confidence            99999999988877765

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

Probab=99.88  E-value=1.1e-18  Score=192.47  Aligned_cols=329  Identities=11%  Similarity=0.044  Sum_probs=172.4

Q ss_pred             CHHHHHHHHHHHhcCCc--hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHH
Q 047221          159 SNASVIEILRVLNSEKV--SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFL  236 (509)
Q Consensus       159 ~~~~~~~ll~~~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~l  236 (509)
                      +...+..+...+...|+  +|..+|+.+....|+   +...+..++..+.+.|++++|..+++++.... +.+...|..+
T Consensus       532 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l  607 (899)
T TIGR02917       532 NLRAILALAGLYLRTGNEEEAVAWLEKAAELNPQ---EIEPALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLML  607 (899)
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc---chhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHH
Confidence            34455555555555554  566666666333342   22355566666666666666666666664432 2344455555


Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCc
Q 047221          237 PVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDF  312 (509)
Q Consensus       237 l~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~  312 (509)
                      ..++. ..+++++|...++.+.+.. +.+...+..+..+|.+.|++++|..+|+++    +.+..+|..++..+...|++
T Consensus       608 ~~~~~-~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  685 (899)
T TIGR02917       608 GRAQL-AAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELKPDNTEAQIGLAQLLLAAKRT  685 (899)
T ss_pred             HHHHH-HcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCH
Confidence            54333 3344666666666665433 234445556666666666666666666554    23455555555555555555


Q ss_pred             cHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHH
Q 047221          313 KGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQM  392 (509)
Q Consensus       313 ~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  392 (509)
                      ++|.++++.+.+.+ +.+...+..+...+.+.|++++|.+.|+.+.+.+  |+..++..+..++.+.|++++|.+.++++
T Consensus       686 ~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  762 (899)
T TIGR02917       686 ESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAW  762 (899)
T ss_pred             HHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            55555555555443 3344445555555555555555555555554432  22234444444444555555555555444


Q ss_pred             HHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCC--------------------------------CCCHHHHH
Q 047221          393 VKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYK--------------------------------SSSNMLYS  440 (509)
Q Consensus       393 ~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~--------------------------------~p~~~~~~  440 (509)
                      .+.. +.+...++.+...|.+.|++++|.+.|+++.+...                                .-+..++.
T Consensus       763 l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  841 (899)
T TIGR02917       763 LKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKDPRALEYAEKALKLAPNIPAILD  841 (899)
T ss_pred             HHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHhhCCCCcHHHH
Confidence            4432 22344444444444444555555444444443321                                11233444


Q ss_pred             HHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 047221          441 LLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYS  498 (509)
Q Consensus       441 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~  498 (509)
                      .+...+...|++++|.++++++.+.+.. +..++..+..++.+.|++++|.+++++|.
T Consensus       842 ~~~~~~~~~g~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  898 (899)
T TIGR02917       842 TLGWLLVEKGEADRALPLLRKAVNIAPE-AAAIRYHLALALLATGRKAEARKELDKLL  898 (899)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            5555556666666666666666654332 55566666666666666666666666654

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=99.87  E-value=5.2e-18  Score=187.00  Aligned_cols=332  Identities=10%  Similarity=-0.049  Sum_probs=202.7

Q ss_pred             CHHHHHHHHHHHhcCCc--hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHH
Q 047221          159 SNASVIEILRVLNSEKV--SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFL  236 (509)
Q Consensus       159 ~~~~~~~ll~~~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~l  236 (509)
                      +...+..+...+...|+  +|.+.|+.+....|+   +...+..+...+...|++++|.++|+++.... +.+..++..+
T Consensus       464 ~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~---~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l  539 (899)
T TIGR02917       464 NASLHNLLGAIYLGKGDLAKAREAFEKALSIEPD---FFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILAL  539 (899)
T ss_pred             CcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCC---cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHH
Confidence            34455555555555554  566666666444443   22355556666666666666666666665432 1234444444


Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCc
Q 047221          237 PVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDF  312 (509)
Q Consensus       237 l~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~  312 (509)
                      ...+. ..|+.++|..+++.+.+.+ +.+...+..++..|.+.|++++|..+++++    +.+...|..+..+|.+.|++
T Consensus       540 ~~~~~-~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  617 (899)
T TIGR02917       540 AGLYL-RTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDL  617 (899)
T ss_pred             HHHHH-HcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCH
Confidence            44333 3444666666666665543 334455566666666666666666666665    34566667777777777777


Q ss_pred             cHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHH
Q 047221          313 KGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQM  392 (509)
Q Consensus       313 ~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  392 (509)
                      ++|.+.|+++.+.. +.+...+..+..+|.+.|++++|..+++++.+.. +.+..++..+...+...|++++|..+++.+
T Consensus       618 ~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  695 (899)
T TIGR02917       618 NKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSL  695 (899)
T ss_pred             HHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            77777777666543 3345556666666777777777777777666542 334566666666677777777777777766


Q ss_pred             HHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHH
Q 047221          393 VKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVS  472 (509)
Q Consensus       393 ~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  472 (509)
                      .+.+ +.+...+..+...|.+.|++++|.+.|+.+...+  |+..++..++..+.+.|++++|.+.++++.+. .+.+..
T Consensus       696 ~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~-~~~~~~  771 (899)
T TIGR02917       696 QKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKT-HPNDAV  771 (899)
T ss_pred             HhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHH
Confidence            6553 3355566666667777777777777777666553  33355556666777777777777777776654 233556


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 047221          473 VYRRVLKHLHTSHQEHMAKCLSSRYSSLSL  502 (509)
Q Consensus       473 t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~  502 (509)
                      .+..+...|.+.|++++|.+.++++.+..+
T Consensus       772 ~~~~la~~~~~~g~~~~A~~~~~~~~~~~p  801 (899)
T TIGR02917       772 LRTALAELYLAQKDYDKAIKHYRTVVKKAP  801 (899)
T ss_pred             HHHHHHHHHHHCcCHHHHHHHHHHHHHhCC
Confidence            666666677777777777777777766544

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.

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.78  E-value=8.1e-15  Score=153.65  Aligned_cols=325  Identities=10%  Similarity=0.002  Sum_probs=209.9

Q ss_pred             HHHHHhcCCc--hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhc
Q 047221          166 ILRVLNSEKV--SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSK  243 (509)
Q Consensus       166 ll~~~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~  243 (509)
                      ++..+.+.|+  +|+.+++.+....|+   +...+..++.+....|++++|...|+++...  .|+.......+......
T Consensus        48 ~~~~~~~~g~~~~A~~l~~~~l~~~p~---~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~--~P~~~~a~~~la~~l~~  122 (656)
T PRK15174         48 FAIACLRKDETDVGLTLLSDRVLTAKN---GRDLLRRWVISPLASSQPDAVLQVVNKLLAV--NVCQPEDVLLVASVLLK  122 (656)
T ss_pred             HHHHHHhcCCcchhHHHhHHHHHhCCC---chhHHHHHhhhHhhcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHH
Confidence            3344444453  677777777555554   2235555556666778888888888877554  34433333333334445


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHH
Q 047221          244 ALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLL  319 (509)
Q Consensus       244 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~  319 (509)
                      .|+.++|...++...+.. +.+...+..+...|...|++++|...++.+    +.+...+..+ ..+.+.|++++|...+
T Consensus       123 ~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~~~~a~~~~-~~l~~~g~~~eA~~~~  200 (656)
T PRK15174        123 SKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPPRGDMIATC-LSFLNKSRLPEDHDLA  200 (656)
T ss_pred             cCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCCCHHHHHHH-HHHHHcCCHHHHHHHH
Confidence            556888888888777643 334566777777788888888887777664    2333344333 3467778888888888


Q ss_pred             HHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHH----HHHHHHHHHHC
Q 047221          320 VEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDV----AFNFFNQMVKR  395 (509)
Q Consensus       320 ~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~----a~~~~~~m~~~  395 (509)
                      +.+.+..-.++...+..+..++.+.|++++|...+++..+.. +.+...+..+...+.+.|++++    |...|++..+.
T Consensus       201 ~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l  279 (656)
T PRK15174        201 RALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQF  279 (656)
T ss_pred             HHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhh
Confidence            777655323344444555667777888888888888777653 3346666777777777787775    67777777765


Q ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHH-H
Q 047221          396 GLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSV-Y  474 (509)
Q Consensus       396 g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t-~  474 (509)
                      . +.+...+..+...+.+.|++++|...+++..+... .+...+..+...+.+.|++++|++.++++...  .|+... +
T Consensus       280 ~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P-~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~--~P~~~~~~  355 (656)
T PRK15174        280 N-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHP-DLPYVRAMYARALRQVGQYTAASDEFVQLARE--KGVTSKWN  355 (656)
T ss_pred             C-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CccchHHH
Confidence            2 23456777777778888888888888877776532 23445666777777888888888888777763  344333 3


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 047221          475 RRVLKHLHTSHQEHMAKCLSSRYSSLSL  502 (509)
Q Consensus       475 ~~ll~~~~~~g~~~~a~~~~~~m~~~~~  502 (509)
                      ..+..++...|+.++|...+++..+..+
T Consensus       356 ~~~a~al~~~G~~deA~~~l~~al~~~P  383 (656)
T PRK15174        356 RYAAAALLQAGKTSEAESVFEHYIQARA  383 (656)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCh
Confidence            3345567777888888888877765543

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.74  E-value=3.3e-14  Score=149.11  Aligned_cols=298  Identities=13%  Similarity=0.037  Sum_probs=239.4

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 047221          197 ICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMF  276 (509)
Q Consensus       197 ~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  276 (509)
                      -.-.++..+.+.|++++|..+++.............+...+  .....|+.++|...++.+.+.. +.+...+..+...+
T Consensus        44 ~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~~~~l~~l~~--~~l~~g~~~~A~~~l~~~l~~~-P~~~~a~~~la~~l  120 (656)
T PRK15174         44 NIILFAIACLRKDETDVGLTLLSDRVLTAKNGRDLLRRWVI--SPLASSQPDAVLQVVNKLLAVN-VCQPEDVLLVASVL  120 (656)
T ss_pred             CHHHHHHHHHhcCCcchhHHHhHHHHHhCCCchhHHHHHhh--hHhhcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHH
Confidence            34456778889999999999999987765444333444333  3344667999999999999864 44567788999999


Q ss_pred             HhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHH
Q 047221          277 SVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACE  352 (509)
Q Consensus       277 ~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~  352 (509)
                      ...|++++|...+++.    +.+...|..+...+...|++++|...++.+....- .+...+..+ ..+...|++++|..
T Consensus       121 ~~~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P-~~~~a~~~~-~~l~~~g~~~eA~~  198 (656)
T PRK15174        121 LKSKQYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLARTQAQEVP-PRGDMIATC-LSFLNKSRLPEDHD  198 (656)
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCC-CCHHHHHHH-HHHHHcCCHHHHHH
Confidence            9999999999999986    45688899999999999999999999998876532 223333333 45888999999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHH----HHHHHHHHH
Q 047221          353 LLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYED----AYKYVVLSA  428 (509)
Q Consensus       353 ~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~----A~~~~~~m~  428 (509)
                      +++.+.+....++...+..+..++.+.|++++|...++++.+.. +.+...+..+...|...|++++    |...|++..
T Consensus       199 ~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al  277 (656)
T PRK15174        199 LARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHAL  277 (656)
T ss_pred             HHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHH
Confidence            99998877434455556666788899999999999999999764 4467788889999999999986    899999988


Q ss_pred             hCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 047221          429 DKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRP-NVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSLG  503 (509)
Q Consensus       429 ~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~  503 (509)
                      +... .+...+..+...+.+.|++++|+..+++..+.  .| +...+..+..++.+.|++++|...++++.+.++.
T Consensus       278 ~l~P-~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l--~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~  350 (656)
T PRK15174        278 QFNS-DNVRIVTLYADALIRTGQNEKAIPLLQQSLAT--HPDLPYVRAMYARALRQVGQYTAASDEFVQLAREKGV  350 (656)
T ss_pred             hhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc
Confidence            7642 35678899999999999999999999999885  34 4556777888999999999999999999877554

>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=99.73  E-value=1.8e-13  Score=143.78  Aligned_cols=340  Identities=11%  Similarity=-0.032  Sum_probs=256.8

Q ss_pred             CCCCCHHHHHHHHHHHhcCCc--hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCC------
Q 047221          155 SVSLSNASVIEILRVLNSEKV--SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQV------  226 (509)
Q Consensus       155 ~~~~~~~~~~~ll~~~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~------  226 (509)
                      ...|+...+..+-.++...|+  +|++.++....+.|+   +...|..+..+|...|++++|+.-|......+-      
T Consensus       155 ~~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p~---~~~a~~~~a~a~~~lg~~~eA~~~~~~~~~~~~~~~~~~  231 (615)
T TIGR00990       155 ECKPDPVYYSNRAACHNALGDWEKVVEDTTAALELDPD---YSKALNRRANAYDGLGKYADALLDLTASCIIDGFRNEQS  231 (615)
T ss_pred             hcCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCC---CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccHHH
Confidence            355676777777777777775  899999999777775   445899999999999999999876644322110      


Q ss_pred             ----------------------ccC----HHHHHHH---------------------------HHHH-----HhccCCHH
Q 047221          227 ----------------------CLN----EKAFGFL---------------------------PVLI-----SSKALTKK  248 (509)
Q Consensus       227 ----------------------~p~----~~~~~~l---------------------------l~~~-----~~~~~~~~  248 (509)
                                            .|.    .......                           +..+     ....+.++
T Consensus       232 ~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~e~~~~~~y~  311 (615)
T TIGR00990       232 AQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNELDEETGNGQLQLGLKSPESKADESYE  311 (615)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhcccccccccccchHHHHHHHHHhhhhhhHH
Confidence                                  010    0000000                           0000     01123588


Q ss_pred             HHHHHHHHHHHcC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHH
Q 047221          249 GIWRVVEVLNQVG--GSCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEM  322 (509)
Q Consensus       249 ~a~~~~~~m~~~g--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  322 (509)
                      +|...|+...+.+  .+.....++.+...+...|++++|...|++.    +.+..+|..+...+...|++++|+..|++.
T Consensus       312 ~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~a  391 (615)
T TIGR00990       312 EAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELDPRVTQSYIKRASMNLELGDPDKAEEDFDKA  391 (615)
T ss_pred             HHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            8999999988765  2334567889999999999999999999985    344778999999999999999999999999


Q ss_pred             HHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHH
Q 047221          323 RQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLA  402 (509)
Q Consensus       323 ~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  402 (509)
                      .+.. +-+..+|..+...|...|++++|...|++..+.. +.+...+..+...+.+.|++++|+..|++..+.. +-+..
T Consensus       392 l~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-P~~~~  468 (615)
T TIGR00990       392 LKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNF-PEAPD  468 (615)
T ss_pred             HHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChH
Confidence            8764 4457889999999999999999999999998863 3356778888899999999999999999988752 34578


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCH------HHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHH
Q 047221          403 THAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSN------MLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRR  476 (509)
Q Consensus       403 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~------~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~  476 (509)
                      .++.+...|...|++++|.+.|++..+.....+.      ..++..+..+...|++++|.+++++..... .-+...+..
T Consensus       469 ~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~-p~~~~a~~~  547 (615)
T TIGR00990       469 VYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIID-PECDIAVAT  547 (615)
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC-CCcHHHHHH
Confidence            8999999999999999999999998765322111      122222333445799999999999988753 223456888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCC
Q 047221          477 VLKHLHTSHQEHMAKCLSSRYSSLS  501 (509)
Q Consensus       477 ll~~~~~~g~~~~a~~~~~~m~~~~  501 (509)
                      +...+.+.|++++|.+.+++..+..
T Consensus       548 la~~~~~~g~~~eAi~~~e~A~~l~  572 (615)
T TIGR00990       548 MAQLLLQQGDVDEALKLFERAAELA  572 (615)
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHHh
Confidence            9999999999999999999987653

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

Probab=99.71  E-value=1.2e-14  Score=139.91  Aligned_cols=329  Identities=11%  Similarity=0.007  Sum_probs=218.5

Q ss_pred             HHHHHHHHHHHhcCCc--hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHH
Q 047221          160 NASVIEILRVLNSEKV--SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLP  237 (509)
Q Consensus       160 ~~~~~~ll~~~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll  237 (509)
                      ..+|..+-+.+...|+  +|+.+++.+..++|+   .++.|..+..++...|+.+.|.+.|.+..+.  .|+.....+-+
T Consensus       116 ae~ysn~aN~~kerg~~~~al~~y~~aiel~p~---fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~l  190 (966)
T KOG4626|consen  116 AEAYSNLANILKERGQLQDALALYRAAIELKPK---FIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDL  190 (966)
T ss_pred             HHHHHHHHHHHHHhchHHHHHHHHHHHHhcCch---hhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--Ccchhhhhcch
Confidence            4566667777777775  788888888777775   3358888888888888888888888877543  35544444444


Q ss_pred             HHHHhccCCHHHHHHHHHHHHHcC--------------------------------CCC-CHHHHHHHHHHHHhcCCHHH
Q 047221          238 VLISSKALTKKGIWRVVEVLNQVG--------------------------------GSC-LVSGVRALIEMFSVLGLYEM  284 (509)
Q Consensus       238 ~~~~~~~~~~~~a~~~~~~m~~~g--------------------------------~~~-~~~~~~~li~~~~~~g~~~~  284 (509)
                      .-.....|++++|...+.+..+..                                +.| -...|-.|.+.|...+.++.
T Consensus       191 gnLlka~Grl~ea~~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~  270 (966)
T KOG4626|consen  191 GNLLKAEGRLEEAKACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDR  270 (966)
T ss_pred             hHHHHhhcccchhHHHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchH
Confidence            333344444555555444444321                                112 12345555555555556666


Q ss_pred             HHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCC-hHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 047221          285 AKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPI-TLTYNYVLGVLCKNGQDADACELLEEMLG  359 (509)
Q Consensus       285 A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~  359 (509)
                      |...+.+.    +...+.+..|...|...|++|-|+..|++..+.  .|+ ...|+.|..++-..|++.+|.+.+.....
T Consensus       271 Avs~Y~rAl~lrpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~--~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~  348 (966)
T KOG4626|consen  271 AVSCYLRALNLRPNHAVAHGNLACIYYEQGLLDLAIDTYKRALEL--QPNFPDAYNNLANALKDKGSVTEAVDCYNKALR  348 (966)
T ss_pred             HHHHHHHHHhcCCcchhhccceEEEEeccccHHHHHHHHHHHHhc--CCCchHHHhHHHHHHHhccchHHHHHHHHHHHH
Confidence            65555542    223556666666666667777777777766654  333 56777777777777888888777777766


Q ss_pred             CCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCH-H
Q 047221          360 RNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPR-LATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSN-M  437 (509)
Q Consensus       360 ~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~  437 (509)
                      . .+--....+.|-..|...|.+++|..+|....+-  .|. ...+|.|...|.++|++++|...+++...  ++|+. .
T Consensus       349 l-~p~hadam~NLgni~~E~~~~e~A~~ly~~al~v--~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAd  423 (966)
T KOG4626|consen  349 L-CPNHADAMNNLGNIYREQGKIEEATRLYLKALEV--FPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFAD  423 (966)
T ss_pred             h-CCccHHHHHHHHHHHHHhccchHHHHHHHHHHhh--ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHH
Confidence            4 2223556777777777778888888877776643  333 45677788888888888888888877654  34543 4


Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 047221          438 LYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNV-SVYRRVLKHLHTSHQEHMAKCLSSRYSSLSL  502 (509)
Q Consensus       438 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~  502 (509)
                      .|+.+...|-..|+.+.|++.+.+.+.  +.|.. ..++.|...|...|...+|++-+++..+..+
T Consensus       424 a~~NmGnt~ke~g~v~~A~q~y~rAI~--~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkP  487 (966)
T KOG4626|consen  424 ALSNMGNTYKEMGDVSAAIQCYTRAIQ--INPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKP  487 (966)
T ss_pred             HHHhcchHHHHhhhHHHHHHHHHHHHh--cCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCC
Confidence            677888888888888888888888776  45543 4677788888888888888888887765543

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.70  E-value=5.4e-13  Score=123.50  Aligned_cols=341  Identities=15%  Similarity=0.169  Sum_probs=250.9

Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHhcCC-----------------------------chHHHHHHHhhccCCCCccChhH
Q 047221          147 TESKLLSMSVSLSNASVIEILRVLNSEK-----------------------------VSALCFLKYMREIMPEFYKNSDI  197 (509)
Q Consensus       147 ~~~~l~~~~~~~~~~~~~~ll~~~~~~~-----------------------------~~A~~~~~~~~~~~p~~~~~~~~  197 (509)
                      +...|+..|+..++..-..+++..+-..                             +.|.-+|+..    |   ++..+
T Consensus       137 lY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK~G~vAdL~~E~~----P---KT~et  209 (625)
T KOG4422|consen  137 LYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWKSGAVADLLFETL----P---KTDET  209 (625)
T ss_pred             HHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccccccccccccccHHHHHHhhc----C---CCchh
Confidence            5567777788888877777766543111                             1233222222    4   46679


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 047221          198 CSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFS  277 (509)
Q Consensus       198 ~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  277 (509)
                      |..||.++|+--..+.|.+++++-.....+.+..+||.+|.+..     +....+++.+|......||..|+|+++.+.+
T Consensus       210 ~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S-----~~~~K~Lv~EMisqkm~Pnl~TfNalL~c~a  284 (625)
T KOG4422|consen  210 VSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASS-----YSVGKKLVAEMISQKMTPNLFTFNALLSCAA  284 (625)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHH-----hhccHHHHHHHHHhhcCCchHhHHHHHHHHH
Confidence            99999999999999999999999999999999999999999654     4444889999999999999999999999999


Q ss_pred             hcCCHHHHHHHHHH----c-----CCCHHHHHHHHHHHHhcCCccH-HHHHHHHHHHc--C--CC---C-ChHHHHHHHH
Q 047221          278 VLGLYEMAKYVIKK----T-----ERKVSYYNILIKEMCRRCDFKG-PRDLLVEMRQV--G--CE---P-ITLTYNYVLG  339 (509)
Q Consensus       278 ~~g~~~~A~~~~~~----m-----~~~~~~~~~li~~~~~~g~~~~-A~~~~~~m~~~--g--~~---p-~~~t~~~li~  339 (509)
                      +.|+++.|++.+-+    |     +|...+|..+|..+++.++..+ |..++.+....  |  ++   | |..-|...|+
T Consensus       285 kfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~  364 (625)
T KOG4422|consen  285 KFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQSAMS  364 (625)
T ss_pred             HhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHHHHH
Confidence            99999888766544    3     6899999999999999888644 55555555532  2  22   2 4556678889


Q ss_pred             HHHhcCChHHHHHHHHHHHhC----CCCCCH---HHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 047221          340 VLCKNGQDADACELLEEMLGR----NCHPDA---ITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYF  412 (509)
Q Consensus       340 ~~~~~g~~~~a~~~~~~m~~~----g~~p~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  412 (509)
                      .|.+..+.+.|.++..-+...    -+.|+.   .-|..+....|+....+.....|+.|+-.-+-|+..+...++++..
T Consensus       365 Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~  444 (625)
T KOG4422|consen  365 ICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALD  444 (625)
T ss_pred             HHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHHHHh
Confidence            999999999999997755432    133442   3466778888999999999999999998888899999999999999


Q ss_pred             HcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCC-Ch--------H-----HHHHHH-------HHHHHCCCCcCH
Q 047221          413 IFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNN-NP--------V-----MAKNVL-------SEMMKNGLRPNV  471 (509)
Q Consensus       413 ~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g-~~--------~-----~a~~~~-------~~m~~~g~~p~~  471 (509)
                      -.|.++-..++|.+++..|...+...-.-++..+++.. +.        .     -|..++       .+|....+.|  
T Consensus       445 v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r~~~~~~--  522 (625)
T KOG4422|consen  445 VANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYESQPIRQRAQDWPA--  522 (625)
T ss_pred             hcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhHHHHHhccCCh--
Confidence            99999999999999998876655555555555555443 11        0     011111       1223333333  


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 047221          472 SVYRRVLKHLHTSHQEHMAKCLSSRYSSLS  501 (509)
Q Consensus       472 ~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~  501 (509)
                      ...+.++-.+.+.|..++|.+++..+.+.+
T Consensus       523 t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~  552 (625)
T KOG4422|consen  523 TSLNCIAILLLRAGRTQKAWEMLGLFLRKH  552 (625)
T ss_pred             hHHHHHHHHHHHcchHHHHHHHHHHHHhcC
Confidence            345566666778888888888888775443

>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=99.66  E-value=3.9e-12  Score=133.66  Aligned_cols=323  Identities=14%  Similarity=0.028  Sum_probs=236.7

Q ss_pred             HHhcCCc--hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccC-HHHHHHHHHHHHhccC
Q 047221          169 VLNSEKV--SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLN-EKAFGFLPVLISSKAL  245 (509)
Q Consensus       169 ~~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~-~~~~~~ll~~~~~~~~  245 (509)
                      .+.+.|+  .|++.|+......|+..    .|..+..+|.+.|++++|++.++...+.  .|+ ...|..+-.++ ...|
T Consensus       136 ~~~~~~~~~~Ai~~y~~al~~~p~~~----~~~n~a~~~~~l~~~~~Ai~~~~~al~l--~p~~~~a~~~~a~a~-~~lg  208 (615)
T TIGR00990       136 KAYRNKDFNKAIKLYSKAIECKPDPV----YYSNRAACHNALGDWEKVVEDTTAALEL--DPDYSKALNRRANAY-DGLG  208 (615)
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCchH----HHHHHHHHHHHhCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHH-HHcC
Confidence            3445554  89999999977777644    8999999999999999999999998765  354 44555555544 4455


Q ss_pred             CHHHHHHHHHHHHHcCCC--------------------------------CCHHHHHHH---------------------
Q 047221          246 TKKGIWRVVEVLNQVGGS--------------------------------CLVSGVRAL---------------------  272 (509)
Q Consensus       246 ~~~~a~~~~~~m~~~g~~--------------------------------~~~~~~~~l---------------------  272 (509)
                      ++++|...+......+..                                +........                     
T Consensus       209 ~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  288 (615)
T TIGR00990       209 KYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNELDE  288 (615)
T ss_pred             CHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhccccccc
Confidence            588887655443221100                                000000000                     


Q ss_pred             ------HHHH------HhcCCHHHHHHHHHHc-------CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCC-hH
Q 047221          273 ------IEMF------SVLGLYEMAKYVIKKT-------ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPI-TL  332 (509)
Q Consensus       273 ------i~~~------~~~g~~~~A~~~~~~m-------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~  332 (509)
                            +..+      ...+++++|.+.|++.       +.+...|+.+...+...|++++|+..|++..+.  .|+ ..
T Consensus       289 ~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l--~P~~~~  366 (615)
T TIGR00990       289 ETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIEL--DPRVTQ  366 (615)
T ss_pred             ccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHH
Confidence                  0000      1235788899988875       123567888889999999999999999998875  444 56


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 047221          333 TYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYF  412 (509)
Q Consensus       333 t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  412 (509)
                      .|..+...+...|++++|...|++..+.. +.+...|..+...+...|++++|...|++..+.. +.+...+..+..++.
T Consensus       367 ~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~  444 (615)
T TIGR00990       367 SYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQY  444 (615)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHH
Confidence            88888899999999999999999988763 3457788889999999999999999999998763 335777888999999


Q ss_pred             HcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCc-----CHH-HHHHHHHHHHhcCC
Q 047221          413 IFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRP-----NVS-VYRRVLKHLHTSHQ  486 (509)
Q Consensus       413 ~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-----~~~-t~~~ll~~~~~~g~  486 (509)
                      +.|++++|+..|++..+.. .-+...|+.+...+...|++++|++.|++.....-..     +.. .+...+..+...|+
T Consensus       445 ~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~  523 (615)
T TIGR00990       445 KEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQD  523 (615)
T ss_pred             HCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhh
Confidence            9999999999999987653 3356788899999999999999999999988742111     111 11222223344699


Q ss_pred             HHHHHHHHHHHHhCCCC
Q 047221          487 EHMAKCLSSRYSSLSLG  503 (509)
Q Consensus       487 ~~~a~~~~~~m~~~~~~  503 (509)
                      +++|.+++++..+.++.
T Consensus       524 ~~eA~~~~~kAl~l~p~  540 (615)
T TIGR00990       524 FIEAENLCEKALIIDPE  540 (615)
T ss_pred             HHHHHHHHHHHHhcCCC
Confidence            99999999998776543

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.65  E-value=3.2e-12  Score=143.23  Aligned_cols=317  Identities=12%  Similarity=0.018  Sum_probs=206.7

Q ss_pred             hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCcc-CHHHHHHH---------H--HHHHhc
Q 047221          176 SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCL-NEKAFGFL---------P--VLISSK  243 (509)
Q Consensus       176 ~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p-~~~~~~~l---------l--~~~~~~  243 (509)
                      +|+..|+......|+   +...+..+...+.+.|++++|+..|++..+..-.. ....+..+         +  ......
T Consensus       287 ~A~~~l~~aL~~~P~---~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~~  363 (1157)
T PRK11447        287 KAIPELQQAVRANPK---DSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAALK  363 (1157)
T ss_pred             HHHHHHHHHHHhCCC---CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHHH
Confidence            789999888666674   45688888899999999999999999887653221 11112111         1  112334


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHH-----------------
Q 047221          244 ALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNIL-----------------  302 (509)
Q Consensus       244 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~l-----------------  302 (509)
                      .+++++|...+++..+.. +.+...+..+..+|...|++++|++.|++.    +.+...+..+                 
T Consensus       364 ~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~a~~~L~~l~~~~~~~~A~~~l~  442 (1157)
T PRK11447        364 ANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNAVRGLANLYRQQSPEKALAFIA  442 (1157)
T ss_pred             CCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            566999999999888764 345667778888999999999999998875    2233333222                 


Q ss_pred             -------------------------HHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHH
Q 047221          303 -------------------------IKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEM  357 (509)
Q Consensus       303 -------------------------i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m  357 (509)
                                               ...+...|++++|++.|++..+.. +-+...+..+...|.+.|++++|...++++
T Consensus       443 ~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~~~~A~~~l~~a  521 (1157)
T PRK11447        443 SLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQRSQADALMRRL  521 (1157)
T ss_pred             hCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence                                     334456788888888888887653 224556677788888888888888888887


Q ss_pred             HhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHC---------------------------------------CCC
Q 047221          358 LGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKR---------------------------------------GLQ  398 (509)
Q Consensus       358 ~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---------------------------------------g~~  398 (509)
                      .+.. +.+...+..+...+.+.++.++|...++.+...                                       ..+
T Consensus       522 l~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~~p  600 (1157)
T PRK11447        522 AQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQQP  600 (1157)
T ss_pred             HHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHhCC
Confidence            7642 122333322222333344444444433322110                                       112


Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCc-CHHHHHHH
Q 047221          399 PRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRP-NVSVYRRV  477 (509)
Q Consensus       399 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~l  477 (509)
                      .+...+..+...|.+.|+.++|+..|++..+.. ..+...+..++..|...|++++|++.++...+.  .| +..++..+
T Consensus       601 ~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~--~p~~~~~~~~l  677 (1157)
T PRK11447        601 PSTRIDLTLADWAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPAT--ANDSLNTQRRV  677 (1157)
T ss_pred             CCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCChHHHHHH
Confidence            344455667777777888888888888777653 235566777778888888888888888876653  33 33455556


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCC
Q 047221          478 LKHLHTSHQEHMAKCLSSRYSSLS  501 (509)
Q Consensus       478 l~~~~~~g~~~~a~~~~~~m~~~~  501 (509)
                      ..++...|++++|.++++++.+..
T Consensus       678 a~~~~~~g~~~eA~~~~~~al~~~  701 (1157)
T PRK11447        678 ALAWAALGDTAAAQRTFNRLIPQA  701 (1157)
T ss_pred             HHHHHhCCCHHHHHHHHHHHhhhC
Confidence            667777888888888888877654

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.65  E-value=1.2e-11  Score=132.50  Aligned_cols=331  Identities=12%  Similarity=0.010  Sum_probs=214.0

Q ss_pred             HHHHHHHHHhcCCc--hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHH
Q 047221          162 SVIEILRVLNSEKV--SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVL  239 (509)
Q Consensus       162 ~~~~ll~~~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~  239 (509)
                      .+..+-..+...++  +|.++++......|+   +...+..+...+.+.|++++|+..+++..+.  .|+...+..+.. 
T Consensus        51 ~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~---~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~--~P~~~~~~~la~-  124 (765)
T PRK10049         51 GYAAVAVAYRNLKQWQNSLTLWQKALSLEPQ---NDDYQRGLILTLADAGQYDEALVKAKQLVSG--APDKANLLALAY-  124 (765)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC---CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHH-
Confidence            45555555655564  677777777555564   2335667777777888888888888877655  343333333333 


Q ss_pred             HHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHcC--------------------------
Q 047221          240 ISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTE--------------------------  293 (509)
Q Consensus       240 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~--------------------------  293 (509)
                      .....++.++|...++++.+.. +.+...+..+..++...|..+.|...++...                          
T Consensus       125 ~l~~~g~~~~Al~~l~~al~~~-P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~~  203 (765)
T PRK10049        125 VYKRAGRHWDELRAMTQALPRA-PQTQQYPTEYVQALRNNRLSAPALGAIDDANLTPAEKRDLEADAAAELVRLSFMPTR  203 (765)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhccccc
Confidence            4445566888888888777654 2344445556666666666665554444221                          


Q ss_pred             --------------------------CCH-HHH----HHHHHHHHhcCCccHHHHHHHHHHHcCCC-CChHHHHHHHHHH
Q 047221          294 --------------------------RKV-SYY----NILIKEMCRRCDFKGPRDLLVEMRQVGCE-PITLTYNYVLGVL  341 (509)
Q Consensus       294 --------------------------~~~-~~~----~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~~~t~~~li~~~  341 (509)
                                                |+. ..+    ...+..+...|++++|+..|+++.+.+-. |+. .-..+..+|
T Consensus       204 ~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~y  282 (765)
T PRK10049        204 SEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAY  282 (765)
T ss_pred             ChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHH
Confidence                                      110 001    11123445668888888888888876522 322 122246678


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCC---CHHHHHHHHHHHHHcCChHHHHHHHHHHHHCC-----------CCCC---HHHH
Q 047221          342 CKNGQDADACELLEEMLGRNCHP---DAITYEIFIVYSCRVGKFDVAFNFFNQMVKRG-----------LQPR---LATH  404 (509)
Q Consensus       342 ~~~g~~~~a~~~~~~m~~~g~~p---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-----------~~p~---~~~~  404 (509)
                      ...|++++|+.+|+++.+.....   .......+..++.+.|++++|..+++.+.+..           -.|+   ...+
T Consensus       283 l~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~  362 (765)
T PRK10049        283 LKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQ  362 (765)
T ss_pred             HhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHH
Confidence            88888888888888877642111   13445566667788888888888888887652           1122   2345


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcC-HHHHHHHHHHHHh
Q 047221          405 AAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPN-VSVYRRVLKHLHT  483 (509)
Q Consensus       405 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~ll~~~~~  483 (509)
                      ..+...+...|+.++|+++++++.... +-+...+..+...+...|++++|++.+++...  +.|+ ...+......+..
T Consensus       363 ~~~a~~l~~~g~~~eA~~~l~~al~~~-P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~--l~Pd~~~l~~~~a~~al~  439 (765)
T PRK10049        363 SLLSQVAKYSNDLPQAEMRARELAYNA-PGNQGLRIDYASVLQARGWPRAAENELKKAEV--LEPRNINLEVEQAWTALD  439 (765)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh--hCCCChHHHHHHHHHHHH
Confidence            567777888888888888888887653 33466777888888888888888888888877  3455 4556666667788


Q ss_pred             cCCHHHHHHHHHHHHhCCCC
Q 047221          484 SHQEHMAKCLSSRYSSLSLG  503 (509)
Q Consensus       484 ~g~~~~a~~~~~~m~~~~~~  503 (509)
                      .|++++|+.+++++.+..+.
T Consensus       440 ~~~~~~A~~~~~~ll~~~Pd  459 (765)
T PRK10049        440 LQEWRQMDVLTDDVVAREPQ  459 (765)
T ss_pred             hCCHHHHHHHHHHHHHhCCC
Confidence            88899999988888876543

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.64  E-value=6.9e-12  Score=140.57  Aligned_cols=334  Identities=11%  Similarity=0.028  Sum_probs=227.0

Q ss_pred             CHHHHHHHHHHHhcCCc--hHHHHHHHhhccCCCCccChhHHHH------------HHHHHhccCCHHHHHHHHHHhhhC
Q 047221          159 SNASVIEILRVLNSEKV--SALCFLKYMREIMPEFYKNSDICSL------------VIDNCGRLDDYETMRQLLNDFNVY  224 (509)
Q Consensus       159 ~~~~~~~ll~~~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~------------li~~~~~~g~~~~A~~l~~~m~~~  224 (509)
                      +...+..+-..+.+.|+  +|++.|+......|+.. ....|..            ....+.+.|++++|+..|+++.+.
T Consensus       302 ~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~-~~~~~~~ll~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~  380 (1157)
T PRK11447        302 DSEALGALGQAYSQQGDRARAVAQFEKALALDPHSS-NRDKWESLLKVNRYWLLIQQGDAALKANNLAQAERLYQQARQV  380 (1157)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcc-chhHHHHHHHhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            45555666666666665  68888888755556432 1111211            133456777888888888877655


Q ss_pred             CCccC-HHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHH----------------------------------
Q 047221          225 QVCLN-EKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGV----------------------------------  269 (509)
Q Consensus       225 ~~~p~-~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~----------------------------------  269 (509)
                      .  |+ ...+..+-. .....|+.++|++.|++..+... .+...+                                  
T Consensus       381 ~--P~~~~a~~~Lg~-~~~~~g~~~eA~~~y~~aL~~~p-~~~~a~~~L~~l~~~~~~~~A~~~l~~l~~~~~~~~~~~~  456 (1157)
T PRK11447        381 D--NTDSYAVLGLGD-VAMARKDYAAAERYYQQALRMDP-GNTNAVRGLANLYRQQSPEKALAFIASLSASQRRSIDDIE  456 (1157)
T ss_pred             C--CCCHHHHHHHHH-HHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHHHHHHHHH
Confidence            3  33 333333434 44445557888887777776431 122222                                  


Q ss_pred             --------HHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHH
Q 047221          270 --------RALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYV  337 (509)
Q Consensus       270 --------~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l  337 (509)
                              ..+...+...|++++|.+.|++.    +.+...+..+...|.+.|++++|...|++..+.. +.+...+..+
T Consensus       457 ~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~-P~~~~~~~a~  535 (1157)
T PRK11447        457 RSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQK-PNDPEQVYAY  535 (1157)
T ss_pred             HHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHH
Confidence                    22344556778999999998885    4467778888999999999999999999987642 1222222222


Q ss_pred             H--------------------------------------------HHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 047221          338 L--------------------------------------------GVLCKNGQDADACELLEEMLGRNCHPDAITYEIFI  373 (509)
Q Consensus       338 i--------------------------------------------~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  373 (509)
                      .                                            ..+...|+.++|.++++     ..+.+...+..+.
T Consensus       536 al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~-----~~p~~~~~~~~La  610 (1157)
T PRK11447        536 GLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLR-----QQPPSTRIDLTLA  610 (1157)
T ss_pred             HHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHH-----hCCCCchHHHHHH
Confidence            2                                            23344455555555544     1234556677788


Q ss_pred             HHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChH
Q 047221          374 VYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPV  453 (509)
Q Consensus       374 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  453 (509)
                      ..+.+.|+.++|+..|++..+.. +.+...+..++..|...|+.++|++.++...+.. ..+..++..+..++...|+++
T Consensus       611 ~~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~-p~~~~~~~~la~~~~~~g~~~  688 (1157)
T PRK11447        611 DWAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPATA-NDSLNTQRRVALAWAALGDTA  688 (1157)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC-CCChHHHHHHHHHHHhCCCHH
Confidence            89999999999999999999863 4467889999999999999999999999877642 224456677888899999999


Q ss_pred             HHHHHHHHHHHCCC--Cc---CHHHHHHHHHHHHhcCCHHHHHHHHHHHH-hCCCCCC
Q 047221          454 MAKNVLSEMMKNGL--RP---NVSVYRRVLKHLHTSHQEHMAKCLSSRYS-SLSLGSS  505 (509)
Q Consensus       454 ~a~~~~~~m~~~g~--~p---~~~t~~~ll~~~~~~g~~~~a~~~~~~m~-~~~~~~~  505 (509)
                      +|.++++++....-  .|   +...+..+...+...|++++|++.+++.. ..|+.|.
T Consensus       689 eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~~~~~~~~  746 (1157)
T PRK11447        689 AAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMVASGITPT  746 (1157)
T ss_pred             HHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcCCCCC
Confidence            99999999987532  22   23456667788899999999999998875 4456544

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.64  E-value=1.1e-11  Score=133.03  Aligned_cols=339  Identities=11%  Similarity=0.005  Sum_probs=243.3

Q ss_pred             CCCCHHHHHHHHHHHhcCCc--hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHH
Q 047221          156 VSLSNASVIEILRVLNSEKV--SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAF  233 (509)
Q Consensus       156 ~~~~~~~~~~ll~~~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~  233 (509)
                      -+.++..+.-.+......|+  +|++++.......|   .+...+..+...+.+.|++++|.++|++..+.  .|+....
T Consensus        11 ~~~~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~~---~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~--~P~~~~a   85 (765)
T PRK10049         11 SALSNNQIADWLQIALWAGQDAEVITVYNRYRVHMQ---LPARGYAAVAVAYRNLKQWQNSLTLWQKALSL--EPQNDDY   85 (765)
T ss_pred             cCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC---CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHH
Confidence            35566666777777766665  78888888844344   34446999999999999999999999998765  3543333


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhc
Q 047221          234 GFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRR  309 (509)
Q Consensus       234 ~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~  309 (509)
                      ...+..+....++.++|...++...+.. +.+.. +..+..++...|+.++|...++++    +.+...+..+...+...
T Consensus        86 ~~~la~~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la~~l~~~  163 (765)
T PRK10049         86 QRGLILTLADAGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYVQALRNN  163 (765)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHC
Confidence            3344435556777999999999998763 44555 889999999999999999999986    44566666677777666


Q ss_pred             CCccHHHHHHH----------------------------------------------HHHHc-CCCCChH-HH----HHH
Q 047221          310 CDFKGPRDLLV----------------------------------------------EMRQV-GCEPITL-TY----NYV  337 (509)
Q Consensus       310 g~~~~A~~~~~----------------------------------------------~m~~~-g~~p~~~-t~----~~l  337 (509)
                      +..++|++.++                                              .+.+. .-.|+.. .+    ...
T Consensus       164 ~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~  243 (765)
T PRK10049        164 RLSAPALGAIDDANLTPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDR  243 (765)
T ss_pred             CChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHH
Confidence            66665554444                                              33322 1122221 11    111


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC---CHHHHHHHHHHHHH
Q 047221          338 LGVLCKNGQDADACELLEEMLGRNCH-PDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQP---RLATHAAFIKGYFI  413 (509)
Q Consensus       338 i~~~~~~g~~~~a~~~~~~m~~~g~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p---~~~~~~~li~~~~~  413 (509)
                      +.++...|++++|...|+.+.+.+.. |+. .-..+..+|...|++++|+..|+++.+..-..   .......+..++..
T Consensus       244 l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~  322 (765)
T PRK10049        244 LGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLE  322 (765)
T ss_pred             HHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHh
Confidence            33456779999999999999887532 332 22224678999999999999999987653111   13456667778899


Q ss_pred             cCCHHHHHHHHHHHHhCCC-----------CCC---HHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHH
Q 047221          414 FYRYEDAYKYVVLSADKYK-----------SSS---NMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLK  479 (509)
Q Consensus       414 ~g~~~~A~~~~~~m~~~~~-----------~p~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~  479 (509)
                      .|++++|.++++.+.+...           .|+   ...+..+...+...|+.++|+++++++... .+-+...+..+..
T Consensus       323 ~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~-~P~n~~l~~~lA~  401 (765)
T PRK10049        323 SENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYN-APGNQGLRIDYAS  401 (765)
T ss_pred             cccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHH
Confidence            9999999999998886531           233   234566778888999999999999999875 3445677888888


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCC
Q 047221          480 HLHTSHQEHMAKCLSSRYSSLSLG  503 (509)
Q Consensus       480 ~~~~~g~~~~a~~~~~~m~~~~~~  503 (509)
                      .+...|+.++|++.+++..+..+.
T Consensus       402 l~~~~g~~~~A~~~l~~al~l~Pd  425 (765)
T PRK10049        402 VLQARGWPRAAENELKKAEVLEPR  425 (765)
T ss_pred             HHHhcCCHHHHHHHHHHHHhhCCC
Confidence            999999999999999998887643

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

Probab=99.62  E-value=6.3e-13  Score=128.35  Aligned_cols=310  Identities=15%  Similarity=0.061  Sum_probs=235.4

Q ss_pred             hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccC-HHHHHHHHHHHHhccCCHHHHHHHH
Q 047221          176 SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLN-EKAFGFLPVLISSKALTKKGIWRVV  254 (509)
Q Consensus       176 ~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~~a~~~~  254 (509)
                      +|..-|......+|.+.   .+|+.|-..+-..|+.-.|++-|++....  .|+ ...|-.+-. .+...+.+++|+..+
T Consensus       202 ea~~cYlkAi~~qp~fA---iawsnLg~~f~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGn-V~ke~~~~d~Avs~Y  275 (966)
T KOG4626|consen  202 EAKACYLKAIETQPCFA---IAWSNLGCVFNAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGN-VYKEARIFDRAVSCY  275 (966)
T ss_pred             hhHHHHHHHHhhCCcee---eeehhcchHHhhcchHHHHHHHHHHhhcC--CCcchHHHhhHHH-HHHHHhcchHHHHHH
Confidence            44444444444455432   46777777788888888888888887544  343 234444444 455566689999888


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc---CCC-HHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCC
Q 047221          255 EVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT---ERK-VSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPI  330 (509)
Q Consensus       255 ~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  330 (509)
                      .+..... +-...++..|...|...|.+|.|...+++.   .|+ ..+||.|..++-..|++.+|.+.|.+..... .--
T Consensus       276 ~rAl~lr-pn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-p~h  353 (966)
T KOG4626|consen  276 LRALNLR-PNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLC-PNH  353 (966)
T ss_pred             HHHHhcC-CcchhhccceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhC-Ccc
Confidence            8776543 334677889999999999999999999985   444 7899999999999999999999999988763 334


Q ss_pred             hHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC-HHHHHHHH
Q 047221          331 TLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPD-AITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPR-LATHAAFI  408 (509)
Q Consensus       331 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li  408 (509)
                      ....+.|...|...|.+++|.++|....+-  .|. ...++.|...|-+.|++++|...+++..+  ++|+ ...|+.+-
T Consensus       354 adam~NLgni~~E~~~~e~A~~ly~~al~v--~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAda~~NmG  429 (966)
T KOG4626|consen  354 ADAMNNLGNIYREQGKIEEATRLYLKALEV--FPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFADALSNMG  429 (966)
T ss_pred             HHHHHHHHHHHHHhccchHHHHHHHHHHhh--ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHHHHHhcc
Confidence            678899999999999999999999988774  454 45789999999999999999999999885  4676 46899999


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHH-HHHHHHHHHH---hc
Q 047221          409 KGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVS-VYRRVLKHLH---TS  484 (509)
Q Consensus       409 ~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-t~~~ll~~~~---~~  484 (509)
                      ..|-..|++..|.+.+.+....+.. -....+.|...|-..|+..+|+.-|+...+  ++||.. .|..++.++-   .-
T Consensus       430 nt~ke~g~v~~A~q~y~rAI~~nPt-~AeAhsNLasi~kDsGni~~AI~sY~~aLk--lkPDfpdA~cNllh~lq~vcdw  506 (966)
T KOG4626|consen  430 NTYKEMGDVSAAIQCYTRAIQINPT-FAEAHSNLASIYKDSGNIPEAIQSYRTALK--LKPDFPDAYCNLLHCLQIVCDW  506 (966)
T ss_pred             hHHHHhhhHHHHHHHHHHHHhcCcH-HHHHHhhHHHHhhccCCcHHHHHHHHHHHc--cCCCCchhhhHHHHHHHHHhcc
Confidence            9999999999999999887765321 234688899999999999999999999887  677754 4555555443   33


Q ss_pred             CCHHHH-HHHHHHHHhC
Q 047221          485 HQEHMA-KCLSSRYSSL  500 (509)
Q Consensus       485 g~~~~a-~~~~~~m~~~  500 (509)
                      .++++- .++++-.++.
T Consensus       507 ~D~d~~~~kl~sivrdq  523 (966)
T KOG4626|consen  507 TDYDKRMKKLVSIVRDQ  523 (966)
T ss_pred             cchHHHHHHHHHHHHHH
Confidence            334433 3444444433

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.61  E-value=9.7e-12  Score=115.34  Aligned_cols=338  Identities=11%  Similarity=0.060  Sum_probs=248.9

Q ss_pred             CCCCHHHHHHHHHHHhcCCc--hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHH
Q 047221          156 VSLSNASVIEILRVLNSEKV--SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAF  233 (509)
Q Consensus       156 ~~~~~~~~~~ll~~~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~  233 (509)
                      .+-++.++..+|.++++-..  .|.++++.....+..  .+..+||.+|.+-.-..    ..++..+|....++||..||
T Consensus       203 ~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~k--v~~~aFN~lI~~~S~~~----~K~Lv~EMisqkm~Pnl~Tf  276 (625)
T KOG4422|consen  203 LPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGK--VYREAFNGLIGASSYSV----GKKLVAEMISQKMTPNLFTF  276 (625)
T ss_pred             cCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhhe--eeHHhhhhhhhHHHhhc----cHHHHHHHHHhhcCCchHhH
Confidence            56678899999999998764  799999988322222  34559999988754332    37899999999999999999


Q ss_pred             HHHHHHHHhccCCHHH----HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHH-HHHHHHHc-------------CCC
Q 047221          234 GFLPVLISSKALTKKG----IWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEM-AKYVIKKT-------------ERK  295 (509)
Q Consensus       234 ~~ll~~~~~~~~~~~~----a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~-A~~~~~~m-------------~~~  295 (509)
                      |+++. |..+.|.++.    |.+++.+|++.|+.|...+|.-+|..+++.++... |..+...+             +.|
T Consensus       277 NalL~-c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d  355 (625)
T KOG4422|consen  277 NALLS-CAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTD  355 (625)
T ss_pred             HHHHH-HHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCch
Confidence            99999 7777776664    56788999999999999999999999999887644 44444432             245


Q ss_pred             HHHHHHHHHHHHhcCCccHHHHHHHHHHHcC----CCCC---hHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHH
Q 047221          296 VSYYNILIKEMCRRCDFKGPRDLLVEMRQVG----CEPI---TLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAIT  368 (509)
Q Consensus       296 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g----~~p~---~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~  368 (509)
                      ...|...|+.|.+..+.+-|.++-.-+....    +.|+   ..-|..+..+.|+....+.-...|+.|+-.-.-|+..+
T Consensus       356 ~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~  435 (625)
T KOG4422|consen  356 NKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQT  435 (625)
T ss_pred             hHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchh
Confidence            6778888888889999888888776555321    3333   33466788888999999999999999998888889999


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC---------CHHH-----HHHHH-------HHH
Q 047221          369 YEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFY---------RYED-----AYKYV-------VLS  427 (509)
Q Consensus       369 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g---------~~~~-----A~~~~-------~~m  427 (509)
                      ...++.+..-.|+++-.-+++..++..|..-+...---++..+++..         ++..     |..++       .+|
T Consensus       436 m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~  515 (625)
T KOG4422|consen  436 MIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYESQPIRQ  515 (625)
T ss_pred             HHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhHHHH
Confidence            99999999999999999999999988875554444433444444332         1111     11122       233


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCC----CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 047221          428 ADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGL----RPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSL  502 (509)
Q Consensus       428 ~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~----~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~  502 (509)
                      .+.  .-.....+.+.-.+.+.|+.++|.+++....+.+-    .|......-++++-...+....|..+++-|...+.
T Consensus       516 r~~--~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a~~~n~  592 (625)
T KOG4422|consen  516 RAQ--DWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLASAFNL  592 (625)
T ss_pred             Hhc--cCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCc
Confidence            333  33455678888888999999999999999966542    23333344666677788889999999998876554

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.57  E-value=1.8e-11  Score=121.11  Aligned_cols=291  Identities=11%  Similarity=0.012  Sum_probs=220.5

Q ss_pred             HHHHHHHHHhc--cCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHH--HHHHH
Q 047221          197 ICSLVIDNCGR--LDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVS--GVRAL  272 (509)
Q Consensus       197 ~~~~li~~~~~--~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~--~~~~l  272 (509)
                      .+..+..+...  .|+++.|++.+....+..  +....+..+........|+.+.+...+.++.+..  |+..  ..-..
T Consensus        84 ~~~~~~~gl~a~~eGd~~~A~k~l~~~~~~~--~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~--~~~~~~~~l~~  159 (398)
T PRK10747         84 ARKQTEQALLKLAEGDYQQVEKLMTRNADHA--EQPVVNYLLAAEAAQQRGDEARANQHLERAAELA--DNDQLPVEITR  159 (398)
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHhcc--cchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CcchHHHHHHH
Confidence            34444444332  599999998888765442  2233333333334467777999999999998743  4443  22244


Q ss_pred             HHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCCh-------HHHHHHHHHH
Q 047221          273 IEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPIT-------LTYNYVLGVL  341 (509)
Q Consensus       273 i~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-------~t~~~li~~~  341 (509)
                      ...+...|+++.|...++++    +.+......+...|.+.|++++|.+++..+.+.+..++.       .+|..++...
T Consensus       160 a~l~l~~g~~~~Al~~l~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~  239 (398)
T PRK10747        160 VRIQLARNENHAARHGVDKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQA  239 (398)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHH
Confidence            77899999999999999886    567888999999999999999999999999988754322       2344445544


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 047221          342 CKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAY  421 (509)
Q Consensus       342 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  421 (509)
                      ....+.+...++++.+.+. .+.+......+..++...|+.++|.+++++..+.  .+|...  .++.+....++.+++.
T Consensus       240 ~~~~~~~~l~~~w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l--~~l~~~l~~~~~~~al  314 (398)
T PRK10747        240 MADQGSEGLKRWWKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERL--VLLIPRLKTNNPEQLE  314 (398)
T ss_pred             HHhcCHHHHHHHHHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHH--HHHHhhccCCChHHHH
Confidence            5556667777777776543 3457888889999999999999999999998875  445422  2344444569999999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 047221          422 KYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSS  499 (509)
Q Consensus       422 ~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~  499 (509)
                      +..+...+.. +-|...+..+...|.+.|++++|.+.|+...+  ..|+..+|..+...+.+.|+.++|.+++++-..
T Consensus       315 ~~~e~~lk~~-P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~--~~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        315 KVLRQQIKQH-GDTPLLWSTLGQLLMKHGEWQEASLAFRAALK--QRPDAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            9999887663 34556678899999999999999999999997  579999999999999999999999999987654

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.56  E-value=8.6e-11  Score=124.19  Aligned_cols=360  Identities=11%  Similarity=-0.004  Sum_probs=215.4

Q ss_pred             HhHHHHHHHHhcCCch-HHHHHHh-CCCCCCH-HHHHHHHHHHhcCCc--hHHHHHHHhhccCCCCccChhHHHHH--HH
Q 047221          131 KQVSEIIELLRSGDSE-TESKLLS-MSVSLSN-ASVIEILRVLNSEKV--SALCFLKYMREIMPEFYKNSDICSLV--ID  203 (509)
Q Consensus       131 ~~~~~~~~~~~~~~~~-~~~~l~~-~~~~~~~-~~~~~ll~~~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~l--i~  203 (509)
                      ..+...+..++.+... ....+.+ ....|+. .....++..+...|+  +|+..++...  .|+.. .  .+..+  ..
T Consensus        36 ~~y~~aii~~r~Gd~~~Al~~L~qaL~~~P~~~~av~dll~l~~~~G~~~~A~~~~eka~--~p~n~-~--~~~llalA~  110 (822)
T PRK14574         36 TQYDSLIIRARAGDTAPVLDYLQEESKAGPLQSGQVDDWLQIAGWAGRDQEVIDVYERYQ--SSMNI-S--SRGLASAAR  110 (822)
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHhhCccchhhHHHHHHHHHHcCCcHHHHHHHHHhc--cCCCC-C--HHHHHHHHH
Confidence            3455555556655432 2222222 2344443 123366666666664  7888888874  34222 1  33444  55


Q ss_pred             HHhccCCHHHHHHHHHHhhhCCCccC-HHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH
Q 047221          204 NCGRLDDYETMRQLLNDFNVYQVCLN-EKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLY  282 (509)
Q Consensus       204 ~~~~~g~~~~A~~l~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  282 (509)
                      .+...|++++|+++|+++.+..  |+ ...+..+.. .....++.++|++.++.+...  .|+...+-.++..+...++.
T Consensus       111 ly~~~gdyd~Aiely~kaL~~d--P~n~~~l~gLa~-~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~  185 (822)
T PRK14574        111 AYRNEKRWDQALALWQSSLKKD--PTNPDLISGMIM-TQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRN  185 (822)
T ss_pred             HHHHcCCHHHHHHHHHHHHhhC--CCCHHHHHHHHH-HHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchH
Confidence            7888899999999999987664  33 344444434 444556688999988888765  34455555555555556666


Q ss_pred             HHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHH--------------------------------------
Q 047221          283 EMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLV--------------------------------------  320 (509)
Q Consensus       283 ~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~--------------------------------------  320 (509)
                      .+|.+.++++    +.+...+..++.+..+.|-...|.++..                                      
T Consensus       186 ~~AL~~~ekll~~~P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~  265 (822)
T PRK14574        186 YDALQASSEAVRLAPTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFD  265 (822)
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHH
Confidence            6688888886    3345555555555555554444443332                                      


Q ss_pred             ----------HHHH-cCCCCCh-H----HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHH
Q 047221          321 ----------EMRQ-VGCEPIT-L----TYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDV  384 (509)
Q Consensus       321 ----------~m~~-~g~~p~~-~----t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  384 (509)
                                .+.. .+-.|.. .    ..--.+-++...|++.++.+.|+.|...|.+.-..+-.++.++|...+++++
T Consensus       266 ~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~k  345 (822)
T PRK14574        266 IADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEK  345 (822)
T ss_pred             HHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHH
Confidence                      1111 0111211 1    1112334556677777888888888777765555567777788888888888


Q ss_pred             HHHHHHHHHHCC-----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCC-----------CCCH---HHHHHHHHH
Q 047221          385 AFNFFNQMVKRG-----LQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYK-----------SSSN---MLYSLLASL  445 (509)
Q Consensus       385 a~~~~~~m~~~g-----~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-----------~p~~---~~~~~li~~  445 (509)
                      |+.+++++....     ..++......|.-+|...+++++|..+++.+.+.-.           .||.   ..+..++..
T Consensus       346 A~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~  425 (822)
T PRK14574        346 AAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQS  425 (822)
T ss_pred             HHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHH
Confidence            888888775542     123344456777777778888888888877776211           1111   233445666


Q ss_pred             HHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 047221          446 HDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLS  501 (509)
Q Consensus       446 ~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~  501 (509)
                      +...|+..+|++.++++... -+-|......+.+.+...|...+|++.++......
T Consensus       426 ~~~~gdl~~Ae~~le~l~~~-aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~  480 (822)
T PRK14574        426 LVALNDLPTAQKKLEDLSST-APANQNLRIALASIYLARDLPRKAEQELKAVESLA  480 (822)
T ss_pred             HHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhC
Confidence            67777788888888777653 23366666677777777777777777776655443

>TIGR00540 hemY_coli hemY protein

Probab=99.53  E-value=4.4e-11  Score=119.06  Aligned_cols=296  Identities=8%  Similarity=-0.030  Sum_probs=212.9

Q ss_pred             HHHHHHHHHh--ccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 047221          197 ICSLVIDNCG--RLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIE  274 (509)
Q Consensus       197 ~~~~li~~~~--~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  274 (509)
                      .+..+..+..  ..|+++.|.+.+.+..+.  .|+...+-.+..-.....|+.+.+...+....+....+.....-....
T Consensus        84 ~~~~~~~glla~~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~  161 (409)
T TIGR00540        84 AQKQTEEALLKLAEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTR  161 (409)
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHH
Confidence            4555555543  579999999999887554  455555544544455666779999999999876543333334445688


Q ss_pred             HHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHH-HHHHHH---HhcCC
Q 047221          275 MFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYN-YVLGVL---CKNGQ  346 (509)
Q Consensus       275 ~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~-~li~~~---~~~g~  346 (509)
                      .+...|+++.|...++.+    +.+...+..+...|.+.|++++|.+++..+.+.++. +...+. .-..++   ...+.
T Consensus       162 l~l~~~~~~~Al~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~l~~~~  240 (409)
T TIGR00540       162 ILLAQNELHAARHGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQKAEIGLLDEAM  240 (409)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHH
Confidence            888999999999999887    567888999999999999999999999999998754 333332 111222   22233


Q ss_pred             hHHHHHHHHHHHhCC---CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHH-HHHHHH--HHHcCCHHHH
Q 047221          347 DADACELLEEMLGRN---CHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATH-AAFIKG--YFIFYRYEDA  420 (509)
Q Consensus       347 ~~~a~~~~~~m~~~g---~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~-~~li~~--~~~~g~~~~A  420 (509)
                      .+++.+.+..+.+..   .+.+...+..+...+...|+.++|.+++++..+..  ||.... ..++..  ....++.+.+
T Consensus       241 ~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~--pd~~~~~~~~l~~~~~l~~~~~~~~  318 (409)
T TIGR00540       241 ADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL--GDDRAISLPLCLPIPRLKPEDNEKL  318 (409)
T ss_pred             HhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC--CCcccchhHHHHHhhhcCCCChHHH
Confidence            333333444444431   12378889999999999999999999999998863  333210 012332  2345788889


Q ss_pred             HHHHHHHHhCCCCCCH--HHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 047221          421 YKYVVLSADKYKSSSN--MLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYS  498 (509)
Q Consensus       421 ~~~~~~m~~~~~~p~~--~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~  498 (509)
                      .+.++...+.. .-|.  ....++...|.+.|++++|.+.|+........|+...+..+...+.+.|+.++|.+++++-.
T Consensus       319 ~~~~e~~lk~~-p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l  397 (409)
T TIGR00540       319 EKLIEKQAKNV-DDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSL  397 (409)
T ss_pred             HHHHHHHHHhC-CCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            88888776552 2233  45668889999999999999999965444467999999999999999999999999998753

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.

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.51  E-value=1.3e-09  Score=117.70  Aligned_cols=316  Identities=12%  Similarity=0.032  Sum_probs=209.6

Q ss_pred             hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhC--CCccCHHHHHHHHHHHHhccC--------
Q 047221          176 SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVY--QVCLNEKAFGFLPVLISSKAL--------  245 (509)
Q Consensus       176 ~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~--~~~p~~~~~~~ll~~~~~~~~--------  245 (509)
                      +|.+....|....|.   +....-.+--...+.|+.++|.++|+.....  +-.++.....-++..+.....        
T Consensus       360 ~~~~~~~~~y~~~~~---~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~  436 (987)
T PRK09782        360 EALRLARLLYQQEPA---NLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVA  436 (987)
T ss_pred             HHHHHHHHHHhcCCC---CHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHH
Confidence            566666666444443   2224444444456778888888888877552  122233333344443333211        


Q ss_pred             ----------------CHHHHHHHHHHHHH-cCC-CC--CHHHHHHHHHHHHhcCCHHHHHHHHHHc---CCCHHHHHHH
Q 047221          246 ----------------TKKGIWRVVEVLNQ-VGG-SC--LVSGVRALIEMFSVLGLYEMAKYVIKKT---ERKVSYYNIL  302 (509)
Q Consensus       246 ----------------~~~~a~~~~~~m~~-~g~-~~--~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~~~~~~~l  302 (509)
                                      +..++....+.... .+. ++  +...|..+..++.. |+.++|...+.+.   .|+......+
T Consensus       437 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~Pd~~~~L~l  515 (987)
T PRK09782        437 ILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQPDAWQHRAV  515 (987)
T ss_pred             HhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhCCchHHHHHH
Confidence                            11111111222211 112 33  56777888888877 7888888866663   4554333333


Q ss_pred             HHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCh
Q 047221          303 IKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKF  382 (509)
Q Consensus       303 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~  382 (509)
                      ...+.+.|++++|...|+++...  .|+...+..+..++.+.|+.++|.+.++...+.. +.+...+..+.....+.|++
T Consensus       516 A~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~  592 (987)
T PRK09782        516 AYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQP  592 (987)
T ss_pred             HHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCH
Confidence            44446889999999999887654  4555566677778888999999999998888763 22333333333444556999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHH
Q 047221          383 DVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEM  462 (509)
Q Consensus       383 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  462 (509)
                      ++|...+++..+.  .|+...|..+..++.+.|+.++|...+++..+.. ..+...++.+...+...|+.++|++.+++.
T Consensus       593 ~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~A  669 (987)
T PRK09782        593 ELALNDLTRSLNI--APSANAYVARATIYRQRHNVPAAVSDLRAALELE-PNNSNYQAALGYALWDSGDIAQSREMLERA  669 (987)
T ss_pred             HHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            9999999888865  4677788888888999999999999998887764 234567777888888899999999999988


Q ss_pred             HHCCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 047221          463 MKNGLRP-NVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSLG  503 (509)
Q Consensus       463 ~~~g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~  503 (509)
                      .+.  .| +...+..+..++...|++++|+..+++..+..+.
T Consensus       670 L~l--~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~P~  709 (987)
T PRK09782        670 HKG--LPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDIDN  709 (987)
T ss_pred             HHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence            874  34 4567788888888999999999999888876654

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

Probab=99.49  E-value=1.9e-13  Score=129.10  Aligned_cols=259  Identities=14%  Similarity=0.020  Sum_probs=67.0

Q ss_pred             HHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC
Q 047221          201 VIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLG  280 (509)
Q Consensus       201 li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g  280 (509)
                      +...+.+.|++++|++++++.....-+|+...|-.++...+...++.+.|...++.+...+.. +...+..++..     
T Consensus        14 ~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-----   87 (280)
T PF13429_consen   14 LARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-----   87 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-----
Confidence            355555666666666666443322212333333333332333444455555555555543322 23333333333     


Q ss_pred             CHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 047221          281 LYEMAKYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGR  360 (509)
Q Consensus       281 ~~~~A~~~~~~m~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  360 (509)
                                                ...+++++|.+++.+..+.  .++...+..++..+.+.|+++++.++++.+.+.
T Consensus        88 --------------------------~~~~~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~  139 (280)
T PF13429_consen   88 --------------------------LQDGDPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEEL  139 (280)
T ss_dssp             ----------------------------------------------------------H-HHHTT-HHHHHHHHHHHHH-
T ss_pred             --------------------------ccccccccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhc
Confidence                                      3444555555554443332  233344445555555555555555555554432


Q ss_pred             C-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHH
Q 047221          361 N-CHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQP-RLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNML  438 (509)
Q Consensus       361 g-~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~  438 (509)
                      . .+.+...|..+...+.+.|+.++|++.+++..+.  .| |....+.++..+...|+.+++.++++...+.. ..+...
T Consensus       140 ~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~--~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~  216 (280)
T PF13429_consen  140 PAAPDSARFWLALAEIYEQLGDPDKALRDYRKALEL--DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDL  216 (280)
T ss_dssp             T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCH
T ss_pred             cCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHH
Confidence            1 2334445555555555555555555555555544  22 34445555555555555555555555444332 222334


Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 047221          439 YSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRY  497 (509)
Q Consensus       439 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m  497 (509)
                      |..+..+|...|+.++|+.+|++.... .+.|..+...+..++...|+.++|.++..+.
T Consensus       217 ~~~la~~~~~lg~~~~Al~~~~~~~~~-~p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~  274 (280)
T PF13429_consen  217 WDALAAAYLQLGRYEEALEYLEKALKL-NPDDPLWLLAYADALEQAGRKDEALRLRRQA  274 (280)
T ss_dssp             CHHHHHHHHHHT-HHHHHHHHHHHHHH-STT-HHHHHHHHHHHT---------------
T ss_pred             HHHHHHHhccccccccccccccccccc-ccccccccccccccccccccccccccccccc
Confidence            455555555555555555555555542 1224445555555555556666555555443

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.47  E-value=1.9e-09  Score=116.40  Aligned_cols=320  Identities=10%  Similarity=-0.072  Sum_probs=231.7

Q ss_pred             CCchHHHHHHHhhccCCCCccChhHHHHHHHHHhccCC---HHHHHHH------------HHHhhh-----------CCC
Q 047221          173 EKVSALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDD---YETMRQL------------LNDFNV-----------YQV  226 (509)
Q Consensus       173 ~~~~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~---~~~A~~l------------~~~m~~-----------~~~  226 (509)
                      .+++|.++|+......++...+....+-++..|.+.+.   ..++..+            ..+...           .+.
T Consensus       391 ~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~  470 (987)
T PRK09782        391 QSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGD  470 (987)
T ss_pred             cHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhccc
Confidence            33589999998833344433344456678888888776   3344333            111100           122


Q ss_pred             cc---CHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc---CCCHHHHH
Q 047221          227 CL---NEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT---ERKVSYYN  300 (509)
Q Consensus       227 ~p---~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~~~~~~  300 (509)
                      .|   +...|..+-. ++.. ++.++|...+.......  |+......+...+...|++++|...|+++   +++...+.
T Consensus       471 ~p~~~~~~a~~~LG~-~l~~-~~~~eAi~a~~~Al~~~--Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~~p~~~a~~  546 (987)
T PRK09782        471 MSPSYDAAAWNRLAK-CYRD-TLPGVALYAWLQAEQRQ--PDAWQHRAVAYQAYQVEDYATALAAWQKISLHDMSNEDLL  546 (987)
T ss_pred             CCCCCCHHHHHHHHH-HHHh-CCcHHHHHHHHHHHHhC--CchHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCcHHHH
Confidence            23   3445555555 4444 45888999777776544  55544444555567899999999999986   35556677


Q ss_pred             HHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcC
Q 047221          301 ILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVG  380 (509)
Q Consensus       301 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  380 (509)
                      .+...+.+.|+.++|...+++..+.+ +.+...+..+.......|++++|...+++..+.  .|+...|..+...+.+.|
T Consensus       547 ~la~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG  623 (987)
T PRK09782        547 AAANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRH  623 (987)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCC
Confidence            77888999999999999999998764 233333334444555679999999999999876  567888999999999999


Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHH
Q 047221          381 KFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLS  460 (509)
Q Consensus       381 ~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~  460 (509)
                      +.++|+..+++..+.. +-+...++.+..++...|+.++|...+++..+... -+...+..+..++...|++++|+..++
T Consensus       624 ~~deA~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P-~~~~a~~nLA~al~~lGd~~eA~~~l~  701 (987)
T PRK09782        624 NVPAAVSDLRAALELE-PNNSNYQAALGYALWDSGDIAQSREMLERAHKGLP-DDPALIRQLAYVNQRLDDMAATQHYAR  701 (987)
T ss_pred             CHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            9999999999998873 33567888888899999999999999999887642 356678889999999999999999999


Q ss_pred             HHHHCCCCcCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 047221          461 EMMKNGLRPNV-SVYRRVLKHLHTSHQEHMAKCLSSRYSSLSLG  503 (509)
Q Consensus       461 ~m~~~g~~p~~-~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~  503 (509)
                      +..+  +.|+. .+....-....+..+++.|.+-+++--..++.
T Consensus       702 ~Al~--l~P~~a~i~~~~g~~~~~~~~~~~a~~~~~r~~~~~~~  743 (987)
T PRK09782        702 LVID--DIDNQALITPLTPEQNQQRFNFRRLHEEVGRRWTFSFD  743 (987)
T ss_pred             HHHh--cCCCCchhhhhhhHHHHHHHHHHHHHHHHHHHhhcCcc
Confidence            9987  44554 44445555666677788888877776655544

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.46  E-value=3.3e-09  Score=112.38  Aligned_cols=326  Identities=13%  Similarity=0.061  Sum_probs=247.7

Q ss_pred             HHHhcCCc--hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccC
Q 047221          168 RVLNSEKV--SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKAL  245 (509)
Q Consensus       168 ~~~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~  245 (509)
                      ..+...|+  .|+++|+.+....|+   +...+..++..+.+.++.++|++.++++...  .|+...+..++.... ..+
T Consensus       110 ~ly~~~gdyd~Aiely~kaL~~dP~---n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~-~~~  183 (822)
T PRK14574        110 RAYRNEKRWDQALALWQSSLKKDPT---NPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNR-ATD  183 (822)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhCCC---CHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHH-hcc
Confidence            34555564  899999999777785   3457778889999999999999999998655  466666644433222 234


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHcC--------------------------------
Q 047221          246 TKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTE--------------------------------  293 (509)
Q Consensus       246 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~--------------------------------  293 (509)
                      ...+|...++++.+.. +.+...+..++.++.+.|-...|.++.++-+                                
T Consensus       184 ~~~~AL~~~ekll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~  262 (822)
T PRK14574        184 RNYDALQASSEAVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETE  262 (822)
T ss_pred             hHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchh
Confidence            4656999999999865 4456667777777777776666665554321                                


Q ss_pred             ----------------------CC-----HHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCC
Q 047221          294 ----------------------RK-----VSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQ  346 (509)
Q Consensus       294 ----------------------~~-----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~  346 (509)
                                            |.     ..+.--.+-++.+.|++.+|++.|+.|...|.+....+-..+.++|...++
T Consensus       263 r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~  342 (822)
T PRK14574        263 RFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRL  342 (822)
T ss_pred             hHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCC
Confidence                                  10     011123455677889999999999999999877666788899999999999


Q ss_pred             hHHHHHHHHHHHhCC-----CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCC-----------CCC---HHHHHHH
Q 047221          347 DADACELLEEMLGRN-----CHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGL-----------QPR---LATHAAF  407 (509)
Q Consensus       347 ~~~a~~~~~~m~~~g-----~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~-----------~p~---~~~~~~l  407 (509)
                      +++|..+++.+....     ..++......|.-+|...+++++|..+++++.+..-           .||   ...+..+
T Consensus       343 P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~  422 (822)
T PRK14574        343 PEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLL  422 (822)
T ss_pred             cHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHH
Confidence            999999999987652     233455567889999999999999999999987311           122   1234556


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCc-CHHHHHHHHHHHHhcCC
Q 047221          408 IKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRP-NVSVYRRVLKHLHTSHQ  486 (509)
Q Consensus       408 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~ll~~~~~~g~  486 (509)
                      +..+...|++.+|++.++++.... +-|......+...+...|.+.+|++.++.....  .| +..+......++...|+
T Consensus       423 a~~~~~~gdl~~Ae~~le~l~~~a-P~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l--~P~~~~~~~~~~~~al~l~e  499 (822)
T PRK14574        423 VQSLVALNDLPTAQKKLEDLSSTA-PANQNLRIALASIYLARDLPRKAEQELKAVESL--APRSLILERAQAETAMALQE  499 (822)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhh--CCccHHHHHHHHHHHHhhhh
Confidence            778889999999999999997653 447778889999999999999999999776653  45 45677788888899999


Q ss_pred             HHHHHHHHHHHHhCCCC
Q 047221          487 EHMAKCLSSRYSSLSLG  503 (509)
Q Consensus       487 ~~~a~~~~~~m~~~~~~  503 (509)
                      +++|..+.+.+.+..+.
T Consensus       500 ~~~A~~~~~~l~~~~Pe  516 (822)
T PRK14574        500 WHQMELLTDDVISRSPE  516 (822)
T ss_pred             HHHHHHHHHHHHhhCCC
Confidence            99999999888766554

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

Probab=99.46  E-value=3.5e-11  Score=118.01  Aligned_cols=284  Identities=12%  Similarity=0.006  Sum_probs=179.6

Q ss_pred             HHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHHHhcCCH-HHHHH
Q 047221          211 YETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVG--GSCLVSGVRALIEMFSVLGLY-EMAKY  287 (509)
Q Consensus       211 ~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g--~~~~~~~~~~li~~~~~~g~~-~~A~~  287 (509)
                      ..+|..+|+..... +.-+......+-.+|+.... +++|+++|+.+.+..  ..-+...|.+.+.-+-+.-.+ -.|..
T Consensus       335 ~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~-Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~  412 (638)
T KOG1126|consen  335 CREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIE-YDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQD  412 (638)
T ss_pred             HHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHH-HHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHH
Confidence            44555555553222 22222333444444554444 666666666655432  122344455544433322111 12333


Q ss_pred             HHHHcCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHH
Q 047221          288 VIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAI  367 (509)
Q Consensus       288 ~~~~m~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  367 (509)
                      +.+..+....+|.++.++|.-+++.+.|++.|++..+.. +-...+|+.+..-+.....+|.|...|+..+..    |..
T Consensus       413 Li~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQld-p~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~----~~r  487 (638)
T KOG1126|consen  413 LIDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLD-PRFAYAYTLLGHESIATEEFDKAMKSFRKALGV----DPR  487 (638)
T ss_pred             HHhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccC-CccchhhhhcCChhhhhHHHHhHHHHHHhhhcC----Cch
Confidence            444445567788888888888888888888888777653 226777777777777778888888888776543    666


Q ss_pred             HHHHH---HHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 047221          368 TYEIF---IVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLAS  444 (509)
Q Consensus       368 ~~~~l---i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~  444 (509)
                      .||+.   ...|.|.++++.|+-.|+...+-+ +-+.+....+...+-+.|+.|+|++++++....+.+-...-|. .+.
T Consensus       488 hYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~-~~~  565 (638)
T KOG1126|consen  488 HYNAWYGLGTVYLKQEKLEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYH-RAS  565 (638)
T ss_pred             hhHHHHhhhhheeccchhhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHH-HHH
Confidence            66653   456778888888888888777653 2355666667777778888888888888877665443333343 555


Q ss_pred             HHHhCCChHHHHHHHHHHHHCCCCcC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC
Q 047221          445 LHDKNNNPVMAKNVLSEMMKNGLRPN-VSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSLGSS  505 (509)
Q Consensus       445 ~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~  505 (509)
                      .+...+++++|+..++++++  +.|+ ..+|..+.+.|.+.|+.+.|+.-|.-+.+.++++.
T Consensus       566 il~~~~~~~eal~~LEeLk~--~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpkg~  625 (638)
T KOG1126|consen  566 ILFSLGRYVEALQELEELKE--LVPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDPKGA  625 (638)
T ss_pred             HHHhhcchHHHHHHHHHHHH--hCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCccc
Confidence            66677888888888888877  4444 44566777788888888888888887777776654

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

Probab=99.46  E-value=4.3e-13  Score=126.69  Aligned_cols=225  Identities=15%  Similarity=0.119  Sum_probs=102.4

Q ss_pred             HHHHHHHhcCCHHHHHHHHHH-c-----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhc
Q 047221          271 ALIEMFSVLGLYEMAKYVIKK-T-----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKN  344 (509)
Q Consensus       271 ~li~~~~~~g~~~~A~~~~~~-m-----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~  344 (509)
                      .+..++.+.|++++|.+++++ +     +.|...|..+.......+++++|.+.++++...+ +-+...+..++.. ...
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~-~~~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASD-KANPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccccc-ccc
Confidence            567888899999999999954 2     2345666667777788999999999999999776 3356677777776 799


Q ss_pred             CChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 047221          345 GQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRG-LQPRLATHAAFIKGYFIFYRYEDAYKY  423 (509)
Q Consensus       345 g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~~~~~~~li~~~~~~g~~~~A~~~  423 (509)
                      +++++|.+++....+.  .++...+..++..+.+.++++++.++++++.... .+.+...|..+...+.+.|+.++|++.
T Consensus        91 ~~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~  168 (280)
T PF13429_consen   91 GDPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRD  168 (280)
T ss_dssp             -----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHH
T ss_pred             cccccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            9999999999887665  3566778888899999999999999999987542 456788899999999999999999999


Q ss_pred             HHHHHhCCCCC-CHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 047221          424 VVLSADKYKSS-SNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSL  502 (509)
Q Consensus       424 ~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~  502 (509)
                      +++..+..  | |....+.++..+...|+.+++.++++...+.. ..|...+..+..+|...|+.++|...+++..+..+
T Consensus       169 ~~~al~~~--P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p  245 (280)
T PF13429_consen  169 YRKALELD--PDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNP  245 (280)
T ss_dssp             HHHHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHST
T ss_pred             HHHHHHcC--CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhccccccccccccccccccccc
Confidence            99998864  4 46678889999999999999999998887753 55666788999999999999999999999887554

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

Probab=99.40  E-value=1.1e-08  Score=94.91  Aligned_cols=298  Identities=15%  Similarity=0.109  Sum_probs=231.5

Q ss_pred             HHHHHHHHHhc--cCCHHHHHHHHHHhhhCCCccCHHHHHHHHHH-HHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 047221          197 ICSLVIDNCGR--LDDYETMRQLLNDFNVYQVCLNEKAFGFLPVL-ISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALI  273 (509)
Q Consensus       197 ~~~~li~~~~~--~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~-~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  273 (509)
                      .-..+..+..+  .|+|..|+++..+-.+.+-.|   +.+.++.+ .+...|+.+.+.+++.+..+....++..++-+..
T Consensus        84 a~~~~~egl~~l~eG~~~qAEkl~~rnae~~e~p---~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltra  160 (400)
T COG3071          84 ARKALNEGLLKLFEGDFQQAEKLLRRNAEHGEQP---VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRA  160 (400)
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHhhhcCcch---HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHH
Confidence            44455555544  599999999999977666333   44444443 3456677999999999999876677788888899


Q ss_pred             HHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCC-------hHHHHHHHHHHH
Q 047221          274 EMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPI-------TLTYNYVLGVLC  342 (509)
Q Consensus       274 ~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-------~~t~~~li~~~~  342 (509)
                      ......|+++.|..-.+++    +.+...-.....+|.+.|++.++..++..|.+.|+--|       ..+|..++.-..
T Consensus       161 rlll~~~d~~aA~~~v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~  240 (400)
T COG3071         161 RLLLNRRDYPAARENVDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQAR  240 (400)
T ss_pred             HHHHhCCCchhHHHHHHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHh
Confidence            9999999999998877764    67889999999999999999999999999999987655       357788888777


Q ss_pred             hcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 047221          343 KNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYK  422 (509)
Q Consensus       343 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  422 (509)
                      ..+..+.-...+++.... .+-+...-.+++.-+.++|+.++|.++..+..+++..|+.   ..++ .+.+-++.+.-.+
T Consensus       241 ~~~~~~gL~~~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L---~~~~-~~l~~~d~~~l~k  315 (400)
T COG3071         241 DDNGSEGLKTWWKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRL---CRLI-PRLRPGDPEPLIK  315 (400)
T ss_pred             ccccchHHHHHHHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhH---HHHH-hhcCCCCchHHHH
Confidence            777777766677766544 3445666677888899999999999999999998877662   2222 3345566666665


Q ss_pred             HHHHHHh-CCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 047221          423 YVVLSAD-KYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLS  501 (509)
Q Consensus       423 ~~~~m~~-~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~  501 (509)
                      ..+.-.. .+..|  -.+.+|...|.+.+.|.+|.+.|+...+  ..|+..+|.-+..++.+.|+.++|.++.++-...-
T Consensus       316 ~~e~~l~~h~~~p--~L~~tLG~L~~k~~~w~kA~~~leaAl~--~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~  391 (400)
T COG3071         316 AAEKWLKQHPEDP--LLLSTLGRLALKNKLWGKASEALEAALK--LRPSASDYAELADALDQLGEPEEAEQVRREALLLT  391 (400)
T ss_pred             HHHHHHHhCCCCh--hHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHHh
Confidence            5554333 34444  5678899999999999999999997776  67999999999999999999999999999887665


Q ss_pred             CCCCc
Q 047221          502 LGSSV  506 (509)
Q Consensus       502 ~~~~~  506 (509)
                      .+|+.
T Consensus       392 ~~~~~  396 (400)
T COG3071         392 RQPNL  396 (400)
T ss_pred             cCCCC
Confidence            55554

>PF13041 PPR_2: PPR repeat family

Probab=99.38  E-value=1.2e-12  Score=87.60  Aligned_cols=45  Identities=38%  Similarity=0.613  Sum_probs=16.9

Q ss_pred             hHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 047221          331 TLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVY  375 (509)
Q Consensus       331 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  375 (509)
                      .++||++|.+|++.|++++|.++|++|.+.|+.||..||++||++
T Consensus         3 ~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~   47 (50)
T PF13041_consen    3 VVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILING   47 (50)
T ss_pred             hHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            333333333333333333333333333333333333333333333

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

Probab=99.37  E-value=2.6e-10  Score=111.93  Aligned_cols=299  Identities=13%  Similarity=0.041  Sum_probs=223.1

Q ss_pred             CCCCCHHHHHHHHHHHhcCC--------chHHHHHHHhhccCCCCccCh-hHHHHHHHHHhccCCHHHHHHHHHHhhhCC
Q 047221          155 SVSLSNASVIEILRVLNSEK--------VSALCFLKYMREIMPEFYKNS-DICSLVIDNCGRLDDYETMRQLLNDFNVYQ  225 (509)
Q Consensus       155 ~~~~~~~~~~~ll~~~~~~~--------~~A~~~~~~~~~~~p~~~~~~-~~~~~li~~~~~~g~~~~A~~l~~~m~~~~  225 (509)
                      +..-+....-.+++.++..-        ++|+..|...    |....|. .+...+-.+|...+++++|+++|+.+.+..
T Consensus       308 ~l~~~~~~l~~llr~~~~~~~~~s~y~~~~A~~~~~kl----p~h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~  383 (638)
T KOG1126|consen  308 GLKDDASELMELLRGLGEGYRSLSQYNCREALNLFEKL----PSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIE  383 (638)
T ss_pred             cccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh----HHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            44444555666666655332        2688888887    3333222 355778889999999999999999996653


Q ss_pred             C--ccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHH
Q 047221          226 V--CLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYY  299 (509)
Q Consensus       226 ~--~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~  299 (509)
                      -  .-+..+|.+.+- ++.    -+-++..+.+-.-.--+-...+|.++.++|.-.++.+.|++.|++.    +....+|
T Consensus       384 p~rv~~meiyST~LW-HLq----~~v~Ls~Laq~Li~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYay  458 (638)
T KOG1126|consen  384 PYRVKGMEIYSTTLW-HLQ----DEVALSYLAQDLIDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAY  458 (638)
T ss_pred             cccccchhHHHHHHH-HHH----hhHHHHHHHHHHHhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhh
Confidence            1  226778888887 332    2223333333222223556789999999999999999999999985    3478999


Q ss_pred             HHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHH---HHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 047221          300 NILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTY---NYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYS  376 (509)
Q Consensus       300 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~---~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  376 (509)
                      +.+..-+.....+|.|...|+...    ..|...|   -.+...|.+.++++.|+-.|+...+-. +-+.+....+...+
T Consensus       459 TLlGhE~~~~ee~d~a~~~fr~Al----~~~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~  533 (638)
T KOG1126|consen  459 TLLGHESIATEEFDKAMKSFRKAL----GVDPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEIN-PSNSVILCHIGRIQ  533 (638)
T ss_pred             hhcCChhhhhHHHHhHHHHHHhhh----cCCchhhHHHHhhhhheeccchhhHHHHHHHhhhcCC-ccchhHHhhhhHHH
Confidence            999999999999999999999887    4444444   557778999999999999999888753 23566677777888


Q ss_pred             HHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhCCChHHH
Q 047221          377 CRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSS-SNMLYSLLASLHDKNNNPVMA  455 (509)
Q Consensus       377 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a  455 (509)
                      -+.|+.++|++++++......+ |...--..+..+...++.++|+..++++++.  .| +...|..+...|-+.|+.+.|
T Consensus       534 ~~~k~~d~AL~~~~~A~~ld~k-n~l~~~~~~~il~~~~~~~eal~~LEeLk~~--vP~es~v~~llgki~k~~~~~~~A  610 (638)
T KOG1126|consen  534 HQLKRKDKALQLYEKAIHLDPK-NPLCKYHRASILFSLGRYVEALQELEELKEL--VPQESSVFALLGKIYKRLGNTDLA  610 (638)
T ss_pred             HHhhhhhHHHHHHHHHHhcCCC-CchhHHHHHHHHHhhcchHHHHHHHHHHHHh--CcchHHHHHHHHHHHHHHccchHH
Confidence            9999999999999999877533 4444444666777889999999999999875  44 445677888899999999999


Q ss_pred             HHHHHHHHHCCCCcC
Q 047221          456 KNVLSEMMKNGLRPN  470 (509)
Q Consensus       456 ~~~~~~m~~~g~~p~  470 (509)
                      +.-|--|.+..-++.
T Consensus       611 l~~f~~A~~ldpkg~  625 (638)
T KOG1126|consen  611 LLHFSWALDLDPKGA  625 (638)
T ss_pred             HHhhHHHhcCCCccc
Confidence            999999887544443

>PF13041 PPR_2: PPR repeat family

Probab=99.36  E-value=2e-12  Score=86.58  Aligned_cols=49  Identities=39%  Similarity=0.748  Sum_probs=25.9

Q ss_pred             CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 047221          364 PDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYF  412 (509)
Q Consensus       364 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  412 (509)
                      ||+.+||++|++|++.|++++|.++|++|.+.|+.||..||+.||++|+
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            4455555555555555555555555555555555555555555555544

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.34  E-value=1.6e-09  Score=99.00  Aligned_cols=200  Identities=13%  Similarity=0.055  Sum_probs=121.5

Q ss_pred             HHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 047221          297 SYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYS  376 (509)
Q Consensus       297 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  376 (509)
                      ..+..+...|...|++++|.+.+++..+.. +.+...+..+...|...|++++|.+.+++..+.. +.+...+..+...+
T Consensus        32 ~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~  109 (234)
T TIGR02521        32 KIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTFL  109 (234)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHH
Confidence            444555555666666666666666555432 2334555566666666666666666666665542 22344555566666


Q ss_pred             HHcCChHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHH
Q 047221          377 CRVGKFDVAFNFFNQMVKRGL-QPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMA  455 (509)
Q Consensus       377 ~~~g~~~~a~~~~~~m~~~g~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a  455 (509)
                      ...|++++|...+++..+... ......+..+..+|...|++++|...+++..+... .+...+..+...+...|++++|
T Consensus       110 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A  188 (234)
T TIGR02521       110 CQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDP-QRPESLLELAELYYLRGQYKDA  188 (234)
T ss_pred             HHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CChHHHHHHHHHHHHcCCHHHH
Confidence            666777777777766665321 11234555566667777777777777776665432 2344566677777777777777


Q ss_pred             HHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 047221          456 KNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSL  500 (509)
Q Consensus       456 ~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~  500 (509)
                      .+.+++..+. ...+...+..+...+...|+.++|..+.+.+.+.
T Consensus       189 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       189 RAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            7777777664 2334555556666667777777777777766543

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.

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

Probab=99.34  E-value=7.9e-09  Score=93.15  Aligned_cols=286  Identities=10%  Similarity=0.081  Sum_probs=187.9

Q ss_pred             CCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHhcCCHHHH
Q 047221          209 DDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCL---VSGVRALIEMFSVLGLYEMA  285 (509)
Q Consensus       209 g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~---~~~~~~li~~~~~~g~~~~A  285 (509)
                      .+.++|.++|-+|.+.  .|...-.+.-+.-.+.+.|..+.|+++++.+.+..-.+.   ..+.-.|..=|...|-+|.|
T Consensus        49 ~Q~dKAvdlF~e~l~~--d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRA  126 (389)
T COG2956          49 NQPDKAVDLFLEMLQE--DPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRA  126 (389)
T ss_pred             cCcchHHHHHHHHHhc--CchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHH
Confidence            4566666666666542  122222222222244555556777777666665321111   12234566678888889999


Q ss_pred             HHHHHHcC--C--CHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCCh----HHHHHHHHHHHhcCChHHHHHHHHHH
Q 047221          286 KYVIKKTE--R--KVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPIT----LTYNYVLGVLCKNGQDADACELLEEM  357 (509)
Q Consensus       286 ~~~~~~m~--~--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~----~t~~~li~~~~~~g~~~~a~~~~~~m  357 (509)
                      +.+|..+-  +  -..+...|+..|-+..+|++|+++-+++.+.|-.+..    .-|.-+...+....+++.|..++.+.
T Consensus       127 E~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kA  206 (389)
T COG2956         127 EDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKA  206 (389)
T ss_pred             HHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHH
Confidence            99988862  2  2456677888899999999999999888876644432    23455555566678888888888888


Q ss_pred             HhCCCCCCHH-HHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCH
Q 047221          358 LGRNCHPDAI-TYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSN  436 (509)
Q Consensus       358 ~~~g~~p~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~  436 (509)
                      .+..  |+.+ .--.+-+.+...|+++.|.+.++.+.+.+...-..+...|..+|.+.|+.++....+.++.+....++.
T Consensus       207 lqa~--~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~~~  284 (389)
T COG2956         207 LQAD--KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGADA  284 (389)
T ss_pred             HhhC--ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCccH
Confidence            7762  3322 233344677788999999999999888865555677888999999999999999999888776444443


Q ss_pred             HHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHH---hcCCHHHHHHHHHHHHhCCC
Q 047221          437 MLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLH---TSHQEHMAKCLSSRYSSLSL  502 (509)
Q Consensus       437 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~---~~g~~~~a~~~~~~m~~~~~  502 (509)
                      .  ..+...-....-.+.|..++.+-..  -+|+...+..+++.-.   ..|...+-..++++|...-+
T Consensus       285 ~--l~l~~lie~~~G~~~Aq~~l~~Ql~--r~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvge~l  349 (389)
T COG2956         285 E--LMLADLIELQEGIDAAQAYLTRQLR--RKPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVGEQL  349 (389)
T ss_pred             H--HHHHHHHHHhhChHHHHHHHHHHHh--hCCcHHHHHHHHHhhhccccccchhhhHHHHHHHHHHHH
Confidence            2  3333333344445666666665554  4688888888888653   45567777778888774433

>TIGR00540 hemY_coli hemY protein

Probab=99.34  E-value=1.1e-08  Score=101.78  Aligned_cols=292  Identities=9%  Similarity=-0.048  Sum_probs=203.8

Q ss_pred             HHHHHHHHhcCCchHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHH--HHHHHHHHH
Q 047221          163 VIEILRVLNSEKVSALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEK--AFGFLPVLI  240 (509)
Q Consensus       163 ~~~ll~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~--~~~~ll~~~  240 (509)
                      ...++.........|.+.+.......|+..   ..|-....+..+.|+++.|.+.+.+..+..  |+..  .--.... .
T Consensus        89 ~~glla~~~g~~~~A~~~l~~~~~~~~~~~---~~~llaA~aa~~~g~~~~A~~~l~~a~~~~--p~~~l~~~~~~a~-l  162 (409)
T TIGR00540        89 EEALLKLAEGDYAKAEKLIAKNADHAAEPV---LNLIKAAEAAQQRGDEARANQHLEEAAELA--GNDNILVEIARTR-I  162 (409)
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHhhcCCCCH---HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CcCchHHHHHHHH-H
Confidence            333443333344578888888744455422   233444667888899999999999986543  4443  2222233 3


Q ss_pred             HhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHcC----CCHHHHH----HHHHHHHhcCCc
Q 047221          241 SSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTE----RKVSYYN----ILIKEMCRRCDF  312 (509)
Q Consensus       241 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~----~~~~~~~----~li~~~~~~g~~  312 (509)
                      ....++.+.|...++.+.+.. +-+..+...+..+|...|++++|.+.++.+.    .+...+.    ....+....+..
T Consensus       163 ~l~~~~~~~Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~  241 (409)
T TIGR00540       163 LLAQNELHAARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMA  241 (409)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            334566999999999999876 5566788999999999999999999998873    2333332    111222333344


Q ss_pred             cHHHHHHHHHHHcCC---CCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHH-HHHHH--HHHHcCChHHHH
Q 047221          313 KGPRDLLVEMRQVGC---EPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITY-EIFIV--YSCRVGKFDVAF  386 (509)
Q Consensus       313 ~~A~~~~~~m~~~g~---~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~-~~li~--~~~~~g~~~~a~  386 (509)
                      +++.+.+..+.+..-   +.+...+..+...+...|+.++|.+++++..+.  .||.... ..++.  .....++.+.+.
T Consensus       242 ~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~--~pd~~~~~~~~l~~~~~l~~~~~~~~~  319 (409)
T TIGR00540       242 DEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK--LGDDRAISLPLCLPIPRLKPEDNEKLE  319 (409)
T ss_pred             hcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh--CCCcccchhHHHHHhhhcCCCChHHHH
Confidence            444556666655421   137788889999999999999999999999986  3443311 01223  233457888899


Q ss_pred             HHHHHHHHCCCCCCH--HHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 047221          387 NFFNQMVKRGLQPRL--ATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       387 ~~~~~m~~~g~~p~~--~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      +.++...+.. +-|.  ....++-..|.+.|++++|.+.|+........|+...+..+...+.+.|+.++|.++|++...
T Consensus       320 ~~~e~~lk~~-p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       320 KLIEKQAKNV-DDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             HHHHHHHHhC-CCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            9998877652 2234  566788999999999999999999655555578988899999999999999999999998644

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=99.33  E-value=1e-08  Score=101.61  Aligned_cols=275  Identities=10%  Similarity=0.033  Sum_probs=204.8

Q ss_pred             chHHHHHHHhhccCCCCccChhHHHHH-HHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHH-HHHHhccCCHHHHHH
Q 047221          175 VSALCFLKYMREIMPEFYKNSDICSLV-IDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLP-VLISSKALTKKGIWR  252 (509)
Q Consensus       175 ~~A~~~~~~~~~~~p~~~~~~~~~~~l-i~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll-~~~~~~~~~~~~a~~  252 (509)
                      +.|.+......+..+    ++..+-.+ .....+.|+++.|.+.+.++.+.  .|+......+. .......|+.+.|..
T Consensus       101 ~~A~k~l~~~~~~~~----~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al~  174 (398)
T PRK10747        101 QQVEKLMTRNADHAE----QPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAARH  174 (398)
T ss_pred             HHHHHHHHHHHhccc----chHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHHH
Confidence            477777776522111    12233333 44458999999999999999654  46654433222 224445666999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHcCC----CH--------HHHHHHHHHHHhcCCccHHHHHHH
Q 047221          253 VVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTER----KV--------SYYNILIKEMCRRCDFKGPRDLLV  320 (509)
Q Consensus       253 ~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~~--------~~~~~li~~~~~~g~~~~A~~~~~  320 (509)
                      .++.+.+.. +-+..+...+...|.+.|++++|..++..+..    +.        .+|..++.......+.+...++++
T Consensus       175 ~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~  253 (398)
T PRK10747        175 GVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWK  253 (398)
T ss_pred             HHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            999998866 55678889999999999999999999988731    11        234444544445555566666666


Q ss_pred             HHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC
Q 047221          321 EMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPR  400 (509)
Q Consensus       321 ~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  400 (509)
                      .+.+. .+.+......+..++...|+.++|.+++++..+.  .+|...  .++.+....++.+++.+..+...+.. +-|
T Consensus       254 ~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l--~~l~~~l~~~~~~~al~~~e~~lk~~-P~~  327 (398)
T PRK10747        254 NQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERL--VLLIPRLKTNNPEQLEKVLRQQIKQH-GDT  327 (398)
T ss_pred             hCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHH--HHHHhhccCCChHHHHHHHHHHHhhC-CCC
Confidence            66443 2457778889999999999999999999999885  455522  23444556699999999999988763 446


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 047221          401 LATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       401 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      .....++...+.+.|++++|.+.|+...+.  .|+..+|..+...+.+.|+.++|.+++++-..
T Consensus       328 ~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        328 PLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            677889999999999999999999998875  68999999999999999999999999998754

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

Probab=99.32  E-value=7e-09  Score=93.49  Aligned_cols=248  Identities=10%  Similarity=0.038  Sum_probs=189.5

Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc--CCC------HHHHHHHHHHHHhcCCccHHH
Q 047221          245 LTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT--ERK------VSYYNILIKEMCRRCDFKGPR  316 (509)
Q Consensus       245 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~------~~~~~~li~~~~~~g~~~~A~  316 (509)
                      ++.++|.+.|-+|.+.. +.+..+.-+|.+.|.+.|.+|.|+++.+.+  .||      ..+...|..-|...|-+|.|+
T Consensus        49 ~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE  127 (389)
T COG2956          49 NQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAE  127 (389)
T ss_pred             cCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHH
Confidence            45899999999999733 344556679999999999999999999987  344      345567888899999999999


Q ss_pred             HHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHH----HHHHHHHHHHHcCChHHHHHHHHHH
Q 047221          317 DLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAI----TYEIFIVYSCRVGKFDVAFNFFNQM  392 (509)
Q Consensus       317 ~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~----~~~~li~~~~~~g~~~~a~~~~~~m  392 (509)
                      ++|..+.+.| ..-....--|+..|-...+|++|.++-.++.+.|-.+..+    .|.-+...+....+.+.|..++.+.
T Consensus       128 ~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kA  206 (389)
T COG2956         128 DIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKA  206 (389)
T ss_pred             HHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHH
Confidence            9999999876 4456677889999999999999999999998876554422    3444555556678899999999998


Q ss_pred             HHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHH
Q 047221          393 VKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVS  472 (509)
Q Consensus       393 ~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  472 (509)
                      .+.+ +-.+..--.+-+.+...|+++.|.+.++.+.+.+..--..+...|..+|.+.|+.++.+..+.++.+..-.++. 
T Consensus       207 lqa~-~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~~~-  284 (389)
T COG2956         207 LQAD-KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGADA-  284 (389)
T ss_pred             HhhC-ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCccH-
Confidence            8763 22334444566778899999999999999999876666678889999999999999999999999885443433 


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHH
Q 047221          473 VYRRVLKHLHTSHQEHMAKCLSSRY  497 (509)
Q Consensus       473 t~~~ll~~~~~~g~~~~a~~~~~~m  497 (509)
                       -..+.+.-....-.+.|..++.+-
T Consensus       285 -~l~l~~lie~~~G~~~Aq~~l~~Q  308 (389)
T COG2956         285 -ELMLADLIELQEGIDAAQAYLTRQ  308 (389)
T ss_pred             -HHHHHHHHHHhhChHHHHHHHHHH
Confidence             333334333334445555544433

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

Probab=99.32  E-value=2.1e-08  Score=94.63  Aligned_cols=285  Identities=9%  Similarity=-0.054  Sum_probs=188.7

Q ss_pred             CCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHHHhcCCHH-HH
Q 047221          209 DDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGG--SCLVSGVRALIEMFSVLGLYE-MA  285 (509)
Q Consensus       209 g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~--~~~~~~~~~li~~~~~~g~~~-~A  285 (509)
                      .+.+++.+=.+.....|+. ...-+-+.+.++.-...+++.|+.+|+++.+...  -.|..+|..++-.--.+.++. .|
T Consensus       241 ~q~~e~~~k~e~l~~~gf~-~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA  319 (559)
T KOG1155|consen  241 HQHEEALQKKERLSSVGFP-NSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLA  319 (559)
T ss_pred             HHHHHHHHHHHHHHhccCC-ccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHH
Confidence            3444444444444444443 2222233333333344446666666666665421  123445555443332222211 12


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC
Q 047221          286 KYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPD  365 (509)
Q Consensus       286 ~~~~~~m~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  365 (509)
                      ..+++--+-.+.|+.++.+-|.-.++.++|...|++..+.+ +-....|+.|..-|....+...|.+-++..++- .+.|
T Consensus       320 ~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi-~p~D  397 (559)
T KOG1155|consen  320 QNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDI-NPRD  397 (559)
T ss_pred             HHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHHHHHhc-Cchh
Confidence            22222212334566677777888888999999999988775 455678888888999999999999999988876 4557


Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 047221          366 AITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASL  445 (509)
Q Consensus       366 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~  445 (509)
                      -..|-.|-.+|.-.+...-|+-.|++..+.. +-|...|.+|-++|.+.+++++|.+.|.+....|-. +...+..|...
T Consensus       398 yRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dt-e~~~l~~LakL  475 (559)
T KOG1155|consen  398 YRAWYGLGQAYEIMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDT-EGSALVRLAKL  475 (559)
T ss_pred             HHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcccc-chHHHHHHHHH
Confidence            7888899999999999999999999887652 446889999999999999999999999988876633 55778889999


Q ss_pred             HHhCCChHHHHHHHHHHHH----CCCCcCH--HHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 047221          446 HDKNNNPVMAKNVLSEMMK----NGLRPNV--SVYRRVLKHLHTSHQEHMAKCLSSRYS  498 (509)
Q Consensus       446 ~~~~g~~~~a~~~~~~m~~----~g~~p~~--~t~~~ll~~~~~~g~~~~a~~~~~~m~  498 (509)
                      |-+.++..+|...|++-++    .|..-+.  ....-|...+.+.+++++|........
T Consensus       476 ye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~  534 (559)
T KOG1155|consen  476 YEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVL  534 (559)
T ss_pred             HHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHh
Confidence            9999999999888887665    2433332  222224455567777777776554443

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.31  E-value=2.5e-09  Score=97.68  Aligned_cols=197  Identities=15%  Similarity=0.113  Sum_probs=154.1

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHH
Q 047221          265 LVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGV  340 (509)
Q Consensus       265 ~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~  340 (509)
                      ....+..+...|...|++++|...+++.    +.+...+..+...|...|++++|.+.+++..+.. +.+...+..+...
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~  108 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHH
Confidence            3456777888888888998888888775    3457778888888888999999999998888764 3455677788888


Q ss_pred             HHhcCChHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHH
Q 047221          341 LCKNGQDADACELLEEMLGRNC-HPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYED  419 (509)
Q Consensus       341 ~~~~g~~~~a~~~~~~m~~~g~-~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  419 (509)
                      +...|++++|.+.+++..+... ......+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~  187 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYKD  187 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHHH
Confidence            8899999999999998876532 2234566677788888999999999999887763 3346678888888999999999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 047221          420 AYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       420 A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      |...+++..+. ...+...+..++..+...|+.++|..+.+.+..
T Consensus       188 A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       188 ARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            99999988776 344566677778888888999999988887764

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

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

Probab=99.26  E-value=1.6e-09  Score=109.36  Aligned_cols=249  Identities=14%  Similarity=0.094  Sum_probs=153.3

Q ss_pred             chHHHHHHhCCCCCCHHHHHHHHHHHhcCCc-hHHHHHHHh-hccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhh
Q 047221          145 SETESKLLSMSVSLSNASVIEILRVLNSEKV-SALCFLKYM-REIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFN  222 (509)
Q Consensus       145 ~~~~~~l~~~~~~~~~~~~~~ll~~~~~~~~-~A~~~~~~~-~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~  222 (509)
                      .++...+...|+.|+..||.++|..|+..|+ +|.-+|..| .+..|   -+...++.++.+..+.++.+.+.       
T Consensus        10 tnfla~~e~~gi~PnRvtyqsLiarYc~~gdieaatif~fm~~ksLp---v~e~vf~~lv~sh~~And~Enpk-------   79 (1088)
T KOG4318|consen   10 TNFLALHEISGILPNRVTYQSLIARYCTKGDIEAATIFPFMEIKSLP---VREGVFRGLVASHKEANDAENPK-------   79 (1088)
T ss_pred             chHHHHHHHhcCCCchhhHHHHHHHHcccCCCccccchhhhhccccc---ccchhHHHHHhcccccccccCCC-------
Confidence            3466677888999999999999999999997 666688888 22222   12226666666666666655544       


Q ss_pred             hCCCccCHHHHHHHHHHHHhccCCHHH---HHHHHHHHHH----cC-----------------CCCCHHHHHHHHHHHHh
Q 047221          223 VYQVCLNEKAFGFLPVLISSKALTKKG---IWRVVEVLNQ----VG-----------------GSCLVSGVRALIEMFSV  278 (509)
Q Consensus       223 ~~~~~p~~~~~~~ll~~~~~~~~~~~~---a~~~~~~m~~----~g-----------------~~~~~~~~~~li~~~~~  278 (509)
                          .|...||..+..+|...|+ +..   +++.+.....    .|                 .-||.   .+++.....
T Consensus        80 ----ep~aDtyt~Ll~ayr~hGD-li~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda---~n~illlv~  151 (1088)
T KOG4318|consen   80 ----EPLADTYTNLLKAYRIHGD-LILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDA---ENAILLLVL  151 (1088)
T ss_pred             ----CCchhHHHHHHHHHHhccc-hHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhH---HHHHHHHHH
Confidence                4566666666664443322 332   2221111111    11                 11222   234445555


Q ss_pred             cCCHHHHHHHHHHcCCCHH--HHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHH
Q 047221          279 LGLYEMAKYVIKKTERKVS--YYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEE  356 (509)
Q Consensus       279 ~g~~~~A~~~~~~m~~~~~--~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~  356 (509)
                      .|-++.+.+++..++....  ..-.++.-+..  ++.-..++........-.|+..+|..++.+-...|+++.|..++.+
T Consensus       152 eglwaqllkll~~~Pvsa~~~p~~vfLrqnv~--~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~e  229 (1088)
T KOG4318|consen  152 EGLWAQLLKLLAKVPVSAWNAPFQVFLRQNVV--DNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYE  229 (1088)
T ss_pred             HHHHHHHHHHHhhCCcccccchHHHHHHHhcc--CCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHH
Confidence            6677777777766642210  11111222222  2233344443333221158888888888888888888888888888


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC
Q 047221          357 MLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYR  416 (509)
Q Consensus       357 m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  416 (509)
                      |.+.|++.+.+-|-.|+-+   .++...++.+++-|.+.|+.|+..|+..-+..+..+|.
T Consensus       230 mke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  230 MKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             HHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchh
Confidence            8888888888877777766   67778888888888888888888887776666666444

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

Probab=99.26  E-value=1.3e-10  Score=116.87  Aligned_cols=236  Identities=14%  Similarity=0.082  Sum_probs=126.2

Q ss_pred             hccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCC
Q 047221          185 REIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSC  264 (509)
Q Consensus       185 ~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~  264 (509)
                      .|+.|+..    ||..+|.-||..|+.+.|- +|.-|.-+....+...|+.++.... ..++.+.+.           .|
T Consensus        19 ~gi~PnRv----tyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~-~And~Enpk-----------ep   81 (1088)
T KOG4318|consen   19 SGILPNRV----TYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHK-EANDAENPK-----------EP   81 (1088)
T ss_pred             hcCCCchh----hHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhccc-ccccccCCC-----------CC
Confidence            67888766    8999999999999988888 8888887777778888888887433 333344443           67


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHH-cCCCCChHHHHHHHHHHHh
Q 047221          265 LVSGVRALIEMFSVLGLYEMAKYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQ-VGCEPITLTYNYVLGVLCK  343 (509)
Q Consensus       265 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-~g~~p~~~t~~~li~~~~~  343 (509)
                      ...+|.+|..+|...|++..    |+..+.|.   -.++..+...|.-.....++..+.- .+.-||..+   .+.....
T Consensus        82 ~aDtyt~Ll~ayr~hGDli~----fe~veqdL---e~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n---~illlv~  151 (1088)
T KOG4318|consen   82 LADTYTNLLKAYRIHGDLIL----FEVVEQDL---ESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAEN---AILLLVL  151 (1088)
T ss_pred             chhHHHHHHHHHHhccchHH----HHHHHHHH---HHHHhhhhhhccCcHHHHHHhhcccCcccchhHHH---HHHHHHH
Confidence            78888899999999888766    22221111   1122223333333222222222211 112222221   1111222


Q ss_pred             cCChHHHHHHHHHHH-----------------------------hCCC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 047221          344 NGQDADACELLEEML-----------------------------GRNC-HPDAITYEIFIVYSCRVGKFDVAFNFFNQMV  393 (509)
Q Consensus       344 ~g~~~~a~~~~~~m~-----------------------------~~g~-~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  393 (509)
                      .|.++.+++++..+.                             +.+. .|+..+|.+++++-.-+|+++.|..++.+|.
T Consensus       152 eglwaqllkll~~~Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emk  231 (1088)
T KOG4318|consen  152 EGLWAQLLKLLAKVPVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMK  231 (1088)
T ss_pred             HHHHHHHHHHHhhCCcccccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHH
Confidence            333333333332221                             1111 2555555555555555555555555555555


Q ss_pred             HCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCC
Q 047221          394 KRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNN  450 (509)
Q Consensus       394 ~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g  450 (509)
                      +.|++.+..-|-.|+-+   .++...+..++..|.+.|+.|+..|+...+..+..+|
T Consensus       232 e~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~  285 (1088)
T KOG4318|consen  232 EKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNG  285 (1088)
T ss_pred             HcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcch
Confidence            55555555444444433   4555555555555555555555555555554444433

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

Probab=99.26  E-value=5.1e-08  Score=99.18  Aligned_cols=320  Identities=9%  Similarity=-0.012  Sum_probs=241.6

Q ss_pred             HHHhcCCc--hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCcc-CHHHHHHHHHHHHhcc
Q 047221          168 RVLNSEKV--SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCL-NEKAFGFLPVLISSKA  244 (509)
Q Consensus       168 ~~~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p-~~~~~~~ll~~~~~~~  244 (509)
                      ..+++ |+  +|.+++.++.+..|   ++...|.+|...|-+.|+.+++...+-..  ..+.| |...|..+-. ...+.
T Consensus       148 ~lfar-g~~eeA~~i~~EvIkqdp---~~~~ay~tL~~IyEqrGd~eK~l~~~llA--AHL~p~d~e~W~~lad-ls~~~  220 (895)
T KOG2076|consen  148 NLFAR-GDLEEAEEILMEVIKQDP---RNPIAYYTLGEIYEQRGDIEKALNFWLLA--AHLNPKDYELWKRLAD-LSEQL  220 (895)
T ss_pred             HHHHh-CCHHHHHHHHHHHHHhCc---cchhhHHHHHHHHHHcccHHHHHHHHHHH--HhcCCCChHHHHHHHH-HHHhc
Confidence            33444 54  89999999966667   35569999999999999999998776544  33334 5566666666 66677


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCC-H----HHHHHHHHHHHhcCCccHH
Q 047221          245 LTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERK-V----SYYNILIKEMCRRCDFKGP  315 (509)
Q Consensus       245 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~-~----~~~~~li~~~~~~g~~~~A  315 (509)
                      |.+..|.-.+.+..+.. +++...+---...|-+.|+...|..-|.++    +|. .    ..--.++..|...++-+.|
T Consensus       221 ~~i~qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a  299 (895)
T KOG2076|consen  221 GNINQARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERA  299 (895)
T ss_pred             ccHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHH
Confidence            77999999999999876 445555567788899999999999888886    322 1    2223456677778888899


Q ss_pred             HHHHHHHHH-cCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhC---------------------------CCCCCHH
Q 047221          316 RDLLVEMRQ-VGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGR---------------------------NCHPDAI  367 (509)
Q Consensus       316 ~~~~~~m~~-~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~---------------------------g~~p~~~  367 (509)
                      .+.+..... .+-..+..+++.++..|.+...++.|......+...                           +..++..
T Consensus       300 ~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~  379 (895)
T KOG2076|consen  300 AKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLR  379 (895)
T ss_pred             HHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccch
Confidence            998887765 233566778889999999999999999988888772                           2233433


Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 047221          368 TYEIFIVYSCRVGKFDVAFNFFNQMVKRGL--QPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASL  445 (509)
Q Consensus       368 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~--~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~  445 (509)
                      ++. ++-++.+....+....+.....+...  .-+...|.-+.++|...|++.+|+.+|..+......-+...|--+..+
T Consensus       380 v~r-l~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c  458 (895)
T KOG2076|consen  380 VIR-LMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARC  458 (895)
T ss_pred             hHh-HhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHH
Confidence            422 23344555666666666677777663  335667889999999999999999999999988666678889999999


Q ss_pred             HHhCCChHHHHHHHHHHHHCCCCcC-HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 047221          446 HDKNNNPVMAKNVLSEMMKNGLRPN-VSVYRRVLKHLHTSHQEHMAKCLSSRYS  498 (509)
Q Consensus       446 ~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~  498 (509)
                      |...|..++|++.|++.+..  .|+ ...-.+|-..+.+.|+.|+|.+.+..|.
T Consensus       459 ~~~l~e~e~A~e~y~kvl~~--~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~  510 (895)
T KOG2076|consen  459 YMELGEYEEAIEFYEKVLIL--APDNLDARITLASLYQQLGNHEKALETLEQII  510 (895)
T ss_pred             HHHHhhHHHHHHHHHHHHhc--CCCchhhhhhHHHHHHhcCCHHHHHHHHhccc
Confidence            99999999999999999873  443 3345566667889999999999999877

>PRK12370 invasion protein regulator; Provisional

Probab=99.23  E-value=1e-08  Score=106.11  Aligned_cols=245  Identities=13%  Similarity=0.001  Sum_probs=147.3

Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH---------hcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCcc
Q 047221          247 KKGIWRVVEVLNQVGGSCLVSGVRALIEMFS---------VLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFK  313 (509)
Q Consensus       247 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~---------~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~  313 (509)
                      .++|..++++..+.. +-+...|..+..+|.         ..+++++|...+++.    +.+..+|..+...+...|+++
T Consensus       277 ~~~A~~~~~~Al~ld-P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP~~~~a~~~lg~~~~~~g~~~  355 (553)
T PRK12370        277 LQQALKLLTQCVNMS-PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDHNNPQALGLLGLINTIHSEYI  355 (553)
T ss_pred             HHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHccCHH
Confidence            556677777666543 223344555544443         223467777777764    446777777777777888888


Q ss_pred             HHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHHcCChHHHHHHHHHH
Q 047221          314 GPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPD-AITYEIFIVYSCRVGKFDVAFNFFNQM  392 (509)
Q Consensus       314 ~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m  392 (509)
                      +|...|++..+.+ +.+...+..+..++...|++++|...+++..+..  |+ ...+..++..+...|++++|...++++
T Consensus       356 ~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~--P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~  432 (553)
T PRK12370        356 VGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLD--PTRAAAGITKLWITYYHTGIDDAIRLGDEL  432 (553)
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCChhhHHHHHHHHHhccCHHHHHHHHHHH
Confidence            8888888877664 3345567777777888888888888888877753  33 222333444455677888888888777


Q ss_pred             HHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHC-CCCcCH
Q 047221          393 VKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKN-GLRPNV  471 (509)
Q Consensus       393 ~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~~  471 (509)
                      .+...+-+...+..+..+|...|+.++|...+.++.... ..+....+.+...|+..|  ++|...++++.+. .-.+..
T Consensus       433 l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~~~~  509 (553)
T PRK12370        433 RSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQE-ITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQRIDNN  509 (553)
T ss_pred             HHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhcc-chhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHhhcC
Confidence            655322234456667777778888888888887765442 122334445555566666  4677766666552 222322


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 047221          472 SVYRRVLKHLHTSHQEHMAKCLSSRYSSLS  501 (509)
Q Consensus       472 ~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~  501 (509)
                      .-+..++  +.-.|+-+.+... +++.+.+
T Consensus       510 ~~~~~~~--~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        510 PGLLPLV--LVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             chHHHHH--HHHHhhhHHHHHH-HHhhccc
Confidence            2333333  3334555555444 6665443

>PRK12370 invasion protein regulator; Provisional

Probab=99.21  E-value=2e-08  Score=103.89  Aligned_cols=261  Identities=11%  Similarity=0.030  Sum_probs=180.9

Q ss_pred             ChhHHHHHHHHHhc-----cCCHHHHHHHHHHhhhCCCccCHH-HHHHHHHHHHh--------ccCCHHHHHHHHHHHHH
Q 047221          194 NSDICSLVIDNCGR-----LDDYETMRQLLNDFNVYQVCLNEK-AFGFLPVLISS--------KALTKKGIWRVVEVLNQ  259 (509)
Q Consensus       194 ~~~~~~~li~~~~~-----~g~~~~A~~l~~~m~~~~~~p~~~-~~~~ll~~~~~--------~~~~~~~a~~~~~~m~~  259 (509)
                      +...|...+.+...     .+++++|..+|++..+.  .|+.. .|..+-.++..        ..++.++|...+++..+
T Consensus       255 ~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~  332 (553)
T PRK12370        255 SIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATE  332 (553)
T ss_pred             ChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHh
Confidence            44466666666322     23467899999988655  45443 33333222211        22347899999999887


Q ss_pred             cCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCCh-HHH
Q 047221          260 VGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPIT-LTY  334 (509)
Q Consensus       260 ~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~  334 (509)
                      .. +.+...+..+..++...|++++|...|++.    +.+...|..+...+...|++++|+..+++..+..  |+. ..+
T Consensus       333 ld-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~--P~~~~~~  409 (553)
T PRK12370        333 LD-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLKLD--PTRAAAG  409 (553)
T ss_pred             cC-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCChhhH
Confidence            65 456778888999999999999999999885    4557788999999999999999999999998764  442 233


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHH
Q 047221          335 NYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPR-LATHAAFIKGYFI  413 (509)
Q Consensus       335 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~  413 (509)
                      ..++..+...|++++|...+++..+...+-+...+..+..++...|+.++|...++++...  .|+ ....+.+...|+.
T Consensus       410 ~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~  487 (553)
T PRK12370        410 ITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEYCQ  487 (553)
T ss_pred             HHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHhc
Confidence            3445557778999999999999876532224555777778888999999999999987655  333 4455666667777


Q ss_pred             cCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCC
Q 047221          414 FYRYEDAYKYVVLSADK-YKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNG  466 (509)
Q Consensus       414 ~g~~~~A~~~~~~m~~~-~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  466 (509)
                      .|  ++|...++.+.+. ...+....+  +-..|.-.|+.+.+..+ +++.+.|
T Consensus       488 ~g--~~a~~~l~~ll~~~~~~~~~~~~--~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        488 NS--ERALPTIREFLESEQRIDNNPGL--LPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             cH--HHHHHHHHHHHHHhhHhhcCchH--HHHHHHHHhhhHHHHHH-HHhhccc
Confidence            77  4777777776653 222222222  44445566777766666 8877654

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

Probab=99.19  E-value=7.1e-07  Score=91.06  Aligned_cols=336  Identities=13%  Similarity=0.056  Sum_probs=249.0

Q ss_pred             CCCHHHHHHHHHHHhcCCc--hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHH
Q 047221          157 SLSNASVIEILRVLNSEKV--SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFG  234 (509)
Q Consensus       157 ~~~~~~~~~ll~~~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~  234 (509)
                      +.....|-.+-..+-+.|+  +++..+-.+..+.|.   |...|-.+.....+.|.++.|.-.|.+..+..  |+..-+-
T Consensus       170 p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~---d~e~W~~ladls~~~~~i~qA~~cy~rAI~~~--p~n~~~~  244 (895)
T KOG2076|consen  170 PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPK---DYELWKRLADLSEQLGNINQARYCYSRAIQAN--PSNWELI  244 (895)
T ss_pred             ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCC---ChHHHHHHHHHHHhcccHHHHHHHHHHHHhcC--CcchHHH
Confidence            3455677888888888887  677666666777774   45799999999999999999999999997764  4443322


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHH----HHHHHHHhcCCHHHHHHHHHHcC------CCHHHHHHHHH
Q 047221          235 FLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVR----ALIEMFSVLGLYEMAKYVIKKTE------RKVSYYNILIK  304 (509)
Q Consensus       235 ~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~----~li~~~~~~g~~~~A~~~~~~m~------~~~~~~~~li~  304 (509)
                      .-=...+.+.|+...|..-|.++.....+.|..-+-    ..+..|...++-+.|.+.++...      -+...+|.++.
T Consensus       245 ~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ae  324 (895)
T KOG2076|consen  245 YERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSKEKDEASLEDLNILAE  324 (895)
T ss_pred             HHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhccccccccHHHHHHH
Confidence            222224556777999999999998866544443333    44556777788899998888751      34567899999


Q ss_pred             HHHhcCCccHHHHHHHHHHHcCCCCC---------------------------hHHHHHHHHHHHhcCChHHHHHHHHHH
Q 047221          305 EMCRRCDFKGPRDLLVEMRQVGCEPI---------------------------TLTYNYVLGVLCKNGQDADACELLEEM  357 (509)
Q Consensus       305 ~~~~~g~~~~A~~~~~~m~~~g~~p~---------------------------~~t~~~li~~~~~~g~~~~a~~~~~~m  357 (509)
                      .|.+...++.|......+.....++|                           ... --++-+..+....+....+..-.
T Consensus       325 l~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v-~rl~icL~~L~~~e~~e~ll~~l  403 (895)
T KOG2076|consen  325 LFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRV-IRLMICLVHLKERELLEALLHFL  403 (895)
T ss_pred             HHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchh-HhHhhhhhcccccchHHHHHHHH
Confidence            99999999999999998887322222                           222 12333445555555566666666


Q ss_pred             HhCCCCC--CHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCC
Q 047221          358 LGRNCHP--DAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSS  435 (509)
Q Consensus       358 ~~~g~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~  435 (509)
                      .+....|  +...|.-+..+|...|++.+|+.+|..+.....--+...|-.+..+|...|..+.|.+.|+....... .+
T Consensus       404 ~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~p-~~  482 (895)
T KOG2076|consen  404 VEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLILAP-DN  482 (895)
T ss_pred             HHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcCC-Cc
Confidence            6665333  45678889999999999999999999999876555788999999999999999999999999887532 12


Q ss_pred             HHHHHHHHHHHHhCCChHHHHHHHHHHH--------HCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 047221          436 NMLYSLLASLHDKNNNPVMAKNVLSEMM--------KNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSS  499 (509)
Q Consensus       436 ~~~~~~li~~~~~~g~~~~a~~~~~~m~--------~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~  499 (509)
                      ...--.|...+-+.|+.++|.+.+..|.        ..+..|+..........+...|+.++-..+...|..
T Consensus       483 ~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~fi~t~~~Lv~  554 (895)
T KOG2076|consen  483 LDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREEFINTASTLVD  554 (895)
T ss_pred             hhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            2233456677789999999999999864        335677777777778888999999987777776664

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

Probab=99.18  E-value=5.3e-08  Score=91.95  Aligned_cols=273  Identities=9%  Similarity=0.013  Sum_probs=201.7

Q ss_pred             HHHHhccCCHHHHHHHHHHhhhCCC--ccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 047221          202 IDNCGRLDDYETMRQLLNDFNVYQV--CLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVL  279 (509)
Q Consensus       202 i~~~~~~g~~~~A~~l~~~m~~~~~--~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  279 (509)
                      ..+.-...+++.|+.+|+++.+...  --|..+|..++-.--     -...+..+.+-...-.+--..|...+.+-|+-.
T Consensus       269 A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~-----~~skLs~LA~~v~~idKyR~ETCCiIaNYYSlr  343 (559)
T KOG1155|consen  269 AAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKN-----DKSKLSYLAQNVSNIDKYRPETCCIIANYYSLR  343 (559)
T ss_pred             HHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHh-----hhHHHHHHHHHHHHhccCCccceeeehhHHHHH
Confidence            3344567899999999999987732  126678877765211     112222222222111233356778899999999


Q ss_pred             CCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHH
Q 047221          280 GLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLE  355 (509)
Q Consensus       280 g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~  355 (509)
                      ++.+.|...|++.    +.....|+.|.+-|....+...|++-++...+-. +.|-..|-.|..+|.-.+...-|+-.|+
T Consensus       344 ~eHEKAv~YFkRALkLNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~DyRAWYGLGQaYeim~Mh~YaLyYfq  422 (559)
T KOG1155|consen  344 SEHEKAVMYFKRALKLNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRDYRAWYGLGQAYEIMKMHFYALYYFQ  422 (559)
T ss_pred             HhHHHHHHHHHHHHhcCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chhHHHHhhhhHHHHHhcchHHHHHHHH
Confidence            9999999999985    4457899999999999999999999999999875 7789999999999999999999999999


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh----CC
Q 047221          356 EMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSAD----KY  431 (509)
Q Consensus       356 ~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~~  431 (509)
                      +..+- -+-|...|.+|-.+|.+.++.++|++.|......| ..+...+..|.+.|-+.++.++|-..|+.-.+    .|
T Consensus       423 kA~~~-kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-dte~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg  500 (559)
T KOG1155|consen  423 KALEL-KPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG-DTEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEG  500 (559)
T ss_pred             HHHhc-CCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhc
Confidence            98876 24478899999999999999999999999999887 23558899999999999999999998876554    23


Q ss_pred             CCCCHH--HHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 047221          432 KSSSNM--LYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSL  500 (509)
Q Consensus       432 ~~p~~~--~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~  500 (509)
                      ...+..  .-.-|..-+.+.+++++|..+......                .  .-..++|..+++++++.
T Consensus       501 ~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~----------------~--~~e~eeak~LlReir~~  553 (559)
T KOG1155|consen  501 EIDDETIKARLFLAEYFKKMKDFDEASYYATLVLK----------------G--ETECEEAKALLREIRKI  553 (559)
T ss_pred             ccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHhc----------------C--CchHHHHHHHHHHHHHh
Confidence            333322  222244555666777766544433222                1  33456777777776654

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

Probab=99.17  E-value=7e-08  Score=98.88  Aligned_cols=304  Identities=12%  Similarity=0.024  Sum_probs=221.5

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhhhC---CCccCH-----HHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHH
Q 047221          197 ICSLVIDNCGRLDDYETMRQLLNDFNVY---QVCLNE-----KAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSG  268 (509)
Q Consensus       197 ~~~~li~~~~~~g~~~~A~~l~~~m~~~---~~~p~~-----~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~  268 (509)
                      ..|.+.......|+++.|...|......   ...+|.     .|....+..+....++.+.|.+++..+.+.. +.-+..
T Consensus       454 ~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkeh-p~YId~  532 (1018)
T KOG2002|consen  454 VLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEH-PGYIDA  532 (1018)
T ss_pred             HHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHC-chhHHH
Confidence            7899999999999999999999987655   122333     3445556667777777999999999988753 222333


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcC-CCCChHHHHHHHHHHHh
Q 047221          269 VRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVG-CEPITLTYNYVLGVLCK  343 (509)
Q Consensus       269 ~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~t~~~li~~~~~  343 (509)
                      |--|+.+....+...+|...+...    ..+...|+.+...+.+...+..|.+-|....+.- ..+|..+.-+|.+.|..
T Consensus       533 ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~  612 (1018)
T KOG2002|consen  533 YLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQ  612 (1018)
T ss_pred             HHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHH
Confidence            444444444456777888888775    4567788888889999999999999887766542 23566666666665543


Q ss_pred             ------------cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 047221          344 ------------NGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGY  411 (509)
Q Consensus       344 ------------~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  411 (509)
                                  .+..++|+++|....+. -+.|.+.-|-+--.++..|++.+|.++|.++.+... -+..+|-.+.++|
T Consensus       613 ~l~~~~rn~ek~kk~~~KAlq~y~kvL~~-dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~-~~~dv~lNlah~~  690 (1018)
T KOG2002|consen  613 ALHNPSRNPEKEKKHQEKALQLYGKVLRN-DPKNMYAANGIGIVLAEKGRFSEARDIFSQVREATS-DFEDVWLNLAHCY  690 (1018)
T ss_pred             HhcccccChHHHHHHHHHHHHHHHHHHhc-CcchhhhccchhhhhhhccCchHHHHHHHHHHHHHh-hCCceeeeHHHHH
Confidence                        35577899999988876 345777777788888999999999999999988753 2456788899999


Q ss_pred             HHcCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHH----------
Q 047221          412 FIFYRYEDAYKYVVLSADK-YKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKH----------  480 (509)
Q Consensus       412 ~~~g~~~~A~~~~~~m~~~-~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~----------  480 (509)
                      ..+|++-.|.++|+..... +-.-+....+.|..++.+.|.+.+|.+...........-....|+..+-.          
T Consensus       691 ~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~v~kkla~s~lr~  770 (1018)
T KOG2002|consen  691 VEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLALVLKKLAESILRL  770 (1018)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHHHHHHHHHHHHhc
Confidence            9999999999999976554 55567788899999999999999999988877664333233334433221          


Q ss_pred             --------HHhcCCHHHHHHHHHHHHhCCCC
Q 047221          481 --------LHTSHQEHMAKCLSSRYSSLSLG  503 (509)
Q Consensus       481 --------~~~~g~~~~a~~~~~~m~~~~~~  503 (509)
                              ....+..+.|.++|.+|.+.+-+
T Consensus       771 ~k~t~eev~~a~~~le~a~r~F~~ls~~~d~  801 (1018)
T KOG2002|consen  771 EKRTLEEVLEAVKELEEARRLFTELSKNGDK  801 (1018)
T ss_pred             ccccHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence                    11234567888889888877655

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

Probab=99.16  E-value=8.5e-08  Score=90.13  Aligned_cols=186  Identities=12%  Similarity=-0.016  Sum_probs=126.7

Q ss_pred             cCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHH
Q 047221          309 RCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNF  388 (509)
Q Consensus       309 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~  388 (509)
                      +|++++|.+.|++.....-.-....||+ --.+-..|++++|++.|-.+..- +.-+..+...+...|.-..+...|+++
T Consensus       503 ngd~dka~~~ykeal~ndasc~ealfni-glt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~  580 (840)
T KOG2003|consen  503 NGDLDKAAEFYKEALNNDASCTEALFNI-GLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIEL  580 (840)
T ss_pred             cCcHHHHHHHHHHHHcCchHHHHHHHHh-cccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHH
Confidence            4788888888888876542222333333 23466788889988888776543 223566666777778778888888888


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCC
Q 047221          389 FNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLR  468 (509)
Q Consensus       389 ~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  468 (509)
                      +.+.... ++-|......|.+.|-+.|+-..|++..-+-- +-+..+..+..-|..-|....-+++++.+|++..-  +.
T Consensus       581 ~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsy-ryfp~nie~iewl~ayyidtqf~ekai~y~ekaal--iq  656 (840)
T KOG2003|consen  581 LMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSY-RYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQ  656 (840)
T ss_pred             HHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcc-cccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cC
Confidence            8766543 44467777888888888888777777653321 23445666777777777777777778877777654  67


Q ss_pred             cCHHHHHHHHHHH-HhcCCHHHHHHHHHHHHhC
Q 047221          469 PNVSVYRRVLKHL-HTSHQEHMAKCLSSRYSSL  500 (509)
Q Consensus       469 p~~~t~~~ll~~~-~~~g~~~~a~~~~~~m~~~  500 (509)
                      |+..-|..++..| .+.|.+.+|.++++...+.
T Consensus       657 p~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk  689 (840)
T KOG2003|consen  657 PNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK  689 (840)
T ss_pred             ccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            7777777777655 4577788887777776654

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

Probab=99.14  E-value=6.6e-08  Score=90.87  Aligned_cols=276  Identities=11%  Similarity=0.019  Sum_probs=201.9

Q ss_pred             HHhccCCHHHHHHHHHHhhhCCCccCHHHHHHH-HHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH
Q 047221          204 NCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFL-PVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLY  282 (509)
Q Consensus       204 ~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~l-l~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  282 (509)
                      .|.+.|+++.|.+++.-.....-+.-...-+.+ +-.++..+.++..|.++-+...... .-+......-.+.....|++
T Consensus       428 ~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~  506 (840)
T KOG2003|consen  428 ELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGDL  506 (840)
T ss_pred             HHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcH
Confidence            467889999999999887666433222222222 2224445566777777766655422 22233333333344457899


Q ss_pred             HHHHHHHHHc-CCCHHHHHH---HHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 047221          283 EMAKYVIKKT-ERKVSYYNI---LIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEML  358 (509)
Q Consensus       283 ~~A~~~~~~m-~~~~~~~~~---li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~  358 (509)
                      +.|...+++. ..|...-.+   +.-.+-..|++++|++.|-++..- +.-+..+..-+.+.|-...+...|.+++.+..
T Consensus       507 dka~~~ykeal~ndasc~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~  585 (840)
T KOG2003|consen  507 DKAAEFYKEALNNDASCTEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQAN  585 (840)
T ss_pred             HHHHHHHHHHHcCchHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhc
Confidence            9999999886 444322222   233567789999999999877643 23456677788888999999999999987765


Q ss_pred             hCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHH
Q 047221          359 GRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNML  438 (509)
Q Consensus       359 ~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~  438 (509)
                      .. ++-|.....-|...|-+.|+-..|.+.+-+--+- ++-+..|..-|..-|....-+++|...|++..  -+.|+..-
T Consensus       586 sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaa--liqp~~~k  661 (840)
T KOG2003|consen  586 SL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAA--LIQPNQSK  661 (840)
T ss_pred             cc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHH--hcCccHHH
Confidence            54 5667888999999999999999999987665443 45578888889999999999999999998753  46899999


Q ss_pred             HHHHHHHHH-hCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCC
Q 047221          439 YSLLASLHD-KNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQ  486 (509)
Q Consensus       439 ~~~li~~~~-~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~  486 (509)
                      |..||..|. +.|++.+|.++|+..... ++-|.....-|++.|...|.
T Consensus       662 wqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  662 WQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhccccc
Confidence            999987665 689999999999998765 77788888888888877775

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.13  E-value=3.2e-08  Score=98.18  Aligned_cols=233  Identities=15%  Similarity=0.136  Sum_probs=141.9

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHHHHhhhC-----C-CccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHH
Q 047221          196 DICSLVIDNCGRLDDYETMRQLLNDFNVY-----Q-VCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGV  269 (509)
Q Consensus       196 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~-----~-~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~  269 (509)
                      .+...+...|...|+++.|+.+++...+.     | ..|...+.                                   .
T Consensus       200 ~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~-----------------------------------l  244 (508)
T KOG1840|consen  200 RTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASM-----------------------------------L  244 (508)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHH-----------------------------------H
Confidence            35566888899999999999998887543     1 01111111                                   1


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHc--------CC----CHHHHHHHHHHHHhcCCccHHHHHHHHHHH-----cCC-CCCh
Q 047221          270 RALIEMFSVLGLYEMAKYVIKKT--------ER----KVSYYNILIKEMCRRCDFKGPRDLLVEMRQ-----VGC-EPIT  331 (509)
Q Consensus       270 ~~li~~~~~~g~~~~A~~~~~~m--------~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~-~p~~  331 (509)
                      +.+...|...+++++|..+|+++        .+    -..+++.|...|.+.|++++|...+++..+     .|. .|.+
T Consensus       245 ~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v  324 (508)
T KOG1840|consen  245 NILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEV  324 (508)
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHH
Confidence            23445555555555555555543        11    134455555566666666666555554331     121 2222


Q ss_pred             H-HHHHHHHHHHhcCChHHHHHHHHHHHhC---CCCC----CHHHHHHHHHHHHHcCChHHHHHHHHHHHHC-----C--
Q 047221          332 L-TYNYVLGVLCKNGQDADACELLEEMLGR---NCHP----DAITYEIFIVYSCRVGKFDVAFNFFNQMVKR-----G--  396 (509)
Q Consensus       332 ~-t~~~li~~~~~~g~~~~a~~~~~~m~~~---g~~p----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----g--  396 (509)
                      . -++.+...|+..+++++|..++....+.   -..+    -..+++.|-..|.+.|++++|+++|++.+..     |  
T Consensus       325 ~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~  404 (508)
T KOG1840|consen  325 AAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKK  404 (508)
T ss_pred             HHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCc
Confidence            2 3455666777788888887777754432   1111    2357888888888888888888888877643     1  


Q ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh----CCC--CCCHHHHHHHHHHHHhCCChHHHHHHHHHHH
Q 047221          397 LQPRLATHAAFIKGYFIFYRYEDAYKYVVLSAD----KYK--SSSNMLYSLLASLHDKNNNPVMAKNVLSEMM  463 (509)
Q Consensus       397 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~~~--~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  463 (509)
                      ..-....++.|...|.+.++.++|.++|.+-..    .|.  +-...+|..|...|...|++++|.++.+...
T Consensus       405 ~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  405 DYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             ChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            111244567777888888888888887765432    222  2234578888888888888888888877665

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.09  E-value=1.5e-07  Score=93.44  Aligned_cols=238  Identities=18%  Similarity=0.155  Sum_probs=176.2

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc-----------CCCH-HHHHHHHHHHHhcCCccHHHHHHHHHHHc---
Q 047221          261 GGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT-----------ERKV-SYYNILIKEMCRRCDFKGPRDLLVEMRQV---  325 (509)
Q Consensus       261 g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-----------~~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~---  325 (509)
                      +.+--..+...|..+|...|+++.|+.+++..           .+.+ ...+.+...|...+++++|..+|+++...   
T Consensus       194 ~~P~~~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~  273 (508)
T KOG1840|consen  194 EDPERLRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREE  273 (508)
T ss_pred             CCchHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHH
Confidence            33434456667999999999999999998773           1222 23345777899999999999999988742   


Q ss_pred             CCCCC----hHHHHHHHHHHHhcCChHHHHHHHHHHHhC-----CC-CCCHH-HHHHHHHHHHHcCChHHHHHHHHHHHH
Q 047221          326 GCEPI----TLTYNYVLGVLCKNGQDADACELLEEMLGR-----NC-HPDAI-TYEIFIVYSCRVGKFDVAFNFFNQMVK  394 (509)
Q Consensus       326 g~~p~----~~t~~~li~~~~~~g~~~~a~~~~~~m~~~-----g~-~p~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~  394 (509)
                      ..-++    ..+++.|-.+|.+.|++++|...+++..+-     |. .|.+. .++.+...|+..+++++|..+++...+
T Consensus       274 ~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~  353 (508)
T KOG1840|consen  274 VFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALK  353 (508)
T ss_pred             hcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence            12222    456777888899999999988877765432     22 23333 366777888999999999999987653


Q ss_pred             C---CCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHhC-----C--CCCCHHHHHHHHHHHHhCCChHHHHHHHH
Q 047221          395 R---GLQPR----LATHAAFIKGYFIFYRYEDAYKYVVLSADK-----Y--KSSSNMLYSLLASLHDKNNNPVMAKNVLS  460 (509)
Q Consensus       395 ~---g~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----~--~~p~~~~~~~li~~~~~~g~~~~a~~~~~  460 (509)
                      .   -..++    ..+++.|-..|.+.|++++|+++++.....     |  ..-....++.|...|.+.++..+|.++|.
T Consensus       354 i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~  433 (508)
T KOG1840|consen  354 IYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFE  433 (508)
T ss_pred             HHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHH
Confidence            2   12222    467999999999999999999999987743     1  11224567889999999999999999998


Q ss_pred             HHHH----CCC-CcC-HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 047221          461 EMMK----NGL-RPN-VSVYRRVLKHLHTSHQEHMAKCLSSRYS  498 (509)
Q Consensus       461 ~m~~----~g~-~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~  498 (509)
                      +...    .|. .|+ ..+|..|...|...|++++|.++.+...
T Consensus       434 ~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  434 EAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            7654    232 223 3579999999999999999999988776

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

Probab=99.07  E-value=4.8e-07  Score=92.95  Aligned_cols=330  Identities=10%  Similarity=0.019  Sum_probs=206.2

Q ss_pred             HHHHHHhcCCc--hHHHHHHHhhccCCCCccChhHHHHHHHHHhccC----CHHHHHHHHHHhhhCCCccCHHHHHHHHH
Q 047221          165 EILRVLNSEKV--SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLD----DYETMRQLLNDFNVYQVCLNEKAFGFLPV  238 (509)
Q Consensus       165 ~ll~~~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g----~~~~A~~l~~~m~~~~~~p~~~~~~~ll~  238 (509)
                      -+-..+...|+  .|...|+.+....|+..   ++.-.|-..|+..+    ..+.|..++.+..+.- .-|...|-.+-.
T Consensus       347 GlgQm~i~~~dle~s~~~fEkv~k~~p~~~---etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laq  422 (1018)
T KOG2002|consen  347 GLGQMYIKRGDLEESKFCFEKVLKQLPNNY---ETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQ  422 (1018)
T ss_pred             chhHHHHHhchHHHHHHHHHHHHHhCcchH---HHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHH
Confidence            34445556664  67777777755556532   24444555555443    4566666666665443 234555554444


Q ss_pred             HHHhccCCHHHHHHHHHH----HHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc--------CCCHH------HHH
Q 047221          239 LISSKALTKKGIWRVVEV----LNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT--------ERKVS------YYN  300 (509)
Q Consensus       239 ~~~~~~~~~~~a~~~~~~----m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m--------~~~~~------~~~  300 (509)
                       .+...+ ...++.++..    +...+..+.....|.+...+...|.++.|...|+..        .+|..      +--
T Consensus       423 -l~e~~d-~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~Y  500 (1018)
T KOG2002|consen  423 -LLEQTD-PWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKY  500 (1018)
T ss_pred             -HHHhcC-hHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHH
Confidence             333333 3333544443    334455566667777777777777777777776553        12211      111


Q ss_pred             HHHHHHHhcC----------------------------------CccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCC
Q 047221          301 ILIKEMCRRC----------------------------------DFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQ  346 (509)
Q Consensus       301 ~li~~~~~~g----------------------------------~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~  346 (509)
                      .+...+-..+                                  ...+|...+++..+.. .-+...++.+...+.+...
T Consensus       501 Nlarl~E~l~~~~~A~e~Yk~Ilkehp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~~  579 (1018)
T KOG2002|consen  501 NLARLLEELHDTEVAEEMYKSILKEHPGYIDAYLRLGCMARDKNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSE  579 (1018)
T ss_pred             HHHHHHHhhhhhhHHHHHHHHHHHHCchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhh
Confidence            1222222233                                  4445555555544332 3334444445555666666


Q ss_pred             hHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHH------------cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Q 047221          347 DADACELLEEMLGR-NCHPDAITYEIFIVYSCR------------VGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFI  413 (509)
Q Consensus       347 ~~~a~~~~~~m~~~-g~~p~~~~~~~li~~~~~------------~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  413 (509)
                      +..|.+-|....+. ...+|..+.-+|-+.|.+            .+..++|+++|.++.+.. +-|...-|.+--.++.
T Consensus       580 ~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-pkN~yAANGIgiVLA~  658 (1018)
T KOG2002|consen  580 WKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-PKNMYAANGIGIVLAE  658 (1018)
T ss_pred             hcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-cchhhhccchhhhhhh
Confidence            66666655554443 122566666666554432            245788999999988763 4477888889999999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHC-CCCcCHHHHHHHHHHHHhcCCHHHHHH
Q 047221          414 FYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKN-GLRPNVSVYRRVLKHLHTSHQEHMAKC  492 (509)
Q Consensus       414 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~~~t~~~ll~~~~~~g~~~~a~~  492 (509)
                      +|++.+|..+|.++.+... -+..+|-.+.++|...|++..|+++|+...+. .-.-+..+...|.+++.+.|++.+|.+
T Consensus       659 kg~~~~A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~  737 (1018)
T KOG2002|consen  659 KGRFSEARDIFSQVREATS-DFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKE  737 (1018)
T ss_pred             ccCchHHHHHHHHHHHHHh-hCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHH
Confidence            9999999999999988754 23345778999999999999999999987764 445577789999999999999999998


Q ss_pred             HHHHHHhCCCC
Q 047221          493 LSSRYSSLSLG  503 (509)
Q Consensus       493 ~~~~m~~~~~~  503 (509)
                      .+.......+.
T Consensus       738 ~ll~a~~~~p~  748 (1018)
T KOG2002|consen  738 ALLKARHLAPS  748 (1018)
T ss_pred             HHHHHHHhCCc
Confidence            88776655443

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

Probab=99.07  E-value=8.2e-08  Score=86.73  Aligned_cols=235  Identities=11%  Similarity=-0.005  Sum_probs=192.6

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHc---CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHH-HHHH
Q 047221          263 SCLVSGVRALIEMFSVLGLYEMAKYVIKKT---ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTY-NYVL  338 (509)
Q Consensus       263 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~-~~li  338 (509)
                      ..|-+.-+.+..+|.+.|.+.+|++-|+.-   .+-+.||-.|-..|.+..+.+.|+.+|.+-.+.  .|..+|| ..+.
T Consensus       220 ~~dwwWk~Q~gkCylrLgm~r~AekqlqssL~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~A  297 (478)
T KOG1129|consen  220 TLDWWWKQQMGKCYLRLGMPRRAEKQLQSSLTQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQA  297 (478)
T ss_pred             hHhHHHHHHHHHHHHHhcChhhhHHHHHHHhhcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhH
Confidence            334444478999999999999999999885   577889999999999999999999999988765  5666666 4577


Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHH
Q 047221          339 GVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYE  418 (509)
Q Consensus       339 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  418 (509)
                      ..+-..++.++|.+++++..+. .+.++....++..+|.-.++.+-|+..++.+...|+. +...|+.+--+|.-.++++
T Consensus       298 Ri~eam~~~~~a~~lYk~vlk~-~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D  375 (478)
T KOG1129|consen  298 RIHEAMEQQEDALQLYKLVLKL-HPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQID  375 (478)
T ss_pred             HHHHHHHhHHHHHHHHHHHHhc-CCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchh
Confidence            7888899999999999998887 3456777778888899999999999999999999966 6778888888888899999


Q ss_pred             HHHHHHHHHHhCCCCCCH--HHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 047221          419 DAYKYVVLSADKYKSSSN--MLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSR  496 (509)
Q Consensus       419 ~A~~~~~~m~~~~~~p~~--~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~  496 (509)
                      -++--|.+....--.|+.  ..|-.|.......|++..|.+.|+-....+ .-+...++.|.-.-.+.|++++|..+++.
T Consensus       376 ~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~Arsll~~  454 (478)
T KOG1129|consen  376 LVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILGARSLLNA  454 (478)
T ss_pred             hhHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHHHHHHHHH
Confidence            999999887765444433  357778888888999999999999887643 23456788887777899999999999998


Q ss_pred             HHhCCC
Q 047221          497 YSSLSL  502 (509)
Q Consensus       497 m~~~~~  502 (509)
                      ..+..+
T Consensus       455 A~s~~P  460 (478)
T KOG1129|consen  455 AKSVMP  460 (478)
T ss_pred             hhhhCc
Confidence            776543

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

Probab=99.03  E-value=3.6e-06  Score=78.60  Aligned_cols=281  Identities=13%  Similarity=0.044  Sum_probs=207.5

Q ss_pred             hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHH
Q 047221          176 SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVE  255 (509)
Q Consensus       176 ~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~  255 (509)
                      .|.++...-....+.   ....|-.-+.+--+.|+.+.+-..+.+..+.--.++...+-+...... ..++.+.|..-+.
T Consensus       102 qAEkl~~rnae~~e~---p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll-~~~d~~aA~~~v~  177 (400)
T COG3071         102 QAEKLLRRNAEHGEQ---PVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLL-NRRDYPAARENVD  177 (400)
T ss_pred             HHHHHHHHhhhcCcc---hHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHH-hCCCchhHHHHHH
Confidence            677777666221121   112455556677788999999999999876633444445555555334 4455899999888


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHcCC-----C-------HHHHHHHHHHHHhcCCccHHHHHHHHHH
Q 047221          256 VLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTER-----K-------VSYYNILIKEMCRRCDFKGPRDLLVEMR  323 (509)
Q Consensus       256 ~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~-------~~~~~~li~~~~~~g~~~~A~~~~~~m~  323 (509)
                      ++.+.+ +-...+......+|.+.|++.....++.++..     |       ..+|+.++.-....+..+.-...+++..
T Consensus       178 ~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~p  256 (400)
T COG3071         178 QLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQP  256 (400)
T ss_pred             HHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhcc
Confidence            888876 44567789999999999999999999998831     1       4578888887777776666666666655


Q ss_pred             HcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHH
Q 047221          324 QVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLAT  403 (509)
Q Consensus       324 ~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~  403 (509)
                      .. .+-+...-.+++.-+.++|+.++|.++..+..+.+..|+.    ...-.+.+.++.+.-++..++..+. .+-+...
T Consensus       257 r~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L----~~~~~~l~~~d~~~l~k~~e~~l~~-h~~~p~L  330 (400)
T COG3071         257 RK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRL----CRLIPRLRPGDPEPLIKAAEKWLKQ-HPEDPLL  330 (400)
T ss_pred             HH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhH----HHHHhhcCCCCchHHHHHHHHHHHh-CCCChhH
Confidence            43 3455666677888899999999999999999998776662    2223456778887777777766554 2334577


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCc
Q 047221          404 HAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRP  469 (509)
Q Consensus       404 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  469 (509)
                      +.+|-..|.+.+.|.+|...|+...+  ..|+..+|+.+..++.+.|+..+|.+++++....-..|
T Consensus       331 ~~tLG~L~~k~~~w~kA~~~leaAl~--~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~~~~  394 (400)
T COG3071         331 LSTLGRLALKNKLWGKASEALEAALK--LRPSASDYAELADALDQLGEPEEAEQVRREALLLTRQP  394 (400)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHh--cCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHHhcCC
Confidence            88899999999999999999996554  47899999999999999999999999999876543333

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

Probab=99.02  E-value=1.1e-05  Score=79.82  Aligned_cols=342  Identities=10%  Similarity=0.017  Sum_probs=184.1

Q ss_pred             CCCCCCHHHHHHHHHHHhcCCc--hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHH
Q 047221          154 MSVSLSNASVIEILRVLNSEKV--SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEK  231 (509)
Q Consensus       154 ~~~~~~~~~~~~ll~~~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~  231 (509)
                      .|+..+...|-.=-..|-..|.  .+..+...+.|+.-+..---.+|+.-...|.+.+.++-|+.+|....+- ++-+..
T Consensus       473 ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqv-fp~k~s  551 (913)
T KOG0495|consen  473 NGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKS  551 (913)
T ss_pred             cceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhH
Confidence            3555555554444444444442  3444444443333222223347777777888888888888888776543 122334


Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHH
Q 047221          232 AFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMC  307 (509)
Q Consensus       232 ~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~  307 (509)
                      .|.-... .-...|..++...+++.....- +-....|-....-+-..|++..|..++.+.    +.+...|-+-+..-.
T Consensus       552 lWlra~~-~ek~hgt~Esl~Allqkav~~~-pkae~lwlM~ake~w~agdv~~ar~il~~af~~~pnseeiwlaavKle~  629 (913)
T KOG0495|consen  552 LWLRAAM-FEKSHGTRESLEALLQKAVEQC-PKAEILWLMYAKEKWKAGDVPAARVILDQAFEANPNSEEIWLAAVKLEF  629 (913)
T ss_pred             HHHHHHH-HHHhcCcHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHhh
Confidence            4444443 3445555777777777776542 333444555556666677877777776664    455677777777777


Q ss_pred             hcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhC---------------------------
Q 047221          308 RRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGR---------------------------  360 (509)
Q Consensus       308 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~---------------------------  360 (509)
                      .+..+++|..+|.+.+..  .|+...|.--+..-.-.++.++|.+++++..+.                           
T Consensus       630 en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~fp~f~Kl~lmlGQi~e~~~~ie~aR~a  707 (913)
T KOG0495|consen  630 ENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALRLLEEALKSFPDFHKLWLMLGQIEEQMENIEMAREA  707 (913)
T ss_pred             ccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHhCCchHHHHHHHhHHHHHHHHHHHHHHH
Confidence            777777777777776653  455566655555555566667777666665543                           


Q ss_pred             ------CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC----
Q 047221          361 ------NCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADK----  430 (509)
Q Consensus       361 ------g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----  430 (509)
                            .++-....|-.|.+.--+.|.+-.|..+++...-.+ +-|...|-..|.+=.+.|+.+.|..+..+..+.    
T Consensus       708 Y~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~s  786 (913)
T KOG0495|consen  708 YLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQECPSS  786 (913)
T ss_pred             HHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCcc
Confidence                  012223334444444444455555555555544432 224555566666666666666666555544422    


Q ss_pred             C-------------------------CCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcC
Q 047221          431 Y-------------------------KSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSH  485 (509)
Q Consensus       431 ~-------------------------~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g  485 (509)
                      |                         +.-|.+..-.+...+-...++++|.+.|.+..+.+ .-+..+|.-+..-+.++|
T Consensus       787 g~LWaEaI~le~~~~rkTks~DALkkce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d-~d~GD~wa~fykfel~hG  865 (913)
T KOG0495|consen  787 GLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKD-PDNGDAWAWFYKFELRHG  865 (913)
T ss_pred             chhHHHHHHhccCcccchHHHHHHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccC-CccchHHHHHHHHHHHhC
Confidence            0                         01122233333344444445555555555554421 112234555555555555


Q ss_pred             CHHHHHHHHHHHHhCCC
Q 047221          486 QEHMAKCLSSRYSSLSL  502 (509)
Q Consensus       486 ~~~~a~~~~~~m~~~~~  502 (509)
                      .-+.-.+++++.....+
T Consensus       866 ~eed~kev~~~c~~~EP  882 (913)
T KOG0495|consen  866 TEEDQKEVLKKCETAEP  882 (913)
T ss_pred             CHHHHHHHHHHHhccCC
Confidence            55555555555544433

>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=99.01  E-value=1.4e-06  Score=87.72  Aligned_cols=287  Identities=12%  Similarity=0.021  Sum_probs=172.4

Q ss_pred             HHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc---
Q 047221          203 DNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVL---  279 (509)
Q Consensus       203 ~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~---  279 (509)
                      ..+...|++++|++.+++-  .+.-+|...+.-...-++.+.|+.++|..++..+.+.+ +.+..-|..|..+..-.   
T Consensus        12 ~il~e~g~~~~AL~~L~~~--~~~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN-Pdn~~Yy~~L~~~~g~~~~~   88 (517)
T PF12569_consen   12 SILEEAGDYEEALEHLEKN--EKQILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN-PDNYDYYRGLEEALGLQLQL   88 (517)
T ss_pred             HHHHHCCCHHHHHHHHHhh--hhhCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHhhhccc
Confidence            3456677788887777664  23345666666666656667777788888888877765 23333344555554222   


Q ss_pred             --CCHHHHHHHHHHcC---CCHHHHHHHHHHHHhcCCcc-HHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHH
Q 047221          280 --GLYEMAKYVIKKTE---RKVSYYNILIKEMCRRCDFK-GPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACEL  353 (509)
Q Consensus       280 --g~~~~A~~~~~~m~---~~~~~~~~li~~~~~~g~~~-~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~  353 (509)
                        ...+....+++++.   |...+...+.-.+.....++ .+...+..+...|++   .+|+.|-..|....+.+-..++
T Consensus        89 ~~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~~i~~l  165 (517)
T PF12569_consen   89 SDEDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAAIIESL  165 (517)
T ss_pred             ccccHHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhHHHHHHHH
Confidence              24566666666651   22122111211122111222 334445566666754   3455666666655555555555


Q ss_pred             HHHHHhC----C----------CCCCHH--HHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHHcCC
Q 047221          354 LEEMLGR----N----------CHPDAI--TYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPR-LATHAAFIKGYFIFYR  416 (509)
Q Consensus       354 ~~~m~~~----g----------~~p~~~--~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~  416 (509)
                      +......    |          -.|+..  ++.-+...|-..|++++|++++++.++.  .|+ +..|..-...|-+.|+
T Consensus       166 ~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G~  243 (517)
T PF12569_consen  166 VEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILKHAGD  243 (517)
T ss_pred             HHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCCC
Confidence            5554432    1          123432  3444556677788888888888888776  455 5567777788888888


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHH--------HHHHHHHHhcCCHH
Q 047221          417 YEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVY--------RRVLKHLHTSHQEH  488 (509)
Q Consensus       417 ~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~--------~~ll~~~~~~g~~~  488 (509)
                      +++|.+.++.....+. -|...=+-.+..+.++|+.++|.+++......+..|-...+        .-...+|.+.|++.
T Consensus       244 ~~~Aa~~~~~Ar~LD~-~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~  322 (517)
T PF12569_consen  244 LKEAAEAMDEARELDL-ADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYG  322 (517)
T ss_pred             HHHHHHHHHHHHhCCh-hhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHH
Confidence            8888888887776642 24444455566667888888888888887766543322211        33455778888888


Q ss_pred             HHHHHHHHHH
Q 047221          489 MAKCLSSRYS  498 (509)
Q Consensus       489 ~a~~~~~~m~  498 (509)
                      .|++-|..+.
T Consensus       323 ~ALk~~~~v~  332 (517)
T PF12569_consen  323 LALKRFHAVL  332 (517)
T ss_pred             HHHHHHHHHH
Confidence            8887766654

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 [], [].

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.97  E-value=8e-07  Score=84.34  Aligned_cols=221  Identities=11%  Similarity=0.015  Sum_probs=144.5

Q ss_pred             HHHHHHHHHHHHHcC-CCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHH
Q 047221          247 KKGIWRVVEVLNQVG-GSC--LVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLL  319 (509)
Q Consensus       247 ~~~a~~~~~~m~~~g-~~~--~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~  319 (509)
                      .+.+..-+.++.... ..|  ....|..+...|.+.|+.++|...|++.    +.+...|+.+...|...|++++|.+.|
T Consensus        42 ~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~~~  121 (296)
T PRK11189         42 QEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYEAF  121 (296)
T ss_pred             HHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            555555555555322 122  2345777888888899999998888875    456788999999999999999999999


Q ss_pred             HHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC
Q 047221          320 VEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQP  399 (509)
Q Consensus       320 ~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  399 (509)
                      ++..+.. +-+..+|..+..++...|++++|.+.|+...+.  .|+..........+...++.++|...|.+..... .+
T Consensus       122 ~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~-~~  197 (296)
T PRK11189        122 DSVLELD-PTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRYEKL-DK  197 (296)
T ss_pred             HHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhC-Cc
Confidence            9888653 234667788888888899999999999888875  3433222222223345678899999997655432 33


Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC---CC--CC-CHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHH
Q 047221          400 RLATHAAFIKGYFIFYRYEDAYKYVVLSADK---YK--SS-SNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSV  473 (509)
Q Consensus       400 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~---~~--~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t  473 (509)
                      +...+ .+..  ...|+...+ +.+..+.+.   ..  .| ....|..+...+.+.|++++|+..|++..+.+ .||.+-
T Consensus       198 ~~~~~-~~~~--~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~-~~~~~e  272 (296)
T PRK11189        198 EQWGW-NIVE--FYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN-VYNFVE  272 (296)
T ss_pred             cccHH-HHHH--HHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CchHHH
Confidence            32222 2333  234554443 244444321   11  11 23478889999999999999999999988753 235544


Q ss_pred             HHH
Q 047221          474 YRR  476 (509)
Q Consensus       474 ~~~  476 (509)
                      +..
T Consensus       273 ~~~  275 (296)
T PRK11189        273 HRY  275 (296)
T ss_pred             HHH
Confidence            444

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.96  E-value=7.2e-06  Score=80.40  Aligned_cols=302  Identities=7%  Similarity=-0.056  Sum_probs=173.0

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhhhCC-CccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHH---H
Q 047221          197 ICSLVIDNCGRLDDYETMRQLLNDFNVYQ-VCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRA---L  272 (509)
Q Consensus       197 ~~~~li~~~~~~g~~~~A~~l~~~m~~~~-~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~---l  272 (509)
                      .|..+...+...|+.+.+.+.+....+.. ..++......+-.......|+.++|..+++...+.. +.+...+..   +
T Consensus         8 a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~~~~~   86 (355)
T cd05804           8 GHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLALKLHLGA   86 (355)
T ss_pred             HHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHhHHH
Confidence            55666666666677777666665543322 122333333333333445566888888888877653 333444432   2


Q ss_pred             HHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChH
Q 047221          273 IEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDA  348 (509)
Q Consensus       273 i~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~  348 (509)
                      .......|..+.+.+.++..    +........+...+...|++++|.+.+++..+.. +.+...+..+...|...|+++
T Consensus        87 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~  165 (355)
T cd05804          87 FGLGDFSGMRDHVARVLPLWAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFK  165 (355)
T ss_pred             HHhcccccCchhHHHHHhccCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHH
Confidence            22222345556666666543    1224455566677888888889999888888764 444667777888888889999


Q ss_pred             HHHHHHHHHHhCCC-CCCH--HHHHHHHHHHHHcCChHHHHHHHHHHHHCCC-CCCHHHH-H--HHHHHHHHcCCHHHHH
Q 047221          349 DACELLEEMLGRNC-HPDA--ITYEIFIVYSCRVGKFDVAFNFFNQMVKRGL-QPRLATH-A--AFIKGYFIFYRYEDAY  421 (509)
Q Consensus       349 ~a~~~~~~m~~~g~-~p~~--~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~~~~~-~--~li~~~~~~g~~~~A~  421 (509)
                      +|...+++..+... .++.  ..|..+...+...|+.++|..++++...... .+..... +  .++.-+...|..+.+.
T Consensus       166 eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~  245 (355)
T cd05804         166 EGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGD  245 (355)
T ss_pred             HHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHH
Confidence            99888888776421 2232  3455677788888999999999888754322 1222211 1  2333334444333333


Q ss_pred             HH---HHHHHhCCC-CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCC------cCHHHHHHHHH--HHHhcCCHHH
Q 047221          422 KY---VVLSADKYK-SSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLR------PNVSVYRRVLK--HLHTSHQEHM  489 (509)
Q Consensus       422 ~~---~~~m~~~~~-~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~------p~~~t~~~ll~--~~~~~g~~~~  489 (509)
                      ++   ...-..... ............++...|+.++|.++++.+......      ....+-..++.  ++...|++++
T Consensus       246 ~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~  325 (355)
T cd05804         246 RWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYAT  325 (355)
T ss_pred             HHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHH
Confidence            32   111111100 111122225666777888899999998888663221      01112222333  3457889999


Q ss_pred             HHHHHHHHHhC
Q 047221          490 AKCLSSRYSSL  500 (509)
Q Consensus       490 a~~~~~~m~~~  500 (509)
                      |.+++......
T Consensus       326 A~~~L~~al~~  336 (355)
T cd05804         326 ALELLGPVRDD  336 (355)
T ss_pred             HHHHHHHHHHH
Confidence            98888776644

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.

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

Probab=98.95  E-value=2.9e-05  Score=76.88  Aligned_cols=280  Identities=13%  Similarity=0.033  Sum_probs=179.0

Q ss_pred             HHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHH-HHHHHHHHHHhccCCHHHHHHHHH
Q 047221          177 ALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEK-AFGFLPVLISSKALTKKGIWRVVE  255 (509)
Q Consensus       177 A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~-~~~~ll~~~~~~~~~~~~a~~~~~  255 (509)
                      |..+|.......|.   +...|...+..=-..|..+....+|++....-  |... .|-....-.. ..|++..|..++.
T Consensus       535 arAVya~alqvfp~---k~slWlra~~~ek~hgt~Esl~Allqkav~~~--pkae~lwlM~ake~w-~agdv~~ar~il~  608 (913)
T KOG0495|consen  535 ARAVYAHALQVFPC---KKSLWLRAAMFEKSHGTRESLEALLQKAVEQC--PKAEILWLMYAKEKW-KAGDVPAARVILD  608 (913)
T ss_pred             HHHHHHHHHhhccc---hhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC--CcchhHHHHHHHHHH-hcCCcHHHHHHHH
Confidence            45555555444442   33466666665566677777777777776542  2222 2222222222 3355777777777


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc---CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHc-------
Q 047221          256 VLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT---ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQV-------  325 (509)
Q Consensus       256 ~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-------  325 (509)
                      ...+... -+...|-+.+..-....+++.|..+|.+.   .++...|..-+..-.-.++.++|++++++..+.       
T Consensus       609 ~af~~~p-nseeiwlaavKle~en~e~eraR~llakar~~sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~fp~f~Kl  687 (913)
T KOG0495|consen  609 QAFEANP-NSEEIWLAAVKLEFENDELERARDLLAKARSISGTERVWMKSANLERYLDNVEEALRLLEEALKSFPDFHKL  687 (913)
T ss_pred             HHHHhCC-CcHHHHHHHHHHhhccccHHHHHHHHHHHhccCCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHhCCchHHH
Confidence            6665442 25566666667777777777777777664   344444544444444455555555555544332       


Q ss_pred             -----------------------C---CCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHc
Q 047221          326 -----------------------G---CEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRV  379 (509)
Q Consensus       326 -----------------------g---~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  379 (509)
                                             |   ++-..-.|-.|...=-+.|.+-.|..+++...-.+ +-|...|-..|.+-.+.
T Consensus       688 ~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkN-Pk~~~lwle~Ir~ElR~  766 (913)
T KOG0495|consen  688 WLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKN-PKNALLWLESIRMELRA  766 (913)
T ss_pred             HHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC-CCcchhHHHHHHHHHHc
Confidence                                   1   12223344555555556788888888988877663 44788999999999999


Q ss_pred             CChHHHHHHHHHHHHC----C-------------------------CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 047221          380 GKFDVAFNFFNQMVKR----G-------------------------LQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADK  430 (509)
Q Consensus       380 g~~~~a~~~~~~m~~~----g-------------------------~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  430 (509)
                      |..+.|..+..+..+.    |                         +.-|..+.-++...+....++++|.+.|.+....
T Consensus       767 gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~  846 (913)
T KOG0495|consen  767 GNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKK  846 (913)
T ss_pred             CCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence            9999999998877653    1                         1223333445555566677899999999998876


Q ss_pred             CCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHC
Q 047221          431 YKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKN  465 (509)
Q Consensus       431 ~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  465 (509)
                      + ..+..+|.-+...+.++|.-++-.+++......
T Consensus       847 d-~d~GD~wa~fykfel~hG~eed~kev~~~c~~~  880 (913)
T KOG0495|consen  847 D-PDNGDAWAWFYKFELRHGTEEDQKEVLKKCETA  880 (913)
T ss_pred             C-CccchHHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence            4 334567888999999999999999999988763

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

Probab=98.91  E-value=3.4e-06  Score=82.00  Aligned_cols=282  Identities=10%  Similarity=0.042  Sum_probs=212.1

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 047221          194 NSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALI  273 (509)
Q Consensus       194 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  273 (509)
                      +.+..-.-..-+-..+++.+..++++...+.. ++....+..-|. |+-..++..+-..+=..|.+. .+-...+|-++.
T Consensus       243 ~~dll~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia-~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aVg  319 (611)
T KOG1173|consen  243 NLDLLAEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIA-CLYELGKSNKLFLLSHKLVDL-YPSKALSWFAVG  319 (611)
T ss_pred             cHHHHHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHH-HHHHhcccchHHHHHHHHHHh-CCCCCcchhhHH
Confidence            34466666777888999999999999987653 455666666677 444444355555555555543 355677899999


Q ss_pred             HHHHhcCCHHHHHHHHHHc---CCC-HHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHH
Q 047221          274 EMFSVLGLYEMAKYVIKKT---ERK-VSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDAD  349 (509)
Q Consensus       274 ~~~~~~g~~~~A~~~~~~m---~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~  349 (509)
                      --|.--|+..+|++.|.+.   .+. ...|-.....|+-.|..|+|+..+...-+.= +-...-+--+.--|.+.++.+.
T Consensus       320 ~YYl~i~k~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~-~G~hlP~LYlgmey~~t~n~kL  398 (611)
T KOG1173|consen  320 CYYLMIGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLM-PGCHLPSLYLGMEYMRTNNLKL  398 (611)
T ss_pred             HHHHHhcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhc-cCCcchHHHHHHHHHHhccHHH
Confidence            9999899999999999884   443 6789999999999999999999887665431 1111122233445888999999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHC------CCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 047221          350 ACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKR------GLQPRLATHAAFIKGYFIFYRYEDAYKY  423 (509)
Q Consensus       350 a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------g~~p~~~~~~~li~~~~~~g~~~~A~~~  423 (509)
                      |.+.|.+.... .+-|...++-+--...+.+.+.+|..+|+.....      ...-...+++.|-++|.+.+..++|+..
T Consensus       399 Ae~Ff~~A~ai-~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~  477 (611)
T KOG1173|consen  399 AEKFFKQALAI-APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDY  477 (611)
T ss_pred             HHHHHHHHHhc-CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHH
Confidence            99999887765 3446667777766666789999999999877622      1112456789999999999999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh
Q 047221          424 VVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHT  483 (509)
Q Consensus       424 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~  483 (509)
                      +++..... .-+..++.++.-.|...|+++.|++.|.+..-  +.||..+-..++..+..
T Consensus       478 ~q~aL~l~-~k~~~~~asig~iy~llgnld~Aid~fhKaL~--l~p~n~~~~~lL~~aie  534 (611)
T KOG1173|consen  478 YQKALLLS-PKDASTHASIGYIYHLLGNLDKAIDHFHKALA--LKPDNIFISELLKLAIE  534 (611)
T ss_pred             HHHHHHcC-CCchhHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCccHHHHHHHHHHHH
Confidence            99887653 34778899999999999999999999998774  88999888888876643

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.87  E-value=9.5e-07  Score=83.84  Aligned_cols=218  Identities=11%  Similarity=-0.025  Sum_probs=155.0

Q ss_pred             CCHHHHHHHHHHc----CC----CHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHH
Q 047221          280 GLYEMAKYVIKKT----ER----KVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADAC  351 (509)
Q Consensus       280 g~~~~A~~~~~~m----~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~  351 (509)
                      +..+.+..-+.++    +.    ....|..+...|.+.|+.++|...|++..+.. +.+...|+.+...|...|++++|.
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~  118 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAY  118 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            3455555555443    21    24568888889999999999999999998864 446789999999999999999999


Q ss_pred             HHHHHHHhCCCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 047221          352 ELLEEMLGRNCHP-DAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADK  430 (509)
Q Consensus       352 ~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  430 (509)
                      ..|+...+.  .| +..+|..+..++...|++++|.+.|+...+.  .|+..........+...++.++|...|++....
T Consensus       119 ~~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~  194 (296)
T PRK11189        119 EAFDSVLEL--DPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRYEK  194 (296)
T ss_pred             HHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhh
Confidence            999999875  34 4677888888899999999999999998876  343322222222334567899999999765543


Q ss_pred             CCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHC---CC--Cc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 047221          431 YKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKN---GL--RP-NVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSLGS  504 (509)
Q Consensus       431 ~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---g~--~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~  504 (509)
                      . .++...+   .......|+..++ +.++.+.+.   ..  .| ....|..+...+.+.|++++|+..|++..+.++..
T Consensus       195 ~-~~~~~~~---~~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~~  269 (296)
T PRK11189        195 L-DKEQWGW---NIVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVYN  269 (296)
T ss_pred             C-CccccHH---HHHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCch
Confidence            2 2332222   2233346666554 355555432   11  11 23578888999999999999999999999887655


Q ss_pred             Ccc
Q 047221          505 SVE  507 (509)
Q Consensus       505 ~~~  507 (509)
                      .++
T Consensus       270 ~~e  272 (296)
T PRK11189        270 FVE  272 (296)
T ss_pred             HHH
Confidence            443

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

Probab=98.86  E-value=1.3e-05  Score=76.79  Aligned_cols=194  Identities=11%  Similarity=-0.001  Sum_probs=101.3

Q ss_pred             HHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH
Q 047221          299 YNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCR  378 (509)
Q Consensus       299 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  378 (509)
                      |--+...|.+..+-++....|++....+ +-|..+|..-...+.-.+++++|..=|++.+... +-+...|--+..+..+
T Consensus       363 yI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~-pe~~~~~iQl~~a~Yr  440 (606)
T KOG0547|consen  363 YIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEAIADFQKAISLD-PENAYAYIQLCCALYR  440 (606)
T ss_pred             HHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHH
Confidence            3334444444444444445554444433 2233334333333444445555555555554431 1133445455555556


Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCC-----CCCHHHH--HHHHHHHHhCCC
Q 047221          379 VGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYK-----SSSNMLY--SLLASLHDKNNN  451 (509)
Q Consensus       379 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-----~p~~~~~--~~li~~~~~~g~  451 (509)
                      .+++++++..|++.+++ .+--...|+-....+...+++++|.+.|+...+...     ..+...+  -+++..- -.++
T Consensus       441 ~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~~q-wk~d  518 (606)
T KOG0547|consen  441 QHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALLVLQ-WKED  518 (606)
T ss_pred             HHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHhhhc-hhhh
Confidence            66777777777776655 333456666666777777777777777766554311     1111111  1111111 2266


Q ss_pred             hHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 047221          452 PVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRY  497 (509)
Q Consensus       452 ~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m  497 (509)
                      +..|.+++++..+..-+ -...|.+|...-.+.|+.++|+++|++-
T Consensus       519 ~~~a~~Ll~KA~e~Dpk-ce~A~~tlaq~~lQ~~~i~eAielFEks  563 (606)
T KOG0547|consen  519 INQAENLLRKAIELDPK-CEQAYETLAQFELQRGKIDEAIELFEKS  563 (606)
T ss_pred             HHHHHHHHHHHHccCch-HHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            66677777766653211 2235677777777777788887777764

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

Probab=98.86  E-value=2.8e-05  Score=74.13  Aligned_cols=313  Identities=13%  Similarity=0.053  Sum_probs=183.2

Q ss_pred             hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHH
Q 047221          176 SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVE  255 (509)
Q Consensus       176 ~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~  255 (509)
                      -|.++|+.--...|+..    .|++.|+.=.+.+.++.|..+++...-.  .|+..+|--... .-.+.|....+..+++
T Consensus       159 gaRqiferW~~w~P~eq----aW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyar-FE~k~g~~~~aR~Vye  231 (677)
T KOG1915|consen  159 GARQIFERWMEWEPDEQ----AWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYAR-FEEKHGNVALARSVYE  231 (677)
T ss_pred             HHHHHHHHHHcCCCcHH----HHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHH-HHHhcCcHHHHHHHHH
Confidence            47788876656666666    8888888888888888888888876433  477777766555 4445566777777777


Q ss_pred             HHHHc-CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHH----cCC-----------------------------------
Q 047221          256 VLNQV-GG-SCLVSGVRALIEMFSVLGLYEMAKYVIKK----TER-----------------------------------  294 (509)
Q Consensus       256 ~m~~~-g~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~----m~~-----------------------------------  294 (509)
                      ...+. |- ..+...+.+...-=.++..++.|.-+|+-    ++.                                   
T Consensus       232 rAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qY  311 (677)
T KOG1915|consen  232 RAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQY  311 (677)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHH
Confidence            66542 11 01111222222222334455555555432    222                                   


Q ss_pred             ---------CHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCCh--HHH--------HHHHHHHHhcCChHHHHHHHH
Q 047221          295 ---------KVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPIT--LTY--------NYVLGVLCKNGQDADACELLE  355 (509)
Q Consensus       295 ---------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~t~--------~~li~~~~~~g~~~~a~~~~~  355 (509)
                               |-.+|-..+..--..|+.+...++|++.... ++|-.  ..|        |-.+-.=....+++.+.++++
T Consensus       312 E~~v~~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq  390 (677)
T KOG1915|consen  312 EKEVSKNPYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQ  390 (677)
T ss_pred             HHHHHhCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence                     2334444444444555666666666555543 23311  011        111111123455566666666


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHH----HcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 047221          356 EMLGRNCHPDAITYEIFIVYSC----RVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKY  431 (509)
Q Consensus       356 ~m~~~g~~p~~~~~~~li~~~~----~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  431 (509)
                      ...+. ++-...||.-+=-.|+    ++.++..|.+++...+  |..|-..++..-|..=.+.+.++.+..++++..+-+
T Consensus       391 ~~l~l-IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI--G~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~  467 (677)
T KOG1915|consen  391 ACLDL-IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI--GKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFS  467 (677)
T ss_pred             HHHhh-cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh--ccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            65552 3334445544433333    4566666766666555  556777777777777777778888888887777654


Q ss_pred             CCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCC-CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 047221          432 KSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNG-LRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSL  500 (509)
Q Consensus       432 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~  500 (509)
                       +-+..+|.-....-...|+.+.|..+|+-.+++. +......|.+.|+-=...|.++.|..+++++.+.
T Consensus       468 -Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~r  536 (677)
T KOG1915|consen  468 -PENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDR  536 (677)
T ss_pred             -hHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHh
Confidence             2255667776666677788888888888777642 2223345555555556778888888888887754

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.82  E-value=3.3e-05  Score=75.69  Aligned_cols=259  Identities=10%  Similarity=-0.029  Sum_probs=162.0

Q ss_pred             HHHHhccCCHHHHHHHHHHhhhCCCccC-HHHHHH---HHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 047221          202 IDNCGRLDDYETMRQLLNDFNVYQVCLN-EKAFGF---LPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFS  277 (509)
Q Consensus       202 i~~~~~~g~~~~A~~l~~~m~~~~~~p~-~~~~~~---ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  277 (509)
                      ...+...|++++|.+++++..+..  |+ ...+..   ... .....+....+.+.+.. .....+........+...+.
T Consensus        50 a~~~~~~g~~~~A~~~~~~~l~~~--P~~~~a~~~~~~~~~-~~~~~~~~~~~~~~l~~-~~~~~~~~~~~~~~~a~~~~  125 (355)
T cd05804          50 ALSAWIAGDLPKALALLEQLLDDY--PRDLLALKLHLGAFG-LGDFSGMRDHVARVLPL-WAPENPDYWYLLGMLAFGLE  125 (355)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHhHHHHH-hcccccCchhHHHHHhc-cCcCCCCcHHHHHHHHHHHH
Confidence            445677899999999999987653  43 333332   111 11123445555555554 21222333445567778899


Q ss_pred             hcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCC-CCCh--HHHHHHHHHHHhcCChHHH
Q 047221          278 VLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGC-EPIT--LTYNYVLGVLCKNGQDADA  350 (509)
Q Consensus       278 ~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~--~t~~~li~~~~~~g~~~~a  350 (509)
                      ..|++++|...+++.    +.+...+..+...|...|++++|...+++.....- .++.  ..|..+...+...|++++|
T Consensus       126 ~~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A  205 (355)
T cd05804         126 EAGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAA  205 (355)
T ss_pred             HcCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHH
Confidence            999999999999885    55677888999999999999999999998876531 2332  3455788889999999999


Q ss_pred             HHHHHHHHhCCC-CCCHHHH-H--HHHHHHHHcCChHHHHHH--HHHHHHCCC--CCCHHHHHHHHHHHHHcCCHHHHHH
Q 047221          351 CELLEEMLGRNC-HPDAITY-E--IFIVYSCRVGKFDVAFNF--FNQMVKRGL--QPRLATHAAFIKGYFIFYRYEDAYK  422 (509)
Q Consensus       351 ~~~~~~m~~~g~-~p~~~~~-~--~li~~~~~~g~~~~a~~~--~~~m~~~g~--~p~~~~~~~li~~~~~~g~~~~A~~  422 (509)
                      .+++++...... .+..... +  .++.-+...|....+.++  .........  ............++...|+.+.|..
T Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~  285 (355)
T cd05804         206 LAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDK  285 (355)
T ss_pred             HHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHH
Confidence            999999865432 1222211 2  233333444544433333  211111111  1112222356667788899999999


Q ss_pred             HHHHHHhCCCC------C--CHHHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 047221          423 YVVLSADKYKS------S--SNMLYSLLASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       423 ~~~~m~~~~~~------p--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      +++.+......      .  .....-...-++...|+.++|.+.+.+...
T Consensus       286 ~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~  335 (355)
T cd05804         286 LLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRD  335 (355)
T ss_pred             HHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            99988763322      0  122222333345588999999999988765

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.

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=98.81  E-value=2.2e-05  Score=79.24  Aligned_cols=285  Identities=13%  Similarity=0.019  Sum_probs=180.1

Q ss_pred             HhcCCc--hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHh-----
Q 047221          170 LNSEKV--SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISS-----  242 (509)
Q Consensus       170 ~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~-----  242 (509)
                      +...|+  .|++.++.-.+.-+|..   .........+.+.|+.++|..++..+..++  |+...|-..+..+..     
T Consensus        14 l~e~g~~~~AL~~L~~~~~~I~Dk~---~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~g~~~~~   88 (517)
T PF12569_consen   14 LEEAGDYEEALEHLEKNEKQILDKL---AVLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEALGLQLQL   88 (517)
T ss_pred             HHHCCCHHHHHHHHHhhhhhCCCHH---HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHhhhccc
Confidence            344554  78888877633333322   245777888999999999999999998776  677777666664541     


Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHH-HHHHHc-CCC-HHHHHHHHHHHHhcCCccHHHHHH
Q 047221          243 KALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAK-YVIKKT-ERK-VSYYNILIKEMCRRCDFKGPRDLL  319 (509)
Q Consensus       243 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~-~~~~~m-~~~-~~~~~~li~~~~~~g~~~~A~~~~  319 (509)
                      .....+....+++.+.+.-  |.......+.-.+.....+.... ..+..+ ... +.+|+.|-..|......+-..+++
T Consensus        89 ~~~~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPslF~~lk~Ly~d~~K~~~i~~l~  166 (517)
T PF12569_consen   89 SDEDVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPSLFSNLKPLYKDPEKAAIIESLV  166 (517)
T ss_pred             ccccHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHcChhHHHHHHHHH
Confidence            1124677778888876643  22222222221122111222211 111221 222 245556666666555544455555


Q ss_pred             HHHHHc----C----------CCCChH--HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHHcCCh
Q 047221          320 VEMRQV----G----------CEPITL--TYNYVLGVLCKNGQDADACELLEEMLGRNCHPD-AITYEIFIVYSCRVGKF  382 (509)
Q Consensus       320 ~~m~~~----g----------~~p~~~--t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~  382 (509)
                      ......    |          -.|...  ++.-+...|-..|++++|++.+++..+.  .|+ +..|..-...+-+.|++
T Consensus       167 ~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G~~  244 (517)
T PF12569_consen  167 EEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILKHAGDL  244 (517)
T ss_pred             HHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCCCH
Confidence            554422    1          123332  4455667788899999999999988876  566 55777788888899999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHH------HH--HHHHHHHHhCCChHH
Q 047221          383 DVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNM------LY--SLLASLHDKNNNPVM  454 (509)
Q Consensus       383 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~------~~--~~li~~~~~~g~~~~  454 (509)
                      .+|.+.++........ |-..-+-.+..+.++|++++|.+++......+..|-..      .|  .-...+|.+.|++..
T Consensus       245 ~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~  323 (517)
T PF12569_consen  245 KEAAEAMDEARELDLA-DRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGL  323 (517)
T ss_pred             HHHHHHHHHHHhCChh-hHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHH
Confidence            9999999888876422 66677778888889999999999988887766533221      22  344567888899888


Q ss_pred             HHHHHHHHHH
Q 047221          455 AKNVLSEMMK  464 (509)
Q Consensus       455 a~~~~~~m~~  464 (509)
                      |++.|....+
T Consensus       324 ALk~~~~v~k  333 (517)
T PF12569_consen  324 ALKRFHAVLK  333 (517)
T ss_pred             HHHHHHHHHH
Confidence            8877766543

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 [], [].

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

Probab=98.81  E-value=7.7e-07  Score=80.60  Aligned_cols=228  Identities=9%  Similarity=-0.046  Sum_probs=164.6

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHH
Q 047221          232 AFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMC  307 (509)
Q Consensus       232 ~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~  307 (509)
                      -|..-|.-|+-+-|...+|+..++.-.+..  |-+.||--|-..|.+-.+.+.|..+|.+-    +-|+....-+...+-
T Consensus       224 wWk~Q~gkCylrLgm~r~AekqlqssL~q~--~~~dTfllLskvY~ridQP~~AL~~~~~gld~fP~~VT~l~g~ARi~e  301 (478)
T KOG1129|consen  224 WWKQQMGKCYLRLGMPRRAEKQLQSSLTQF--PHPDTFLLLSKVYQRIDQPERALLVIGEGLDSFPFDVTYLLGQARIHE  301 (478)
T ss_pred             HHHHHHHHHHHHhcChhhhHHHHHHHhhcC--CchhHHHHHHHHHHHhccHHHHHHHHhhhhhcCCchhhhhhhhHHHHH
Confidence            344444446556666788888777766643  44556667778888888888888887764    334433344666777


Q ss_pred             hcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHH
Q 047221          308 RRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFN  387 (509)
Q Consensus       308 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~  387 (509)
                      ..++.++|.++|++..+.. ..++.....+...|.-.++.+-|++.++++.+-|+. +...|+.+--+|.-.+++|-++.
T Consensus       302 am~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~  379 (478)
T KOG1129|consen  302 AMEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLP  379 (478)
T ss_pred             HHHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHH
Confidence            7788888888888877654 456666777777888888888888888888888865 66777777777778888888888


Q ss_pred             HHHHHHHCCCCCCH--HHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 047221          388 FFNQMVKRGLQPRL--ATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       388 ~~~~m~~~g~~p~~--~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      -|+.....--.|+.  .+|-.|-......|++..|.+.|+-....+ .-+...+|.|.-.-.+.|+.++|..+++...+
T Consensus       380 sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~Arsll~~A~s  457 (478)
T KOG1129|consen  380 SFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILGARSLLNAAKS  457 (478)
T ss_pred             HHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHHHHHHHHHhhh
Confidence            88877765444443  456667777777888888888887766553 22456788888778888888888888887765

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

Probab=98.79  E-value=2.7e-05  Score=72.99  Aligned_cols=304  Identities=10%  Similarity=-0.058  Sum_probs=198.3

Q ss_pred             HHhCCCCCCHHHHHHHHHHHhcCC--c--hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCC
Q 047221          151 LLSMSVSLSNASVIEILRVLNSEK--V--SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQV  226 (509)
Q Consensus       151 l~~~~~~~~~~~~~~ll~~~~~~~--~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~  226 (509)
                      |......+...+....+.++++..  +  .|.+.+-.+ .....+..|++....+.+.+...|+.++|+..|++....  
T Consensus       185 m~~~~~~~~~dwls~wika~Aq~~~~~hs~a~~t~l~l-e~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~--  261 (564)
T KOG1174|consen  185 MHAATVPDHFDWLSKWIKALAQMFNFKHSDASQTFLML-HDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCA--  261 (564)
T ss_pred             hhheecCCCccHHHHHHHHHHHHHhcccchhhhHHHHH-HhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC--
Confidence            333345555555555666655433  2  344444444 111222346678999999999999999999999987443  


Q ss_pred             ccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHH
Q 047221          227 CLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNIL  302 (509)
Q Consensus       227 ~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~l  302 (509)
                      .|+..+---+-...+...|+.+....+...+.... .-+...|-.-........+++.|..+-++-    ++++..|-.-
T Consensus       262 dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r~~~alilK  340 (564)
T KOG1174|consen  262 NPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPRNHEALILK  340 (564)
T ss_pred             ChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcccchHHHhc
Confidence            34433222222223335555888888777776532 122333434444445566788888777663    4556666666


Q ss_pred             HHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHH-HHHHH-cC
Q 047221          303 IKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFI-VYSCR-VG  380 (509)
Q Consensus       303 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li-~~~~~-~g  380 (509)
                      ...+...++.++|.-.|+...... +-+...|..|+..|...|++.+|.-+-++..+. .+.+..+.+.+- ..|.- ..
T Consensus       341 G~lL~~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~  418 (564)
T KOG1174|consen  341 GRLLIALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPR  418 (564)
T ss_pred             cHHHHhccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCch
Confidence            677888899999999998877553 457889999999999999999887766654443 223444444331 22221 12


Q ss_pred             ChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHH
Q 047221          381 KFDVAFNFFNQMVKRGLQPR-LATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVL  459 (509)
Q Consensus       381 ~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~  459 (509)
                      --++|..+++.-.+.  .|+ ....+.+...+...|..+++..+++.-...  .||....+.|...+.....+.+|++.|
T Consensus       419 ~rEKAKkf~ek~L~~--~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~--~~D~~LH~~Lgd~~~A~Ne~Q~am~~y  494 (564)
T KOG1174|consen  419 MREKAKKFAEKSLKI--NPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLII--FPDVNLHNHLGDIMRAQNEPQKAMEYY  494 (564)
T ss_pred             hHHHHHHHHHhhhcc--CCccHHHHHHHHHHHHhhCccchHHHHHHHHHhh--ccccHHHHHHHHHHHHhhhHHHHHHHH
Confidence            246777777766543  454 456677788888889999999998876654  578888888888888888888998888


Q ss_pred             HHHHH
Q 047221          460 SEMMK  464 (509)
Q Consensus       460 ~~m~~  464 (509)
                      .....
T Consensus       495 ~~ALr  499 (564)
T KOG1174|consen  495 YKALR  499 (564)
T ss_pred             HHHHh
Confidence            87766

>PF12854 PPR_1: PPR repeat

Probab=98.78  E-value=1e-08  Score=61.71  Aligned_cols=29  Identities=24%  Similarity=0.407  Sum_probs=11.1

Q ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 047221          398 QPRLATHAAFIKGYFIFYRYEDAYKYVVL  426 (509)
Q Consensus       398 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~  426 (509)
                      .||..|||+||++||+.|++++|.++|++
T Consensus         4 ~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~   32 (34)
T PF12854_consen    4 EPDVVTYNTLIDGYCKAGRVDEAFELFDE   32 (34)
T ss_pred             CCcHhHHHHHHHHHHHCCCHHHHHHHHHh
Confidence            33333333333333333333333333333

>PF12854 PPR_1: PPR repeat

Probab=98.77  E-value=9.7e-09  Score=61.79  Aligned_cols=32  Identities=41%  Similarity=0.933  Sum_probs=17.7

Q ss_pred             CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHH
Q 047221          361 NCHPDAITYEIFIVYSCRVGKFDVAFNFFNQM  392 (509)
Q Consensus       361 g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  392 (509)
                      |+.||..|||+||++||+.|++++|.++|++|
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            45555555555555555555555555555554

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=98.76  E-value=2.4e-07  Score=86.84  Aligned_cols=245  Identities=14%  Similarity=0.071  Sum_probs=124.9

Q ss_pred             HHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH
Q 047221          203 DNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLY  282 (509)
Q Consensus       203 ~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  282 (509)
                      +-+.-.|++..++.-.+ .....-..+......+..++...+. .+.   ++.++.+.. .|.......+...+...++-
T Consensus         9 rn~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~-~~~---vl~ei~~~~-~~~l~av~~la~y~~~~~~~   82 (290)
T PF04733_consen    9 RNQFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQ-YDS---VLSEIKKSS-SPELQAVRLLAEYLSSPSDK   82 (290)
T ss_dssp             HHHHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT--HHH---HHHHS-TTS-SCCCHHHHHHHHHHCTSTTH
T ss_pred             HHHHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCC-hhH---HHHHhccCC-ChhHHHHHHHHHHHhCccch
Confidence            44455677777775554 2222211122233333333333332 332   333333323 55555554444434333445


Q ss_pred             HHHHHHHHHc--CC---CHHHHHH-HHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHH
Q 047221          283 EMAKYVIKKT--ER---KVSYYNI-LIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEE  356 (509)
Q Consensus       283 ~~A~~~~~~m--~~---~~~~~~~-li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~  356 (509)
                      +.+..-+++.  ..   +-.++.. ....+...|++++|++++..-      .+.......+..|.+.++++.|.+.++.
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            5555555443  11   1112222 223445567777777766532      3455556666777777777777777777


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHH----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCC
Q 047221          357 MLGRNCHPDAITYEIFIVYSCR----VGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYK  432 (509)
Q Consensus       357 m~~~g~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~  432 (509)
                      |.+..  .|. +...+..++..    .+.+.+|..+|+++.+. ..++..+.|.+..++...|++++|.+++.+..+.+.
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--EDS-ILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDP  232 (290)
T ss_dssp             HHCCS--CCH-HHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-C
T ss_pred             HHhcC--CcH-HHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhcc
Confidence            76642  232 22233333322    23577777777776544 456677777777777777777777777777655432


Q ss_pred             CCCHHHHHHHHHHHHhCCCh-HHHHHHHHHHHH
Q 047221          433 SSSNMLYSLLASLHDKNNNP-VMAKNVLSEMMK  464 (509)
Q Consensus       433 ~p~~~~~~~li~~~~~~g~~-~~a~~~~~~m~~  464 (509)
                       -+..+...+|......|+. +.+.+++.++..
T Consensus       233 -~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~  264 (290)
T PF04733_consen  233 -NDPDTLANLIVCSLHLGKPTEAAERYLSQLKQ  264 (290)
T ss_dssp             -CHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHH
T ss_pred             -CCHHHHHHHHHHHHHhCCChhHHHHHHHHHHH
Confidence             2344555566666666666 556666666655

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.

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

Probab=98.75  E-value=2.1e-05  Score=76.64  Aligned_cols=264  Identities=12%  Similarity=0.011  Sum_probs=197.9

Q ss_pred             HHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH----HHHHHHHHHcCCCHHHHHHHHHH
Q 047221          230 EKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLY----EMAKYVIKKTERKVSYYNILIKE  305 (509)
Q Consensus       230 ~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~----~~A~~~~~~m~~~~~~~~~li~~  305 (509)
                      ..........++ .++++.++..+.+.+.+.. ++....+..-|.++.+.|+-    ..+.++.+.-|...++|-++.--
T Consensus       244 ~dll~~~ad~~y-~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~yP~~a~sW~aVg~Y  321 (611)
T KOG1173|consen  244 LDLLAEKADRLY-YGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLYPSKALSWFAVGCY  321 (611)
T ss_pred             HHHHHHHHHHHH-HcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHhCCCCCcchhhHHHH
Confidence            333333344333 4455999999999888753 44555566666688877764    44556666668889999999999


Q ss_pred             HHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhC--CC-CCCHHHHHHHHHHHHHcCCh
Q 047221          306 MCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGR--NC-HPDAITYEIFIVYSCRVGKF  382 (509)
Q Consensus       306 ~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~--g~-~p~~~~~~~li~~~~~~g~~  382 (509)
                      |.-.|+..+|.+.|.+..... .-=...|-.....|+-.|..|+|..-+...-+.  |. .|  ..|  +---|.+.+..
T Consensus       322 Yl~i~k~seARry~SKat~lD-~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP--~LY--lgmey~~t~n~  396 (611)
T KOG1173|consen  322 YLMIGKYSEARRYFSKATTLD-PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLP--SLY--LGMEYMRTNNL  396 (611)
T ss_pred             HHHhcCcHHHHHHHHHHhhcC-ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcch--HHH--HHHHHHHhccH
Confidence            999999999999999877543 222467888888999999999998888766553  22 22  223  22346778999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC------CCCCCHHHHHHHHHHHHhCCChHHHH
Q 047221          383 DVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADK------YKSSSNMLYSLLASLHDKNNNPVMAK  456 (509)
Q Consensus       383 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------~~~p~~~~~~~li~~~~~~g~~~~a~  456 (509)
                      +.|.+.|.+.... .+-|....+-+--.....+.+.+|..+|+.....      ...-+..+++.|..+|.+.+++++|+
T Consensus       397 kLAe~Ff~~A~ai-~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI  475 (611)
T KOG1173|consen  397 KLAEKFFKQALAI-APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAI  475 (611)
T ss_pred             HHHHHHHHHHHhc-CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHH
Confidence            9999999988754 2446777887777777889999999999877621      11237778999999999999999999


Q ss_pred             HHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 047221          457 NVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSL  502 (509)
Q Consensus       457 ~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~  502 (509)
                      ..+++.+.. .+-|..++.++.-.|...|.++.|.+.|.+-.-..+
T Consensus       476 ~~~q~aL~l-~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p  520 (611)
T KOG1173|consen  476 DYYQKALLL-SPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKP  520 (611)
T ss_pred             HHHHHHHHc-CCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCC
Confidence            999999875 345778899998899999999999999987654433

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

Probab=98.70  E-value=2.4e-05  Score=67.96  Aligned_cols=193  Identities=12%  Similarity=0.062  Sum_probs=114.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhc
Q 047221          269 VRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKN  344 (509)
Q Consensus       269 ~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~  344 (509)
                      ...|.-.|...|+...|..-+++.    +.+..+|..+...|-+.|..+.|.+.|++..... +-+..+.|..-.-+|..
T Consensus        38 rlqLal~YL~~gd~~~A~~nlekAL~~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC~q  116 (250)
T COG3063          38 RLQLALGYLQQGDYAQAKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLCAQ  116 (250)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHHhC
Confidence            445566666777777776666664    3345666666667777777777777776666543 33445556666666666


Q ss_pred             CChHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 047221          345 GQDADACELLEEMLGRNCHP-DAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKY  423 (509)
Q Consensus       345 g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  423 (509)
                      |++++|...|++....-.-+ -..+|..+.-+..+.|+.+.|.+.|++..+.. +-...+.-.+.....+.|++-.|..+
T Consensus       117 g~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d-p~~~~~~l~~a~~~~~~~~y~~Ar~~  195 (250)
T COG3063         117 GRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD-PQFPPALLELARLHYKAGDYAPARLY  195 (250)
T ss_pred             CChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC-cCCChHHHHHHHHHHhcccchHHHHH
Confidence            67777777776666541111 12355555555566677777777776666552 11234455566666666666666666


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 047221          424 VVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       424 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      ++.....+. ++....-..|..--..|+.+.+-++=..+..
T Consensus       196 ~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r  235 (250)
T COG3063         196 LERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQR  235 (250)
T ss_pred             HHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            666655554 5555555555555566666666555444443

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

Probab=98.68  E-value=3.4e-05  Score=67.03  Aligned_cols=200  Identities=13%  Similarity=0.038  Sum_probs=142.2

Q ss_pred             HHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 047221          298 YYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSC  377 (509)
Q Consensus       298 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  377 (509)
                      +..-|.-+|.+.|+...|.+-+++..+.. +-+..+|..+...|.+.|+.+.|.+-|+...+.. +-+..+.|..-.-+|
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC  114 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHH
Confidence            34456677888888888888888887764 4456677788888888888888888888777652 224556666677777


Q ss_pred             HcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHH
Q 047221          378 RVGKFDVAFNFFNQMVKRGLQP-RLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAK  456 (509)
Q Consensus       378 ~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~  456 (509)
                      ..|++++|...|++....-.-+ -..+|..+.-+..+.|+.+.|.+.|++-.+....-+ .+.-.+.....+.|++..|.
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 AQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFP-PALLELARLHYKAGDYAPAR  193 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCC-hHHHHHHHHHHhcccchHHH
Confidence            8888888888888877652222 245677777777788888888888887776543222 23445667777888888888


Q ss_pred             HHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 047221          457 NVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLS  501 (509)
Q Consensus       457 ~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~  501 (509)
                      .+++.....+. ++.......|+.-...|+.+.+.+.=..+.+.-
T Consensus       194 ~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~f  237 (250)
T COG3063         194 LYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQRLF  237 (250)
T ss_pred             HHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            88887776644 777777777777777888887777766666543

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

Probab=98.67  E-value=9.7e-05  Score=69.43  Aligned_cols=266  Identities=11%  Similarity=-0.037  Sum_probs=170.9

Q ss_pred             CHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHH
Q 047221          229 NEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLV-SGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILI  303 (509)
Q Consensus       229 ~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li  303 (509)
                      +......+-. +....|+.++++..|+.....+  |+. .........+.+.|+.+....+...+    ......|-.-.
T Consensus       231 NvhLl~~lak-~~~~~Gdn~~a~~~Fe~~~~~d--py~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~~~ta~~wfV~~  307 (564)
T KOG1174|consen  231 NEHLMMALGK-CLYYNGDYFQAEDIFSSTLCAN--PDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKVKYTASHWFVHA  307 (564)
T ss_pred             cHHHHHHHhh-hhhhhcCchHHHHHHHHHhhCC--hhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhhhcchhhhhhhh
Confidence            4444455555 4344445777777777766432  222 12222333345566666665555443    23444455555


Q ss_pred             HHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChH
Q 047221          304 KEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFD  383 (509)
Q Consensus       304 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  383 (509)
                      .......+++.|+.+-++..+.. +.+...|-.-..++...|+.++|.--|+..+.. -+-+...|.-|+.+|...|++.
T Consensus       308 ~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~L-ap~rL~~Y~GL~hsYLA~~~~k  385 (564)
T KOG1174|consen  308 QLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQML-APYRLEIYRGLFHSYLAQKRFK  385 (564)
T ss_pred             hhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHHhc-chhhHHHHHHHHHHHHhhchHH
Confidence            55556677777777777766543 334444444445667778888888888776654 2346778888888888888888


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHH-HHHH-HcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhCCChHHHHHHHH
Q 047221          384 VAFNFFNQMVKRGLQPRLATHAAFI-KGYF-IFYRYEDAYKYVVLSADKYKSSS-NMLYSLLASLHDKNNNPVMAKNVLS  460 (509)
Q Consensus       384 ~a~~~~~~m~~~g~~p~~~~~~~li-~~~~-~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~  460 (509)
                      +|..+-++..+. +.-+..+.+.+- ..+. ....-|+|.++++.-...  .|+ ....+.+...|...|+.++++.+++
T Consensus       386 EA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~--~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe  462 (564)
T KOG1174|consen  386 EANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKI--NPIYTPAVNLIAELCQVEGPTKDIIKLLE  462 (564)
T ss_pred             HHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhcc--CCccHHHHHHHHHHHHhhCccchHHHHHH
Confidence            887776655443 233444444331 2221 222346777777654433  343 3356778888899999999999999


Q ss_pred             HHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 047221          461 EMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSLGS  504 (509)
Q Consensus       461 ~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~  504 (509)
                      +...  ..||....+.|.+.+...+.+.+|++.|....+.+++.
T Consensus       463 ~~L~--~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~~  504 (564)
T KOG1174|consen  463 KHLI--IFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPKS  504 (564)
T ss_pred             HHHh--hccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCccc
Confidence            9876  67999999999999999999999999998887776654

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=98.66  E-value=1.9e-06  Score=80.76  Aligned_cols=223  Identities=13%  Similarity=0.081  Sum_probs=143.5

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCC-CCHHHHHHHHHH
Q 047221          197 ICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGS-CLVSGVRALIEM  275 (509)
Q Consensus       197 ~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~-~~~~~~~~li~~  275 (509)
                      ....+.+++...|+++.++   .+..... .|.......+.. ++......+.+..-+++....... .+....-....+
T Consensus        37 ~~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~-y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i  111 (290)
T PF04733_consen   37 RDFYQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAE-YLSSPSDKESALEELKELLADQAGESNEIVQLLAATI  111 (290)
T ss_dssp             HHHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHH-HHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHH-HHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHH
Confidence            4556667777777766543   3443333 566666555554 444434455555544443333323 233333344456


Q ss_pred             HHhcCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHh----cCChHHHH
Q 047221          276 FSVLGLYEMAKYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCK----NGQDADAC  351 (509)
Q Consensus       276 ~~~~g~~~~A~~~~~~m~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~----~g~~~~a~  351 (509)
                      |...|++++|.+++.+. .+.......+..|.+.++++.|.+.++.|.+.  ..| .+...+..++..    .+.+++|.
T Consensus       112 ~~~~~~~~~AL~~l~~~-~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--~eD-~~l~qLa~awv~l~~g~e~~~~A~  187 (290)
T PF04733_consen  112 LFHEGDYEEALKLLHKG-GSLELLALAVQILLKMNRPDLAEKELKNMQQI--DED-SILTQLAEAWVNLATGGEKYQDAF  187 (290)
T ss_dssp             HCCCCHHHHHHCCCTTT-TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--SCC-HHHHHHHHHHHHHHHTTTCCCHHH
T ss_pred             HHHcCCHHHHHHHHHcc-CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCc-HHHHHHHHHHHHHHhCchhHHHHH
Confidence            77788999888888766 56777778888899999999999999998864  233 344444444433    34688999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCH-HHHHHHHHHHHhC
Q 047221          352 ELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRY-EDAYKYVVLSADK  430 (509)
Q Consensus       352 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~-~~A~~~~~~m~~~  430 (509)
                      .+|+++.+. ..++..+.|.+..++...|++++|.+++.+....+ +-+..+...+|.+....|+. +.+.+.+.++...
T Consensus       188 y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  188 YIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             HHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             HHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence            999998665 56788888888888899999999999988876543 22556666778777777877 6777888887764

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.66  E-value=1.2e-05  Score=72.25  Aligned_cols=291  Identities=14%  Similarity=0.072  Sum_probs=186.8

Q ss_pred             HHHHHHHHHhcCCc--hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHH
Q 047221          162 SVIEILRVLNSEKV--SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVL  239 (509)
Q Consensus       162 ~~~~ll~~~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~  239 (509)
                      -+.+++..+.+..+  +|+++...-....|   ++....+.|..+|-+..++..|-+.++++..  ..|...-|...-.-
T Consensus        12 eftaviy~lI~d~ry~DaI~~l~s~~Er~p---~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~q--l~P~~~qYrlY~AQ   86 (459)
T KOG4340|consen   12 EFTAVVYRLIRDARYADAIQLLGSELERSP---RSRAGLSLLGYCYYRLQEFALAAECYEQLGQ--LHPELEQYRLYQAQ   86 (459)
T ss_pred             chHHHHHHHHHHhhHHHHHHHHHHHHhcCc---cchHHHHHHHHHHHHHHHHHHHHHHHHHHHh--hChHHHHHHHHHHH
Confidence            45566666665554  67777666644445   2333778888888888999999999998854  35666666655544


Q ss_pred             HHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH--HHhcCCHHHHHHHHHHcC--CCHHHHHHHHHHHHhcCCccHH
Q 047221          240 ISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEM--FSVLGLYEMAKYVIKKTE--RKVSYYNILIKEMCRRCDFKGP  315 (509)
Q Consensus       240 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~--~~~~g~~~~A~~~~~~m~--~~~~~~~~li~~~~~~g~~~~A  315 (509)
                      .+-+.+.+.+|.++...|...   ++...-..-+.+  ....+++..+..+.++.+  .+..+.+.......+.|++++|
T Consensus        87 SLY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaA  163 (459)
T KOG4340|consen   87 SLYKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAA  163 (459)
T ss_pred             HHHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHHH
Confidence            455677788899888887642   222111112222  224578888888888885  4556666666667788999999


Q ss_pred             HHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCC-------------CCH--------HHHHHHHH
Q 047221          316 RDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCH-------------PDA--------ITYEIFIV  374 (509)
Q Consensus       316 ~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-------------p~~--------~~~~~li~  374 (509)
                      .+-|+...+-|---....|+..+. ..+.|+.+.|++...++.++|++             ||+        -.-+.++.
T Consensus       164 vqkFqaAlqvsGyqpllAYniALa-Hy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~e  242 (459)
T KOG4340|consen  164 VQKFQAALQVSGYQPLLAYNLALA-HYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVE  242 (459)
T ss_pred             HHHHHHHHhhcCCCchhHHHHHHH-HHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHH
Confidence            999988776543444567776664 45678889999999998887652             221        12223333


Q ss_pred             -------HHHHcCChHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 047221          375 -------YSCRVGKFDVAFNFFNQMVKR-GLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLH  446 (509)
Q Consensus       375 -------~~~~~g~~~~a~~~~~~m~~~-g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~  446 (509)
                             .+.+.|+.+.|.+.+-.|.-+ ....|.+|...+.-+=. .+++.+..+-+.-+.+... -...||..++-.|
T Consensus       243 AfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n~-~~~p~~g~~KLqFLL~~nP-fP~ETFANlLlly  320 (459)
T KOG4340|consen  243 AFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMNM-DARPTEGFEKLQFLLQQNP-FPPETFANLLLLY  320 (459)
T ss_pred             HhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhcc-cCCccccHHHHHHHHhcCC-CChHHHHHHHHHH
Confidence                   345678888888888877533 33456666554433322 2334444444444444433 3456788888889


Q ss_pred             HhCCChHHHHHHHHHHH
Q 047221          447 DKNNNPVMAKNVLSEMM  463 (509)
Q Consensus       447 ~~~g~~~~a~~~~~~m~  463 (509)
                      |++.-++-|-.++.+-.
T Consensus       321 CKNeyf~lAADvLAEn~  337 (459)
T KOG4340|consen  321 CKNEYFDLAADVLAENA  337 (459)
T ss_pred             hhhHHHhHHHHHHhhCc
Confidence            99988888888876543

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

Probab=98.61  E-value=0.00025  Score=70.35  Aligned_cols=296  Identities=12%  Similarity=0.068  Sum_probs=178.7

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhhh-CCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 047221          197 ICSLVIDNCGRLDDYETMRQLLNDFNV-YQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEM  275 (509)
Q Consensus       197 ~~~~li~~~~~~g~~~~A~~l~~~m~~-~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  275 (509)
                      .|-.-+..+.+.|++..-+..|+..+. ..+.-....|...+. +....+..+-+.+++++-.+..    ...-+.-|..
T Consensus       104 Iwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~-Fv~~~~lPets~rvyrRYLk~~----P~~~eeyie~  178 (835)
T KOG2047|consen  104 IWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLK-FVESHGLPETSIRVYRRYLKVA----PEAREEYIEY  178 (835)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHH-HHHhCCChHHHHHHHHHHHhcC----HHHHHHHHHH
Confidence            555555555666666666666665432 233334455555555 4444444556666666655422    2224455555


Q ss_pred             HHhcCCHHHHHHHHHHcC-----------------------------------------------CC--HHHHHHHHHHH
Q 047221          276 FSVLGLYEMAKYVIKKTE-----------------------------------------------RK--VSYYNILIKEM  306 (509)
Q Consensus       276 ~~~~g~~~~A~~~~~~m~-----------------------------------------------~~--~~~~~~li~~~  306 (509)
                      +++.+++++|.+.+..+-                                               +|  ...|++|...|
T Consensus       179 L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdYY  258 (835)
T KOG2047|consen  179 LAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADYY  258 (835)
T ss_pred             HHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHHH
Confidence            666666666655554430                                               12  34589999999


Q ss_pred             HhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhc----------------CC------hHHHHHHHHHHHhCC---
Q 047221          307 CRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKN----------------GQ------DADACELLEEMLGRN---  361 (509)
Q Consensus       307 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~----------------g~------~~~a~~~~~~m~~~g---  361 (509)
                      .+.|.+++|.++|++..+.  ..+..-|+.+.++|+.-                |+      ++-...-|+.+...+   
T Consensus       259 Ir~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~  336 (835)
T KOG2047|consen  259 IRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLL  336 (835)
T ss_pred             HHhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchH
Confidence            9999999999999887765  33444455555555431                11      222233333333321   


Q ss_pred             --------CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC------HHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 047221          362 --------CHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPR------LATHAAFIKGYFIFYRYEDAYKYVVLS  427 (509)
Q Consensus       362 --------~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~------~~~~~~li~~~~~~g~~~~A~~~~~~m  427 (509)
                              -+-++..|..-+..  ..|+..+-..+|.+.++. +.|-      ...|..+.+.|...|+++.|..+|++.
T Consensus       337 lNsVlLRQn~~nV~eW~kRV~l--~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka  413 (835)
T KOG2047|consen  337 LNSVLLRQNPHNVEEWHKRVKL--YEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKA  413 (835)
T ss_pred             HHHHHHhcCCccHHHHHhhhhh--hcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHh
Confidence                    11234444443333  346677778888887765 3332      245888999999999999999999887


Q ss_pred             HhCCCCCC---HHHHHHHHHHHHhCCChHHHHHHHHHHHHC----------CCCc-------CHHHHHHHHHHHHhcCCH
Q 047221          428 ADKYKSSS---NMLYSLLASLHDKNNNPVMAKNVLSEMMKN----------GLRP-------NVSVYRRVLKHLHTSHQE  487 (509)
Q Consensus       428 ~~~~~~p~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----------g~~p-------~~~t~~~ll~~~~~~g~~  487 (509)
                      .+-..+--   ..+|-.-...=.++.+++.|++++++....          |-.|       +...|...++.--..|-+
T Consensus       414 ~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtf  493 (835)
T KOG2047|consen  414 TKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTF  493 (835)
T ss_pred             hcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccH
Confidence            66533322   345555556666788899999988876531          1111       334566666666677889


Q ss_pred             HHHHHHHHHHHhCCC
Q 047221          488 HMAKCLSSRYSSLSL  502 (509)
Q Consensus       488 ~~a~~~~~~m~~~~~  502 (509)
                      +....+++++.+..+
T Consensus       494 estk~vYdriidLri  508 (835)
T KOG2047|consen  494 ESTKAVYDRIIDLRI  508 (835)
T ss_pred             HHHHHHHHHHHHHhc
Confidence            999999999987755

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

Probab=98.61  E-value=0.00066  Score=65.13  Aligned_cols=317  Identities=10%  Similarity=0.064  Sum_probs=179.8

Q ss_pred             hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHH
Q 047221          176 SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVE  255 (509)
Q Consensus       176 ~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~  255 (509)
                      .|..+|+......   .++...|---+..=.+++++..|..+++.....-...|..-|..+.-  -..-|++..|.++|+
T Consensus        91 RARSv~ERALdvd---~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdqlWyKY~ym--EE~LgNi~gaRqife  165 (677)
T KOG1915|consen   91 RARSVFERALDVD---YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQLWYKYIYM--EEMLGNIAGARQIFE  165 (677)
T ss_pred             HHHHHHHHHHhcc---cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHHHHHHHHH--HHHhcccHHHHHHHH
Confidence            4778888772222   13444677777777777888888888877654432333333332221  122344777888887


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc---CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHc-CC-CCC
Q 047221          256 VLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT---ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQV-GC-EPI  330 (509)
Q Consensus       256 ~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~-~p~  330 (509)
                      .-.+  ..|+...|.+.|+.=.+...++.|..++++.   .|++.+|-....-=-++|.+..|..+|....+. |- ..+
T Consensus       166 rW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~d~~~  243 (677)
T KOG1915|consen  166 RWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGDDEEA  243 (677)
T ss_pred             HHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhhHHHH
Confidence            7664  5677888888888888888888888888774   577777777777777777777777777655532 10 011


Q ss_pred             hHHHHHHHHHHHhcCChHHHHHHHHHHHhC------------------------C-------------------CCCCHH
Q 047221          331 TLTYNYVLGVLCKNGQDADACELLEEMLGR------------------------N-------------------CHPDAI  367 (509)
Q Consensus       331 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~------------------------g-------------------~~p~~~  367 (509)
                      ...|.+...-=.++..++.|.-+|+-..+.                        |                   -+-|-.
T Consensus       244 e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~np~nYD  323 (677)
T KOG1915|consen  244 EILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKNPYNYD  323 (677)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhCCCCch
Confidence            122222222212233333333333322221                        0                   123445


Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCH--HHHHHHHHH---H-----HHcCCHHHHHHHHHHHHhCCCCCCHH
Q 047221          368 TYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRL--ATHAAFIKG---Y-----FIFYRYEDAYKYVVLSADKYKSSSNM  437 (509)
Q Consensus       368 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~--~~~~~li~~---~-----~~~g~~~~A~~~~~~m~~~~~~p~~~  437 (509)
                      +|--.+..-...|+.+...++|+..+.. ++|-.  ..|.--|-.   |     ....+++.+.++|+...+. ++....
T Consensus       324 sWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~l-IPHkkF  401 (677)
T KOG1915|consen  324 SWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLDL-IPHKKF  401 (677)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh-cCcccc
Confidence            5656666666678888888888887764 45521  112111111   1     2345666677777665541 111222


Q ss_pred             HHH----HHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 047221          438 LYS----LLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSLG  503 (509)
Q Consensus       438 ~~~----~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~  503 (509)
                      ||.    ....--.++.++..|.+++...+  |..|...+|...|..=.+.+.+|....++++..+.++.
T Consensus       402 tFaKiWlmyA~feIRq~~l~~ARkiLG~AI--G~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~Pe  469 (677)
T KOG1915|consen  402 TFAKIWLMYAQFEIRQLNLTGARKILGNAI--GKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFSPE  469 (677)
T ss_pred             hHHHHHHHHHHHHHHHcccHHHHHHHHHHh--ccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcChH
Confidence            222    22233335566666666666554  56666677777666666777777777777777666554

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.61  E-value=0.00018  Score=79.99  Aligned_cols=303  Identities=12%  Similarity=-0.006  Sum_probs=187.2

Q ss_pred             HHHHHHhccCCHHHHHHHHHHhhhCCC------ccCH-HHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCH----HH
Q 047221          200 LVIDNCGRLDDYETMRQLLNDFNVYQV------CLNE-KAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLV----SG  268 (509)
Q Consensus       200 ~li~~~~~~g~~~~A~~l~~~m~~~~~------~p~~-~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~----~~  268 (509)
                      .....+...|++++|..+++.....--      .+.. .....+........|++++|...++...+.-...+.    ..
T Consensus       414 ~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a  493 (903)
T PRK04841        414 LQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVA  493 (903)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHH
Confidence            334445567888888888877643210      1111 111222222334566689999888887653212221    34


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHcC--------CC--HHHHHHHHHHHHhcCCccHHHHHHHHHHHc----CCC--C-Ch
Q 047221          269 VRALIEMFSVLGLYEMAKYVIKKTE--------RK--VSYYNILIKEMCRRCDFKGPRDLLVEMRQV----GCE--P-IT  331 (509)
Q Consensus       269 ~~~li~~~~~~g~~~~A~~~~~~m~--------~~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~--p-~~  331 (509)
                      .+.+...+...|++++|...+++..        +.  ..+++.+...+...|++++|...+++....    |..  + ..
T Consensus       494 ~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~  573 (903)
T PRK04841        494 TSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHE  573 (903)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHH
Confidence            4666777788899999988887751        11  234556667788899999999988876542    211  1 22


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhC--CCCC--CHHHHHHHHHHHHHcCChHHHHHHHHHHHHCC--CCCCHH--H
Q 047221          332 LTYNYVLGVLCKNGQDADACELLEEMLGR--NCHP--DAITYEIFIVYSCRVGKFDVAFNFFNQMVKRG--LQPRLA--T  403 (509)
Q Consensus       332 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~--g~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g--~~p~~~--~  403 (509)
                      ..+..+...+...|++++|...+.+....  ...+  ....+..+...+...|+.++|.+.+++.....  ......  .
T Consensus       574 ~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~  653 (903)
T PRK04841        574 FLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIA  653 (903)
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhh
Confidence            33445556677789999998888876543  1112  23344445567778899999998888775421  111110  0


Q ss_pred             --HHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCH---HHHHHHHHHHHhCCChHHHHHHHHHHHHC----CCCcC-HHH
Q 047221          404 --HAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSN---MLYSLLASLHDKNNNPVMAKNVLSEMMKN----GLRPN-VSV  473 (509)
Q Consensus       404 --~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~-~~t  473 (509)
                        ....+..+...|+.+.|.+++............   ..+..+..++...|+.++|..++++....    |..++ ..+
T Consensus       654 ~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~  733 (903)
T PRK04841        654 NADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRN  733 (903)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHH
Confidence              111234455678999999888765543211111   12345677788999999999999987653    33332 235


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 047221          474 YRRVLKHLHTSHQEHMAKCLSSRYSSLSL  502 (509)
Q Consensus       474 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~~  502 (509)
                      ...+..++.+.|+.++|...+.+..+..-
T Consensus       734 ~~~la~a~~~~G~~~~A~~~L~~Al~la~  762 (903)
T PRK04841        734 LILLNQLYWQQGRKSEAQRVLLEALKLAN  762 (903)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhC
Confidence            66666788899999999999988876543

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.54  E-value=3.9e-05  Score=82.02  Aligned_cols=227  Identities=12%  Similarity=0.118  Sum_probs=176.3

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHcC---------CCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHH
Q 047221          263 SCLVSGVRALIEMFSVLGLYEMAKYVIKKTE---------RKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLT  333 (509)
Q Consensus       263 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~---------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t  333 (509)
                      +-....|-..|.-....++++.|++++++.-         ...-.|.++++.-...|.-+...++|++..+--  ---..
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~~V 1532 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC--DAYTV 1532 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc--chHHH
Confidence            4445667888888889999999999998851         124578888887777788888999999988742  22456


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC---CHHHHHHHHHH
Q 047221          334 YNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQP---RLATHAAFIKG  410 (509)
Q Consensus       334 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p---~~~~~~~li~~  410 (509)
                      |..|...|.+.+..++|.++++.|.+. ..-....|...+..+.+.++-+.|..++.+..+.  -|   .+....-.+..
T Consensus      1533 ~~~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~eHv~~IskfAqL 1609 (1710)
T KOG1070|consen 1533 HLKLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQEHVEFISKFAQL 1609 (1710)
T ss_pred             HHHHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhhhHHHHHHHHHH
Confidence            788999999999999999999999887 3356778999999999999999999999988765  22   24445556666


Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCH--HHHHHHHHHHHhcCCHH
Q 047221          411 YFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNV--SVYRRVLKHLHTSHQEH  488 (509)
Q Consensus       411 ~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~--~t~~~ll~~~~~~g~~~  488 (509)
                      -.++|+.+.+..+|+.......+ -...|+.+|..-.++|+.+.+..+|++....++.|-.  ..|...+..=-+.|+-+
T Consensus      1610 EFk~GDaeRGRtlfEgll~ayPK-RtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~ 1688 (1710)
T KOG1070|consen 1610 EFKYGDAERGRTLFEGLLSAYPK-RTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEK 1688 (1710)
T ss_pred             HhhcCCchhhHHHHHHHHhhCcc-chhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchh
Confidence            67899999999999988876533 3446999999999999999999999999998887754  35666666555667665


Q ss_pred             HHHHHHH
Q 047221          489 MAKCLSS  495 (509)
Q Consensus       489 ~a~~~~~  495 (509)
                      .++.+=.
T Consensus      1689 ~vE~VKa 1695 (1710)
T KOG1070|consen 1689 NVEYVKA 1695 (1710)
T ss_pred             hHHHHHH
Confidence            5554433

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.53  E-value=2.7e-05  Score=78.20  Aligned_cols=224  Identities=13%  Similarity=0.034  Sum_probs=167.4

Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHH
Q 047221          262 GSCLVSGVRALIEMFSVLGLYEMAKYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVL  341 (509)
Q Consensus       262 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~  341 (509)
                      .+|--..-..+...+...|-...|..+|+++    ..|.-+|.+|+..|+..+|..+..+..+.  +||..-|..+.+..
T Consensus       394 lpp~Wq~q~~laell~slGitksAl~I~Erl----emw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv~  467 (777)
T KOG1128|consen  394 LPPIWQLQRLLAELLLSLGITKSALVIFERL----EMWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDVL  467 (777)
T ss_pred             CCCcchHHHHHHHHHHHcchHHHHHHHHHhH----HHHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhhc
Confidence            3343334457888899999999999999876    57888999999999999999999888873  89999999998888


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 047221          342 CKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAY  421 (509)
Q Consensus       342 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  421 (509)
                      ....-+++|.++++....+       .-..+-......++++++.+.|+.-.+.. ..-..+|-.+-.+..+.++++.|.
T Consensus       468 ~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av  539 (777)
T KOG1128|consen  468 HDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAV  539 (777)
T ss_pred             cChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHH
Confidence            7777788898888865443       11111111233678888888887655542 234567777777888888888888


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 047221          422 KYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLS  501 (509)
Q Consensus       422 ~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~  501 (509)
                      +.|..-.... .-+...||.+-.+|.+.|+..+|...+++..+.+ .-+...|...+-...+.|.+++|++.+.+|.+..
T Consensus       540 ~aF~rcvtL~-Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~~~  617 (777)
T KOG1128|consen  540 KAFHRCVTLE-PDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDLR  617 (777)
T ss_pred             HHHHHHhhcC-CCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHHhh
Confidence            8887765532 2245678888888888888888888888888876 3344556666666778888888888888877543

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

Probab=98.52  E-value=0.00092  Score=66.52  Aligned_cols=138  Identities=15%  Similarity=0.075  Sum_probs=93.7

Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHhcCCc--hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhC
Q 047221          147 TESKLLSMSVSLSNASVIEILRVLNSEKV--SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVY  224 (509)
Q Consensus       147 ~~~~l~~~~~~~~~~~~~~ll~~~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~  224 (509)
                      +.+.|..+.+.-....|.-.|....+.+-  .++.+++.-..+.|.      .-+--|..++..+++++|-+.+......
T Consensus       125 fdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~~P~------~~eeyie~L~~~d~~~eaa~~la~vln~  198 (835)
T KOG2047|consen  125 FDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKVAPE------AREEYIEYLAKSDRLDEAAQRLATVLNQ  198 (835)
T ss_pred             HHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhcCHH------HHHHHHHHHHhccchHHHHHHHHHhcCc
Confidence            44555555555556667777776666663  588888888777776      5677789999999999999999987654


Q ss_pred             C------CccCHHHHHHHHHHHHhccCC--HHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHc
Q 047221          225 Q------VCLNEKAFGFLPVLISSKALT--KKGIWRVVEVLNQVGGSCLV--SGVRALIEMFSVLGLYEMAKYVIKKT  292 (509)
Q Consensus       225 ~------~~p~~~~~~~ll~~~~~~~~~--~~~a~~~~~~m~~~g~~~~~--~~~~~li~~~~~~g~~~~A~~~~~~m  292 (509)
                      .      .+.+...|.-+-.......+.  --....+++.+...  -+|.  ..|++|.+-|.+.|.++.|..+|++-
T Consensus       199 d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~r--ftDq~g~Lw~SLAdYYIr~g~~ekarDvyeea  274 (835)
T KOG2047|consen  199 DEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRR--FTDQLGFLWCSLADYYIRSGLFEKARDVYEEA  274 (835)
T ss_pred             hhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhccc--CcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHH
Confidence            2      234555666665533322221  11334445444432  3343  45899999999999999999999884

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

Probab=98.50  E-value=0.0018  Score=64.64  Aligned_cols=249  Identities=13%  Similarity=0.113  Sum_probs=155.1

Q ss_pred             CHHHHHHHHHHHHHcC-CCCCHHHHHHHH------HHHHhcCCHHHHHHHHHHcCCCHH----HHHHHHHHHHhcCCccH
Q 047221          246 TKKGIWRVVEVLNQVG-GSCLVSGVRALI------EMFSVLGLYEMAKYVIKKTERKVS----YYNILIKEMCRRCDFKG  314 (509)
Q Consensus       246 ~~~~a~~~~~~m~~~g-~~~~~~~~~~li------~~~~~~g~~~~A~~~~~~m~~~~~----~~~~li~~~~~~g~~~~  314 (509)
                      ....|..+++...+.. -.|+...+.-..      ....+.|..+.|.+.+...++.++    .--.-...+.+.+++++
T Consensus       158 ~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~i~Dkla~~e~ka~l~~kl~~lEe  237 (700)
T KOG1156|consen  158 EYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQIVDKLAFEETKADLLMKLGQLEE  237 (700)
T ss_pred             HHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhHHHHHHHHhhhHHHHHHHHhhHHh
Confidence            3777888877776544 345555554322      234567778888887777765432    23345567888999999


Q ss_pred             HHHHHHHHHHcCCCCChHHHHHHH-HHHHhcCChHHHH-HHHHHHHhC--------------------------------
Q 047221          315 PRDLLVEMRQVGCEPITLTYNYVL-GVLCKNGQDADAC-ELLEEMLGR--------------------------------  360 (509)
Q Consensus       315 A~~~~~~m~~~g~~p~~~t~~~li-~~~~~~g~~~~a~-~~~~~m~~~--------------------------------  360 (509)
                      |..++..+...  .||..-|...+ .++++..+.-++. .+|....+.                                
T Consensus       238 A~~~y~~Ll~r--nPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l  315 (700)
T KOG1156|consen  238 AVKVYRRLLER--NPDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRRLPLSVLNGEELKEIVDKYLRPLL  315 (700)
T ss_pred             HHHHHHHHHhh--CchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchhccHHHhCcchhHHHHHHHHHHHh
Confidence            99999999877  57766666544 4444343333333 666654332                                


Q ss_pred             --CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHH----CCC----------CCCHHH--HHHHHHHHHHcCCHHHHHH
Q 047221          361 --NCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVK----RGL----------QPRLAT--HAAFIKGYFIFYRYEDAYK  422 (509)
Q Consensus       361 --g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~----~g~----------~p~~~~--~~~li~~~~~~g~~~~A~~  422 (509)
                        |++   .++..+...|-.....+-.+++.-.+..    .|.          +|+...  +--++..|-+.|+++.|..
T Consensus       316 ~Kg~p---~vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~  392 (700)
T KOG1156|consen  316 SKGVP---SVFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALE  392 (700)
T ss_pred             hcCCC---chhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHH
Confidence              111   1222333333221111111122111211    111          444443  4457788889999999999


Q ss_pred             HHHHHHhCCCCCCHH-HHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 047221          423 YVVLSADKYKSSSNM-LYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLS  501 (509)
Q Consensus       423 ~~~~m~~~~~~p~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~  501 (509)
                      .++...+.  .|+.+ .|-.=...+...|.+++|...+++..+.. .||...=.-......++.+.++|.++.....+.|
T Consensus       393 yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD-~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~  469 (700)
T KOG1156|consen  393 YIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD-TADRAINSKCAKYMLRANEIEEAEEVLSKFTREG  469 (700)
T ss_pred             HHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc-chhHHHHHHHHHHHHHccccHHHHHHHHHhhhcc
Confidence            99886654  55543 44455577889999999999999988763 4566555466677788999999999999998887


Q ss_pred             C
Q 047221          502 L  502 (509)
Q Consensus       502 ~  502 (509)
                      .
T Consensus       470 ~  470 (700)
T KOG1156|consen  470 F  470 (700)
T ss_pred             c
Confidence            5

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.49  E-value=0.00027  Score=65.23  Aligned_cols=296  Identities=10%  Similarity=-0.043  Sum_probs=180.6

Q ss_pred             HHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh--
Q 047221          201 VIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSV--  278 (509)
Q Consensus       201 li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~--  278 (509)
                      |.+..--.-.+.+|++++.......  |.-...|..+..|+.+.+-.+-+.+++..-.+. ++.+....|....-..+  
T Consensus       157 LAsvhYmR~HYQeAIdvYkrvL~dn--~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q-~pdStiA~NLkacn~fRl~  233 (557)
T KOG3785|consen  157 LASVHYMRMHYQEAIDVYKRVLQDN--PEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ-FPDSTIAKNLKACNLFRLI  233 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcC--hhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh-CCCcHHHHHHHHHHHhhhh
Confidence            3333333446788888888876553  566677778888888888777777777766543 23333444433322222  


Q ss_pred             cCCHHHHH--HHHHHcC---------------------------C-----CHHHHHHHHHHHHhcCCccHHHHHHHHHHH
Q 047221          279 LGLYEMAK--YVIKKTE---------------------------R-----KVSYYNILIKEMCRRCDFKGPRDLLVEMRQ  324 (509)
Q Consensus       279 ~g~~~~A~--~~~~~m~---------------------------~-----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  324 (509)
                      .|+..+++  .+.+...                           |     =..+--.|+-.|.+.+++.+|..+.+++.-
T Consensus       234 ngr~ae~E~k~ladN~~~~~~f~~~l~rHNLVvFrngEgALqVLP~L~~~IPEARlNL~iYyL~q~dVqeA~~L~Kdl~P  313 (557)
T KOG3785|consen  234 NGRTAEDEKKELADNIDQEYPFIEYLCRHNLVVFRNGEGALQVLPSLMKHIPEARLNLIIYYLNQNDVQEAISLCKDLDP  313 (557)
T ss_pred             ccchhHHHHHHHHhcccccchhHHHHHHcCeEEEeCCccHHHhchHHHhhChHhhhhheeeecccccHHHHHHHHhhcCC
Confidence            12222211  1111110                           0     022334455667888888888888776651


Q ss_pred             cCCCCChHHHHHHHHHH-----HhcCChHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHHcCChHHHHHHHHHHHHCCCC
Q 047221          325 VGCEPITLTYNYVLGVL-----CKNGQDADACELLEEMLGRNCHPDAI-TYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQ  398 (509)
Q Consensus       325 ~g~~p~~~t~~~li~~~-----~~~g~~~~a~~~~~~m~~~g~~p~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  398 (509)
                        ..|-......+..+-     .....+.-|.+.|.-.-+.+..-|.. --.++.+++.-..++++++-.+..+..-=..
T Consensus       314 --ttP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~N  391 (557)
T KOG3785|consen  314 --TTPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTN  391 (557)
T ss_pred             --CChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence              133333333332221     12223455777776555554443332 3445555556666788888888877765445


Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHH-HHHH
Q 047221          399 PRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSV-YRRV  477 (509)
Q Consensus       399 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t-~~~l  477 (509)
                      .|...+| +.++++..|...+|+++|-++....++-+..-...|..+|.++++++.|++++-++..   ..+... ...+
T Consensus       392 dD~Fn~N-~AQAk~atgny~eaEelf~~is~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t---~~e~fsLLqlI  467 (557)
T KOG3785|consen  392 DDDFNLN-LAQAKLATGNYVEAEELFIRISGPEIKNKILYKSMLARCYIRNKKPQLAWDMMLKTNT---PSERFSLLQLI  467 (557)
T ss_pred             cchhhhH-HHHHHHHhcChHHHHHHHhhhcChhhhhhHHHHHHHHHHHHhcCCchHHHHHHHhcCC---chhHHHHHHHH
Confidence            5666666 8889999999999999998776665554444344556788899999999888766532   223333 3444


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCC
Q 047221          478 LKHLHTSHQEHMAKCLSSRYSSLSLGSS  505 (509)
Q Consensus       478 l~~~~~~g~~~~a~~~~~~m~~~~~~~~  505 (509)
                      ..-|.+++++--|-+.|..+...++.|.
T Consensus       468 An~CYk~~eFyyaaKAFd~lE~lDP~pE  495 (557)
T KOG3785|consen  468 ANDCYKANEFYYAAKAFDELEILDPTPE  495 (557)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHccCCCcc
Confidence            5578899999999999999998888774

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.47  E-value=0.00011  Score=66.11  Aligned_cols=289  Identities=13%  Similarity=0.089  Sum_probs=195.9

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhhhCCCcc-CHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHH-HHHH
Q 047221          197 ICSLVIDNCGRLDDYETMRQLLNDFNVYQVCL-NEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVR-ALIE  274 (509)
Q Consensus       197 ~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~-~li~  274 (509)
                      -+.+++..+.+..+++.|++++..-.++.  | +......+-. |+-...++..|-..++++....  |...-|. --..
T Consensus        12 eftaviy~lI~d~ry~DaI~~l~s~~Er~--p~~rAgLSlLgy-CYY~~Q~f~~AA~CYeQL~ql~--P~~~qYrlY~AQ   86 (459)
T KOG4340|consen   12 EFTAVVYRLIRDARYADAIQLLGSELERS--PRSRAGLSLLGY-CYYRLQEFALAAECYEQLGQLH--PELEQYRLYQAQ   86 (459)
T ss_pred             chHHHHHHHHHHhhHHHHHHHHHHHHhcC--ccchHHHHHHHH-HHHHHHHHHHHHHHHHHHHhhC--hHHHHHHHHHHH
Confidence            46677777788899999999998776653  4 4445555555 4444444999999999987643  4444342 1234


Q ss_pred             HHHhcCCHHHHHHHHHHcCCCHHHHHHHH--H--HHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHH
Q 047221          275 MFSVLGLYEMAKYVIKKTERKVSYYNILI--K--EMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADA  350 (509)
Q Consensus       275 ~~~~~g~~~~A~~~~~~m~~~~~~~~~li--~--~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a  350 (509)
                      .+.+.+.+.+|.++...|..+....+-.+  .  .....+++-.+..++++....|   +..+.+...-...+.|+++.|
T Consensus        87 SLY~A~i~ADALrV~~~~~D~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqyEaA  163 (459)
T KOG4340|consen   87 SLYKACIYADALRVAFLLLDNPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQYEAA  163 (459)
T ss_pred             HHHHhcccHHHHHHHHHhcCCHHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccHHHH
Confidence            55678899999999999865433333222  2  2334688888888888877543   334444444445689999999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC-------------CHH--------HHHHHHH
Q 047221          351 CELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQP-------------RLA--------THAAFIK  409 (509)
Q Consensus       351 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-------------~~~--------~~~~li~  409 (509)
                      .+-|....+-|---....||..+.-| +.|+.+.|++...+++++|++-             |+.        .-++++.
T Consensus       164 vqkFqaAlqvsGyqpllAYniALaHy-~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~e  242 (459)
T KOG4340|consen  164 VQKFQAALQVSGYQPLLAYNLALAHY-SSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVE  242 (459)
T ss_pred             HHHHHHHHhhcCCCchhHHHHHHHHH-hhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHH
Confidence            99999988874444566788776555 6689999999999999887532             211        1234444


Q ss_pred             H-------HHHcCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHH
Q 047221          410 G-------YFIFYRYEDAYKYVVLSADK-YKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHL  481 (509)
Q Consensus       410 ~-------~~~~g~~~~A~~~~~~m~~~-~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~  481 (509)
                      +       +.+.|+.+.|.+-+-+|.-+ ....|.+|.+.+.-.= ..+++.+..+-+.-+....- -...||..++-.|
T Consensus       243 AfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~nP-fP~ETFANlLlly  320 (459)
T KOG4340|consen  243 AFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQNP-FPPETFANLLLLY  320 (459)
T ss_pred             HhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcCC-CChHHHHHHHHHH
Confidence            4       46779999999998888643 3455777766554322 24556666666666665433 2457999999999


Q ss_pred             HhcCCHHHHHHHHHH
Q 047221          482 HTSHQEHMAKCLSSR  496 (509)
Q Consensus       482 ~~~g~~~~a~~~~~~  496 (509)
                      ++..-++.|-.++-+
T Consensus       321 CKNeyf~lAADvLAE  335 (459)
T KOG4340|consen  321 CKNEYFDLAADVLAE  335 (459)
T ss_pred             hhhHHHhHHHHHHhh
Confidence            999999998887754

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

Probab=98.47  E-value=2.2e-05  Score=75.19  Aligned_cols=216  Identities=10%  Similarity=0.018  Sum_probs=166.6

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHH
Q 047221          244 ALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLL  319 (509)
Q Consensus       244 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~  319 (509)
                      .|+...+..-|+...+....++ ..|--+..+|....+-++..+.|+..    +.|..+|..-...+.-.+++++|..=|
T Consensus       339 ~g~~~~a~~d~~~~I~l~~~~~-~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~aDF  417 (606)
T KOG0547|consen  339 KGDSLGAQEDFDAAIKLDPAFN-SLYIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAIADF  417 (606)
T ss_pred             cCCchhhhhhHHHHHhcCcccc-hHHHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHHHHH
Confidence            3447788888888887654333 33777888899999999999999885    445666766666677778899999999


Q ss_pred             HHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCC-
Q 047221          320 VEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQ-  398 (509)
Q Consensus       320 ~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-  398 (509)
                      ++..... +-+...|--+.-+..+.++++++...|++..++ ++--...|+-....+...++++.|.+.|+..++..-. 
T Consensus       418 ~Kai~L~-pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~  495 (606)
T KOG0547|consen  418 QKAISLD-PENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPRE  495 (606)
T ss_pred             HHHhhcC-hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhcccc
Confidence            9988764 445677777777778899999999999999887 5666788999999999999999999999988765211 


Q ss_pred             ------CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 047221          399 ------PRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       399 ------p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                            +...+.-+++..-.+ +++..|.+++.+..+.+.+.+ ..|..|...-.+.|+.++|+++|++-..
T Consensus       496 ~~~~v~~~plV~Ka~l~~qwk-~d~~~a~~Ll~KA~e~Dpkce-~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  496 HLIIVNAAPLVHKALLVLQWK-EDINQAENLLRKAIELDPKCE-QAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             ccccccchhhhhhhHhhhchh-hhHHHHHHHHHHHHccCchHH-HHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence                  112222333333333 899999999999888765444 4688899999999999999999998765

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.46  E-value=0.00033  Score=64.60  Aligned_cols=326  Identities=12%  Similarity=0.092  Sum_probs=173.2

Q ss_pred             HHHHHHHHHh-cCCc--hHHHHHHHh-hccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCc----------
Q 047221          162 SVIEILRVLN-SEKV--SALCFLKYM-REIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVC----------  227 (509)
Q Consensus       162 ~~~~ll~~~~-~~~~--~A~~~~~~~-~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~----------  227 (509)
                      ..+..|.-|. +-|+  +|+.++..+ ..-.|+..    .+-.|..++.-.|.+.+|..+-.+..+..+.          
T Consensus        58 ~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~~~~~e----l~vnLAcc~FyLg~Y~eA~~~~~ka~k~pL~~RLlfhlahk  133 (557)
T KOG3785|consen   58 SLQLWIAHCYFHLGDYEEALNVYTFLMNKDDAPAE----LGVNLACCKFYLGQYIEAKSIAEKAPKTPLCIRLLFHLAHK  133 (557)
T ss_pred             HHHHHHHHHHHhhccHHHHHHHHHHHhccCCCCcc----cchhHHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHH
Confidence            4445555544 3443  788888887 43344444    7777777777788888888777665322100          


Q ss_pred             -cCH---HHH-----------HHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHH-HHHHHHHhcCCHHHHHHHHHH
Q 047221          228 -LNE---KAF-----------GFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVR-ALIEMFSVLGLYEMAKYVIKK  291 (509)
Q Consensus       228 -p~~---~~~-----------~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~-~li~~~~~~g~~~~A~~~~~~  291 (509)
                       -|.   .+|           -++.+..+.+.. +++|.+++......+  |.-...| -+.-+|.+..-++.+.++++-
T Consensus       134 lndEk~~~~fh~~LqD~~EdqLSLAsvhYmR~H-YQeAIdvYkrvL~dn--~ey~alNVy~ALCyyKlDYydvsqevl~v  210 (557)
T KOG3785|consen  134 LNDEKRILTFHSSLQDTLEDQLSLASVHYMRMH-YQEAIDVYKRVLQDN--PEYIALNVYMALCYYKLDYYDVSQEVLKV  210 (557)
T ss_pred             hCcHHHHHHHHHHHhhhHHHHHhHHHHHHHHHH-HHHHHHHHHHHHhcC--hhhhhhHHHHHHHHHhcchhhhHHHHHHH
Confidence             000   011           011111122222 555555555554322  2222222 233345555555555555433


Q ss_pred             ----cCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcC--------------------------CCCC-----hHHHHH
Q 047221          292 ----TERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVG--------------------------CEPI-----TLTYNY  336 (509)
Q Consensus       292 ----m~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g--------------------------~~p~-----~~t~~~  336 (509)
                          .+....+-|.......+.-.-..|.+-..++...+                          +-|.     ...--.
T Consensus       211 YL~q~pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~~~f~~~l~rHNLVvFrngEgALqVLP~L~~~IPEARlN  290 (557)
T KOG3785|consen  211 YLRQFPDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQEYPFIEYLCRHNLVVFRNGEGALQVLPSLMKHIPEARLN  290 (557)
T ss_pred             HHHhCCCcHHHHHHHHHHHhhhhccchhHHHHHHHHhcccccchhHHHHHHcCeEEEeCCccHHHhchHHHhhChHhhhh
Confidence                23444444444433333211112222222211111                          0010     011123


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH-H----HcCChHHHHHHHHHHHHCCCCCCHHH-HHHHHHH
Q 047221          337 VLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYS-C----RVGKFDVAFNFFNQMVKRGLQPRLAT-HAAFIKG  410 (509)
Q Consensus       337 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~-~----~~g~~~~a~~~~~~m~~~g~~p~~~~-~~~li~~  410 (509)
                      |+--|.+.+++++|..+.+++.-.  .|-....-.++.+- .    ....+.-|.+.|+-.-+.+..-|... --++..+
T Consensus       291 L~iYyL~q~dVqeA~~L~Kdl~Pt--tP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~  368 (557)
T KOG3785|consen  291 LIIYYLNQNDVQEAISLCKDLDPT--TPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASY  368 (557)
T ss_pred             heeeecccccHHHHHHHHhhcCCC--ChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHH
Confidence            333467778888888777665322  23222222222211 1    11235566666666555554444322 3455566


Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHH-HHHHHHhcCCHHH
Q 047221          411 YFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRR-VLKHLHTSHQEHM  489 (509)
Q Consensus       411 ~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~-ll~~~~~~g~~~~  489 (509)
                      +.-.-++++++-.++.++.--...|...|| +.++++..|.+.+|.++|-......++ |..+|.+ |.++|.+.|+.+.
T Consensus       369 fFL~~qFddVl~YlnSi~sYF~NdD~Fn~N-~AQAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~nkkP~l  446 (557)
T KOG3785|consen  369 FFLSFQFDDVLTYLNSIESYFTNDDDFNLN-LAQAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRNKKPQL  446 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcCcchhhhH-HHHHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhcCCchH
Confidence            666677888888888877655555666666 889999999999999999887655454 4555654 5567789999999


Q ss_pred             HHHHHHHHH
Q 047221          490 AKCLSSRYS  498 (509)
Q Consensus       490 a~~~~~~m~  498 (509)
                      |++++-++.
T Consensus       447 AW~~~lk~~  455 (557)
T KOG3785|consen  447 AWDMMLKTN  455 (557)
T ss_pred             HHHHHHhcC
Confidence            998876554

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.36  E-value=7.5e-05  Score=68.47  Aligned_cols=59  Identities=14%  Similarity=0.071  Sum_probs=35.0

Q ss_pred             HHHHHHhCCChHHHHHHHHHHHHCC--CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 047221          442 LASLHDKNNNPVMAKNVLSEMMKNG--LRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSL  500 (509)
Q Consensus       442 li~~~~~~g~~~~a~~~~~~m~~~g--~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~  500 (509)
                      +...|.+.|++++|+..+++..+..  -......+..+..++.+.|++++|..+++.+...
T Consensus       172 ~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       172 VARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            4445666666666666666666531  1112345666666666677777777666666544

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).

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.36  E-value=0.00012  Score=67.08  Aligned_cols=170  Identities=15%  Similarity=0.093  Sum_probs=129.3

Q ss_pred             CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCC----hHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCC-CCH-
Q 047221          293 ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPI----TLTYNYVLGVLCKNGQDADACELLEEMLGRNCH-PDA-  366 (509)
Q Consensus       293 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~----~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-p~~-  366 (509)
                      +.....+..+...+.+.|++++|...|++....  .|+    ..++..+..++.+.|++++|...++++.+..-. +.. 
T Consensus        30 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~  107 (235)
T TIGR03302        30 EWPAEELYEEAKEALDSGDYTEAIKYFEALESR--YPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDAD  107 (235)
T ss_pred             cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchH
Confidence            345778888999999999999999999998875  343    246778889999999999999999999876321 111 


Q ss_pred             HHHHHHHHHHHHc--------CChHHHHHHHHHHHHCCCCCCHHHH-----------------HHHHHHHHHcCCHHHHH
Q 047221          367 ITYEIFIVYSCRV--------GKFDVAFNFFNQMVKRGLQPRLATH-----------------AAFIKGYFIFYRYEDAY  421 (509)
Q Consensus       367 ~~~~~li~~~~~~--------g~~~~a~~~~~~m~~~g~~p~~~~~-----------------~~li~~~~~~g~~~~A~  421 (509)
                      .++..+-.++.+.        |+.++|.+.|+++.+.... +...+                 ..+...|.+.|++++|.
T Consensus       108 ~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~  186 (235)
T TIGR03302       108 YAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPN-SEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAI  186 (235)
T ss_pred             HHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCC-ChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHH
Confidence            2344445555544        7899999999999876321 22222                 13456788899999999


Q ss_pred             HHHHHHHhCCC--CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHC
Q 047221          422 KYVVLSADKYK--SSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKN  465 (509)
Q Consensus       422 ~~~~~m~~~~~--~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  465 (509)
                      ..++...+...  ......+..+..++.+.|++++|..+++.+...
T Consensus       187 ~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       187 NRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            99999887632  223567889999999999999999999988754

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=98.32  E-value=0.0023  Score=66.96  Aligned_cols=293  Identities=15%  Similarity=0.128  Sum_probs=158.4

Q ss_pred             CCCHHHHHHHHHHHhcCCchHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCC-Ccc-CHHHHH
Q 047221          157 SLSNASVIEILRVLNSEKVSALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQ-VCL-NEKAFG  234 (509)
Q Consensus       157 ~~~~~~~~~ll~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~-~~p-~~~~~~  234 (509)
                      +.|...|..+|..   ....-+++.+++....-....|++.-+..+.++...+-..+..+++++..-.. ... +...-|
T Consensus       949 R~D~~LW~~VL~e---~n~~rRqLiDqVv~tal~E~~dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQn 1025 (1666)
T KOG0985|consen  949 RSDPDLWAKVLNE---ENPYRRQLIDQVVQTALPETQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQN 1025 (1666)
T ss_pred             ccChHHHHHHHhc---cChHHHHHHHHHHHhcCCccCChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhh
Confidence            4455566665532   11234556666622112223467788888999999999999999999875432 111 222233


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCccH
Q 047221          235 FLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTERKVSYYNILIKEMCRRCDFKG  314 (509)
Q Consensus       235 ~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~li~~~~~~g~~~~  314 (509)
                      .++- .+-+.+ ...+.+..+++..... |      .+.......+-+++|..+|++..-+..+.+.||.-   -+.++.
T Consensus      1026 LLiL-tAikad-~trVm~YI~rLdnyDa-~------~ia~iai~~~LyEEAF~ifkkf~~n~~A~~VLie~---i~~ldR 1093 (1666)
T KOG0985|consen 1026 LLIL-TAIKAD-RTRVMEYINRLDNYDA-P------DIAEIAIENQLYEEAFAIFKKFDMNVSAIQVLIEN---IGSLDR 1093 (1666)
T ss_pred             hHHH-HHhhcC-hHHHHHHHHHhccCCc-h------hHHHHHhhhhHHHHHHHHHHHhcccHHHHHHHHHH---hhhHHH
Confidence            3333 444454 6667777776655432 2      23445556677888888888876665555555543   233444


Q ss_pred             HHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Q 047221          315 PRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVK  394 (509)
Q Consensus       315 A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  394 (509)
                      |.+.-++..      ....|..+..+-.+.|.+.+|.+-|-+  ..    |...|.-+|....+.|.+++-.+.+.-..+
T Consensus      1094 A~efAe~~n------~p~vWsqlakAQL~~~~v~dAieSyik--ad----Dps~y~eVi~~a~~~~~~edLv~yL~MaRk 1161 (1666)
T KOG0985|consen 1094 AYEFAERCN------EPAVWSQLAKAQLQGGLVKDAIESYIK--AD----DPSNYLEVIDVASRTGKYEDLVKYLLMARK 1161 (1666)
T ss_pred             HHHHHHhhC------ChHHHHHHHHHHHhcCchHHHHHHHHh--cC----CcHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            444443333      123455555555555555555544321  11    445555555555555655555555554444


Q ss_pred             CCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHH--------------------------HHHHHHHHHHh
Q 047221          395 RGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNM--------------------------LYSLLASLHDK  448 (509)
Q Consensus       395 ~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~--------------------------~~~~li~~~~~  448 (509)
                      ...+|.+.  +.||-+|++.+++.+.+++.       .-||..                          -|..|...+..
T Consensus      1162 k~~E~~id--~eLi~AyAkt~rl~elE~fi-------~gpN~A~i~~vGdrcf~~~~y~aAkl~y~~vSN~a~La~TLV~ 1232 (1666)
T KOG0985|consen 1162 KVREPYID--SELIFAYAKTNRLTELEEFI-------AGPNVANIQQVGDRCFEEKMYEAAKLLYSNVSNFAKLASTLVY 1232 (1666)
T ss_pred             hhcCccch--HHHHHHHHHhchHHHHHHHh-------cCCCchhHHHHhHHHhhhhhhHHHHHHHHHhhhHHHHHHHHHH
Confidence            44444332  34555555555555444433       123333                          34445555555


Q ss_pred             CCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHH
Q 047221          449 NNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAK  491 (509)
Q Consensus       449 ~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~  491 (509)
                      .|.+..|...-++.      -+..||.-+-.+|...+.+..|.
T Consensus      1233 LgeyQ~AVD~aRKA------ns~ktWK~VcfaCvd~~EFrlAQ 1269 (1666)
T KOG0985|consen 1233 LGEYQGAVDAARKA------NSTKTWKEVCFACVDKEEFRLAQ 1269 (1666)
T ss_pred             HHHHHHHHHHhhhc------cchhHHHHHHHHHhchhhhhHHH
Confidence            55555555444433      24557777777777777666553

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.31  E-value=0.00046  Score=74.25  Aligned_cols=223  Identities=11%  Similarity=0.026  Sum_probs=164.4

Q ss_pred             CHHHHHHHHHHHHhccCCHHHHHHHHHHHHHc-CCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHcC---CCHHHHHH
Q 047221          229 NEKAFGFLPVLISSKALTKKGIWRVVEVLNQV-GGSC---LVSGVRALIEMFSVLGLYEMAKYVIKKTE---RKVSYYNI  301 (509)
Q Consensus       229 ~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~-g~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~---~~~~~~~~  301 (509)
                      ....|-..|...+.. +..++|.++.++.+.. ++.-   -...|.+++++-...|.-+...++|++..   .-...|..
T Consensus      1457 SSi~WI~YMaf~Lel-sEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd~~~V~~~ 1535 (1710)
T KOG1070|consen 1457 SSILWIRYMAFHLEL-SEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYCDAYTVHLK 1535 (1710)
T ss_pred             cchHHHHHHHHHhhh-hhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcchHHHHHH
Confidence            344566666634433 4488888888877642 2211   12356777777777788888999999873   23456888


Q ss_pred             HHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHH
Q 047221          302 LIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPD---AITYEIFIVYSCR  378 (509)
Q Consensus       302 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~---~~~~~~li~~~~~  378 (509)
                      |...|.+.+.+++|.++|+.|.+. +.-....|...+..+.+..+-+.|..++.+..+.  -|-   +....-.+..-.+
T Consensus      1536 L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~eHv~~IskfAqLEFk 1612 (1710)
T KOG1070|consen 1536 LLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQEHVEFISKFAQLEFK 1612 (1710)
T ss_pred             HHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhhhHHHHHHHHHHHhh
Confidence            999999999999999999999975 2356778999999999999999999999988875  233   3344445556678


Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHH--HHHHHHHHHHhCCChHHHH
Q 047221          379 VGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNM--LYSLLASLHDKNNNPVMAK  456 (509)
Q Consensus       379 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~--~~~~li~~~~~~g~~~~a~  456 (509)
                      .|+.+.+..+|+..... .+--...|+..|++-.++|+.+.++.+|++....++.|-..  .|...+..=-++|+-+.+.
T Consensus      1613 ~GDaeRGRtlfEgll~a-yPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~vE 1691 (1710)
T KOG1070|consen 1613 YGDAERGRTLFEGLLSA-YPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNVE 1691 (1710)
T ss_pred             cCCchhhHHHHHHHHhh-CccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhHH
Confidence            89999999999998876 23346689999999999999999999999999988776543  4554454444455544333

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.31  E-value=0.00024  Score=71.33  Aligned_cols=188  Identities=16%  Similarity=0.120  Sum_probs=104.1

Q ss_pred             HHHhcCCHHHHHHHHHHcC-CC--HHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHH
Q 047221          275 MFSVLGLYEMAKYVIKKTE-RK--VSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADAC  351 (509)
Q Consensus       275 ~~~~~g~~~~A~~~~~~m~-~~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~  351 (509)
                      +.....+|..|..+++.+. .+  ..-|..+...|+..|+++.|.++|.+.-         -++-.|.+|.+.|++++|.
T Consensus       741 aai~akew~kai~ildniqdqk~~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~da~  811 (1636)
T KOG3616|consen  741 AAIGAKEWKKAISILDNIQDQKTASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWEDAF  811 (1636)
T ss_pred             HHhhhhhhhhhHhHHHHhhhhccccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHHHHH
Confidence            3444556666666666552 22  2335566677777777777777775422         2445566777777777777


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 047221          352 ELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKY  431 (509)
Q Consensus       352 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  431 (509)
                      ++-.+..  |-......|-+-..-+-+.|++.+|+++|-.+.    .|+     ..|.+|-+.|..++.+++.++-....
T Consensus       812 kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyiti~----~p~-----~aiqmydk~~~~ddmirlv~k~h~d~  880 (1636)
T KOG3616|consen  812 KLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYITIG----EPD-----KAIQMYDKHGLDDDMIRLVEKHHGDH  880 (1636)
T ss_pred             HHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeEEcc----Cch-----HHHHHHHhhCcchHHHHHHHHhChhh
Confidence            7655443  223344455555555666677777776664431    233     24666777777777666665432111


Q ss_pred             CCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHH
Q 047221          432 KSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLS  494 (509)
Q Consensus       432 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~  494 (509)
                         -..|-..+..-|...|+...|.+-|-+..         -|.+-++.|...+.|++|.++-
T Consensus       881 ---l~dt~~~f~~e~e~~g~lkaae~~flea~---------d~kaavnmyk~s~lw~dayria  931 (1636)
T KOG3616|consen  881 ---LHDTHKHFAKELEAEGDLKAAEEHFLEAG---------DFKAAVNMYKASELWEDAYRIA  931 (1636)
T ss_pred             ---hhHHHHHHHHHHHhccChhHHHHHHHhhh---------hHHHHHHHhhhhhhHHHHHHHH
Confidence               11233445555566666666666554432         2444444555555555555443

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.30  E-value=8.3e-07  Score=54.06  Aligned_cols=33  Identities=33%  Similarity=0.554  Sum_probs=21.3

Q ss_pred             HHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCC
Q 047221          298 YYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPI  330 (509)
Q Consensus       298 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  330 (509)
                      +||++|.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            566666666666666666666666666666665

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.30  E-value=0.0048  Score=60.46  Aligned_cols=130  Identities=15%  Similarity=0.159  Sum_probs=102.2

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHH
Q 047221          367 ITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQP-RLATHAAFIKGYFIFYRYEDAYKYVVLSADK-YKSSSNMLYSLLAS  444 (509)
Q Consensus       367 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~p~~~~~~~li~  444 (509)
                      -+|...|+.-.+..-++.|..+|.+..+.+..+ ++.+++++|.-||. ++.+.|.++|+-=... |-  +..--...+.
T Consensus       367 Lv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFeLGLkkf~d--~p~yv~~Yld  443 (656)
T KOG1914|consen  367 LVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIFELGLKKFGD--SPEYVLKYLD  443 (656)
T ss_pred             eehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHHHHHHHhcCC--ChHHHHHHHH
Confidence            356677777778888999999999999988877 78889999998875 7789999999753332 32  2333455677


Q ss_pred             HHHhCCChHHHHHHHHHHHHCCCCcCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 047221          445 LHDKNNNPVMAKNVLSEMMKNGLRPNV--SVYRRVLKHLHTSHQEHMAKCLSSRYSS  499 (509)
Q Consensus       445 ~~~~~g~~~~a~~~~~~m~~~g~~p~~--~t~~~ll~~~~~~g~~~~a~~~~~~m~~  499 (509)
                      -+...++-..|..+|++....++.||.  ..|..+|.-=..-|+...+.++-+++..
T Consensus       444 fL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~  500 (656)
T KOG1914|consen  444 FLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFT  500 (656)
T ss_pred             HHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            777888888999999999888766655  5899999888889999999998887764

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.29  E-value=0.0012  Score=58.84  Aligned_cols=172  Identities=12%  Similarity=0.112  Sum_probs=93.5

Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChH
Q 047221          253 VVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITL  332 (509)
Q Consensus       253 ~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  332 (509)
                      +.+.+.......+......-...|...|++++|.+.... ..+......=+..+.+..+++-|.+.+++|.+-   -+..
T Consensus        95 l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~-~~~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i---ded~  170 (299)
T KOG3081|consen   95 LYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHL-GENLEAAALNVQILLKMHRFDLAEKELKKMQQI---DEDA  170 (299)
T ss_pred             HHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhc-cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc---chHH
Confidence            344444444444434344444556667777777776666 334444444445556666667777777777642   2344


Q ss_pred             HHHHHHHHHHh----cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 047221          333 TYNYVLGVLCK----NGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFI  408 (509)
Q Consensus       333 t~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  408 (509)
                      |.+-|..++.+    .+.+.+|.-+|++|-+. ..|+.-+.+-...++...|++++|+.++++...+... +..+...+|
T Consensus       171 tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~-dpetL~Nli  248 (299)
T KOG3081|consen  171 TLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK-DPETLANLI  248 (299)
T ss_pred             HHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC-CHHHHHHHH
Confidence            55544444433    34566677777776654 4566666666666666667777777777766655332 333433333


Q ss_pred             HHHHHcCC-HHHHHHHHHHHHhC
Q 047221          409 KGYFIFYR-YEDAYKYVVLSADK  430 (509)
Q Consensus       409 ~~~~~~g~-~~~A~~~~~~m~~~  430 (509)
                      -+-...|. .+...+.+.+++..
T Consensus       249 v~a~~~Gkd~~~~~r~l~QLk~~  271 (299)
T KOG3081|consen  249 VLALHLGKDAEVTERNLSQLKLS  271 (299)
T ss_pred             HHHHHhCCChHHHHHHHHHHHhc
Confidence            33333333 33344555555443

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.28  E-value=0.0029  Score=70.43  Aligned_cols=295  Identities=11%  Similarity=-0.002  Sum_probs=179.7

Q ss_pred             HhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCC------CCC--HHHHHHHHHHH
Q 047221          205 CGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGG------SCL--VSGVRALIEMF  276 (509)
Q Consensus       205 ~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~------~~~--~~~~~~li~~~  276 (509)
                      ....|+++.+...++.+.......+......... .....++.+++...+......--      .+.  ......+...+
T Consensus       384 l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~-~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~  462 (903)
T PRK04841        384 LFNQGELSLLEECLNALPWEVLLENPRLVLLQAW-LAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVA  462 (903)
T ss_pred             HHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHH-HHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHH
Confidence            4445667766666665522111111111111122 22345669999988887754311      111  12223344556


Q ss_pred             HhcCCHHHHHHHHHHc----CC-C----HHHHHHHHHHHHhcCCccHHHHHHHHHHHcCC---CC--ChHHHHHHHHHHH
Q 047221          277 SVLGLYEMAKYVIKKT----ER-K----VSYYNILIKEMCRRCDFKGPRDLLVEMRQVGC---EP--ITLTYNYVLGVLC  342 (509)
Q Consensus       277 ~~~g~~~~A~~~~~~m----~~-~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~---~p--~~~t~~~li~~~~  342 (509)
                      ...|++++|...+++.    +. +    ....+.+...+...|++++|...+.+.....-   .+  ...++..+...+.
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            7899999999998874    21 2    23456677778889999999999988764311   11  1234556667788


Q ss_pred             hcCChHHHHHHHHHHHhC----CCC--C-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHC--CCCC--CHHHHHHHHHHH
Q 047221          343 KNGQDADACELLEEMLGR----NCH--P-DAITYEIFIVYSCRVGKFDVAFNFFNQMVKR--GLQP--RLATHAAFIKGY  411 (509)
Q Consensus       343 ~~g~~~~a~~~~~~m~~~----g~~--p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--g~~p--~~~~~~~li~~~  411 (509)
                      ..|++++|...+++..+.    |..  + ....+..+...+...|++++|...+++....  ...+  ....+..+...+
T Consensus       543 ~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~  622 (903)
T PRK04841        543 AQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKIS  622 (903)
T ss_pred             HCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHH
Confidence            999999999998876542    221  1 2234445556677789999999999887543  1112  234455566778


Q ss_pred             HHcCCHHHHHHHHHHHHhCCCC-CCHHHH-----HHHHHHHHhCCChHHHHHHHHHHHHCCCCcCH---HHHHHHHHHHH
Q 047221          412 FIFYRYEDAYKYVVLSADKYKS-SSNMLY-----SLLASLHDKNNNPVMAKNVLSEMMKNGLRPNV---SVYRRVLKHLH  482 (509)
Q Consensus       412 ~~~g~~~~A~~~~~~m~~~~~~-p~~~~~-----~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~---~t~~~ll~~~~  482 (509)
                      ...|+.+.|.+.++........ .....+     ...+..+...|+.+.|.+++............   ..+..+..++.
T Consensus       623 ~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~  702 (903)
T PRK04841        623 LARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQI  702 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHH
Confidence            8899999999998887542111 011111     11224455689999999998776542211111   12345667788


Q ss_pred             hcCCHHHHHHHHHHHHhC
Q 047221          483 TSHQEHMAKCLSSRYSSL  500 (509)
Q Consensus       483 ~~g~~~~a~~~~~~m~~~  500 (509)
                      ..|++++|...+++....
T Consensus       703 ~~g~~~~A~~~l~~al~~  720 (903)
T PRK04841        703 LLGQFDEAEIILEELNEN  720 (903)
T ss_pred             HcCCHHHHHHHHHHHHHH
Confidence            999999999999887643

>PLN02789 farnesyltranstransferase

Probab=98.28  E-value=0.0013  Score=62.68  Aligned_cols=118  Identities=7%  Similarity=-0.097  Sum_probs=52.9

Q ss_pred             HhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCc--c
Q 047221          241 SSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLG-LYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDF--K  313 (509)
Q Consensus       241 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~--~  313 (509)
                      +...+..++|+.+..++.+.. +-+..+|+..-.++.+.| +++++...++++    +.+..+|+.....+.+.|+.  +
T Consensus        47 l~~~e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~  125 (320)
T PLN02789         47 YASDERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAAN  125 (320)
T ss_pred             HHcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhH
Confidence            334444555555555555432 222233443334444444 345555555443    23344444433333333331  3


Q ss_pred             HHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 047221          314 GPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGR  360 (509)
Q Consensus       314 ~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  360 (509)
                      +++++++++.+.. .-|..+|+....++.+.|+++++++.++++.+.
T Consensus       126 ~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~  171 (320)
T PLN02789        126 KELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEE  171 (320)
T ss_pred             HHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            4444444444433 334444554444445555555555555555444

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.26  E-value=0.0029  Score=56.49  Aligned_cols=86  Identities=17%  Similarity=0.167  Sum_probs=39.2

Q ss_pred             HHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCC
Q 047221          376 SCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFI----FYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNN  451 (509)
Q Consensus       376 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~  451 (509)
                      +.+..+.+-|.+.+++|.+-.   +..|.+.|..+|.+    .+.+.+|..+|++|.++ ..|+..+.+....++...|+
T Consensus       147 ~lk~~r~d~A~~~lk~mq~id---ed~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~  222 (299)
T KOG3081|consen  147 LLKMHRFDLAEKELKKMQQID---EDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGR  222 (299)
T ss_pred             HHHHHHHHHHHHHHHHHHccc---hHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcC
Confidence            334444555555555554432   33344444444433    13344455555554332 23444444444445555555


Q ss_pred             hHHHHHHHHHHHHC
Q 047221          452 PVMAKNVLSEMMKN  465 (509)
Q Consensus       452 ~~~a~~~~~~m~~~  465 (509)
                      +++|..++++..+.
T Consensus       223 ~eeAe~lL~eaL~k  236 (299)
T KOG3081|consen  223 YEEAESLLEEALDK  236 (299)
T ss_pred             HHHHHHHHHHHHhc
Confidence            55555555554443

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.24  E-value=0.00038  Score=70.04  Aligned_cols=168  Identities=14%  Similarity=0.102  Sum_probs=118.8

Q ss_pred             HHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCh
Q 047221          303 IKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKF  382 (509)
Q Consensus       303 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~  382 (509)
                      |.+-.....|.+|+.+++.+..+.  .-..-|..+...|+..|+++.|.++|-+.-         .++-.|.+|.+.|+|
T Consensus       739 ieaai~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw  807 (1636)
T KOG3616|consen  739 IEAAIGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKW  807 (1636)
T ss_pred             HHHHhhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccH
Confidence            345556678888888888887653  334457778888999999999999987532         355678899999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHH
Q 047221          383 DVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEM  462 (509)
Q Consensus       383 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  462 (509)
                      ++|.++-.+..  |.......|-+-..-.-++|++.+|+++|-.+.    .|+.     -|..|-+.|..++.+++.++-
T Consensus       808 ~da~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyiti~----~p~~-----aiqmydk~~~~ddmirlv~k~  876 (1636)
T KOG3616|consen  808 EDAFKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYITIG----EPDK-----AIQMYDKHGLDDDMIRLVEKH  876 (1636)
T ss_pred             HHHHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeEEcc----CchH-----HHHHHHhhCcchHHHHHHHHh
Confidence            99988876653  444456667777777788899999998884432    3444     467788999999999888765


Q ss_pred             HHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 047221          463 MKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSS  495 (509)
Q Consensus       463 ~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~  495 (509)
                      .-..+   ..|...+..-|-..|+...|++-|-
T Consensus       877 h~d~l---~dt~~~f~~e~e~~g~lkaae~~fl  906 (1636)
T KOG3616|consen  877 HGDHL---HDTHKHFAKELEAEGDLKAAEEHFL  906 (1636)
T ss_pred             Chhhh---hHHHHHHHHHHHhccChhHHHHHHH
Confidence            43222   2345555556666677777766553

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.22  E-value=5.4e-05  Score=74.14  Aligned_cols=220  Identities=9%  Similarity=-0.018  Sum_probs=162.9

Q ss_pred             HHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHH
Q 047221          274 EMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDAD  349 (509)
Q Consensus       274 ~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~  349 (509)
                      .-+.+.|++.+|.-.|+..    +.+...|..|...-..+++-..|+..+++..+.. +-|....-.|.-.|...|.-..
T Consensus       293 ~~lm~nG~L~~A~LafEAAVkqdP~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~~  371 (579)
T KOG1125|consen  293 CNLMKNGDLSEAALAFEAAVKQDPQHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQNQ  371 (579)
T ss_pred             HHHHhcCCchHHHHHHHHHHhhChHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHHH
Confidence            3456788899999999875    4568899999999999999999999999988764 4456777778888999999999


Q ss_pred             HHHHHHHHHhCCCC--------CCHHHHHHHHHHHHHcCChHHHHHHHHHHHH-CCCCCCHHHHHHHHHHHHHcCCHHHH
Q 047221          350 ACELLEEMLGRNCH--------PDAITYEIFIVYSCRVGKFDVAFNFFNQMVK-RGLQPRLATHAAFIKGYFIFYRYEDA  420 (509)
Q Consensus       350 a~~~~~~m~~~g~~--------p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-~g~~p~~~~~~~li~~~~~~g~~~~A  420 (509)
                      |++.++.-.....+        ++...-+.  +.........+..++|-++.. .+.++|..++..|--.|--.|++++|
T Consensus       372 Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdra  449 (579)
T KOG1125|consen  372 ALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRA  449 (579)
T ss_pred             HHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHH
Confidence            99998877553110        00000000  122223345556666666554 35457777888888888889999999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 047221          421 YKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVS-VYRRVLKHLHTSHQEHMAKCLSSRYSS  499 (509)
Q Consensus       421 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-t~~~ll~~~~~~g~~~~a~~~~~~m~~  499 (509)
                      ...|+...... +-|..+||-|...++...+.++|+..|++.++  ++|+.+ ....|.-+|...|.+++|.+.|=....
T Consensus       450 iDcf~~AL~v~-Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALq--LqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~  526 (579)
T KOG1125|consen  450 VDCFEAALQVK-PNDYLLWNRLGATLANGNRSEEAISAYNRALQ--LQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALS  526 (579)
T ss_pred             HHHHHHHHhcC-CchHHHHHHhhHHhcCCcccHHHHHHHHHHHh--cCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHH
Confidence            99999877653 23567899999999999999999999999987  667653 455566688999999999887765543

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.21  E-value=0.0011  Score=69.73  Aligned_cols=130  Identities=12%  Similarity=0.024  Sum_probs=62.5

Q ss_pred             hHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 047221          331 TLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPD-AITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIK  409 (509)
Q Consensus       331 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  409 (509)
                      ...+-.|.....+.|.+++|..+++...+.  .|| ......+...+.+.+++++|...+++..... +-+......+..
T Consensus        86 ~~~~~~La~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~~a~  162 (694)
T PRK15179         86 ELFQVLVARALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILLEAK  162 (694)
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHHHHH
Confidence            444445555555555555555555555443  232 3334444445555555555555555554432 123344444444


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 047221          410 GYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       410 ~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      ++.+.|+.++|..+|++....+ .-+..++..+..++-..|+.++|...|++..+
T Consensus       163 ~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~  216 (694)
T PRK15179        163 SWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLD  216 (694)
T ss_pred             HHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            5555555555555555554421 12234444455555555555555555555544

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.20  E-value=0.0068  Score=63.60  Aligned_cols=138  Identities=14%  Similarity=0.095  Sum_probs=73.3

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcC
Q 047221          266 VSGVRALIEMFSVLGLYEMAKYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNG  345 (509)
Q Consensus       266 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g  345 (509)
                      ..+|..+..+-...|.+.+|.+-|-+. .|...|--+|....+.|.|++-.+.+...++..-+|...  +.||-+|++.+
T Consensus      1104 p~vWsqlakAQL~~~~v~dAieSyika-dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~AyAkt~ 1180 (1666)
T KOG0985|consen 1104 PAVWSQLAKAQLQGGLVKDAIESYIKA-DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAYAKTN 1180 (1666)
T ss_pred             hHHHHHHHHHHHhcCchHHHHHHHHhc-CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHHHHhc
Confidence            345666666666666666666555433 344556666666666666666666666665555455443  35566666666


Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 047221          346 QDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYK  422 (509)
Q Consensus       346 ~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  422 (509)
                      ++.+.++.+.       .||......+-+-|...|.++.|.-+|..         +.-|..|...+...|+++.|..
T Consensus      1181 rl~elE~fi~-------gpN~A~i~~vGdrcf~~~~y~aAkl~y~~---------vSN~a~La~TLV~LgeyQ~AVD 1241 (1666)
T KOG0985|consen 1181 RLTELEEFIA-------GPNVANIQQVGDRCFEEKMYEAAKLLYSN---------VSNFAKLASTLVYLGEYQGAVD 1241 (1666)
T ss_pred             hHHHHHHHhc-------CCCchhHHHHhHHHhhhhhhHHHHHHHHH---------hhhHHHHHHHHHHHHHHHHHHH
Confidence            6554433321       24444444444444444544444444432         2234444444555555544443

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.19  E-value=2.8e-06  Score=51.67  Aligned_cols=33  Identities=24%  Similarity=0.356  Sum_probs=18.8

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcC
Q 047221          438 LYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPN  470 (509)
Q Consensus       438 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  470 (509)
                      +||++|.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            455555555555555555555555555555554

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.

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.18  E-value=0.0004  Score=73.77  Aligned_cols=232  Identities=6%  Similarity=-0.048  Sum_probs=125.8

Q ss_pred             HHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHcCCCHHHHHHHHHHHHhc
Q 047221          230 EKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTERKVSYYNILIKEMCRR  309 (509)
Q Consensus       230 ~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~li~~~~~~  309 (509)
                      ...+..|+..+. ..+++++|.++.+...+.. +-....|-.+...|...++.+++..+            .++......
T Consensus        31 ~~a~~~Li~~~~-~~~~~deai~i~~~~l~~~-P~~i~~yy~~G~l~~q~~~~~~~~lv------------~~l~~~~~~   96 (906)
T PRK14720         31 FKELDDLIDAYK-SENLTDEAKDICEEHLKEH-KKSISALYISGILSLSRRPLNDSNLL------------NLIDSFSQN   96 (906)
T ss_pred             HHHHHHHHHHHH-hcCCHHHHHHHHHHHHHhC-CcceehHHHHHHHHHhhcchhhhhhh------------hhhhhcccc
Confidence            344555555332 3344666666666444432 11222233333355555555444433            233333333


Q ss_pred             CCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHH
Q 047221          310 CDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFF  389 (509)
Q Consensus       310 g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~  389 (509)
                      .++.-+..+...|...  .-+...+-.+..+|-+.|+.++|..+++++.+.. +-|..+.|.+.-.|+.. ++++|++++
T Consensus        97 ~~~~~ve~~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~  172 (906)
T PRK14720         97 LKWAIVEHICDKILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYL  172 (906)
T ss_pred             cchhHHHHHHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHH
Confidence            3443333333444432  2233466777778888888888888888888875 44677778887778777 888888887


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHH---H--HcCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHH
Q 047221          390 NQMVKRGLQPRLATHAAFIKGY---F--IFYRYEDAYKYVVLSADK-YKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMM  463 (509)
Q Consensus       390 ~~m~~~g~~p~~~~~~~li~~~---~--~~g~~~~A~~~~~~m~~~-~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  463 (509)
                      .+.+..-+  +..-|+.+...+   +  ...+++.-.++.+.+... |..--..++-.+-..|-...++++++++++...
T Consensus       173 ~KAV~~~i--~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL  250 (906)
T PRK14720        173 KKAIYRFI--KKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKIL  250 (906)
T ss_pred             HHHHHHHH--hhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHH
Confidence            77665410  111112111111   1  112233333333333332 333344556666677778888888888888888


Q ss_pred             HCCCCcCHHHHHHHHHHHH
Q 047221          464 KNGLRPNVSVYRRVLKHLH  482 (509)
Q Consensus       464 ~~g~~p~~~t~~~ll~~~~  482 (509)
                      +.. .-|.....-++..|.
T Consensus       251 ~~~-~~n~~a~~~l~~~y~  268 (906)
T PRK14720        251 EHD-NKNNKAREELIRFYK  268 (906)
T ss_pred             hcC-CcchhhHHHHHHHHH
Confidence            753 225556666666665

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.17  E-value=0.00099  Score=70.03  Aligned_cols=143  Identities=8%  Similarity=-0.078  Sum_probs=110.1

Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHH
Q 047221          262 GSCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYV  337 (509)
Q Consensus       262 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l  337 (509)
                      .+.+...+-.|.......|.+++|+.+++..    +.+...+..+...+.+.+++++|+..+++..... +-+......+
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~~  160 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILLE  160 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHHH
Confidence            3455778888888888999999999988885    4457778888888999999999999999888763 3344555677


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHH
Q 047221          338 LGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAF  407 (509)
Q Consensus       338 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  407 (509)
                      ..++.+.|++++|..+|++.... .+-+..++..+-.++-+.|+.++|...|++..+.. .+....|+..
T Consensus       161 a~~l~~~g~~~~A~~~y~~~~~~-~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~-~~~~~~~~~~  228 (694)
T PRK15179        161 AKSWDEIGQSEQADACFERLSRQ-HPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAI-GDGARKLTRR  228 (694)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhc-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh-CcchHHHHHH
Confidence            77788889999999999998874 23347788888888888899999999999887652 3344454433

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.16  E-value=0.00025  Score=63.03  Aligned_cols=120  Identities=10%  Similarity=-0.025  Sum_probs=47.0

Q ss_pred             HHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcC
Q 047221          301 ILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVG  380 (509)
Q Consensus       301 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  380 (509)
                      ..+....+.|++.+|+..|++..... ++|..+|+.+--+|.+.|+.+.|..-|.+..+.- .-+...+|.|.-.|.-.|
T Consensus       105 ~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~-~~~p~~~nNlgms~~L~g  182 (257)
T COG5010         105 AQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQLGRFDEARRAYRQALELA-PNEPSIANNLGMSLLLRG  182 (257)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHccChhHHHHHHHHHHHhc-cCCchhhhhHHHHHHHcC
Confidence            34444444444444444444443322 3344444444444444444444444444433321 112223333333333344


Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 047221          381 KFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKY  423 (509)
Q Consensus       381 ~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  423 (509)
                      +.+.|..++......+.. |..+-..|.-.....|++++|..+
T Consensus       183 d~~~A~~lll~a~l~~~a-d~~v~~NLAl~~~~~g~~~~A~~i  224 (257)
T COG5010         183 DLEDAETLLLPAYLSPAA-DSRVRQNLALVVGLQGDFREAEDI  224 (257)
T ss_pred             CHHHHHHHHHHHHhCCCC-chHHHHHHHHHHhhcCChHHHHhh
Confidence            444444444443333211 223333333344444444444443

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.16  E-value=3.2e-06  Score=51.04  Aligned_cols=33  Identities=15%  Similarity=0.287  Sum_probs=31.3

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHHHHhhhCCCcc
Q 047221          196 DICSLVIDNCGRLDDYETMRQLLNDFNVYQVCL  228 (509)
Q Consensus       196 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p  228 (509)
                      ++||.+|.+|++.|+++.|.++|++|.+.|++|
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            489999999999999999999999999999987

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

Probab=98.15  E-value=0.012  Score=59.03  Aligned_cols=361  Identities=11%  Similarity=0.037  Sum_probs=211.4

Q ss_pred             hHhHHHHHHHHhc-----CCchHHHHHHhCCCCCCHHHHHHHHHHHhcCCchHHHHHHHhhccCCCCccChhHHHHHHHH
Q 047221          130 PKQVSEIIELLRS-----GDSETESKLLSMSVSLSNASVIEILRVLNSEKVSALCFLKYMREIMPEFYKNSDICSLVIDN  204 (509)
Q Consensus       130 ~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~~~ll~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~li~~  204 (509)
                      ...+..++..++.     +-..+...|.+.+-+++.-..--+.-.+....++|......-....+   ++.+.|..+.-.
T Consensus         8 ~~lF~~~lk~yE~kQYkkgLK~~~~iL~k~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~---~S~vCwHv~gl~   84 (700)
T KOG1156|consen    8 NALFRRALKCYETKQYKKGLKLIKQILKKFPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDL---KSHVCWHVLGLL   84 (700)
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHhCCccchhHHhccchhhcccchHHHHHHHHHHhccCc---ccchhHHHHHHH
Confidence            3456667776663     22334445555555555444433333333333466666655533222   355588888877


Q ss_pred             HhccCCHHHHHHHHHHhhhCCCccCHH-HHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHH
Q 047221          205 CGRLDDYETMRQLLNDFNVYQVCLNEK-AFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYE  283 (509)
Q Consensus       205 ~~~~g~~~~A~~l~~~m~~~~~~p~~~-~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~  283 (509)
                      +...+++++|++.|......  .||.. .+.-+-- .-.+.++++........+.+.. +.....|..+..++.-.|+..
T Consensus        85 ~R~dK~Y~eaiKcy~nAl~~--~~dN~qilrDlsl-LQ~QmRd~~~~~~tr~~LLql~-~~~ra~w~~~Avs~~L~g~y~  160 (700)
T KOG1156|consen   85 QRSDKKYDEAIKCYRNALKI--EKDNLQILRDLSL-LQIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVAQHLLGEYK  160 (700)
T ss_pred             HhhhhhHHHHHHHHHHHHhc--CCCcHHHHHHHHH-HHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHH
Confidence            88888899999999988654  35543 3322222 2233444665555555555432 334456778888888889999


Q ss_pred             HHHHHHHHc------CCCHHHHHHHHHH------HHhcCCccHHHHHHHHHHHcCCCCChHHH-HHHHHHHHhcCChHHH
Q 047221          284 MAKYVIKKT------ERKVSYYNILIKE------MCRRCDFKGPRDLLVEMRQVGCEPITLTY-NYVLGVLCKNGQDADA  350 (509)
Q Consensus       284 ~A~~~~~~m------~~~~~~~~~li~~------~~~~g~~~~A~~~~~~m~~~g~~p~~~t~-~~li~~~~~~g~~~~a  350 (509)
                      .|..++++.      .++...|.-....      ..+.|..++|++.+..-...  ..|...+ .+-...+.+.+++++|
T Consensus       161 ~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~--i~Dkla~~e~ka~l~~kl~~lEeA  238 (700)
T KOG1156|consen  161 MALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ--IVDKLAFEETKADLLMKLGQLEEA  238 (700)
T ss_pred             HHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH--HHHHHHHhhhHHHHHHHHhhHHhH
Confidence            999888775      2555555444443      23456777777776655543  3344444 3455667889999999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHH-HHHHHcCChHHHH-HHHHHHHHC---CCCC-----C--------------------
Q 047221          351 CELLEEMLGRNCHPDAITYEIFI-VYSCRVGKFDVAF-NFFNQMVKR---GLQP-----R--------------------  400 (509)
Q Consensus       351 ~~~~~~m~~~g~~p~~~~~~~li-~~~~~~g~~~~a~-~~~~~m~~~---g~~p-----~--------------------  400 (509)
                      ..++..+...  .||..-|.-.+ .++.+-.+.-++. .+|....+.   .-.|     +                    
T Consensus       239 ~~~y~~Ll~r--nPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~  316 (700)
T KOG1156|consen  239 VKVYRRLLER--NPDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRRLPLSVLNGEELKEIVDKYLRPLLS  316 (700)
T ss_pred             HHHHHHHHhh--CchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchhccHHHhCcchhHHHHHHHHHHHhh
Confidence            9999999887  57766655554 4554454555555 666655432   1011     0                    


Q ss_pred             ---HHHHHHHHHHHHHcCCHHHHHHH----HHHHHhCCC----------CCCHH--HHHHHHHHHHhCCChHHHHHHHHH
Q 047221          401 ---LATHAAFIKGYFIFYRYEDAYKY----VVLSADKYK----------SSSNM--LYSLLASLHDKNNNPVMAKNVLSE  461 (509)
Q Consensus       401 ---~~~~~~li~~~~~~g~~~~A~~~----~~~m~~~~~----------~p~~~--~~~~li~~~~~~g~~~~a~~~~~~  461 (509)
                         ..++..+...|-.-...+-..++    ...+...|.          .|...  |+-.++..|-+.|+++.|..+++.
T Consensus       317 Kg~p~vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~  396 (700)
T KOG1156|consen  317 KGVPSVFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDL  396 (700)
T ss_pred             cCCCchhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHH
Confidence               00122222222211111111111    111111111          33333  455678888999999999999999


Q ss_pred             HHHCCCCcCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 047221          462 MMKNGLRPNVS-VYRRVLKHLHTSHQEHMAKCLSSRYSSLSLG  503 (509)
Q Consensus       462 m~~~g~~p~~~-t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~  503 (509)
                      .++  -.|+.+ .|..=.+.+.+.|+.++|...+++..+.+..
T Consensus       397 AId--HTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~a  437 (700)
T KOG1156|consen  397 AID--HTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTA  437 (700)
T ss_pred             Hhc--cCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccch
Confidence            886  456543 4555557889999999999999998877643

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.14  E-value=8.3e-05  Score=74.78  Aligned_cols=212  Identities=12%  Similarity=-0.010  Sum_probs=141.8

Q ss_pred             HHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 047221          199 SLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSV  278 (509)
Q Consensus       199 ~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  278 (509)
                      -.+...+...|-...|..+|++..         .|.-++.+|+ ..|+..+|..+..+..+  -+||...|..+.+....
T Consensus       402 ~~laell~slGitksAl~I~Erle---------mw~~vi~CY~-~lg~~~kaeei~~q~le--k~~d~~lyc~LGDv~~d  469 (777)
T KOG1128|consen  402 RLLAELLLSLGITKSALVIFERLE---------MWDPVILCYL-LLGQHGKAEEINRQELE--KDPDPRLYCLLGDVLHD  469 (777)
T ss_pred             HHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHH-HhcccchHHHHHHHHhc--CCCcchhHHHhhhhccC
Confidence            445566777788888888887652         4555555333 34457777777777666  46777778888887777


Q ss_pred             cCCHHHHHHHHHHcCCC-HHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHH
Q 047221          279 LGLYEMAKYVIKKTERK-VSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEM  357 (509)
Q Consensus       279 ~g~~~~A~~~~~~m~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m  357 (509)
                      ...++.|.++++..... ...|+   ....+.++++++.+.|+.-.+.. ..-..+|-.+-.++.+.++++.|.+.|..-
T Consensus       470 ~s~yEkawElsn~~sarA~r~~~---~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av~aF~rc  545 (777)
T KOG1128|consen  470 PSLYEKAWELSNYISARAQRSLA---LLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAVKAFHRC  545 (777)
T ss_pred             hHHHHHHHHHhhhhhHHHHHhhc---cccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHHHHHHHH
Confidence            77778887777664211 11111   11223677778888777655443 345567777777777888888888887776


Q ss_pred             HhCCCCCC-HHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 047221          358 LGRNCHPD-AITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSAD  429 (509)
Q Consensus       358 ~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  429 (509)
                      ...  .|| ...||.+-.+|.+.|+..+|...+++..+.+ .-+...|-.-+..-.+.|.+++|.+.+.++.+
T Consensus       546 vtL--~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  546 VTL--EPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             hhc--CCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHH
Confidence            654  343 5568888888888888888888888877776 33445566666666777888888887777664

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.14  E-value=0.00069  Score=59.97  Aligned_cols=119  Identities=12%  Similarity=0.066  Sum_probs=72.8

Q ss_pred             cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH-HHHcCC--HHHH
Q 047221          344 NGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKG-YFIFYR--YEDA  420 (509)
Q Consensus       344 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~-~~~~g~--~~~A  420 (509)
                      .++.+++...++...+.. +.|...|..+...|...|++++|...|++..+.. +-+...+..+..+ |...|+  .++|
T Consensus        52 ~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         52 QQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHH
Confidence            445555555555555442 3456666666677777777777777777666553 2245556666654 345555  3677


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHC
Q 047221          421 YKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKN  465 (509)
Q Consensus       421 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  465 (509)
                      .+++++..+.+.. +...+..+...+.+.|++++|+..|+++.+.
T Consensus       130 ~~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l  173 (198)
T PRK10370        130 REMIDKALALDAN-EVTALMLLASDAFMQADYAQAIELWQKVLDL  173 (198)
T ss_pred             HHHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            7777776665432 4455666666677777777777777777664

>PLN02789 farnesyltranstransferase

Probab=98.13  E-value=0.0039  Score=59.41  Aligned_cols=212  Identities=5%  Similarity=-0.090  Sum_probs=130.9

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHH-HHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 047221          196 DICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEK-AFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIE  274 (509)
Q Consensus       196 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~-~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  274 (509)
                      .+++.+-..+...++.++|+.+.+++.+.  .|+.. .|+.--.+....+..+++++..++.+.+.. +-+..+|+....
T Consensus        38 ~a~~~~ra~l~~~e~serAL~lt~~aI~l--nP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~  114 (320)
T PLN02789         38 EAMDYFRAVYASDERSPRALDLTADVIRL--NPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRW  114 (320)
T ss_pred             HHHHHHHHHHHcCCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHH
Confidence            36666777777888899999999988654  34443 333333322222324788888888888765 334445665555


Q ss_pred             HHHhcCCH--HHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhc---C
Q 047221          275 MFSVLGLY--EMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKN---G  345 (509)
Q Consensus       275 ~~~~~g~~--~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~---g  345 (509)
                      .+.+.|+.  +++..+++++    +.|..+|+...-.+.+.|+++++++.++++.+.+ .-|...|+.....+.+.   |
T Consensus       115 ~l~~l~~~~~~~el~~~~kal~~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d-~~N~sAW~~R~~vl~~~~~l~  193 (320)
T PLN02789        115 LAEKLGPDAANKELEFTRKILSLDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEED-VRNNSAWNQRYFVITRSPLLG  193 (320)
T ss_pred             HHHHcCchhhHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHC-CCchhHHHHHHHHHHhccccc
Confidence            55666652  5666666665    5678889888888888899999999999998876 45666777665555444   2


Q ss_pred             Ch----HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHc----CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Q 047221          346 QD----ADACELLEEMLGRNCHPDAITYEIFIVYSCRV----GKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFI  413 (509)
Q Consensus       346 ~~----~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~----g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  413 (509)
                      ..    +++.....++... .+-|...|+-+...+...    +...+|...+.+..+.+ ..+......|++.|+.
T Consensus       194 ~~~~~~e~el~y~~~aI~~-~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~~  267 (320)
T PLN02789        194 GLEAMRDSELKYTIDAILA-NPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLCE  267 (320)
T ss_pred             cccccHHHHHHHHHHHHHh-CCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHHh
Confidence            22    3445555444443 233455666666666552    23345666666655432 2244555556666653

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.12  E-value=0.00096  Score=68.12  Aligned_cols=289  Identities=13%  Similarity=0.075  Sum_probs=161.4

Q ss_pred             CCHHHHHHHHHH--HhcCCc--hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhC-C-------
Q 047221          158 LSNASVIEILRV--LNSEKV--SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVY-Q-------  225 (509)
Q Consensus       158 ~~~~~~~~ll~~--~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~-~-------  225 (509)
                      -|+.|-.++++.  |...|.  .|.+-.+.+        .+..+|..|.+.|.+..+++-|.-.+..|... |       
T Consensus       724 Cd~~TRkaml~FSfyvtiG~MD~AfksI~~I--------kS~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a  795 (1416)
T KOG3617|consen  724 CDESTRKAMLDFSFYVTIGSMDAAFKSIQFI--------KSDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRA  795 (1416)
T ss_pred             cCHHHHHhhhceeEEEEeccHHHHHHHHHHH--------hhhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHH
Confidence            345555555553  344553  566655555        23338999999999999999888888877543 1       


Q ss_pred             -CccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHcCC--CHHHHHHH
Q 047221          226 -VCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTER--KVSYYNIL  302 (509)
Q Consensus       226 -~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~~~~~~~l  302 (509)
                       ..|+....  -+...+..-|.+++|..++++..+         |..|=..|-..|.+++|.++-+.-.+  =..||..-
T Consensus       796 ~q~~~e~ea--kvAvLAieLgMlEeA~~lYr~ckR---------~DLlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~y  864 (1416)
T KOG3617|consen  796 QQNGEEDEA--KVAVLAIELGMLEEALILYRQCKR---------YDLLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNY  864 (1416)
T ss_pred             HhCCcchhh--HHHHHHHHHhhHHHHHHHHHHHHH---------HHHHHHHHHhcccHHHHHHHHhhccceehhhhHHHH
Confidence             12322111  111123345669999999999887         45666778889999999988765321  12455555


Q ss_pred             HHHHHhcCCccHHHHHHHHHH----------HcC---------CCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCC
Q 047221          303 IKEMCRRCDFKGPRDLLVEMR----------QVG---------CEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCH  363 (509)
Q Consensus       303 i~~~~~~g~~~~A~~~~~~m~----------~~g---------~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  363 (509)
                      ...+-..++++.|++.|++-.          ...         -..|...|.--..-.-..|+++.|+.+|....+    
T Consensus       865 A~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D----  940 (1416)
T KOG3617|consen  865 AKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD----  940 (1416)
T ss_pred             HHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh----
Confidence            555666777777777776432          111         011122222222222344555555555554432    


Q ss_pred             CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 047221          364 PDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLA  443 (509)
Q Consensus       364 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li  443 (509)
                           |-++++..|-.|+.++|-++-++-   |   |....-.|...|-..|++.+|..+|.+..         ++..-|
T Consensus       941 -----~fs~VrI~C~qGk~~kAa~iA~es---g---d~AAcYhlaR~YEn~g~v~~Av~FfTrAq---------afsnAI 1000 (1416)
T KOG3617|consen  941 -----YFSMVRIKCIQGKTDKAARIAEES---G---DKAACYHLARMYENDGDVVKAVKFFTRAQ---------AFSNAI 1000 (1416)
T ss_pred             -----hhhheeeEeeccCchHHHHHHHhc---c---cHHHHHHHHHHhhhhHHHHHHHHHHHHHH---------HHHHHH
Confidence                 345555556666666666655432   2   55555556667777777777777765442         344445


Q ss_pred             HHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcC-CHHHHHHHHHH
Q 047221          444 SLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSH-QEHMAKCLSSR  496 (509)
Q Consensus       444 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g-~~~~a~~~~~~  496 (509)
                      ..|-.++.-++ +.-+..|.      ...-.....+.|-..| ..+.|..++.+
T Consensus      1001 RlcKEnd~~d~-L~nlal~s------~~~d~v~aArYyEe~g~~~~~AVmLYHk 1047 (1416)
T KOG3617|consen 1001 RLCKENDMKDR-LANLALMS------GGSDLVSAARYYEELGGYAHKAVMLYHK 1047 (1416)
T ss_pred             HHHHhcCHHHH-HHHHHhhc------CchhHHHHHHHHHHcchhhhHHHHHHHh
Confidence            44433333222 22222221      1112333445555555 77777777754

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.12  E-value=0.00056  Score=60.52  Aligned_cols=120  Identities=8%  Similarity=0.018  Sum_probs=72.7

Q ss_pred             cCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHH-HHHcCC--hHHH
Q 047221          309 RCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVY-SCRVGK--FDVA  385 (509)
Q Consensus       309 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~-~~~~g~--~~~a  385 (509)
                      .++.+++...++...+.. +.|...|..+...|...|++++|...|++..+.. +-+...+..+..+ +...|+  .++|
T Consensus        52 ~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         52 QQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHH
Confidence            344455555555555443 4556666666667777777777777777666652 2245555555554 345555  3677


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 047221          386 FNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKY  431 (509)
Q Consensus       386 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  431 (509)
                      .+++++..+.+ +-+..++..+...+.+.|++++|...|+++.+..
T Consensus       130 ~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~  174 (198)
T PRK10370        130 REMIDKALALD-ANEVTALMLLASDAFMQADYAQAIELWQKVLDLN  174 (198)
T ss_pred             HHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            77777766653 2245566666666677777777777777766543

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.10  E-value=0.0011  Score=70.56  Aligned_cols=230  Identities=8%  Similarity=0.022  Sum_probs=135.1

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 047221          194 NSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALI  273 (509)
Q Consensus       194 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  273 (509)
                      +...|..|+..+...+++++|.++.+...+  ..|+...+-.+......+.+...++..+                 .++
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~--~~P~~i~~yy~~G~l~~q~~~~~~~~lv-----------------~~l   90 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLK--EHKKSISALYISGILSLSRRPLNDSNLL-----------------NLI   90 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHH--hCCcceehHHHHHHHHHhhcchhhhhhh-----------------hhh
Confidence            445888889988889999999988885543  3466555554444333333333333333                 233


Q ss_pred             HHHHhcCCHHHHHHHHHHc---CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHH
Q 047221          274 EMFSVLGLYEMAKYVIKKT---ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADA  350 (509)
Q Consensus       274 ~~~~~~g~~~~A~~~~~~m---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a  350 (509)
                      .......++.....+.+.|   ..+..++-.+..+|-+.|+.++|..+++++.+.. .-|..+.|.+...|... ++++|
T Consensus        91 ~~~~~~~~~~~ve~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA  168 (906)
T PRK14720         91 DSFSQNLKWAIVEHICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKA  168 (906)
T ss_pred             hhcccccchhHHHHHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHH
Confidence            3333333443333333333   3344566677777777777777777777777765 55667777777777777 77777


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHH---H--HcCChHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 047221          351 CELLEEMLGRNCHPDAITYEIFIVYS---C--RVGKFDVAFNFFNQMVKR-GLQPRLATHAAFIKGYFIFYRYEDAYKYV  424 (509)
Q Consensus       351 ~~~~~~m~~~g~~p~~~~~~~li~~~---~--~~g~~~~a~~~~~~m~~~-g~~p~~~~~~~li~~~~~~g~~~~A~~~~  424 (509)
                      .+++....+.-+  +..-|+.+...+   +  ...+.+.-.++.+.+... |..--+.++-.+...|....+++++..++
T Consensus       169 ~~m~~KAV~~~i--~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iL  246 (906)
T PRK14720        169 ITYLKKAIYRFI--KKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYIL  246 (906)
T ss_pred             HHHHHHHHHHHH--hhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHH
Confidence            777776655410  111122221111   1  112333333333333332 32333455666778888999999999999


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHH
Q 047221          425 VLSADKYKSSSNMLYSLLASLHD  447 (509)
Q Consensus       425 ~~m~~~~~~p~~~~~~~li~~~~  447 (509)
                      +.+.+..-. |.....-++.+|.
T Consensus       247 K~iL~~~~~-n~~a~~~l~~~y~  268 (906)
T PRK14720        247 KKILEHDNK-NNKAREELIRFYK  268 (906)
T ss_pred             HHHHhcCCc-chhhHHHHHHHHH
Confidence            999887543 4555566666665

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.07  E-value=0.007  Score=58.77  Aligned_cols=137  Identities=13%  Similarity=0.051  Sum_probs=68.6

Q ss_pred             HHhcCCccHHHHHHHHHHHcCCCCCh-HHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHHcCChH
Q 047221          306 MCRRCDFKGPRDLLVEMRQVGCEPIT-LTYNYVLGVLCKNGQDADACELLEEMLGRNCHPD-AITYEIFIVYSCRVGKFD  383 (509)
Q Consensus       306 ~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~  383 (509)
                      +...|+.++|+..++.+...  .||. .-+......+.+.++.++|.+.++.+...  .|+ ....-.+-.+|.+.|++.
T Consensus       316 ~~~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~  391 (484)
T COG4783         316 TYLAGQYDEALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQ  391 (484)
T ss_pred             HHHhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChH
Confidence            33445555555555555544  3332 22233444555555555555555555554  233 333344445555555555


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHH
Q 047221          384 VAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMM  463 (509)
Q Consensus       384 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  463 (509)
                      +|..+++..... .+-|...|..|..+|...|+..+|..-.                  ..+|...|++++|+..+....
T Consensus       392 eai~~L~~~~~~-~p~dp~~w~~LAqay~~~g~~~~a~~A~------------------AE~~~~~G~~~~A~~~l~~A~  452 (484)
T COG4783         392 EAIRILNRYLFN-DPEDPNGWDLLAQAYAELGNRAEALLAR------------------AEGYALAGRLEQAIIFLMRAS  452 (484)
T ss_pred             HHHHHHHHHhhc-CCCCchHHHHHHHHHHHhCchHHHHHHH------------------HHHHHhCCCHHHHHHHHHHHH
Confidence            555555554443 2334555555555555555555544333                  223334555566655555554


Q ss_pred             HC
Q 047221          464 KN  465 (509)
Q Consensus       464 ~~  465 (509)
                      +.
T Consensus       453 ~~  454 (484)
T COG4783         453 QQ  454 (484)
T ss_pred             Hh
Confidence            43

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.06  E-value=0.007  Score=58.77  Aligned_cols=177  Identities=13%  Similarity=0.048  Sum_probs=116.3

Q ss_pred             CCHHHHHHHHHHcC-------CCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHH
Q 047221          280 GLYEMAKYVIKKTE-------RKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACE  352 (509)
Q Consensus       280 g~~~~A~~~~~~m~-------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~  352 (509)
                      .++.+++..-++++       ++...+...+.+......-..+..++.+-.+.+  -...-|..-+ .+...|++++|+.
T Consensus       251 ~RIa~lr~ra~q~p~~~~~d~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~--~~aa~YG~A~-~~~~~~~~d~A~~  327 (484)
T COG4783         251 ERIADLRNRAEQSPPYNKLDSPDFQLARARIRAKYEALPNQQAADLLAKRSKRG--GLAAQYGRAL-QTYLAGQYDEALK  327 (484)
T ss_pred             hHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHhccccccchHHHHHHHhCcc--chHHHHHHHH-HHHHhcccchHHH
Confidence            35555555555552       344555555555444443333333333333211  1122233333 4557788889999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 047221          353 LLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPR-LATHAAFIKGYFIFYRYEDAYKYVVLSADKY  431 (509)
Q Consensus       353 ~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  431 (509)
                      .++.+.+. .+-|...+......+.+.++.++|.+.++.+...  .|+ ...+-.+..+|.+.|+..+|..++++.....
T Consensus       328 ~l~~L~~~-~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~~  404 (484)
T COG4783         328 LLQPLIAA-QPDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFND  404 (484)
T ss_pred             HHHHHHHh-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhcC
Confidence            98888776 3445556666678888889999999999888866  455 4556667888888899998888888776543


Q ss_pred             CCCCHHHHHHHHHHHHhCCChHHHHHHHHHHH
Q 047221          432 KSSSNMLYSLLASLHDKNNNPVMAKNVLSEMM  463 (509)
Q Consensus       432 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  463 (509)
                       +-|...|..|..+|...|+..++..-..++.
T Consensus       405 -p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~  435 (484)
T COG4783         405 -PEDPNGWDLLAQAYAELGNRAEALLARAEGY  435 (484)
T ss_pred             -CCCchHHHHHHHHHHHhCchHHHHHHHHHHH
Confidence             4577788889999999888888877766654

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.05  E-value=0.00043  Score=57.90  Aligned_cols=100  Identities=13%  Similarity=0.049  Sum_probs=64.9

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 047221          369 YEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDK  448 (509)
Q Consensus       369 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~  448 (509)
                      +..+...+.+.|++++|...|+...... +.+...|..+..++.+.|++++|...|++..... ..+...+..+..++..
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~  104 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKM  104 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHH
Confidence            4445556667777777777777766553 3356666777777777777777777777776543 2355566667777777


Q ss_pred             CCChHHHHHHHHHHHHCCCCcCHH
Q 047221          449 NNNPVMAKNVLSEMMKNGLRPNVS  472 (509)
Q Consensus       449 ~g~~~~a~~~~~~m~~~g~~p~~~  472 (509)
                      .|+.++|++.|+...+  +.|+..
T Consensus       105 ~g~~~eAi~~~~~Al~--~~p~~~  126 (144)
T PRK15359        105 MGEPGLAREAFQTAIK--MSYADA  126 (144)
T ss_pred             cCCHHHHHHHHHHHHH--hCCCCh
Confidence            7777777777777665  345443

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.04  E-value=0.0018  Score=57.67  Aligned_cols=166  Identities=13%  Similarity=0.039  Sum_probs=121.7

Q ss_pred             CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHH
Q 047221          293 ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIF  372 (509)
Q Consensus       293 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  372 (509)
                      +.|... ..+-..+...|+-+....+........ .-|....+..+....+.|++..|...|.+.... -++|...|+.+
T Consensus        64 p~d~~i-~~~a~a~~~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l-~p~d~~~~~~l  140 (257)
T COG5010          64 PEDLSI-AKLATALYLRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAARL-APTDWEAWNLL  140 (257)
T ss_pred             cchHHH-HHHHHHHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhcc-CCCChhhhhHH
Confidence            334444 556667777788777777776654321 334445566888888899999999999888765 46788889999


Q ss_pred             HHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCh
Q 047221          373 IVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNP  452 (509)
Q Consensus       373 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  452 (509)
                      --+|.+.|+.++|..-|.+..+-.. -+...+|.|.-.|.-.|+.+.|..++......+.. |...-..+.-.....|++
T Consensus       141 gaaldq~Gr~~~Ar~ay~qAl~L~~-~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~a-d~~v~~NLAl~~~~~g~~  218 (257)
T COG5010         141 GAALDQLGRFDEARRAYRQALELAP-NEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAA-DSRVRQNLALVVGLQGDF  218 (257)
T ss_pred             HHHHHHccChhHHHHHHHHHHHhcc-CCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCC-chHHHHHHHHHHhhcCCh
Confidence            9999999999999999988876622 24556777777788889999999998887766533 444556677778888999


Q ss_pred             HHHHHHHHHHH
Q 047221          453 VMAKNVLSEMM  463 (509)
Q Consensus       453 ~~a~~~~~~m~  463 (509)
                      ++|.++-..-.
T Consensus       219 ~~A~~i~~~e~  229 (257)
T COG5010         219 REAEDIAVQEL  229 (257)
T ss_pred             HHHHhhccccc
Confidence            99888765543

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=97.99  E-value=0.021  Score=56.21  Aligned_cols=342  Identities=12%  Similarity=0.126  Sum_probs=202.2

Q ss_pred             CCCCHHHHHHHHHHHhcCC-chHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHH
Q 047221          156 VSLSNASVIEILRVLNSEK-VSALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFG  234 (509)
Q Consensus       156 ~~~~~~~~~~ll~~~~~~~-~~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~  234 (509)
                      .+-|..+|..+|+-+...+ +++++.++++.+.-|...   ..|..-|..-.+.++++..+.+|.+.+..-+  +...|.
T Consensus        16 nP~di~sw~~lire~qt~~~~~~R~~YEq~~~~FP~s~---r~W~~yi~~El~skdfe~VEkLF~RCLvkvL--nlDLW~   90 (656)
T KOG1914|consen   16 NPYDIDSWSQLIREAQTQPIDKVRETYEQLVNVFPSSP---RAWKLYIERELASKDFESVEKLFSRCLVKVL--NLDLWK   90 (656)
T ss_pred             CCccHHHHHHHHHHHccCCHHHHHHHHHHHhccCCCCc---HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHh--hHhHHH
Confidence            4567889999999998776 489999999988888644   4899999999999999999999999876644  567777


Q ss_pred             HHHHHHHhccCCHHH----HHHHHHH-HHHcCCCCCH-HHHHHHHHH---------HHhcCCHHHHHHHHHHcC--C--C
Q 047221          235 FLPVLISSKALTKKG----IWRVVEV-LNQVGGSCLV-SGVRALIEM---------FSVLGLYEMAKYVIKKTE--R--K  295 (509)
Q Consensus       235 ~ll~~~~~~~~~~~~----a~~~~~~-m~~~g~~~~~-~~~~~li~~---------~~~~g~~~~A~~~~~~m~--~--~  295 (509)
                      ..|.-.....+....    ..+.|+- +.+.|..+-. ..|+..+.-         |....+++..+++++++-  |  +
T Consensus        91 lYl~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~n  170 (656)
T KOG1914|consen   91 LYLSYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMHN  170 (656)
T ss_pred             HHHHHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCcccc
Confidence            778733333333333    3334443 3345644433 234444433         444456777888888862  2  1


Q ss_pred             -------HHHHHHHHHHHH-------hcCCccHHHHHHHHHHH--cCCCCChHH---------------HHHHHH-----
Q 047221          296 -------VSYYNILIKEMC-------RRCDFKGPRDLLVEMRQ--VGCEPITLT---------------YNYVLG-----  339 (509)
Q Consensus       296 -------~~~~~~li~~~~-------~~g~~~~A~~~~~~m~~--~g~~p~~~t---------------~~~li~-----  339 (509)
                             -..|-.=|+...       +...+..|.++++++..  .|+..+..+               |-.+|.     
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                   111211111111       12234455555555542  232211111               211111     


Q ss_pred             --------------------------------------------HHHhcCCh-------HHHHHHHHHHHhCCCCCCHHH
Q 047221          340 --------------------------------------------VLCKNGQD-------ADACELLEEMLGRNCHPDAIT  368 (509)
Q Consensus       340 --------------------------------------------~~~~~g~~-------~~a~~~~~~m~~~g~~p~~~~  368 (509)
                                                                  .+...|+.       +++..+++.....-..-+..+
T Consensus       251 pL~t~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~~~L  330 (656)
T KOG1914|consen  251 PLRTLDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKENKLL  330 (656)
T ss_pred             CcccccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHH
Confidence                                                        11122222       233334433332211112222


Q ss_pred             HHHHHHHHHHc---CChHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHH
Q 047221          369 YEIFIVYSCRV---GKFDVAFNFFNQMVKR-GLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSS-SNMLYSLLA  443 (509)
Q Consensus       369 ~~~li~~~~~~---g~~~~a~~~~~~m~~~-g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p-~~~~~~~li  443 (509)
                      |..+.+---..   ...+.....++++... ...|+ .+|..+|..-.+...++.|..+|.+..+.+..+ .+..+++++
T Consensus       331 y~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~t-Lv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~m  409 (656)
T KOG1914|consen  331 YFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLT-LVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALM  409 (656)
T ss_pred             HHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCc-eehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHH
Confidence            32222111111   1234445555555433 23443 467778888888999999999999999988877 777888888


Q ss_pred             HHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC
Q 047221          444 SLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSLGSS  505 (509)
Q Consensus       444 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~  505 (509)
                      .-|| .++.+-|.++|+-=.+. +.-+..--...++-+.+.++-..|..+|++....++.++
T Consensus       410 Ey~c-skD~~~AfrIFeLGLkk-f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~  469 (656)
T KOG1914|consen  410 EYYC-SKDKETAFRIFELGLKK-FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSAD  469 (656)
T ss_pred             HHHh-cCChhHHHHHHHHHHHh-cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChh
Confidence            8777 56778999999875543 222333445566777788888888888888887755543

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.97  E-value=0.0018  Score=63.75  Aligned_cols=246  Identities=11%  Similarity=-0.062  Sum_probs=176.2

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHH
Q 047221          244 ALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLL  319 (509)
Q Consensus       244 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~  319 (509)
                      .|.+.+|.-.|+...+.. +-+...|--|...-...++-..|+..+++.    +.|....-+|.-.|...|.-.+|++.+
T Consensus       298 nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~Al~~L  376 (579)
T KOG1125|consen  298 NGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQALKML  376 (579)
T ss_pred             cCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHHHHHH
Confidence            444888888888887654 556788999999999999888888888774    456788888888999999999999999


Q ss_pred             HHHHHcCCC--------CChHHHHHHHHHHHhcCChHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHHcCChHHHHHHHH
Q 047221          320 VEMRQVGCE--------PITLTYNYVLGVLCKNGQDADACELLEEMLGR-NCHPDAITYEIFIVYSCRVGKFDVAFNFFN  390 (509)
Q Consensus       320 ~~m~~~g~~--------p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~~~~~~~li~~~~~~g~~~~a~~~~~  390 (509)
                      +.-.....+        ++...-..  ........+....++|-++... +..+|..++..|--.|--.|++++|.+.|+
T Consensus       377 ~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf~  454 (579)
T KOG1125|consen  377 DKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCFE  454 (579)
T ss_pred             HHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHHH
Confidence            887654210        01000000  1112222344556666666544 544677778888888888999999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHC-----
Q 047221          391 QMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKN-----  465 (509)
Q Consensus       391 ~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----  465 (509)
                      ...... +-|...||-|-..++...+-++|..-|.+..+....--.+-|| |.-.|...|.+++|.+.|-+.+..     
T Consensus       455 ~AL~v~-Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyN-lgIS~mNlG~ykEA~~hlL~AL~mq~ks~  532 (579)
T KOG1125|consen  455 AALQVK-PNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYN-LGISCMNLGAYKEAVKHLLEALSMQRKSR  532 (579)
T ss_pred             HHHhcC-CchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehh-hhhhhhhhhhHHHHHHHHHHHHHhhhccc
Confidence            998763 3367889999999999999999999999988763222223344 777899999999999998776542     


Q ss_pred             ----CCCcCHHHHHHHHHHHHhcCCHHHHHHHH
Q 047221          466 ----GLRPNVSVYRRVLKHLHTSHQEHMAKCLS  494 (509)
Q Consensus       466 ----g~~p~~~t~~~ll~~~~~~g~~~~a~~~~  494 (509)
                          +-.++...|.+|=.++.-.++.|.+.+..
T Consensus       533 ~~~~~~~~se~iw~tLR~als~~~~~D~l~~a~  565 (579)
T KOG1125|consen  533 NHNKAPMASENIWQTLRLALSAMNRSDLLQEAA  565 (579)
T ss_pred             ccccCCcchHHHHHHHHHHHHHcCCchHHHHhc
Confidence                11234457777777777777777555543

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=97.97  E-value=0.015  Score=53.85  Aligned_cols=287  Identities=8%  Similarity=-0.046  Sum_probs=165.3

Q ss_pred             HHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHH---HHhccCCHHHHHHHHHHHHHcCCCCCHHHH-HHHHHHHHhc
Q 047221          204 NCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVL---ISSKALTKKGIWRVVEVLNQVGGSCLVSGV-RALIEMFSVL  279 (509)
Q Consensus       204 ~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~---~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~-~~li~~~~~~  279 (509)
                      .+...|++..|+.-|....+.    |+..|-++...   |+. .|+-..|+.-+....+  .+||-..- -.-...+.+.
T Consensus        47 ~lla~~Q~sDALt~yHaAve~----dp~~Y~aifrRaT~yLA-mGksk~al~Dl~rVle--lKpDF~~ARiQRg~vllK~  119 (504)
T KOG0624|consen   47 ELLARGQLSDALTHYHAAVEG----DPNNYQAIFRRATVYLA-MGKSKAALQDLSRVLE--LKPDFMAARIQRGVVLLKQ  119 (504)
T ss_pred             HHHHhhhHHHHHHHHHHHHcC----CchhHHHHHHHHHHHhh-hcCCccchhhHHHHHh--cCccHHHHHHHhchhhhhc
Confidence            344455666666655555433    33333333221   121 2223444444444443  23433221 1222345566


Q ss_pred             CCHHHHHHHHHHc---CCC--------------HHHHH--HHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHH
Q 047221          280 GLYEMAKYVIKKT---ERK--------------VSYYN--ILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGV  340 (509)
Q Consensus       280 g~~~~A~~~~~~m---~~~--------------~~~~~--~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~  340 (509)
                      |.++.|..=|+.+   .|+              ...|+  ..+..+...|+...|++....+.+-. +-|...|..-..+
T Consensus       120 Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~-~Wda~l~~~Rakc  198 (504)
T KOG0624|consen  120 GELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ-PWDASLRQARAKC  198 (504)
T ss_pred             ccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC-cchhHHHHHHHHH
Confidence            7777777666664   121              11122  23444556788888888888877653 4566777777788


Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHH----HHH---------
Q 047221          341 LCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATH----AAF---------  407 (509)
Q Consensus       341 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~----~~l---------  407 (509)
                      |...|++..|..=++...+.. .-+..++--+-..+...|+.+.++...++-.+.  .||-..+    -.|         
T Consensus       199 ~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~~YKklkKv~K~les  275 (504)
T KOG0624|consen  199 YIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFPFYKKLKKVVKSLES  275 (504)
T ss_pred             HHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHHHHHHHHHHHHHHHH
Confidence            888888888876666554442 224444445556677778888888777777654  4553221    111         


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhCCCCCCHH---HHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcC-HHHHHHHHHHHHh
Q 047221          408 IKGYFIFYRYEDAYKYVVLSADKYKSSSNM---LYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPN-VSVYRRVLKHLHT  483 (509)
Q Consensus       408 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~---~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~ll~~~~~  483 (509)
                      +......++|.++.+-.+...+....-..+   .+..+-.++...|++.+|++.-.+.++  +.|| ..++.--..+|.-
T Consensus       276 ~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~--~d~~dv~~l~dRAeA~l~  353 (504)
T KOG0624|consen  276 AEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLD--IDPDDVQVLCDRAEAYLG  353 (504)
T ss_pred             HHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHh--cCchHHHHHHHHHHHHhh
Confidence            111234566777777766666554332222   233455566677888888888888876  5555 6677777788888


Q ss_pred             cCCHHHHHHHHHHHHhCCCC
Q 047221          484 SHQEHMAKCLSSRYSSLSLG  503 (509)
Q Consensus       484 ~g~~~~a~~~~~~m~~~~~~  503 (509)
                      ...+|.|+.-|+...+.+..
T Consensus       354 dE~YD~AI~dye~A~e~n~s  373 (504)
T KOG0624|consen  354 DEMYDDAIHDYEKALELNES  373 (504)
T ss_pred             hHHHHHHHHHHHHHHhcCcc
Confidence            88888888888887766543

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.97  E-value=7e-06  Score=48.32  Aligned_cols=29  Identities=34%  Similarity=0.626  Sum_probs=15.8

Q ss_pred             HHHHHHHHHHhcCCccHHHHHHHHHHHcC
Q 047221          298 YYNILIKEMCRRCDFKGPRDLLVEMRQVG  326 (509)
Q Consensus       298 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g  326 (509)
                      +||.+|++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            45555555555555555555555555544

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.

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=97.94  E-value=0.00064  Score=66.16  Aligned_cols=121  Identities=12%  Similarity=0.183  Sum_probs=62.0

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCC
Q 047221          371 IFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNN  450 (509)
Q Consensus       371 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g  450 (509)
                      +|+..+...++++.|..+|+++.+..  |+  ....|+..+...++-.+|.+++++..+.. +-+......-...|.+.+
T Consensus       174 ~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k~  248 (395)
T PF09295_consen  174 TLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSKK  248 (395)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcC
Confidence            33444444555555555555555542  33  22334555555555555555555554331 123444444444455556


Q ss_pred             ChHHHHHHHHHHHHCCCCcCH-HHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 047221          451 NPVMAKNVLSEMMKNGLRPNV-SVYRRVLKHLHTSHQEHMAKCLSSRYS  498 (509)
Q Consensus       451 ~~~~a~~~~~~m~~~g~~p~~-~t~~~ll~~~~~~g~~~~a~~~~~~m~  498 (509)
                      +++.|+++.+++.+  ..|+. .+|..|..+|.+.|+++.|+..++.+.
T Consensus       249 ~~~lAL~iAk~av~--lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  249 KYELALEIAKKAVE--LSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             CHHHHHHHHHHHHH--hCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            66666666666555  33333 356666666666666666665555554

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.94  E-value=0.00017  Score=55.45  Aligned_cols=77  Identities=21%  Similarity=0.148  Sum_probs=46.8

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhCC--------ChHHHHHHHHHHHHCCCCcCHHHHHHH
Q 047221          407 FIKGYFIFYRYEDAYKYVVLSADKYK-SSSNMLYSLLASLHDKNN--------NPVMAKNVLSEMMKNGLRPNVSVYRRV  477 (509)
Q Consensus       407 li~~~~~~g~~~~A~~~~~~m~~~~~-~p~~~~~~~li~~~~~~g--------~~~~a~~~~~~m~~~g~~p~~~t~~~l  477 (509)
                      .|..+...|++...-.+|+.+++.|+ .|...+|+.++.+.++..        ++-+.+.+|+.|...+++|+..||+.+
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            34444444666666666666666666 556666666665555432        233466677777777777777777777


Q ss_pred             HHHHHh
Q 047221          478 LKHLHT  483 (509)
Q Consensus       478 l~~~~~  483 (509)
                      +..+.+
T Consensus       111 l~~Llk  116 (120)
T PF08579_consen  111 LGSLLK  116 (120)
T ss_pred             HHHHHH
Confidence            776654

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 [, , ].

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=97.92  E-value=0.0008  Score=55.57  Aligned_cols=104  Identities=14%  Similarity=0.110  Sum_probs=61.4

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 047221          368 TYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHD  447 (509)
Q Consensus       368 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~  447 (509)
                      ....+...+.+.|++++|.+.|+.+...+ +.+...+..+...|.+.|++++|..+++...+.+ ..+...+..+...|.
T Consensus        19 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~   96 (135)
T TIGR02552        19 QIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECLL   96 (135)
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHH
Confidence            34445555666666666666666665543 3345566666666666666666666666655543 224445555666666


Q ss_pred             hCCChHHHHHHHHHHHHCCCCcCHHHHH
Q 047221          448 KNNNPVMAKNVLSEMMKNGLRPNVSVYR  475 (509)
Q Consensus       448 ~~g~~~~a~~~~~~m~~~g~~p~~~t~~  475 (509)
                      ..|++++|++.|++..+  ..|+...+.
T Consensus        97 ~~g~~~~A~~~~~~al~--~~p~~~~~~  122 (135)
T TIGR02552        97 ALGEPESALKALDLAIE--ICGENPEYS  122 (135)
T ss_pred             HcCCHHHHHHHHHHHHH--hccccchHH
Confidence            67777777777766665  334444433

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=97.92  E-value=0.00044  Score=57.80  Aligned_cols=89  Identities=10%  Similarity=-0.147  Sum_probs=48.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCC
Q 047221          271 ALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQ  346 (509)
Q Consensus       271 ~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~  346 (509)
                      .+...+...|++++|...|+..    +.+...|..+...+.+.|++++|...|++..+.. +.+..++..+..++...|+
T Consensus        29 ~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~~g~  107 (144)
T PRK15359         29 ASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKMMGE  107 (144)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCC
Confidence            4455555556666665555553    3345555555555555555555655555555443 3344555555555555555


Q ss_pred             hHHHHHHHHHHHhC
Q 047221          347 DADACELLEEMLGR  360 (509)
Q Consensus       347 ~~~a~~~~~~m~~~  360 (509)
                      .++|...|+...+.
T Consensus       108 ~~eAi~~~~~Al~~  121 (144)
T PRK15359        108 PGLAREAFQTAIKM  121 (144)
T ss_pred             HHHHHHHHHHHHHh
Confidence            55555555555543

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

Probab=97.91  E-value=0.031  Score=55.63  Aligned_cols=154  Identities=10%  Similarity=0.046  Sum_probs=88.4

Q ss_pred             CHHHHHHHHHHHhcCCc--hHHHHHHHhhccCCCCccChhHHHHH--HHHHh--ccCCHHHHHHHHHHhhhCCCccCH-H
Q 047221          159 SNASVIEILRVLNSEKV--SALCFLKYMREIMPEFYKNSDICSLV--IDNCG--RLDDYETMRQLLNDFNVYQVCLNE-K  231 (509)
Q Consensus       159 ~~~~~~~ll~~~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~l--i~~~~--~~g~~~~A~~l~~~m~~~~~~p~~-~  231 (509)
                      +...+.+-+-++.+.++  +|+.+.+.-    +-..    +++..  =.+||  +.+..++|+..++.     ..++. .
T Consensus        45 d~~a~~cKvValIq~~ky~~ALk~ikk~----~~~~----~~~~~~fEKAYc~Yrlnk~Dealk~~~~-----~~~~~~~  111 (652)
T KOG2376|consen   45 DEDAIRCKVVALIQLDKYEDALKLIKKN----GALL----VINSFFFEKAYCEYRLNKLDEALKTLKG-----LDRLDDK  111 (652)
T ss_pred             cHhhHhhhHhhhhhhhHHHHHHHHHHhc----chhh----hcchhhHHHHHHHHHcccHHHHHHHHhc-----ccccchH
Confidence            34455555555555554  677554443    3222    44444  44554  67889999988873     33333 2


Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCC---------------------------CHHHH---HHHHHHHHhcCC
Q 047221          232 AFGFLPVLISSKALTKKGIWRVVEVLNQVGGSC---------------------------LVSGV---RALIEMFSVLGL  281 (509)
Q Consensus       232 ~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~---------------------------~~~~~---~~li~~~~~~g~  281 (509)
                      +...--. .+-+.+++++|..+++.+.+.+.+.                           ...+|   .+....+...|+
T Consensus       112 ll~L~AQ-vlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q~v~~v~e~syel~yN~Ac~~i~~gk  190 (652)
T KOG2376|consen  112 LLELRAQ-VLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQSVPEVPEDSYELLYNTACILIENGK  190 (652)
T ss_pred             HHHHHHH-HHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHHhccCCCcchHHHHHHHHHHHHhccc
Confidence            4444444 3334556999999999996644111                           01122   233445667788


Q ss_pred             HHHHHHHHHHc--------C-CC-----HH-----HHHHHHHHHHhcCCccHHHHHHHHHHHcC
Q 047221          282 YEMAKYVIKKT--------E-RK-----VS-----YYNILIKEMCRRCDFKGPRDLLVEMRQVG  326 (509)
Q Consensus       282 ~~~A~~~~~~m--------~-~~-----~~-----~~~~li~~~~~~g~~~~A~~~~~~m~~~g  326 (509)
                      +..|+++++..        . .|     ..     .---|.-.+-..|+.++|..++....+..
T Consensus       191 y~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~~~  254 (652)
T KOG2376|consen  191 YNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDIIKRN  254 (652)
T ss_pred             HHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhc
Confidence            88888888764        1 11     11     11123345556788888888888888765

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.91  E-value=0.00021  Score=54.90  Aligned_cols=77  Identities=10%  Similarity=0.130  Sum_probs=43.1

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHHcC--------ChHHHHHHHHHHHHCCCCCCHHHHHH
Q 047221          336 YVLGVLCKNGQDADACELLEEMLGRNC-HPDAITYEIFIVYSCRVG--------KFDVAFNFFNQMVKRGLQPRLATHAA  406 (509)
Q Consensus       336 ~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~~~~~~~li~~~~~~g--------~~~~a~~~~~~m~~~g~~p~~~~~~~  406 (509)
                      ..|..|...+++.....+|+.+++.|+ .|++.+|+.++.+.++..        ++-+.+.+|+.|...+++|+..+|+.
T Consensus        30 ~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYni  109 (120)
T PF08579_consen   30 DNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNI  109 (120)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHH
Confidence            344444455666666666666666666 666666666666555432        23344555555555555666666655


Q ss_pred             HHHHHH
Q 047221          407 FIKGYF  412 (509)
Q Consensus       407 li~~~~  412 (509)
                      ++..+.
T Consensus       110 vl~~Ll  115 (120)
T PF08579_consen  110 VLGSLL  115 (120)
T ss_pred             HHHHHH
Confidence            555544

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 [, , ].

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.88  E-value=1.7e-05  Score=46.65  Aligned_cols=30  Identities=7%  Similarity=0.277  Sum_probs=28.2

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhhhCCC
Q 047221          197 ICSLVIDNCGRLDDYETMRQLLNDFNVYQV  226 (509)
Q Consensus       197 ~~~~li~~~~~~g~~~~A~~l~~~m~~~~~  226 (509)
                      +||.+|++|++.|++++|.++|++|.+.|+
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            899999999999999999999999998874

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.

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.86  E-value=0.00028  Score=68.97  Aligned_cols=122  Identities=15%  Similarity=0.211  Sum_probs=93.8

Q ss_pred             CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHc--CCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHH
Q 047221          293 ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQV--GCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYE  370 (509)
Q Consensus       293 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~  370 (509)
                      +-..+....+++.+....+++++..++.+.+..  ....-..|..++|+.|.+.|..++++.+++.=...|+=||..++|
T Consensus        63 ~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n  142 (429)
T PF10037_consen   63 PVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFN  142 (429)
T ss_pred             CCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHH
Confidence            345666777777777777788888888887765  233334555688888888888888888888888888888888888


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Q 047221          371 IFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIF  414 (509)
Q Consensus       371 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  414 (509)
                      .||+.+.+.|++..|.++..+|...+...+..|+.-.+.+|.+.
T Consensus       143 ~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  143 LLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            88888888888888888888888777777777777666666655

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 [].

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.86  E-value=0.00023  Score=69.54  Aligned_cols=124  Identities=10%  Similarity=0.017  Sum_probs=78.1

Q ss_pred             CCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhC--CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHH
Q 047221          326 GCEPITLTYNYVLGVLCKNGQDADACELLEEMLGR--NCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLAT  403 (509)
Q Consensus       326 g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~--g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~  403 (509)
                      +..........+++.+....+++++..++.+....  ....-..|..++|+.|.+.|..+++..+++.=...|+-||..+
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            34555666666666666666666676666666554  1112223344677777777777777777766666677777777


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhC
Q 047221          404 HAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKN  449 (509)
Q Consensus       404 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~  449 (509)
                      +|.||+.+.+.|++..|.++...|...+...+..|+..-+.+|.+.
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            7777777777777777777776666665555656655555555444

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 [].

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=97.85  E-value=0.00073  Score=55.80  Aligned_cols=90  Identities=14%  Similarity=0.064  Sum_probs=44.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhc
Q 047221          269 VRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKN  344 (509)
Q Consensus       269 ~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~  344 (509)
                      ...+...|...|++++|...|+.+    +.+...|..+...|.+.|++++|...+++..+.+ +.+..++..+...|...
T Consensus        20 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~   98 (135)
T TIGR02552        20 IYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECLLAL   98 (135)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHc
Confidence            344444455555555555555443    2334445555555555555555555555544432 23344444444455555


Q ss_pred             CChHHHHHHHHHHHh
Q 047221          345 GQDADACELLEEMLG  359 (509)
Q Consensus       345 g~~~~a~~~~~~m~~  359 (509)
                      |++++|.+.|+...+
T Consensus        99 g~~~~A~~~~~~al~  113 (135)
T TIGR02552        99 GEPESALKALDLAIE  113 (135)
T ss_pred             CCHHHHHHHHHHHHH
Confidence            555555555554444

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

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

Probab=97.83  E-value=0.042  Score=54.69  Aligned_cols=312  Identities=14%  Similarity=0.094  Sum_probs=174.1

Q ss_pred             hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCc---------------------------c
Q 047221          176 SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVC---------------------------L  228 (509)
Q Consensus       176 ~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~---------------------------p  228 (509)
                      +|+..++-.   .+.   |..+...=...+-+.|++++|.++|+.+.+.+..                           .
T Consensus        97 ealk~~~~~---~~~---~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q~v~~v  170 (652)
T KOG2376|consen   97 EALKTLKGL---DRL---DDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQSVPEV  170 (652)
T ss_pred             HHHHHHhcc---ccc---chHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHHhccCC
Confidence            566666633   332   2224555566788999999999999999655321                           0


Q ss_pred             CHHHHHHHHHHH--HhccCCHHHHHHHHHHHHHcC-------CCC------CHHH-HHHHHHHHHhcCCHHHHHHHHHHc
Q 047221          229 NEKAFGFLPVLI--SSKALTKKGIWRVVEVLNQVG-------GSC------LVSG-VRALIEMFSVLGLYEMAKYVIKKT  292 (509)
Q Consensus       229 ~~~~~~~ll~~~--~~~~~~~~~a~~~~~~m~~~g-------~~~------~~~~-~~~li~~~~~~g~~~~A~~~~~~m  292 (509)
                      ...+|..+....  ....|.+.+|+++++...+.+       -..      ...+ --.|...+-..|+-++|..++..+
T Consensus       171 ~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~  250 (652)
T KOG2376|consen  171 PEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDI  250 (652)
T ss_pred             CcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHH
Confidence            122444443322  224556999999999883311       111      1111 124556677899999999988876


Q ss_pred             ----CCCH----HHHHHHHHHHHhcCCcc-HHHHHHHHHHH---------------c-----------------------
Q 047221          293 ----ERKV----SYYNILIKEMCRRCDFK-GPRDLLVEMRQ---------------V-----------------------  325 (509)
Q Consensus       293 ----~~~~----~~~~~li~~~~~~g~~~-~A~~~~~~m~~---------------~-----------------------  325 (509)
                          ++|.    +.-|.|+..-....-++ .++..++....               .                       
T Consensus       251 i~~~~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~tnk~~q~r~~~  330 (652)
T KOG2376|consen  251 IKRNPADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFTNKMDQVRELS  330 (652)
T ss_pred             HHhcCCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence                3442    33344443322221111 11111111000               0                       


Q ss_pred             ----CCCCChHHHHHHHHHHHhc--CChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHH--------H
Q 047221          326 ----GCEPITLTYNYVLGVLCKN--GQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFN--------Q  391 (509)
Q Consensus       326 ----g~~p~~~t~~~li~~~~~~--g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~--------~  391 (509)
                          +..| ...+.+++..+.+.  ....++..++...-+..-.-...+--+++......|+++.|.+++.        .
T Consensus       331 a~lp~~~p-~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss  409 (652)
T KOG2376|consen  331 ASLPGMSP-ESLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSS  409 (652)
T ss_pred             HhCCccCc-hHHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhh
Confidence                1111 12223333333221  1344555555554443211123445556667778899999998888        5


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCCCC----HHHHHHHHHHHHhCCChHHHHHHHHHHHHC
Q 047221          392 MVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADK--YKSSS----NMLYSLLASLHDKNNNPVMAKNVLSEMMKN  465 (509)
Q Consensus       392 m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--~~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  465 (509)
                      +.+.+..|.  +..+++..|.+.++-+.|-.++++....  .-.+.    ..++.-....-.+.|+-++|..+++++.+.
T Consensus       410 ~~~~~~~P~--~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~  487 (652)
T KOG2376|consen  410 ILEAKHLPG--TVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKF  487 (652)
T ss_pred             hhhhccChh--HHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHh
Confidence            555555554  4455677777777766666666655431  01111    123333344445779999999999999875


Q ss_pred             CCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 047221          466 GLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYS  498 (509)
Q Consensus       466 g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~  498 (509)
                       .++|..+...++.+|++. +.+.|+.+-+.+.
T Consensus       488 -n~~d~~~l~~lV~a~~~~-d~eka~~l~k~L~  518 (652)
T KOG2376|consen  488 -NPNDTDLLVQLVTAYARL-DPEKAESLSKKLP  518 (652)
T ss_pred             -CCchHHHHHHHHHHHHhc-CHHHHHHHhhcCC
Confidence             456888888888888764 5667776665544

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

Probab=97.82  E-value=0.027  Score=57.67  Aligned_cols=208  Identities=11%  Similarity=0.030  Sum_probs=145.8

Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHcC----CCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCCh
Q 047221          256 VLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTE----RKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPIT  331 (509)
Q Consensus       256 ~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  331 (509)
                      ++....+.-|...|..|.-+...+|+++.+-+.|++.-    .....|+.+-..|...|.-..|..++++-....-.|+.
T Consensus       313 k~r~~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~  392 (799)
T KOG4162|consen  313 KLRLKKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSD  392 (799)
T ss_pred             HHHHhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCc
Confidence            33334556788899999999999999999999999963    34678999999999999999999999876644323544


Q ss_pred             HHHHHHHH-HHH-hcCChHHHHHHHHHHHhC--CC--CCCHHHHHHHHHHHHHc-----------CChHHHHHHHHHHHH
Q 047221          332 LTYNYVLG-VLC-KNGQDADACELLEEMLGR--NC--HPDAITYEIFIVYSCRV-----------GKFDVAFNFFNQMVK  394 (509)
Q Consensus       332 ~t~~~li~-~~~-~~g~~~~a~~~~~~m~~~--g~--~p~~~~~~~li~~~~~~-----------g~~~~a~~~~~~m~~  394 (509)
                      .+--.++. .|. +.|.+++++..-.+....  |.  ......|-.+--+|...           ..-.++.+.+++..+
T Consensus       393 ~s~~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~  472 (799)
T KOG4162|consen  393 ISVLLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQ  472 (799)
T ss_pred             chHHHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHh
Confidence            44333333 232 346677766666555541  11  11233444444444322           123467777777766


Q ss_pred             CC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHC
Q 047221          395 RG-LQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKN  465 (509)
Q Consensus       395 ~g-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  465 (509)
                      .+ -.|++.-|-  ---|+-.++++.|.+..++..+.+-..+...|..+.-.+.-.+++.+|+.+.+...+.
T Consensus       473 ~d~~dp~~if~l--alq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E  542 (799)
T KOG4162|consen  473 FDPTDPLVIFYL--ALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEE  542 (799)
T ss_pred             cCCCCchHHHHH--HHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHH
Confidence            53 344444443  3346778999999999999999877889999999999999999999999999877653

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=97.79  E-value=0.047  Score=53.77  Aligned_cols=198  Identities=16%  Similarity=0.088  Sum_probs=131.1

Q ss_pred             HHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHH-------H
Q 047221          299 YNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYE-------I  371 (509)
Q Consensus       299 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~-------~  371 (509)
                      .-.+.+...+..+++.|++-+....+..  -+..-++..-.+|...|.+.+....-+.-.+.|-. ...-|+       .
T Consensus       227 ek~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r  303 (539)
T KOG0548|consen  227 EKELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALAR  303 (539)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHH
Confidence            4456666667777778888777777653  34444556667777777777666555554444321 111122       2


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHH-------------------------HHHHHHHcCCHHHHHHHHHH
Q 047221          372 FIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAA-------------------------FIKGYFIFYRYEDAYKYVVL  426 (509)
Q Consensus       372 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~-------------------------li~~~~~~g~~~~A~~~~~~  426 (509)
                      +-.+|.+.++++.|...|.+....-..|+..+-..                         =-..+.+.|++..|.+.|.+
T Consensus       304 ~g~a~~k~~~~~~ai~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~Yte  383 (539)
T KOG0548|consen  304 LGNAYTKREDYEGAIKYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTE  383 (539)
T ss_pred             hhhhhhhHHhHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHH
Confidence            33466667888888888888776655555444111                         12236677899999999999


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 047221          427 SADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNV-SVYRRVLKHLHTSHQEHMAKCLSSRYSSLSL  502 (509)
Q Consensus       427 m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~  502 (509)
                      +.... +-|...|..-.-+|.+.|.+..|++--+..++.  .|+. .-|..=..++....+|+.|++.|++-.++++
T Consensus       384 AIkr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL--~p~~~kgy~RKg~al~~mk~ydkAleay~eale~dp  457 (539)
T KOG0548|consen  384 AIKRD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIEL--DPNFIKAYLRKGAALRAMKEYDKALEAYQEALELDP  457 (539)
T ss_pred             HHhcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCc
Confidence            88776 557778888889999999999998887777664  3433 3344444455566788888888888777664

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=97.77  E-value=0.00091  Score=65.11  Aligned_cols=121  Identities=17%  Similarity=0.120  Sum_probs=69.9

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChH
Q 047221          270 RALIEMFSVLGLYEMAKYVIKKT-ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDA  348 (509)
Q Consensus       270 ~~li~~~~~~g~~~~A~~~~~~m-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~  348 (509)
                      ..|+..+...++++.|..+|+++ ..+....-.++..+...++-.+|++++++..+.. +-|......-...|.+.++++
T Consensus       173 ~~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k~~~~  251 (395)
T PF09295_consen  173 DTLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSKKKYE  251 (395)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHH
Confidence            34555555556666666666665 2223333445555555666666666666666432 334444444455566666666


Q ss_pred             HHHHHHHHHHhCCCCCC-HHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 047221          349 DACELLEEMLGRNCHPD-AITYEIFIVYSCRVGKFDVAFNFFNQMV  393 (509)
Q Consensus       349 ~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~  393 (509)
                      .|+++.+++.+.  .|+ ..+|..|..+|.+.|+++.|+..+..+.
T Consensus       252 lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  252 LALEIAKKAVEL--SPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            677766666664  343 3466666677777777777766666553

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.76  E-value=0.0012  Score=55.37  Aligned_cols=115  Identities=10%  Similarity=-0.018  Sum_probs=51.6

Q ss_pred             cCChHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHHhCCChH
Q 047221          379 VGKFDVAFNFFNQMVKRGLQPR---LATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSN--MLYSLLASLHDKNNNPV  453 (509)
Q Consensus       379 ~g~~~~a~~~~~~m~~~g~~p~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~--~~~~~li~~~~~~g~~~  453 (509)
                      .++...+...++.+.+.. +.+   ....-.+...+...|++++|...|+........+..  ...-.|...+...|+++
T Consensus        24 ~~~~~~~~~~~~~l~~~~-~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d  102 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDY-PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYD  102 (145)
T ss_pred             CCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHH
Confidence            455555555555555442 111   111222334455555555555555555554322211  12223444555555555


Q ss_pred             HHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 047221          454 MAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSR  496 (509)
Q Consensus       454 ~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~  496 (509)
                      +|+..++......+  ....+....+.|.+.|++++|...|++
T Consensus       103 ~Al~~L~~~~~~~~--~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen  103 EALATLQQIPDEAF--KALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHHhccCcch--HHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            55555544322222  222344444555555555555555543

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.75  E-value=0.0017  Score=54.36  Aligned_cols=126  Identities=15%  Similarity=0.154  Sum_probs=77.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCH--HHHHHH
Q 047221          333 TYNYVLGVLCKNGQDADACELLEEMLGRNCHPD---AITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRL--ATHAAF  407 (509)
Q Consensus       333 t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~--~~~~~l  407 (509)
                      .|..++..+ ..++...+...++.+.+.. +.+   ....-.+-..+...|++++|...|+.+......++.  ...-.|
T Consensus        14 ~y~~~~~~~-~~~~~~~~~~~~~~l~~~~-~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~L   91 (145)
T PF09976_consen   14 LYEQALQAL-QAGDPAKAEAAAEQLAKDY-PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRL   91 (145)
T ss_pred             HHHHHHHHH-HCCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHH
Confidence            344444444 3677777777777777652 222   122223346667778888888888887776522221  233446


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHH
Q 047221          408 IKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEM  462 (509)
Q Consensus       408 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  462 (509)
                      ...+...|++++|+..++.......  ....+......|.+.|+.++|...|+..
T Consensus        92 A~~~~~~~~~d~Al~~L~~~~~~~~--~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   92 ARILLQQGQYDEALATLQQIPDEAF--KALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHcCCHHHHHHHHHhccCcch--HHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            6677777888888888766443332  3335566777777888888888877653

>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=97.72  E-value=0.00067  Score=58.91  Aligned_cols=99  Identities=14%  Similarity=0.123  Sum_probs=72.3

Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHHc-----CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc-----------
Q 047221          351 CELLEEMLGRNCHPDAITYEIFIVYSCRV-----GKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIF-----------  414 (509)
Q Consensus       351 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~-----g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~-----------  414 (509)
                      ...|+....  -..|..+|..+|..|.+.     |.++=....++.|.+-|+.-|..+|+.|++.+=+.           
T Consensus        34 ~~~f~~~~~--~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~  111 (228)
T PF06239_consen   34 EELFERAPG--QAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAE  111 (228)
T ss_pred             HHHHHHHhh--ccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHH
Confidence            444554422  245889999999999855     77888888899999999999999999999987542           


Q ss_pred             -----CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCC
Q 047221          415 -----YRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNN  451 (509)
Q Consensus       415 -----g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~  451 (509)
                           .+-+-|++++++|...|+.||..|+..+++.+++.+.
T Consensus       112 F~hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  112 FMHYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             hccCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence                 2235566777777777777777777777776665554

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=97.69  E-value=0.0054  Score=62.92  Aligned_cols=257  Identities=12%  Similarity=0.117  Sum_probs=135.0

Q ss_pred             hHHHHHHH--HHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHc-C--------CCC
Q 047221          196 DICSLVID--NCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQV-G--------GSC  264 (509)
Q Consensus       196 ~~~~~li~--~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~-g--------~~~  264 (509)
                      .+--++++  .|...|+.+.|.+-.+-++      +...|..+..+|.. ..+++-|.-.+..|... |        -.+
T Consensus       727 ~TRkaml~FSfyvtiG~MD~AfksI~~Ik------S~~vW~nmA~McVk-T~RLDVAkVClGhm~~aRgaRAlR~a~q~~  799 (1416)
T KOG3617|consen  727 STRKAMLDFSFYVTIGSMDAAFKSIQFIK------SDSVWDNMASMCVK-TRRLDVAKVCLGHMKNARGARALRRAQQNG  799 (1416)
T ss_pred             HHHHhhhceeEEEEeccHHHHHHHHHHHh------hhHHHHHHHHHhhh-hccccHHHHhhhhhhhhhhHHHHHHHHhCC
Confidence            35555543  3566677777766655542      56667666664443 33366666666655431 1        011


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhc
Q 047221          265 LVSGVRALIEMFSVLGLYEMAKYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKN  344 (509)
Q Consensus       265 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~  344 (509)
                      + .+-....-.....|.+++|+.++.+-++    |..|=..|-..|+|++|+++-+.=-+-.+   ..||..-..-+-..
T Consensus       800 ~-e~eakvAvLAieLgMlEeA~~lYr~ckR----~DLlNKlyQs~g~w~eA~eiAE~~DRiHL---r~Tyy~yA~~Lear  871 (1416)
T KOG3617|consen  800 E-EDEAKVAVLAIELGMLEEALILYRQCKR----YDLLNKLYQSQGMWSEAFEIAETKDRIHL---RNTYYNYAKYLEAR  871 (1416)
T ss_pred             c-chhhHHHHHHHHHhhHHHHHHHHHHHHH----HHHHHHHHHhcccHHHHHHHHhhccceeh---hhhHHHHHHHHHhh
Confidence            1 1111222223345666666666655432    23334445556666666666543222111   23444444445556


Q ss_pred             CChHHHHHHHHHH----------HhCC---------CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHH
Q 047221          345 GQDADACELLEEM----------LGRN---------CHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHA  405 (509)
Q Consensus       345 g~~~~a~~~~~~m----------~~~g---------~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~  405 (509)
                      ++.+.|++.|+.-          ....         -..|...|.---...-..|+++.|+.+|....         -|-
T Consensus       872 ~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~---------D~f  942 (1416)
T KOG3617|consen  872 RDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAK---------DYF  942 (1416)
T ss_pred             ccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhh---------hhh
Confidence            6666776666542          1110         01122222222222233455555555554432         244


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcC
Q 047221          406 AFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSH  485 (509)
Q Consensus       406 ~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g  485 (509)
                      +++...|-.|+.++|-++-++   .|   |....-.|...|-..|++.+|...|.+..         +|...|+.|-..+
T Consensus       943 s~VrI~C~qGk~~kAa~iA~e---sg---d~AAcYhlaR~YEn~g~v~~Av~FfTrAq---------afsnAIRlcKEnd 1007 (1416)
T KOG3617|consen  943 SMVRIKCIQGKTDKAARIAEE---SG---DKAACYHLARMYENDGDVVKAVKFFTRAQ---------AFSNAIRLCKEND 1007 (1416)
T ss_pred             hheeeEeeccCchHHHHHHHh---cc---cHHHHHHHHHHhhhhHHHHHHHHHHHHHH---------HHHHHHHHHHhcC
Confidence            455555666777777666543   22   55555568888889999999999888764         6777787776655


Q ss_pred             CHHHHH
Q 047221          486 QEHMAK  491 (509)
Q Consensus       486 ~~~~a~  491 (509)
                      .-|+..
T Consensus      1008 ~~d~L~ 1013 (1416)
T KOG3617|consen 1008 MKDRLA 1013 (1416)
T ss_pred             HHHHHH
Confidence            544433

>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=97.68  E-value=0.00068  Score=58.88  Aligned_cols=104  Identities=16%  Similarity=0.188  Sum_probs=55.4

Q ss_pred             CCHHHHHHHHHHHHhc-----CCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHH
Q 047221          294 RKVSYYNILIKEMCRR-----CDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAIT  368 (509)
Q Consensus       294 ~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~  368 (509)
                      .|..+|..+|..|.+.     |.++=....+..|.+-|+.-|..+|+.||+.+=+ |.+- -..+|+.+           
T Consensus        45 k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fv-p~n~fQ~~-----------  111 (228)
T PF06239_consen   45 KDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFV-PRNFFQAE-----------  111 (228)
T ss_pred             ccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcc-cccHHHHH-----------
Confidence            4555666666666543     4455555556666666666666666666665443 2111 00011100           


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC
Q 047221          369 YEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYR  416 (509)
Q Consensus       369 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  416 (509)
                         . .  -...+-+-|++++++|...|+.||..|+..|++.+++.+.
T Consensus       112 ---F-~--hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  112 ---F-M--HYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             ---h-c--cCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence               0 0  0112345566777777777777777777777777655543

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

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

Probab=97.60  E-value=0.12  Score=53.28  Aligned_cols=342  Identities=10%  Similarity=-0.033  Sum_probs=192.7

Q ss_pred             CCCCCHHHHHHHHHHHhcCCc--hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCcc-CHH
Q 047221          155 SVSLSNASVIEILRVLNSEKV--SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCL-NEK  231 (509)
Q Consensus       155 ~~~~~~~~~~~ll~~~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p-~~~  231 (509)
                      .+.-++..|..+--++..+|+  .+.+.|+..   .|-.....+.|+.+-..|.-.|.-..|..++++-....-.| |..
T Consensus       318 ~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~---~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s  394 (799)
T KOG4162|consen  318 KFQNDAAIFDHLTFALSRCGQFEVLAEQFEQA---LPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDIS  394 (799)
T ss_pred             hhcchHHHHHHHHHHHHHHHHHHHHHHHHHHH---hHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcch
Confidence            345577888888888888886  566777776   13222333489999999999999889998888764333223 444


Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHHHc--C--CCCCHHHHHHHHHHHHhcC-----------CHHHHHHHHHHc----
Q 047221          232 AFGFLPVLISSKALTKKGIWRVVEVLNQV--G--GSCLVSGVRALIEMFSVLG-----------LYEMAKYVIKKT----  292 (509)
Q Consensus       232 ~~~~ll~~~~~~~~~~~~a~~~~~~m~~~--g--~~~~~~~~~~li~~~~~~g-----------~~~~A~~~~~~m----  292 (509)
                      .+-..-..|..+-+..+++..+-.+....  +  -......|-.+.-+|...-           ...++.+.+++.    
T Consensus       395 ~~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d  474 (799)
T KOG4162|consen  395 VLLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFD  474 (799)
T ss_pred             HHHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcC
Confidence            44444455666666666666666555541  1  1112223333333333221           112233333332    


Q ss_pred             CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhC-CC---------
Q 047221          293 ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGR-NC---------  362 (509)
Q Consensus       293 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~-g~---------  362 (509)
                      +.|..+.-.+---|+..++++.|.+..++..+.+-.-+...|..+.-.+...+++.+|+.+.+...+. |.         
T Consensus       475 ~~dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~l~~~~~  554 (799)
T KOG4162|consen  475 PTDPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHVLMDGKI  554 (799)
T ss_pred             CCCchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhhhchhhh
Confidence            11222222222334445555566665555555543445555555555555555555555544432221 10         


Q ss_pred             --------------------------------------------------------------------------------
Q 047221          363 --------------------------------------------------------------------------------  362 (509)
Q Consensus       363 --------------------------------------------------------------------------------  362 (509)
                                                                                                      
T Consensus       555 ~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~Lp  634 (799)
T KOG4162|consen  555 HIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELKLP  634 (799)
T ss_pred             hhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccccC
Confidence                                                                                            


Q ss_pred             ------CCC------HHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 047221          363 ------HPD------AITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADK  430 (509)
Q Consensus       363 ------~p~------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  430 (509)
                            .|+      ...|......+.+.+..++|.-.+.+..+. .......|...-..+...|.+++|.+.|......
T Consensus       635 ~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~-~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~l  713 (799)
T KOG4162|consen  635 SSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKI-DPLSASVYYLRGLLLEVKGQLEEAKEAFLVALAL  713 (799)
T ss_pred             cccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhc-chhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhc
Confidence                  001      011222233344444445554444444332 1223334454555566678888888888766544


Q ss_pred             CCCCCHHHHHHHHHHHHhCCChHHHHH--HHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 047221          431 YKSSSNMLYSLLASLHDKNNNPVMAKN--VLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSL  502 (509)
Q Consensus       431 ~~~p~~~~~~~li~~~~~~g~~~~a~~--~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~  502 (509)
                      +. -++....++...+.+.|+..-|..  ++.++.+.+ .-+...|..+-..+.+.|+.+.|-+.|.--.+...
T Consensus       714 dP-~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~d-p~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe~  785 (799)
T KOG4162|consen  714 DP-DHVPSMTALAELLLELGSPRLAEKRSLLSDALRLD-PLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLEE  785 (799)
T ss_pred             CC-CCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhcc
Confidence            21 133466788888889998887777  888888854 33677888898999999999999999887665543

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.60  E-value=0.13  Score=53.78  Aligned_cols=223  Identities=14%  Similarity=0.105  Sum_probs=137.4

Q ss_pred             HHHHHHhcCC-chHHHHHHHhhccCCCCccChhHHHHHHHHH--hccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHH
Q 047221          165 EILRVLNSEK-VSALCFLKYMREIMPEFYKNSDICSLVIDNC--GRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLIS  241 (509)
Q Consensus       165 ~ll~~~~~~~-~~A~~~~~~~~~~~p~~~~~~~~~~~li~~~--~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~  241 (509)
                      -+...+.+.. +.|++-.+.+.+-.|+.     .|..++.++  .|.|+.++|..+++.....+.. |..|..++-. |+
T Consensus        15 pi~d~ld~~qfkkal~~~~kllkk~Pn~-----~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~-~y   87 (932)
T KOG2053|consen   15 PIYDLLDSSQFKKALAKLGKLLKKHPNA-----LYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQN-VY   87 (932)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHCCCc-----HHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHH-HH
Confidence            3444444333 47888888875556763     366666664  5778888888888877544433 6666666665 66


Q ss_pred             hccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHH----HHHHHHHHcCCCHHHHHHHHHHHHhcCC-c----
Q 047221          242 SKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYE----MAKYVIKKTERKVSYYNILIKEMCRRCD-F----  312 (509)
Q Consensus       242 ~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~----~A~~~~~~m~~~~~~~~~li~~~~~~g~-~----  312 (509)
                      ...++.+++..+++.....  .|+......+..+|.+.+.+.    .|.++++..+.+...+=++++.+.+.-. .    
T Consensus        88 ~d~~~~d~~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~~pk~~yyfWsV~Slilqs~~~~~~~~  165 (932)
T KOG2053|consen   88 RDLGKLDEAVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKNFPKRAYYFWSVISLILQSIFSENELL  165 (932)
T ss_pred             HHHhhhhHHHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcccchHHHHHHHHHHhccCCcccc
Confidence            7777788888888887753  455666777888888877664    3566666667776666666666665432 1    


Q ss_pred             -----cHHHHHHHHHHHcCCCC-ChHHHHHHHHHHHhcCChHHHHHHHH-HHHhCCCCCCHHHHHHHHHHHHHcCChHHH
Q 047221          313 -----KGPRDLLVEMRQVGCEP-ITLTYNYVLGVLCKNGQDADACELLE-EMLGRNCHPDAITYEIFIVYSCRVGKFDVA  385 (509)
Q Consensus       313 -----~~A~~~~~~m~~~g~~p-~~~t~~~li~~~~~~g~~~~a~~~~~-~m~~~g~~p~~~~~~~li~~~~~~g~~~~a  385 (509)
                           .-|.+.++.+.+.+-+. +..-...-+...-..|++++|..++. ...+.-..-+...-+--+..+...+++.+.
T Consensus       166 ~~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l  245 (932)
T KOG2053|consen  166 DPILLALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQEL  245 (932)
T ss_pred             cchhHHHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHH
Confidence                 22444555555443111 11111122233446677888888873 333332333444555666777777888888


Q ss_pred             HHHHHHHHHCC
Q 047221          386 FNFFNQMVKRG  396 (509)
Q Consensus       386 ~~~~~~m~~~g  396 (509)
                      .++-.++...|
T Consensus       246 ~~l~~~Ll~k~  256 (932)
T KOG2053|consen  246 FELSSRLLEKG  256 (932)
T ss_pred             HHHHHHHHHhC
Confidence            88888877775

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.58  E-value=0.036  Score=58.43  Aligned_cols=321  Identities=12%  Similarity=-0.020  Sum_probs=153.6

Q ss_pred             hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHH-HHHHHhccCCHHHHHHHH
Q 047221          176 SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFL-PVLISSKALTKKGIWRVV  254 (509)
Q Consensus       176 ~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~l-l~~~~~~~~~~~~a~~~~  254 (509)
                      .|.+-|+....+++   .|...+....+.|++..++++|..+.-..-+.. ..-...++.+ ...+.-..+....++.-|
T Consensus       510 RA~kCf~KAFeLDa---tdaeaaaa~adtyae~~~we~a~~I~l~~~qka-~a~~~k~nW~~rG~yyLea~n~h~aV~~f  585 (1238)
T KOG1127|consen  510 RAKKCFDKAFELDA---TDAEAAAASADTYAEESTWEEAFEICLRAAQKA-PAFACKENWVQRGPYYLEAHNLHGAVCEF  585 (1238)
T ss_pred             HHHHHHHHHhcCCc---hhhhhHHHHHHHhhccccHHHHHHHHHHHhhhc-hHHHHHhhhhhccccccCccchhhHHHHH
Confidence            46666666655555   355577777777777777777777732221110 0011111111 111222344466666666


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc---CCC-HHHHHHHHHHHHhcCCccHHHHHHHHHHHc-----
Q 047221          255 EVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT---ERK-VSYYNILIKEMCRRCDFKGPRDLLVEMRQV-----  325 (509)
Q Consensus       255 ~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----  325 (509)
                      +...+.. +-|...|..|..+|.++|++..|.++|.+.   .|+ ...---....-+..|.+++|+..+......     
T Consensus       586 QsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~  664 (1238)
T KOG1127|consen  586 QSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLSKYGRFKEAVMECDNGKYKEALDALGLIIYAFSLER  664 (1238)
T ss_pred             HHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHH
Confidence            6665543 446667888888888888888888888765   332 222122223345677788888777665532     


Q ss_pred             -CCCCChHHHHHHHHHHHhcCChHHHHHHHHHH-------HhCCCCCCHHHHHHHHHHHHHcCChH------HHHHH-HH
Q 047221          326 -GCEPITLTYNYVLGVLCKNGQDADACELLEEM-------LGRNCHPDAITYEIFIVYSCRVGKFD------VAFNF-FN  390 (509)
Q Consensus       326 -g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m-------~~~g~~p~~~~~~~li~~~~~~g~~~------~a~~~-~~  390 (509)
                       +..--..++-.+...+.-.|-..+|...++.-       .......+...|-.+-++|.-.-..+      ....+ +.
T Consensus       665 ~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~asdac~~f~q~e~~~vn~h~l~il~~  744 (1238)
T KOG1127|consen  665 TGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVASDACYIFSQEEPSIVNMHYLIILSK  744 (1238)
T ss_pred             HhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHhHHHHHHHHhcccchHHHHHHHHHH
Confidence             11111233333333333333333333333322       11111111222222111111000000      00000 01


Q ss_pred             HHHHCCC--------------------CCCHHHHHHHHHHHHH----c----CCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 047221          391 QMVKRGL--------------------QPRLATHAAFIKGYFI----F----YRYEDAYKYVVLSADKYKSSSNMLYSLL  442 (509)
Q Consensus       391 ~m~~~g~--------------------~p~~~~~~~li~~~~~----~----g~~~~A~~~~~~m~~~~~~p~~~~~~~l  442 (509)
                      +....+.                    ..+..+|..|...|.+    +    .+...|...++...+.. .-+..+|++|
T Consensus       745 q~e~~~~l~~~d~l~Lg~~c~~~hlsl~~~~~~WyNLGinylr~f~~l~et~~~~~~Ai~c~KkaV~L~-ann~~~WnaL  823 (1238)
T KOG1127|consen  745 QLEKTGALKKNDLLFLGYECGIAHLSLAIHMYPWYNLGINYLRYFLLLGETMKDACTAIRCCKKAVSLC-ANNEGLWNAL  823 (1238)
T ss_pred             HHHhcccCcchhHHHHHHHHhhHHHHHhhccchHHHHhHHHHHHHHHcCCcchhHHHHHHHHHHHHHHh-hccHHHHHHH
Confidence            1111111                    1123334444443333    1    12345666665544331 2255666665


Q ss_pred             HHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 047221          443 ASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSLGS  504 (509)
Q Consensus       443 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~  504 (509)
                      .-. ...|.+.-|...|-+-... .+....+|..+--.|.+..+++.|...|++.+...+..
T Consensus       824 GVl-sg~gnva~aQHCfIks~~s-ep~~~~~W~NlgvL~l~n~d~E~A~~af~~~qSLdP~n  883 (1238)
T KOG1127|consen  824 GVL-SGIGNVACAQHCFIKSRFS-EPTCHCQWLNLGVLVLENQDFEHAEPAFSSVQSLDPLN  883 (1238)
T ss_pred             HHh-hccchhhhhhhhhhhhhhc-cccchhheeccceeEEecccHHHhhHHHHhhhhcCchh
Confidence            544 4456666666665544432 22344566666666777777888888877777666543

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=97.56  E-value=0.069  Score=49.67  Aligned_cols=64  Identities=17%  Similarity=0.081  Sum_probs=37.9

Q ss_pred             CCCCCHHHHHHHHHHH---hcCC--chHHHHHHHhhccCCCCccChhHHHHHH---HHHhccCCHHHHHHHHHHhhhC
Q 047221          155 SVSLSNASVIEILRVL---NSEK--VSALCFLKYMREIMPEFYKNSDICSLVI---DNCGRLDDYETMRQLLNDFNVY  224 (509)
Q Consensus       155 ~~~~~~~~~~~ll~~~---~~~~--~~A~~~~~~~~~~~p~~~~~~~~~~~li---~~~~~~g~~~~A~~l~~~m~~~  224 (509)
                      .+..|+..|.++.+.-   -..|  +.|+.=+..+..++|++.      .+-|   ..+.+.|.++.|..=|+.....
T Consensus        64 Ave~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlelKpDF~------~ARiQRg~vllK~Gele~A~~DF~~vl~~  135 (504)
T KOG0624|consen   64 AVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLELKPDFM------AARIQRGVVLLKQGELEQAEADFDQVLQH  135 (504)
T ss_pred             HHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhcCccHH------HHHHHhchhhhhcccHHHHHHHHHHHHhc
Confidence            3566666666666542   2333  357777777766677633      2222   2456777777777777776554

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.54  E-value=0.0017  Score=48.90  Aligned_cols=91  Identities=13%  Similarity=0.012  Sum_probs=41.1

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCC
Q 047221          407 FIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQ  486 (509)
Q Consensus       407 li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~  486 (509)
                      +...+...|++++|...+++..+... .+...+..+...+...|++++|.+.++...+.. ..+..++..+...+...|+
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~   83 (100)
T cd00189           6 LGNLYYKLGDYDEALEYYEKALELDP-DNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKLGK   83 (100)
T ss_pred             HHHHHHHHhcHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHHHh
Confidence            34444444555555555544443321 112334444444445555555555555544431 1122344444445555555


Q ss_pred             HHHHHHHHHHHHh
Q 047221          487 EHMAKCLSSRYSS  499 (509)
Q Consensus       487 ~~~a~~~~~~m~~  499 (509)
                      +++|...+++..+
T Consensus        84 ~~~a~~~~~~~~~   96 (100)
T cd00189          84 YEEALEAYEKALE   96 (100)
T ss_pred             HHHHHHHHHHHHc
Confidence            5555555555443

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.53  E-value=0.0027  Score=50.88  Aligned_cols=98  Identities=18%  Similarity=0.193  Sum_probs=55.0

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCC--CCHHHHHHHH
Q 047221          368 TYEIFIVYSCRVGKFDVAFNFFNQMVKRGL--QPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKS--SSNMLYSLLA  443 (509)
Q Consensus       368 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~--~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~--p~~~~~~~li  443 (509)
                      ++..+...+.+.|++++|...|.++....-  ......+..+..++.+.|+++.|...|+.+......  .....+..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            344455556666666666666666654421  111234455666666666666666666666543211  1133455555


Q ss_pred             HHHHhCCChHHHHHHHHHHHHC
Q 047221          444 SLHDKNNNPVMAKNVLSEMMKN  465 (509)
Q Consensus       444 ~~~~~~g~~~~a~~~~~~m~~~  465 (509)
                      ..+.+.|+.++|.+.++++.+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHH
Confidence            6666666666666666666654

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.

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.51  E-value=0.0018  Score=48.76  Aligned_cols=55  Identities=15%  Similarity=0.107  Sum_probs=21.1

Q ss_pred             HHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 047221          303 IKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEML  358 (509)
Q Consensus       303 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~  358 (509)
                      ...+...|++++|...+++..+.. +.+...+..+...+...|++++|.+.++...
T Consensus         7 a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~   61 (100)
T cd00189           7 GNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKAL   61 (100)
T ss_pred             HHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333344444444444444443321 1122333333333444444444444444333

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.51  E-value=0.11  Score=54.40  Aligned_cols=216  Identities=11%  Similarity=0.003  Sum_probs=145.1

Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH--HHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHH
Q 047221          245 LTKKGIWRVVEVLNQVGGSCLVSGVRALIEM--FSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDL  318 (509)
Q Consensus       245 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~--~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~  318 (509)
                      +++..|......+.+..  |+.. |...+.+  ..+.|+.++|..+++..    ..|..|...+-.+|.+.++.++|..+
T Consensus        23 ~qfkkal~~~~kllkk~--Pn~~-~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~D~~tLq~l~~~y~d~~~~d~~~~~   99 (932)
T KOG2053|consen   23 SQFKKALAKLGKLLKKH--PNAL-YAKVLKALSLFRLGKGDEALKLLEALYGLKGTDDLTLQFLQNVYRDLGKLDEAVHL   99 (932)
T ss_pred             HHHHHHHHHHHHHHHHC--CCcH-HHHHHHHHHHHHhcCchhHHHHHhhhccCCCCchHHHHHHHHHHHHHhhhhHHHHH
Confidence            34888888888776542  3322 3344444  45789999999888886    35788889999999999999999999


Q ss_pred             HHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCC----------hHHHHHH
Q 047221          319 LVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGK----------FDVAFNF  388 (509)
Q Consensus       319 ~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~----------~~~a~~~  388 (509)
                      |++..+.  -|+..-...+..+|.+.+++.+-.++--+|-+. .+-+.+.+=++++.+.+.-.          ..-|.+.
T Consensus       100 Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m  176 (932)
T KOG2053|consen  100 YERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLALAEKM  176 (932)
T ss_pred             HHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHHHHHHH
Confidence            9988865  677777888888899988887654444444442 33455666566666654321          2346667


Q ss_pred             HHHHHHCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHH-HHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCC
Q 047221          389 FNQMVKRGLQP-RLATHAAFIKGYFIFYRYEDAYKYV-VLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNG  466 (509)
Q Consensus       389 ~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~-~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  466 (509)
                      ++.+.+.+-+. +..-.---.......|++++|.+++ ....+.-..-+...-+.-+..+...++|.+..++-.++...|
T Consensus       177 ~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~  256 (932)
T KOG2053|consen  177 VQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKG  256 (932)
T ss_pred             HHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhC
Confidence            77776654111 1111222233345678899999988 344444444555566677778888889998888888887765

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.51  E-value=0.0024  Score=60.01  Aligned_cols=131  Identities=13%  Similarity=0.097  Sum_probs=81.0

Q ss_pred             HHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHH-HHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 047221          297 SYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGV-LCKNGQDADACELLEEMLGRNCHPDAITYEIFIVY  375 (509)
Q Consensus       297 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~-~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  375 (509)
                      .+|..++...-+.+..+.|..+|.+.++.+ ..+...|...... |...++.+.|.+||+...+. +..+...|..-++.
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            356677777777777777777777776443 2233333333333 33345566677777777765 45566667777777


Q ss_pred             HHHcCChHHHHHHHHHHHHCCCCCCH---HHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 047221          376 SCRVGKFDVAFNFFNQMVKRGLQPRL---ATHAAFIKGYFIFYRYEDAYKYVVLSADK  430 (509)
Q Consensus       376 ~~~~g~~~~a~~~~~~m~~~g~~p~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~  430 (509)
                      +.+.++.+.|..+|++.... +.++.   ..|...++.=.+.|+++.+.++.+++.+.
T Consensus        80 l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            77777777777777777654 22222   36777777777777777777777776653

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.42  E-value=0.00036  Score=52.27  Aligned_cols=80  Identities=18%  Similarity=0.079  Sum_probs=41.5

Q ss_pred             cCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCH-HHHHHHHHHHHhcCCHHHHH
Q 047221          414 FYRYEDAYKYVVLSADKYKS-SSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNV-SVYRRVLKHLHTSHQEHMAK  491 (509)
Q Consensus       414 ~g~~~~A~~~~~~m~~~~~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~t~~~ll~~~~~~g~~~~a~  491 (509)
                      .|+++.|+.+++++.+.... ++...+..+..+|.+.|++++|++++++ .+  ..|+. .....+..+|.+.|++++|+
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~--~~~~~~~~~~l~a~~~~~l~~y~eAi   78 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LK--LDPSNPDIHYLLARCLLKLGKYEEAI   78 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HT--HHHCHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hC--CCCCCHHHHHHHHHHHHHhCCHHHHH
Confidence            35666666666666654331 1333344456666666666666666665 21  22222 23333455566666666666


Q ss_pred             HHHHH
Q 047221          492 CLSSR  496 (509)
Q Consensus       492 ~~~~~  496 (509)
                      +++++
T Consensus        79 ~~l~~   83 (84)
T PF12895_consen   79 KALEK   83 (84)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            66654

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.40  E-value=0.0064  Score=57.28  Aligned_cols=21  Identities=19%  Similarity=0.154  Sum_probs=11.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHH
Q 047221          271 ALIEMFSVLGLYEMAKYVIKK  291 (509)
Q Consensus       271 ~li~~~~~~g~~~~A~~~~~~  291 (509)
                      ...+.|...|++++|...|.+
T Consensus        40 ~Aa~~fk~~~~~~~A~~ay~k   60 (282)
T PF14938_consen   40 KAANCFKLAKDWEKAAEAYEK   60 (282)
T ss_dssp             HHHHHHHHTT-CHHHHHHHHH
T ss_pred             HHHHHHHHHhccchhHHHHHH
Confidence            344455556666666665554

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.39  E-value=0.0062  Score=57.20  Aligned_cols=143  Identities=8%  Similarity=0.055  Sum_probs=103.5

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 047221          332 LTYNYVLGVLCKNGQDADACELLEEMLGRN-CHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKG  410 (509)
Q Consensus       332 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  410 (509)
                      .+|..+|...-+.+..+.|.++|.+..+.+ +..++....++|..+ ..++.+.|..+|+...+. +..+...|..-++.
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 LVWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEYY-CNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHHH-TCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH-hCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            478888899999999999999999998653 334444444444332 356777799999998876 55678889999999


Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHH
Q 047221          411 YFIFYRYEDAYKYVVLSADKYKSSS---NMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLK  479 (509)
Q Consensus       411 ~~~~g~~~~A~~~~~~m~~~~~~p~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~  479 (509)
                      +.+.|+.+.|..+|++.... +.++   ...|...+.-=.+.|+.+.+.++.+++.+.  .|+...+..+++
T Consensus        80 l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~--~~~~~~~~~f~~  148 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL--FPEDNSLELFSD  148 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH--TTTS-HHHHHHC
T ss_pred             HHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--hhhhhHHHHHHH
Confidence            99999999999999998766 2222   248999999889999999999999988873  344333444433

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.

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.37  E-value=0.095  Score=46.79  Aligned_cols=82  Identities=16%  Similarity=0.212  Sum_probs=34.1

Q ss_pred             CCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHH
Q 047221          310 CDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFF  389 (509)
Q Consensus       310 g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~  389 (509)
                      |++++|+++++.+.+.+ +.|.+++.-=+...-..|+--+|++-+.+..+. +..|...|.-+-..|...|++++|.-.+
T Consensus       100 ~~~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fCl  177 (289)
T KOG3060|consen  100 GNYKEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCL  177 (289)
T ss_pred             hchhhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHH
Confidence            44444444444444433 333333433333333333333444433333333 2334444444444444444444444444


Q ss_pred             HHHH
Q 047221          390 NQMV  393 (509)
Q Consensus       390 ~~m~  393 (509)
                      +++.
T Consensus       178 EE~l  181 (289)
T KOG3060|consen  178 EELL  181 (289)
T ss_pred             HHHH
Confidence            4444

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=97.34  E-value=0.19  Score=49.61  Aligned_cols=318  Identities=13%  Similarity=0.035  Sum_probs=198.1

Q ss_pred             HhcCCc--hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccC-HHHHHHHHHHHHhccCC
Q 047221          170 LNSEKV--SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLN-EKAFGFLPVLISSKALT  246 (509)
Q Consensus       170 ~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~  246 (509)
                      ..+.|+  .|+..|-....+.|.   |.+.|+.=..+|+..|++++|++=-.+-  ..+.|+ ...|.-.-.+....+ +
T Consensus        12 a~s~~d~~~ai~~~t~ai~l~p~---nhvlySnrsaa~a~~~~~~~al~da~k~--~~l~p~w~kgy~r~Gaa~~~lg-~   85 (539)
T KOG0548|consen   12 AFSSGDFETAIRLFTEAIMLSPT---NHVLYSNRSAAYASLGSYEKALKDATKT--RRLNPDWAKGYSRKGAALFGLG-D   85 (539)
T ss_pred             hcccccHHHHHHHHHHHHccCCC---ccchhcchHHHHHHHhhHHHHHHHHHHH--HhcCCchhhHHHHhHHHHHhcc-c
Confidence            344554  799999998777774   6668999999999999999987655554  334455 446666655455444 4


Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH------HcCCC--------HHHHHHHHHHHHhcC--
Q 047221          247 KKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIK------KTERK--------VSYYNILIKEMCRRC--  310 (509)
Q Consensus       247 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~------~m~~~--------~~~~~~li~~~~~~g--  310 (509)
                      +++|+.-|..-++.. +.+...++.|.+++..  +. .+.+.|.      .+..+        ...|..++..+-+.-  
T Consensus        86 ~~eA~~ay~~GL~~d-~~n~~L~~gl~~a~~~--~~-~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~  161 (539)
T KOG0548|consen   86 YEEAILAYSEGLEKD-PSNKQLKTGLAQAYLE--DY-AADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTS  161 (539)
T ss_pred             HHHHHHHHHHHhhcC-CchHHHHHhHHHhhhH--HH-HhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHh
Confidence            999999998877643 4456667777777711  11 1112221      11111        123444444332211  


Q ss_pred             -----C---ccHHHHHHHH-----HHHcC-------CCCC----------------------hHHHHHHHHHHHhcCChH
Q 047221          311 -----D---FKGPRDLLVE-----MRQVG-------CEPI----------------------TLTYNYVLGVLCKNGQDA  348 (509)
Q Consensus       311 -----~---~~~A~~~~~~-----m~~~g-------~~p~----------------------~~t~~~li~~~~~~g~~~  348 (509)
                           +   +..|.-.+..     +...|       ..|.                      ..-...+.++..+..+++
T Consensus       162 l~~~l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~  241 (539)
T KOG0548|consen  162 LKLYLNDPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFE  241 (539)
T ss_pred             hhcccccHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHH
Confidence                 1   1111111110     00111       1110                      112356667777778888


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHH-------HHHHHHHcCCHHHHH
Q 047221          349 DACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAA-------FIKGYFIFYRYEDAY  421 (509)
Q Consensus       349 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~-------li~~~~~~g~~~~A~  421 (509)
                      .|.+-+....+..  -+..-++..-.+|...|...++...-....+.|.. ...-|+.       +-.+|.+.++.+.|.
T Consensus       242 ~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g~a~~k~~~~~~ai  318 (539)
T KOG0548|consen  242 TAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLGNAYTKREDYEGAI  318 (539)
T ss_pred             HHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhhhhhhhHHhHHHHH
Confidence            8888888777753  35555666667888888888877777666655432 1222222       333666778889999


Q ss_pred             HHHHHHHhCCCCCCHHH-------------------------HHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHH
Q 047221          422 KYVVLSADKYKSSSNML-------------------------YSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRR  476 (509)
Q Consensus       422 ~~~~~m~~~~~~p~~~~-------------------------~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~  476 (509)
                      ..|.+.......|+...                         --.=...+.+.|++..|++.|.+++... +-|...|..
T Consensus       319 ~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~-P~Da~lYsN  397 (539)
T KOG0548|consen  319 KYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRD-PEDARLYSN  397 (539)
T ss_pred             HHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CchhHHHHH
Confidence            99988776655554421                         0111355668899999999999999875 446778998


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCC
Q 047221          477 VLKHLHTSHQEHMAKCLSSRYSSLS  501 (509)
Q Consensus       477 ll~~~~~~g~~~~a~~~~~~m~~~~  501 (509)
                      -.-+|.+.|.+..|+.-.+.-.+..
T Consensus       398 RAac~~kL~~~~~aL~Da~~~ieL~  422 (539)
T KOG0548|consen  398 RAACYLKLGEYPEALKDAKKCIELD  422 (539)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            8889999999999998777776663

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.33  E-value=0.11  Score=46.44  Aligned_cols=183  Identities=10%  Similarity=-0.013  Sum_probs=107.2

Q ss_pred             CCHHHHHHHHHHhhhC---C-CccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHH
Q 047221          209 DDYETMRQLLNDFNVY---Q-VCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEM  284 (509)
Q Consensus       209 g~~~~A~~l~~~m~~~---~-~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~  284 (509)
                      .+.++..+++.+|...   | ..++..+..-.+-..+-..++.+.|...++.+...- +-+..+...-...+-..|.+++
T Consensus        26 rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa~~~~~~  104 (289)
T KOG3060|consen   26 RNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF-PGSKRVGKLKAMLLEATGNYKE  104 (289)
T ss_pred             cCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhchhh
Confidence            4567777777766533   3 455555444333333334455777777777766543 3333333222333444577777


Q ss_pred             HHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 047221          285 AKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGR  360 (509)
Q Consensus       285 A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  360 (509)
                      |.++++.+    +.|.+++---+...-..|+--+|++-+.+..+. +..|...|.-+-..|...|++++|.-.++++.-.
T Consensus       105 A~e~y~~lL~ddpt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~  183 (289)
T KOG3060|consen  105 AIEYYESLLEDDPTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLI  183 (289)
T ss_pred             HHHHHHHHhccCcchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHc
Confidence            77777776    345666666666666667766777777666654 4567777777777777777777777777777653


Q ss_pred             CCCCCHHH-HHHHHHHHHHc---CChHHHHHHHHHHHHC
Q 047221          361 NCHPDAIT-YEIFIVYSCRV---GKFDVAFNFFNQMVKR  395 (509)
Q Consensus       361 g~~p~~~~-~~~li~~~~~~---g~~~~a~~~~~~m~~~  395 (509)
                        .|.... +..+-..+.-.   .+.+-|.+.|.+..+.
T Consensus       184 --~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl  220 (289)
T KOG3060|consen  184 --QPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKL  220 (289)
T ss_pred             --CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence              344333 33333333222   2455566666666554

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.31  E-value=0.013  Score=46.87  Aligned_cols=98  Identities=15%  Similarity=0.006  Sum_probs=49.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCC--CCCHHHHHHHH
Q 047221          333 TYNYVLGVLCKNGQDADACELLEEMLGRNC--HPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGL--QPRLATHAAFI  408 (509)
Q Consensus       333 t~~~li~~~~~~g~~~~a~~~~~~m~~~g~--~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~--~p~~~~~~~li  408 (509)
                      ++..+...+.+.|++++|.+.|..+.+..-  ......+..+..++.+.|++++|...|+.+....-  ......+..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            344445555556666666666665554311  01123344455555566666666666665554311  11133445555


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhC
Q 047221          409 KGYFIFYRYEDAYKYVVLSADK  430 (509)
Q Consensus       409 ~~~~~~g~~~~A~~~~~~m~~~  430 (509)
                      .++.+.|+.++|...++++.+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHH
Confidence            5555666666666666655554

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.

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.26  E-value=0.073  Score=48.75  Aligned_cols=177  Identities=15%  Similarity=0.136  Sum_probs=101.0

Q ss_pred             HHHHHHhcCCccHHHHHHHHHHHcCCCCChH-H---HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 047221          302 LIKEMCRRCDFKGPRDLLVEMRQVGCEPITL-T---YNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSC  377 (509)
Q Consensus       302 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t---~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  377 (509)
                      ....+.+.|++++|.+.|+++...  .|+.. .   .-.+..+|.+.+++++|...+++..+.-..-...-|...+.+.+
T Consensus        38 ~A~~~~~~g~y~~Ai~~f~~l~~~--yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~  115 (243)
T PRK10866         38 TAQQKLQDGNWKQAITQLEALDNR--YPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLT  115 (243)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHh
Confidence            444455677777777777777764  23321 1   13455667777888888888877776522111223333333332


Q ss_pred             H--cC---------------C---hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHH
Q 047221          378 R--VG---------------K---FDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNM  437 (509)
Q Consensus       378 ~--~g---------------~---~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~  437 (509)
                      .  .+               +   ..+|...|++++               .-|=...-..+|...+..+...   .-..
T Consensus       116 ~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li---------------~~yP~S~ya~~A~~rl~~l~~~---la~~  177 (243)
T PRK10866        116 NMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLV---------------RGYPNSQYTTDATKRLVFLKDR---LAKY  177 (243)
T ss_pred             hhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHH---------------HHCcCChhHHHHHHHHHHHHHH---HHHH
Confidence            1  11               1   123334444443               3333333344454444333321   0011


Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHC--CCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 047221          438 LYSLLASLHDKNNNPVMAKNVLSEMMKN--GLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSS  499 (509)
Q Consensus       438 ~~~~li~~~~~~g~~~~a~~~~~~m~~~--g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~  499 (509)
                      -+ .+..-|.+.|.+.-|+.-++.+++.  +.+........+..+|.+.|..++|..+.+.+..
T Consensus       178 e~-~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~~  240 (243)
T PRK10866        178 EL-SVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIAA  240 (243)
T ss_pred             HH-HHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHhc
Confidence            11 4566678888888888888888874  4445566777888889999999998888776643

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.18  E-value=0.023  Score=47.28  Aligned_cols=93  Identities=6%  Similarity=-0.099  Sum_probs=67.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHH
Q 047221          267 SGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLC  342 (509)
Q Consensus       267 ~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~  342 (509)
                      ...-.+..-+...|++++|+++|+-+    +.+..-|-.|..++-..|++++|++.|....... +-|...+-.+..++.
T Consensus        36 ~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~L  114 (157)
T PRK15363         36 NTLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYL  114 (157)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHH
Confidence            33445666667778888888888775    3456677777777777888888888888777665 456677777777788


Q ss_pred             hcCChHHHHHHHHHHHhC
Q 047221          343 KNGQDADACELLEEMLGR  360 (509)
Q Consensus       343 ~~g~~~~a~~~~~~m~~~  360 (509)
                      ..|+.+.|.+-|+.....
T Consensus       115 ~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        115 ACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HcCCHHHHHHHHHHHHHH
Confidence            888888888888766554

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.17  E-value=0.087  Score=53.01  Aligned_cols=88  Identities=11%  Similarity=0.111  Sum_probs=51.5

Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHH--------
Q 047221          366 AITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNM--------  437 (509)
Q Consensus       366 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~--------  437 (509)
                      ..+...+..-+-+...+.-|-++|..|-+.         ..+++.+...++|.+|+.+-+...+-  .|++.        
T Consensus       747 re~l~~~a~ylk~l~~~gLAaeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwLA  815 (1081)
T KOG1538|consen  747 REPLLLCATYLKKLDSPGLAAEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWLA  815 (1081)
T ss_pred             hhHHHHHHHHHhhccccchHHHHHHHhccH---------HHHhhheeecccchHhHhhhhhCccc--cccccchHHHHhh
Confidence            334444444455566777788888877432         34677778888888888887654432  33332        


Q ss_pred             ---HHHHHHHHHHhCCChHHHHHHHHHHHH
Q 047221          438 ---LYSLLASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       438 ---~~~~li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                         -|.---.+|.++|+-.+|.++++.+..
T Consensus       816 E~DrFeEAqkAfhkAGr~~EA~~vLeQLtn  845 (1081)
T KOG1538|consen  816 ENDRFEEAQKAFHKAGRQREAVQVLEQLTN  845 (1081)
T ss_pred             hhhhHHHHHHHHHHhcchHHHHHHHHHhhh
Confidence               122223455566666666666666543

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.16  E-value=0.011  Score=50.97  Aligned_cols=94  Identities=11%  Similarity=0.045  Sum_probs=47.0

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 047221          368 TYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQP--RLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASL  445 (509)
Q Consensus       368 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~  445 (509)
                      .|..+...+...|++++|...|++.......+  ...++..+...|...|+.++|.+.++...... +....++..+...
T Consensus        37 ~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~la~i  115 (168)
T CHL00033         37 TYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNMAVI  115 (168)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHH
Confidence            34444455555566666666666554432111  12345555566666666666666665555432 1122334444444


Q ss_pred             HH-------hCCChHHHHHHHHHH
Q 047221          446 HD-------KNNNPVMAKNVLSEM  462 (509)
Q Consensus       446 ~~-------~~g~~~~a~~~~~~m  462 (509)
                      +.       ..|++++|+..+++.
T Consensus       116 ~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        116 CHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHhhHHHHHcccHHHHHHHHHHH
Confidence            44       566666555554443

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.14  E-value=0.013  Score=57.24  Aligned_cols=86  Identities=13%  Similarity=0.031  Sum_probs=43.8

Q ss_pred             HHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHH
Q 047221          377 CRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAK  456 (509)
Q Consensus       377 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~  456 (509)
                      ...|++++|++.|++.++.. +-+...|..+..+|.+.|++++|+..+++..+... .+...|..+..+|...|++++|+
T Consensus        13 ~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P-~~~~a~~~lg~~~~~lg~~~eA~   90 (356)
T PLN03088         13 FVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELDP-SLAKAYLRKGTACMKLEEYQTAK   90 (356)
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHhCCHHHHH
Confidence            34455555555555555432 22344455555555555555555555555544321 13334555555555555555555


Q ss_pred             HHHHHHHH
Q 047221          457 NVLSEMMK  464 (509)
Q Consensus       457 ~~~~~m~~  464 (509)
                      +.|++.++
T Consensus        91 ~~~~~al~   98 (356)
T PLN03088         91 AALEKGAS   98 (356)
T ss_pred             HHHHHHHH
Confidence            55555554

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.13  E-value=0.04  Score=51.89  Aligned_cols=33  Identities=12%  Similarity=0.017  Sum_probs=22.0

Q ss_pred             CHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCccHHHHHHHHHH
Q 047221          281 LYEMAKYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMR  323 (509)
Q Consensus       281 ~~~~A~~~~~~m~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  323 (509)
                      ++++|..+|+          .....|-..|++++|.+.|.+..
T Consensus        30 ~~e~Aa~~y~----------~Aa~~fk~~~~~~~A~~ay~kAa   62 (282)
T PF14938_consen   30 DYEEAADLYE----------KAANCFKLAKDWEKAAEAYEKAA   62 (282)
T ss_dssp             HHHHHHHHHH----------HHHHHHHHTT-CHHHHHHHHHHH
T ss_pred             CHHHHHHHHH----------HHHHHHHHHhccchhHHHHHHHH
Confidence            6677766554          45667777788888877777654

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.12  E-value=0.00084  Score=50.24  Aligned_cols=81  Identities=20%  Similarity=0.216  Sum_probs=43.5

Q ss_pred             cCChHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHH
Q 047221          379 VGKFDVAFNFFNQMVKRGLQ-PRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKN  457 (509)
Q Consensus       379 ~g~~~~a~~~~~~m~~~g~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~  457 (509)
                      .|+++.|+.+++++.+..-. ++...+-.+..+|.+.|++++|..+++. .+.+. .+....-.+..+|.+.|++++|++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~-~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDP-SNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHH-CHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCC-CCHHHHHHHHHHHHHhCCHHHHHH
Confidence            45666677777766655321 1333444466667777777777777765 21111 122233344566667777777777


Q ss_pred             HHHH
Q 047221          458 VLSE  461 (509)
Q Consensus       458 ~~~~  461 (509)
                      ++++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            6654

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.11  E-value=0.032  Score=48.24  Aligned_cols=129  Identities=16%  Similarity=0.109  Sum_probs=68.7

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 047221          332 LTYNYVLGVLCKNGQDADACELLEEMLGRNCHPD--AITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIK  409 (509)
Q Consensus       332 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  409 (509)
                      ..+..+...|...|++++|...|++..+....+.  ...+..+...+.+.|++++|...+++..+.. +-+...+..+..
T Consensus        36 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~  114 (172)
T PRK02603         36 FVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNIAV  114 (172)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHH
Confidence            3455556666666777777777766665422221  2455566666666666777766666666542 123444555555


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCC
Q 047221          410 GYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQ  486 (509)
Q Consensus       410 ~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~  486 (509)
                      +|...|+...+..-++...                     ..+++|++++++...  ..|+  .|..++..+...|+
T Consensus       115 ~~~~~g~~~~a~~~~~~A~---------------------~~~~~A~~~~~~a~~--~~p~--~~~~~~~~~~~~~~  166 (172)
T PRK02603        115 IYHKRGEKAEEAGDQDEAE---------------------ALFDKAAEYWKQAIR--LAPN--NYIEAQNWLKTTGR  166 (172)
T ss_pred             HHHHcCChHhHhhCHHHHH---------------------HHHHHHHHHHHHHHh--hCch--hHHHHHHHHHhcCc
Confidence            5655555444443322211                     114566666666654  2233  35555555554443

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.09  E-value=0.027  Score=48.62  Aligned_cols=88  Identities=13%  Similarity=0.047  Sum_probs=46.4

Q ss_pred             HHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCC--hHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 047221          296 VSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPI--TLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFI  373 (509)
Q Consensus       296 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  373 (509)
                      ...+..+...+...|++++|...|++..+.+..+.  ...+..+...+.+.|++++|...+.+..+.. +-+...+..+.
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg  113 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNIA  113 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHH
Confidence            33445555555556666666666665554321211  2455566666666666666666666665541 12344455555


Q ss_pred             HHHHHcCChHH
Q 047221          374 VYSCRVGKFDV  384 (509)
Q Consensus       374 ~~~~~~g~~~~  384 (509)
                      ..+...|+...
T Consensus       114 ~~~~~~g~~~~  124 (172)
T PRK02603        114 VIYHKRGEKAE  124 (172)
T ss_pred             HHHHHcCChHh
Confidence            55555555433

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.02  E-value=0.18  Score=51.59  Aligned_cols=135  Identities=16%  Similarity=0.041  Sum_probs=66.4

Q ss_pred             cCCCHHHHHHHHHHHHhcCC-----ccHHHHHHHHHHHcCCCCC-hHHHHHHHHHHHhcC--------ChHHHHHHHHHH
Q 047221          292 TERKVSYYNILIKEMCRRCD-----FKGPRDLLVEMRQVGCEPI-TLTYNYVLGVLCKNG--------QDADACELLEEM  357 (509)
Q Consensus       292 m~~~~~~~~~li~~~~~~g~-----~~~A~~~~~~m~~~g~~p~-~~t~~~li~~~~~~g--------~~~~a~~~~~~m  357 (509)
                      .+.|...|...+.+.....+     .+.|.++|++..+.  .|| ...|..+..+|....        +++.+.+.....
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            35666777777766443222     55677777777765  444 233333322222111        112222222222


Q ss_pred             HhC-CCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 047221          358 LGR-NCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADK  430 (509)
Q Consensus       358 ~~~-g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  430 (509)
                      ... ....+...|.++.-.+...|++++|...+++..+.+  |+...|..+...|...|+.++|.+.+++....
T Consensus       411 ~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L  482 (517)
T PRK10153        411 VALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNL  482 (517)
T ss_pred             hhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            221 122233445554444444566666666666655543  45555666666666666666666666555443

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.00  E-value=0.18  Score=51.29  Aligned_cols=194  Identities=10%  Similarity=0.032  Sum_probs=106.9

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhhhC-CCcc--------CHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHH
Q 047221          197 ICSLVIDNCGRLDDYETMRQLLNDFNVY-QVCL--------NEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVS  267 (509)
Q Consensus       197 ~~~~li~~~~~~g~~~~A~~l~~~m~~~-~~~p--------~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~  267 (509)
                      .|..+.......-.++.|+..|-+.... |++.        +...-..-+.+++   |.+++|++++-+|.+..      
T Consensus       694 LWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~~~---g~feeaek~yld~drrD------  764 (1189)
T KOG2041|consen  694 LWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISAFY---GEFEEAEKLYLDADRRD------  764 (1189)
T ss_pred             HHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhhhh---cchhHhhhhhhccchhh------
Confidence            8988888877777788888777665332 2211        1111122233232   45888888888777643      


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHcCCC------HHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHH
Q 047221          268 GVRALIEMFSVLGLYEMAKYVIKKTERK------VSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVL  341 (509)
Q Consensus       268 ~~~~li~~~~~~g~~~~A~~~~~~m~~~------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~  341 (509)
                         ..|.++.+.|++-...++++.-..|      ..+|+.+...++....|++|.+.|..-...         ...+.++
T Consensus       765 ---LAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~~---------e~~~ecl  832 (1189)
T KOG2041|consen  765 ---LAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGDT---------ENQIECL  832 (1189)
T ss_pred             ---hhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccch---------HhHHHHH
Confidence               4567777888888887777663211      456777777777777777777766543321         1234444


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 047221          342 CKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAY  421 (509)
Q Consensus       342 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  421 (509)
                      .+..++++-+.+-..+.+     |....-.|..++...|.-++|.+.|-+-   + .|     -+.+++|...++|.+|.
T Consensus       833 y~le~f~~LE~la~~Lpe-----~s~llp~~a~mf~svGMC~qAV~a~Lr~---s-~p-----kaAv~tCv~LnQW~~av  898 (1189)
T KOG2041|consen  833 YRLELFGELEVLARTLPE-----DSELLPVMADMFTSVGMCDQAVEAYLRR---S-LP-----KAAVHTCVELNQWGEAV  898 (1189)
T ss_pred             HHHHhhhhHHHHHHhcCc-----ccchHHHHHHHHHhhchHHHHHHHHHhc---c-Cc-----HHHHHHHHHHHHHHHHH
Confidence            444444443333332222     3334444555555556655555544221   1 11     12344455555555555


Q ss_pred             HHHH
Q 047221          422 KYVV  425 (509)
Q Consensus       422 ~~~~  425 (509)
                      ++-+
T Consensus       899 elaq  902 (1189)
T KOG2041|consen  899 ELAQ  902 (1189)
T ss_pred             HHHH
Confidence            5543

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=96.98  E-value=0.085  Score=53.96  Aligned_cols=143  Identities=16%  Similarity=0.137  Sum_probs=92.8

Q ss_pred             CCCCChHHHHHHHHHHHhcC-----ChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHHcC--------ChHHHHHHHHH
Q 047221          326 GCEPITLTYNYVLGVLCKNG-----QDADACELLEEMLGRNCHPD-AITYEIFIVYSCRVG--------KFDVAFNFFNQ  391 (509)
Q Consensus       326 g~~p~~~t~~~li~~~~~~g-----~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g--------~~~~a~~~~~~  391 (509)
                      +...|...|...+.+.....     +.+.|..+|++..+.  .|+ ...|..+..++....        ++..+.+..++
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~  409 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDN  409 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHH
Confidence            44677788888888755432     266788888888876  454 445555444443221        12333333333


Q ss_pred             HHHC-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcC
Q 047221          392 MVKR-GLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPN  470 (509)
Q Consensus       392 m~~~-g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  470 (509)
                      .... ....+...|.++.-.+...|++++|...+++..+..  |+...|..+...+...|+.++|.+.+++...  +.|.
T Consensus       410 a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~--L~P~  485 (517)
T PRK10153        410 IVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFN--LRPG  485 (517)
T ss_pred             hhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCC
Confidence            3222 123345667777666667788888888888887775  5677888888888888888888888888776  4455


Q ss_pred             HHHH
Q 047221          471 VSVY  474 (509)
Q Consensus       471 ~~t~  474 (509)
                      ..||
T Consensus       486 ~pt~  489 (517)
T PRK10153        486 ENTL  489 (517)
T ss_pred             CchH
Confidence            5554

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=96.94  E-value=0.026  Score=48.54  Aligned_cols=94  Identities=14%  Similarity=0.011  Sum_probs=53.7

Q ss_pred             hHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 047221          331 TLTYNYVLGVLCKNGQDADACELLEEMLGRNCHP--DAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFI  408 (509)
Q Consensus       331 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  408 (509)
                      ...|..+...+...|++++|...|++.......+  ...++..+-..+.+.|+.++|+..+++..... +....++..+.
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~la  113 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNMA  113 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHH
Confidence            3445555566666677777777777665442121  12356666667777777777777777666542 22344455555


Q ss_pred             HHHH-------HcCCHHHHHHHHH
Q 047221          409 KGYF-------IFYRYEDAYKYVV  425 (509)
Q Consensus       409 ~~~~-------~~g~~~~A~~~~~  425 (509)
                      ..|.       ..|+++.|...++
T Consensus       114 ~i~~~~~~~~~~~g~~~~A~~~~~  137 (168)
T CHL00033        114 VICHYRGEQAIEQGDSEIAEAWFD  137 (168)
T ss_pred             HHHHHhhHHHHHcccHHHHHHHHH
Confidence            5555       5555554444443

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.91  E-value=0.06  Score=43.04  Aligned_cols=104  Identities=17%  Similarity=0.100  Sum_probs=57.0

Q ss_pred             HHHHHhcCCccHHHHHHHHHHHcCCCCC--hHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC----HHHHHHHHHHH
Q 047221          303 IKEMCRRCDFKGPRDLLVEMRQVGCEPI--TLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPD----AITYEIFIVYS  376 (509)
Q Consensus       303 i~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~----~~~~~~li~~~  376 (509)
                      ..++-..|+.++|+.+|++....|....  ...+-.+.+.+...|++++|..++++.....  |+    ......+..++
T Consensus         8 A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~--p~~~~~~~l~~f~Al~L   85 (120)
T PF12688_consen    8 AWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF--PDDELNAALRVFLALAL   85 (120)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHH
Confidence            3455556777777777777766665443  2344555666667777777777777666541  22    11111122345


Q ss_pred             HHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 047221          377 CRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYF  412 (509)
Q Consensus       377 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  412 (509)
                      ...|+.++|...+-.....    +...|.--|..|+
T Consensus        86 ~~~gr~~eAl~~~l~~la~----~~~~y~ra~~~ya  117 (120)
T PF12688_consen   86 YNLGRPKEALEWLLEALAE----TLPRYRRAIRFYA  117 (120)
T ss_pred             HHCCCHHHHHHHHHHHHHH----HHHHHHHHHHHHH
Confidence            5667777776666554432    3334554454443

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=96.89  E-value=0.29  Score=44.81  Aligned_cols=174  Identities=10%  Similarity=-0.056  Sum_probs=99.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHc---CC-CHHH---HHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHh
Q 047221          271 ALIEMFSVLGLYEMAKYVIKKT---ER-KVSY---YNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCK  343 (509)
Q Consensus       271 ~li~~~~~~g~~~~A~~~~~~m---~~-~~~~---~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~  343 (509)
                      .....+.+.|++++|...|+++   -| ....   .-.+..+|.+.+++++|...|++..+.--.-...-|...+.+.+.
T Consensus        37 ~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~  116 (243)
T PRK10866         37 ATAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTN  116 (243)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhh
Confidence            3444555677888888888776   12 2222   234556777888888888888887765212122233333333321


Q ss_pred             --cC---------------C---hHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHH
Q 047221          344 --NG---------------Q---DADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLAT  403 (509)
Q Consensus       344 --~g---------------~---~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~  403 (509)
                        .+               +   ..+|.+.|+++               |.-|=...-..+|...+..+...    =...
T Consensus       117 ~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~l---------------i~~yP~S~ya~~A~~rl~~l~~~----la~~  177 (243)
T PRK10866        117 MALDDSALQGFFGVDRSDRDPQHARAAFRDFSKL---------------VRGYPNSQYTTDATKRLVFLKDR----LAKY  177 (243)
T ss_pred             hhcchhhhhhccCCCccccCHHHHHHHHHHHHHH---------------HHHCcCChhHHHHHHHHHHHHHH----HHHH
Confidence              11               1   12333444444               33343334455555544444322    0111


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHH
Q 047221          404 HAAFIKGYFIFYRYEDAYKYVVLSADK--YKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMM  463 (509)
Q Consensus       404 ~~~li~~~~~~g~~~~A~~~~~~m~~~--~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  463 (509)
                      --.+..-|.+.|.+..|..-++.+.+.  +..........++.+|...|..++|.++...+.
T Consensus       178 e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        178 ELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            124566688888888888888888765  334445566778888888888888887766543

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=96.89  E-value=0.13  Score=54.39  Aligned_cols=209  Identities=11%  Similarity=-0.000  Sum_probs=130.1

Q ss_pred             HHHHHHHHHH-cCCC---HHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHH
Q 047221          282 YEMAKYVIKK-TERK---VSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEM  357 (509)
Q Consensus       282 ~~~A~~~~~~-m~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m  357 (509)
                      ...|...|-+ +.-|   ...|..|...|+...+...|.+.|+...+.. ..|...+....+.|+...+++.|..+.-..
T Consensus       474 ~~~al~ali~alrld~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~l~~  552 (1238)
T KOG1127|consen  474 SALALHALIRALRLDVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEICLRA  552 (1238)
T ss_pred             HHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHHHHH
Confidence            4555555433 2222   5678888888888888888888888887654 456677788888888888998888883222


Q ss_pred             HhCCCCCCHHHHHH--HHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCC
Q 047221          358 LGRNCHPDAITYEI--FIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSS  435 (509)
Q Consensus       358 ~~~g~~p~~~~~~~--li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~  435 (509)
                      -+. -+.-...+|.  .--.|.+.++..+|..-|+...+.. +-|...|..+.++|..+|++..|.++|.+.....  |+
T Consensus       553 ~qk-a~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~Lr--P~  628 (1238)
T KOG1127|consen  553 AQK-APAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLLR--PL  628 (1238)
T ss_pred             hhh-chHHHHHhhhhhccccccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhcC--cH
Confidence            221 1111112222  2234566778888888888777653 3367788889999999999999999997766543  32


Q ss_pred             HHHHHHHH--HHHHhCCChHHHHHHHHHHHHC------CCCcCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 047221          436 NMLYSLLA--SLHDKNNNPVMAKNVLSEMMKN------GLRPNVSVYRRVLKHLHTSHQEHMAKCLSSR  496 (509)
Q Consensus       436 ~~~~~~li--~~~~~~g~~~~a~~~~~~m~~~------g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~  496 (509)
                      . +|...-  ..-+..|.+++|+..+......      +..--..++..+...+.-.|-..+|...+++
T Consensus       629 s-~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~ek  696 (1238)
T KOG1127|consen  629 S-KYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEK  696 (1238)
T ss_pred             h-HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHH
Confidence            2 233222  2335678888888888776542      1112223444444444444554455444444

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=96.89  E-value=0.024  Score=55.27  Aligned_cols=80  Identities=8%  Similarity=-0.119  Sum_probs=45.4

Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHH
Q 047221          245 LTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLV  320 (509)
Q Consensus       245 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~  320 (509)
                      +++++|...+++..+.. +.+...|..+..+|.+.|++++|...+++.    +.+...|..+..+|...|++++|+..|+
T Consensus        16 ~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~~eA~~~~~   94 (356)
T PLN03088         16 DDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEYQTAKAALE   94 (356)
T ss_pred             CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence            34666666666665543 234455555566666666666666665553    2345555555566666666666666666


Q ss_pred             HHHHc
Q 047221          321 EMRQV  325 (509)
Q Consensus       321 ~m~~~  325 (509)
                      +..+.
T Consensus        95 ~al~l   99 (356)
T PLN03088         95 KGASL   99 (356)
T ss_pred             HHHHh
Confidence            55543

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.84  E-value=0.14  Score=45.55  Aligned_cols=181  Identities=12%  Similarity=0.033  Sum_probs=88.9

Q ss_pred             HHHHHHhcCCccHHHHHHHHHHHcCC--CCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHc
Q 047221          302 LIKEMCRRCDFKGPRDLLVEMRQVGC--EPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRV  379 (509)
Q Consensus       302 li~~~~~~g~~~~A~~~~~~m~~~g~--~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  379 (509)
                      ....+.+.|++++|.+.|+++...--  +--....-.++.++.+.|++++|...+++..+.-..-...-+...+.+.+..
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            34445566777777777777765411  1113344556666777777777777777766541111112222222232221


Q ss_pred             CChHHHH---HHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHH
Q 047221          380 GKFDVAF---NFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAK  456 (509)
Q Consensus       380 g~~~~a~---~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~  456 (509)
                      .......   .=-....+     -...+..+|.-|=......+|...+..+.+.-   -.. --.+..-|.+.|.+..|.
T Consensus        91 ~~~~~~~~~~~D~~~~~~-----A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~l---a~~-e~~ia~~Y~~~~~y~aA~  161 (203)
T PF13525_consen   91 KQIPGILRSDRDQTSTRK-----AIEEFEELIKRYPNSEYAEEAKKRLAELRNRL---AEH-ELYIARFYYKRGKYKAAI  161 (203)
T ss_dssp             HHHHHHH-TT---HHHHH-----HHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHH---HHH-HHHHHHHHHCTT-HHHHH
T ss_pred             HhCccchhcccChHHHHH-----HHHHHHHHHHHCcCchHHHHHHHHHHHHHHHH---HHH-HHHHHHHHHHcccHHHHH
Confidence            1111110   00000000     02234555555555666666665555444320   111 113567778888888888


Q ss_pred             HHHHHHHHC--CCCcCHHHHHHHHHHHHhcCCHHHHH
Q 047221          457 NVLSEMMKN--GLRPNVSVYRRVLKHLHTSHQEHMAK  491 (509)
Q Consensus       457 ~~~~~m~~~--g~~p~~~t~~~ll~~~~~~g~~~~a~  491 (509)
                      .-++.+++.  +..-.......++.+|.+.|..+.+.
T Consensus       162 ~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  162 IRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             HHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            888888774  22223345677777888888877544

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.83  E-value=0.48  Score=45.21  Aligned_cols=103  Identities=14%  Similarity=-0.012  Sum_probs=50.4

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCC
Q 047221          371 IFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNN  450 (509)
Q Consensus       371 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g  450 (509)
                      .-|.-+...|+...|.++-.+.   + .|+..-|-.-|.+|+..|+|++-.++...    .-  .++-|..++.+|.+.|
T Consensus       182 ~Ti~~li~~~~~k~A~kl~k~F---k-v~dkrfw~lki~aLa~~~~w~eL~~fa~s----kK--sPIGyepFv~~~~~~~  251 (319)
T PF04840_consen  182 DTIRKLIEMGQEKQAEKLKKEF---K-VPDKRFWWLKIKALAENKDWDELEKFAKS----KK--SPIGYEPFVEACLKYG  251 (319)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHc---C-CcHHHHHHHHHHHHHhcCCHHHHHHHHhC----CC--CCCChHHHHHHHHHCC
Confidence            3344444555555555554433   1 24555555556666666666555544321    11  1234555555555666


Q ss_pred             ChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHH
Q 047221          451 NPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCL  493 (509)
Q Consensus       451 ~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~  493 (509)
                      +..+|..+..++          ++..-+..|.+.|++.+|.+.
T Consensus       252 ~~~eA~~yI~k~----------~~~~rv~~y~~~~~~~~A~~~  284 (319)
T PF04840_consen  252 NKKEASKYIPKI----------PDEERVEMYLKCGDYKEAAQE  284 (319)
T ss_pred             CHHHHHHHHHhC----------ChHHHHHHHHHCCCHHHHHHH
Confidence            655555555541          112334445555555555444

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

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=96.69  E-value=0.14  Score=42.58  Aligned_cols=88  Identities=11%  Similarity=-0.065  Sum_probs=49.3

Q ss_pred             HHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHH
Q 047221          375 YSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVM  454 (509)
Q Consensus       375 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  454 (509)
                      -+...|++++|..+|+.+..-. .-+..-|-.|-.++...|++++|...|.......+ -|...+-.+..++...|+.+.
T Consensus        44 ~ly~~G~l~~A~~~f~~L~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~c~L~lG~~~~  121 (157)
T PRK15363         44 QLMEVKEFAGAARLFQLLTIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAECYLACDNVCY  121 (157)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHHHHcCCHHH
Confidence            3445566666666666655442 11344455566666666666666666666555442 344445556666666666666


Q ss_pred             HHHHHHHHHH
Q 047221          455 AKNVLSEMMK  464 (509)
Q Consensus       455 a~~~~~~m~~  464 (509)
                      |.+.|+..+.
T Consensus       122 A~~aF~~Ai~  131 (157)
T PRK15363        122 AIKALKAVVR  131 (157)
T ss_pred             HHHHHHHHHH
Confidence            6666665544

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=96.61  E-value=0.0061  Score=43.27  Aligned_cols=50  Identities=26%  Similarity=0.240  Sum_probs=20.8

Q ss_pred             cCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 047221          309 RCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLG  359 (509)
Q Consensus       309 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  359 (509)
                      .|++++|+++|+++.+.. +-+...+..+..+|.+.|++++|.++++.+..
T Consensus         4 ~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~   53 (68)
T PF14559_consen    4 QGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLK   53 (68)
T ss_dssp             TTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred             ccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344444444444444332 12333333444444444444444444444443

...

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=96.60  E-value=0.0075  Score=42.80  Aligned_cols=52  Identities=27%  Similarity=0.414  Sum_probs=26.1

Q ss_pred             hcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHC
Q 047221          343 KNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKR  395 (509)
Q Consensus       343 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  395 (509)
                      +.|++++|.++|+.+.+.. +-+...+..+..+|.+.|++++|..+++.+...
T Consensus         3 ~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             hccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3455555555555555441 224444445555555555555555555555544

...

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=96.57  E-value=0.4  Score=40.84  Aligned_cols=101  Identities=15%  Similarity=0.108  Sum_probs=52.2

Q ss_pred             CCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHC---CCCCCHHHH
Q 047221          328 EPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKR---GLQPRLATH  404 (509)
Q Consensus       328 ~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---g~~p~~~~~  404 (509)
                      -|+...--.|..+....|+..+|...|.+....-..-|....-.+..+....+++..|...++++.+.   +..||.  .
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~--~  163 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDG--H  163 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCc--h
Confidence            44554445555555566666666666655554433344445555555555555666665555555443   222332  2


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhC
Q 047221          405 AAFIKGYFIFYRYEDAYKYVVLSADK  430 (509)
Q Consensus       405 ~~li~~~~~~g~~~~A~~~~~~m~~~  430 (509)
                      -.+...|...|+.++|+.-|+.....
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~a~~~  189 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEVAISY  189 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHh
Confidence            23444555555555555555555444

>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=96.55  E-value=0.25  Score=39.49  Aligned_cols=138  Identities=16%  Similarity=0.127  Sum_probs=79.3

Q ss_pred             ccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 047221          207 RLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAK  286 (509)
Q Consensus       207 ~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~  286 (509)
                      -.|.+++..++..+.....   +..-+|.+|.-...    ..++..+++.+...|---|..          .||++....
T Consensus        14 ldG~V~qGveii~k~v~Ss---ni~E~NWvICNiiD----aa~C~yvv~~LdsIGkiFDis----------~C~NlKrVi   76 (161)
T PF09205_consen   14 LDGDVKQGVEIIEKTVNSS---NIKEYNWVICNIID----AADCDYVVETLDSIGKIFDIS----------KCGNLKRVI   76 (161)
T ss_dssp             HTT-HHHHHHHHHHHHHHS----HHHHTHHHHHHHH----H--HHHHHHHHHHHGGGS-GG----------G-S-THHHH
T ss_pred             HhchHHHHHHHHHHHcCcC---Cccccceeeeecch----hhchhHHHHHHHHHhhhcCch----------hhcchHHHH
Confidence            3567777777777765542   44555555542322    223444555555555444443          356666666


Q ss_pred             HHHHHcCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 047221          287 YVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNC  362 (509)
Q Consensus       287 ~~~~~m~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~  362 (509)
                      ..+-.+..+....+..+....+.|+-+.-.+++.++.+.+ +++....-.+..+|.+.|+..++.+++.+..+.|+
T Consensus        77 ~C~~~~n~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   77 ECYAKRNKLSEYVDLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             HHHHHTT---HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHhcchHHHHHHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            6666665566666777788888888888888888777543 67777777888888888888888888888877765

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.53  E-value=0.15  Score=40.74  Aligned_cols=89  Identities=16%  Similarity=0.144  Sum_probs=46.5

Q ss_pred             HHHHHcCChHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHhC
Q 047221          374 VYSCRVGKFDVAFNFFNQMVKRGLQPR--LATHAAFIKGYFIFYRYEDAYKYVVLSADKYKS--SSNMLYSLLASLHDKN  449 (509)
Q Consensus       374 ~~~~~~g~~~~a~~~~~~m~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~--p~~~~~~~li~~~~~~  449 (509)
                      .++-..|+.++|+.+|++....|....  ...+-.+-..|...|++++|..+|++.......  -+......+..++...
T Consensus         9 ~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~~~   88 (120)
T PF12688_consen    9 WAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALYNL   88 (120)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHHC
Confidence            344455666666666666666654443  223444555566666666666666655543211  0111222233355566


Q ss_pred             CChHHHHHHHHHH
Q 047221          450 NNPVMAKNVLSEM  462 (509)
Q Consensus       450 g~~~~a~~~~~~m  462 (509)
                      |+.++|++.+-..
T Consensus        89 gr~~eAl~~~l~~  101 (120)
T PF12688_consen   89 GRPKEALEWLLEA  101 (120)
T ss_pred             CCHHHHHHHHHHH
Confidence            6666666665544

>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=96.50  E-value=0.041  Score=44.45  Aligned_cols=50  Identities=16%  Similarity=0.038  Sum_probs=25.3

Q ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHH
Q 047221          397 LQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADK-YKSSSNMLYSLLASLH  446 (509)
Q Consensus       397 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~p~~~~~~~li~~~  446 (509)
                      ..|+..+..+++.+|+..|++..|+++.+...+. ++..+..+|..|++-.
T Consensus        48 l~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~   98 (126)
T PF12921_consen   48 LYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWA   98 (126)
T ss_pred             CCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            4455555555555555555555555555544433 3444444555555433

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>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=96.49  E-value=0.05  Score=43.92  Aligned_cols=83  Identities=7%  Similarity=0.039  Sum_probs=54.9

Q ss_pred             hHHHHHHHHHHHhcCChHHHHHHHHHH---------------HhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHC
Q 047221          331 TLTYNYVLGVLCKNGQDADACELLEEM---------------LGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKR  395 (509)
Q Consensus       331 ~~t~~~li~~~~~~g~~~~a~~~~~~m---------------~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  395 (509)
                      ..++.++|-++++.|+++...++++..               ......|+..+..+++.+|+.+|++..|.++.+...+.
T Consensus         2 e~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~   81 (126)
T PF12921_consen    2 EELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRK   81 (126)
T ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            344555555555555555555554432               11235678888888888888888888888888876654


Q ss_pred             -CCCCCHHHHHHHHHHHHH
Q 047221          396 -GLQPRLATHAAFIKGYFI  413 (509)
Q Consensus       396 -g~~p~~~~~~~li~~~~~  413 (509)
                       +++.+..+|..|++-...
T Consensus        82 Y~I~i~~~~W~~Ll~W~~v  100 (126)
T PF12921_consen   82 YPIPIPKEFWRRLLEWAYV  100 (126)
T ss_pred             cCCCCCHHHHHHHHHHHHH
Confidence             677777888888775443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.47  E-value=0.16  Score=45.63  Aligned_cols=161  Identities=9%  Similarity=0.040  Sum_probs=90.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHc-C----------CCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHH
Q 047221          269 VRALIEMFSVLGLYEMAKYVIKKT-E----------RKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYV  337 (509)
Q Consensus       269 ~~~li~~~~~~g~~~~A~~~~~~m-~----------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l  337 (509)
                      ++.|+..+.-..-++.-...++.- .          +-....+.++....-.|.+.-.+.++.+..+..-+-+..-...|
T Consensus       139 qesLdRl~~L~~~V~~ii~~~e~~~~~ESsv~lW~KRl~~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~L  218 (366)
T KOG2796|consen  139 QESLDRLHKLKTVVSKILANLEQGLAEESSIRLWRKRLGRVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGL  218 (366)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHH
Confidence            556666665555555544444432 1          11233455666666666676777777777765545556666667


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHH-----HHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 047221          338 LGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFI-----VYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYF  412 (509)
Q Consensus       338 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li-----~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  412 (509)
                      ++.-.+.|+.+.|...|++..+..-..|..+.+.++     ..|.-.+++..|...+.+..... .-|+...|.=.-+..
T Consensus       219 gr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcll  297 (366)
T KOG2796|consen  219 GRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLL  297 (366)
T ss_pred             HHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhheecccchHHHHHHHhhccccC-CCchhhhchHHHHHH
Confidence            777777777777777777666543333333333332     23444566666666676666553 223333333222333


Q ss_pred             HcCCHHHHHHHHHHHHhC
Q 047221          413 IFYRYEDAYKYVVLSADK  430 (509)
Q Consensus       413 ~~g~~~~A~~~~~~m~~~  430 (509)
                      -.|+..+|.+..+.|.+.
T Consensus       298 Ylg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  298 YLGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             HHHHHHHHHHHHHHHhcc
Confidence            346777777777777665

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.45  E-value=0.11  Score=46.56  Aligned_cols=133  Identities=8%  Similarity=-0.049  Sum_probs=99.9

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH--
Q 047221          332 LTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIK--  409 (509)
Q Consensus       332 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~--  409 (509)
                      ...+.++......|.+.-....+.+..+..-+-+......|.+.-.+.||.+.|...|+...+..-+.|..+.+.++.  
T Consensus       178 ~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n  257 (366)
T KOG2796|consen  178 RVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMN  257 (366)
T ss_pred             HHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhh
Confidence            345667777777888888889999999876666788888888988999999999999998877655555555555544  


Q ss_pred             ---HHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHC
Q 047221          410 ---GYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKN  465 (509)
Q Consensus       410 ---~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  465 (509)
                         .|.-.+++..|...+.++...+- .+....|.-.-+..-.|+..+|++.++.|.+.
T Consensus       258 ~a~i~lg~nn~a~a~r~~~~i~~~D~-~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  258 SAFLHLGQNNFAEAHRFFTEILRMDP-RNAVANNNKALCLLYLGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             hhhheecccchHHHHHHHhhccccCC-CchhhhchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence               45567888889999988776642 24444444444445578999999999999885

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=96.43  E-value=0.016  Score=40.62  Aligned_cols=24  Identities=13%  Similarity=0.034  Sum_probs=9.1

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHH
Q 047221          439 YSLLASLHDKNNNPVMAKNVLSEM  462 (509)
Q Consensus       439 ~~~li~~~~~~g~~~~a~~~~~~m  462 (509)
                      +..+...+...|++++|..+|+++
T Consensus        34 ~~~lg~~~~~~g~~~~A~~~~~~a   57 (65)
T PF13432_consen   34 WYLLGRILYQQGRYDEALAYYERA   57 (65)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHH
Confidence            333333333444444444444433

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.43  E-value=0.91  Score=43.34  Aligned_cols=112  Identities=17%  Similarity=0.113  Sum_probs=85.5

Q ss_pred             hHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 047221          331 TLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKG  410 (509)
Q Consensus       331 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  410 (509)
                      ..+.+..|.-+...|+...|.++-.+..    .||..-|-..|.+++..++|++-..+-..   .   -.++-|-..+.+
T Consensus       177 ~~Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s---k---KsPIGyepFv~~  246 (319)
T PF04840_consen  177 GLSLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS---K---KSPIGYEPFVEA  246 (319)
T ss_pred             cCCHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC---C---CCCCChHHHHHH
Confidence            3456666777888899888888866552    46888899999999999999888776432   1   134678889999


Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHH
Q 047221          411 YFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEM  462 (509)
Q Consensus       411 ~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  462 (509)
                      |.+.|+..+|..+..++      +    +.--+..|.+.|++.+|.+.--+.
T Consensus       247 ~~~~~~~~eA~~yI~k~------~----~~~rv~~y~~~~~~~~A~~~A~~~  288 (319)
T PF04840_consen  247 CLKYGNKKEASKYIPKI------P----DEERVEMYLKCGDYKEAAQEAFKE  288 (319)
T ss_pred             HHHCCCHHHHHHHHHhC------C----hHHHHHHHHHCCCHHHHHHHHHHc
Confidence            99999999999888662      1    234677888999999998775544

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

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=96.42  E-value=0.015  Score=40.77  Aligned_cols=61  Identities=15%  Similarity=0.034  Sum_probs=50.2

Q ss_pred             HHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 047221          442 LASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSLG  503 (509)
Q Consensus       442 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~  503 (509)
                      +...+.+.|++++|++.|++.++.. +-+...+..+..++...|++++|..++++..+..+.
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~   63 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALELDPD   63 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC
Confidence            4567889999999999999999864 225667888888999999999999999999876553

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.41  E-value=0.082  Score=48.91  Aligned_cols=97  Identities=16%  Similarity=0.163  Sum_probs=64.1

Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCC--CCCHHHH
Q 047221          366 AITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPR----LATHAAFIKGYFIFYRYEDAYKYVVLSADKYK--SSSNMLY  439 (509)
Q Consensus       366 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~--~p~~~~~  439 (509)
                      ...|...+..+.+.|++++|...|+.+.+.  .|+    ...+-.+..+|...|++++|...|+.+.+...  ......+
T Consensus       143 ~~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~--yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl  220 (263)
T PRK10803        143 NTDYNAAIALVQDKSRQDDAIVAFQNFVKK--YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAM  220 (263)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHH
Confidence            344666665556678888888888887765  222    24556677777888888888888887775421  1123344


Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHH
Q 047221          440 SLLASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       440 ~~li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      -.+...+...|+.++|.++|++..+
T Consensus       221 ~klg~~~~~~g~~~~A~~~~~~vi~  245 (263)
T PRK10803        221 FKVGVIMQDKGDTAKAKAVYQQVIK  245 (263)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4456666677888888888877766

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=96.41  E-value=0.081  Score=44.19  Aligned_cols=69  Identities=9%  Similarity=-0.008  Sum_probs=32.9

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh-----CCCCCCHHH
Q 047221          369 YEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSAD-----KYKSSSNML  438 (509)
Q Consensus       369 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~~~~p~~~~  438 (509)
                      ...++..+...|++++|..+.+.+.... +.|...|..+|.+|...|+...|.++|+.+..     .|+.|...+
T Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   65 LERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            3344455555556666666655555442 33455555566666666666666555554432     255555543

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.37  E-value=0.34  Score=43.04  Aligned_cols=172  Identities=14%  Similarity=0.028  Sum_probs=78.8

Q ss_pred             HHHHHhcCCHHHHHHHHHHcC---CC----HHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCC--hHHHHHHHHHHHh
Q 047221          273 IEMFSVLGLYEMAKYVIKKTE---RK----VSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPI--TLTYNYVLGVLCK  343 (509)
Q Consensus       273 i~~~~~~g~~~~A~~~~~~m~---~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~t~~~li~~~~~  343 (509)
                      ...+...|++++|...|+.+.   |+    ..+.-.++.++.+.|++++|...++++.+.  -|+  ..-+...+.+.+.
T Consensus        12 a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~--yP~~~~~~~A~Y~~g~~~   89 (203)
T PF13525_consen   12 ALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL--YPNSPKADYALYMLGLSY   89 (203)
T ss_dssp             HHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH---TT-TTHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCcchhhHHHHHHHHH
Confidence            344455666666666666651   11    334445666677777777777777776654  222  1222222222211


Q ss_pred             cCChHHHHHHHHHHHhCCCCC---CHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHH
Q 047221          344 NGQDADACELLEEMLGRNCHP---DAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDA  420 (509)
Q Consensus       344 ~g~~~~a~~~~~~m~~~g~~p---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A  420 (509)
                      -.......     ........   -...+..+|.-|=......+|...+..+.+.    =...--.+..-|.+.|.+..|
T Consensus        90 ~~~~~~~~-----~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~----la~~e~~ia~~Y~~~~~y~aA  160 (203)
T PF13525_consen   90 YKQIPGIL-----RSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNR----LAEHELYIARFYYKRGKYKAA  160 (203)
T ss_dssp             HHHHHHHH------TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHH----HHHHHHHHHHHHHCTT-HHHH
T ss_pred             HHhCccch-----hcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHcccHHHH
Confidence            11111110     00000000   0123444555555555556665555544322    011112255667777777777


Q ss_pred             HHHHHHHHhCCC--CCCHHHHHHHHHHHHhCCChHHH
Q 047221          421 YKYVVLSADKYK--SSSNMLYSLLASLHDKNNNPVMA  455 (509)
Q Consensus       421 ~~~~~~m~~~~~--~p~~~~~~~li~~~~~~g~~~~a  455 (509)
                      ..-++.+.+.-.  .........++.+|.+.|..+.+
T Consensus       161 ~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a  197 (203)
T PF13525_consen  161 IIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAA  197 (203)
T ss_dssp             HHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHH
T ss_pred             HHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHH
Confidence            777777766521  11223455667777777766643

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=96.30  E-value=0.52  Score=51.20  Aligned_cols=21  Identities=14%  Similarity=0.115  Sum_probs=10.3

Q ss_pred             HHHHHHHcCCHHHHHHHHHHH
Q 047221          407 FIKGYFIFYRYEDAYKYVVLS  427 (509)
Q Consensus       407 li~~~~~~g~~~~A~~~~~~m  427 (509)
                      .+.+|..+|+|.+|+.+..+|
T Consensus       971 Al~a~~~~~dWr~~l~~a~ql  991 (1265)
T KOG1920|consen  971 ALKAYKECGDWREALSLAAQL  991 (1265)
T ss_pred             HHHHHHHhccHHHHHHHHHhh
Confidence            344455555555555554444

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=96.29  E-value=0.063  Score=49.14  Aligned_cols=98  Identities=16%  Similarity=0.171  Sum_probs=72.3

Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHHcCCHHH
Q 047221          341 LCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPR-LATHAAFIKGYFIFYRYED  419 (509)
Q Consensus       341 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~  419 (509)
                      ..+.+++++|+..|.+.++. .+-|.+-|..=..+|.+.|.++.|++--+..+.-  .|. ..+|..|-.+|...|++++
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~l-~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~i--Dp~yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIEL-DPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSI--DPHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHhc-CCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhc--ChHHHHHHHHHHHHHHccCcHHH
Confidence            55778889999988888876 2345666777788888999888888877766654  232 4678888888888899999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHH
Q 047221          420 AYKYVVLSADKYKSSSNMLYSLLA  443 (509)
Q Consensus       420 A~~~~~~m~~~~~~p~~~~~~~li  443 (509)
                      |.+.|++..+  +.|+..+|-.=+
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            8888877655  456666655433

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=96.25  E-value=0.02  Score=40.72  Aligned_cols=61  Identities=10%  Similarity=-0.044  Sum_probs=32.8

Q ss_pred             HHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCc-CHHHHHHHHHHHHhcC-CHHHHHHHHHHHHh
Q 047221          437 MLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRP-NVSVYRRVLKHLHTSH-QEHMAKCLSSRYSS  499 (509)
Q Consensus       437 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~ll~~~~~~g-~~~~a~~~~~~m~~  499 (509)
                      ..|..+...+...|++++|+..|++.++.  .| +...|..+..++.+.| ++++|++.+++..+
T Consensus         4 ~~~~~~g~~~~~~~~~~~A~~~~~~ai~~--~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    4 EAWYNLGQIYFQQGDYEEAIEYFEKAIEL--DPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             HHHHHHHHHHHHTTHHHHHHHHHHHHHHH--STTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            44555555555566666666666655553  23 3334555555555555 45666665555544

...

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.15  E-value=0.1  Score=48.27  Aligned_cols=94  Identities=13%  Similarity=0.057  Sum_probs=39.8

Q ss_pred             HHHHHHHHhcCCccHHHHHHHHHHHcCCCCCh----HHHHHHHHHHHhcCChHHHHHHHHHHHhCC--CCCCHHHHHHHH
Q 047221          300 NILIKEMCRRCDFKGPRDLLVEMRQVGCEPIT----LTYNYVLGVLCKNGQDADACELLEEMLGRN--CHPDAITYEIFI  373 (509)
Q Consensus       300 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~----~t~~~li~~~~~~g~~~~a~~~~~~m~~~g--~~p~~~~~~~li  373 (509)
                      +..+..+.+.|++++|+..|+.+.+.  .|+.    ..+-.+..+|...|++++|...|+.+.+.-  .+.....+-.+.
T Consensus       147 ~~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        147 NAAIALVQDKSRQDDAIVAFQNFVKK--YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVG  224 (263)
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHH
Confidence            33333333445555555555555443  2222    233444444555555555555555554330  011122222233


Q ss_pred             HHHHHcCChHHHHHHHHHHHHC
Q 047221          374 VYSCRVGKFDVAFNFFNQMVKR  395 (509)
Q Consensus       374 ~~~~~~g~~~~a~~~~~~m~~~  395 (509)
                      ..+...|+.++|..+|+++.+.
T Consensus       225 ~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        225 VIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH
Confidence            3344445555555555544443

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=96.13  E-value=0.033  Score=46.63  Aligned_cols=54  Identities=15%  Similarity=0.213  Sum_probs=23.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHH
Q 047221          269 VRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEM  322 (509)
Q Consensus       269 ~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  322 (509)
                      ...++..+...|+++.|..+.+.+    +-|...|..+|.+|...|+..+|.+.|+++
T Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~  122 (146)
T PF03704_consen   65 LERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERY  122 (146)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            334444444444444444444443    233444444444444444444444444443

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=96.10  E-value=0.027  Score=39.98  Aligned_cols=58  Identities=14%  Similarity=0.090  Sum_probs=23.3

Q ss_pred             HHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcC-ChHHHHHHHHH
Q 047221          298 YYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNG-QDADACELLEE  356 (509)
Q Consensus       298 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g-~~~~a~~~~~~  356 (509)
                      +|..+...+.+.|++++|+..|.+..+.. +-+...|..+..+|.+.| ++++|.+.++.
T Consensus         5 ~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~   63 (69)
T PF13414_consen    5 AWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEK   63 (69)
T ss_dssp             HHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHH
Confidence            34444444444444444444444444332 222333334444444444 34444444433

...

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=95.98  E-value=1.5  Score=42.39  Aligned_cols=163  Identities=13%  Similarity=0.045  Sum_probs=87.0

Q ss_pred             HHHHHHHhcCCccHHHHHHHHHHHcC---CCCChHHHHHHHHHHHh---cCChHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 047221          301 ILIKEMCRRCDFKGPRDLLVEMRQVG---CEPITLTYNYVLGVLCK---NGQDADACELLEEMLGRNCHPDAITYEIFIV  374 (509)
Q Consensus       301 ~li~~~~~~g~~~~A~~~~~~m~~~g---~~p~~~t~~~li~~~~~---~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  374 (509)
                      .++-.|....+++..+++++.|....   +.-....-....-++-+   .|+.++|++++..+....-.++..+|..+..
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            44445888888888888888888641   11111111222334445   7888888888888666656677777777766


Q ss_pred             HHHHc---------CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC-HH---HHHHHH---H-HHHhCCC---CC
Q 047221          375 YSCRV---------GKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYR-YE---DAYKYV---V-LSADKYK---SS  434 (509)
Q Consensus       375 ~~~~~---------g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~-~~---~A~~~~---~-~m~~~~~---~p  434 (509)
                      .|-..         ...++|...|.+--+.  .||..+--.+...+...|. .+   +..++-   . .+.++|.   ..
T Consensus       226 IyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~--~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~~  303 (374)
T PF13281_consen  226 IYKDLFLESNFTDRESLDKAIEWYRKGFEI--EPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKMQ  303 (374)
T ss_pred             HHHHHHHHcCccchHHHHHHHHHHHHHHcC--CccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhccccccc
Confidence            65321         1355566666654433  2443332222222223332 21   222322   1 1112222   12


Q ss_pred             CHHHHHHHHHHHHhCCChHHHHHHHHHHHHC
Q 047221          435 SNMLYSLLASLHDKNNNPVMAKNVLSEMMKN  465 (509)
Q Consensus       435 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  465 (509)
                      +--.+..++.++.-.|+.++|.+..++|...
T Consensus       304 dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  304 DYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            3334556666666677777777777777654

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=95.94  E-value=0.055  Score=48.93  Aligned_cols=96  Identities=19%  Similarity=0.141  Sum_probs=68.7

Q ss_pred             HHHHHHc---CCCHHHHHHHHHHHHhc-----CCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcC------------
Q 047221          286 KYVIKKT---ERKVSYYNILIKEMCRR-----CDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNG------------  345 (509)
Q Consensus       286 ~~~~~~m---~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g------------  345 (509)
                      +..|...   ++|..+|-+++..|...     +.++-....++.|.+-|+..|..+|+.||+.+-+..            
T Consensus        54 e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~  133 (406)
T KOG3941|consen   54 EKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFL  133 (406)
T ss_pred             hhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHh
Confidence            3445555   35667777777776654     445556666778888888888888888887765432            


Q ss_pred             ----ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCC
Q 047221          346 ----QDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGK  381 (509)
Q Consensus       346 ----~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  381 (509)
                          +-+-+.+++++|...|+.||-.+-..|+.++.+.+-
T Consensus       134 HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  134 HYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             hCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence                224578888888888888888888888888877664

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=95.90  E-value=0.3  Score=44.84  Aligned_cols=92  Identities=12%  Similarity=0.008  Sum_probs=65.5

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc---C-CCHHHHHHHHHHHHhcCCccHHHHHH
Q 047221          244 ALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT---E-RKVSYYNILIKEMCRRCDFKGPRDLL  319 (509)
Q Consensus       244 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m---~-~~~~~~~~li~~~~~~g~~~~A~~~~  319 (509)
                      .+++++|+..|...++.. +-|.+-|..-..+|.+.|.++.|++-.+..   . .-..+|..|..+|...|++++|++.|
T Consensus        94 ~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~A~~ay  172 (304)
T KOG0553|consen   94 NKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEEAIEAY  172 (304)
T ss_pred             hhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHHHHHHH
Confidence            455888888888877754 445666777888888888888887666553   2 23567888888888888888888888


Q ss_pred             HHHHHcCCCCChHHHHHHH
Q 047221          320 VEMRQVGCEPITLTYNYVL  338 (509)
Q Consensus       320 ~~m~~~g~~p~~~t~~~li  338 (509)
                      ++..+  +.|+-.+|-.=+
T Consensus       173 kKaLe--ldP~Ne~~K~nL  189 (304)
T KOG0553|consen  173 KKALE--LDPDNESYKSNL  189 (304)
T ss_pred             Hhhhc--cCCCcHHHHHHH
Confidence            77775  367766665443

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.87  E-value=2.7  Score=43.65  Aligned_cols=110  Identities=12%  Similarity=0.017  Sum_probs=78.1

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 047221          367 ITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLH  446 (509)
Q Consensus       367 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~  446 (509)
                      -+.+--+.-+...|+..+|.++-.+..    -||...|--=+.+++..++|++-+++-+.++.      ..-|.-...+|
T Consensus       685 lSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskks------PIGy~PFVe~c  754 (829)
T KOG2280|consen  685 LSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKKS------PIGYLPFVEAC  754 (829)
T ss_pred             CcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccCC------CCCchhHHHHH
Confidence            344445556667788888877766653    45777787778888888998888887765542      23366678888


Q ss_pred             HhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 047221          447 DKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSS  495 (509)
Q Consensus       447 ~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~  495 (509)
                      .+.|+.+||.+++.+...     ..    -.+.+|.+.|++.+|.++--
T Consensus       755 ~~~~n~~EA~KYiprv~~-----l~----ekv~ay~~~~~~~eAad~A~  794 (829)
T KOG2280|consen  755 LKQGNKDEAKKYIPRVGG-----LQ----EKVKAYLRVGDVKEAADLAA  794 (829)
T ss_pred             HhcccHHHHhhhhhccCC-----hH----HHHHHHHHhccHHHHHHHHH
Confidence            899999999998876432     11    45678888888888877643

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=95.80  E-value=0.13  Score=49.14  Aligned_cols=133  Identities=10%  Similarity=0.018  Sum_probs=81.3

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHH----hCCCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHH----CC-CCCCH
Q 047221          332 LTYNYVLGVLCKNGQDADACELLEEML----GRNCHP-DAITYEIFIVYSCRVGKFDVAFNFFNQMVK----RG-LQPRL  401 (509)
Q Consensus       332 ~t~~~li~~~~~~g~~~~a~~~~~~m~----~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~----~g-~~p~~  401 (509)
                      ..|..|-+.|.-.|+++.|....+.-.    +.|-.. .-..+..+-.++.-.|+++.|.+.|+.-..    .| .....
T Consensus       196 Ra~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEA  275 (639)
T KOG1130|consen  196 RAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEA  275 (639)
T ss_pred             chhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHH
Confidence            345556666666778888876665422    223222 223566777778888888888887775432    22 12234


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhC-----CCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 047221          402 ATHAAFIKGYFIFYRYEDAYKYVVLSADK-----YKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       402 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      .++-+|-.+|--..++++|+.++.+-..-     +..-....+.+|..+|...|..++|+.+.+.-.+
T Consensus       276 QscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  276 QSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            45666777777777788887776543211     1122345666788888888888888877665543

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=95.79  E-value=0.1  Score=47.20  Aligned_cols=89  Identities=9%  Similarity=0.007  Sum_probs=60.8

Q ss_pred             CCCHHHHHHHHHHHHHc-----CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC----------------CHHHHH
Q 047221          363 HPDAITYEIFIVYSCRV-----GKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFY----------------RYEDAY  421 (509)
Q Consensus       363 ~p~~~~~~~li~~~~~~-----g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g----------------~~~~A~  421 (509)
                      .-|-.+|-+.+..+...     +.++-....++.|.+-|+.-|..+|+.|+..+-+..                +-+-+.
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I  143 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAI  143 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHH
Confidence            44777888888777643     667777888889999999999999999998865432                112355


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhCCC
Q 047221          422 KYVVLSADKYKSSSNMLYSLLASLHDKNNN  451 (509)
Q Consensus       422 ~~~~~m~~~~~~p~~~~~~~li~~~~~~g~  451 (509)
                      +++++|...|+.||..+-..|++++.+.+.
T Consensus       144 ~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  144 KVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             HHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence            556666666666666655556665555544

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=95.67  E-value=0.39  Score=46.55  Aligned_cols=125  Identities=16%  Similarity=0.081  Sum_probs=53.2

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHH-c---CCCHHHHHHHHHHH
Q 047221          232 AFGFLPVLISSKALTKKGIWRVVEVLNQVG-GSCLVSGVRALIEMFSVLGLYEMAKYVIKK-T---ERKVSYYNILIKEM  306 (509)
Q Consensus       232 ~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~-m---~~~~~~~~~li~~~  306 (509)
                      .|...|.......| ++.|..+|-++.+.| ..+++..++++|.-|+ .|+...|..+|+. |   +.+..--+..+.-+
T Consensus       399 v~C~~~N~v~r~~G-l~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~f~d~~~y~~kyl~fL  476 (660)
T COG5107         399 VFCVHLNYVLRKRG-LEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLKFPDSTLYKEKYLLFL  476 (660)
T ss_pred             HHHHHHHHHHHHhh-HHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHhCCCchHHHHHHHHHH
Confidence            34444443333444 455555555554444 3344444444444443 2444444444443 1   12222223334444


Q ss_pred             HhcCCccHHHHHHHHHHHcCCCCC--hHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 047221          307 CRRCDFKGPRDLLVEMRQVGCEPI--TLTYNYVLGVLCKNGQDADACELLEEMLG  359 (509)
Q Consensus       307 ~~~g~~~~A~~~~~~m~~~g~~p~--~~t~~~li~~~~~~g~~~~a~~~~~~m~~  359 (509)
                      ...++-+.|..+|+.-... +.-+  ...|..+|+-=..-|++..|..+=++|.+
T Consensus       477 i~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e  530 (660)
T COG5107         477 IRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE  530 (660)
T ss_pred             HHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH
Confidence            4444444455555422211 0111  23445555544455555555554444444

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=95.53  E-value=0.63  Score=47.19  Aligned_cols=210  Identities=10%  Similarity=0.038  Sum_probs=116.7

Q ss_pred             HHHHHHHHhccCCH--HHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 047221          198 CSLVIDNCGRLDDY--ETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEM  275 (509)
Q Consensus       198 ~~~li~~~~~~g~~--~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  275 (509)
                      ++.-=.+|.+.++.  -+...-+++|.++|-.|+.........    -.|.+.+|.++|.+-   |..      |-.+.+
T Consensus       601 f~~ARkAY~rVRdl~~L~li~EL~~~k~rge~P~~iLlA~~~A----y~gKF~EAAklFk~~---G~e------nRAlEm  667 (1081)
T KOG1538|consen  601 FETARKAYIRVRDLRYLELISELEERKKRGETPNDLLLADVFA----YQGKFHEAAKLFKRS---GHE------NRALEM  667 (1081)
T ss_pred             hHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCchHHHHHHHHH----hhhhHHHHHHHHHHc---Cch------hhHHHH
Confidence            34444455555543  333444567777787787765544433    234477777777542   322      234445


Q ss_pred             HHhcCCHHHHHHHHHHcC----------CCHHHH-----HHHHHHHHhcCCccHHHHHHHH------HHHcCC---CCCh
Q 047221          276 FSVLGLYEMAKYVIKKTE----------RKVSYY-----NILIKEMCRRCDFKGPRDLLVE------MRQVGC---EPIT  331 (509)
Q Consensus       276 ~~~~g~~~~A~~~~~~m~----------~~~~~~-----~~li~~~~~~g~~~~A~~~~~~------m~~~g~---~p~~  331 (509)
                      |.....+|.|.+++..-.          +-..++     .+....+...|+.++|..+.-+      +.+-+-   ..+.
T Consensus       668 yTDlRMFD~aQE~~~~g~~~eKKmL~RKRA~WAr~~kePkaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~er  747 (1081)
T KOG1538|consen  668 YTDLRMFDYAQEFLGSGDPKEKKMLIRKRADWARNIKEPKAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAER  747 (1081)
T ss_pred             HHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHhhhcCCcHHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhh
Confidence            555555555555443210          001111     1233445556666666665321      112121   2334


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHH--------
Q 047221          332 LTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLAT--------  403 (509)
Q Consensus       332 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~--------  403 (509)
                      .+...+..-+.+...+..|-++|..|-+.         ..++......++|++|..+-+...+-  .||+..        
T Consensus       748 e~l~~~a~ylk~l~~~gLAaeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwLAE  816 (1081)
T KOG1538|consen  748 EPLLLCATYLKKLDSPGLAAEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWLAE  816 (1081)
T ss_pred             hHHHHHHHHHhhccccchHHHHHHHhccH---------HHHhhheeecccchHhHhhhhhCccc--cccccchHHHHhhh
Confidence            44545544455666777888888877543         45677788889999998887765432  344322        


Q ss_pred             ---HHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 047221          404 ---HAAFIKGYFIFYRYEDAYKYVVLSADKY  431 (509)
Q Consensus       404 ---~~~li~~~~~~g~~~~A~~~~~~m~~~~  431 (509)
                         +--.-.+|-+.|+-.+|.++++++....
T Consensus       817 ~DrFeEAqkAfhkAGr~~EA~~vLeQLtnna  847 (1081)
T KOG1538|consen  817 NDRFEEAQKAFHKAGRQREAVQVLEQLTNNA  847 (1081)
T ss_pred             hhhHHHHHHHHHHhcchHHHHHHHHHhhhhh
Confidence               3334457888888888888888876543

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=95.53  E-value=0.063  Score=39.20  Aligned_cols=26  Identities=19%  Similarity=0.280  Sum_probs=12.5

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHH
Q 047221          403 THAAFIKGYFIFYRYEDAYKYVVLSA  428 (509)
Q Consensus       403 ~~~~li~~~~~~g~~~~A~~~~~~m~  428 (509)
                      +++.+...|...|++++|+..|++..
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al   32 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKAL   32 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            44445555555555555555554443

...

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=95.50  E-value=2.7  Score=41.05  Aligned_cols=148  Identities=17%  Similarity=0.257  Sum_probs=107.4

Q ss_pred             CCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcC-CCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHH-HH
Q 047221          294 RKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVG-CEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITY-EI  371 (509)
Q Consensus       294 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~-~~  371 (509)
                      .=..+|...|+...+..-++.|..+|-+.++.| +.+++..++++|.-++ .|+..-|.++|+.-...  -||...| +-
T Consensus       395 k~t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~--f~d~~~y~~k  471 (660)
T COG5107         395 KLTFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK--FPDSTLYKEK  471 (660)
T ss_pred             hhhhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh--CCCchHHHHH
Confidence            345678889998888888999999999999998 6788899999998554 57788899999865443  3444443 44


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 047221          372 FIVYSCRVGKFDVAFNFFNQMVKRGLQPR--LATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHD  447 (509)
Q Consensus       372 li~~~~~~g~~~~a~~~~~~m~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~  447 (509)
                      .+.-+...++-+.|..+|+..+.+ +.-+  ...|..+|+-=.+-|++..|..+=++|.+.  .|-..+.....+-|+
T Consensus       472 yl~fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~--~pQen~~evF~Sry~  546 (660)
T COG5107         472 YLLFLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL--VPQENLIEVFTSRYA  546 (660)
T ss_pred             HHHHHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH--cCcHhHHHHHHHHHh
Confidence            566677889999999999965543 2223  467899999888899998888877777654  333333334444443

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=95.50  E-value=0.78  Score=42.36  Aligned_cols=101  Identities=9%  Similarity=0.026  Sum_probs=53.8

Q ss_pred             CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhc---CChHHHHHHHHHHHhCCCCCCHHHH
Q 047221          293 ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKN---GQDADACELLEEMLGRNCHPDAITY  369 (509)
Q Consensus       293 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~---g~~~~a~~~~~~m~~~g~~p~~~~~  369 (509)
                      +.|...|-.|...|.+.|+.+.|..-|....+.- .++...+..+..++...   ..-.++..+|+++.+.. +-|+.+.
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~~iral  230 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRAL  230 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHHH
Confidence            4556666666666666666666666666555432 23333333333333222   12345666666666542 2234444


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHC
Q 047221          370 EIFIVYSCRVGKFDVAFNFFNQMVKR  395 (509)
Q Consensus       370 ~~li~~~~~~g~~~~a~~~~~~m~~~  395 (509)
                      .-|-..+...|++.+|...|+.|.+.
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~  256 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDL  256 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhc
Confidence            44445566666666666666666654

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=95.49  E-value=0.11  Score=37.28  Aligned_cols=54  Identities=15%  Similarity=0.016  Sum_probs=24.7

Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 047221          410 GYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       410 ~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      .|.+.+++++|.++++.+...+.. +...|......+.+.|++++|.+.|+...+
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELDPD-DPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCcc-cchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            344445555555555544443211 333344444444455555555555554443

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=95.46  E-value=0.073  Score=38.20  Aligned_cols=61  Identities=13%  Similarity=0.007  Sum_probs=50.6

Q ss_pred             HHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 047221          443 ASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSLGS  504 (509)
Q Consensus       443 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~  504 (509)
                      -..|.+.+++++|+++++.+...+ +.+...+......+.+.|++++|.+.+++..+.++..
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~   62 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALELSPDD   62 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCc
Confidence            356789999999999999999852 2255567777888899999999999999999887754

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.46  E-value=1.2  Score=36.72  Aligned_cols=126  Identities=14%  Similarity=0.056  Sum_probs=66.4

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Q 047221          335 NYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIF  414 (509)
Q Consensus       335 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  414 (509)
                      ..++..+...+........++.+...+. .+...++.+|..|++.+. .+..+.++.   .   .+......++..|.+.
T Consensus        11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~~-~~ll~~l~~---~---~~~yd~~~~~~~c~~~   82 (140)
T smart00299       11 SEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYDP-QKEIERLDN---K---SNHYDIEKVGKLCEKA   82 (140)
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHCH-HHHHHHHHh---c---cccCCHHHHHHHHHHc
Confidence            3455555566666667777766666652 455666777777766532 333333331   1   1222334456666666


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhC-CChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh
Q 047221          415 YRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKN-NNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHT  483 (509)
Q Consensus       415 g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~-g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~  483 (509)
                      +.++++..++.++..         |.-.+..+... ++.+.|.+++++-      -+...|..++..+..
T Consensus        83 ~l~~~~~~l~~k~~~---------~~~Al~~~l~~~~d~~~a~~~~~~~------~~~~lw~~~~~~~l~  137 (140)
T smart00299       83 KLYEEAVELYKKDGN---------FKDAIVTLIEHLGNYEKAIEYFVKQ------NNPELWAEVLKALLD  137 (140)
T ss_pred             CcHHHHHHHHHhhcC---------HHHHHHHHHHcccCHHHHHHHHHhC------CCHHHHHHHHHHHHc
Confidence            666666666655422         11122222233 6666666666541      244566666655543

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=95.43  E-value=0.69  Score=46.33  Aligned_cols=155  Identities=12%  Similarity=0.111  Sum_probs=86.0

Q ss_pred             HhccCCHHHHHHHHH--HhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH
Q 047221          205 CGRLDDYETMRQLLN--DFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLY  282 (509)
Q Consensus       205 ~~~~g~~~~A~~l~~--~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  282 (509)
                      ..-.++++++.++.+  ++. ..+  ...-.+.++. ++.+.|..+.|+++..+-.            .-.+...++|++
T Consensus       271 av~~~d~~~v~~~i~~~~ll-~~i--~~~~~~~i~~-fL~~~G~~e~AL~~~~D~~------------~rFeLAl~lg~L  334 (443)
T PF04053_consen  271 AVLRGDFEEVLRMIAASNLL-PNI--PKDQGQSIAR-FLEKKGYPELALQFVTDPD------------HRFELALQLGNL  334 (443)
T ss_dssp             HHHTT-HHH-----HHHHTG-GG----HHHHHHHHH-HHHHTT-HHHHHHHSS-HH------------HHHHHHHHCT-H
T ss_pred             HHHcCChhhhhhhhhhhhhc-ccC--ChhHHHHHHH-HHHHCCCHHHHHhhcCChH------------HHhHHHHhcCCH
Confidence            344567777655554  111 111  1333444444 7777776777777654422            334555677777


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 047221          283 EMAKYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNC  362 (509)
Q Consensus       283 ~~A~~~~~~m~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~  362 (509)
                      +.|.++-++.+ +...|..|.....+.|+++-|.+.|.+...         |..|+-.|.-.|+.+...++.+....+|-
T Consensus       335 ~~A~~~a~~~~-~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~~~  404 (443)
T PF04053_consen  335 DIALEIAKELD-DPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEERGD  404 (443)
T ss_dssp             HHHHHHCCCCS-THHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHhcC-cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHccC
Confidence            77777665554 556777777777777777777777766552         45566667777777777676666665542


Q ss_pred             CCCHHHHHHHHHHHHHcCChHHHHHHHHH
Q 047221          363 HPDAITYEIFIVYSCRVGKFDVAFNFFNQ  391 (509)
Q Consensus       363 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~  391 (509)
                            +|....++...|+.++..+++.+
T Consensus       405 ------~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  405 ------INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             ------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             ------HHHHHHHHHHcCCHHHHHHHHHH
Confidence                  44555555566777766666544

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.

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=95.38  E-value=0.048  Score=39.86  Aligned_cols=26  Identities=15%  Similarity=0.516  Sum_probs=12.1

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHH
Q 047221          368 TYEIFIVYSCRVGKFDVAFNFFNQMV  393 (509)
Q Consensus       368 ~~~~li~~~~~~g~~~~a~~~~~~m~  393 (509)
                      +|+.+-..|...|++++|+..|++..
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al   32 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKAL   32 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34444445555555555555554443

...

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.36  E-value=1.9  Score=38.52  Aligned_cols=215  Identities=10%  Similarity=0.010  Sum_probs=122.0

Q ss_pred             cCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCH
Q 047221          187 IMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLV  266 (509)
Q Consensus       187 ~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~  266 (509)
                      ..|+...-...|.--..+|....+++.|...+.+..+ +..-+...|+..        ...+.|.-+.++|.+..  --+
T Consensus        23 wkad~dgaas~yekAAvafRnAk~feKakdcLlkA~~-~yEnnrslfhAA--------KayEqaamLake~~kls--Evv   91 (308)
T KOG1585|consen   23 WKADWDGAASLYEKAAVAFRNAKKFEKAKDCLLKASK-GYENNRSLFHAA--------KAYEQAAMLAKELSKLS--EVV   91 (308)
T ss_pred             cCCCchhhHHHHHHHHHHHHhhccHHHHHHHHHHHHH-HHHhcccHHHHH--------HHHHHHHHHHHHHHHhH--HHH
Confidence            3466555556777778888899999999888877642 223333344332        23677777777776532  223


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCC--CCC---hHHHHHHHHHH
Q 047221          267 SGVRALIEMFSVLGLYEMAKYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGC--EPI---TLTYNYVLGVL  341 (509)
Q Consensus       267 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~--~p~---~~t~~~li~~~  341 (509)
                      ..|+-...+|..+|..+.|-..+++..           -...+.+.++|+++|++-..--.  ..+   ..-|..+-..+
T Consensus        92 dl~eKAs~lY~E~GspdtAAmaleKAa-----------k~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~l  160 (308)
T KOG1585|consen   92 DLYEKASELYVECGSPDTAAMALEKAA-----------KALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVL  160 (308)
T ss_pred             HHHHHHHHHHHHhCCcchHHHHHHHHH-----------HHhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHh
Confidence            456788889999998888776666531           01122234445555544321100  011   11223333445


Q ss_pred             HhcCChHHHHHHHHHHHhC----CCCCCH-HHHHHHHHHHHHcCChHHHHHHHHHHHHCC---CCCCHHHHHHHHHHHHH
Q 047221          342 CKNGQDADACELLEEMLGR----NCHPDA-ITYEIFIVYSCRVGKFDVAFNFFNQMVKRG---LQPRLATHAAFIKGYFI  413 (509)
Q Consensus       342 ~~~g~~~~a~~~~~~m~~~----g~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~g---~~p~~~~~~~li~~~~~  413 (509)
                      .+...+++|-.-|..-...    .--++. ..|.+.|-.|....++..|+..++.--+.+   -.-+..+...|+.+| .
T Consensus       161 Vrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d  239 (308)
T KOG1585|consen  161 VRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-D  239 (308)
T ss_pred             hhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-c
Confidence            5566666654443322111    111222 235566666777778888888888743321   122567778888887 4


Q ss_pred             cCCHHHHHHHH
Q 047221          414 FYRYEDAYKYV  424 (509)
Q Consensus       414 ~g~~~~A~~~~  424 (509)
                      .|+.+.+-.++
T Consensus       240 ~gD~E~~~kvl  250 (308)
T KOG1585|consen  240 EGDIEEIKKVL  250 (308)
T ss_pred             cCCHHHHHHHH
Confidence            57888777765

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=95.35  E-value=0.19  Score=48.03  Aligned_cols=132  Identities=11%  Similarity=0.007  Sum_probs=91.9

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHH----HCCCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh----CCC-CCCHH
Q 047221          368 TYEIFIVYSCRVGKFDVAFNFFNQMV----KRGLQ-PRLATHAAFIKGYFIFYRYEDAYKYVVLSAD----KYK-SSSNM  437 (509)
Q Consensus       368 ~~~~li~~~~~~g~~~~a~~~~~~m~----~~g~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~~~-~p~~~  437 (509)
                      .|..|-..|.-.|+++.|+...++=.    +-|-. .....+..|-.+|.-.|+++.|.+.|+....    .|- .....
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            46666666777789999988776432    22311 1234677888899999999999999886542    221 22334


Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHH----C-CCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 047221          438 LYSLLASLHDKNNNPVMAKNVLSEMMK----N-GLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSS  499 (509)
Q Consensus       438 ~~~~li~~~~~~g~~~~a~~~~~~m~~----~-g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~  499 (509)
                      +.-+|.+.|.-...+++|+.++.+-..    . ...-....|.+|-.++...|..++|+.+.+.-.+
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            555688888888899999998876432    1 1223456889999999999999999888766543

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.25  E-value=0.41  Score=47.03  Aligned_cols=64  Identities=11%  Similarity=-0.084  Sum_probs=41.0

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 047221          365 DAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRL----ATHAAFIKGYFIFYRYEDAYKYVVLSADK  430 (509)
Q Consensus       365 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~  430 (509)
                      +...++.+-.+|.+.|++++|+..|++.++.  .|+.    .+|..+..+|.+.|+.++|++.+++..+.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4556666666777777777777777766654  3442    24666677777777777777777666553

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.12  E-value=0.82  Score=37.75  Aligned_cols=111  Identities=10%  Similarity=0.028  Sum_probs=76.4

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 047221          369 YEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDK  448 (509)
Q Consensus       369 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~  448 (509)
                      ...+|..+.+.+.......+++.+...+ ..+....+.++..|++.+ .++....++.   .   .+......++..|.+
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~---~---~~~yd~~~~~~~c~~   81 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN---K---SNHYDIEKVGKLCEK   81 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh---c---cccCCHHHHHHHHHH
Confidence            3467778888889999999999998887 367889999999999864 4555555542   1   223334457788888


Q ss_pred             CCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhc-CCHHHHHHHHHH
Q 047221          449 NNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTS-HQEHMAKCLSSR  496 (509)
Q Consensus       449 ~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~-g~~~~a~~~~~~  496 (509)
                      .+.++++.-++.++..         +...+..+.+. ++.+.|.+++++
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            8888888888887632         22333333333 666766666654

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=95.11  E-value=1.8  Score=40.79  Aligned_cols=25  Identities=20%  Similarity=-0.000  Sum_probs=15.9

Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHH
Q 047221          247 KKGIWRVVEVLNQVGGSCLVSGVRA  271 (509)
Q Consensus       247 ~~~a~~~~~~m~~~g~~~~~~~~~~  271 (509)
                      +++...+++.|.+.|+.-+..+|-+
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~la  102 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLA  102 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHH
Confidence            4455666777777777766665544

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=95.05  E-value=0.58  Score=46.84  Aligned_cols=154  Identities=10%  Similarity=0.027  Sum_probs=83.4

Q ss_pred             HHHhcCCHHHHHHHHH--HcCC--CHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHH
Q 047221          275 MFSVLGLYEMAKYVIK--KTER--KVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADA  350 (509)
Q Consensus       275 ~~~~~g~~~~A~~~~~--~m~~--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a  350 (509)
                      ...-.|+++++.++.+  ++-|  ...-.+.++.-+-+.|..+.|+++-.+-.            .-.....+.|+++.|
T Consensus       270 ~av~~~d~~~v~~~i~~~~ll~~i~~~~~~~i~~fL~~~G~~e~AL~~~~D~~------------~rFeLAl~lg~L~~A  337 (443)
T PF04053_consen  270 TAVLRGDFEEVLRMIAASNLLPNIPKDQGQSIARFLEKKGYPELALQFVTDPD------------HRFELALQLGNLDIA  337 (443)
T ss_dssp             HHHHTT-HHH-----HHHHTGGG--HHHHHHHHHHHHHTT-HHHHHHHSS-HH------------HHHHHHHHCT-HHHH
T ss_pred             HHHHcCChhhhhhhhhhhhhcccCChhHHHHHHHHHHHCCCHHHHHhhcCChH------------HHhHHHHhcCCHHHH
Confidence            3344577777555443  1211  13345666666677777777776653322            112334567777777


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 047221          351 CELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADK  430 (509)
Q Consensus       351 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  430 (509)
                      .++.++.      .+...|..|-....+.|+++-|++.|++..         -+..|+-.|.-.|+.+.-.++.+.....
T Consensus       338 ~~~a~~~------~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~---------d~~~L~lLy~~~g~~~~L~kl~~~a~~~  402 (443)
T PF04053_consen  338 LEIAKEL------DDPEKWKQLGDEALRQGNIELAEECYQKAK---------DFSGLLLLYSSTGDREKLSKLAKIAEER  402 (443)
T ss_dssp             HHHCCCC------STHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHT
T ss_pred             HHHHHhc------CcHHHHHHHHHHHHHcCCHHHHHHHHHhhc---------CccccHHHHHHhCCHHHHHHHHHHHHHc
Confidence            6665432      256677777777777777777777776643         2455666666777777766666665555


Q ss_pred             CCCCCHHHHHHHHHHHHhCCChHHHHHHHHH
Q 047221          431 YKSSSNMLYSLLASLHDKNNNPVMAKNVLSE  461 (509)
Q Consensus       431 ~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  461 (509)
                      |-      ++....++.-.|+.++..+++.+
T Consensus       403 ~~------~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  403 GD------INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             T-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             cC------HHHHHHHHHHcCCHHHHHHHHHH
Confidence            42      44445555556666666666553

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.

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=95.00  E-value=1.1  Score=42.34  Aligned_cols=149  Identities=13%  Similarity=0.114  Sum_probs=89.8

Q ss_pred             ccHHHHHHHHHHHcCCCCChHHHHHHHHHHHh--cCC----hHHHHHHHHHHHhCCC---CCCHHHHHHHHHHHHHcCC-
Q 047221          312 FKGPRDLLVEMRQVGCEPITLTYNYVLGVLCK--NGQ----DADACELLEEMLGRNC---HPDAITYEIFIVYSCRVGK-  381 (509)
Q Consensus       312 ~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~--~g~----~~~a~~~~~~m~~~g~---~p~~~~~~~li~~~~~~g~-  381 (509)
                      +++.+.+++.|.+.|+.-+..+|-+.......  ..+    ...|..+|+.|++...   .++...+.+|+..  ..++ 
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            55667788889999998888887664333333  222    4568889999988732   3455667666655  2333 


Q ss_pred             ---hHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHHcCC---HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHH
Q 047221          382 ---FDVAFNFFNQMVKRGLQPRLA-THAAFIKGYFIFYR---YEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVM  454 (509)
Q Consensus       382 ---~~~a~~~~~~m~~~g~~p~~~-~~~~li~~~~~~g~---~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  454 (509)
                         .+.++.+|+.+.+.|+..+-. -+-+-|-++.....   +..+.++++.+.+.|+++....|..+.-...-.+..++
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlLall~~~~~~  235 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLLALLEDPEEK  235 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHHHhcCCchHH
Confidence               466778888888877655432 23333333332211   45678888888888888888777654433323333324


Q ss_pred             HHHHHHHH
Q 047221          455 AKNVLSEM  462 (509)
Q Consensus       455 a~~~~~~m  462 (509)
                      ..+-+.++
T Consensus       236 ~~~~i~ev  243 (297)
T PF13170_consen  236 IVEEIKEV  243 (297)
T ss_pred             HHHHHHHH
Confidence            44444433

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=94.99  E-value=2.4  Score=43.11  Aligned_cols=107  Identities=9%  Similarity=-0.045  Sum_probs=61.2

Q ss_pred             HHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCC-Ccc-----CHHHHHHHHHHHHhc---cCCH
Q 047221          177 ALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQ-VCL-----NEKAFGFLPVLISSK---ALTK  247 (509)
Q Consensus       177 A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~-~~p-----~~~~~~~ll~~~~~~---~~~~  247 (509)
                      ..-+|.-+..+-|.      ....+++..+=.|+-+.+++.+.+..+.+ +.-     -.-.|+..+...+..   ....
T Consensus       176 G~G~f~L~lSlLPp------~~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~  249 (468)
T PF10300_consen  176 GFGLFNLVLSLLPP------KVLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPL  249 (468)
T ss_pred             HHHHHHHHHHhCCH------HHHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCH
Confidence            45666666555566      77889999999999999999998765432 211     112333333323322   3445


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHH-HHHHHHHHhcCCHHHHHHHHHH
Q 047221          248 KGIWRVVEVLNQVGGSCLVSGV-RALIEMFSVLGLYEMAKYVIKK  291 (509)
Q Consensus       248 ~~a~~~~~~m~~~g~~~~~~~~-~~li~~~~~~g~~~~A~~~~~~  291 (509)
                      +.|.++++.+.+.-  |+...| -.-...+...|++++|.+.|++
T Consensus       250 ~~a~~lL~~~~~~y--P~s~lfl~~~gR~~~~~g~~~~Ai~~~~~  292 (468)
T PF10300_consen  250 EEAEELLEEMLKRY--PNSALFLFFEGRLERLKGNLEEAIESFER  292 (468)
T ss_pred             HHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            66666666666532  333222 2333445555666666666654

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.

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=94.96  E-value=5.3  Score=41.30  Aligned_cols=296  Identities=11%  Similarity=0.026  Sum_probs=147.4

Q ss_pred             HHHHHHHhcCCc-hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCc----cCHHHHHHHHH
Q 047221          164 IEILRVLNSEKV-SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVC----LNEKAFGFLPV  238 (509)
Q Consensus       164 ~~ll~~~~~~~~-~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~----p~~~~~~~ll~  238 (509)
                      .+.=+++.++++ ..+++.+.+..+....     .-.+=|.+  --|++++|++++-+|-++++.    ...--|-.+..
T Consensus       709 ~tAE~AFVrc~dY~Gik~vkrl~~i~s~~-----~q~aei~~--~~g~feeaek~yld~drrDLAielr~klgDwfrV~q  781 (1189)
T KOG2041|consen  709 DTAEHAFVRCGDYAGIKLVKRLRTIHSKE-----QQRAEISA--FYGEFEEAEKLYLDADRRDLAIELRKKLGDWFRVYQ  781 (1189)
T ss_pred             hhHhhhhhhhccccchhHHHHhhhhhhHH-----HHhHhHhh--hhcchhHhhhhhhccchhhhhHHHHHhhhhHHHHHH
Confidence            344456677776 5666666662221110     11222232  357788888888887666432    12222333333


Q ss_pred             HHHhccC---CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-------------CHHHHHHHHHHcCCCHHHHHHH
Q 047221          239 LISSKAL---TKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLG-------------LYEMAKYVIKKTERKVSYYNIL  302 (509)
Q Consensus       239 ~~~~~~~---~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g-------------~~~~A~~~~~~m~~~~~~~~~l  302 (509)
                      .+ ..++   +-+.-...++.|-+.  ..+...|......|..+|             ++++.+.+-..++.|....-.|
T Consensus       782 L~-r~g~~d~dD~~~e~A~r~ig~~--fa~~~~We~A~~yY~~~~~~e~~~ecly~le~f~~LE~la~~Lpe~s~llp~~  858 (1189)
T KOG2041|consen  782 LI-RNGGSDDDDEGKEDAFRNIGET--FAEMMEWEEAAKYYSYCGDTENQIECLYRLELFGELEVLARTLPEDSELLPVM  858 (1189)
T ss_pred             HH-HccCCCcchHHHHHHHHHHHHH--HHHHHHHHHHHHHHHhccchHhHHHHHHHHHhhhhHHHHHHhcCcccchHHHH
Confidence            11 1111   111111222222110  011122333344444444             4444444444556677777788


Q ss_pred             HHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHH------------
Q 047221          303 IKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYE------------  370 (509)
Q Consensus       303 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~------------  370 (509)
                      ...+...|..++|.+.|-+...    |     ...+.+|...+++.+|.++-+...-    |.+.+.-            
T Consensus       859 a~mf~svGMC~qAV~a~Lr~s~----p-----kaAv~tCv~LnQW~~avelaq~~~l----~qv~tliak~aaqll~~~~  925 (1189)
T KOG2041|consen  859 ADMFTSVGMCDQAVEAYLRRSL----P-----KAAVHTCVELNQWGEAVELAQRFQL----PQVQTLIAKQAAQLLADAN  925 (1189)
T ss_pred             HHHHHhhchHHHHHHHHHhccC----c-----HHHHHHHHHHHHHHHHHHHHHhccc----hhHHHHHHHHHHHHHhhcc
Confidence            8889999999888887754432    2     2345667777788777776554321    1111111            


Q ss_pred             --HHHHHHHHcCChHHHHHHHHHHHHC----CCCCCH----HHHH-HHHHHHH----------HcCCHHHHHHHHHHHHh
Q 047221          371 --IFIVYSCRVGKFDVAFNFFNQMVKR----GLQPRL----ATHA-AFIKGYF----------IFYRYEDAYKYVVLSAD  429 (509)
Q Consensus       371 --~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~~----~~~~-~li~~~~----------~~g~~~~A~~~~~~m~~  429 (509)
                        --|..+.+.|+.-+|-+++.+|.++    +.++-.    .+.. .|+.-+.          +.|..++|..+++...-
T Consensus       926 ~~eaIe~~Rka~~~~daarll~qmae~e~~K~~p~lr~KklYVL~AlLvE~h~~~ik~~~~~~~~g~~~dat~lles~~l 1005 (1189)
T KOG2041|consen  926 HMEAIEKDRKAGRHLDAARLLSQMAEREQEKYVPYLRLKKLYVLGALLVENHRQTIKELRKIDKHGFLEDATDLLESGLL 1005 (1189)
T ss_pred             hHHHHHHhhhcccchhHHHHHHHHhHHHhhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCcchhhhhhhhhhhh
Confidence              1245566777777777787777654    333221    1111 1222221          24666667665543221


Q ss_pred             C---C----CCCCHHHHHHHH--HHHHhCCChHHHHHHHHHHHHC-CCCcCHHHHHHHHHHHH
Q 047221          430 K---Y----KSSSNMLYSLLA--SLHDKNNNPVMAKNVLSEMMKN-GLRPNVSVYRRVLKHLH  482 (509)
Q Consensus       430 ~---~----~~p~~~~~~~li--~~~~~~g~~~~a~~~~~~m~~~-g~~p~~~t~~~ll~~~~  482 (509)
                      .   .    .-.....|+.+|  +--...|.++.|++.--.+.+. .+-|....|..+.-+-+
T Consensus      1006 ~~~~ri~~n~WrgAEAyHFmilAQrql~eg~v~~Al~Tal~L~DYEd~lpP~eiySllALaac 1068 (1189)
T KOG2041|consen 1006 AEQSRILENTWRGAEAYHFMILAQRQLFEGRVKDALQTALILSDYEDFLPPAEIYSLLALAAC 1068 (1189)
T ss_pred             hhHHHHHHhhhhhHHHHHHHHHHHHHHHhchHHHHHHHHhhhccHhhcCCHHHHHHHHHHHHh
Confidence            1   0    011223444444  4445678888888775555442 45666667766544333

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=94.89  E-value=0.41  Score=47.01  Aligned_cols=63  Identities=13%  Similarity=-0.122  Sum_probs=48.2

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHc---CCC-H---HHHHHHHHHHHhcCCccHHHHHHHHHHHc
Q 047221          263 SCLVSGVRALIEMFSVLGLYEMAKYVIKKT---ERK-V---SYYNILIKEMCRRCDFKGPRDLLVEMRQV  325 (509)
Q Consensus       263 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~-~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~  325 (509)
                      +.+...++.+..+|.+.|++++|...|++.   .|+ .   .+|..+..+|.+.|+.++|++.+++..+.
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            455677888888888888888888888773   444 2   35888888888888888888888887764

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=94.88  E-value=1.5  Score=40.47  Aligned_cols=98  Identities=13%  Similarity=0.055  Sum_probs=80.8

Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcC---CccHHHHHHHHHHHcCCCCChHHH
Q 047221          262 GSCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRC---DFKGPRDLLVEMRQVGCEPITLTY  334 (509)
Q Consensus       262 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~g~~p~~~t~  334 (509)
                      -+-|...|-.|...|...|+.+.|...|.+.    +++...+..+..++....   +..++.++|+++.... .-|..+.
T Consensus       152 nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~~iral  230 (287)
T COG4235         152 NPGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRAL  230 (287)
T ss_pred             CCCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHHH
Confidence            3678889999999999999999999999874    567777777776655543   3668999999999874 4566667


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhC
Q 047221          335 NYVLGVLCKNGQDADACELLEEMLGR  360 (509)
Q Consensus       335 ~~li~~~~~~g~~~~a~~~~~~m~~~  360 (509)
                      ..|...+...|++.+|...|+.|.+.
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~  256 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDL  256 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhc
Confidence            77778899999999999999999987

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=94.84  E-value=3.8  Score=41.66  Aligned_cols=134  Identities=13%  Similarity=-0.029  Sum_probs=78.6

Q ss_pred             chHHHHHHhCCCCCCHHHHHHHHHHHhcCCc--hHHHHHHHhhccCCCCccChhHHHHHHHHHhc----cCCHHHHHHHH
Q 047221          145 SETESKLLSMSVSLSNASVIEILRVLNSEKV--SALCFLKYMREIMPEFYKNSDICSLVIDNCGR----LDDYETMRQLL  218 (509)
Q Consensus       145 ~~~~~~l~~~~~~~~~~~~~~ll~~~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~----~g~~~~A~~l~  218 (509)
                      +.+.+.+.-.|.+-|...--.+|....+.+.  .++..+--+            .|+.++..++.    ..+.+.|.+++
T Consensus       189 p~~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL------------~y~~~~~~~~~~~~~~~~~~~a~~lL  256 (468)
T PF10300_consen  189 PKVLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLL------------WYHLVVPSFLGIDGEDVPLEEAEELL  256 (468)
T ss_pred             HHHHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHH------------HHHHHHHHHcCCcccCCCHHHHHHHH
Confidence            3444455555555555555555555444332  222222222            56666655554    45688999999


Q ss_pred             HHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHHHhcCCHHHHHHHHHHc
Q 047221          219 NDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGG---SCLVSGVRALIEMFSVLGLYEMAKYVIKKT  292 (509)
Q Consensus       219 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  292 (509)
                      +.+.++  -|+...|...-.......|++++|.+.++.......   ......+--+...+.-.++|++|...|..+
T Consensus       257 ~~~~~~--yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L  331 (468)
T PF10300_consen  257 EEMLKR--YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRL  331 (468)
T ss_pred             HHHHHh--CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHH
Confidence            999765  589989988888788888889999999997653110   111122333444444455555555555544

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.

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=94.73  E-value=4.7  Score=39.57  Aligned_cols=262  Identities=12%  Similarity=0.116  Sum_probs=146.7

Q ss_pred             HhccCCHHHHHHHHHHHHHcCCC-C---C-HHHHHHHHHHHHhcCCHHHHHHHHHHc---CCCHHHHHHHHHH--HHhcC
Q 047221          241 SSKALTKKGIWRVVEVLNQVGGS-C---L-VSGVRALIEMFSVLGLYEMAKYVIKKT---ERKVSYYNILIKE--MCRRC  310 (509)
Q Consensus       241 ~~~~~~~~~a~~~~~~m~~~g~~-~---~-~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~~~~~~~li~~--~~~~g  310 (509)
                      +.+.+++.+++.+|.+.....-. |   . ....+-++++|.. .+++.....+...   .+ ...|-.+..+  +.+.+
T Consensus        16 Lqkq~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl-~nld~Me~~l~~l~~~~~-~s~~l~LF~~L~~Y~~k   93 (549)
T PF07079_consen   16 LQKQKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFL-NNLDLMEKQLMELRQQFG-KSAYLPLFKALVAYKQK   93 (549)
T ss_pred             HHHHhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHH-hhHHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHhh
Confidence            44666799999999888653211 1   1 2334677888875 3444444444333   33 2334444333  34678


Q ss_pred             CccHHHHHHHHHHHc--CCCCC------------hHHHHHHHHHHHhcCChHHHHHHHHHHHhC----CCCCCHHHHHHH
Q 047221          311 DFKGPRDLLVEMRQV--GCEPI------------TLTYNYVLGVLCKNGQDADACELLEEMLGR----NCHPDAITYEIF  372 (509)
Q Consensus       311 ~~~~A~~~~~~m~~~--g~~p~------------~~t~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~~~~~~~l  372 (509)
                      .+++|++.+..-.++  +-.|.            -.-=+..+..+...|++.++..++++|...    .+.-+..+|+.+
T Consensus        94 ~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~  173 (549)
T PF07079_consen   94 EYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRA  173 (549)
T ss_pred             hHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHH
Confidence            899999988877755  32221            111156667778899999999988887765    344688888887


Q ss_pred             HHHHHHcC--------C-------hHHHHHHHHHHHHC------CCCCCHHHHHHHHHHHHHcC--CHHHHHHHHHHHHh
Q 047221          373 IVYSCRVG--------K-------FDVAFNFFNQMVKR------GLQPRLATHAAFIKGYFIFY--RYEDAYKYVVLSAD  429 (509)
Q Consensus       373 i~~~~~~g--------~-------~~~a~~~~~~m~~~------g~~p~~~~~~~li~~~~~~g--~~~~A~~~~~~m~~  429 (509)
                      +-.+++.=        .       ++-+.-..++|...      .+.|-......++....-.-  +..--+++++.-..
T Consensus       174 vlmlsrSYfLEl~e~~s~dl~pdyYemilfY~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~~We~  253 (549)
T PF07079_consen  174 VLMLSRSYFLELKESMSSDLYPDYYEMILFYLKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILENWEN  253 (549)
T ss_pred             HHHHhHHHHHHHHHhcccccChHHHHHHHHHHHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHHHHHh
Confidence            66665421        1       12222222333221      22333333333333322211  11112222222233


Q ss_pred             CCCCCCHH-HHHHHHHHHHhCCChHHHHHHHHHHHHCCCCc----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 047221          430 KYKSSSNM-LYSLLASLHDKNNNPVMAKNVLSEMMKNGLRP----NVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSLGS  504 (509)
Q Consensus       430 ~~~~p~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p----~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~  504 (509)
                      .-+.|+-. ....|+..+..  +.+++..+-+.+....+.+    =..+|..++....+.++..+|.+.+.-++-.++..
T Consensus       254 ~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~ldp~~  331 (549)
T PF07079_consen  254 FYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKILDPRI  331 (549)
T ss_pred             hccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCcc
Confidence            44555533 22334444333  5566666655554432222    23478999999999999999999999998777665


Q ss_pred             Cc
Q 047221          505 SV  506 (509)
Q Consensus       505 ~~  506 (509)
                      ++
T Consensus       332 sv  333 (549)
T PF07079_consen  332 SV  333 (549)
T ss_pred             hh
Confidence            53

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>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=94.59  E-value=1.9  Score=34.59  Aligned_cols=137  Identities=12%  Similarity=0.108  Sum_probs=78.7

Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHH---HHHHHHHHHHcCCHH
Q 047221          342 CKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLAT---HAAFIKGYFIFYRYE  418 (509)
Q Consensus       342 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~---~~~li~~~~~~g~~~  418 (509)
                      .-.|.++++.++..+....   .+..-||-+|.-....-+-+-..++++.+-+   -.|...   .-.++.+|++.|.  
T Consensus        13 ildG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsIGk---iFDis~C~NlKrVi~C~~~~n~--   84 (161)
T PF09205_consen   13 ILDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSIGK---IFDISKCGNLKRVIECYAKRNK--   84 (161)
T ss_dssp             HHTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGG---GS-GGG-S-THHHHHHHHHTT---
T ss_pred             HHhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhh---hcCchhhcchHHHHHHHHHhcc--
Confidence            3457778888888777764   3566677777666655555555555555422   222221   1234444444433  


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 047221          419 DAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYS  498 (509)
Q Consensus       419 ~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~  498 (509)
                                      +......-+..+...|+-+.-.++++++.+ .-.+++.....+..||.+.|...++.+++++.-
T Consensus        85 ----------------~se~vD~ALd~lv~~~kkDqLdki~~~l~k-n~~~~p~~L~kia~Ay~klg~~r~~~ell~~AC  147 (161)
T PF09205_consen   85 ----------------LSEYVDLALDILVKQGKKDQLDKIYNELKK-NEEINPEFLVKIANAYKKLGNTREANELLKEAC  147 (161)
T ss_dssp             ------------------HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             ----------------hHHHHHHHHHHHHHhccHHHHHHHHHHHhh-ccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHH
Confidence                            223344456666778888888888888764 345677777788888888888888888888888


Q ss_pred             hCCCC
Q 047221          499 SLSLG  503 (509)
Q Consensus       499 ~~~~~  503 (509)
                      +.|++
T Consensus       148 ekG~k  152 (161)
T PF09205_consen  148 EKGLK  152 (161)
T ss_dssp             HTT-H
T ss_pred             HhchH
Confidence            88765

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=94.40  E-value=3.8  Score=37.13  Aligned_cols=57  Identities=7%  Similarity=0.005  Sum_probs=38.0

Q ss_pred             HHHHhcCCccHHHHHHHHHHHcC--CCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 047221          304 KEMCRRCDFKGPRDLLVEMRQVG--CEPITLTYNYVLGVLCKNGQDADACELLEEMLGR  360 (509)
Q Consensus       304 ~~~~~~g~~~~A~~~~~~m~~~g--~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  360 (509)
                      ..-.+.|++++|.+.|+.+..+-  -+-...+.-.++-++-+.+++++|...+++....
T Consensus        42 ~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~l  100 (254)
T COG4105          42 LTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRL  100 (254)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            33456677777777777777542  1223455566667777888888888888777665

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.36  E-value=1.4  Score=46.25  Aligned_cols=52  Identities=15%  Similarity=0.135  Sum_probs=23.4

Q ss_pred             HHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHH
Q 047221          303 IKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLE  355 (509)
Q Consensus       303 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~  355 (509)
                      |.-|....++.+-...++.+.+.|+ .+...-+.||.+|.+.++.++-.+..+
T Consensus       404 i~kfLdaq~IknLt~YLe~L~~~gl-a~~dhttlLLncYiKlkd~~kL~efI~  455 (933)
T KOG2114|consen  404 IKKFLDAQRIKNLTSYLEALHKKGL-ANSDHTTLLLNCYIKLKDVEKLTEFIS  455 (933)
T ss_pred             HHHhcCHHHHHHHHHHHHHHHHccc-ccchhHHHHHHHHHHhcchHHHHHHHh
Confidence            3334444444444444445544442 233333445555555555544444333

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=94.22  E-value=3.2  Score=35.59  Aligned_cols=126  Identities=13%  Similarity=0.001  Sum_probs=71.3

Q ss_pred             CCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhC---CCCCCHHHHH
Q 047221          294 RKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGR---NCHPDAITYE  370 (509)
Q Consensus       294 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~---g~~p~~~~~~  370 (509)
                      |++..--.|..+..+.|+..||...|++....-.--|....-.+..+....++...|...++.+.+.   +-.||.  .-
T Consensus        87 pTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~--~L  164 (251)
T COG4700          87 PTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDG--HL  164 (251)
T ss_pred             hhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCc--hH
Confidence            3344444566666677777777777766665434445555566666666667777777777666554   223333  22


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 047221          371 IFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKY  423 (509)
Q Consensus       371 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  423 (509)
                      .+-..+...|+.++|+.-|+.....  -|+...-.---..+.+.|+.++|..-
T Consensus       165 l~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~aq  215 (251)
T COG4700         165 LFARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANAQ  215 (251)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHHH
Confidence            3445666667777777777766654  34433333333444556655554433

>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=94.13  E-value=5.1  Score=37.57  Aligned_cols=162  Identities=11%  Similarity=0.029  Sum_probs=78.2

Q ss_pred             HHHHHHHHHHHhcCCcc---HHHHHHHHHHHcCCCCC-hHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHH
Q 047221          297 SYYNILIKEMCRRCDFK---GPRDLLVEMRQVGCEPI-TLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIF  372 (509)
Q Consensus       297 ~~~~~li~~~~~~g~~~---~A~~~~~~m~~~g~~p~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  372 (509)
                      .+...++.+|...+..+   +|.++++.+....  |+ ...+..-+..+.+.++.+.+.+++.+|... +.-....+..+
T Consensus        85 ~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~--~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~-~~~~e~~~~~~  161 (278)
T PF08631_consen   85 SILRLLANAYLEWDTYESVEKALNALRLLESEY--GNKPEVFLLKLEILLKSFDEEEYEEILMRMIRS-VDHSESNFDSI  161 (278)
T ss_pred             HHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhC--CCCcHHHHHHHHHHhccCChhHHHHHHHHHHHh-cccccchHHHH
Confidence            34556666666665533   4555555554432  22 344445555555677777777777777765 22123334444


Q ss_pred             HHHH---HHcCChHHHHHHHHHHHHCCCCCCHH--HHHHHHHHH---HHc------CCHHHHHHHHHHHHhC-CCCCCHH
Q 047221          373 IVYS---CRVGKFDVAFNFFNQMVKRGLQPRLA--THAAFIKGY---FIF------YRYEDAYKYVVLSADK-YKSSSNM  437 (509)
Q Consensus       373 i~~~---~~~g~~~~a~~~~~~m~~~g~~p~~~--~~~~li~~~---~~~------g~~~~A~~~~~~m~~~-~~~p~~~  437 (509)
                      +..+   ... ....|...+..+....+.|...  .=..++.-.   .+.      +.++...++++.+.+. +...+..
T Consensus       162 l~~i~~l~~~-~~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~~  240 (278)
T PF08631_consen  162 LHHIKQLAEK-SPELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLSAE  240 (278)
T ss_pred             HHHHHHHHhh-CcHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCCHH
Confidence            4433   332 2345555555555544444442  111111111   111      1245555555543332 2222332


Q ss_pred             HHHHH-------HHHHHhCCChHHHHHHHHHH
Q 047221          438 LYSLL-------ASLHDKNNNPVMAKNVLSEM  462 (509)
Q Consensus       438 ~~~~l-------i~~~~~~g~~~~a~~~~~~m  462 (509)
                      +-.++       ...+.+.+++++|.+.|+-.
T Consensus       241 ~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~a  272 (278)
T PF08631_consen  241 AASAIHTLLWNKGKKHYKAKNYDEAIEWYELA  272 (278)
T ss_pred             HHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHH
Confidence            22222       23345678888888888743

It is also involved in sporulation [].

>PRK15331 chaperone protein SicA; Provisional

Probab=93.98  E-value=2.2  Score=35.89  Aligned_cols=87  Identities=9%  Similarity=0.015  Sum_probs=66.6

Q ss_pred             HHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHH
Q 047221          376 SCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMA  455 (509)
Q Consensus       376 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a  455 (509)
                      +-..|++++|..+|+-+...+ .-+..-|..|..+|-..+++++|...|......+. -|...+-....+|...|+.+.|
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 FYNQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRKAAKA  124 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCCHHHH
Confidence            347799999999999887654 22566678888888889999999999987655432 2222244578888899999999


Q ss_pred             HHHHHHHHH
Q 047221          456 KNVLSEMMK  464 (509)
Q Consensus       456 ~~~~~~m~~  464 (509)
                      .+.|+...+
T Consensus       125 ~~~f~~a~~  133 (165)
T PRK15331        125 RQCFELVNE  133 (165)
T ss_pred             HHHHHHHHh
Confidence            999998876

>PRK15331 chaperone protein SicA; Provisional

Probab=93.70  E-value=3.7  Score=34.56  Aligned_cols=90  Identities=7%  Similarity=-0.061  Sum_probs=65.8

Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHH
Q 047221          339 GVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYE  418 (509)
Q Consensus       339 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  418 (509)
                      .-+...|++++|..+|.-+.-.+.. +..-|..|-.+|-..+++++|...|......+. -|...+--+-.+|...|+.+
T Consensus        45 y~~y~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~~~~  122 (165)
T PRK15331         45 YEFYNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRKAA  122 (165)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCCHH
Confidence            3355789999999999987765322 445566666667777899999999987665442 24444555788888999999


Q ss_pred             HHHHHHHHHHhC
Q 047221          419 DAYKYVVLSADK  430 (509)
Q Consensus       419 ~A~~~~~~m~~~  430 (509)
                      .|+..|+...+.
T Consensus       123 ~A~~~f~~a~~~  134 (165)
T PRK15331        123 KARQCFELVNER  134 (165)
T ss_pred             HHHHHHHHHHhC
Confidence            999999887763

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=93.69  E-value=6.2  Score=37.01  Aligned_cols=162  Identities=9%  Similarity=-0.065  Sum_probs=91.8

Q ss_pred             HHHHHHHHHHHhcCChH---HHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 047221          332 LTYNYVLGVLCKNGQDA---DACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFI  408 (509)
Q Consensus       332 ~t~~~li~~~~~~g~~~---~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  408 (509)
                      .++..++.+|...+..+   +|.++++.+...... ...++-.-+..+.+.++.+++.+++.+|+..- .-....+..++
T Consensus        85 ~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~-~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~-~~~e~~~~~~l  162 (278)
T PF08631_consen   85 SILRLLANAYLEWDTYESVEKALNALRLLESEYGN-KPEVFLLKLEILLKSFDEEEYEEILMRMIRSV-DHSESNFDSIL  162 (278)
T ss_pred             HHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCC-CcHHHHHHHHHHhccCChhHHHHHHHHHHHhc-ccccchHHHHH
Confidence            46677888888877654   566677777555221 24455555677777899999999999999872 22334455555


Q ss_pred             HHH---HHcCCHHHHHHHHHHHHhCCCCCCHH-HHH-HHHH---HHHhCC------ChHHHHHHHHHHHHC-CCCcCHHH
Q 047221          409 KGY---FIFYRYEDAYKYVVLSADKYKSSSNM-LYS-LLAS---LHDKNN------NPVMAKNVLSEMMKN-GLRPNVSV  473 (509)
Q Consensus       409 ~~~---~~~g~~~~A~~~~~~m~~~~~~p~~~-~~~-~li~---~~~~~g------~~~~a~~~~~~m~~~-g~~p~~~t  473 (509)
                      ..+   .... ...|...++.+....+.|... ... .++.   ...+.+      +.+...+++....+. +-+.+..+
T Consensus       163 ~~i~~l~~~~-~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~~~  241 (278)
T PF08631_consen  163 HHIKQLAEKS-PELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLSAEA  241 (278)
T ss_pred             HHHHHHHhhC-cHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCCHHH
Confidence            554   3333 355666666666555554442 111 1111   111211      144455555543332 23333333


Q ss_pred             HHHH-------HHHHHhcCCHHHHHHHHHH
Q 047221          474 YRRV-------LKHLHTSHQEHMAKCLSSR  496 (509)
Q Consensus       474 ~~~l-------l~~~~~~g~~~~a~~~~~~  496 (509)
                      -.++       ...+.+.+++++|.+.++-
T Consensus       242 ~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~  271 (278)
T PF08631_consen  242 ASAIHTLLWNKGKKHYKAKNYDEAIEWYEL  271 (278)
T ss_pred             HHHHHHHHHHHHHHHHhhcCHHHHHHHHHH
Confidence            3222       2345688999999998874

It is also involved in sporulation [].

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.64  E-value=11  Score=39.55  Aligned_cols=117  Identities=15%  Similarity=0.114  Sum_probs=88.8

Q ss_pred             CCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHH
Q 047221          326 GCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHA  405 (509)
Q Consensus       326 g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~  405 (509)
                      |......+.+--+.-+...|+-.+|.++-.+.+    -||-..|-.-+.+++..++|++-+++-+.+.      ...-|.
T Consensus       679 ~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~  748 (829)
T KOG2280|consen  679 GGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYL  748 (829)
T ss_pred             ccccccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCch
Confidence            434455566666777888999999998877664    4688888888999999999988877666543      244566


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHH
Q 047221          406 AFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSE  461 (509)
Q Consensus       406 ~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  461 (509)
                      -.+.+|.+.|+.++|.+++.+....     .    -...+|.+.|++.+|.++--+
T Consensus       749 PFVe~c~~~~n~~EA~KYiprv~~l-----~----ekv~ay~~~~~~~eAad~A~~  795 (829)
T KOG2280|consen  749 PFVEACLKQGNKDEAKKYIPRVGGL-----Q----EKVKAYLRVGDVKEAADLAAE  795 (829)
T ss_pred             hHHHHHHhcccHHHHhhhhhccCCh-----H----HHHHHHHHhccHHHHHHHHHH
Confidence            7899999999999999998654321     1    467788899999988876543

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=93.60  E-value=4.1  Score=34.62  Aligned_cols=133  Identities=14%  Similarity=0.139  Sum_probs=63.6

Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC--CHHHHHHHHHHHHh
Q 047221          352 ELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFY--RYEDAYKYVVLSAD  429 (509)
Q Consensus       352 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g--~~~~A~~~~~~m~~  429 (509)
                      +.++.+.+.|++|+...|..+|..+.+.|++....    ++...++-+|.......+-.+....  -.+-|+.++.++..
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~----qllq~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~~   90 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLH----QLLQYHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRLGT   90 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH----HHHhhcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHhhh
Confidence            34445555666666666666666666666644433    3333344444433333332222111  12233333333321


Q ss_pred             CCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 047221          430 KYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSL  500 (509)
Q Consensus       430 ~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~  500 (509)
                              .+..+++.+...|++-+|+++.+.....    +......++++-.+.++...-..+++-..+.
T Consensus        91 --------~~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~~  149 (167)
T PF07035_consen   91 --------AYEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFFEER  149 (167)
T ss_pred             --------hHHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence                    1344556666667777777666654221    1111233455555555555555555544443

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=93.52  E-value=7.8  Score=37.65  Aligned_cols=159  Identities=11%  Similarity=0.042  Sum_probs=90.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHcC--CC------HHHHHHHHHHHHh---cCCccHHHHHHHHHHHcCCCCChHHHHHHHH
Q 047221          271 ALIEMFSVLGLYEMAKYVIKKTE--RK------VSYYNILIKEMCR---RCDFKGPRDLLVEMRQVGCEPITLTYNYVLG  339 (509)
Q Consensus       271 ~li~~~~~~g~~~~A~~~~~~m~--~~------~~~~~~li~~~~~---~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~  339 (509)
                      .++-.|....+++...++++.++  |+      ...--...-++.+   .|+.++|++++..+....-.++..||..+..
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            44445777777777777777762  11      1111122334445   6778888888877555545677777777766


Q ss_pred             HHHh---------cCChHHHHHHHHHHHhCCCCCCHHH---HHHHHHHHHHc-CChHHHHHHH----HHHHHCCC---CC
Q 047221          340 VLCK---------NGQDADACELLEEMLGRNCHPDAIT---YEIFIVYSCRV-GKFDVAFNFF----NQMVKRGL---QP  399 (509)
Q Consensus       340 ~~~~---------~g~~~~a~~~~~~m~~~g~~p~~~~---~~~li~~~~~~-g~~~~a~~~~----~~m~~~g~---~p  399 (509)
                      .|-.         ....++|...|.+--+.  .||.++   +.+|+...... ..-.+..++-    ..+.+.|.   ..
T Consensus       226 IyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~--~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~~  303 (374)
T PF13281_consen  226 IYKDLFLESNFTDRESLDKAIEWYRKGFEI--EPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKMQ  303 (374)
T ss_pred             HHHHHHHHcCccchHHHHHHHHHHHHHHcC--CccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhccccccc
Confidence            6542         12356677777655443  344432   22222222211 1112223322    11223332   33


Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 047221          400 RLATHAAFIKGYFIFYRYEDAYKYVVLSADKY  431 (509)
Q Consensus       400 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  431 (509)
                      |-..+.+++.++.-.|+.++|.+..++|....
T Consensus       304 dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~  335 (374)
T PF13281_consen  304 DYWDVATLLEASVLAGDYEKAIQAAEKAFKLK  335 (374)
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC
Confidence            45567889999999999999999999998764

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.47  E-value=4.6  Score=37.94  Aligned_cols=111  Identities=13%  Similarity=-0.022  Sum_probs=59.4

Q ss_pred             cCCHHHHHHHHHH----cCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHH----HHHHHHHHhcCChHHH
Q 047221          279 LGLYEMAKYVIKK----TERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTY----NYVLGVLCKNGQDADA  350 (509)
Q Consensus       279 ~g~~~~A~~~~~~----m~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~----~~li~~~~~~g~~~~a  350 (509)
                      .|+..+|-..+++    .|.|..+++-.=.+|.-.|+.+.-...+++..-. ..+|...|    ....-++...|-+++|
T Consensus       116 ~g~~h~a~~~wdklL~d~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y~dA  194 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKLLDDYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYDDA  194 (491)
T ss_pred             cccccHHHHHHHHHHHhCchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccchhH
Confidence            3444444433333    3566666666666777777766666666665532 12333222    2222233456667777


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHH
Q 047221          351 CELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQ  391 (509)
Q Consensus       351 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  391 (509)
                      ++.-++..+-+ +.|...-.++...+--.|+..++.++..+
T Consensus       195 Ek~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~  234 (491)
T KOG2610|consen  195 EKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYK  234 (491)
T ss_pred             HHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHh
Confidence            76666655542 23445555555556666666666665444

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=93.44  E-value=9.6  Score=42.02  Aligned_cols=121  Identities=4%  Similarity=-0.010  Sum_probs=58.3

Q ss_pred             HHHHHHhccCCHHHHHHHHHHhhhCCCc------cCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHH--HHH
Q 047221          200 LVIDNCGRLDDYETMRQLLNDFNVYQVC------LNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSG--VRA  271 (509)
Q Consensus       200 ~li~~~~~~g~~~~A~~l~~~m~~~~~~------p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~--~~~  271 (509)
                      .-+..+++.+++.+|.++.++   ..+.      -+...|---+.++...-++.+-...++..+....+.-+...  +.+
T Consensus       682 a~vr~~l~~~~y~~AF~~~Rk---hRidlnii~d~~~~~Fl~nv~afl~~in~~~~l~lfl~~lk~eDvtk~~y~~~~~s  758 (1265)
T KOG1920|consen  682 AKVRTLLDRLRYKEAFEVMRK---HRIDLNIIFDYDPKRFLKNVPAFLKQINRVNHLELFLTELKEEDVTKTMYSSTSGS  758 (1265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH---hccCccchhhcCHHHHHhhHHHHhccCCcHHHHHHHHhhcccchhhhhhccccccc
Confidence            344556666677776655443   3221      23444555555566666666666666666654322111110  000


Q ss_pred             HHHHHHhcC----CHHHHH----HHHHHcCCCHHHHHHHHHHHHhcC--CccHHHHHHHHHHH
Q 047221          272 LIEMFSVLG----LYEMAK----YVIKKTERKVSYYNILIKEMCRRC--DFKGPRDLLVEMRQ  324 (509)
Q Consensus       272 li~~~~~~g----~~~~A~----~~~~~m~~~~~~~~~li~~~~~~g--~~~~A~~~~~~m~~  324 (509)
                      -...|....    +++..-    ..+.+..|+ ...-.+|..|++.+  .+++|+....+...
T Consensus       759 ~k~~~~~r~~~d~kv~~vc~~vr~~l~~~~~~-~~~~~ilTs~vk~~~~~ie~aL~kI~~l~~  820 (1265)
T KOG1920|consen  759 GKQVYMSRDPYDNKVNSVCDAVRNALERRAPD-KFNLFILTSYVKSNPPEIEEALQKIKELQL  820 (1265)
T ss_pred             cceeEEeccchhhHHHHHHHHHHHHHhhcCcc-hhhHHHHHHHHhcCcHHHHHHHHHHHHHHh
Confidence            001111111    111111    222222344 34456778888877  67777777777664

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=93.41  E-value=1.6  Score=41.99  Aligned_cols=88  Identities=13%  Similarity=0.007  Sum_probs=49.5

Q ss_pred             HHHHHHhcCCHHHHHHHHHHc----C---------------CCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChH
Q 047221          272 LIEMFSVLGLYEMAKYVIKKT----E---------------RKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITL  332 (509)
Q Consensus       272 li~~~~~~g~~~~A~~~~~~m----~---------------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  332 (509)
                      -.+.|.+.|++..|..-|++.    +               .-..+++.+..+|.+.+++.+|++.-++.+..+ ++|..
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 RGNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVK  292 (397)
T ss_pred             hhhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchh
Confidence            345677778888887777653    1               012345555555566666666665555555544 44454


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 047221          333 TYNYVLGVLCKNGQDADACELLEEMLGR  360 (509)
Q Consensus       333 t~~~li~~~~~~g~~~~a~~~~~~m~~~  360 (509)
                      ..--=..+|...|+++.|...|..+++.
T Consensus       293 ALyRrG~A~l~~~e~~~A~~df~ka~k~  320 (397)
T KOG0543|consen  293 ALYRRGQALLALGEYDLARDDFQKALKL  320 (397)
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHh
Confidence            4444455555555555555555555553

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.38  E-value=2  Score=39.18  Aligned_cols=97  Identities=16%  Similarity=0.105  Sum_probs=56.9

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCC-CCC-HHHHHHHH
Q 047221          368 TYEIFIVYSCRVGKFDVAFNFFNQMVKRG--LQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYK-SSS-NMLYSLLA  443 (509)
Q Consensus       368 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g--~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~p~-~~~~~~li  443 (509)
                      .|+.-+..+ +.|++.+|...|...++..  -.-....+--|.+++...|++++|..+|..+.+... .|. ..++--|.
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            566665554 5566777777777766552  111123344466777777777777777776665421 111 13444566


Q ss_pred             HHHHhCCChHHHHHHHHHHHHC
Q 047221          444 SLHDKNNNPVMAKNVLSEMMKN  465 (509)
Q Consensus       444 ~~~~~~g~~~~a~~~~~~m~~~  465 (509)
                      ....+.|+.++|..+|++..+.
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHH
Confidence            6666777777777777776653

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.83  E-value=3.4  Score=38.78  Aligned_cols=155  Identities=10%  Similarity=0.008  Sum_probs=113.1

Q ss_pred             HhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHH----HHHHHHHHHHHcCCh
Q 047221          307 CRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAI----TYEIFIVYSCRVGKF  382 (509)
Q Consensus       307 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~----~~~~li~~~~~~g~~  382 (509)
                      .-.|++.+|-..++++.+. .+.|...+.-.=++|...|+.+.-...++++... -.+|..    .-....-++..+|-+
T Consensus       114 ~~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y  191 (491)
T KOG2610|consen  114 WGRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIY  191 (491)
T ss_pred             hccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccc
Confidence            3478899999999998875 4778889999999999999999888888887765 233433    333334455688999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC---CCCCCHHHHHHHHHHHHhCCChHHHHHHH
Q 047221          383 DVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADK---YKSSSNMLYSLLASLHDKNNNPVMAKNVL  459 (509)
Q Consensus       383 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~---~~~p~~~~~~~li~~~~~~g~~~~a~~~~  459 (509)
                      ++|++.-++..+-+ +-|.-.-.++.+.+...|+..++.++..+-.+.   +.-.-..-|-...-.+...+.++.|+++|
T Consensus       192 ~dAEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIy  270 (491)
T KOG2610|consen  192 DDAEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIY  270 (491)
T ss_pred             hhHHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHH
Confidence            99999888876654 346667778888888899999999988765443   11112233444555666779999999999


Q ss_pred             HHHHH
Q 047221          460 SEMMK  464 (509)
Q Consensus       460 ~~m~~  464 (509)
                      +.-+-
T Consensus       271 D~ei~  275 (491)
T KOG2610|consen  271 DREIW  275 (491)
T ss_pred             HHHHH
Confidence            86443

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=92.76  E-value=2.8  Score=34.41  Aligned_cols=70  Identities=13%  Similarity=0.078  Sum_probs=34.8

Q ss_pred             HcCChHHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 047221          378 RVGKFDVAFNFFNQMVKRG--LQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHD  447 (509)
Q Consensus       378 ~~g~~~~a~~~~~~m~~~g--~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~  447 (509)
                      +.|++++|.+.|+.+..+-  -.-....--.|+.+|.+.|++++|...+++..+....-..+-|...+.|++
T Consensus        22 ~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~   93 (142)
T PF13512_consen   22 QKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLS   93 (142)
T ss_pred             HhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHH
Confidence            4566666666666655441  011223344455666666666666666666555443322333444444443

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=92.32  E-value=4.2  Score=32.66  Aligned_cols=87  Identities=14%  Similarity=0.025  Sum_probs=55.1

Q ss_pred             HHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCCh---HHHHHHHHHHHhcCCh
Q 047221          275 MFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPIT---LTYNYVLGVLCKNGQD  347 (509)
Q Consensus       275 ~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~---~t~~~li~~~~~~g~~  347 (509)
                      +++..|+++.|.+.|.+.    +.+...||.-..++.-.|+.++|++=+++..+..-.-+.   ..|.--...|...|+-
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~d  131 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGND  131 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCch
Confidence            456677777777777663    566777777777777778877777777766653211122   1222233346667777


Q ss_pred             HHHHHHHHHHHhCC
Q 047221          348 ADACELLEEMLGRN  361 (509)
Q Consensus       348 ~~a~~~~~~m~~~g  361 (509)
                      +.|..=|+..-+.|
T Consensus       132 d~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  132 DAARADFEAAAQLG  145 (175)
T ss_pred             HHHHHhHHHHHHhC
Confidence            77777777665554

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=92.20  E-value=7.6  Score=34.07  Aligned_cols=216  Identities=16%  Similarity=0.078  Sum_probs=104.0

Q ss_pred             HHHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHc------CCCHHHHHHHHHHHHhcCCccHHHHHH
Q 047221          247 KKGIWRVVEVLNQVGGS-CLVSGVRALIEMFSVLGLYEMAKYVIKKT------ERKVSYYNILIKEMCRRCDFKGPRDLL  319 (509)
Q Consensus       247 ~~~a~~~~~~m~~~g~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m------~~~~~~~~~li~~~~~~g~~~~A~~~~  319 (509)
                      ...+...+......... .....+......+...+.+..+...+...      ......+......+...+++.++.+.+
T Consensus        39 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (291)
T COG0457          39 LAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELL  118 (291)
T ss_pred             HHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            34444444444433222 12345556666666666666666555543      122344555555555566666666666


Q ss_pred             HHHHHcCCCCChHHHHHHHH-HHHhcCChHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCC
Q 047221          320 VEMRQVGCEPITLTYNYVLG-VLCKNGQDADACELLEEMLGRNC--HPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRG  396 (509)
Q Consensus       320 ~~m~~~g~~p~~~t~~~li~-~~~~~g~~~~a~~~~~~m~~~g~--~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  396 (509)
                      .........+ ......... .+...|+++.|...+.+......  ......+......+...++.+.+...+.+.....
T Consensus       119 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  197 (291)
T COG0457         119 EKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLN  197 (291)
T ss_pred             HHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhC
Confidence            6655443222 111222222 45666666666666666543211  0122233333333445566666666666655442


Q ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 047221          397 LQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       397 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      .......+..+-..+...++.+.|...+......... ....+..+...+...+..+++...+.+...
T Consensus       198 ~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  264 (291)
T COG0457         198 PDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPD-NAEALYNLALLLLELGRYEEALEALEKALE  264 (291)
T ss_pred             cccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcc-cHHHHhhHHHHHHHcCCHHHHHHHHHHHHH
Confidence            1112445555555566666666666666555543211 122233333333344555566655555544

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=92.16  E-value=4.3  Score=37.11  Aligned_cols=100  Identities=14%  Similarity=0.054  Sum_probs=78.1

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCC----CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHC-CCCcC-HHHH
Q 047221          401 LATHAAFIKGYFIFYRYEDAYKYVVLSADKYK----SSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKN-GLRPN-VSVY  474 (509)
Q Consensus       401 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~----~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~-~~t~  474 (509)
                      ...|+.-++.| +.|++..|..-|....+...    .|+.  +--|...+...|++++|..+|..+.+. +-.|. ...+
T Consensus       142 ~~~Y~~A~~~~-ksgdy~~A~~~F~~fi~~YP~s~~~~nA--~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdal  218 (262)
T COG1729         142 TKLYNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPNA--YYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDAL  218 (262)
T ss_pred             hHHHHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccchh--HHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHH
Confidence            33688877765 67889999999999887643    3444  445899999999999999999999874 22222 2567


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 047221          475 RRVLKHLHTSHQEHMAKCLSSRYSSLSLG  503 (509)
Q Consensus       475 ~~ll~~~~~~g~~~~a~~~~~~m~~~~~~  503 (509)
                      .-|.....+.|+.++|..+|+++.+.-+.
T Consensus       219 lKlg~~~~~l~~~d~A~atl~qv~k~YP~  247 (262)
T COG1729         219 LKLGVSLGRLGNTDEACATLQQVIKRYPG  247 (262)
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHHCCC
Confidence            77788889999999999999999876544

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=91.68  E-value=1.9  Score=39.98  Aligned_cols=56  Identities=9%  Similarity=0.050  Sum_probs=25.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHH
Q 047221          268 GVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMR  323 (509)
Q Consensus       268 ~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  323 (509)
                      ++..++..+..+|+.+.+...++++    +-|...|..+|.+|.+.|+...|+..|+++.
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~  214 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLK  214 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHH
Confidence            3444444444444444444444443    2334444444444444444444444444443

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=91.57  E-value=14  Score=35.91  Aligned_cols=49  Identities=8%  Similarity=0.059  Sum_probs=20.1

Q ss_pred             HcCChHHHHHHHHHHHHC---CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 047221          378 RVGKFDVAFNFFNQMVKR---GLQPRLATHAAFIKGYFIFYRYEDAYKYVVL  426 (509)
Q Consensus       378 ~~g~~~~a~~~~~~m~~~---g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  426 (509)
                      +.|.+..|.+.|.+.+..   +.+++...|.....+..+.|+.++|+.--++
T Consensus       261 k~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~  312 (486)
T KOG0550|consen  261 KNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNE  312 (486)
T ss_pred             hccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhh
Confidence            344444444444444322   2223333333344444444444444444433

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=91.56  E-value=12  Score=34.86  Aligned_cols=121  Identities=12%  Similarity=0.043  Sum_probs=61.9

Q ss_pred             HHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHH
Q 047221          306 MCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVA  385 (509)
Q Consensus       306 ~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a  385 (509)
                      ....|++.+|..+|+...+.. .-+...--.+..+|...|+.+.|..++..+...--........+-|..+.+.....+.
T Consensus       144 ~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~~  222 (304)
T COG3118         144 LIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPEI  222 (304)
T ss_pred             hhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCCH
Confidence            344556666666666555442 2223444556666666667666666666554432111122222233444444444444


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 047221          386 FNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSAD  429 (509)
Q Consensus       386 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  429 (509)
                      .++-++.-..  +-|...--.+...|...|+.+.|.+.+-.+..
T Consensus       223 ~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~  264 (304)
T COG3118         223 QDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALLR  264 (304)
T ss_pred             HHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4444444332  22555555566666667777776655544443

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=91.55  E-value=4.7  Score=32.38  Aligned_cols=91  Identities=15%  Similarity=0.008  Sum_probs=47.6

Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHH---HHHHHHHHHHcCC
Q 047221          340 VLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLAT---HAAFIKGYFIFYR  416 (509)
Q Consensus       340 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~---~~~li~~~~~~g~  416 (509)
                      +.+..|+++.|++.|.+.... .+-....||.-..++.-.|+.++|++-+++..+..-.-+...   |..--..|...|+
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            345566666666666665554 233455666666666666666666666665554321112221   2222223455566


Q ss_pred             HHHHHHHHHHHHhCC
Q 047221          417 YEDAYKYVVLSADKY  431 (509)
Q Consensus       417 ~~~A~~~~~~m~~~~  431 (509)
                      .+.|..=|+..-+.|
T Consensus       131 dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  131 DDAARADFEAAAQLG  145 (175)
T ss_pred             hHHHHHhHHHHHHhC
Confidence            666666665554443

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=91.53  E-value=2.4  Score=39.24  Aligned_cols=77  Identities=18%  Similarity=0.185  Sum_probs=38.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHH-----CCCCCCHHHHHHH
Q 047221          333 TYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVK-----RGLQPRLATHAAF  407 (509)
Q Consensus       333 t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~~~~~l  407 (509)
                      ++..++..+...|+.+.+...++++... -+-+...|..+|.+|.+.|+...|+..|+++.+     .|+.|...+....
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~-dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y  233 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIEL-DPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALY  233 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhc-CccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHH
Confidence            3344445555555555555555555544 233455555555555555555555555555443     2555555444443


Q ss_pred             HHH
Q 047221          408 IKG  410 (509)
Q Consensus       408 i~~  410 (509)
                      ...
T Consensus       234 ~~~  236 (280)
T COG3629         234 EEI  236 (280)
T ss_pred             HHH
Confidence            333

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=91.27  E-value=17  Score=36.34  Aligned_cols=78  Identities=10%  Similarity=-0.018  Sum_probs=56.8

Q ss_pred             HHHHHHHHhcCCccHHHHHHHHHHHcC-CCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHH
Q 047221          300 NILIKEMCRRCDFKGPRDLLVEMRQVG-CEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHP-DAITYEIFIVYSC  377 (509)
Q Consensus       300 ~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~  377 (509)
                      ..+..+..+.|+.++|++.|++|.+.. ..-+......|+.++...+.+.++..++.+-.+...+. -...|++.+--+.
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALLkaR  342 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALLKAR  342 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHHHHH
Confidence            457777788999999999999998653 11234466789999999999999999999875443322 2456777664443

The molecular function of this protein is uncertain.

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=91.12  E-value=9.6  Score=36.92  Aligned_cols=138  Identities=16%  Similarity=0.076  Sum_probs=79.4

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCH
Q 047221          338 LGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRY  417 (509)
Q Consensus       338 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~  417 (509)
                      -+.|.+.|++..|..-|++....            | -|.+.-+.++..... ..       -..++..|.-+|.+.+++
T Consensus       215 Gn~~fK~gk~~~A~~~Yerav~~------------l-~~~~~~~~ee~~~~~-~~-------k~~~~lNlA~c~lKl~~~  273 (397)
T KOG0543|consen  215 GNVLFKEGKFKLAKKRYERAVSF------------L-EYRRSFDEEEQKKAE-AL-------KLACHLNLAACYLKLKEY  273 (397)
T ss_pred             hhHHHhhchHHHHHHHHHHHHHH------------h-hccccCCHHHHHHHH-HH-------HHHHhhHHHHHHHhhhhH
Confidence            36677888888888887775543            0 011111112211111 11       133456677777777888


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh-cCC-HHHHHHHHH
Q 047221          418 EDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHT-SHQ-EHMAKCLSS  495 (509)
Q Consensus       418 ~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~-~g~-~~~a~~~~~  495 (509)
                      ..|++.-+...+.+ ..|.-..--=..+|...|+++.|+..|+++++  +.|+...-..=+..|.+ ..+ .+...++|.
T Consensus       274 ~~Ai~~c~kvLe~~-~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k--~~P~Nka~~~el~~l~~k~~~~~~kekk~y~  350 (397)
T KOG0543|consen  274 KEAIESCNKVLELD-PNNVKALYRRGQALLALGEYDLARDDFQKALK--LEPSNKAARAELIKLKQKIREYEEKEKKMYA  350 (397)
T ss_pred             HHHHHHHHHHHhcC-CCchhHHHHHHHHHHhhccHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88777777776654 23444444456677777888888888888776  56665555554444432 222 333456666


Q ss_pred             HHHh
Q 047221          496 RYSS  499 (509)
Q Consensus       496 ~m~~  499 (509)
                      .|-.
T Consensus       351 ~mF~  354 (397)
T KOG0543|consen  351 NMFA  354 (397)
T ss_pred             HHhh
Confidence            6653

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=91.01  E-value=9  Score=32.57  Aligned_cols=135  Identities=14%  Similarity=0.139  Sum_probs=87.8

Q ss_pred             HHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHC
Q 047221          316 RDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKR  395 (509)
Q Consensus       316 ~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  395 (509)
                      .+.++.+.+.|+.|+...|..++..+.+.|++..    +..+.+.++-+|.......+-.+..  ....+.++=-+|.++
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~----L~qllq~~Vi~DSk~lA~~LLs~~~--~~~~~~Ql~lDMLkR   87 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQ----LHQLLQYHVIPDSKPLACQLLSLGN--QYPPAYQLGLDMLKR   87 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH----HHHHHhhcccCCcHHHHHHHHHhHc--cChHHHHHHHHHHHH
Confidence            4556667788999999999999999999998654    4556666677777666655544432  334445554455443


Q ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 047221          396 GLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       396 g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                          =...+..+++.+...|++-+|.++.+......    ......++.+-.+.++...-..+|+-..+
T Consensus        88 ----L~~~~~~iievLL~~g~vl~ALr~ar~~~~~~----~~~~~~fLeAA~~~~D~~lf~~V~~ff~~  148 (167)
T PF07035_consen   88 ----LGTAYEEIIEVLLSKGQVLEALRYARQYHKVD----SVPARKFLEAAANSNDDQLFYAVFRFFEE  148 (167)
T ss_pred             ----hhhhHHHHHHHHHhCCCHHHHHHHHHHcCCcc----cCCHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                11246678888999999999999987653321    11223466666677666555555554444

>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=90.82  E-value=3.9  Score=35.36  Aligned_cols=62  Identities=10%  Similarity=-0.017  Sum_probs=32.8

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 047221          403 THAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSN--MLYSLLASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       403 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~--~~~~~li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      .+..+.+.|++.|+.+.|.+.|.++.+....+..  ..+-.+|......|++..+.....+...
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~  101 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAES  101 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            3455555666666666666666665554332222  2344455555555666665555555443

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.

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=90.59  E-value=16  Score=34.98  Aligned_cols=220  Identities=12%  Similarity=0.018  Sum_probs=118.4

Q ss_pred             cCCHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHHHhcCCHHHHHHHH-HHc------CC---CHHHHHHHHHHHHhcCC
Q 047221          244 ALTKKGIWRVVEVLNQV--GGSCLVSGVRALIEMFSVLGLYEMAKYVI-KKT------ER---KVSYYNILIKEMCRRCD  311 (509)
Q Consensus       244 ~~~~~~a~~~~~~m~~~--g~~~~~~~~~~li~~~~~~g~~~~A~~~~-~~m------~~---~~~~~~~li~~~~~~g~  311 (509)
                      ..+.+.++..+......  ....--.++..+.++.++.|.++++...- .+|      +.   -..+|-.+..++-+.-+
T Consensus        19 s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~l~~   98 (518)
T KOG1941|consen   19 SNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKLCE   98 (518)
T ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44477777777665542  12223346778888888888888776532 122      11   13456666666666666


Q ss_pred             ccHHHHHHHHHHHc-CCCC---ChHHHHHHHHHHHhcCChHHHHHHHHHHHhCC-----CCCCHHHHHHHHHHHHHcCCh
Q 047221          312 FKGPRDLLVEMRQV-GCEP---ITLTYNYVLGVLCKNGQDADACELLEEMLGRN-----CHPDAITYEIFIVYSCRVGKF  382 (509)
Q Consensus       312 ~~~A~~~~~~m~~~-g~~p---~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g-----~~p~~~~~~~li~~~~~~g~~  382 (509)
                      +.+++.+-..-... |..|   ......+|-.+....+.++++++.|+...+--     -.....+|..|-..|.+..|+
T Consensus        99 f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~  178 (518)
T KOG1941|consen   99 FHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDY  178 (518)
T ss_pred             hhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhh
Confidence            66666655443322 2222   11223345566666667777777777654421     112234677777777777777


Q ss_pred             HHHHHHHHHHHHC----CCCCCHHHHHH-----HHHHHHHcCCHHHHHHHHHHHHh----CCCCC-CHHHHHHHHHHHHh
Q 047221          383 DVAFNFFNQMVKR----GLQPRLATHAA-----FIKGYFIFYRYEDAYKYVVLSAD----KYKSS-SNMLYSLLASLHDK  448 (509)
Q Consensus       383 ~~a~~~~~~m~~~----g~~p~~~~~~~-----li~~~~~~g~~~~A~~~~~~m~~----~~~~p-~~~~~~~li~~~~~  448 (509)
                      ++|.-+..+..+-    ++..-..-|..     |.-++...|.+.+|.+.-++..+    .|-.+ -....-.+.+.|-.
T Consensus       179 ~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~  258 (518)
T KOG1941|consen  179 EKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRS  258 (518)
T ss_pred             hHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHh
Confidence            7777665554322    22222222332     22345566666666666655433    23111 11233345556666


Q ss_pred             CCChHHHHHHHHHHH
Q 047221          449 NNNPVMAKNVLSEMM  463 (509)
Q Consensus       449 ~g~~~~a~~~~~~m~  463 (509)
                      .|+.+.|..-|+...
T Consensus       259 ~gd~e~af~rYe~Am  273 (518)
T KOG1941|consen  259 RGDLERAFRRYEQAM  273 (518)
T ss_pred             cccHhHHHHHHHHHH
Confidence            677777666666543

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.22  E-value=14  Score=33.39  Aligned_cols=204  Identities=13%  Similarity=0.062  Sum_probs=108.4

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHH
Q 047221          266 VSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVL  341 (509)
Q Consensus       266 ~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~  341 (509)
                      ...|.-...+|....+++.|...+.+.    +.+...|.       ...-++.|.-+.++|.+.  .--+.-|+--...|
T Consensus        31 as~yekAAvafRnAk~feKakdcLlkA~~~yEnnrslfh-------AAKayEqaamLake~~kl--sEvvdl~eKAs~lY  101 (308)
T KOG1585|consen   31 ASLYEKAAVAFRNAKKFEKAKDCLLKASKGYENNRSLFH-------AAKAYEQAAMLAKELSKL--SEVVDLYEKASELY  101 (308)
T ss_pred             HHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHhcccHHH-------HHHHHHHHHHHHHHHHHh--HHHHHHHHHHHHHH
Confidence            345666677777888888887766553    22222111       122345555666666542  12234456666778


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHC---C--CCCCHHHHHHHHHHHHHcCC
Q 047221          342 CKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKR---G--LQPRLATHAAFIKGYFIFYR  416 (509)
Q Consensus       342 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---g--~~p~~~~~~~li~~~~~~g~  416 (509)
                      ..+|..+.|-.-++..-+.                .+..++++|+++|++...-   +  ..--...+..+-..+.+...
T Consensus       102 ~E~GspdtAAmaleKAak~----------------lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~k  165 (308)
T KOG1585|consen  102 VECGSPDTAAMALEKAAKA----------------LENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEK  165 (308)
T ss_pred             HHhCCcchHHHHHHHHHHH----------------hhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHH
Confidence            8888887766666543321                2333444444444433211   0  00011223344445555566


Q ss_pred             HHHHHHHHHHHHhC----CCCCCH-HHHHHHHHHHHhCCChHHHHHHHHHHHHCC---CCcCHHHHHHHHHHHHhcCCHH
Q 047221          417 YEDAYKYVVLSADK----YKSSSN-MLYSLLASLHDKNNNPVMAKNVLSEMMKNG---LRPNVSVYRRVLKHLHTSHQEH  488 (509)
Q Consensus       417 ~~~A~~~~~~m~~~----~~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~g---~~p~~~t~~~ll~~~~~~g~~~  488 (509)
                      +++|-..|.+-...    .--++. ..|-..|-.|.-..++..|.+.+++--+.+   -.-+..+...||.+| ..|+.+
T Consensus       166 f~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E  244 (308)
T KOG1585|consen  166 FTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIE  244 (308)
T ss_pred             hhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHH
Confidence            66655444322110    001111 234455556666778889999998854432   122556888888887 458888


Q ss_pred             HHHHHHH
Q 047221          489 MAKCLSS  495 (509)
Q Consensus       489 ~a~~~~~  495 (509)
                      ++..++.
T Consensus       245 ~~~kvl~  251 (308)
T KOG1585|consen  245 EIKKVLS  251 (308)
T ss_pred             HHHHHHc
Confidence            8777653

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=90.17  E-value=9.3  Score=31.41  Aligned_cols=102  Identities=13%  Similarity=-0.045  Sum_probs=68.7

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHH
Q 047221          401 LATHAAFIKGYFIFYRYEDAYKYVVLSADKYK--SSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVL  478 (509)
Q Consensus       401 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~--~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll  478 (509)
                      ...|+.-..+ .+.|++++|.+.|+.+...-.  .-....--.|+.+|.+.|++++|...+++.++..-.--..-|...+
T Consensus        11 ~~ly~~a~~~-l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~   89 (142)
T PF13512_consen   11 QELYQEAQEA-LQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYM   89 (142)
T ss_pred             HHHHHHHHHH-HHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHH
Confidence            3445544444 577999999999999987622  1123345568999999999999999999999854332224466666


Q ss_pred             HHHHhcCC-----------------HHHHHHHHHHHHhCCCC
Q 047221          479 KHLHTSHQ-----------------EHMAKCLSSRYSSLSLG  503 (509)
Q Consensus       479 ~~~~~~g~-----------------~~~a~~~~~~m~~~~~~  503 (509)
                      .+++.-..                 ...|..-|+++.+.=+.
T Consensus        90 ~gL~~~~~~~~~~~~~~~~drD~~~~~~A~~~f~~lv~~yP~  131 (142)
T PF13512_consen   90 RGLSYYEQDEGSLQSFFRSDRDPTPARQAFRDFEQLVRRYPN  131 (142)
T ss_pred             HHHHHHHHhhhHHhhhcccccCcHHHHHHHHHHHHHHHHCcC
Confidence            66543332                 55677777777655443

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.06  E-value=3.9  Score=38.05  Aligned_cols=96  Identities=13%  Similarity=0.116  Sum_probs=62.8

Q ss_pred             HHHHHHHHHHHHhcCCccHHHHHHHHHHHcC---CCCC--hHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHH
Q 047221          296 VSYYNILIKEMCRRCDFKGPRDLLVEMRQVG---CEPI--TLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYE  370 (509)
Q Consensus       296 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g---~~p~--~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~  370 (509)
                      ..+...++..--...+++.++..+-+++...   ..|+  .++|--++    -.-+.++++.++..=.+.|+-||..+++
T Consensus        64 ~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irll----lky~pq~~i~~l~npIqYGiF~dqf~~c  139 (418)
T KOG4570|consen   64 SLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLL----LKYDPQKAIYTLVNPIQYGIFPDQFTFC  139 (418)
T ss_pred             eeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHHH----HccChHHHHHHHhCcchhccccchhhHH
Confidence            4445555555555667777777777776431   1222  23333322    2335667777777777778888888888


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHC
Q 047221          371 IFIVYSCRVGKFDVAFNFFNQMVKR  395 (509)
Q Consensus       371 ~li~~~~~~g~~~~a~~~~~~m~~~  395 (509)
                      .+|+.+.+.+++.+|..+.-.|...
T Consensus       140 ~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  140 LLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             HHHHHHHhcccHHHHHHHHHHHHHH
Confidence            8888888888888888877777655

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.03  E-value=9.3  Score=40.48  Aligned_cols=177  Identities=11%  Similarity=0.105  Sum_probs=127.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHcCCCHHHHHHHH----HHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhc
Q 047221          269 VRALIEMFSVLGLYEMAKYVIKKTERKVSYYNILI----KEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKN  344 (509)
Q Consensus       269 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~li----~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~  344 (509)
                      ...-++++.+...++.|..+-+.-..|..+-..+.    +.+.+.|++++|...|-+-... ++|     ..+|.-|...
T Consensus       337 le~kL~iL~kK~ly~~Ai~LAk~~~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~kfLda  410 (933)
T KOG2114|consen  337 LETKLDILFKKNLYKVAINLAKSQHLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEP-----SEVIKKFLDA  410 (933)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CCh-----HHHHHHhcCH
Confidence            45788999999999999999988765554444444    4555789999999999776632 233     3456667777


Q ss_pred             CChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 047221          345 GQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYV  424 (509)
Q Consensus       345 g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~  424 (509)
                      .++..-..+++.+.+.|+. +...-+.|+.+|.+.++.++-.++.+.-. .|..  ..-....+..+.+.+-.++|..+-
T Consensus       411 q~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~a~~LA  486 (933)
T KOG2114|consen  411 QRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDEAELLA  486 (933)
T ss_pred             HHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHHHHHHH
Confidence            7788888889999998875 66667789999999999999888777654 2211  112455677778888888888876


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHH
Q 047221          425 VLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMM  463 (509)
Q Consensus       425 ~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  463 (509)
                      .....     .......+   +-..|++++|++++..|.
T Consensus       487 ~k~~~-----he~vl~il---le~~~ny~eAl~yi~slp  517 (933)
T KOG2114|consen  487 TKFKK-----HEWVLDIL---LEDLHNYEEALRYISSLP  517 (933)
T ss_pred             HHhcc-----CHHHHHHH---HHHhcCHHHHHHHHhcCC
Confidence            55432     23323333   347889999999999864

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=90.02  E-value=0.75  Score=27.63  Aligned_cols=24  Identities=8%  Similarity=0.033  Sum_probs=14.4

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHH
Q 047221          439 YSLLASLHDKNNNPVMAKNVLSEM  462 (509)
Q Consensus       439 ~~~li~~~~~~g~~~~a~~~~~~m  462 (509)
                      |+.|...|.+.|++++|+++|++.
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~a   25 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQA   25 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHH
Confidence            455666666666666666666663

>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=89.99  E-value=3.9  Score=35.34  Aligned_cols=58  Identities=16%  Similarity=0.110  Sum_probs=26.1

Q ss_pred             HHHHHHHHHhcCCccHHHHHHHHHHHcCCCCC--hHHHHHHHHHHHhcCChHHHHHHHHH
Q 047221          299 YNILIKEMCRRCDFKGPRDLLVEMRQVGCEPI--TLTYNYVLGVLCKNGQDADACELLEE  356 (509)
Q Consensus       299 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~t~~~li~~~~~~g~~~~a~~~~~~  356 (509)
                      +..+...|++.|+.++|++.|.++.+....+.  ...+-.+|..+...|++..+.....+
T Consensus        39 ~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~k   98 (177)
T PF10602_consen   39 LEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEK   98 (177)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            44444555555555555555555444322222  22233444444445555544444443

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.

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=89.95  E-value=19  Score=34.76  Aligned_cols=65  Identities=15%  Similarity=0.059  Sum_probs=47.8

Q ss_pred             CHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCc---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 047221          435 SNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRP---NVSVYRRVLKHLHTSHQEHMAKCLSSRYSS  499 (509)
Q Consensus       435 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p---~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~  499 (509)
                      ...+|..++..+.+.|+++.|...+.++...+...   +......-.+.+...|+.++|+..+++..+
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            44578888888889999999998888887643211   334444556677788888888888888776

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=89.94  E-value=21  Score=35.21  Aligned_cols=50  Identities=14%  Similarity=0.009  Sum_probs=39.2

Q ss_pred             HhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 047221          447 DKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYS  498 (509)
Q Consensus       447 ~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~  498 (509)
                      ..+|++.++.-.-..+.+  +.|+..+|.-+--++....++++|..++..+.
T Consensus       473 ysqgey~kc~~ys~WL~~--iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~LP  522 (549)
T PF07079_consen  473 YSQGEYHKCYLYSSWLTK--IAPSPQAYRLLGLCLMENKRYQEAWEYLQKLP  522 (549)
T ss_pred             HhcccHHHHHHHHHHHHH--hCCcHHHHHHHHHHHHHHhhHHHHHHHHHhCC
Confidence            356777777666555554  78999999888888888999999999998764

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=89.88  E-value=17  Score=33.84  Aligned_cols=138  Identities=5%  Similarity=0.057  Sum_probs=84.7

Q ss_pred             CChHHHHHHHHHHHh-CCCCCCHHHHHHHHHHHHHc-C-ChHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHHcCCHHHH
Q 047221          345 GQDADACELLEEMLG-RNCHPDAITYEIFIVYSCRV-G-KFDVAFNFFNQMVKR-GLQPRLATHAAFIKGYFIFYRYEDA  420 (509)
Q Consensus       345 g~~~~a~~~~~~m~~-~g~~p~~~~~~~li~~~~~~-g-~~~~a~~~~~~m~~~-g~~p~~~~~~~li~~~~~~g~~~~A  420 (509)
                      ..+.+|+++|+.... ..+--|..+...+++..... + ....-.++.+.+... |-.++..+...+|..++..+++.+-
T Consensus       142 ~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl  221 (292)
T PF13929_consen  142 KIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKL  221 (292)
T ss_pred             HHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHH
Confidence            344566666663222 23445677777777766652 2 222333344444332 4567777788888888888888888


Q ss_pred             HHHHHHHHhC-CCCCCHHHHHHHHHHHHhCCChHHHHHHHHHH-----HHCCCCcCHHHHHHHHHHHH
Q 047221          421 YKYVVLSADK-YKSSSNMLYSLLASLHDKNNNPVMAKNVLSEM-----MKNGLRPNVSVYRRVLKHLH  482 (509)
Q Consensus       421 ~~~~~~m~~~-~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m-----~~~g~~p~~~t~~~ll~~~~  482 (509)
                      .++++.-... +..-|..-|..+|......|+..-..++.++=     .+.|+..+...-..+-+.+.
T Consensus       222 ~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF~  289 (292)
T PF13929_consen  222 FQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELFK  289 (292)
T ss_pred             HHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHHH
Confidence            8888776554 55567777888888888888876666655541     23345555555555444443

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=89.82  E-value=13  Score=37.12  Aligned_cols=61  Identities=8%  Similarity=-0.071  Sum_probs=46.9

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 047221          404 HAAFIKGYFIFYRYEDAYKYVVLSADKY-KSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       404 ~~~li~~~~~~g~~~~A~~~~~~m~~~~-~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      =..|..+..+.|+.++|.+.|++|.+.. ...+......|+.++...+.+.++..++.+-.+
T Consensus       262 KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdD  323 (539)
T PF04184_consen  262 KRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDD  323 (539)
T ss_pred             HHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcc
Confidence            3456677778899999999999987543 223444666799999999999999999998754

The molecular function of this protein is uncertain.

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=89.07  E-value=27  Score=35.12  Aligned_cols=179  Identities=12%  Similarity=0.056  Sum_probs=119.8

Q ss_pred             CHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 047221          295 KVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIV  374 (509)
Q Consensus       295 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  374 (509)
                      |....-+++..+.++..+.-+..+-.+|..-|  .+...|-.++..|... .-++-..+|+++.+..+. |++.-.-|..
T Consensus        65 ~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~dfn-Dvv~~ReLa~  140 (711)
T COG1747          65 DDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFN-DVVIGRELAD  140 (711)
T ss_pred             cchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcch-hHHHHHHHHH
Confidence            44455678888888888888888888888764  4677888888888888 556778888888876432 3333344444


Q ss_pred             HHHHcCChHHHHHHHHHHHHCCCC-----CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHh
Q 047221          375 YSCRVGKFDVAFNFFNQMVKRGLQ-----PRLATHAAFIKGYFIFYRYEDAYKYVVLSADK-YKSSSNMLYSLLASLHDK  448 (509)
Q Consensus       375 ~~~~~g~~~~a~~~~~~m~~~g~~-----p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~p~~~~~~~li~~~~~  448 (509)
                      -|-+ ++...+...|.+...+=++     .-...|..|+..-  ..+.+..+.+..++... |...-.+.+.-+-.-|..
T Consensus       141 ~yEk-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys~  217 (711)
T COG1747         141 KYEK-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYSE  217 (711)
T ss_pred             HHHH-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhcc
Confidence            4444 8888888888887755221     1123455555422  35677777777776653 555566677777788888


Q ss_pred             CCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHH
Q 047221          449 NNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHL  481 (509)
Q Consensus       449 ~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~  481 (509)
                      ..++++|++++....+.. .-|...-..++.-+
T Consensus       218 ~eN~~eai~Ilk~il~~d-~k~~~ar~~~i~~l  249 (711)
T COG1747         218 NENWTEAIRILKHILEHD-EKDVWARKEIIENL  249 (711)
T ss_pred             ccCHHHHHHHHHHHhhhc-chhhhHHHHHHHHH
Confidence            888999999988877653 23444444444444

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=89.00  E-value=19  Score=33.43  Aligned_cols=147  Identities=15%  Similarity=0.046  Sum_probs=72.5

Q ss_pred             cCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHcCCCH-----HHHHHH
Q 047221          228 LNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTERKV-----SYYNIL  302 (509)
Q Consensus       228 p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-----~~~~~l  302 (509)
                      +....+..... .. ..++..++..+|+........ +....-.++.+|...|+.+.|..++..++.+.     .....-
T Consensus       133 ~~e~~~~~~~~-~~-~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~  209 (304)
T COG3118         133 EEEEALAEAKE-LI-EAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQ  209 (304)
T ss_pred             HHHHHHHHhhh-hh-hccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHH
Confidence            34444444433 23 344477777777776654322 23444567777777777777777777775321     111223


Q ss_pred             HHHHHhcCCccHHHHHHHHHHHcCCCC-ChHHHHHHHHHHHhcCChHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHHcC
Q 047221          303 IKEMCRRCDFKGPRDLLVEMRQVGCEP-ITLTYNYVLGVLCKNGQDADACELLEEMLGR-NCHPDAITYEIFIVYSCRVG  380 (509)
Q Consensus       303 i~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~~~~~~~li~~~~~~g  380 (509)
                      |..+.+.....+..++-.+.-.   .| |...-..+...+...|+.+.|.+.+-.+.++ .---|...-..|+..+.-.|
T Consensus       210 i~ll~qaa~~~~~~~l~~~~aa---dPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g  286 (304)
T COG3118         210 IELLEQAAATPEIQDLQRRLAA---DPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFG  286 (304)
T ss_pred             HHHHHHHhcCCCHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcC
Confidence            3344444444444444443333   23 3444445555555666666655554444333 11113334444444444444

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=89.00  E-value=1.5  Score=27.65  Aligned_cols=27  Identities=15%  Similarity=0.084  Sum_probs=12.7

Q ss_pred             HHHHHHHHHhcCCccHHHHHHHHHHHc
Q 047221          299 YNILIKEMCRRCDFKGPRDLLVEMRQV  325 (509)
Q Consensus       299 ~~~li~~~~~~g~~~~A~~~~~~m~~~  325 (509)
                      |..+...|.+.|++++|+++|++..+.
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            334444444444444444444444443

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=88.93  E-value=14  Score=31.53  Aligned_cols=53  Identities=21%  Similarity=0.280  Sum_probs=27.4

Q ss_pred             hcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHC
Q 047221          343 KNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKR  395 (509)
Q Consensus       343 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  395 (509)
                      ..|.+++.....+-+-..|-+.-...-.+|--+-.+.|++.+|...|.++...
T Consensus       144 D~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~D  196 (221)
T COG4649         144 DNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAND  196 (221)
T ss_pred             ccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHcc
Confidence            44555555555554444443333444445555555566666666666655543

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=88.80  E-value=20  Score=33.27  Aligned_cols=72  Identities=10%  Similarity=-0.001  Sum_probs=52.7

Q ss_pred             HHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHh-----CCCCCCHHHHH
Q 047221          298 YYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLG-----RNCHPDAITYE  370 (509)
Q Consensus       298 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~~~~  370 (509)
                      +.+.....|..+|.+.+|.++-++..... +.+...+-.++..++..|+--.|.+-++.+.+     .|+..|...++
T Consensus       281 llgkva~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~lm~~la~~gD~is~~khyerya~vleaelgi~vddsiee  357 (361)
T COG3947         281 LLGKVARAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGLMASLATLGDEISAIKHYERYAEVLEAELGIDVDDSIEE  357 (361)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHhccchhhhhHHHHHHHHHHHHhCCCcchhHHH
Confidence            34556678888899999998888887765 66778888888889998887777766666543     36666655443

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=88.41  E-value=8  Score=36.09  Aligned_cols=101  Identities=17%  Similarity=0.129  Sum_probs=58.8

Q ss_pred             CCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCC---CCC--CHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC
Q 047221          326 GCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRN---CHP--DAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPR  400 (509)
Q Consensus       326 g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g---~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  400 (509)
                      |......+...++..-....+++++...+-.++..-   ..+  +.+++   +..|.+ -+.++++.++..=+.-|+-||
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~---irlllk-y~pq~~i~~l~npIqYGiF~d  134 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTW---IRLLLK-YDPQKAIYTLVNPIQYGIFPD  134 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHH---HHHHHc-cChHHHHHHHhCcchhccccc
Confidence            334445555555555555666777766666665431   111  12222   222222 245677777776677777777


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 047221          401 LATHAAFIKGYFIFYRYEDAYKYVVLSADK  430 (509)
Q Consensus       401 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  430 (509)
                      ..+++.+|+.+.+.+++.+|..+.-.|...
T Consensus       135 qf~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  135 QFTFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             hhhHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            777777777777777777777666555543

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=88.06  E-value=1.1  Score=26.96  Aligned_cols=26  Identities=12%  Similarity=-0.003  Sum_probs=22.0

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhh
Q 047221          197 ICSLVIDNCGRLDDYETMRQLLNDFN  222 (509)
Q Consensus       197 ~~~~li~~~~~~g~~~~A~~l~~~m~  222 (509)
                      +|+.|...|.+.|++++|+++|++..
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            57889999999999999999999854

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=87.71  E-value=39  Score=35.32  Aligned_cols=179  Identities=13%  Similarity=0.021  Sum_probs=109.0

Q ss_pred             CHHHHHHHHHHc--CCCHHHHHHHH----HH-HHhcCCccHHHHHHHHHHH-------cCCCCChHHHHHHHHHHHhcC-
Q 047221          281 LYEMAKYVIKKT--ERKVSYYNILI----KE-MCRRCDFKGPRDLLVEMRQ-------VGCEPITLTYNYVLGVLCKNG-  345 (509)
Q Consensus       281 ~~~~A~~~~~~m--~~~~~~~~~li----~~-~~~~g~~~~A~~~~~~m~~-------~g~~p~~~t~~~li~~~~~~g-  345 (509)
                      +...|.+.++..  ..+...-..+.    .+ +....+.+.|+..|+...+       .|   +......+-.+|.+.. 
T Consensus       227 ~~~~a~~~~~~~a~~g~~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~  303 (552)
T KOG1550|consen  227 ELSEAFKYYREAAKLGHSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLG  303 (552)
T ss_pred             hhhHHHHHHHHHHhhcchHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCC
Confidence            356777777775  23333322222    33 5566789999999988876       44   3345666777777643 


Q ss_pred             ----ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH-cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCC
Q 047221          346 ----QDADACELLEEMLGRNCHPDAITYEIFIVYSCR-VGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFI----FYR  416 (509)
Q Consensus       346 ----~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~-~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~  416 (509)
                          +.+.|..++...-+.|. |+...+-..+..... ..+...|.++|....+.|   ....+-.+..+|..    ..+
T Consensus       304 ~~~~d~~~A~~~~~~aA~~g~-~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G---~~~A~~~la~~y~~G~gv~r~  379 (552)
T KOG1550|consen  304 VEKIDYEKALKLYTKAAELGN-PDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAG---HILAIYRLALCYELGLGVERN  379 (552)
T ss_pred             CccccHHHHHHHHHHHHhcCC-chHHHHHHHHHHcCCccccHHHHHHHHHHHHHcC---ChHHHHHHHHHHHhCCCcCCC
Confidence                56678888888777764 344444333332222 245788999999888888   34444444444433    246


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCC
Q 047221          417 YEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLR  468 (509)
Q Consensus       417 ~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  468 (509)
                      .+.|..++++..++|........ ..+..+.. ++++.+.-.+..+.+.|.+
T Consensus       380 ~~~A~~~~k~aA~~g~~~A~~~~-~~~~~~g~-~~~~~~~~~~~~~a~~g~~  429 (552)
T KOG1550|consen  380 LELAFAYYKKAAEKGNPSAAYLL-GAFYEYGV-GRYDTALALYLYLAELGYE  429 (552)
T ss_pred             HHHHHHHHHHHHHccChhhHHHH-HHHHHHcc-ccccHHHHHHHHHHHhhhh
Confidence            78888888888888722222221 22333333 7777777777777776544

>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=87.48  E-value=16  Score=30.70  Aligned_cols=17  Identities=35%  Similarity=0.351  Sum_probs=7.4

Q ss_pred             hcCChHHHHHHHHHHHh
Q 047221          343 KNGQDADACELLEEMLG  359 (509)
Q Consensus       343 ~~g~~~~a~~~~~~m~~  359 (509)
                      ..|++.+|.++|+++.+
T Consensus        56 ~r~~w~dA~rlLr~l~~   72 (160)
T PF09613_consen   56 VRGDWDDALRLLRELEE   72 (160)
T ss_pred             HhCCHHHHHHHHHHHhc
Confidence            44444444444444433

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=87.23  E-value=30  Score=33.56  Aligned_cols=318  Identities=11%  Similarity=0.011  Sum_probs=191.4

Q ss_pred             HHHHHHhcCCchHHHHHHHhhccCCCCccChhHHHHHHHHHhc--cCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHH-H
Q 047221          165 EILRVLNSEKVSALCFLKYMREIMPEFYKNSDICSLVIDNCGR--LDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLI-S  241 (509)
Q Consensus       165 ~ll~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~--~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~-~  241 (509)
                      -+++.+...+..+...|..-++        ..-|.+|-.++.-  .|+-..|.++-.+..+ -+.-|..-.--++.+- .
T Consensus        60 wlv~~iw~sP~t~~Ryfr~rKR--------drgyqALStGliAagAGda~lARkmt~~~~~-llssDqepLIhlLeAQaa  130 (531)
T COG3898          60 WLVRSIWESPYTARRYFRERKR--------DRGYQALSTGLIAAGAGDASLARKMTARASK-LLSSDQEPLIHLLEAQAA  130 (531)
T ss_pred             HHHHHHHhCcHHHHHHHHHHHh--------hhHHHHHhhhhhhhccCchHHHHHHHHHHHh-hhhccchHHHHHHHHHHH
Confidence            3455556666677777777611        1167777777654  5778888877665431 1223333333333322 2


Q ss_pred             hccCCHHHHHHHHHHHHHcCCCCCHH--HHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHH
Q 047221          242 SKALTKKGIWRVVEVLNQVGGSCLVS--GVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGP  315 (509)
Q Consensus       242 ~~~~~~~~a~~~~~~m~~~g~~~~~~--~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A  315 (509)
                      .-.|+.++|.+-|+.|...   |...  -...|.-.--+.|..+.|...-+..    +.-...+.+.+...|..|+|+.|
T Consensus       131 l~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~A  207 (531)
T COG3898         131 LLEGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREAARHYAERAAEKAPQLPWAARATLEARCAAGDWDGA  207 (531)
T ss_pred             HhcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhccCCchHHHHHHHHHHhcCChHHH
Confidence            3456699999999999852   2222  2334444455678888888776654    44567889999999999999999


Q ss_pred             HHHHHHHHHcC-CCCChHH--HHHHHHHHHh---cCChHHHHHHHHHHHhCCCCCCHHH-HHHHHHHHHHcCChHHHHHH
Q 047221          316 RDLLVEMRQVG-CEPITLT--YNYVLGVLCK---NGQDADACELLEEMLGRNCHPDAIT-YEIFIVYSCRVGKFDVAFNF  388 (509)
Q Consensus       316 ~~~~~~m~~~g-~~p~~~t--~~~li~~~~~---~g~~~~a~~~~~~m~~~g~~p~~~~-~~~li~~~~~~g~~~~a~~~  388 (509)
                      +++++.-+... +.+|..-  -..|+.+-+.   ..+...|...-.+..+  ..||..- -..--.++.+.|+..++-.+
T Consensus       208 lkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~i  285 (531)
T COG3898         208 LKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKI  285 (531)
T ss_pred             HHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhH
Confidence            99998766543 4555432  2334433221   2334445554444433  4555432 22334678899999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhCCChHHHHHHHHHHHHCC
Q 047221          389 FNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADK-YKSS-SNMLYSLLASLHDKNNNPVMAKNVLSEMMKNG  466 (509)
Q Consensus       389 ~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  466 (509)
                      ++.+-+..-.|++  +  ++-.+.+.|+  .+..-+++.... ..+| +...--.+..+-...|++..|..--+....  
T Consensus       286 lE~aWK~ePHP~i--a--~lY~~ar~gd--ta~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r--  357 (531)
T COG3898         286 LETAWKAEPHPDI--A--LLYVRARSGD--TALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAR--  357 (531)
T ss_pred             HHHHHhcCCChHH--H--HHHHHhcCCC--cHHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhh--
Confidence            9998877544442  2  2223445554  333333322221 2233 344555667777788888877766665544  


Q ss_pred             CCcCHHHHHHHHHHH-HhcCCHHHHHHHHHHHHhCCCCC
Q 047221          467 LRPNVSVYRRVLKHL-HTSHQEHMAKCLSSRYSSLSLGS  504 (509)
Q Consensus       467 ~~p~~~t~~~ll~~~-~~~g~~~~a~~~~~~m~~~~~~~  504 (509)
                      ..|....|..|.+.- ...|+-.++.+.+-+-.+.--.|
T Consensus       358 ~~pres~~lLlAdIeeAetGDqg~vR~wlAqav~APrdP  396 (531)
T COG3898         358 EAPRESAYLLLADIEEAETGDQGKVRQWLAQAVKAPRDP  396 (531)
T ss_pred             hCchhhHHHHHHHHHhhccCchHHHHHHHHHHhcCCCCC
Confidence            678888887777755 34588888888877766544333

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=87.14  E-value=2.1  Score=26.96  Aligned_cols=27  Identities=22%  Similarity=0.215  Sum_probs=13.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhC
Q 047221          334 YNYVLGVLCKNGQDADACELLEEMLGR  360 (509)
Q Consensus       334 ~~~li~~~~~~g~~~~a~~~~~~m~~~  360 (509)
                      +..+..+|...|++++|.++|++..+.
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            344445555555555555555555544

>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=86.88  E-value=17  Score=30.49  Aligned_cols=105  Identities=16%  Similarity=0.057  Sum_probs=52.5

Q ss_pred             HhcCCHHHHHHHHHHc---CCCH-HHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHH
Q 047221          277 SVLGLYEMAKYVIKKT---ERKV-SYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACE  352 (509)
Q Consensus       277 ~~~g~~~~A~~~~~~m---~~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~  352 (509)
                      .+.++.++++.+++.+   .|.. ..-..-...+.+.|+|.+|..+|+++.+.+  |....-..|+..|.....-..=..
T Consensus        21 l~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~--~~~p~~kALlA~CL~~~~D~~Wr~   98 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERA--PGFPYAKALLALCLYALGDPSWRR   98 (160)
T ss_pred             HccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccC--CCChHHHHHHHHHHHHcCChHHHH
Confidence            3556777777777765   3432 222222344567788888888888877653  333333444444443322222222


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHH
Q 047221          353 LLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAF  386 (509)
Q Consensus       353 ~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~  386 (509)
                      .-+++.+.+-.|+..   .++..+....+...|.
T Consensus        99 ~A~evle~~~d~~a~---~Lv~~Ll~~~~~~~a~  129 (160)
T PF09613_consen   99 YADEVLESGADPDAR---ALVRALLARADLEPAH  129 (160)
T ss_pred             HHHHHHhcCCChHHH---HHHHHHHHhccccchh
Confidence            233455554333332   3344444444444433

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=86.45  E-value=17  Score=30.04  Aligned_cols=19  Identities=26%  Similarity=0.471  Sum_probs=8.9

Q ss_pred             HhcCChHHHHHHHHHHHhC
Q 047221          342 CKNGQDADACELLEEMLGR  360 (509)
Q Consensus       342 ~~~g~~~~a~~~~~~m~~~  360 (509)
                      ...|++++|.++|+++.+.
T Consensus        55 i~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        55 IARGNYDEAARILRELLSS   73 (153)
T ss_pred             HHcCCHHHHHHHHHhhhcc
Confidence            3444444444444444443

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=86.32  E-value=26  Score=31.92  Aligned_cols=49  Identities=10%  Similarity=0.005  Sum_probs=30.3

Q ss_pred             HhcCCHHHHHHHHHHcC---C----CHHHHHHHHHHHHhcCCccHHHHHHHHHHHc
Q 047221          277 SVLGLYEMAKYVIKKTE---R----KVSYYNILIKEMCRRCDFKGPRDLLVEMRQV  325 (509)
Q Consensus       277 ~~~g~~~~A~~~~~~m~---~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  325 (509)
                      .+.|++++|.+.|+.+.   |    ...+--.++-++-+.+++++|+..+++....
T Consensus        45 L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~l  100 (254)
T COG4105          45 LQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRL  100 (254)
T ss_pred             HhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            34577777777776662   1    1334445556666777777777777776654

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=85.04  E-value=14  Score=37.80  Aligned_cols=148  Identities=12%  Similarity=-0.017  Sum_probs=83.8

Q ss_pred             cCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 047221          279 LGLYEMAKYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEML  358 (509)
Q Consensus       279 ~g~~~~A~~~~~~m~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~  358 (509)
                      .|+++.|..++..++.  ..-+.++.-+-+.|..++|+++         .+|...-   .....+.|+++.|.++..+..
T Consensus       599 rrd~~~a~~vLp~I~k--~~rt~va~Fle~~g~~e~AL~~---------s~D~d~r---Felal~lgrl~iA~~la~e~~  664 (794)
T KOG0276|consen  599 RRDLEVADGVLPTIPK--EIRTKVAHFLESQGMKEQALEL---------STDPDQR---FELALKLGRLDIAFDLAVEAN  664 (794)
T ss_pred             hccccccccccccCch--hhhhhHHhHhhhccchHhhhhc---------CCChhhh---hhhhhhcCcHHHHHHHHHhhc
Confidence            4555555555555542  2234455555555555555443         2332221   122346677777776655432


Q ss_pred             hCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHH
Q 047221          359 GRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNML  438 (509)
Q Consensus       359 ~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~  438 (509)
                            +..-|..|-++..+.+++..|.+.|.....         |..|+-.|...|+-+....+-....+.|. -|   
T Consensus       665 ------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~~~~g~-~N---  725 (794)
T KOG0276|consen  665 ------SEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLAKKQGK-NN---  725 (794)
T ss_pred             ------chHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHHHhhcc-cc---
Confidence                  456677777777777887777777765432         45566666667776655555555544442 12   


Q ss_pred             HHHHHHHHHhCCChHHHHHHHHH
Q 047221          439 YSLLASLHDKNNNPVMAKNVLSE  461 (509)
Q Consensus       439 ~~~li~~~~~~g~~~~a~~~~~~  461 (509)
                        .-..+|...|+++++++++.+
T Consensus       726 --~AF~~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  726 --LAFLAYFLSGDYEECLELLIS  746 (794)
T ss_pred             --hHHHHHHHcCCHHHHHHHHHh
Confidence              223345567888888777754

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=84.75  E-value=0.25  Score=41.01  Aligned_cols=120  Identities=13%  Similarity=0.128  Sum_probs=70.7

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCC
Q 047221          372 FIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNN  451 (509)
Q Consensus       372 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~  451 (509)
                      +|..+.+.+.......+++.+...+..-+....+.++..|++.+..++..++++..  .+     .-...++..|.+.|.
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~--~~-----yd~~~~~~~c~~~~l   85 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTS--NN-----YDLDKALRLCEKHGL   85 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSS--SS-----S-CTHHHHHHHTTTS
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccc--cc-----cCHHHHHHHHHhcch
Confidence            56666677778888888888887665566777888888888887777777777521  11     222346677777788


Q ss_pred             hHHHHHHHHHHHHCC--CC--cCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 047221          452 PVMAKNVLSEMMKNG--LR--PNVSVYRRVLKHLHTSHQEHMAKCLSSRYS  498 (509)
Q Consensus       452 ~~~a~~~~~~m~~~g--~~--p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~  498 (509)
                      +++|.-++.++....  +.  -+..-+...+..+.+.++.+....+.+...
T Consensus        86 ~~~a~~Ly~~~~~~~~al~i~~~~~~~~~a~e~~~~~~~~~l~~~l~~~~l  136 (143)
T PF00637_consen   86 YEEAVYLYSKLGNHDEALEILHKLKDYEEAIEYAKKVDDPELWEQLLKYCL  136 (143)
T ss_dssp             HHHHHHHHHCCTTHTTCSSTSSSTHCSCCCTTTGGGCSSSHHHHHHHHHHC
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHccHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            878777777654321  11  122233333444445555444444444433

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.

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=84.67  E-value=2.5  Score=24.62  Aligned_cols=27  Identities=11%  Similarity=-0.031  Sum_probs=13.6

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHH
Q 047221          438 LYSLLASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       438 ~~~~li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      +|..+...|...|++++|++.|++.++
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            344455555555555555555555544

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 ....

>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=84.31  E-value=11  Score=32.91  Aligned_cols=78  Identities=12%  Similarity=0.051  Sum_probs=50.8

Q ss_pred             HHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHC---CCCcCHHHHHHHHHHHHhcCCHH
Q 047221          412 FIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKN---GLRPNVSVYRRVLKHLHTSHQEH  488 (509)
Q Consensus       412 ~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---g~~p~~~t~~~ll~~~~~~g~~~  488 (509)
                      .+.|+ +.|.+.|-.+...+..-+...-..|..-|. ..+.++++.++.+..+.   +-.+|...+.+|...+.+.|+++
T Consensus       118 sr~~d-~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e  195 (203)
T PF11207_consen  118 SRFGD-QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYE  195 (203)
T ss_pred             hccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchh
Confidence            34344 667777777766665555555554444444 56677777777777653   33667778888888888888877


Q ss_pred             HHH
Q 047221          489 MAK  491 (509)
Q Consensus       489 ~a~  491 (509)
                      .|.
T Consensus       196 ~AY  198 (203)
T PF11207_consen  196 QAY  198 (203)
T ss_pred             hhh
Confidence            764

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=83.78  E-value=42  Score=32.22  Aligned_cols=222  Identities=10%  Similarity=-0.017  Sum_probs=123.1

Q ss_pred             hccCCHHHHHHHHHHhhhCC--CccCHHHHHHHHHHHHhccCCHHHHHHHH----HHHHHcC-CCCCHHHHHHHHHHHHh
Q 047221          206 GRLDDYETMRQLLNDFNVYQ--VCLNEKAFGFLPVLISSKALTKKGIWRVV----EVLNQVG-GSCLVSGVRALIEMFSV  278 (509)
Q Consensus       206 ~~~g~~~~A~~l~~~m~~~~--~~p~~~~~~~ll~~~~~~~~~~~~a~~~~----~~m~~~g-~~~~~~~~~~li~~~~~  278 (509)
                      ....+.+.|+..+.+-..+-  ..-.-.++..+..+... .+..++++..-    +...+.. -.--...|-.+..++-+
T Consensus        17 y~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~-~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~   95 (518)
T KOG1941|consen   17 YQSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSE-MGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEK   95 (518)
T ss_pred             hcCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45677888888888765441  11122344444443332 22244433321    1111100 00001223344444444


Q ss_pred             cCCHHHHHHHHHHc---C---C--C-HHHHHHHHHHHHhcCCccHHHHHHHHHHHcC-----CCCChHHHHHHHHHHHhc
Q 047221          279 LGLYEMAKYVIKKT---E---R--K-VSYYNILIKEMCRRCDFKGPRDLLVEMRQVG-----CEPITLTYNYVLGVLCKN  344 (509)
Q Consensus       279 ~g~~~~A~~~~~~m---~---~--~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-----~~p~~~t~~~li~~~~~~  344 (509)
                      .-++..++.+-+.-   +   +  + ...--+|-.++.-.+.++++++.|+...+--     -......|..|-+.|++.
T Consensus        96 l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l  175 (518)
T KOG1941|consen   96 LCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQL  175 (518)
T ss_pred             HHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHH
Confidence            44444444443321   1   1  1 1223346667777788999999998765421     122356789999999999


Q ss_pred             CChHHHHHHHHHHHh----CCCCCCHHHHHHH-----HHHHHHcCChHHHHHHHHHHHH----CCCCC-CHHHHHHHHHH
Q 047221          345 GQDADACELLEEMLG----RNCHPDAITYEIF-----IVYSCRVGKFDVAFNFFNQMVK----RGLQP-RLATHAAFIKG  410 (509)
Q Consensus       345 g~~~~a~~~~~~m~~----~g~~p~~~~~~~l-----i~~~~~~g~~~~a~~~~~~m~~----~g~~p-~~~~~~~li~~  410 (509)
                      .++++|.-......+    -|+..=..-|..+     --++...|+..+|.+.-++..+    .|-.+ -......+.+.
T Consensus       176 ~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDI  255 (518)
T KOG1941|consen  176 KDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADI  255 (518)
T ss_pred             HhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHH
Confidence            999998877665433    2322112234443     3466778998888888877643    35222 12334567788


Q ss_pred             HHHcCCHHHHHHHHHHHH
Q 047221          411 YFIFYRYEDAYKYVVLSA  428 (509)
Q Consensus       411 ~~~~g~~~~A~~~~~~m~  428 (509)
                      |...|+.|.|+.-|+...
T Consensus       256 yR~~gd~e~af~rYe~Am  273 (518)
T KOG1941|consen  256 YRSRGDLERAFRRYEQAM  273 (518)
T ss_pred             HHhcccHhHHHHHHHHHH
Confidence            899999999988887643

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=83.70  E-value=9.4  Score=28.88  Aligned_cols=44  Identities=18%  Similarity=0.277  Sum_probs=21.5

Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 047221          350 ACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMV  393 (509)
Q Consensus       350 a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  393 (509)
                      +.+-++.+......|+.....+.+++|.+.+++..|.++|+-++
T Consensus        26 ~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          26 LRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            33344444444445555555555555555555555555554443

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.

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=83.31  E-value=28  Score=29.73  Aligned_cols=123  Identities=12%  Similarity=0.051  Sum_probs=54.3

Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCCHHH-HHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHH--HHHHcCCH
Q 047221          342 CKNGQDADACELLEEMLGRNCHPDAIT-YEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLA-THAAFIK--GYFIFYRY  417 (509)
Q Consensus       342 ~~~g~~~~a~~~~~~m~~~g~~p~~~~-~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-~~~~li~--~~~~~g~~  417 (509)
                      ++.+..++|+.-|.++.+.|...-... --.+-....+.|+...|...|+++-...-.|-.. -..-|=.  .+...|.+
T Consensus        69 A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gsy  148 (221)
T COG4649          69 AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGSY  148 (221)
T ss_pred             HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhccccH
Confidence            344555555555555555543321111 1111223344555666666666555443333222 1111111  12344555


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 047221          418 EDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       418 ~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      ++...-.+-+...+-..-...-..|.-+-.+.|++.+|.+.|..+.+
T Consensus       149 ~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         149 DDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             HHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            55555554444333333333344444445556666666666665554

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=83.25  E-value=3.1  Score=25.41  Aligned_cols=28  Identities=18%  Similarity=0.086  Sum_probs=17.4

Q ss_pred             HHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 047221          437 MLYSLLASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       437 ~~~~~li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      .+++.|...|...|++++|++++++...
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            4566666666666777777666666543

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=82.58  E-value=9.7  Score=28.80  Aligned_cols=61  Identities=16%  Similarity=0.105  Sum_probs=47.4

Q ss_pred             cHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 047221          313 KGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIV  374 (509)
Q Consensus       313 ~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  374 (509)
                      -++.+-++.+....+.|+.....+.+.+|-+.+++..|.++|+-.+.. +..+...|..++.
T Consensus        24 we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K-~~~~~~~y~~~lq   84 (103)
T cd00923          24 WELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDK-CGAHKEIYPYILQ   84 (103)
T ss_pred             HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccCchhhHHHHHH
Confidence            356677777777888999999999999999999999999999977644 2224456666654

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.

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=82.53  E-value=2.8  Score=25.67  Aligned_cols=28  Identities=14%  Similarity=0.116  Sum_probs=23.6

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHHHHhhh
Q 047221          196 DICSLVIDNCGRLDDYETMRQLLNDFNV  223 (509)
Q Consensus       196 ~~~~~li~~~~~~g~~~~A~~l~~~m~~  223 (509)
                      .+++.|...|...|++++|..++++...
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            4889999999999999999999998754

>PRK11906 transcriptional regulator; Provisional

Probab=82.32  E-value=57  Score=32.62  Aligned_cols=127  Identities=6%  Similarity=0.032  Sum_probs=61.9

Q ss_pred             hHH--HHHHHHHhccC-----CHHHHHHHHHHhhh-CCCccCH-HHHHHHHHHHHh--------ccCCHHHHHHHHHHHH
Q 047221          196 DIC--SLVIDNCGRLD-----DYETMRQLLNDFNV-YQVCLNE-KAFGFLPVLISS--------KALTKKGIWRVVEVLN  258 (509)
Q Consensus       196 ~~~--~~li~~~~~~g-----~~~~A~~l~~~m~~-~~~~p~~-~~~~~ll~~~~~--------~~~~~~~a~~~~~~m~  258 (509)
                      ..|  ...+.+.....     ..+.|..+|.+... ..+.|+- ..|..+-.+++.        ......+|.++-+...
T Consensus       252 ~a~~~d~ylrg~~~~~~~t~~~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAv  331 (458)
T PRK11906        252 NHYLSDEMLAGKKELYDFTPESIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVS  331 (458)
T ss_pred             cchhhHHHHHHHHHhhccCHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH
Confidence            366  66666655522     35677888888762 2334442 233322221111        1122334444444444


Q ss_pred             HcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc---CCC-HHHHHHHHHHHHhcCCccHHHHHHHHHH
Q 047221          259 QVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT---ERK-VSYYNILIKEMCRRCDFKGPRDLLVEMR  323 (509)
Q Consensus       259 ~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~  323 (509)
                      +.+ +.|..+...+..+..-.|+++.|..+|++.   .|| ..+|....-...-.|+.++|.+.+++..
T Consensus       332 eld-~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~al  399 (458)
T PRK11906        332 DIT-TVDGKILAIMGLITGLSGQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSL  399 (458)
T ss_pred             hcC-CCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            443 344555555555555555566666666653   232 3333333333444556666666665533

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=81.99  E-value=25  Score=35.99  Aligned_cols=132  Identities=13%  Similarity=0.086  Sum_probs=95.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCC
Q 047221          267 SGVRALIEMFSVLGLYEMAKYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQ  346 (509)
Q Consensus       267 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~  346 (509)
                      ..-+.++..+-+.|..+.|..+-    +|..   .-.....+.|+++.|.++..+..      +..-|..|-++..+.|+
T Consensus       615 ~~rt~va~Fle~~g~~e~AL~~s----~D~d---~rFelal~lgrl~iA~~la~e~~------s~~Kw~~Lg~~al~~~~  681 (794)
T KOG0276|consen  615 EIRTKVAHFLESQGMKEQALELS----TDPD---QRFELALKLGRLDIAFDLAVEAN------SEVKWRQLGDAALSAGE  681 (794)
T ss_pred             hhhhhHHhHhhhccchHhhhhcC----CChh---hhhhhhhhcCcHHHHHHHHHhhc------chHHHHHHHHHHhhccc
Confidence            34567788888888888887653    2221   11233456788888888876654      45779999999999999


Q ss_pred             hHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 047221          347 DADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVL  426 (509)
Q Consensus       347 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  426 (509)
                      +..|.+.|.....         |..|+-.+...|+.+....+-....+.|.      .|...-+|...|+++++.+++..
T Consensus       682 l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~~~~g~------~N~AF~~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  682 LPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLAKKQGK------NNLAFLAYFLSGDYEECLELLIS  746 (794)
T ss_pred             chhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHHHhhcc------cchHHHHHHHcCCHHHHHHHHHh
Confidence            9999999887654         45677788888887766666666666652      34455677888999999998854

>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=81.44  E-value=18  Score=31.64  Aligned_cols=72  Identities=11%  Similarity=0.032  Sum_probs=35.2

Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHC---CCCCCHHHHHHHHHHHHHcCCHHHH
Q 047221          348 ADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKR---GLQPRLATHAAFIKGYFIFYRYEDA  420 (509)
Q Consensus       348 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---g~~p~~~~~~~li~~~~~~g~~~~A  420 (509)
                      +.|.+.|-.+...+.--+.....+|..-|. ..+.+++..++....+.   +-.+|...+.+|+..|.+.|+.+.|
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            345555555555544434444444333333 34455555555544432   2244555555555555555555554

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=80.94  E-value=4.3  Score=23.45  Aligned_cols=26  Identities=12%  Similarity=0.043  Sum_probs=11.9

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHH
Q 047221          439 YSLLASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       439 ~~~li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      |..+...+...|++++|++.|++..+
T Consensus         4 ~~~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    4 WYYLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            33444444455555555555554443

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 ....

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=80.93  E-value=59  Score=31.89  Aligned_cols=161  Identities=7%  Similarity=-0.040  Sum_probs=100.0

Q ss_pred             cCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH--HHHhcCCHHHHHHHHHHc---CCC-------
Q 047221          228 LNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIE--MFSVLGLYEMAKYVIKKT---ERK-------  295 (509)
Q Consensus       228 p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~--~~~~~g~~~~A~~~~~~m---~~~-------  295 (509)
                      |.-.+|..+-.-|+...++.++|.++--...+.. ..+.  +...++  ++--.++.+.|..-|++-   .|+       
T Consensus       166 pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld-~~n~--~al~vrg~~~yy~~~~~ka~~hf~qal~ldpdh~~sk~~  242 (486)
T KOG0550|consen  166 PACFKAKLLKAECLAFLGDYDEAQSEAIDILKLD-ATNA--EALYVRGLCLYYNDNADKAINHFQQALRLDPDHQKSKSA  242 (486)
T ss_pred             chhhHHHHhhhhhhhhcccchhHHHHHHHHHhcc-cchh--HHHHhcccccccccchHHHHHHHhhhhccChhhhhHHhH
Confidence            4455666666666666666777777666655533 1111  222222  233346777777777763   333       


Q ss_pred             ------HHHHHHHHHHHHhcCCccHHHHHHHHHHHc---CCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH
Q 047221          296 ------VSYYNILIKEMCRRCDFKGPRDLLVEMRQV---GCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDA  366 (509)
Q Consensus       296 ------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~---g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  366 (509)
                            ...|..=.+-..+.|++.+|.+.|.+....   .++++...|-....+..+.|+.++|+.--++..+-    |.
T Consensus       243 ~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~i----D~  318 (486)
T KOG0550|consen  243 SMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKI----DS  318 (486)
T ss_pred             hhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhc----CH
Confidence                  223444445567788899999999888754   35566777777777788889999988877766654    43


Q ss_pred             H-HHHHHH--HHHHHcCChHHHHHHHHHHHHC
Q 047221          367 I-TYEIFI--VYSCRVGKFDVAFNFFNQMVKR  395 (509)
Q Consensus       367 ~-~~~~li--~~~~~~g~~~~a~~~~~~m~~~  395 (509)
                      . ....+.  .++.-.++|++|.+-|++..+.
T Consensus       319 syikall~ra~c~l~le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  319 SYIKALLRRANCHLALEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            3 222222  3444557888888888877655

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=80.32  E-value=24  Score=27.05  Aligned_cols=46  Identities=17%  Similarity=0.278  Sum_probs=25.2

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Q 047221          349 DACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVK  394 (509)
Q Consensus       349 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  394 (509)
                      +..+-+..+....+.|+.....+.+.+|.+.+++..|.++|+-++.
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~   73 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKD   73 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            3444555555556666666666666666666666666666665543

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 ....

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=80.05  E-value=2.7  Score=24.85  Aligned_cols=22  Identities=23%  Similarity=0.231  Sum_probs=10.9

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHH
Q 047221          265 LVSGVRALIEMFSVLGLYEMAK  286 (509)
Q Consensus       265 ~~~~~~~li~~~~~~g~~~~A~  286 (509)
                      +..+|+.|...|...|++++|+
T Consensus        12 n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   12 NAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CHHHHHHHHHHHHHCcCHHhhc
Confidence            3444555555555555555443

---

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	509
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-11
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-04
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-09
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-09

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 66.4 bits (161), Expect = 1e-11
 Identities = 79/543 (14%), Positives = 162/543 (29%), Gaps = 142/543 (26%)

Query: 56  DQFQSKPTS----------NPSYSFI-SSIGSS----SFCHLTHPSCHSSQNLY-----F 95
               SK               +Y F+ S I +     S     +        LY     F
Sbjct: 69  WTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRD--RLYNDNQVF 126

Query: 96  SNCNGSCRSQISKL--GLLTSRCISSFAMVNGPYATPKQVSEIIELLRSGDSETESKL-- 151
           +  N S      KL   LL  R  +   +++G   + K     +++      + + K+  
Sbjct: 127 AKYNVSRLQPYLKLRQALLELR-PAKNVLIDGVLGSGKTWV-ALDVCL--SYKVQCKMDF 182

Query: 152 ----LSMSVSLSNASVIEILRVLNSEKVSALCFL---------------KYMREIMPE-F 191
               L++    S  +V+E+L+ L  +                         +R ++    
Sbjct: 183 KIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKP 242

Query: 192 YKNSDICSLVIDNCGRLDDYETMRQLLNDFNV----------------------YQVCLN 229
           Y+N     L++     L + +   +  N FN+                        + L+
Sbjct: 243 YENC----LLV-----LLNVQN-AKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLD 292

Query: 230 EKAFGFLPVLISSKALTKKGIWRVVEVL-NQV-GGSCL-VSGVRALI-EMFSVLGLYEMA 285
             +    P     K+L  K +    + L  +V   +   +S +   I +  +    ++  
Sbjct: 293 HHSMTLTPD--EVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHV 350

Query: 286 KYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNG 345
                 T  + S   +   E  R+  F     L V         I      +L ++  + 
Sbjct: 351 NCDKLTTIIESSLNVLEPAEY-RKM-FD---RLSVFPPSA---HIPTI---LLSLIWFDV 399

Query: 346 QDADACELLEEMLGR---NCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLA 402
             +D   ++ ++         P   T  I  +Y       ++         K  L+   A
Sbjct: 400 IKSDVMVVVNKLHKYSLVEKQPKESTISIPSIY------LEL---------KVKLENEYA 444

Query: 403 THAAFIKGYFIFYRY---------EDAYKYVVL-----SADKYKSSS--NMLYSLLASLH 446
            H + +  Y I   +          D Y Y  +     + +  +  +   M++     L 
Sbjct: 445 LHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLE 504

Query: 447 DK-------NNNPVMAKNVLSEMM--KNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRY 497
            K        N      N L ++   K  +  N   Y R++  +     +     + S+Y
Sbjct: 505 QKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKY 564

Query: 498 SSL 500
           + L
Sbjct: 565 TDL 567

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 42.1 bits (98), Expect = 5e-04
 Identities = 29/175 (16%), Positives = 51/175 (29%), Gaps = 43/175 (24%)

Query: 317 DLLVEMRQVGCEPITLTY--NYVLGVLCKNGQDAD----ACELLEEMLGRNCHPDAITYE 370
           D      Q   + I   +   +V    CK+ QD      + E ++ ++       + T  
Sbjct: 8   DFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSK-DAVSGTLR 66

Query: 371 IFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGY-FIFYRYEDAYKYVVLSAD 429
           +F        +         + V+  L+            Y F+    +   +   +   
Sbjct: 67  LFWTL-LSKQE-----EMVQKFVEEVLRI----------NYKFLMSPIKTEQRQPSMMTR 110

Query: 430 KYKSSSNMLYSLLASLHDKNNNPVMAK-NVLSEMMKNGLR---------PNVSVY 474
            Y    + LY         N+N V AK NV        LR          NV + 
Sbjct: 111 MYIEQRDRLY---------NDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLID 156

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 59.8 bits (143), Expect = 1e-09
 Identities = 23/192 (11%), Positives = 49/192 (25%), Gaps = 4/192 (2%)

Query: 302 LIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLE---EML 358
           L++E   +      +    +  Q                     Q   A  LL       
Sbjct: 98  LLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQR 157

Query: 359 GRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYE 418
            +        Y   ++   R G F         +   GL P L ++AA ++      +  
Sbjct: 158 QKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDA 217

Query: 419 DAYKYVVLSADKYK-SSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRV 477
              +  +    +       +  ++L S  D+         V          P      ++
Sbjct: 218 GTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKL 277

Query: 478 LKHLHTSHQEHM 489
           L+ ++       
Sbjct: 278 LRDVYAKDGRVS 289

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 58.7 bits (140), Expect = 3e-09
 Identities = 37/248 (14%), Positives = 72/248 (29%), Gaps = 14/248 (5%)

Query: 269 VRALIEMFSVLGLYEMAKYVIKKTERK--------VSYYNILIKEMCRRCDFKGPRDLLV 320
           + A  +   +     +A +++     +        +  YN ++    R+  FK    +L 
Sbjct: 130 LLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLF 189

Query: 321 EMRQVGCEPITLTYNYVLGVLCKNGQDADACE-LLEEMLGRNCHPDAITYEIFIVYSCRV 379
            ++  G  P  L+Y   L  + +  QDA   E  LE+M        A+   + +    R 
Sbjct: 190 MVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA 249

Query: 380 GKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLY 439
                              P     +  ++  +         K  +            L+
Sbjct: 250 TVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFEKQLH 309

Query: 440 SLLASLH-----DKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLS 494
             LAS       +K   P        + +K           R L+      +  + +   
Sbjct: 310 MELASRVCVVSVEKPTLPSKEVKHARKTLKTLRDQWEKALCRALRETKNRLEREVYEGRF 369

Query: 495 SRYSSLSL 502
           S Y  L L
Sbjct: 370 SLYPFLCL 377

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	509
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.98
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.97
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.92
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.91
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.89
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.87
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.84
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.83
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.83
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.81
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.8
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.78
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.78
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.78
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.77
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.75
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.73
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.73
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.71
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.7
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.7
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.7
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.7
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.7
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.67
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.63
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.63
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.63
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.59
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.58
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.57
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.57
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.57
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.56
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.55
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.54
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.54
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.54
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.54
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.54
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.52
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.5
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.49
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.49
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.48
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.48
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.48
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.47
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.45
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.44
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.4
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.4
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.4
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.39
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.39
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.39
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.38
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.37
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.37
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.35
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.33
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.32
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.32
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.32
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.32
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.28
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.27
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.26
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.25
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.24
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.23
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.21
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.19
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.18
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.16
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.11
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.11
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.1
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.09
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.08
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.02
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.01
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.99
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.98
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.97
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.91
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.88
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	98.86
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.83
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.83
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.8
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.8
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.79
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	98.77
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.77
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.71
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.7
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.69
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.68
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.66
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.65
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.65
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.64
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.63
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.63
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.63
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.61
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.61
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.6
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.58
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.57
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.57
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.51
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.51
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.51
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.49
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.48
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.45
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.44
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.43
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.42
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.41
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.4
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.4
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.39
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.38
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.37
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.36
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.31
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.3
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.3
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.29
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.28
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.28
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.27
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.25
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.24
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.23
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.23
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.22
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.2
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.19
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.18
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.15
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.12
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.1
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.07
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.07
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.06
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.06
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.06
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.05
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.04
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.03
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.01
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.01
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.01
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.01
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.0
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.0
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.0
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.0
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	97.97
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.96
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.95
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	97.95
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	97.93
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.91
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	97.91
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	97.91
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	97.87
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	97.83
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	97.77
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.75
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.73
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.72
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.71
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	97.71
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.7
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.68
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.64
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.62
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.6
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.58
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.56
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.56
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.55
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.49
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.46
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.39
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.37
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.34
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.33
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.3
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.19
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.04
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.01
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.01
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.01
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.01
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.01
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.89
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	96.88
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	96.88
2kat_A	115	Uncharacterized protein; NESG, structure, structur	96.8
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	96.72
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.65
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	96.6
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	96.53
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.51
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.49
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.41
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.33
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.31
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.12
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	95.78
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	95.5
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	95.45
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.33
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.18
1pc2_A	152	Mitochondria fission protein; unknown function; NM	94.87
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	94.56
1pc2_A	152	Mitochondria fission protein; unknown function; NM	94.56
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	94.05
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	93.79
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	93.65
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	93.42
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	92.48
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	91.88
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	91.33
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	90.83
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	90.78
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	90.61
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	90.1
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	88.7
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	88.29
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	88.28
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	88.25
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	85.82
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	85.37
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	83.13
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	82.79
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	82.62
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	82.48
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	81.5
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	81.37

>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=1.3e-33  Score=285.54  Aligned_cols=189  Identities=15%  Similarity=0.155  Sum_probs=179.3

Q ss_pred             HHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCC---------hHHHHHHHHHHHhCCCCCCH
Q 047221          296 VSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQ---------DADACELLEEMLGRNCHPDA  366 (509)
Q Consensus       296 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~---------~~~a~~~~~~m~~~g~~p~~  366 (509)
                      ...++.+|++|++.|++++|+++|++|.+.|+.||..|||+||.+|++.+.         +++|.++|++|.+.|+.||.
T Consensus        26 e~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~  105 (501)
T 4g26_A           26 EALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNE  105 (501)
T ss_dssp             HHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCH
Confidence            346788899999999999999999999999999999999999999987665         68899999999999999999


Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 047221          367 ITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLH  446 (509)
Q Consensus       367 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~  446 (509)
                      .||++||.+|++.|++++|.++|++|.+.|+.||..|||+||.+|++.|++++|.++|++|.+.|+.||..||++||.+|
T Consensus       106 ~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~  185 (501)
T 4g26_A          106 ATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVS  185 (501)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhc
Q 047221          447 DKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTS  484 (509)
Q Consensus       447 ~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~  484 (509)
                      ++.|++++|.+++++|.+.|..|+..||+.++..|...
T Consensus       186 ~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          186 MDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             hhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            99999999999999999999999999999999998764

>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=2.8e-32  Score=275.85  Aligned_cols=215  Identities=14%  Similarity=0.096  Sum_probs=165.7

Q ss_pred             HHHHHHHHhhhCCCccCH-HHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 047221          213 TMRQLLNDFNVYQVCLNE-KAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKK  291 (509)
Q Consensus       213 ~A~~l~~~m~~~~~~p~~-~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  291 (509)
                      .+..+.+++.+++..+.. ..++.+|.+| ++.|++++|.++|++|.+.|+.||..+||+||.+|++.+..+++      
T Consensus         8 ~~e~L~~~~~~k~~~~spe~~l~~~id~c-~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~------   80 (501)
T 4g26_A            8 PSENLSRKAKKKAIQQSPEALLKQKLDMC-SKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATES------   80 (501)
T ss_dssp             ----------------CHHHHHHHHHHHT-TTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSS------
T ss_pred             hHHHHHHHHHHhcccCCCHHHHHHHHHHH-HhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhh------
Confidence            344455555555554332 2455556633 33444666666666666666666666666666666655543321      


Q ss_pred             cCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHH
Q 047221          292 TERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEI  371 (509)
Q Consensus       292 m~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~  371 (509)
                                     .+.+.+++|.++|++|.+.|+.||..||++||.+|++.|++++|.++|++|.+.|+.||..||++
T Consensus        81 ---------------~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~  145 (501)
T 4g26_A           81 ---------------SPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGP  145 (501)
T ss_dssp             ---------------SCCHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             ---------------hhcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehH
Confidence                           12234678999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhC
Q 047221          372 FIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKN  449 (509)
Q Consensus       372 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~  449 (509)
                      ||.+|++.|++++|.++|++|.+.|+.||..||++||.+|++.|++++|.++|++|.+.|..|+..||+.|+..|+..
T Consensus       146 lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          146 ALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            999999999999999999999999999999999999999999999999999999999999999999999999999863

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.98  E-value=1.1e-29  Score=265.50  Aligned_cols=335  Identities=10%  Similarity=-0.037  Sum_probs=173.5

Q ss_pred             CCCCHHHHHHHHHHHhcCCc--hHHHHHHHhhccCCCC----------------ccChhHHHHHHHHHhccCCHHHHHHH
Q 047221          156 VSLSNASVIEILRVLNSEKV--SALCFLKYMREIMPEF----------------YKNSDICSLVIDNCGRLDDYETMRQL  217 (509)
Q Consensus       156 ~~~~~~~~~~ll~~~~~~~~--~A~~~~~~~~~~~p~~----------------~~~~~~~~~li~~~~~~g~~~~A~~l  217 (509)
                      ..++..+++.++..+.+.|+  +|+++|+.+   .|..                ..++.+|+.++.+|.+.|++++|.++
T Consensus       146 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  222 (597)
T 2xpi_A          146 YNRSSACRYLAAFCLVKLYDWQGALNLLGET---NPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKEC  222 (597)
T ss_dssp             GGTCHHHHHHHHHHHHHTTCHHHHHHHHCSS---CTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cccchhHHHHHHHHHHHHhhHHHHHHHHhcc---CCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHH
Confidence            46677777777777777775  677777743   2322                22466788888888888888888888


Q ss_pred             HHHhhhCCCccCHHHHHHH--------------------------------------HHHHHhccCCHHHHHHHHHHHHH
Q 047221          218 LNDFNVYQVCLNEKAFGFL--------------------------------------PVLISSKALTKKGIWRVVEVLNQ  259 (509)
Q Consensus       218 ~~~m~~~~~~p~~~~~~~l--------------------------------------l~~~~~~~~~~~~a~~~~~~m~~  259 (509)
                      |++|.+.+.. +...+..+                                      +. .+.+.|++++|.++|+.+.+
T Consensus       223 ~~~~~~~~p~-~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~-~~~~~g~~~~A~~~~~~~~~  300 (597)
T 2xpi_A          223 YKEALMVDAK-CYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLN-KTSHEDELRRAEDYLSSING  300 (597)
T ss_dssp             HHHHHHHCTT-CHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSC-TTTTHHHHHHHHHHHHTSTT
T ss_pred             HHHHHHhCch-hhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHH-HHcCcchHHHHHHHHHHhhc
Confidence            8887665321 11111111                                      11 01122234445555544443


Q ss_pred             cCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCC----------------------------------HHHHHH
Q 047221          260 VGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERK----------------------------------VSYYNI  301 (509)
Q Consensus       260 ~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~----------------------------------~~~~~~  301 (509)
                      .  +++..+++.++.+|.+.|++++|.++|+++    +.+                                  ..+|+.
T Consensus       301 ~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  378 (597)
T 2xpi_A          301 L--EKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPYNLDVYPLHLASLHESGEKNKLYLISNDLVDRHPEKAVTWLA  378 (597)
T ss_dssp             G--GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSHHHHHH
T ss_pred             C--CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhCcccHHHHHH
Confidence            3  355556666666666666666666666554    223                                  444444


Q ss_pred             HHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCC
Q 047221          302 LIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGK  381 (509)
Q Consensus       302 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  381 (509)
                      ++..|.+.|++++|.++|+++.+.. +.+..+|+.++.+|.+.|++++|.++|+++.+.+ +.+..+|+.++.+|.+.|+
T Consensus       379 l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~  456 (597)
T 2xpi_A          379 VGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGN  456 (597)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCC
Confidence            4455555555555555555444432 2234445555555555555555555555544432 2244445555555555555


Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC----CCCCC--HHHHHHHHHHHHhCCChHHH
Q 047221          382 FDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADK----YKSSS--NMLYSLLASLHDKNNNPVMA  455 (509)
Q Consensus       382 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~p~--~~~~~~li~~~~~~g~~~~a  455 (509)
                      +++|.++|+++.+.. +.+..+|+.++.+|.+.|++++|.++|+++.+.    +..|+  ..+|..++.+|.+.|++++|
T Consensus       457 ~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A  535 (597)
T 2xpi_A          457 ILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAA  535 (597)
T ss_dssp             HHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHH
Confidence            555555555554432 224445555555555555555555555555443    33444  44555555555555555555


Q ss_pred             HHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 047221          456 KNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLS  501 (509)
Q Consensus       456 ~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~  501 (509)
                      +++|+++.+.+ +.+..+|..+..+|.+.|++++|.++++++.+..
T Consensus       536 ~~~~~~~~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~  580 (597)
T 2xpi_A          536 IDALNQGLLLS-TNDANVHTAIALVYLHKKIPGLAITHLHESLAIS  580 (597)
T ss_dssp             HHHHHHHHHHS-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC
Confidence            55555554432 2244455555555555555555555555555443

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.97  E-value=6.1e-28  Score=252.25  Aligned_cols=315  Identities=12%  Similarity=0.019  Sum_probs=263.3

Q ss_pred             CHHHHHHHHHHHhcCCc--hHHHHHHHhhccCCCC---------------------------------------------
Q 047221          159 SNASVIEILRVLNSEKV--SALCFLKYMREIMPEF---------------------------------------------  191 (509)
Q Consensus       159 ~~~~~~~ll~~~~~~~~--~A~~~~~~~~~~~p~~---------------------------------------------  191 (509)
                      +..+++.+...+.+.|+  +|+++|+.|....|+.                                             
T Consensus       199 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~  278 (597)
T 2xpi_A          199 EASMCYLRGQVYTNLSNFDRAKECYKEALMVDAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLK  278 (597)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTT
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCchhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHH
Confidence            47889999999999886  7999999884445531                                             


Q ss_pred             -----------------------ccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHH
Q 047221          192 -----------------------YKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKK  248 (509)
Q Consensus       192 -----------------------~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  248 (509)
                                             ..+..+|+.++.+|.+.|++++|.++|++|.+.+. .+..++..++.++. ..|+.+
T Consensus       279 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~-~~g~~~  356 (597)
T 2xpi_A          279 LNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDP-YNLDVYPLHLASLH-ESGEKN  356 (597)
T ss_dssp             SCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCCTTHHHHHHHHH-HHTCHH
T ss_pred             HHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCc-ccHHHHHHHHHHHH-HhCCHH
Confidence                                   14566777788888888888888888888776542 25566777777444 444588


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHH
Q 047221          249 GIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQ  324 (509)
Q Consensus       249 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  324 (509)
                      +|..+++.+.+.. +.+..+++.++.+|.+.|++++|.++|+++    +.+..+|+.++.+|.+.|++++|+++|++|.+
T Consensus       357 ~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  435 (597)
T 2xpi_A          357 KLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAAR  435 (597)
T ss_dssp             HHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            8888888887543 567889999999999999999999999986    46789999999999999999999999999998


Q ss_pred             cCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHC----CCCCC
Q 047221          325 VGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKR----GLQPR  400 (509)
Q Consensus       325 ~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~  400 (509)
                      .+ +.+..+|+.++.+|.+.|++++|.++|+++.+.. +.+..+|+.++.+|.+.|++++|.++|+++.+.    +..|+
T Consensus       436 ~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~  513 (597)
T 2xpi_A          436 LF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEK  513 (597)
T ss_dssp             TT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSG
T ss_pred             hC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchh
Confidence            75 5688999999999999999999999999998863 447899999999999999999999999999876    77887


Q ss_pred             --HHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcC-HHHHHHH
Q 047221          401 --LATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPN-VSVYRRV  477 (509)
Q Consensus       401 --~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~l  477 (509)
                        ..+|..+..+|.+.|++++|.++|+++.+.+ ..+..+|..+..+|.+.|++++|.++|+++.+.  .|+ ...+..+
T Consensus       514 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~l  590 (597)
T 2xpi_A          514 PWAATWANLGHAYRKLKMYDAAIDALNQGLLLS-TNDANVHTAIALVYLHKKIPGLAITHLHESLAI--SPNEIMASDLL  590 (597)
T ss_dssp             GGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCChHHHHHH
Confidence              7899999999999999999999999998875 447899999999999999999999999999984  454 4455555


Q ss_pred             HHHH
Q 047221          478 LKHL  481 (509)
Q Consensus       478 l~~~  481 (509)
                      ..+|
T Consensus       591 ~~~~  594 (597)
T 2xpi_A          591 KRAL  594 (597)
T ss_dssp             HHTT
T ss_pred             HHHH
Confidence            4443

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.92  E-value=2e-21  Score=191.63  Aligned_cols=329  Identities=10%  Similarity=-0.036  Sum_probs=277.0

Q ss_pred             HHHHHHHHHhcCCc--hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccC-HHHHHHHHH
Q 047221          162 SVIEILRVLNSEKV--SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLN-EKAFGFLPV  238 (509)
Q Consensus       162 ~~~~ll~~~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~-~~~~~~ll~  238 (509)
                      .+..+-..+...++  .|..+++......|+   +..+|..+...+.+.|++++|.+.|+++.+.  .|+ ...|..+..
T Consensus        35 ~~~~l~~~~~~~~~~~~a~~~~~~a~~~~p~---~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~  109 (388)
T 1w3b_A           35 VLLLLSSIHFQCRRLDRSAHFSTLAIKQNPL---LAEAYSNLGNVYKERGQLQEAIEHYRHALRL--KPDFIDGYINLAA  109 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC---chHHHHHHHHHHHHCCCHHHHHHHHHHHHHc--CcchHHHHHHHHH
Confidence            34444444555564  799999888666664   5569999999999999999999999999765  354 446777777


Q ss_pred             HHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccH
Q 047221          239 LISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKG  314 (509)
Q Consensus       239 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~  314 (509)
                      ++. ..|++++|...++.+.+.. +.+...+..+...|...|++++|.+.|+++    +.+..+|+.+...|.+.|++++
T Consensus       110 ~~~-~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~  187 (388)
T 1w3b_A          110 ALV-AAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWL  187 (388)
T ss_dssp             HHH-HHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHH
T ss_pred             HHH-HcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHH
Confidence            444 4555999999999998865 344567888999999999999999999886    4568999999999999999999


Q ss_pred             HHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Q 047221          315 PRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVK  394 (509)
Q Consensus       315 A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  394 (509)
                      |++.|+++.+.+ +-+...|..+...+...|++++|...+++..+.. +.+..++..+...|.+.|++++|...|+++.+
T Consensus       188 A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  265 (388)
T 1w3b_A          188 AIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIE  265 (388)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            999999999875 4457788999999999999999999999988752 33578899999999999999999999999998


Q ss_pred             CCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHH
Q 047221          395 RGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVY  474 (509)
Q Consensus       395 ~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~  474 (509)
                      .+ +.+..+|..+..+|.+.|++++|.+.|+++.+.. +.+..+|..+...+.+.|++++|++.++++.+. .+.+..++
T Consensus       266 ~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~  342 (388)
T 1w3b_A          266 LQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEV-FPEFAAAH  342 (388)
T ss_dssp             TC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS-CTTCHHHH
T ss_pred             hC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-CCCcHHHH
Confidence            64 3357889999999999999999999999998763 457789999999999999999999999999874 23457789


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 047221          475 RRVLKHLHTSHQEHMAKCLSSRYSSLSL  502 (509)
Q Consensus       475 ~~ll~~~~~~g~~~~a~~~~~~m~~~~~  502 (509)
                      ..+...|.+.|++++|.+.++++.+..+
T Consensus       343 ~~l~~~~~~~g~~~~A~~~~~~a~~~~p  370 (388)
T 1w3b_A          343 SNLASVLQQQGKLQEALMHYKEAIRISP  370 (388)
T ss_dssp             HHHHHHHHTTTCCHHHHHHHHHHHTTCT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            9999999999999999999999987644

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.91  E-value=2.9e-20  Score=183.27  Aligned_cols=318  Identities=11%  Similarity=-0.038  Sum_probs=271.1

Q ss_pred             CCCCHHHHHHHHHHHhcCCc--hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHH
Q 047221          156 VSLSNASVIEILRVLNSEKV--SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAF  233 (509)
Q Consensus       156 ~~~~~~~~~~ll~~~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~  233 (509)
                      .+.+...+..+...+.+.|+  +|++.|+.+....|+   +..+|..+..++.+.|++++|.+.|+++.+.  .|+....
T Consensus        63 ~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~---~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~  137 (388)
T 1w3b_A           63 NPLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPD---FIDGYINLAAALVAAGDMEGAVQAYVSALQY--NPDLYCV  137 (388)
T ss_dssp             CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHHSCSSHHHHHHHHHHHH--CTTCTHH
T ss_pred             CCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCcc---hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHH
Confidence            34567788888889988886  899999999777785   3457999999999999999999999999765  4666665


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhc
Q 047221          234 GFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRR  309 (509)
Q Consensus       234 ~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~  309 (509)
                      ...+..++...|++++|...++.+.+.. +.+..+|..+...|.+.|++++|...|+++    +.+...|..+...+...
T Consensus       138 ~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~  216 (388)
T 1w3b_A          138 RSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEA  216 (388)
T ss_dssp             HHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHc
Confidence            5555556777778999999999998864 446788999999999999999999999986    55688999999999999


Q ss_pred             CCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHH
Q 047221          310 CDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFF  389 (509)
Q Consensus       310 g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~  389 (509)
                      |++++|+..|++..+.. +-+..++..+..+|.+.|++++|.+.|+++.+.. +.+..+|..+...+.+.|++++|...|
T Consensus       217 ~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~  294 (388)
T 1w3b_A          217 RIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCY  294 (388)
T ss_dssp             TCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHhhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            99999999999988764 3457889999999999999999999999999863 335778999999999999999999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCc
Q 047221          390 NQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRP  469 (509)
Q Consensus       390 ~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  469 (509)
                      +++.+.. +.+..+++.+...|.+.|++++|...++++.+.. +.+..+|..+...|.+.|++++|++.|+++.+.  .|
T Consensus       295 ~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~--~p  370 (388)
T 1w3b_A          295 NTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SP  370 (388)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT--CT
T ss_pred             HHHHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CC
Confidence            9998873 5678999999999999999999999999998753 346778999999999999999999999999874  45


Q ss_pred             -CHHHHHHHHHHHHhcC
Q 047221          470 -NVSVYRRVLKHLHTSH  485 (509)
Q Consensus       470 -~~~t~~~ll~~~~~~g  485 (509)
                       +...|..+...+.+.|
T Consensus       371 ~~~~a~~~lg~~~~~~~  387 (388)
T 1w3b_A          371 TFADAYSNMGNTLKEMQ  387 (388)
T ss_dssp             TCHHHHHHHHHHHHHTC
T ss_pred             CCHHHHHhHHHHHHHcc
Confidence             4556666666655544

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.89  E-value=8.8e-20  Score=183.34  Aligned_cols=293  Identities=9%  Similarity=-0.058  Sum_probs=128.0

Q ss_pred             HHHHHHHHHHhcCCc--hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHH
Q 047221          161 ASVIEILRVLNSEKV--SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPV  238 (509)
Q Consensus       161 ~~~~~ll~~~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~  238 (509)
                      ..+..+...+.+.|+  +|+++|+.+....|+   +..+|..+..++.+.|++++|...|+++.+.+. .+...+..+..
T Consensus        27 ~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~---~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~  102 (450)
T 2y4t_A           27 EKHLELGKKLLAAGQLADALSQFHAAVDGDPD---NYIAYYRRATVFLAMGKSKAALPDLTKVIQLKM-DFTAARLQRGH  102 (450)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCc---cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CcHHHHHHHHH
Confidence            334444444444443  455555555333332   233455555555555555555555555444321 12233333333


Q ss_pred             HHHhccCCHHHHHHHHHHHHHcCCCCCH---HHHHHH------------HHHHHhcCCHHHHHHHHHHc----CCCHHHH
Q 047221          239 LISSKALTKKGIWRVVEVLNQVGGSCLV---SGVRAL------------IEMFSVLGLYEMAKYVIKKT----ERKVSYY  299 (509)
Q Consensus       239 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~---~~~~~l------------i~~~~~~g~~~~A~~~~~~m----~~~~~~~  299 (509)
                       ++...|++++|...++.+.+.. +.+.   ..+..+            ...|.+.|++++|...|+++    +.+..++
T Consensus       103 -~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~  180 (450)
T 2y4t_A          103 -LLLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCVWDAELR  180 (450)
T ss_dssp             -HHHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             -HHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHH
Confidence             2222333555555555554432 1111   222222            22244445555555555443    2344444


Q ss_pred             HHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHH-------
Q 047221          300 NILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIF-------  372 (509)
Q Consensus       300 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l-------  372 (509)
                      ..+...|.+.|++++|++.|+++.+.. +.+..+|..+..+|...|++++|...|+++.+.. +.+...+..+       
T Consensus       181 ~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~~~~~~~~~  258 (450)
T 2y4t_A          181 ELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQVKKLN  258 (450)
T ss_dssp             HHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CChHHHHHHHHHHHHHH
Confidence            555555555555555555555444332 2334444455555555555555555555444321 1122223222       


Q ss_pred             -----HHHHHHcCChHHHHHHHHHHHHCCCCCC-----HHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 047221          373 -----IVYSCRVGKFDVAFNFFNQMVKRGLQPR-----LATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLL  442 (509)
Q Consensus       373 -----i~~~~~~g~~~~a~~~~~~m~~~g~~p~-----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l  442 (509)
                           ...|.+.|++++|...|+++.+.  .|+     ...+..+..+|.+.|++++|...++++.+.. ..+...|..+
T Consensus       259 ~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~~l  335 (450)
T 2y4t_A          259 KLIESAEELIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME-PDNVNALKDR  335 (450)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHH
Confidence                 34444445555555555544442  222     2234444444555555555555554444321 1233444445


Q ss_pred             HHHHHhCCChHHHHHHHHHHHH
Q 047221          443 ASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       443 i~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      ..+|...|++++|.+.++++.+
T Consensus       336 ~~~~~~~~~~~~A~~~~~~al~  357 (450)
T 2y4t_A          336 AEAYLIEEMYDEAIQDYETAQE  357 (450)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHhcCHHHHHHHHHHHHH
Confidence            5555555555555555554444

>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=99.87  E-value=1.1e-18  Score=175.19  Aligned_cols=302  Identities=12%  Similarity=-0.003  Sum_probs=248.8

Q ss_pred             cChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Q 047221          193 KNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRAL  272 (509)
Q Consensus       193 ~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l  272 (509)
                      .+...|..+...+.+.|++++|..+|+++.+.. +.+...+..+..++ ...|++++|...++.+.+.+ +.+..++..+
T Consensus        24 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~-~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l  100 (450)
T 2y4t_A           24 ADVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVF-LAMGKSKAALPDLTKVIQLK-MDFTAARLQR  100 (450)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH-HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHH-HHCCCHHHHHHHHHHHHhcC-CCcHHHHHHH
Confidence            356689999999999999999999999987653 23566777766644 45556999999999998875 4467889999


Q ss_pred             HHHHHhcCCHHHHHHHHHHc---CC-CH---HHHHHHHH------------HHHhcCCccHHHHHHHHHHHcCCCCChHH
Q 047221          273 IEMFSVLGLYEMAKYVIKKT---ER-KV---SYYNILIK------------EMCRRCDFKGPRDLLVEMRQVGCEPITLT  333 (509)
Q Consensus       273 i~~~~~~g~~~~A~~~~~~m---~~-~~---~~~~~li~------------~~~~~g~~~~A~~~~~~m~~~g~~p~~~t  333 (509)
                      ..+|.+.|++++|...|+++   .| +.   ..|..++.            .+.+.|++++|++.|+++.+.. +.+..+
T Consensus       101 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~  179 (450)
T 2y4t_A          101 GHLLLKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAEL  179 (450)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHH
Confidence            99999999999999999986   33 34   66666644            4889999999999999998764 557888


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHH------
Q 047221          334 YNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAF------  407 (509)
Q Consensus       334 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l------  407 (509)
                      +..+..+|.+.|++++|.++|+++.+.. +.+..+|..+...|.+.|++++|...|+++.+.. +.+...+..+      
T Consensus       180 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~~~~~~~~  257 (450)
T 2y4t_A          180 RELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQVKKL  257 (450)
T ss_dssp             HHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CChHHHHHHHHHHHHH
Confidence            9999999999999999999999988752 4468899999999999999999999999998653 2244555544      


Q ss_pred             ------HHHHHHcCCHHHHHHHHHHHHhCCCCCC-----HHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHH
Q 047221          408 ------IKGYFIFYRYEDAYKYVVLSADKYKSSS-----NMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRR  476 (509)
Q Consensus       408 ------i~~~~~~g~~~~A~~~~~~m~~~~~~p~-----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~  476 (509)
                            ...|.+.|++++|...|+++.+..  |+     ...|..+...+.+.|++++|++.++++.+.. +.+...|..
T Consensus       258 ~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~~  334 (450)
T 2y4t_A          258 NKLIESAEELIRDGRYTDATSKYESVMKTE--PSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME-PDNVNALKD  334 (450)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHH
Confidence                  788999999999999999998753  33     4578889999999999999999999988742 336788999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 047221          477 VLKHLHTSHQEHMAKCLSSRYSSLSLG  503 (509)
Q Consensus       477 ll~~~~~~g~~~~a~~~~~~m~~~~~~  503 (509)
                      +..+|...|++++|.+.+++..+..+.
T Consensus       335 l~~~~~~~~~~~~A~~~~~~al~~~p~  361 (450)
T 2y4t_A          335 RAEAYLIEEMYDEAIQDYETAQEHNEN  361 (450)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTSSS
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHhCcc
Confidence            999999999999999999999886544

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.84  E-value=5.2e-18  Score=173.19  Aligned_cols=339  Identities=12%  Similarity=-0.040  Sum_probs=277.1

Q ss_pred             CCHHHHHHHHHHHhcCCc--hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCc--------
Q 047221          158 LSNASVIEILRVLNSEKV--SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVC--------  227 (509)
Q Consensus       158 ~~~~~~~~ll~~~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~--------  227 (509)
                      |+...+..+...+...|+  +|++.|+.+....|+   +..+|..+..++.+.|++++|...|+++...+-.        
T Consensus        37 p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  113 (514)
T 2gw1_A           37 EDPVFYSNLSACYVSVGDLKKVVEMSTKALELKPD---YSKVLLRRASANEGLGKFADAMFDLSVLSLNGDFNDASIEPM  113 (514)
T ss_dssp             CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSC---CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSCCGGGTHHH
T ss_pred             ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccChH---HHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCccchHHHH
Confidence            688888888888888886  899999999767775   4568999999999999999999999998765421        


Q ss_pred             ---------------------------------------------------------------------cC-HHHHHHHH
Q 047221          228 ---------------------------------------------------------------------LN-EKAFGFLP  237 (509)
Q Consensus       228 ---------------------------------------------------------------------p~-~~~~~~ll  237 (509)
                                                                                           |+ ...+....
T Consensus       114 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  193 (514)
T 2gw1_A          114 LERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKPELTFANYDESNEADKELMNG  193 (514)
T ss_dssp             HHHHHHHHHHHHHTTC---------------------------CCCCHHHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHH
Confidence                                                                                 11 11111111


Q ss_pred             HHHHh--ccCCHHHHHHHHHHHHH-----cCC--------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHc---CCCHHHH
Q 047221          238 VLISS--KALTKKGIWRVVEVLNQ-----VGG--------SCLVSGVRALIEMFSVLGLYEMAKYVIKKT---ERKVSYY  299 (509)
Q Consensus       238 ~~~~~--~~~~~~~a~~~~~~m~~-----~g~--------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~~~~~  299 (509)
                      ..++.  ..|++++|..+++.+.+     ...        +.+..++..+...|...|++++|...|+++   .|+...|
T Consensus       194 ~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~~~~~  273 (514)
T 2gw1_A          194 LSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELFPRVNSY  273 (514)
T ss_dssp             HHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHCCCHHHH
T ss_pred             HHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCccHHHH
Confidence            11222  25679999999999987     311        234567889999999999999999999986   4458889


Q ss_pred             HHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHc
Q 047221          300 NILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRV  379 (509)
Q Consensus       300 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  379 (509)
                      ..+...|...|++++|.+.++++.+.. +.+..++..+...|...|++++|...+++..+.. +.+...+..+...|.+.
T Consensus       274 ~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~  351 (514)
T 2gw1_A          274 IYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELD-PENIFPYIQLACLAYRE  351 (514)
T ss_dssp             HHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTTT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHc
Confidence            999999999999999999999998764 4567889999999999999999999999998863 33577888999999999


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCC-CC----HHHHHHHHHHHHh---CCC
Q 047221          380 GKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKS-SS----NMLYSLLASLHDK---NNN  451 (509)
Q Consensus       380 g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-p~----~~~~~~li~~~~~---~g~  451 (509)
                      |++++|...++++.+.. +.+..++..+...|.+.|++++|...++++.+.... ++    ...|..+...+..   .|+
T Consensus       352 ~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  430 (514)
T 2gw1_A          352 NKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVEN  430 (514)
T ss_dssp             TCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTH
T ss_pred             CCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCC
Confidence            99999999999998763 335678999999999999999999999988764221 12    3478889999999   999


Q ss_pred             hHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 047221          452 PVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSLG  503 (509)
Q Consensus       452 ~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~  503 (509)
                      +++|.+.++++.+.. +.+..++..+...|.+.|++++|.+.+++..+..+.
T Consensus       431 ~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~  481 (514)
T 2gw1_A          431 FIEATNLLEKASKLD-PRSEQAKIGLAQMKLQQEDIDEAITLFEESADLART  481 (514)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS
T ss_pred             HHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhccc
Confidence            999999999998752 335678889999999999999999999999876653

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.83  E-value=9.1e-17  Score=155.60  Aligned_cols=301  Identities=11%  Similarity=-0.032  Sum_probs=215.2

Q ss_pred             hhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 047221          195 SDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIE  274 (509)
Q Consensus       195 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  274 (509)
                      +..|..+...+.+.|++++|...|+++.+... .+...+..+.. ++...|++++|...++.+.+.. +.+...+..+..
T Consensus         3 ~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~~a~-~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   79 (359)
T 3ieg_A            3 VEKHLELGKKLLAAGQLADALSQFHAAVDGDP-DNYIAYYRRAT-VFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH-HHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-ccHHHHHHHHH-HHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHH
Confidence            44677777788888888888888888766431 23445555555 3444455888888888877654 335677788888


Q ss_pred             HHHhcCCHHHHHHHHHHc---CC----CHHHHHHH------------HHHHHhcCCccHHHHHHHHHHHcCCCCChHHHH
Q 047221          275 MFSVLGLYEMAKYVIKKT---ER----KVSYYNIL------------IKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYN  335 (509)
Q Consensus       275 ~~~~~g~~~~A~~~~~~m---~~----~~~~~~~l------------i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~  335 (509)
                      +|...|++++|...|++.   .|    +...+..+            ...+...|++++|++.|+++.+.. +.+...+.
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  158 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELRE  158 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHH
Confidence            888888888888888775   33    34444444            577788888888888888887664 45667778


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHH----------
Q 047221          336 YVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHA----------  405 (509)
Q Consensus       336 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~----------  405 (509)
                      .+...|...|++++|...+++..+. .+.+..++..+...|...|++++|...+++..+.. +.+...+.          
T Consensus       159 ~~~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~~~~~~~~  236 (359)
T 3ieg_A          159 LRAECFIKEGEPRKAISDLKAASKL-KSDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQVKKLNK  236 (359)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTT-CSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHHH
Confidence            8888888888888888888888776 24467778888888888888888888888877653 22333332          


Q ss_pred             --HHHHHHHHcCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHH
Q 047221          406 --AFIKGYFIFYRYEDAYKYVVLSADKYKSSSN----MLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLK  479 (509)
Q Consensus       406 --~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~  479 (509)
                        .+...+.+.|++++|...++++.+.... +.    ..|..+...+...|++++|++.+++..+. .+.+..++..+..
T Consensus       237 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~  314 (359)
T 3ieg_A          237 LIESAEELIRDGRYTDATSKYESVMKTEPS-VAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQM-EPDNVNALKDRAE  314 (359)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHh-CcccHHHHHHHHH
Confidence              2355677888888888888887765422 22    23455677888888888888888888774 2236677888888


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCC
Q 047221          480 HLHTSHQEHMAKCLSSRYSSLSLG  503 (509)
Q Consensus       480 ~~~~~g~~~~a~~~~~~m~~~~~~  503 (509)
                      .+.+.|++++|.+.+++..+..+.
T Consensus       315 ~~~~~g~~~~A~~~~~~a~~~~p~  338 (359)
T 3ieg_A          315 AYLIEEMYDEAIQDYEAAQEHNEN  338 (359)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTCTT
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCC
Confidence            888888888888888888876543

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.83  E-value=1.8e-20  Score=194.97  Aligned_cols=119  Identities=15%  Similarity=0.035  Sum_probs=94.3

Q ss_pred             HHHHHHHHHHHHhcCCccHHHHHHHHHHH---cCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHH
Q 047221          296 VSYYNILIKEMCRRCDFKGPRDLLVEMRQ---VGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIF  372 (509)
Q Consensus       296 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  372 (509)
                      ..+||+||++||+.|++++|.++|++|.+   .|+.||.+|||+||++|++.|++++|.++|++|.+.|+.||++|||+|
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            56788888888888888888888877653   477888888888888888888888888888888888888888888888


Q ss_pred             HHHHHHcCCh-HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Q 047221          373 IVYSCRVGKF-DVAFNFFNQMVKRGLQPRLATHAAFIKGYFIF  414 (509)
Q Consensus       373 i~~~~~~g~~-~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  414 (509)
                      |.++|+.|+. ++|.++|++|.+.|+.||..+|++++.++.+.
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~  249 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA  249 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH
Confidence            8888888764 67778888888888888888888887766554

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.81  E-value=2.9e-20  Score=193.49  Aligned_cols=136  Identities=14%  Similarity=0.043  Sum_probs=99.0

Q ss_pred             ChHHHHHHHHHHHhcCChHHHHHHHHHHHh---CCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHH
Q 047221          330 ITLTYNYVLGVLCKNGQDADACELLEEMLG---RNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAA  406 (509)
Q Consensus       330 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~---~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~  406 (509)
                      -..||++||++|++.|++++|.++|++|.+   .|+.||++|||+||++||+.|++++|.++|++|.+.|+.||.+|||+
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            356788888888888888888888877653   36778888888888888888888888888888888888888888888


Q ss_pred             HHHHHHHcCC-HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcC
Q 047221          407 FIKGYFIFYR-YEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPN  470 (509)
Q Consensus       407 li~~~~~~g~-~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  470 (509)
                      ||+++|+.|+ .++|.++|++|.+.|+.||..+|++++.++.+.    .+++..+++ ..++.|+
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv-~P~f~p~  265 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKV-KPTFSLP  265 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGG-CCCCCCC
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHh-CcccCCC
Confidence            8888888776 467778888888888888888888777655553    344444444 3345543

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.80  E-value=3.9e-17  Score=166.65  Aligned_cols=329  Identities=10%  Similarity=-0.017  Sum_probs=263.0

Q ss_pred             HHHHHHHHhcCCc--hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHH
Q 047221          163 VIEILRVLNSEKV--SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLI  240 (509)
Q Consensus       163 ~~~ll~~~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~  240 (509)
                      +...-..+...|+  +|++.|+.+....|+..    +|..+..++.+.|++++|...++++.+.+ +.+...+..+.. +
T Consensus         9 ~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~----~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~-~   82 (514)
T 2gw1_A            9 LKDKGNQFFRNKKYDDAIKYYNWALELKEDPV----FYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRAS-A   82 (514)
T ss_dssp             HHHHHHHHHHTSCHHHHHHHHHHHHHHCCCHH----HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHH-H
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhcCccHH----HHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHH-H
Confidence            3344445556665  89999999966667644    99999999999999999999999998764 224456666666 4


Q ss_pred             HhccCCHHHHHHHHHHHHHcCCCC--------------------------------------------------------
Q 047221          241 SSKALTKKGIWRVVEVLNQVGGSC--------------------------------------------------------  264 (509)
Q Consensus       241 ~~~~~~~~~a~~~~~~m~~~g~~~--------------------------------------------------------  264 (509)
                      +...|++++|...|+.+.+.+...                                                        
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            445566999999999987755211                                                        


Q ss_pred             ----------------------CHHHHHHHHHHHHh---cCCHHHHHHHHHHc-C-----------------CCHHHHHH
Q 047221          265 ----------------------LVSGVRALIEMFSV---LGLYEMAKYVIKKT-E-----------------RKVSYYNI  301 (509)
Q Consensus       265 ----------------------~~~~~~~li~~~~~---~g~~~~A~~~~~~m-~-----------------~~~~~~~~  301 (509)
                                            +...+..+...+..   .|++++|..+|+++ .                 .+..+|..
T Consensus       163 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  242 (514)
T 2gw1_A          163 SMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEH  242 (514)
T ss_dssp             HHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHH
Confidence                                  12333334444443   89999999999874 2                 13567889


Q ss_pred             HHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCC
Q 047221          302 LIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGK  381 (509)
Q Consensus       302 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  381 (509)
                      +...+...|++++|...|+++.+..  |+..++..+...|...|++++|...++++.+.. +.+...+..+...|...|+
T Consensus       243 ~~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~  319 (514)
T 2gw1_A          243 TGIFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQN  319 (514)
T ss_dssp             HHHHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCC
Confidence            9999999999999999999999875  448889999999999999999999999998863 3467789999999999999


Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHH
Q 047221          382 FDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSE  461 (509)
Q Consensus       382 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  461 (509)
                      +++|...++++.+.. +.+...+..+...|...|++++|...++++.+... .+...|..+...|...|++++|++.+++
T Consensus       320 ~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~  397 (514)
T 2gw1_A          320 YDQAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRKFP-EAPEVPNFFAEILTDKNDFDKALKQYDL  397 (514)
T ss_dssp             TTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHST-TCSHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcc-cCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            999999999998874 33577899999999999999999999999887532 3456788899999999999999999999


Q ss_pred             HHHCCC-CcC----HHHHHHHHHHHHh---cCCHHHHHHHHHHHHhCCC
Q 047221          462 MMKNGL-RPN----VSVYRRVLKHLHT---SHQEHMAKCLSSRYSSLSL  502 (509)
Q Consensus       462 m~~~g~-~p~----~~t~~~ll~~~~~---~g~~~~a~~~~~~m~~~~~  502 (509)
                      +.+..- .++    ...+..+...+..   .|++++|.+.+++..+..+
T Consensus       398 a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~  446 (514)
T 2gw1_A          398 AIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDP  446 (514)
T ss_dssp             HHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCT
T ss_pred             HHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCc
Confidence            876321 111    3478889999999   9999999999999887654

>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=99.78  E-value=5.8e-16  Score=159.06  Aligned_cols=336  Identities=11%  Similarity=-0.045  Sum_probs=256.3

Q ss_pred             CCHHHHHHHHHHHhcCCc--hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHH---
Q 047221          158 LSNASVIEILRVLNSEKV--SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKA---  232 (509)
Q Consensus       158 ~~~~~~~~ll~~~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~---  232 (509)
                      -+...+..+-..+...|+  +|++.|+.+....|+   +..+|..+...+...|++++|...|+.+...   |+...   
T Consensus        57 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~---~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~~  130 (537)
T 3fp2_A           57 NEPVFYSNISACYISTGDLEKVIEFTTKALEIKPD---HSKALLRRASANESLGNFTDAMFDLSVLSLN---GDFDGASI  130 (537)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHC-------------
T ss_pred             CCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc---hHHHHHHHHHHHHHcCCHHHHHHHHHHHhcC---CCCChHHH
Confidence            356677777777777775  799999998666775   4568888999999999999999999644222   22110   


Q ss_pred             ------------------------------------------------------------------HHHHHHHHH-----
Q 047221          233 ------------------------------------------------------------------FGFLPVLIS-----  241 (509)
Q Consensus       233 ------------------------------------------------------------------~~~ll~~~~-----  241 (509)
                                                                                        ...+...+.     
T Consensus       131 ~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  210 (537)
T 3fp2_A          131 EPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNYDTAYALLSDALQRLYSATDEG  210 (537)
T ss_dssp             -CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhccccccHHHHHHHHHHHHHHhhhhh
Confidence                                                                              011111000     


Q ss_pred             --hccCCHHHHHHHHHHHHHcCCCCC------HHHHHHHHHHHHhcCCHHHHHHHHHHc---CCCHHHHHHHHHHHHhcC
Q 047221          242 --SKALTKKGIWRVVEVLNQVGGSCL------VSGVRALIEMFSVLGLYEMAKYVIKKT---ERKVSYYNILIKEMCRRC  310 (509)
Q Consensus       242 --~~~~~~~~a~~~~~~m~~~g~~~~------~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~~~~~~~li~~~~~~g  310 (509)
                        ...+++++|..+++.+.+......      ..++..+...+...|++++|...|++.   .|+..+|..+...|...|
T Consensus       211 ~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~  290 (537)
T 3fp2_A          211 YLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINLHPTPNSYIFLALTLADKE  290 (537)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHTCCSS
T ss_pred             hHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhc
Confidence              011247788888888876442211      235677788899999999999999986   566888999999999999


Q ss_pred             CccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHH
Q 047221          311 DFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFN  390 (509)
Q Consensus       311 ~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~  390 (509)
                      ++++|.+.|+++.+.. +.+..+|..+...|...|++++|...+++..+.. +.+...+..+...|.+.|++++|...++
T Consensus       291 ~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~  368 (537)
T 3fp2_A          291 NSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFN  368 (537)
T ss_dssp             CCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            9999999999998765 4567889999999999999999999999998863 3356788899999999999999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-----CCCCHHHHHHHHHHHHhC----------CChHHH
Q 047221          391 QMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKY-----KSSSNMLYSLLASLHDKN----------NNPVMA  455 (509)
Q Consensus       391 ~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-----~~p~~~~~~~li~~~~~~----------g~~~~a  455 (509)
                      ++.+.. +.+...+..+...|...|++++|...|+++.+..     .......+..+...+...          |++++|
T Consensus       369 ~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A  447 (537)
T 3fp2_A          369 ETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAA  447 (537)
T ss_dssp             HHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHH
T ss_pred             HHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHH
Confidence            998763 4457788999999999999999999999887542     112223344556677777          999999


Q ss_pred             HHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 047221          456 KNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSLG  503 (509)
Q Consensus       456 ~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~  503 (509)
                      ++.|++..+.. +.+...+..+...|.+.|++++|.+.+++..+..+.
T Consensus       448 ~~~~~~a~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~  494 (537)
T 3fp2_A          448 IKLLTKACELD-PRSEQAKIGLAQLKLQMEKIDEAIELFEDSAILART  494 (537)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC
Confidence            99999998752 335678999999999999999999999998876654

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.78  E-value=3.5e-16  Score=149.79  Aligned_cols=285  Identities=10%  Similarity=0.017  Sum_probs=231.3

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 047221          196 DICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEM  275 (509)
Q Consensus       196 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  275 (509)
                      ..+..+...+...|++++|.++|+++..... .+...+..+...+ ...++.++|..+++.+.+.. +.+...+..+...
T Consensus        23 ~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~~~~~~-~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~   99 (330)
T 3hym_B           23 DVVVSLAERHYYNCDFKMCYKLTSVVMEKDP-FHASCLPVHIGTL-VELNKANELFYLSHKLVDLY-PSNPVSWFAVGCY   99 (330)
T ss_dssp             TTHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTTTHHHHHHHH-HHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CChhhHHHHHHHH-HHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHH
Confidence            3788888899999999999999999876542 2333444455534 44556999999999998764 4467788899999


Q ss_pred             HHhcC-CHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHH
Q 047221          276 FSVLG-LYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADA  350 (509)
Q Consensus       276 ~~~~g-~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a  350 (509)
                      |...| ++++|...|++.    +.+...|..+...|...|++++|++.|++..+.. +.+...+..+...|...|++++|
T Consensus       100 ~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A  178 (330)
T 3hym_B          100 YLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNSKLA  178 (330)
T ss_dssp             HHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhHHHH
Confidence            99999 999999999985    4567889999999999999999999999998764 34567788899999999999999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCC--------CCCCHHHHHHHHHHHHHcCCHHHHHH
Q 047221          351 CELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRG--------LQPRLATHAAFIKGYFIFYRYEDAYK  422 (509)
Q Consensus       351 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g--------~~p~~~~~~~li~~~~~~g~~~~A~~  422 (509)
                      .+.+++..+.. +.+...+..+...+.+.|++++|...++++.+..        ...+..++..+..+|.+.|++++|..
T Consensus       179 ~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  257 (330)
T 3hym_B          179 ERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALD  257 (330)
T ss_dssp             HHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            99999998863 4467889999999999999999999999987641        13346789999999999999999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCc-CHHHHHHHHHHH-HhcCCHH
Q 047221          423 YVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRP-NVSVYRRVLKHL-HTSHQEH  488 (509)
Q Consensus       423 ~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~ll~~~-~~~g~~~  488 (509)
                      .+++..+... .+...|..+...|.+.|++++|.+.+++..+.  .| +...+..+..++ ...|+.+
T Consensus       258 ~~~~a~~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          258 YHRQALVLIP-QNASTYSAIGYIHSLMGNFENAVDYFHTALGL--RRDDTFSVTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             HHHHHHHHST-TCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTT--CSCCHHHHHHHHHHHHTTTTC--
T ss_pred             HHHHHHhhCc-cchHHHHHHHHHHHHhccHHHHHHHHHHHHcc--CCCchHHHHHHHHHHHHHhCchh
Confidence            9999887642 35677888999999999999999999998764  45 566777777777 4555544

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.78  E-value=3.8e-15  Score=144.08  Aligned_cols=309  Identities=9%  Similarity=-0.083  Sum_probs=243.7

Q ss_pred             HHHHHHHHHHhcCCc--hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCcc-CHHHHHHHH
Q 047221          161 ASVIEILRVLNSEKV--SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCL-NEKAFGFLP  237 (509)
Q Consensus       161 ~~~~~ll~~~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p-~~~~~~~ll  237 (509)
                      ..+..+-..+...|+  +|++.|+.+....|+   +..+|..+...+...|++++|...|+++.+..  | +...+..+.
T Consensus         4 ~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~---~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~   78 (359)
T 3ieg_A            4 EKHLELGKKLLAAGQLADALSQFHAAVDGDPD---NYIAYYRRATVFLAMGKSKAALPDLTKVIALK--MDFTAARLQRG   78 (359)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcc---cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--CCcchHHHHHH
Confidence            344555566666775  899999999666774   45689999999999999999999999997653  4 445666666


Q ss_pred             HHHHhccCCHHHHHHHHHHHHHcCCC--CCHHHHHHH------------HHHHHhcCCHHHHHHHHHHc----CCCHHHH
Q 047221          238 VLISSKALTKKGIWRVVEVLNQVGGS--CLVSGVRAL------------IEMFSVLGLYEMAKYVIKKT----ERKVSYY  299 (509)
Q Consensus       238 ~~~~~~~~~~~~a~~~~~~m~~~g~~--~~~~~~~~l------------i~~~~~~g~~~~A~~~~~~m----~~~~~~~  299 (509)
                      . ++...|++++|...++...+....  .+...+..+            ...+...|++++|...++++    +.+...+
T Consensus        79 ~-~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~  157 (359)
T 3ieg_A           79 H-LLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVCVWDAELR  157 (359)
T ss_dssp             H-HHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             H-HHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCchHHH
Confidence            6 444556699999999999876420  234444444            58899999999999999986    5678999


Q ss_pred             HHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHH---------
Q 047221          300 NILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYE---------  370 (509)
Q Consensus       300 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~---------  370 (509)
                      ..+...|...|++++|.+.+++..+.. +.+..++..+...|...|++++|...+++..+.. +.+...+.         
T Consensus       158 ~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~~~~~~~  235 (359)
T 3ieg_A          158 ELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQVKKLN  235 (359)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHH
Confidence            999999999999999999999999764 5578899999999999999999999999998762 22333333         


Q ss_pred             ---HHHHHHHHcCChHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 047221          371 ---IFIVYSCRVGKFDVAFNFFNQMVKRGLQPRL----ATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLA  443 (509)
Q Consensus       371 ---~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li  443 (509)
                         .+...+.+.|++++|...++++.+.... +.    ..+..+..+|.+.|++++|...+++..+.. ..+..+|..+.
T Consensus       236 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~  313 (359)
T 3ieg_A          236 KLIESAEELIRDGRYTDATSKYESVMKTEPS-VAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQME-PDNVNALKDRA  313 (359)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccHHHHHHHH
Confidence               2356688999999999999999876422 33    235567889999999999999999998763 33678899999


Q ss_pred             HHHHhCCChHHHHHHHHHHHHCCCCcC-HHHHHHHHHHH
Q 047221          444 SLHDKNNNPVMAKNVLSEMMKNGLRPN-VSVYRRVLKHL  481 (509)
Q Consensus       444 ~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~ll~~~  481 (509)
                      ..|...|++++|.+.|++..+.  .|+ ...+..+..+.
T Consensus       314 ~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~~~l~~~~  350 (359)
T 3ieg_A          314 EAYLIEEMYDEAIQDYEAAQEH--NENDQQIREGLEKAQ  350 (359)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTT--CTTCHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhc--CCCChHHHHHHHHHH
Confidence            9999999999999999999974  455 44455554444

>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=99.77  E-value=4.3e-16  Score=149.15  Aligned_cols=271  Identities=11%  Similarity=-0.075  Sum_probs=226.2

Q ss_pred             ccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHH
Q 047221          227 CLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNIL  302 (509)
Q Consensus       227 ~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~l  302 (509)
                      ..+...+......+... |++++|..+++.+.+.. +.+...+..++..+...|++++|..+++++    +.+...|..+
T Consensus        19 ~~~~~~~~~~a~~~~~~-g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l   96 (330)
T 3hym_B           19 QENLDVVVSLAERHYYN-CDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLYPSNPVSWFAV   96 (330)
T ss_dssp             -CCCTTHHHHHHHHHHT-TCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHH
Confidence            34555566666645555 66999999999998765 344556777888999999999999999886    4578899999


Q ss_pred             HHHHHhcC-CccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCC
Q 047221          303 IKEMCRRC-DFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGK  381 (509)
Q Consensus       303 i~~~~~~g-~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  381 (509)
                      ...+...| ++++|.+.|++..+.. +.+...|..+...|...|++++|.+.+++..+.. +.+...+..+...|...|+
T Consensus        97 ~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~  174 (330)
T 3hym_B           97 GCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNN  174 (330)
T ss_dssp             HHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhh
Confidence            99999999 9999999999998764 4467889999999999999999999999998863 2345677778999999999


Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC--------CCCCHHHHHHHHHHHHhCCChH
Q 047221          382 FDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKY--------KSSSNMLYSLLASLHDKNNNPV  453 (509)
Q Consensus       382 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~--------~~p~~~~~~~li~~~~~~g~~~  453 (509)
                      +++|...++++.+.. +.+...+..+...|...|++++|...+++..+..        ...+..+|..+...|...|+++
T Consensus       175 ~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  253 (330)
T 3hym_B          175 SKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYA  253 (330)
T ss_dssp             HHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHH
Confidence            999999999998764 4468899999999999999999999999887642        1334578899999999999999


Q ss_pred             HHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 047221          454 MAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSLG  503 (509)
Q Consensus       454 ~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~  503 (509)
                      +|++.+++..+.. +.+...+..+...+.+.|++++|.+.+++..+..+.
T Consensus       254 ~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~  302 (330)
T 3hym_B          254 EALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRD  302 (330)
T ss_dssp             HHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSC
T ss_pred             HHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCC
Confidence            9999999998753 235678899999999999999999999998876543

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.75  E-value=2.8e-16  Score=153.15  Aligned_cols=285  Identities=10%  Similarity=-0.055  Sum_probs=207.0

Q ss_pred             ccCCHHHHHH-HHHHhhhCCC-cc--CHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH
Q 047221          207 RLDDYETMRQ-LLNDFNVYQV-CL--NEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLY  282 (509)
Q Consensus       207 ~~g~~~~A~~-l~~~m~~~~~-~p--~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  282 (509)
                      ..|++++|.+ .|++...... .|  +...+..+...+. ..|++++|...++.+.+.. +.+..++..+..+|.+.|++
T Consensus        37 ~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~-~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~  114 (368)
T 1fch_A           37 WLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRL-QEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQE  114 (368)
T ss_dssp             ---------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHH-HTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHH-HCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCH
Confidence            3467777777 6665533211 11  2334444444333 4445888888888887754 44667788888888888888


Q ss_pred             HHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHH---------------HHHHHHh
Q 047221          283 EMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNY---------------VLGVLCK  343 (509)
Q Consensus       283 ~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~---------------li~~~~~  343 (509)
                      ++|...|++.    +.+..+|..+...|...|++++|++.|+++.+.. +.+...+..               .+..+..
T Consensus       115 ~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  193 (368)
T 1fch_A          115 LLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRYT-PAYAHLVTPAEEGAGGAGLGPSKRILGSLLS  193 (368)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-TTTGGGCC---------------CTTHHHHH
T ss_pred             HHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHhhhhcccHHHHHHHHHhh
Confidence            8888888875    4577888888888888999999999988888754 222222211               2334448


Q ss_pred             cCChHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 047221          344 NGQDADACELLEEMLGRNCHP-DAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYK  422 (509)
Q Consensus       344 ~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  422 (509)
                      .|++++|...|+++.+..... +..++..+...|.+.|++++|...++++.+.. +.+..++..+...|.+.|++++|..
T Consensus       194 ~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~  272 (368)
T 1fch_A          194 DSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVA  272 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            899999999999998763221 57889999999999999999999999988763 3467889999999999999999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCC----------cCHHHHHHHHHHHHhcCCHHHHHH
Q 047221          423 YVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLR----------PNVSVYRRVLKHLHTSHQEHMAKC  492 (509)
Q Consensus       423 ~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~----------p~~~t~~~ll~~~~~~g~~~~a~~  492 (509)
                      .|+++.+.. ..+...|..+...|.+.|++++|.+.|+++.+..-.          ....+|..+..+|...|++++|..
T Consensus       273 ~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  351 (368)
T 1fch_A          273 AYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGA  351 (368)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHH
T ss_pred             HHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHH
Confidence            999987753 345778899999999999999999999998763111          125789999999999999999998


Q ss_pred             HHHH
Q 047221          493 LSSR  496 (509)
Q Consensus       493 ~~~~  496 (509)
                      ++++
T Consensus       352 ~~~~  355 (368)
T 1fch_A          352 ADAR  355 (368)
T ss_dssp             HHTT
T ss_pred             hHHH
Confidence            8763

>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=99.73  E-value=4.7e-17  Score=157.58  Aligned_cols=277  Identities=8%  Similarity=-0.040  Sum_probs=136.7

Q ss_pred             chHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHH
Q 047221          175 VSALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVV  254 (509)
Q Consensus       175 ~~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~  254 (509)
                      ++|.++++.+    +...    +|..|+.++.+.|++++|++.|.+.      +|..+|..++.. +...|++++|+.++
T Consensus        20 d~A~~fae~~----~~~~----vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~-ae~~g~~EeAi~yl   84 (449)
T 1b89_A           20 DRAYEFAERC----NEPA----VWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQA-ANTSGNWEELVKYL   84 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHhC----CChH----HHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHH-HHhCCCHHHHHHHH
Confidence            3699999998    3333    9999999999999999999999764      577899999984 45567799999988


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHH
Q 047221          255 EVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTY  334 (509)
Q Consensus       255 ~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~  334 (509)
                      +...+.  .++..+.+.|+.+|.+.|++++++++++.  |+..+|+.+...|...|++++|...|..+         ..|
T Consensus        85 ~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~--pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~  151 (449)
T 1b89_A           85 QMARKK--ARESYVETELIFALAKTNRLAELEEFING--PNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNF  151 (449)
T ss_dssp             --------------------------CHHHHTTTTTC--C----------------CTTTHHHHHHHT---------TCH
T ss_pred             HHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHcC--CcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhH
Confidence            877763  45578889999999999999999988874  77789999999999999999999999977         479


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Q 047221          335 NYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIF  414 (509)
Q Consensus       335 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  414 (509)
                      ..++.++.+.|++++|.+.+..+      .++.+|..++.+|...|+++.|......+     ..+..-...++..|.+.
T Consensus       152 ~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L-----~~~ad~l~~lv~~Yek~  220 (449)
T 1b89_A          152 GRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHI-----VVHADELEELINYYQDR  220 (449)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTT-----TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHH-----HhCHhhHHHHHHHHHHC
Confidence            99999999999999999999988      27899999999999999999996655542     23444455799999999


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhC--CChHHHHHHHHHHHHCCCCc------CHHHHHHHHHHHHhcCC
Q 047221          415 YRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKN--NNPVMAKNVLSEMMKNGLRP------NVSVYRRVLKHLHTSHQ  486 (509)
Q Consensus       415 g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~--g~~~~a~~~~~~m~~~g~~p------~~~t~~~ll~~~~~~g~  486 (509)
                      |++++|..+++...... .-....|+-|..+|++-  ++..+.+++|..  ..++.|      +...|.-+.-.|.+.++
T Consensus       221 G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~~--~ini~k~~~~~~~~~~w~e~~~ly~~~~e  297 (449)
T 1b89_A          221 GYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWS--RVNIPKVLRAAEQAHLWAELVFLYDKYEE  297 (449)
T ss_dssp             TCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHST--TSCHHHHHHHHHTTTCHHHHHHHHHHTTC
T ss_pred             CCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--HhcCcHHHHHHHHHHHHHHHHHHHHhhch
Confidence            99999999999887665 55677888888888865  344455554432  123333      44578888888889999


Q ss_pred             HHHHHHH
Q 047221          487 EHMAKCL  493 (509)
Q Consensus       487 ~~~a~~~  493 (509)
                      ++.|...
T Consensus       298 ~d~A~~t  304 (449)
T 1b89_A          298 YDNAIIT  304 (449)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9988764

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.73  E-value=6.9e-16  Score=150.46  Aligned_cols=245  Identities=10%  Similarity=-0.097  Sum_probs=176.1

Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHH
Q 047221          247 KKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEM  322 (509)
Q Consensus       247 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  322 (509)
                      +++|..+++.+.+.. +.+..++..+..+|.+.|++++|...|++.    +.+..+|..+...|...|++++|++.|+++
T Consensus        81 ~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  159 (365)
T 4eqf_A           81 LPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAVSYTNTSHQQDACEALKNW  159 (365)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccccHHHHHHHHHHH
Confidence            444444444443332 234556677777777777777777777764    445777777788888888888888888777


Q ss_pred             HHcCCCCC-----------hHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHHcCChHHHHHHHH
Q 047221          323 RQVGCEPI-----------TLTYNYVLGVLCKNGQDADACELLEEMLGRNCH-PDAITYEIFIVYSCRVGKFDVAFNFFN  390 (509)
Q Consensus       323 ~~~g~~p~-----------~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-p~~~~~~~li~~~~~~g~~~~a~~~~~  390 (509)
                      .+..  |+           ...+..+...|...|++++|.++++++.+.... .+..++..+...|.+.|++++|...|+
T Consensus       160 l~~~--p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  237 (365)
T 4eqf_A          160 IKQN--PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFN  237 (365)
T ss_dssp             HHHC--HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHhC--ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            7542  21           233445577888899999999999998886322 157888899999999999999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCC---C
Q 047221          391 QMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNG---L  467 (509)
Q Consensus       391 ~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g---~  467 (509)
                      ++.+.. +.+..+|..+..+|.+.|++++|...|+++.+.. ..+..+|..+...|.+.|++++|.+.|+++.+..   .
T Consensus       238 ~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~  315 (365)
T 4eqf_A          238 AALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYREAVSNFLTALSLQRKSR  315 (365)
T ss_dssp             HHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHCC-
T ss_pred             HHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccC
Confidence            988763 4468889999999999999999999999888763 2347788899999999999999999999987631   0


Q ss_pred             C--------cCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 047221          468 R--------PNVSVYRRVLKHLHTSHQEHMAKCLSSR  496 (509)
Q Consensus       468 ~--------p~~~t~~~ll~~~~~~g~~~~a~~~~~~  496 (509)
                      .        .+...|..+..++...|+.+.+..+.++
T Consensus       316 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          316 NQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             -----------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             CCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            1        1357889999999999999998887654

>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=99.71  E-value=8.6e-15  Score=150.25  Aligned_cols=324  Identities=15%  Similarity=0.047  Sum_probs=237.1

Q ss_pred             HHHHHHHHHHhcCCc--hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHH
Q 047221          161 ASVIEILRVLNSEKV--SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPV  238 (509)
Q Consensus       161 ~~~~~ll~~~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~  238 (509)
                      ..+...-..+.+.|+  +|++.|+.+....|+   +..+|..+..+|.+.|++++|.+.|+++.+.. +.+...+..+..
T Consensus        26 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~---~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~  101 (537)
T 3fp2_A           26 VQLKNRGNHFFTAKNFNEAIKYYQYAIELDPN---EPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRAS  101 (537)
T ss_dssp             HHHHHHHHHHHHTTCCC-CHHHHHHHHHHCTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhhCCC---CcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHH
Confidence            444555555666664  899999999777774   55689999999999999999999999987764 124455555555


Q ss_pred             HHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHcC-----------CCHH----------
Q 047221          239 LISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTE-----------RKVS----------  297 (509)
Q Consensus       239 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~-----------~~~~----------  297 (509)
                       +....|++++|...++.+..   .|+.  ....+..+...+....|...++++-           ++..          
T Consensus       102 -~~~~~g~~~~A~~~~~~~~~---~~~~--~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~  175 (537)
T 3fp2_A          102 -ANESLGNFTDAMFDLSVLSL---NGDF--DGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFD  175 (537)
T ss_dssp             -HHHHHTCHHHHHHHHHHHC----------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSC
T ss_pred             -HHHHcCCHHHHHHHHHHHhc---CCCC--ChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcC
Confidence             44555669999999964322   2221  1223444555555666777666641           1111          


Q ss_pred             --------------------HHHHHHHHHHh--------cCCccHHHHHHHHHHHcCCCCC--------hHHHHHHHHHH
Q 047221          298 --------------------YYNILIKEMCR--------RCDFKGPRDLLVEMRQVGCEPI--------TLTYNYVLGVL  341 (509)
Q Consensus       298 --------------------~~~~li~~~~~--------~g~~~~A~~~~~~m~~~g~~p~--------~~t~~~li~~~  341 (509)
                                          .+..+...+..        .|++++|..+|+++.+.  .|+        ..++..+...+
T Consensus       176 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~~~~~g~~~  253 (537)
T 3fp2_A          176 SHLEVSSVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSA--NTVDDPLRENAALALCYTGIFH  253 (537)
T ss_dssp             HHHHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC----CCCHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHH--CCCcchhhHHHHHHHHHHHHHH
Confidence                                22222222221        24788999999998865  344        33567777888


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 047221          342 CKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAY  421 (509)
Q Consensus       342 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  421 (509)
                      ...|++++|...+++..+.  .|+...+..+...|...|++++|...++++.+.. +.+..++..+...|...|++++|.
T Consensus       254 ~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~  330 (537)
T 3fp2_A          254 FLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAK  330 (537)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHH
Confidence            8999999999999999886  4667888889999999999999999999998764 346888999999999999999999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 047221          422 KYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLS  501 (509)
Q Consensus       422 ~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~  501 (509)
                      ..|+++.+... .+...|..+...|...|++++|+++++++.+.. +.+...+..+...+...|++++|.+.+++..+..
T Consensus       331 ~~~~~a~~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  408 (537)
T 3fp2_A          331 EDFQKAQSLNP-ENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLE  408 (537)
T ss_dssp             HHHHHHHHHCT-TCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC
Confidence            99999887643 245678889999999999999999999998852 3356688889999999999999999999987654

>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=99.70  E-value=5.1e-15  Score=144.18  Aligned_cols=282  Identities=8%  Similarity=-0.057  Sum_probs=222.0

Q ss_pred             hHHH-HHHHhhccCCCCc-cChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHH
Q 047221          176 SALC-FLKYMREIMPEFY-KNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRV  253 (509)
Q Consensus       176 ~A~~-~~~~~~~~~p~~~-~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~  253 (509)
                      .|++ .|+......|+.. .+...|..+...+.+.|++++|...|+++.+.. +.+...+..+.. +....|++++|...
T Consensus        43 ~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~-~~~~~g~~~~A~~~  120 (368)
T 1fch_A           43 DLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGT-TQAENEQELLAISA  120 (368)
T ss_dssp             ---CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHH-HHHHTTCHHHHHHH
T ss_pred             HHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH-HHHHCcCHHHHHHH
Confidence            5666 6665534444321 234578899999999999999999999998764 234556666666 45556669999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHH---------------HHHHHHhcCCccH
Q 047221          254 VEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNI---------------LIKEMCRRCDFKG  314 (509)
Q Consensus       254 ~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~---------------li~~~~~~g~~~~  314 (509)
                      ++.+.+.. +.+..++..+..+|...|++++|...|+++    +.+...+..               .+..+...|++++
T Consensus       121 ~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  199 (368)
T 1fch_A          121 LRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLE  199 (368)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHH
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHH
Confidence            99998875 457888999999999999999999999986    223333221               2344448999999


Q ss_pred             HHHHHHHHHHcCCC-CChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 047221          315 PRDLLVEMRQVGCE-PITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMV  393 (509)
Q Consensus       315 A~~~~~~m~~~g~~-p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  393 (509)
                      |.+.|+++.+..-. ++..++..+...|.+.|++++|...++++.+.. +.+...|..+...|.+.|++++|...|+++.
T Consensus       200 A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  278 (368)
T 1fch_A          200 VKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRAL  278 (368)
T ss_dssp             HHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            99999999876421 157899999999999999999999999988762 3467899999999999999999999999998


Q ss_pred             HCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCC----------CHHHHHHHHHHHHhCCChHHHHHHHHHH
Q 047221          394 KRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSS----------SNMLYSLLASLHDKNNNPVMAKNVLSEM  462 (509)
Q Consensus       394 ~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p----------~~~~~~~li~~~~~~g~~~~a~~~~~~m  462 (509)
                      +.. +.+..++..+..+|.+.|++++|...|+++.+.....          ...+|..+..+|...|+.++|..++++.
T Consensus       279 ~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  356 (368)
T 1fch_A          279 ELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADARD  356 (368)
T ss_dssp             HHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTTC
T ss_pred             HhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHHHH
Confidence            763 4467899999999999999999999999887642211          2678999999999999999999988743

>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=99.70  E-value=3.2e-15  Score=142.79  Aligned_cols=264  Identities=9%  Similarity=-0.079  Sum_probs=143.6

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 047221          196 DICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEM  275 (509)
Q Consensus       196 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  275 (509)
                      ..|..+...+.+.|++++|..+|+++.+... -+...+..+.. ++...|++++|...++.+.+.. +.+..++..+...
T Consensus        22 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~-~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~   98 (327)
T 3cv0_A           22 ENPMEEGLSMLKLANLAEAALAFEAVCQAAP-EREEAWRSLGL-TQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVS   98 (327)
T ss_dssp             SCHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH-HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHH-HHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHH
Confidence            3566666677777777777777777655321 13333333333 2223333555555555555432 2234444455555


Q ss_pred             HHhcCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHH--------------HH-H
Q 047221          276 FSVLGLYEMAKYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYV--------------LG-V  340 (509)
Q Consensus       276 ~~~~g~~~~A~~~~~~m~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l--------------i~-~  340 (509)
                      |...|++++|...+++                              +.+.. +.+...+..+              .. .
T Consensus        99 ~~~~~~~~~A~~~~~~------------------------------~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~  147 (327)
T 3cv0_A           99 HTNEHNANAALASLRA------------------------------WLLSQ-PQYEQLGSVNLQADVDIDDLNVQSEDFF  147 (327)
T ss_dssp             HHHTTCHHHHHHHHHH------------------------------HHHTS-TTTTTC--------------------CC
T ss_pred             HHHcCCHHHHHHHHHH------------------------------HHHhC-CccHHHHHHHhHHHHHHHHHHHHHHhHH
Confidence            5555555555555544                              44321 1111111111              11 2


Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHH
Q 047221          341 LCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDA  420 (509)
Q Consensus       341 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A  420 (509)
                      +...|++++|.+.++++.+.. +.+...+..+...|.+.|++++|...++++.+.. +.+..++..+...|...|++++|
T Consensus       148 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A  225 (327)
T 3cv0_A          148 FAAPNEYRECRTLLHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEA  225 (327)
T ss_dssp             TTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHH
Confidence            555566666666666665542 2245566666666666666666666666665542 23455666666666666666666


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCc-----------CHHHHHHHHHHHHhcCCHHH
Q 047221          421 YKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRP-----------NVSVYRRVLKHLHTSHQEHM  489 (509)
Q Consensus       421 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-----------~~~t~~~ll~~~~~~g~~~~  489 (509)
                      ...|+++.+.. ..+...|..+...|...|++++|.+.++++.+..-..           +...+..+..++.+.|++++
T Consensus       226 ~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  304 (327)
T 3cv0_A          226 LDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDL  304 (327)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHH
Confidence            66666665542 2245566666666667777777777776665521110           24566666667777777777


Q ss_pred             HHHHHHH
Q 047221          490 AKCLSSR  496 (509)
Q Consensus       490 a~~~~~~  496 (509)
                      |..++++
T Consensus       305 A~~~~~~  311 (327)
T 3cv0_A          305 VELTYAQ  311 (327)
T ss_dssp             HHHHTTC
T ss_pred             HHHHHHH
Confidence            7666653

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.70  E-value=4.8e-15  Score=139.64  Aligned_cols=269  Identities=12%  Similarity=0.048  Sum_probs=182.7

Q ss_pred             HHHHhccCCHHHHHHHHHHhhhCCCccCH--HHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Q 047221          202 IDNCGRLDDYETMRQLLNDFNVYQVCLNE--KAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVL  279 (509)
Q Consensus       202 i~~~~~~g~~~~A~~l~~~m~~~~~~p~~--~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  279 (509)
                      |+.....|++..|+..++....  ..|+.  .....+..++...+ +.+.|...++.    ..+|+..++..+...|...
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~--~~p~~~~e~~~~l~r~yi~~g-~~~~al~~~~~----~~~~~~~a~~~la~~~~~~   78 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKP--SSPERDVERDVFLYRAYLAQR-KYGVVLDEIKP----SSAPELQAVRMFAEYLASH   78 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCC--CSHHHHHHHHHHHHHHHHHTT-CHHHHHHHSCT----TSCHHHHHHHHHHHHHHCS
T ss_pred             HHHHHHHHHHHHHHHHHHhccc--CCchhhHHHHHHHHHHHHHCC-CHHHHHHHhcc----cCChhHHHHHHHHHHHcCC
Confidence            3445567888888888877633  33443  23344445444444 47777765543    2455667778888888888


Q ss_pred             CCHHHHHHHHHHc------CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHH
Q 047221          280 GLYEMAKYVIKKT------ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACEL  353 (509)
Q Consensus       280 g~~~~A~~~~~~m------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~  353 (509)
                      |+.++|.+.++++      +.+...+..+...|.+.|++++|++.+++      ..+...+..+...|.+.|++++|.+.
T Consensus        79 ~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~  152 (291)
T 3mkr_A           79 SRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKE  152 (291)
T ss_dssp             TTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            8888888888774      23566677777888888888888888876      45677778888888888888888888


Q ss_pred             HHHHHhCCCCCCHHHH---HHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 047221          354 LEEMLGRNCHPDAITY---EIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADK  430 (509)
Q Consensus       354 ~~~m~~~g~~p~~~~~---~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  430 (509)
                      |+++.+..  |+....   ...+..+...|++++|..+|+++.+. .+.+...++.+..+|.+.|++++|...|++..+.
T Consensus       153 l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~  229 (291)
T 3mkr_A          153 LKKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDK  229 (291)
T ss_dssp             HHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            88887763  443211   12233344457888888888888876 3557778888888888888888888888887765


Q ss_pred             CCCCCHHHHHHHHHHHHhCCChHH-HHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHH
Q 047221          431 YKSSSNMLYSLLASLHDKNNNPVM-AKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKC  492 (509)
Q Consensus       431 ~~~p~~~~~~~li~~~~~~g~~~~-a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~  492 (509)
                      . +-+..++..++..+...|+.++ +.++++++.+  +.|+....   .+...+.+.++++..
T Consensus       230 ~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~--~~P~~~~~---~d~~~~~~~fd~~~~  286 (291)
T 3mkr_A          230 D-SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKD--AHRSHPFI---KEYRAKENDFDRLVL  286 (291)
T ss_dssp             C-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH--HCTTCHHH---HHHHHHHHHHHHHHH
T ss_pred             C-CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHH--hCCCChHH---HHHHHHHHHHHHHHH
Confidence            3 2356677778888888888765 5678887776  44554432   334455555555544

>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=99.70  E-value=6.9e-15  Score=140.49  Aligned_cols=232  Identities=10%  Similarity=-0.020  Sum_probs=191.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHH
Q 047221          267 SGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLC  342 (509)
Q Consensus       267 ~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~  342 (509)
                      ..+..+...+...|++++|..+|+++    +.+..+|..+...+.+.|++++|.+.|+++.+.. +.+..++..+...|.
T Consensus        22 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~  100 (327)
T 3cv0_A           22 ENPMEEGLSMLKLANLAEAALAFEAVCQAAPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHT  100 (327)
T ss_dssp             SCHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHHH
Confidence            34567778888899999999998886    5678889999999999999999999999998764 457788999999999


Q ss_pred             hcCChHHHHHHHHHHHhCCCCCCHHHHHHH--------------HH-HHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHH
Q 047221          343 KNGQDADACELLEEMLGRNCHPDAITYEIF--------------IV-YSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAF  407 (509)
Q Consensus       343 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l--------------i~-~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  407 (509)
                      ..|++++|.+.++++.+... .+...+..+              .. .+...|++++|...++++.+.. +.+...+..+
T Consensus       101 ~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l  178 (327)
T 3cv0_A          101 NEHNANAALASLRAWLLSQP-QYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASL  178 (327)
T ss_dssp             HTTCHHHHHHHHHHHHHTST-TTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCC-ccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHH
Confidence            99999999999999987632 122223222              22 3778899999999999998764 3478899999


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCH
Q 047221          408 IKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQE  487 (509)
Q Consensus       408 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~  487 (509)
                      ...|...|++++|.+.++++.+.. ..+..+|..+...+...|++++|++.++++.+.. +.+...+..+...+.+.|++
T Consensus       179 a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~  256 (327)
T 3cv0_A          179 GVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQY  256 (327)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccH
Confidence            999999999999999999988764 3357789999999999999999999999998752 33577899999999999999


Q ss_pred             HHHHHHHHHHHhCCCC
Q 047221          488 HMAKCLSSRYSSLSLG  503 (509)
Q Consensus       488 ~~a~~~~~~m~~~~~~  503 (509)
                      ++|.+.+++..+..+.
T Consensus       257 ~~A~~~~~~a~~~~~~  272 (327)
T 3cv0_A          257 DLAAKQLVRAIYMQVG  272 (327)
T ss_dssp             HHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhCCc
Confidence            9999999998876544

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.70  E-value=2.2e-15  Score=146.92  Aligned_cols=263  Identities=9%  Similarity=-0.010  Sum_probs=209.8

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 047221          194 NSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALI  273 (509)
Q Consensus       194 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li  273 (509)
                      +...|..+...+.+.|++++|..+|+++.... +.+...+..+...+. ..|++++|...++.+.+.. +.+..++..+.
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~-~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~  140 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQA-ENENEQAAIVALQRCLELQ-PNNLKALMALA  140 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHH-HCCCHHHHHHHHHHHHhcC-CCCHHHHHHHH
Confidence            44578999999999999999999999997764 235666776666444 5566999999999998865 45678899999


Q ss_pred             HHHHhcCCHHHHHHHHHHc---CCC-----------HHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCC-CChHHHHHHH
Q 047221          274 EMFSVLGLYEMAKYVIKKT---ERK-----------VSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCE-PITLTYNYVL  338 (509)
Q Consensus       274 ~~~~~~g~~~~A~~~~~~m---~~~-----------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~~~t~~~li  338 (509)
                      .+|...|++++|...|+++   .|+           ...+..+...|.+.|++++|++.|+++.+..-. .+..++..+.
T Consensus       141 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~  220 (365)
T 4eqf_A          141 VSYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLG  220 (365)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHH
T ss_pred             HHHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHH
Confidence            9999999999999999886   221           233445688999999999999999999987421 2688999999


Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHH
Q 047221          339 GVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYE  418 (509)
Q Consensus       339 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  418 (509)
                      ..|...|++++|.+.|++..+.. +.+..+|..+..+|.+.|++++|...|+++.+.. +.+..++..+..+|.+.|+++
T Consensus       221 ~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~  298 (365)
T 4eqf_A          221 VLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYR  298 (365)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHH
Confidence            99999999999999999998862 4468899999999999999999999999998763 335889999999999999999


Q ss_pred             HHHHHHHHHHhCCCC-----------CCHHHHHHHHHHHHhCCChHHHHHHHHH
Q 047221          419 DAYKYVVLSADKYKS-----------SSNMLYSLLASLHDKNNNPVMAKNVLSE  461 (509)
Q Consensus       419 ~A~~~~~~m~~~~~~-----------p~~~~~~~li~~~~~~g~~~~a~~~~~~  461 (509)
                      +|...|+++.+....           .+...|..+..++...|+.+.+.++.++
T Consensus       299 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          299 EAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            999999988764211           1356899999999999999998887765

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.67  E-value=4e-14  Score=133.31  Aligned_cols=243  Identities=8%  Similarity=0.042  Sum_probs=153.4

Q ss_pred             hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHH
Q 047221          176 SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVE  255 (509)
Q Consensus       176 ~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~  255 (509)
                      .|+..++......|+.  .....-.+.++|...|+++.|+..++..    -.|+..++..+.. ++...++.++|.+.++
T Consensus        17 ~ai~~~~~~~~~~p~~--~~e~~~~l~r~yi~~g~~~~al~~~~~~----~~~~~~a~~~la~-~~~~~~~~~~A~~~l~   89 (291)
T 3mkr_A           17 QCINEAQRVKPSSPER--DVERDVFLYRAYLAQRKYGVVLDEIKPS----SAPELQAVRMFAE-YLASHSRRDAIVAELD   89 (291)
T ss_dssp             HHHHHHHHSCCCSHHH--HHHHHHHHHHHHHHTTCHHHHHHHSCTT----SCHHHHHHHHHHH-HHHCSTTHHHHHHHHH
T ss_pred             HHHHHHHhcccCCchh--hHHHHHHHHHHHHHCCCHHHHHHHhccc----CChhHHHHHHHHH-HHcCCCcHHHHHHHHH
Confidence            5666665553333331  1224455667777777777777655431    2344555555555 4445555777777777


Q ss_pred             HHHHcCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHH
Q 047221          256 VLNQVGG-SCLVSGVRALIEMFSVLGLYEMAKYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTY  334 (509)
Q Consensus       256 ~m~~~g~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~  334 (509)
                      ++...+. +-+...+..+..+|...|++++|.+.+++ +.+...+..++..|.+.|++++|.+.|+++.+..  |+....
T Consensus        90 ~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~-~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~  166 (291)
T 3mkr_A           90 REMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ-GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD--EDATLT  166 (291)
T ss_dssp             HHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT-CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHH
T ss_pred             HHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cCcHHH
Confidence            7776653 33455566666777777777777777777 5667777777777777777777777777777653  443211


Q ss_pred             ---HHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 047221          335 ---NYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGY  411 (509)
Q Consensus       335 ---~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  411 (509)
                         ...+..+...|++++|..+|+++.+. .+.+...++.+..++.+.|++++|+..|++..+.. +-+..++..++..+
T Consensus       167 ~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-p~~~~~l~~l~~~~  244 (291)
T 3mkr_A          167 QLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-SGHPETLINLVVLS  244 (291)
T ss_dssp             HHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence               11223333447777777777777765 34566777777777777777777777777766652 33566777777777


Q ss_pred             HHcCCHHH-HHHHHHHHHhC
Q 047221          412 FIFYRYED-AYKYVVLSADK  430 (509)
Q Consensus       412 ~~~g~~~~-A~~~~~~m~~~  430 (509)
                      ...|+.++ +.++++++.+.
T Consensus       245 ~~~g~~~eaa~~~~~~~~~~  264 (291)
T 3mkr_A          245 QHLGKPPEVTNRYLSQLKDA  264 (291)
T ss_dssp             HHTTCCHHHHHHHHHHHHHH
T ss_pred             HHcCCCHHHHHHHHHHHHHh
Confidence            77777654 45677766654

>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=99.63  E-value=4.9e-16  Score=150.50  Aligned_cols=254  Identities=9%  Similarity=-0.011  Sum_probs=103.4

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 047221          197 ICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMF  276 (509)
Q Consensus       197 ~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  276 (509)
                      +-+.||.   +.|++++|.+.++++      ++..+|..+..+++.. +++++|.+.|..      .+|..+|..++..+
T Consensus         8 a~~~ll~---~~~~ld~A~~fae~~------~~~~vWs~La~A~l~~-g~~~eAIdsfik------a~D~~~y~~V~~~a   71 (449)
T 1b89_A            8 AVQVLIE---HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQK-GMVKEAIDSYIK------ADDPSSYMEVVQAA   71 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHH---HccCHHHHHHHHHhC------CChHHHHHHHHHHHHc-CCHHHHHHHHHc------CCCHHHHHHHHHHH
Confidence            4444443   667788888888887      4556888888855544 448888888864      25677888888889


Q ss_pred             HhcCCHHHHHHHHHHcC---CCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHH
Q 047221          277 SVLGLYEMAKYVIKKTE---RKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACEL  353 (509)
Q Consensus       277 ~~~g~~~~A~~~~~~m~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~  353 (509)
                      ...|++++|+..++...   ++..+.+.++.+|.+.|+++++.++++       .|+..+|..+...|...|++++|...
T Consensus        72 e~~g~~EeAi~yl~~ark~~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~  144 (449)
T 1b89_A           72 NTSGNWEELVKYLQMARKKARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLL  144 (449)
T ss_dssp             -------------------------------------CHHHHTTTTT-------CC----------------CTTTHHHH
T ss_pred             HhCCCHHHHHHHHHHHHHhCccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHH
Confidence            88999999998776653   445778888999999999988888874       37777999999999999999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCC
Q 047221          354 LEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKS  433 (509)
Q Consensus       354 ~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  433 (509)
                      |..+         ..|..+..++.+.|++++|.+.++++   +   ++.+|..++.+|...|+++.|......     +.
T Consensus       145 Y~~a---------~n~~~LA~~L~~Lg~yq~AVea~~KA---~---~~~~Wk~v~~aCv~~~ef~lA~~~~l~-----L~  204 (449)
T 1b89_A          145 YNNV---------SNFGRLASTLVHLGEYQAAVDGARKA---N---STRTWKEVCFACVDGKEFRLAQMCGLH-----IV  204 (449)
T ss_dssp             HHHT---------TCHHHHHHHHHTTTCHHHHHHHHHHH---T---CHHHHHHHHHHHHHTTCHHHHHHTTTT-----TT
T ss_pred             HHHh---------hhHHHHHHHHHHhccHHHHHHHHHHc---C---CchhHHHHHHHHHHcCcHHHHHHHHHH-----HH
Confidence            9866         36888899999999999999998887   2   788899999999999999998555433     22


Q ss_pred             CCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhc--CCHHHHHHHH
Q 047221          434 SSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTS--HQEHMAKCLS  494 (509)
Q Consensus       434 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~--g~~~~a~~~~  494 (509)
                      ....-...++..|.+.|++++|+.+++...... .-....|+-+-.+|++-  |+..+.+++|
T Consensus       205 ~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~  266 (449)
T 1b89_A          205 VHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELF  266 (449)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hCHhhHHHHHHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            333334568888899999999999998887543 34456677776666654  3344444433

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.63  E-value=2.7e-11  Score=122.97  Aligned_cols=318  Identities=9%  Similarity=-0.064  Sum_probs=248.1

Q ss_pred             HHHHHHHHHHHhc----CCc--hHHHHHHHhhccCCCCccChhHHHHHHHHHhc----cCCHHHHHHHHHHhhhCCCccC
Q 047221          160 NASVIEILRVLNS----EKV--SALCFLKYMREIMPEFYKNSDICSLVIDNCGR----LDDYETMRQLLNDFNVYQVCLN  229 (509)
Q Consensus       160 ~~~~~~ll~~~~~----~~~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~----~g~~~~A~~l~~~m~~~~~~p~  229 (509)
                      ...+..+=..+..    .++  +|++.|+.....     .+...+..|...|..    .+++++|.+.|++..+.|   +
T Consensus        75 ~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~-----~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~  146 (490)
T 2xm6_A           75 TPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALK-----GLPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---R  146 (490)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-----TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---C
T ss_pred             HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC-----CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---C
Confidence            4444444444443    333  688888887321     134477778888877    788999999999988776   4


Q ss_pred             HHHHHHHHHHHHh---ccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHc--CCCHHHHH
Q 047221          230 EKAFGFLPVLISS---KALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSV----LGLYEMAKYVIKKT--ERKVSYYN  300 (509)
Q Consensus       230 ~~~~~~ll~~~~~---~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m--~~~~~~~~  300 (509)
                      ...+..+-..+..   ..++.++|...|+...+.|   +...+..|..+|..    .++.++|.+.|++.  ..+..++.
T Consensus       147 ~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~  223 (490)
T 2xm6_A          147 DSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSGDELGQL  223 (490)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCCCHHHHH
Confidence            5555555554443   1456899999999888764   67788888888888    78999999999886  46777888


Q ss_pred             HHHHHHHh----cCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHh----cCChHHHHHHHHHHHhCCCCCCHHHHHHH
Q 047221          301 ILIKEMCR----RCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCK----NGQDADACELLEEMLGRNCHPDAITYEIF  372 (509)
Q Consensus       301 ~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  372 (509)
                      .+...|..    .+++++|.+.|++..+.|   +...+..+...|..    .++.++|.+.|+...+.|   +...+..+
T Consensus       224 ~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~L  297 (490)
T 2xm6_A          224 HLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYL  297 (490)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHH
T ss_pred             HHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHH
Confidence            88888886    788999999999888764   45667777777777    889999999999988765   56677778


Q ss_pred             HHHHHHc-----CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 047221          373 IVYSCRV-----GKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFY---RYEDAYKYVVLSADKYKSSSNMLYSLLAS  444 (509)
Q Consensus       373 i~~~~~~-----g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~~~~p~~~~~~~li~  444 (509)
                      -..|...     ++.++|...|++..+.|   +...+..|...|...|   +.++|.++|++..+.+   +...+..|..
T Consensus       298 g~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~  371 (490)
T 2xm6_A          298 AHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLGN  371 (490)
T ss_dssp             HHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHCC---CHHHHHHHHH
Confidence            7888877     89999999999998876   6677888888888766   7889999999988875   6778888899


Q ss_pred             HHHh----CCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCC
Q 047221          445 LHDK----NNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHT----SHQEHMAKCLSSRYSSLSLG  503 (509)
Q Consensus       445 ~~~~----~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~----~g~~~~a~~~~~~m~~~~~~  503 (509)
                      .|..    .++.++|++.|++..+.|   +...+..|-..|.+    .++.++|...+++..+.+..
T Consensus       372 ~y~~g~g~~~~~~~A~~~~~~A~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~  435 (490)
T 2xm6_A          372 ALLQGKGVKKDEQQAAIWMRKAAEQG---LSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTNDMN  435 (490)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHHCC
T ss_pred             HHHcCCCCCCCHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCC
Confidence            8988    899999999999998876   46677788888887    89999999999998887643

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.63  E-value=1.7e-11  Score=124.48  Aligned_cols=283  Identities=12%  Similarity=0.001  Sum_probs=138.3

Q ss_pred             HHHHHHHHHhc----cCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhc---cCCHHHHHHHHHHHHHcCCCCCHHHH
Q 047221          197 ICSLVIDNCGR----LDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSK---ALTKKGIWRVVEVLNQVGGSCLVSGV  269 (509)
Q Consensus       197 ~~~~li~~~~~----~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~---~~~~~~a~~~~~~m~~~g~~~~~~~~  269 (509)
                      .+..|-..|..    .+++++|.+.|++..+.|   +...+..+-..+...   .++.++|...++...+.|   +...+
T Consensus        77 a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~  150 (490)
T 2xm6_A           77 AEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQ  150 (490)
T ss_dssp             HHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHH
Confidence            44455555554    555555555555554443   233333333322220   223555555555555443   33444


Q ss_pred             HHHHHHHHh----cCCHHHHHHHHHHc--CCCHHHHHHHHHHHHh----cCCccHHHHHHHHHHHcCCCCChHHHHHHHH
Q 047221          270 RALIEMFSV----LGLYEMAKYVIKKT--ERKVSYYNILIKEMCR----RCDFKGPRDLLVEMRQVGCEPITLTYNYVLG  339 (509)
Q Consensus       270 ~~li~~~~~----~g~~~~A~~~~~~m--~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~  339 (509)
                      ..|..+|..    .+++++|.+.|++.  ..+..++..+...|.+    .++.++|++.|++..+.|   +...+..+..
T Consensus       151 ~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~  227 (490)
T 2xm6_A          151 QSMGDAYFEGDGVTRDYVMAREWYSKAAEQGNVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLAD  227 (490)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHH
Confidence            455555554    44555555555543  2344555555555554    455555555555555433   3344444444


Q ss_pred             HHHh----cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 047221          340 VLCK----NGQDADACELLEEMLGRNCHPDAITYEIFIVYSCR----VGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGY  411 (509)
Q Consensus       340 ~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  411 (509)
                      .|..    .+++++|.+.|++..+.|   +...+..+-..|..    .++.++|...|++..+.|   +...+..|...|
T Consensus       228 ~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y  301 (490)
T 2xm6_A          228 MYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLY  301 (490)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHH
T ss_pred             HHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHH
Confidence            4443    455555555555555443   33344444444444    455555555555555443   344444455555


Q ss_pred             HHc-----CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCC---ChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh
Q 047221          412 FIF-----YRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNN---NPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHT  483 (509)
Q Consensus       412 ~~~-----g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~  483 (509)
                      ...     ++.++|...|++..+.+   +...+..+...|...|   +.++|+++|++..+.|   +...+..+-..|..
T Consensus       302 ~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~  375 (490)
T 2xm6_A          302 DKGAEGVAKNREQAISWYTKSAEQG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNALLQ  375 (490)
T ss_dssp             HHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHH
T ss_pred             HcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHCC---CHHHHHHHHHHHHc
Confidence            544     55555555555555443   3334444555554444   4555555555555442   33444444445544


Q ss_pred             ----cCCHHHHHHHHHHHHhC
Q 047221          484 ----SHQEHMAKCLSSRYSSL  500 (509)
Q Consensus       484 ----~g~~~~a~~~~~~m~~~  500 (509)
                          .+++++|.+.+++..+.
T Consensus       376 g~g~~~~~~~A~~~~~~A~~~  396 (490)
T 2xm6_A          376 GKGVKKDEQQAAIWMRKAAEQ  396 (490)
T ss_dssp             TSSSCCCHHHHHHHHHHHHHT
T ss_pred             CCCCCCCHHHHHHHHHHHHhC
Confidence                45555555555555444

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.59  E-value=2.6e-11  Score=124.36  Aligned_cols=182  Identities=9%  Similarity=0.020  Sum_probs=95.4

Q ss_pred             HHHHHHHHHHHcCCCCChHHHHHHHHHHHh-------cCChH-------HHHHHHHHHHhCCCCCCHHHHHHHHHHHHHc
Q 047221          314 GPRDLLVEMRQVGCEPITLTYNYVLGVLCK-------NGQDA-------DACELLEEMLGRNCHPDAITYEIFIVYSCRV  379 (509)
Q Consensus       314 ~A~~~~~~m~~~g~~p~~~t~~~li~~~~~-------~g~~~-------~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  379 (509)
                      +|..+|++..... +-+...|......+.+       .|+++       +|..+|++..+.-.+-+...|..++..+.+.
T Consensus       256 ~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~  334 (530)
T 2ooe_A          256 RVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESR  334 (530)
T ss_dssp             HHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhc
Confidence            3344444444331 2234445555554443       46655       5666666665421223455666666666666


Q ss_pred             CChHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH-HHHhCCChHHHH
Q 047221          380 GKFDVAFNFFNQMVKRGLQPR--LATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLAS-LHDKNNNPVMAK  456 (509)
Q Consensus       380 g~~~~a~~~~~~m~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~-~~~~~g~~~~a~  456 (509)
                      |++++|..+|+++.+.  .|+  ...|..++..+.+.|++++|.++|++..+.... +...|...+. .+...|+.++|.
T Consensus       335 g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~~-~~~~~~~~a~~~~~~~~~~~~A~  411 (530)
T 2ooe_A          335 MKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALMEYYCSKDKSVAF  411 (530)
T ss_dssp             TCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTTC-CTHHHHHHHHHHHHHTCCHHHHH
T ss_pred             CCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccCC-chHHHHHHHHHHHHHcCChhHHH
Confidence            6666666666666653  332  235666666666666666666666665554211 1111211111 122456666666


Q ss_pred             HHHHHHHHCCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 047221          457 NVLSEMMKNGLRP-NVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLS  501 (509)
Q Consensus       457 ~~~~~m~~~g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~  501 (509)
                      ++|++..+.  .| +...|..++..+.+.|+.++|..+|++....+
T Consensus       412 ~~~e~al~~--~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~  455 (530)
T 2ooe_A          412 KIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSG  455 (530)
T ss_dssp             HHHHHHHHH--HTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHH--CCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhcc
Confidence            666665552  23 34555666666666666666666666665543

>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=99.58  E-value=5.7e-12  Score=117.29  Aligned_cols=220  Identities=10%  Similarity=-0.092  Sum_probs=113.7

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHc--CCCHHHHHHHHHHHHh----cCCccHHHHHHHHHHHcCCCCChHHHHHHHHH
Q 047221          267 SGVRALIEMFSVLGLYEMAKYVIKKT--ERKVSYYNILIKEMCR----RCDFKGPRDLLVEMRQVGCEPITLTYNYVLGV  340 (509)
Q Consensus       267 ~~~~~li~~~~~~g~~~~A~~~~~~m--~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~  340 (509)
                      .++..+...|...|++++|...|++.  +.+..++..+...|..    .+++++|++.|++..+.+   +...+..+...
T Consensus         7 ~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~   83 (273)
T 1ouv_A            7 KELVGLGAKSYKEKDFTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLGNL   83 (273)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHHHHH
Confidence            34444555555555555555555543  3334445555555555    555555555555555443   44455555555


Q ss_pred             HHh----cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 047221          341 LCK----NGQDADACELLEEMLGRNCHPDAITYEIFIVYSCR----VGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYF  412 (509)
Q Consensus       341 ~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  412 (509)
                      |..    .+++++|.+.|++..+.+   +...+..+-..|.+    .+++++|...|++..+.+   +...+..+...|.
T Consensus        84 ~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~  157 (273)
T 1ouv_A           84 YYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSLYD  157 (273)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH
T ss_pred             HhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHHHHH
Confidence            555    555555555555555543   44455555555555    555555555555555543   3444455555555


Q ss_pred             H----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----CCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh-
Q 047221          413 I----FYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDK----NNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHT-  483 (509)
Q Consensus       413 ~----~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~-  483 (509)
                      .    .+++++|...|++..+.+   +...+..+...|..    .+++++|++.|++..+.+.   ...+..+...|.+ 
T Consensus       158 ~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~---~~a~~~l~~~~~~g  231 (273)
T 1ouv_A          158 AGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELEN---GGGCFNLGAMQYNG  231 (273)
T ss_dssp             HTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHTT
T ss_pred             cCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCC---HHHHHHHHHHHHcC
Confidence            5    555555555555555443   33444455555555    5555555555555555431   3344444445555 


Q ss_pred             ---cCCHHHHHHHHHHHHhCC
Q 047221          484 ---SHQEHMAKCLSSRYSSLS  501 (509)
Q Consensus       484 ---~g~~~~a~~~~~~m~~~~  501 (509)
                         .+++++|.+.+++..+.|
T Consensus       232 ~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          232 EGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             SSSSCCSTTHHHHHHHHHHHT
T ss_pred             CCcccCHHHHHHHHHHHHHcC
Confidence               555555555555555444

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.57  E-value=3.1e-13  Score=121.46  Aligned_cols=198  Identities=11%  Similarity=-0.021  Sum_probs=95.1

Q ss_pred             CCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 047221          294 RKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFI  373 (509)
Q Consensus       294 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  373 (509)
                      ++...|..+...+.+.|++++|+..|++..+.. +.+...+..+..++.+.|++++|...+++..+.. +.+...+..+.
T Consensus         3 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg   80 (217)
T 2pl2_A            3 TAEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLS   80 (217)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHH
Confidence            333444444444444444444544444444332 2234444444444445555555555554444431 12334444444


Q ss_pred             HHHHHc-----------CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 047221          374 VYSCRV-----------GKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLL  442 (509)
Q Consensus       374 ~~~~~~-----------g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l  442 (509)
                      ..+.+.           |++++|...|++..+.. +-+...+..+..+|...|++++|...|++..+..  .+...+..+
T Consensus        81 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~l  157 (217)
T 2pl2_A           81 EAYVALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSAL  157 (217)
T ss_dssp             HHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHH
T ss_pred             HHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHH
Confidence            444444           66666666666655542 2234555566666666666666666666665554  455556666


Q ss_pred             HHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 047221          443 ASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRY  497 (509)
Q Consensus       443 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m  497 (509)
                      ...|...|++++|++.|++..+.. +-+...+..+...+.+.|++++|++.+++.
T Consensus       158 a~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          158 AELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC--------------
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            666666666666666666665531 123445555566666666666666666554

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.57  E-value=1.7e-12  Score=116.46  Aligned_cols=198  Identities=11%  Similarity=0.018  Sum_probs=137.3

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHH
Q 047221          265 LVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGV  340 (509)
Q Consensus       265 ~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~  340 (509)
                      +...+..+...|...|++++|...|++.    +.+...|..+...|...|++++|.+.|++..+.. +.+..++..+...
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~   85 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWF   85 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHH
Confidence            3455667777777777777777777764    4456777777777777777777777777777653 3456677777777


Q ss_pred             HHhc-CChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHH
Q 047221          341 LCKN-GQDADACELLEEMLGRNCHPD-AITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYE  418 (509)
Q Consensus       341 ~~~~-g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  418 (509)
                      |... |++++|.+.++++.+.+..|+ ...+..+...+.+.|++++|...++++.+.. +.+...+..+..+|.+.|+++
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~  164 (225)
T 2vq2_A           86 LCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQLG  164 (225)
T ss_dssp             HHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCHH
Confidence            7777 777777777777776322333 4566677777777777777777777776653 234666777777777777777


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 047221          419 DAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       419 ~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      +|...++++.+.....+...+..+...+...|+.++|..+++.+.+
T Consensus       165 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  210 (225)
T 2vq2_A          165 DADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQA  210 (225)
T ss_dssp             HHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            7777777766653323555666666677777777777777777664

>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=99.57  E-value=1.9e-12  Score=118.81  Aligned_cols=195  Identities=14%  Similarity=0.032  Sum_probs=100.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHH
Q 047221          267 SGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLC  342 (509)
Q Consensus       267 ~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~  342 (509)
                      ..+..+...|...|++++|...|+++    +.+...|..+...|...|++++|.+.|+++.+.. +.+...+..+...|.
T Consensus        38 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~  116 (252)
T 2ho1_A           38 DAYIQLGLGYLQRGNTEQAKVPLRKALEIDPSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFLY  116 (252)
T ss_dssp             HHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHH
Confidence            44555555555555555555555553    2345555555555555555555555555555442 224445555555555


Q ss_pred             hcCChHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 047221          343 KNGQDADACELLEEMLGRNCHP-DAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAY  421 (509)
Q Consensus       343 ~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  421 (509)
                      ..|++++|.++++++.+.+..| +...+..+...|.+.|++++|...++++.+.. +.+...+..+...|...|++++|.
T Consensus       117 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~  195 (252)
T 2ho1_A          117 EQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVPAR  195 (252)
T ss_dssp             HTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHHHH
Confidence            5555555555555555422223 23344555555555555555555555555432 223445555555555555555555


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 047221          422 KYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       422 ~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      ..++++.+.. ..+...+..+...+...|+.++|.++++++.+
T Consensus       196 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~  237 (252)
T 2ho1_A          196 QYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKR  237 (252)
T ss_dssp             HHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            5555554432 12344445555555555555555555555544

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.56  E-value=1.8e-12  Score=118.84  Aligned_cols=204  Identities=12%  Similarity=0.025  Sum_probs=159.2

Q ss_pred             HHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 047221          296 VSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVY  375 (509)
Q Consensus       296 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  375 (509)
                      ...|..+...|...|++++|.+.|+++.+.. +.+...+..+...|...|++++|.+.++++.+.. +.+...+..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHH
Confidence            4567778888888888888888888887764 4467778888888888888888888888887753 3367778888888


Q ss_pred             HHHcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHH
Q 047221          376 SCRVGKFDVAFNFFNQMVKRGLQP-RLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVM  454 (509)
Q Consensus       376 ~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  454 (509)
                      |...|++++|.++++++.+.+..| +...+..+..+|...|++++|.+.|+++.+.. ..+...+..+...|...|++++
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~  193 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVP  193 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHH
Confidence            888888888888888887733344 45677788888888888888888888877654 2356778888888888888888


Q ss_pred             HHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 047221          455 AKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSLG  503 (509)
Q Consensus       455 a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~  503 (509)
                      |.++++++.+. ...+...+..+...+.+.|++++|.++++++.+..+.
T Consensus       194 A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~  241 (252)
T 2ho1_A          194 ARQYYDLFAQG-GGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLYPG  241 (252)
T ss_dssp             HHHHHHHHHTT-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHh-CcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCC
Confidence            88888888764 2345667777788888888888888888888776543

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.55  E-value=3.4e-12  Score=117.13  Aligned_cols=204  Identities=10%  Similarity=-0.026  Sum_probs=134.1

Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CC---C----HHHHHHHHHHHHhcCCccHH
Q 047221          247 KKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ER---K----VSYYNILIKEMCRRCDFKGP  315 (509)
Q Consensus       247 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~---~----~~~~~~li~~~~~~g~~~~A  315 (509)
                      +++|...++...+..  .+..++..+..+|...|++++|...+++.    +.   +    ..+|..+...|.+.|++++|
T Consensus        21 ~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A   98 (258)
T 3uq3_A           21 FDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHKLGDLKKT   98 (258)
T ss_dssp             HHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHHcccHHHH
Confidence            555555555554444  44455556666666666666666666553    11   1    45666777777777777777


Q ss_pred             HHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHC
Q 047221          316 RDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKR  395 (509)
Q Consensus       316 ~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  395 (509)
                      ++.|++..+.  .|+.       ..+.+.|++++|...++.+.+.. +.+...+..+...+...|++++|...++++.+.
T Consensus        99 ~~~~~~a~~~--~~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~  168 (258)
T 3uq3_A           99 IEYYQKSLTE--HRTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKR  168 (258)
T ss_dssp             HHHHHHHHHH--CCCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhc--Cchh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            7777777664  3332       33555677777777777776652 223456667777777778888888888777765


Q ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 047221          396 GLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       396 g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      . +.+..++..+..+|.+.|++++|...|++..+.. ..+...|..+...+.+.|++++|.+.+++..+
T Consensus       169 ~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~  235 (258)
T 3uq3_A          169 A-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETLDAART  235 (258)
T ss_dssp             C-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             C-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            3 3356777777778888888888888887776653 23466677777788888888888888877765

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.54  E-value=8.2e-13  Score=118.65  Aligned_cols=196  Identities=12%  Similarity=-0.037  Sum_probs=145.4

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHH
Q 047221          263 SCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVL  338 (509)
Q Consensus       263 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li  338 (509)
                      +++...+..+...+.+.|++++|...|++.    +.+...|..+...+.+.|++++|+..|++..+.. +-+...+..+.
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg   80 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLS   80 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHH
Confidence            455667778888888888888888888875    4567888888888888888888888888888764 44567778888


Q ss_pred             HHHHhc-----------CChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHH
Q 047221          339 GVLCKN-----------GQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAF  407 (509)
Q Consensus       339 ~~~~~~-----------g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  407 (509)
                      .+|...           |++++|...+++..+.. +-+...+..+-..+...|++++|+..|++..+..  .+...+..+
T Consensus        81 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~l  157 (217)
T 2pl2_A           81 EAYVALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSAL  157 (217)
T ss_dssp             HHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHH
T ss_pred             HHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHH
Confidence            888888           99999999998888752 2356778888888889999999999999988876  678888889


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHH
Q 047221          408 IKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMM  463 (509)
Q Consensus       408 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  463 (509)
                      ..+|...|++++|...|++..+.. +.+...+..+...+...|++++|++.+++..
T Consensus       158 a~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          158 AELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            999999999999999998887753 2356677888888889999999988888654

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.54  E-value=3.5e-12  Score=114.41  Aligned_cols=206  Identities=10%  Similarity=-0.044  Sum_probs=176.1

Q ss_pred             CHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 047221          295 KVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIV  374 (509)
Q Consensus       295 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  374 (509)
                      +...|..+...+...|++++|.+.|+++.+.. +.+...+..+...|...|++++|.+.+++..+.. +.+..++..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~   84 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGW   84 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHH
Confidence            46778899999999999999999999998764 4567889999999999999999999999998763 346788999999


Q ss_pred             HHHHc-CChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCh
Q 047221          375 YSCRV-GKFDVAFNFFNQMVKRGLQPR-LATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNP  452 (509)
Q Consensus       375 ~~~~~-g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  452 (509)
                      .|... |++++|...++++.+.+..|+ ...+..+..+|...|++++|...|+++.+.. ..+...+..+...+...|++
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~  163 (225)
T 2vq2_A           85 FLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQL  163 (225)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCH
Confidence            99999 999999999999988433343 6788899999999999999999999988764 23577889999999999999


Q ss_pred             HHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 047221          453 VMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSLG  503 (509)
Q Consensus       453 ~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~  503 (509)
                      ++|.++++++.+..-..+...+..+...+...|+.++|..+++.+.+..+.
T Consensus       164 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~p~  214 (225)
T 2vq2_A          164 GDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANFPY  214 (225)
T ss_dssp             HHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCC
Confidence            999999999987532246677888888889999999999999998865543

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.54  E-value=2.4e-13  Score=126.33  Aligned_cols=241  Identities=10%  Similarity=-0.009  Sum_probs=167.6

Q ss_pred             CCHHHHHHHHHHHHHcCC---CCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHH
Q 047221          245 LTKKGIWRVVEVLNQVGG---SCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRD  317 (509)
Q Consensus       245 ~~~~~a~~~~~~m~~~g~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~  317 (509)
                      +++++|...++.+.+...   +.+..++..+...|...|++++|...|++.    +.+..+|..+...|...|++++|++
T Consensus        19 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~   98 (275)
T 1xnf_A           19 LQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYE   98 (275)
T ss_dssp             HHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             chHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHccCHHHHHH
Confidence            346666666666665421   123456777777888888888888888775    4567788888888888888888888


Q ss_pred             HHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCC
Q 047221          318 LLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGL  397 (509)
Q Consensus       318 ~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  397 (509)
                      .|++..+.. +.+..++..+...|.+.|++++|.+.|+++.+.  .|+.......+..+...|++++|...+++..... 
T Consensus        99 ~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-  174 (275)
T 1xnf_A           99 AFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS-  174 (275)
T ss_dssp             HHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS-
T ss_pred             HHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-
Confidence            888887753 345777888888888888888888888888775  3444444445555567788888888887776652 


Q ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCC---CHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHH
Q 047221          398 QPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSS---SNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVY  474 (509)
Q Consensus       398 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~  474 (509)
                      +++...+. ++..+...++.++|...+++..+.....   +...|..+...|.+.|++++|.+.|++..+.  .|+.  +
T Consensus       175 ~~~~~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~--~  249 (275)
T 1xnf_A          175 DKEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN--NVHN--F  249 (275)
T ss_dssp             CCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CCTT--C
T ss_pred             CcchHHHH-HHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--Cchh--H
Confidence            33444444 6677777788888888888776542211   1467888888899999999999999998874  3532  2


Q ss_pred             HHHHHHHHhcCCHHHHHHHH
Q 047221          475 RRVLKHLHTSHQEHMAKCLS  494 (509)
Q Consensus       475 ~~ll~~~~~~g~~~~a~~~~  494 (509)
                      .....++...|++++|++.+
T Consensus       250 ~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          250 VEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             HHHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHHHHHhhHHHH
Confidence            23345667778888887765

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.54  E-value=2.5e-12  Score=117.99  Aligned_cols=223  Identities=9%  Similarity=-0.017  Sum_probs=186.7

Q ss_pred             hhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCC--CC----HHH
Q 047221          195 SDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGS--CL----VSG  268 (509)
Q Consensus       195 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~--~~----~~~  268 (509)
                      ...|..+...+...|++++|...|+++.+..  .+...+..+...+. ..+++++|...++...+....  ++    ..+
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~-~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~   81 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEY-EKGEYETAISTLNDAVEQGREMRADYKVISKS   81 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHH-HcccHHHHHHHHHHHHHhCcccccchHHHHHH
Confidence            3478889999999999999999999998877  67777777777444 455599999999998874321  12    578


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHc---CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcC
Q 047221          269 VRALIEMFSVLGLYEMAKYVIKKT---ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNG  345 (509)
Q Consensus       269 ~~~li~~~~~~g~~~~A~~~~~~m---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g  345 (509)
                      +..+...|.+.|++++|...|++.   .++.       ..+.+.|++++|.+.++++.... +.+...+..+...+...|
T Consensus        82 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~  153 (258)
T 3uq3_A           82 FARIGNAYHKLGDLKKTIEYYQKSLTEHRTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTKS  153 (258)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhcCchh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHhc
Confidence            899999999999999999999885   4553       35667788999999999998763 345677888999999999


Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 047221          346 QDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVV  425 (509)
Q Consensus       346 ~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~  425 (509)
                      ++++|...+++..+.. +.+...|..+...|.+.|++++|...+++..+.. +.+...|..+..+|.+.|++++|...|+
T Consensus       154 ~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~  231 (258)
T 3uq3_A          154 DWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETLD  231 (258)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            9999999999998863 4468889999999999999999999999998764 4468889999999999999999999999


Q ss_pred             HHHhC
Q 047221          426 LSADK  430 (509)
Q Consensus       426 ~m~~~  430 (509)
                      +..+.
T Consensus       232 ~a~~~  236 (258)
T 3uq3_A          232 AARTK  236 (258)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            87754

>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=99.54  E-value=4.4e-11  Score=129.04  Aligned_cols=297  Identities=10%  Similarity=0.043  Sum_probs=202.5

Q ss_pred             CCCCHHHHHHHHHHHhcCCc--hHHHHHHHhhccCCC-CccChhHHHHHHH---------------------------HH
Q 047221          156 VSLSNASVIEILRVLNSEKV--SALCFLKYMREIMPE-FYKNSDICSLVID---------------------------NC  205 (509)
Q Consensus       156 ~~~~~~~~~~ll~~~~~~~~--~A~~~~~~~~~~~p~-~~~~~~~~~~li~---------------------------~~  205 (509)
                      -..++.-....++++...|.  +|+++++.+. ..|+ +..+...-+.++.                           .+
T Consensus       981 e~~~PeeVs~~vKaf~~aglp~EaieLLEKiv-l~~s~fs~n~~LqnlLi~tAIkaD~~Rv~eyI~kLd~~d~~eIA~Ia 1059 (1630)
T 1xi4_A          981 ETQDPEEVSVTVKAFMTADLPNELIELLEKIV-LDNSVFSEHRNLQNLLILTAIKADRTRVMEYINRLDNYDAPDIANIA 1059 (1630)
T ss_pred             cccCHHHhHHHHHHHHhCCCHHHHHHHHHHHH-cCCCcccccHHHHHHHHHHHHHhChhhHHHHHHHhhhccHHHHHHHH
Confidence            34566777778888887775  7899999883 3344 2223334454543                           34


Q ss_pred             hccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHH
Q 047221          206 GRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMA  285 (509)
Q Consensus       206 ~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A  285 (509)
                      ...|.+++|..+|++..     -.....+.++.    ..+++++|.++.++.      -+..+|..+..++.+.|++++|
T Consensus      1060 i~lglyEEAf~IYkKa~-----~~~~A~~VLie----~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~~kEA 1124 (1630)
T 1xi4_A         1060 ISNELFEEAFAIFRKFD-----VNTSAVQVLIE----HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEA 1124 (1630)
T ss_pred             HhCCCHHHHHHHHHHcC-----CHHHHHHHHHH----HHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCCHHHH
Confidence            55667777777777642     11222233332    334477777776644      2366778888888888888888


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC
Q 047221          286 KYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPD  365 (509)
Q Consensus       286 ~~~~~~m~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  365 (509)
                      ...|.+. .|...|..++.++.+.|++++|.+.|...++..  ++....+.++.+|++.+++++.....    +   .++
T Consensus      1125 IdsYiKA-dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~---~~n 1194 (1630)
T 1xi4_A         1125 IDSYIKA-DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N---GPN 1194 (1630)
T ss_pred             HHHHHhc-CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---CCC
Confidence            8888765 667777888888888888888888888766653  33333334888888888877544332    2   346


Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 047221          366 AITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASL  445 (509)
Q Consensus       366 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~  445 (509)
                      ...|..+-..|...|++++|..+|...         ..|..+..+|.+.|++++|.+.+++.      -+..+|..+..+
T Consensus      1195 ~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~a 1259 (1630)
T 1xi4_A         1195 NAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFA 1259 (1630)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHH
Confidence            666777788888888888888888874         37888888888888888888888765      255677777777


Q ss_pred             HHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 047221          446 HDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYS  498 (509)
Q Consensus       446 ~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~  498 (509)
                      |...|++..|......     +..+...+..++..|.+.|.+++|+.+++.-.
T Consensus      1260 cve~~Ef~LA~~cgl~-----Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL 1307 (1630)
T 1xi4_A         1260 CVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLEAAL 1307 (1630)
T ss_pred             HhhhhHHHHHHHHHHh-----hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            7777777777665543     33355566777888888888888888886654

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.52  E-value=1.3e-11  Score=124.35  Aligned_cols=341  Identities=9%  Similarity=-0.098  Sum_probs=223.8

Q ss_pred             CHHHHHHHHHHHhcCCc--hHHHHHHHhhcc----CC--CCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCC-----
Q 047221          159 SNASVIEILRVLNSEKV--SALCFLKYMREI----MP--EFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQ-----  225 (509)
Q Consensus       159 ~~~~~~~ll~~~~~~~~--~A~~~~~~~~~~----~p--~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~-----  225 (509)
                      ....|+.+-..+...|+  +|++.|+....+    .+  .......+|+.+...|...|++++|...+++..+..     
T Consensus        50 ~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~  129 (472)
T 4g1t_A           50 KATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSS  129 (472)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhccc
Confidence            34567777667777775  788888876211    11  112345689999999999999999999998875421     


Q ss_pred             -Ccc-CHHHHHHHHHHHHh-ccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH---HHhcCCHHHHHHHHHHc----CCC
Q 047221          226 -VCL-NEKAFGFLPVLISS-KALTKKGIWRVVEVLNQVGGSCLVSGVRALIEM---FSVLGLYEMAKYVIKKT----ERK  295 (509)
Q Consensus       226 -~~p-~~~~~~~ll~~~~~-~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~---~~~~g~~~~A~~~~~~m----~~~  295 (509)
                       ..+ ...++...-.+... ..+++++|...|++..+.. +-+...+..+..+   +...++.++|.+.+++.    +.+
T Consensus       130 ~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~-p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~~  208 (472)
T 4g1t_A          130 PYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK-PKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPDN  208 (472)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSSC
T ss_pred             ccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCcc
Confidence             112 23444433322222 2345899999999998765 3345555555554   44567778888888764    456


Q ss_pred             HHHHHHHHHHHHh----cCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHH
Q 047221          296 VSYYNILIKEMCR----RCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEI  371 (509)
Q Consensus       296 ~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~  371 (509)
                      ..++..+...+..    .|++++|.+.+++..... +.+..++..+...|...|++++|...+++..+.. +-+..++..
T Consensus       209 ~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~  286 (472)
T 4g1t_A          209 QYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHCQ  286 (472)
T ss_dssp             HHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHHH
Confidence            7777776666555    467889999999888764 5567788999999999999999999999988762 334566666


Q ss_pred             HHHHHHHc-------------------CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCC
Q 047221          372 FIVYSCRV-------------------GKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYK  432 (509)
Q Consensus       372 li~~~~~~-------------------g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~  432 (509)
                      +...|...                   +..++|...+++..+.. +.+..++..+...|...|++++|...|++..+...
T Consensus       287 lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~  365 (472)
T 4g1t_A          287 IGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKEFSKEL  365 (472)
T ss_dssp             HHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCC
Confidence            65555322                   23567777887776653 33456788899999999999999999999887654


Q ss_pred             CCCHH--HHHHHHH-HHHhCCChHHHHHHHHHHHHCC-----------------------CCcCHHHHHHHHHHHHhcCC
Q 047221          433 SSSNM--LYSLLAS-LHDKNNNPVMAKNVLSEMMKNG-----------------------LRPNVSVYRRVLKHLHTSHQ  486 (509)
Q Consensus       433 ~p~~~--~~~~li~-~~~~~g~~~~a~~~~~~m~~~g-----------------------~~p~~~t~~~ll~~~~~~g~  486 (509)
                      .+...  .+..+.. .+...|+.++|++.|++..+..                       -+.+..+|..+...|...|+
T Consensus       366 ~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~~~~~~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~  445 (472)
T 4g1t_A          366 TPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSREKEKMKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEK  445 (472)
T ss_dssp             CHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC
Confidence            43321  2222322 2347899999999998876532                       12245678888889999999


Q ss_pred             HHHHHHHHHHHHhCCCC
Q 047221          487 EHMAKCLSSRYSSLSLG  503 (509)
Q Consensus       487 ~~~a~~~~~~m~~~~~~  503 (509)
                      +++|++.+++..+.+..
T Consensus       446 ~~~A~~~y~kALe~~~~  462 (472)
T 4g1t_A          446 MQQADEDSERGLESGSL  462 (472)
T ss_dssp             CC---------------
T ss_pred             HHHHHHHHHHHHhcCCC
Confidence            99999999998877643

>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=99.50  E-value=7.2e-11  Score=109.77  Aligned_cols=205  Identities=10%  Similarity=-0.052  Sum_probs=140.8

Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHc--CCCHHHHHHHHHHHHh----cCCccHHH
Q 047221          247 KKGIWRVVEVLNQVGGSCLVSGVRALIEMFSV----LGLYEMAKYVIKKT--ERKVSYYNILIKEMCR----RCDFKGPR  316 (509)
Q Consensus       247 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m--~~~~~~~~~li~~~~~----~g~~~~A~  316 (509)
                      +++|...|+...+   +.+...+..+..+|..    .|++++|...|++.  ..+..++..+...|..    .+++++|+
T Consensus        22 ~~~A~~~~~~a~~---~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~   98 (273)
T 1ouv_A           22 FTQAKKYFEKACD---LKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNYSNGCHLLGNLYYSGQGVSQNTNKAL   98 (273)
T ss_dssp             HHHHHHHHHHHHH---TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHH
T ss_pred             HHHHHHHHHHHHH---CCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhCCCCcccCHHHHH
Confidence            4444444444444   1223444455555555    66666666666554  2355666666666666    77777777


Q ss_pred             HHHHHHHHcCCCCChHHHHHHHHHHHh----cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCChHHHHHH
Q 047221          317 DLLVEMRQVGCEPITLTYNYVLGVLCK----NGQDADACELLEEMLGRNCHPDAITYEIFIVYSCR----VGKFDVAFNF  388 (509)
Q Consensus       317 ~~~~~m~~~g~~p~~~t~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~a~~~  388 (509)
                      +.|++..+.+   +...+..+...|..    .+++++|.+.|++..+.+   +...+..+-..|..    .+++++|...
T Consensus        99 ~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~  172 (273)
T 1ouv_A           99 QYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALAS  172 (273)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHH
T ss_pred             HHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHH
Confidence            7777776654   56677777777777    788888888888777765   55666667777776    7888888888


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----CCChHHHHHHHH
Q 047221          389 FNQMVKRGLQPRLATHAAFIKGYFI----FYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDK----NNNPVMAKNVLS  460 (509)
Q Consensus       389 ~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~  460 (509)
                      |++..+.+   +...+..+...|..    .+++++|...|++..+.+   +...+..+...|.+    .+++++|++.|+
T Consensus       173 ~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~~~~~~g~~~~~~~~~A~~~~~  246 (273)
T 1ouv_A          173 YDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEKQAIENFK  246 (273)
T ss_dssp             HHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCSTTHHHHHH
T ss_pred             HHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCcccCHHHHHHHHH
Confidence            88877765   56677778888888    888888888888877765   35566777777877    788888888888


Q ss_pred             HHHHCC
Q 047221          461 EMMKNG  466 (509)
Q Consensus       461 ~m~~~g  466 (509)
                      +..+.|
T Consensus       247 ~a~~~~  252 (273)
T 1ouv_A          247 KGCKLG  252 (273)
T ss_dssp             HHHHHT
T ss_pred             HHHHcC
Confidence            877654

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.49  E-value=7.9e-10  Score=113.28  Aligned_cols=338  Identities=10%  Similarity=0.015  Sum_probs=224.5

Q ss_pred             CCCHHHHHHHHHHHh-cCC--chHH----HHHHHh---hccCCCCccChhHHHHHHHHHhc---------cCCHHHHHHH
Q 047221          157 SLSNASVIEILRVLN-SEK--VSAL----CFLKYM---REIMPEFYKNSDICSLVIDNCGR---------LDDYETMRQL  217 (509)
Q Consensus       157 ~~~~~~~~~ll~~~~-~~~--~~A~----~~~~~~---~~~~p~~~~~~~~~~~li~~~~~---------~g~~~~A~~l  217 (509)
                      .|+...+...+.... ..|  ..|.    ++|+..   .|..|   .+...|...+....+         .|+++.|..+
T Consensus        76 ~p~~~lw~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~---~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~  152 (530)
T 2ooe_A           76 VLHIDLWKCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEI---MSYQIWVDYINFLKGVEAVGSYAENQRITAVRRV  152 (530)
T ss_dssp             CCCHHHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTST---TCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCc---ccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHH
Confidence            356555555554221 222  2333    366665   23333   234567776666544         5778888888


Q ss_pred             HHHhhhCCCccCHHHHHHHHHHH------------HhccCCHHHHHHHHHHHH------HcC---CCCC--------HHH
Q 047221          218 LNDFNVYQVCLNEKAFGFLPVLI------------SSKALTKKGIWRVVEVLN------QVG---GSCL--------VSG  268 (509)
Q Consensus       218 ~~~m~~~~~~p~~~~~~~ll~~~------------~~~~~~~~~a~~~~~~m~------~~g---~~~~--------~~~  268 (509)
                      |++............|.......            ....+.+..|..++..+.      +..   ++|+        ...
T Consensus       153 y~~al~~P~~~~~~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~  232 (530)
T 2ooe_A          153 YQRGCVNPMINIEQLWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDM  232 (530)
T ss_dssp             HHHHTTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHH
T ss_pred             HHHHHhchhhhHHHHHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHH
Confidence            88876631111123333222200            011223555665555422      111   2333        234


Q ss_pred             HHHHHHHHHhc----CCH----HHHHHHHHHc----CCCHHHHHHHHHHHHh-------cCCcc-------HHHHHHHHH
Q 047221          269 VRALIEMFSVL----GLY----EMAKYVIKKT----ERKVSYYNILIKEMCR-------RCDFK-------GPRDLLVEM  322 (509)
Q Consensus       269 ~~~li~~~~~~----g~~----~~A~~~~~~m----~~~~~~~~~li~~~~~-------~g~~~-------~A~~~~~~m  322 (509)
                      |...+......    ++.    +.|..+|++.    +.+...|..++..+.+       .|+++       +|.++|++.
T Consensus       233 w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~A  312 (530)
T 2ooe_A          233 WKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERA  312 (530)
T ss_dssp             HHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHH
Confidence            55544333221    222    3566677664    6678899998888876       79987       899999998


Q ss_pred             HHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-H-HHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC
Q 047221          323 RQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPD-A-ITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPR  400 (509)
Q Consensus       323 ~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  400 (509)
                      .+.-.+-+...|..++..+.+.|++++|..+|+++.+.  .|+ . ..|...+..+.+.|+.++|..+|++..+.. +.+
T Consensus       313 l~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~-~~~  389 (530)
T 2ooe_A          313 ISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTR  389 (530)
T ss_dssp             TTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT-TCC
T ss_pred             HHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc-CCc
Confidence            86322445888999999999999999999999999985  454 3 589999999999999999999999998763 222


Q ss_pred             HHHHHHHHHH-HHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCC-CCcC--HHHHHH
Q 047221          401 LATHAAFIKG-YFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNG-LRPN--VSVYRR  476 (509)
Q Consensus       401 ~~~~~~li~~-~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~--~~t~~~  476 (509)
                      ...|...... +...|+.++|..+|++..+.. .-+...|..++..+.+.|+.++|..+|++....+ ..|+  ...|..
T Consensus       390 ~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~  468 (530)
T 2ooe_A          390 HHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWAR  468 (530)
T ss_dssp             THHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHH
Confidence            3333322222 346899999999999887653 2357889999999999999999999999998863 2332  457888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCC
Q 047221          477 VLKHLHTSHQEHMAKCLSSRYSSLS  501 (509)
Q Consensus       477 ll~~~~~~g~~~~a~~~~~~m~~~~  501 (509)
                      .+......|+.+.+..+.+++.+.-
T Consensus       469 ~~~~e~~~G~~~~~~~~~~r~~~~~  493 (530)
T 2ooe_A          469 FLAFESNIGDLASILKVEKRRFTAF  493 (530)
T ss_dssp             HHHHHHHSSCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            8888889999999999999887644

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.49  E-value=2.9e-12  Score=116.64  Aligned_cols=198  Identities=10%  Similarity=0.030  Sum_probs=132.6

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHH
Q 047221          264 CLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLG  339 (509)
Q Consensus       264 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~  339 (509)
                      .....+..+...+...|++++|...|++.    +.+...|..+...|.+.|++++|++.|++..+.. +.+..++..+..
T Consensus        21 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~   99 (243)
T 2q7f_A           21 MASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGN   99 (243)
T ss_dssp             ---------------------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHH
Confidence            34455677777888888888888888775    4467778888888888888888888888877654 345677777788


Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHH
Q 047221          340 VLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYED  419 (509)
Q Consensus       340 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  419 (509)
                      .|...|++++|.+.++++.+.. +.+...+..+...+.+.|++++|...++++.+.. +.+...+..+...|.+.|++++
T Consensus       100 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~  177 (243)
T 2q7f_A          100 VYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDE  177 (243)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHH
Confidence            8888888888888888777653 3356677777778888888888888888877653 3356777778888888888888


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHC
Q 047221          420 AYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKN  465 (509)
Q Consensus       420 A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  465 (509)
                      |...|+++.+.. ..+..+|..+...|...|++++|.+.++++.+.
T Consensus       178 A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          178 ALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            888888776653 234667777888888888888888888887763

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.48  E-value=4.5e-12  Score=117.61  Aligned_cols=229  Identities=13%  Similarity=0.090  Sum_probs=120.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCC--hHHHHHHHHHHHhc
Q 047221          271 ALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPI--TLTYNYVLGVLCKN  344 (509)
Q Consensus       271 ~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~t~~~li~~~~~~  344 (509)
                      .....|...|++++|...|++.    +.+...|..+...|...|++++|++.|++..+.+-.++  ..+|..+...|...
T Consensus         8 ~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~   87 (272)
T 3u4t_A            8 RYADFLFKNNNYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKK   87 (272)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHHHTTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHc
Confidence            4445555556666666665553    23344555555566666666666666666555321111  22355555666666


Q ss_pred             CChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 047221          345 GQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYV  424 (509)
Q Consensus       345 g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~  424 (509)
                      |++++|.+.|++..+.. +.+...|..+...|...|++++|...|++..+. .+.+...+..+...+...+++++|.+.|
T Consensus        88 ~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~  165 (272)
T 3u4t_A           88 GQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRP-TTTDPKVFYELGQAYYYNKEYVKADSSF  165 (272)
T ss_dssp             TCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCS-SCCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhc-CCCcHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66666666666655542 223455556666666666666666666655544 1223444554542222334666666666


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhCCC---hHHHHHHHHHHHHCC-CCcC------HHHHHHHHHHHHhcCCHHHHHHHH
Q 047221          425 VLSADKYKSSSNMLYSLLASLHDKNNN---PVMAKNVLSEMMKNG-LRPN------VSVYRRVLKHLHTSHQEHMAKCLS  494 (509)
Q Consensus       425 ~~m~~~~~~p~~~~~~~li~~~~~~g~---~~~a~~~~~~m~~~g-~~p~------~~t~~~ll~~~~~~g~~~~a~~~~  494 (509)
                      +++.+.. ..+...+..+...+...|+   +++|...+++..+.. -.|+      ...|..+...|...|++++|.+.+
T Consensus       166 ~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  244 (272)
T 3u4t_A          166 VKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAW  244 (272)
T ss_dssp             HHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            6655442 1124445555555555555   555666665555421 1122      134555555666666666666666


Q ss_pred             HHHHhCCC
Q 047221          495 SRYSSLSL  502 (509)
Q Consensus       495 ~~m~~~~~  502 (509)
                      ++..+..+
T Consensus       245 ~~al~~~p  252 (272)
T 3u4t_A          245 KNILALDP  252 (272)
T ss_dssp             HHHHHHCT
T ss_pred             HHHHhcCc
Confidence            66655443

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.48  E-value=9.3e-13  Score=122.34  Aligned_cols=244  Identities=9%  Similarity=-0.082  Sum_probs=178.7

Q ss_pred             hccCCHHHHHHHHHHhhhCCC--cc-CHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH
Q 047221          206 GRLDDYETMRQLLNDFNVYQV--CL-NEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLY  282 (509)
Q Consensus       206 ~~~g~~~~A~~l~~~m~~~~~--~p-~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~  282 (509)
                      ...|++++|+..|+++.+...  .| +...+..+.. ++...|++++|...++.+.+.. +.+..++..+..+|...|++
T Consensus        16 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~   93 (275)
T 1xnf_A           16 QPTLQQEVILARMEQILASRALTDDERAQLLYERGV-LYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNF   93 (275)
T ss_dssp             CCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHH-HHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCH
T ss_pred             CccchHHHHHHHHHHHHhcccccCchhHHHHHHHHH-HHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCH
Confidence            445788889999988877532  12 3445555555 4445556999999998888764 44678889999999999999


Q ss_pred             HHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 047221          283 EMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEML  358 (509)
Q Consensus       283 ~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~  358 (509)
                      ++|...|++.    +.+..+|..+...|.+.|++++|.+.|+++.+.  .|+.......+..+...|++++|...+.+..
T Consensus        94 ~~A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  171 (275)
T 1xnf_A           94 DAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHF  171 (275)
T ss_dssp             HHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            9999999885    456888999999999999999999999999875  4555555556666677899999999998777


Q ss_pred             hCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC---CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCC
Q 047221          359 GRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQP---RLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSS  435 (509)
Q Consensus       359 ~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~  435 (509)
                      ... +++...+. ++..+...++.++|...+++..+.....   +..++..+...|.+.|++++|...|++..+..  |+
T Consensus       172 ~~~-~~~~~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~  247 (275)
T 1xnf_A          172 EKS-DKEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN--VH  247 (275)
T ss_dssp             HHS-CCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CT
T ss_pred             hcC-CcchHHHH-HHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC--ch
Confidence            652 33444444 6677778888899999998876542110   14778889999999999999999999988764  32


Q ss_pred             HHHHHHHHHHHHhCCChHHHHHHH
Q 047221          436 NMLYSLLASLHDKNNNPVMAKNVL  459 (509)
Q Consensus       436 ~~~~~~li~~~~~~g~~~~a~~~~  459 (509)
                      .  +.....++...|++++|++.+
T Consensus       248 ~--~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          248 N--FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             T--CHHHHHHHHHHHHHHHC----
T ss_pred             h--HHHHHHHHHHHHHHHhhHHHH
Confidence            2  223355667778888887766

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.48  E-value=3.3e-12  Score=116.21  Aligned_cols=202  Identities=7%  Similarity=-0.022  Sum_probs=109.8

Q ss_pred             HHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 047221          296 VSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVY  375 (509)
Q Consensus       296 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  375 (509)
                      ...|..+...+...|++++|...|+++.+.. +.+...+..+...|...|++++|.+.+++..+.. +.+...+..+...
T Consensus        23 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~  100 (243)
T 2q7f_A           23 SMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNV  100 (243)
T ss_dssp             -------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHH
Confidence            3455556666666666666666666666542 3345566666666666666666666666665542 2245566666666


Q ss_pred             HHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHH
Q 047221          376 SCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMA  455 (509)
Q Consensus       376 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a  455 (509)
                      |...|++++|...++++.+.. +.+...+..+...|.+.|++++|...++++.+.. ..+...+..+...+...|++++|
T Consensus       101 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A  178 (243)
T 2q7f_A          101 YVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDEA  178 (243)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHHH
Confidence            666666666666666665542 2345566666666666666666666666665442 22455566666666666666666


Q ss_pred             HHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 047221          456 KNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSL  502 (509)
Q Consensus       456 ~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~  502 (509)
                      ++.++++.+.. ..+..++..+...|.+.|++++|.+.+++..+..+
T Consensus       179 ~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p  224 (243)
T 2q7f_A          179 LSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDIQP  224 (243)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHccCc
Confidence            66666665531 22355566666666666666666666666655443

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.47  E-value=1.9e-10  Score=115.77  Aligned_cols=304  Identities=13%  Similarity=-0.001  Sum_probs=215.8

Q ss_pred             hhHHHHHHHHHhccCCHHHHHHHHHHhhhC-----C--Ccc-CHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcC-----
Q 047221          195 SDICSLVIDNCGRLDDYETMRQLLNDFNVY-----Q--VCL-NEKAFGFLPVLISSKALTKKGIWRVVEVLNQVG-----  261 (509)
Q Consensus       195 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~-----~--~~p-~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g-----  261 (509)
                      +..||.|...+...|++++|++.|++..+.     +  ..| ...+|+.+-..+.. .|++++|...+++..+..     
T Consensus        51 a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~-~g~~~~A~~~~~ka~~i~~~~~~  129 (472)
T 4g1t_A           51 ATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYH-MGRLSDVQIYVDKVKHVCEKFSS  129 (472)
T ss_dssp             CHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHH-cCChHHHHHHHHHHHHHhHhccc
Confidence            448999999999999999999999987542     1  122 34577777665554 455999999998876521     


Q ss_pred             --CCCCHHHHHHHHHHHHhcC--CHHHHHHHHHHc----CCCHHHHHHHHHH---HHhcCCccHHHHHHHHHHHcCCCCC
Q 047221          262 --GSCLVSGVRALIEMFSVLG--LYEMAKYVIKKT----ERKVSYYNILIKE---MCRRCDFKGPRDLLVEMRQVGCEPI  330 (509)
Q Consensus       262 --~~~~~~~~~~li~~~~~~g--~~~~A~~~~~~m----~~~~~~~~~li~~---~~~~g~~~~A~~~~~~m~~~g~~p~  330 (509)
                        ......+++.+..++.+.|  ++++|...|++.    +.+...+..+...   +...++.++|++.+++..+.. +.+
T Consensus       130 ~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~~  208 (472)
T 4g1t_A          130 PYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PDN  208 (472)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SSC
T ss_pred             ccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-Ccc
Confidence              1223566777766666654  699999999985    4456666665554   445678899999999888764 445


Q ss_pred             hHHHHHHHHHHHh----cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHH
Q 047221          331 TLTYNYVLGVLCK----NGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAA  406 (509)
Q Consensus       331 ~~t~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~  406 (509)
                      ..++..+...+..    .|++++|.+++++..... +.+...+..+...|.+.|++++|...+++..+.. +-+..++..
T Consensus       209 ~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~  286 (472)
T 4g1t_A          209 QYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHCQ  286 (472)
T ss_dssp             HHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHHH
Confidence            6666666655554    467789999999887753 4467789999999999999999999999998763 335667777


Q ss_pred             HHHHHHHc-------------------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCC
Q 047221          407 FIKGYFIF-------------------YRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGL  467 (509)
Q Consensus       407 li~~~~~~-------------------g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  467 (509)
                      +..+|...                   +..+.|...+++..+... .+..++..+...|...|++++|++.|++..+...
T Consensus       287 lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~  365 (472)
T 4g1t_A          287 IGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAND-NLFRVCSILASLHALADQYEEAEYYFQKEFSKEL  365 (472)
T ss_dssp             HHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHCT-TTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcCC-chhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCC
Confidence            76666432                   335677778877766532 2344577899999999999999999999988544


Q ss_pred             CcCHH--HHHHHHH-HHHhcCCHHHHHHHHHHHHhCCCC
Q 047221          468 RPNVS--VYRRVLK-HLHTSHQEHMAKCLSSRYSSLSLG  503 (509)
Q Consensus       468 ~p~~~--t~~~ll~-~~~~~g~~~~a~~~~~~m~~~~~~  503 (509)
                      .+...  .+..+.. .....|++++|++.+++..+...+
T Consensus       366 ~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~  404 (472)
T 4g1t_A          366 TPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQK  404 (472)
T ss_dssp             CHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCC
T ss_pred             CChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcc
Confidence            33321  2222222 235789999999999988776543

>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=99.45  E-value=1.7e-11  Score=119.40  Aligned_cols=231  Identities=7%  Similarity=-0.055  Sum_probs=168.0

Q ss_pred             CccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC-HHHHHHHHHHc----CCCHHHHH
Q 047221          226 VCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGL-YEMAKYVIKKT----ERKVSYYN  300 (509)
Q Consensus       226 ~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~-~~~A~~~~~~m----~~~~~~~~  300 (509)
                      +.|+.......+...+...++.++|+..++...+.. +-+..+|+.+..+|...|+ +++|...|++.    +.+...|+
T Consensus        92 ~~p~~~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~  170 (382)
T 2h6f_A           92 YSDKFRDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWH  170 (382)
T ss_dssp             CCHHHHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             CChhhHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHH
Confidence            345444333334445556667899999998888765 4457778888888888886 89988888885    56788888


Q ss_pred             HHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH-c
Q 047221          301 ILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCR-V  379 (509)
Q Consensus       301 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~-~  379 (509)
                      .+...+.+.|++++|+..|+++.+.. +-+...|..+..++.+.|++++|+..++++.+.. +-+...|+.+..++.+ .
T Consensus       171 ~~g~~~~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~  248 (382)
T 2h6f_A          171 HRRVLVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTT  248 (382)
T ss_dssp             HHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhc
Confidence            88888888888888888888888764 4567788888888888888888888888888763 3357778888888888 5


Q ss_pred             CChHHH-----HHHHHHHHHCCCCCCHHHHHHHHHHHHHcC--CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCC--
Q 047221          380 GKFDVA-----FNFFNQMVKRGLQPRLATHAAFIKGYFIFY--RYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNN--  450 (509)
Q Consensus       380 g~~~~a-----~~~~~~m~~~g~~p~~~~~~~li~~~~~~g--~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g--  450 (509)
                      |..++|     +..|++.++.. +-+...|+.+...+.+.|  ++++|.+.+.++ + ....+...+..+...|.+.|  
T Consensus       249 ~~~~eA~~~~el~~~~~Al~l~-P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~-~~p~~~~al~~La~~~~~~~~~  325 (382)
T 2h6f_A          249 GYNDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-Q-PSHSSPYLIAFLVDIYEDMLEN  325 (382)
T ss_dssp             CSCSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-T-TTCCCHHHHHHHHHHHHHHHHT
T ss_pred             CcchHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHccCccchHHHHHHHHHh-c-cCCCCHHHHHHHHHHHHHHhcc
Confidence            555776     46777776652 235667777777777777  577788777776 2 22345566777777777653  


Q ss_pred             -------ChHHHHHHHHHH
Q 047221          451 -------NPVMAKNVLSEM  462 (509)
Q Consensus       451 -------~~~~a~~~~~~m  462 (509)
                             ..++|+++++++
T Consensus       326 ~~~~~~~~~~~A~~~~~~l  344 (382)
T 2h6f_A          326 QCDNKEDILNKALELCEIL  344 (382)
T ss_dssp             TCSSHHHHHHHHHHHHHHH
T ss_pred             cccchHHHHHHHHHHHHHH
Confidence                   246777777776

>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=99.44  E-value=6.6e-11  Score=115.33  Aligned_cols=245  Identities=9%  Similarity=-0.021  Sum_probs=196.2

Q ss_pred             ChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccC-HHHHHHHHHHHHhccCC-HHHHHHHHHHHHHcCCCCCHHHHHH
Q 047221          194 NSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLN-EKAFGFLPVLISSKALT-KKGIWRVVEVLNQVGGSCLVSGVRA  271 (509)
Q Consensus       194 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~-~~~a~~~~~~m~~~g~~~~~~~~~~  271 (509)
                      +..+|+.+...+.+.|++++|+..+++.....  |+ ...|+.+-. ++...|+ +++|+..++...+.. +-+...|+.
T Consensus        96 ~~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~--P~~~~a~~~~g~-~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~  171 (382)
T 2h6f_A           96 FRDVYDYFRAVLQRDERSERAFKLTRDAIELN--AANYTVWHFRRV-LLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHH  171 (382)
T ss_dssp             HHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC--TTCHHHHHHHHH-HHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             hHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC--ccCHHHHHHHHH-HHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHH
Confidence            55689999999999999999999999997653  54 445555555 5555564 999999999999876 446788999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHh-cCC
Q 047221          272 LIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCK-NGQ  346 (509)
Q Consensus       272 li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~-~g~  346 (509)
                      +..+|.+.|++++|...|++.    +.+..+|..+..++.+.|++++|+..|+++.+.. +-+...|+.+..++.+ .|.
T Consensus       172 ~g~~~~~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~~~  250 (382)
T 2h6f_A          172 RRVLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGY  250 (382)
T ss_dssp             HHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCS
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCc
Confidence            999999999999999999986    6789999999999999999999999999999875 4578899999999999 666


Q ss_pred             hHHH-----HHHHHHHHhCCCCCCHHHHHHHHHHHHHcC--ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC----
Q 047221          347 DADA-----CELLEEMLGRNCHPDAITYEIFIVYSCRVG--KFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFY----  415 (509)
Q Consensus       347 ~~~a-----~~~~~~m~~~g~~p~~~~~~~li~~~~~~g--~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g----  415 (509)
                      .++|     +..|++..+.. +-+...|+.+...+.+.|  +.++|.+.+.++ + ....+...+..+..+|.+.|    
T Consensus       251 ~~eA~~~~el~~~~~Al~l~-P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~-~~p~~~~al~~La~~~~~~~~~~~  327 (382)
T 2h6f_A          251 NDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-Q-PSHSSPYLIAFLVDIYEDMLENQC  327 (382)
T ss_dssp             CSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-T-TTCCCHHHHHHHHHHHHHHHHTTC
T ss_pred             chHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHccCccchHHHHHHHHHh-c-cCCCCHHHHHHHHHHHHHHhcccc
Confidence            5777     47788877752 335778988888898888  689999999988 3 33446788999999999874    


Q ss_pred             -----CHHHHHHHHHHH-HhCCCCCCHHHHHHHHHHHH
Q 047221          416 -----RYEDAYKYVVLS-ADKYKSSSNMLYSLLASLHD  447 (509)
Q Consensus       416 -----~~~~A~~~~~~m-~~~~~~p~~~~~~~li~~~~  447 (509)
                           ..++|.++|+++ .+.+ ......|..+...+.
T Consensus       328 ~~~~~~~~~A~~~~~~l~~~~D-P~r~~~w~~~~~~l~  364 (382)
T 2h6f_A          328 DNKEDILNKALELCEILAKEKD-TIRKEYWRYIGRSLQ  364 (382)
T ss_dssp             SSHHHHHHHHHHHHHHHHHTTC-GGGHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHHHHhC-chhHHHHHHHHHHHH
Confidence                 358999999998 5442 223345555554443

>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=99.40  E-value=1.1e-09  Score=118.47  Aligned_cols=295  Identities=11%  Similarity=0.044  Sum_probs=156.8

Q ss_pred             CCHHHHHHHHHHHhcCCchHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCC--ccCHHHHHH
Q 047221          158 LSNASVIEILRVLNSEKVSALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQV--CLNEKAFGF  235 (509)
Q Consensus       158 ~~~~~~~~ll~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~--~p~~~~~~~  235 (509)
                      -|...|..+|.-   ....-.++.+|.....-....|+.--...+++|...|.+.+|++++++....+-  .-+...-+.
T Consensus       951 ~d~~lW~~vl~~---~n~~RR~Lidqv~a~aL~e~~~PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~Lqnl 1027 (1630)
T 1xi4_A          951 KDPELWGSVLLE---SNPYRRPLIDQVVQTALSETQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNL 1027 (1630)
T ss_pred             cCHHHHHHHhcC---CcHHHHHHHHHHHHhhcccccCHHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHH
Confidence            444555555421   112244666665222211224555778889999999999999999999873321  112334444


Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHcCC---------------------
Q 047221          236 LPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKTER---------------------  294 (509)
Q Consensus       236 ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---------------------  294 (509)
                      ++. +..+.+ ..+..++........       ..-+...+...|.+++|..+|++...                     
T Consensus      1028 Li~-tAIkaD-~~Rv~eyI~kLd~~d-------~~eIA~Iai~lglyEEAf~IYkKa~~~~~A~~VLie~i~nldrAiE~ 1098 (1630)
T 1xi4_A         1028 LIL-TAIKAD-RTRVMEYINRLDNYD-------APDIANIAISNELFEEAFAIFRKFDVNTSAVQVLIEHIGNLDRAYEF 1098 (1630)
T ss_pred             HHH-HHHHhC-hhhHHHHHHHhhhcc-------HHHHHHHHHhCCCHHHHHHHHHHcCCHHHHHHHHHHHHhhHHHHHHH
Confidence            443 333333 445555544443211       22344555555666666666555432                     


Q ss_pred             -----CHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHH
Q 047221          295 -----KVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITY  369 (509)
Q Consensus       295 -----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~  369 (509)
                           +..+|..+..++.+.|++++|++.|.+.      -|...|..++.+|.+.|++++|.+.+....+..  ++....
T Consensus      1099 Aervn~p~vWsqLAKAql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Id 1170 (1630)
T 1xi4_A         1099 AERCNEPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVE 1170 (1630)
T ss_pred             HHhcCCHHHHHHHHHHHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--cccccc
Confidence                 2445555555555556666655555332      344455555555666666666666555444432  222222


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhC
Q 047221          370 EIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKN  449 (509)
Q Consensus       370 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~  449 (509)
                      +.++.+|++.+++++...+.    +   .++...|..+.+.|...|++++|..+|...         ..|..+...|++.
T Consensus      1171 t~LafaYAKl~rleele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkL 1234 (1630)
T 1xi4_A         1171 TELIFALAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHL 1234 (1630)
T ss_pred             HHHHHHHHhhcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHh
Confidence            23555555555555433221    1   224444555566666666666666666553         2466666666666


Q ss_pred             CChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHH
Q 047221          450 NNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLS  494 (509)
Q Consensus       450 g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~  494 (509)
                      |++++|++.+++.      -+..+|..+-.+|...|++..|....
T Consensus      1235 ge~q~AIEaarKA------~n~~aWkev~~acve~~Ef~LA~~cg 1273 (1630)
T 1xi4_A         1235 GEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCG 1273 (1630)
T ss_pred             CCHHHHHHHHHHh------CCHHHHHHHHHHHhhhhHHHHHHHHH
Confidence            6666666666654      23456666666666666666666554

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.40  E-value=5.9e-11  Score=109.99  Aligned_cols=232  Identities=9%  Similarity=-0.044  Sum_probs=105.8

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhhhCCCccC-HHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCC--HHHHHHHH
Q 047221          197 ICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLN-EKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCL--VSGVRALI  273 (509)
Q Consensus       197 ~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~--~~~~~~li  273 (509)
                      .+......+...|++++|+..|++..+..  |+ ...+..+.. +....|++++|...++...+.+..++  ...|..+.
T Consensus         5 ~~~~~a~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~~l~~-~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg   81 (272)
T 3u4t_A            5 VEFRYADFLFKNNNYAEAIEVFNKLEAKK--YNSPYIYNRRAV-CYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYG   81 (272)
T ss_dssp             CHHHHHHHHHTTTCHHHHHHHHHHHHHTT--CCCSTTHHHHHH-HHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCcHHHHHHHHH-HHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHH
Confidence            44455556666666666666666665432  22 223333333 22233335555555555554221111  12244444


Q ss_pred             HHHHhcCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHH
Q 047221          274 EMFSVLGLYEMAKYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACEL  353 (509)
Q Consensus       274 ~~~~~~g~~~~A~~~~~~m~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~  353 (509)
                      ..|...|++++|...                              |++..+.. +.+..+|..+...|...|++++|.+.
T Consensus        82 ~~~~~~~~~~~A~~~------------------------------~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~  130 (272)
T 3u4t_A           82 KILMKKGQDSLAIQQ------------------------------YQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQY  130 (272)
T ss_dssp             HHHHHTTCHHHHHHH------------------------------HHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHcccHHHHHHH------------------------------HHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHH
Confidence            444444555444444                              44444332 22334444555555555555555555


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC---HHHHHHHHHHHHhC
Q 047221          354 LEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYR---YEDAYKYVVLSADK  430 (509)
Q Consensus       354 ~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~  430 (509)
                      |++..+. .+.+...|..+...+...+++++|...|+++.+.. +.+...+..+..++...|+   .++|...+++..+.
T Consensus       131 ~~~al~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~  208 (272)
T 3u4t_A          131 MEKQIRP-TTTDPKVFYELGQAYYYNKEYVKADSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEV  208 (272)
T ss_dssp             HGGGCCS-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHH
T ss_pred             HHHHhhc-CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHH
Confidence            5544443 12233334433312222335555555555554432 1224444445555555454   44444444444332


Q ss_pred             C-CCCC------HHHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 047221          431 Y-KSSS------NMLYSLLASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       431 ~-~~p~------~~~~~~li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      . -.|+      ...|..+...|...|++++|.+.|++..+
T Consensus       209 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~  249 (272)
T 3u4t_A          209 CAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKNILA  249 (272)
T ss_dssp             HGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            1 0111      13455555555666666666666666555

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.40  E-value=5.8e-10  Score=105.73  Aligned_cols=212  Identities=9%  Similarity=0.014  Sum_probs=95.7

Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHH-------hcCCH-------HHHHHHHHHc-----CCCHHHHHHHHHHHHh
Q 047221          248 KGIWRVVEVLNQVGGSCLVSGVRALIEMFS-------VLGLY-------EMAKYVIKKT-----ERKVSYYNILIKEMCR  308 (509)
Q Consensus       248 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~-------~~g~~-------~~A~~~~~~m-----~~~~~~~~~li~~~~~  308 (509)
                      ++|..+|++..+.. +.+...|..++..+.       +.|++       ++|..+|++.     +.+...|..++..+.+
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            34445555555432 333444444444443       23443       4555555442     1233445555555555


Q ss_pred             cCCccHHHHHHHHHHHcCCCCC-hH-HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH-HcCChHHH
Q 047221          309 RCDFKGPRDLLVEMRQVGCEPI-TL-TYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSC-RVGKFDVA  385 (509)
Q Consensus       309 ~g~~~~A~~~~~~m~~~g~~p~-~~-t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~-~~g~~~~a  385 (509)
                      .|++++|.++|++..+.  .|+ .. .|..+...+.+.|++++|.++|++..+.. +.+...|........ ..|+.++|
T Consensus       112 ~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A  188 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVA  188 (308)
T ss_dssp             TTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHH
T ss_pred             cCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHH
Confidence            55555555555555542  232 11 45555555555555555555555554432 122223322222111 13555555


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCC--CHHHHHHHHHHHHhCCChHHHHHHHHHH
Q 047221          386 FNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKY-KSS--SNMLYSLLASLHDKNNNPVMAKNVLSEM  462 (509)
Q Consensus       386 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~m  462 (509)
                      ..+|++..+.. +-+...|..++..+.+.|+.++|..+|++..... ..|  ....|..++..+.+.|+.++|..+++++
T Consensus       189 ~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a  267 (308)
T 2ond_A          189 FKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             HHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            55555544331 1234445555555555555555555555554431 222  2334444455555555555555555554


Q ss_pred             HH
Q 047221          463 MK  464 (509)
Q Consensus       463 ~~  464 (509)
                      .+
T Consensus       268 ~~  269 (308)
T 2ond_A          268 FT  269 (308)
T ss_dssp             HH
T ss_pred             HH
Confidence            44

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.39  E-value=3e-11  Score=119.32  Aligned_cols=195  Identities=10%  Similarity=-0.041  Sum_probs=96.6

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCH-----HHHHHHHHHHHhccCCHHHHHHHHHHHHHc----C-CCCC
Q 047221          196 DICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNE-----KAFGFLPVLISSKALTKKGIWRVVEVLNQV----G-GSCL  265 (509)
Q Consensus       196 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~-----~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~----g-~~~~  265 (509)
                      ..+..+...+...|++++|...|+++.+.+  |+.     ..+..+...+. ..|++++|...+++..+.    + .+..
T Consensus        49 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~lg~~~~-~~g~~~~A~~~~~~al~~~~~~~~~~~~  125 (411)
T 4a1s_A           49 LELALEGERLCNAGDCRAGVAFFQAAIQAG--TEDLRTLSAIYSQLGNAYF-YLGDYNKAMQYHKHDLTLAKSMNDRLGE  125 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHH-HHTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHhc--ccChhHHHHHHHHHHHHHH-HCCCHHHHHHHHHHHHHHHHHccCchHH
Confidence            344556666777888888888888776653  321     23444444333 344477777777665542    1 1222


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHc-------C---CCHHHHHHHHHHHHhcCC-----------------ccHHHHH
Q 047221          266 VSGVRALIEMFSVLGLYEMAKYVIKKT-------E---RKVSYYNILIKEMCRRCD-----------------FKGPRDL  318 (509)
Q Consensus       266 ~~~~~~li~~~~~~g~~~~A~~~~~~m-------~---~~~~~~~~li~~~~~~g~-----------------~~~A~~~  318 (509)
                      ..++..+...|...|++++|...+++.       .   ....++..+...|...|+                 +++|++.
T Consensus       126 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~  205 (411)
T 4a1s_A          126 AKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEF  205 (411)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHH
Confidence            344556666666666666666666553       0   113345555555555555                 5555555


Q ss_pred             HHHHHHc----CCCC-ChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHHcCChHHHHHH
Q 047221          319 LVEMRQV----GCEP-ITLTYNYVLGVLCKNGQDADACELLEEMLGRNC-HPD----AITYEIFIVYSCRVGKFDVAFNF  388 (509)
Q Consensus       319 ~~~m~~~----g~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~----~~~~~~li~~~~~~g~~~~a~~~  388 (509)
                      +++..+.    +-.+ ...++..+...|...|++++|.+.+++..+... ..+    ...+..+...|...|++++|...
T Consensus       206 ~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  285 (411)
T 4a1s_A          206 YQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEH  285 (411)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHH
Confidence            5443321    1000 122344444445555555555555554444210 001    11334444444444444444444


Q ss_pred             HHHHH
Q 047221          389 FNQMV  393 (509)
Q Consensus       389 ~~~m~  393 (509)
                      +++..
T Consensus       286 ~~~al  290 (411)
T 4a1s_A          286 YKRTL  290 (411)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            44433

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.39  E-value=2.2e-11  Score=119.76  Aligned_cols=291  Identities=11%  Similarity=0.010  Sum_probs=207.0

Q ss_pred             hhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccC----HHHHHHHHHHHHhccCCHHHHHHHHHHHHHc----CCCC-C
Q 047221          195 SDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLN----EKAFGFLPVLISSKALTKKGIWRVVEVLNQV----GGSC-L  265 (509)
Q Consensus       195 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~----~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~----g~~~-~  265 (509)
                      ...+......+...|++++|...|+++.+.... +    ...+..+...+ ...|++++|...++...+.    +..+ .
T Consensus         9 ~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~-~~~g~~~~A~~~~~~al~~~~~~~~~~~~   86 (406)
T 3sf4_A            9 CLELALEGERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAY-FYLHDYAKALEYHHHDLTLARTIGDQLGE   86 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHH-HHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHHH-HHhcCHHHHHHHHHHHHHHHHhccccHHH
Confidence            346667777888889999999999988776321 2    23455555534 4455589999888876543    2222 2


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHc----C--CC----HHHHHHHHHHHHhcCC--------------------ccHH
Q 047221          266 VSGVRALIEMFSVLGLYEMAKYVIKKT----E--RK----VSYYNILIKEMCRRCD--------------------FKGP  315 (509)
Q Consensus       266 ~~~~~~li~~~~~~g~~~~A~~~~~~m----~--~~----~~~~~~li~~~~~~g~--------------------~~~A  315 (509)
                      ..++..+...|...|++++|...+++.    +  .+    ..++..+...|...|+                    +++|
T Consensus        87 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A  166 (406)
T 3sf4_A           87 AKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAA  166 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHH
Confidence            456788889999999999999988875    1  22    4578888899999999                    8999


Q ss_pred             HHHHHHHHHc----CCCC-ChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHHcCChHHH
Q 047221          316 RDLLVEMRQV----GCEP-ITLTYNYVLGVLCKNGQDADACELLEEMLGRNC-HPD----AITYEIFIVYSCRVGKFDVA  385 (509)
Q Consensus       316 ~~~~~~m~~~----g~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~----~~~~~~li~~~~~~g~~~~a  385 (509)
                      .+.+++..+.    +-.+ ...++..+...|...|++++|.+.+++..+... .++    ..++..+...|...|++++|
T Consensus       167 ~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  246 (406)
T 3sf4_A          167 VDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETA  246 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHH
Confidence            9988876532    1111 234678888889999999999999988765310 112    23788888899999999999


Q ss_pred             HHHHHHHHHC----CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCC-CC----HHHHHHHHHHHHhCCChHHH
Q 047221          386 FNFFNQMVKR----GLQPR-LATHAAFIKGYFIFYRYEDAYKYVVLSADKYKS-SS----NMLYSLLASLHDKNNNPVMA  455 (509)
Q Consensus       386 ~~~~~~m~~~----g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-p~----~~~~~~li~~~~~~g~~~~a  455 (509)
                      ...+++..+.    +..+. ..++..+...|...|++++|...+++..+.... .+    ..++..+...|...|++++|
T Consensus       247 ~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  326 (406)
T 3sf4_A          247 SEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQA  326 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHH
Confidence            9999887643    11111 557888899999999999999999887653111 11    45788888999999999999


Q ss_pred             HHHHHHHHHC----CCCc-CHHHHHHHHHHHHhcCCH
Q 047221          456 KNVLSEMMKN----GLRP-NVSVYRRVLKHLHTSHQE  487 (509)
Q Consensus       456 ~~~~~~m~~~----g~~p-~~~t~~~ll~~~~~~g~~  487 (509)
                      .+.+++..+.    +..+ ...++..+...+...|+.
T Consensus       327 ~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  363 (406)
T 3sf4_A          327 MHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLS  363 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHh
Confidence            9999987652    2222 234566677777766654

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.39  E-value=1.6e-11  Score=117.07  Aligned_cols=205  Identities=11%  Similarity=-0.019  Sum_probs=122.1

Q ss_pred             HHHHHHHHHHHhcCCccHHHHHHHHHHHcCC-CCC----hHHHHHHHHHHHhcCC--------------------hHHHH
Q 047221          297 SYYNILIKEMCRRCDFKGPRDLLVEMRQVGC-EPI----TLTYNYVLGVLCKNGQ--------------------DADAC  351 (509)
Q Consensus       297 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~----~~t~~~li~~~~~~g~--------------------~~~a~  351 (509)
                      .++..+...|...|++++|.+.+++..+..- .++    ..++..+...|...|+                    +++|.
T Consensus        84 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~  163 (338)
T 3ro2_A           84 KASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAV  163 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHH
Confidence            3444555555555555555555554432210 011    2245555555666666                    66666


Q ss_pred             HHHHHHHhC----CCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHC----CCC-CCHHHHHHHHHHHHHcCCHHHHH
Q 047221          352 ELLEEMLGR----NCHP-DAITYEIFIVYSCRVGKFDVAFNFFNQMVKR----GLQ-PRLATHAAFIKGYFIFYRYEDAY  421 (509)
Q Consensus       352 ~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~-p~~~~~~~li~~~~~~g~~~~A~  421 (509)
                      +.+++..+.    +..+ ....+..+...+...|++++|...+++..+.    +.. ....++..+...|...|++++|.
T Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  243 (338)
T 3ro2_A          164 DLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETAS  243 (338)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            665554321    1111 1335666667777777887777777766533    100 01236777777788888888888


Q ss_pred             HHHHHHHhCCCC-CC----HHHHHHHHHHHHhCCChHHHHHHHHHHHHC----CCCc-CHHHHHHHHHHHHhcCCHHHHH
Q 047221          422 KYVVLSADKYKS-SS----NMLYSLLASLHDKNNNPVMAKNVLSEMMKN----GLRP-NVSVYRRVLKHLHTSHQEHMAK  491 (509)
Q Consensus       422 ~~~~~m~~~~~~-p~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~t~~~ll~~~~~~g~~~~a~  491 (509)
                      ..+++..+.... .+    ..++..+...|...|++++|.+.+++..+.    +-.+ ...++..+...|.+.|++++|.
T Consensus       244 ~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  323 (338)
T 3ro2_A          244 EYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAM  323 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHH
Confidence            888766542110 11    446777788888888888888888877652    1111 1346777788888889999999


Q ss_pred             HHHHHHHhCC
Q 047221          492 CLSSRYSSLS  501 (509)
Q Consensus       492 ~~~~~m~~~~  501 (509)
                      +.+++..+..
T Consensus       324 ~~~~~a~~~~  333 (338)
T 3ro2_A          324 HFAEKHLEIS  333 (338)
T ss_dssp             HHHHHHHHC-
T ss_pred             HHHHHHHHHH
Confidence            8888877654

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.38  E-value=2.6e-11  Score=119.79  Aligned_cols=252  Identities=11%  Similarity=-0.039  Sum_probs=109.8

Q ss_pred             CHHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHc----------CCCHHHHHHHHHHHHhcCC
Q 047221          246 TKKGIWRVVEVLNQVGGSCLV----SGVRALIEMFSVLGLYEMAKYVIKKT----------ERKVSYYNILIKEMCRRCD  311 (509)
Q Consensus       246 ~~~~a~~~~~~m~~~g~~~~~----~~~~~li~~~~~~g~~~~A~~~~~~m----------~~~~~~~~~li~~~~~~g~  311 (509)
                      ++++|...++...+.... +.    ..+..+...|...|++++|...|++.          +....+|..+...|...|+
T Consensus        63 ~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~  141 (411)
T 4a1s_A           63 DCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTLKVMGR  141 (411)
T ss_dssp             CHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             cHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCC
Confidence            355555555555543211 11    24445555555555555555554442          0113344445555555555


Q ss_pred             ccHHHHHHHHHHHc----C-CCCChHHHHHHHHHHHhcCC-----------------hHHHHHHHHHHHhC----CCCC-
Q 047221          312 FKGPRDLLVEMRQV----G-CEPITLTYNYVLGVLCKNGQ-----------------DADACELLEEMLGR----NCHP-  364 (509)
Q Consensus       312 ~~~A~~~~~~m~~~----g-~~p~~~t~~~li~~~~~~g~-----------------~~~a~~~~~~m~~~----g~~p-  364 (509)
                      +++|.+.|++..+.    + ......++..+...|...|+                 +++|.+.+.+..+.    +..+ 
T Consensus       142 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~  221 (411)
T 4a1s_A          142 FDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGA  221 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHH
Confidence            55555555544322    1 01112344445555555555                 55555555443321    1111 


Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCC-----C
Q 047221          365 DAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGL-QPR----LATHAAFIKGYFIFYRYEDAYKYVVLSADKYKS-----S  434 (509)
Q Consensus       365 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-----p  434 (509)
                      ...++..+...|...|++++|...+++..+... ..+    ..++..+...|...|++++|...+++..+....     .
T Consensus       222 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  301 (411)
T 4a1s_A          222 QGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREV  301 (411)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            122444444555555555555555554433200 001    124444555555555555555555444322100     0


Q ss_pred             CHHHHHHHHHHHHhCCChHHHHHHHHHHHHC----CCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 047221          435 SNMLYSLLASLHDKNNNPVMAKNVLSEMMKN----GLRP-NVSVYRRVLKHLHTSHQEHMAKCLSSRYS  498 (509)
Q Consensus       435 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~  498 (509)
                      ...++..+...|...|++++|.+++++..+.    +..+ ...++..+...|.+.|++++|.+.+++..
T Consensus       302 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  370 (411)
T 4a1s_A          302 EAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHL  370 (411)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            1234444555555555555555555554431    0000 12244444455555555555555555443

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.37  E-value=2.6e-11  Score=119.25  Aligned_cols=260  Identities=12%  Similarity=-0.046  Sum_probs=199.1

Q ss_pred             HHhccCCHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHc------CC----CHHHHHHHHHHH
Q 047221          240 ISSKALTKKGIWRVVEVLNQVGGSCL---VSGVRALIEMFSVLGLYEMAKYVIKKT------ER----KVSYYNILIKEM  306 (509)
Q Consensus       240 ~~~~~~~~~~a~~~~~~m~~~g~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m------~~----~~~~~~~li~~~  306 (509)
                      .+...|++++|...++...+......   ..++..+...|...|++++|...+++.      ..    ...+|..+...|
T Consensus        18 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~   97 (406)
T 3sf4_A           18 RLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTL   97 (406)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHH
Confidence            44456669999999999988743211   357889999999999999999999874      11    256788899999


Q ss_pred             HhcCCccHHHHHHHHHHHcCC-CCC----hHHHHHHHHHHHhcCC--------------------hHHHHHHHHHHHhC-
Q 047221          307 CRRCDFKGPRDLLVEMRQVGC-EPI----TLTYNYVLGVLCKNGQ--------------------DADACELLEEMLGR-  360 (509)
Q Consensus       307 ~~~g~~~~A~~~~~~m~~~g~-~p~----~~t~~~li~~~~~~g~--------------------~~~a~~~~~~m~~~-  360 (509)
                      ...|++++|+..+++..+..- .++    ..++..+...|...|+                    +++|.+.+.+..+. 
T Consensus        98 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~  177 (406)
T 3sf4_A           98 KVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLV  177 (406)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            999999999999998765310 112    4478888899999999                    99999998876542 


Q ss_pred             ---CCCCC-HHHHHHHHHHHHHcCChHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHhC-
Q 047221          361 ---NCHPD-AITYEIFIVYSCRVGKFDVAFNFFNQMVKRGL-QPR----LATHAAFIKGYFIFYRYEDAYKYVVLSADK-  430 (509)
Q Consensus       361 ---g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-  430 (509)
                         +..+. ..++..+...|...|++++|...+++..+... .++    ..++..+...|...|++++|...+++..+. 
T Consensus       178 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  257 (406)
T 3sf4_A          178 TALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLA  257 (406)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHH
Confidence               21122 34688888999999999999999998764310 112    347888999999999999999999987643 


Q ss_pred             ---CCCC-CHHHHHHHHHHHHhCCChHHHHHHHHHHHHC----CCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 047221          431 ---YKSS-SNMLYSLLASLHDKNNNPVMAKNVLSEMMKN----GLRP-NVSVYRRVLKHLHTSHQEHMAKCLSSRYSS  499 (509)
Q Consensus       431 ---~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~  499 (509)
                         +..+ ...++..+...|...|++++|.+.+++..+.    +-.+ ...++..+...|...|++++|.+.+++..+
T Consensus       258 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  335 (406)
T 3sf4_A          258 RQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  335 (406)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence               1111 1457888999999999999999999988763    2111 145778888899999999999999988664

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.37  E-value=3.2e-11  Score=114.93  Aligned_cols=266  Identities=12%  Similarity=0.014  Sum_probs=194.1

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhhhCCCccC-----HHHHHHHHHHHHhccCCHHHHHHHHHHHHHc----CCC-CCH
Q 047221          197 ICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLN-----EKAFGFLPVLISSKALTKKGIWRVVEVLNQV----GGS-CLV  266 (509)
Q Consensus       197 ~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~-----~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~----g~~-~~~  266 (509)
                      .+......+...|++++|...|+++.+..  |+     ...+..+... ....|++++|...++...+.    +.. ...
T Consensus         7 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~l~~~-~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~   83 (338)
T 3ro2_A            7 ELALEGERLCKSGDCRAGVSFFEAAVQVG--TEDLKTLSAIYSQLGNA-YFYLHDYAKALEYHHHDLTLARTIGDQLGEA   83 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHH-HHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhhC--cccHHHHHHHHHHHHHH-HHHcCCHHHHHHHHHHHHHHhhcccccHHHH
Confidence            45555667788899999999998887753  33     2445555553 34455588888888876542    222 224


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHc------CCC----HHHHHHHHHHHHhcCC--------------------ccHHH
Q 047221          267 SGVRALIEMFSVLGLYEMAKYVIKKT------ERK----VSYYNILIKEMCRRCD--------------------FKGPR  316 (509)
Q Consensus       267 ~~~~~li~~~~~~g~~~~A~~~~~~m------~~~----~~~~~~li~~~~~~g~--------------------~~~A~  316 (509)
                      .++..+...|...|++++|...+++.      ..+    ..++..+...|...|+                    +++|.
T Consensus        84 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~  163 (338)
T 3ro2_A           84 KASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAV  163 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHH
Confidence            56788899999999999999998874      122    4478888899999999                    89999


Q ss_pred             HHHHHHHHc----CCC-CChHHHHHHHHHHHhcCChHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHHcCChHHHH
Q 047221          317 DLLVEMRQV----GCE-PITLTYNYVLGVLCKNGQDADACELLEEMLGR----NCHP-DAITYEIFIVYSCRVGKFDVAF  386 (509)
Q Consensus       317 ~~~~~m~~~----g~~-p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~~~~a~  386 (509)
                      +.+++....    +-. ....++..+...|...|++++|.+.+++..+.    +..+ ...++..+...+...|++++|.
T Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  243 (338)
T 3ro2_A          164 DLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETAS  243 (338)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            988876532    211 12346788888899999999999999887653    1111 1337888888999999999999


Q ss_pred             HHHHHHHHCCC-CCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHhC----CC-CCCHHHHHHHHHHHHhCCChHHHH
Q 047221          387 NFFNQMVKRGL-QPR----LATHAAFIKGYFIFYRYEDAYKYVVLSADK----YK-SSSNMLYSLLASLHDKNNNPVMAK  456 (509)
Q Consensus       387 ~~~~~m~~~g~-~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~-~p~~~~~~~li~~~~~~g~~~~a~  456 (509)
                      ..+++..+... ..+    ..++..+...|...|++++|...+++..+.    +. .....++..+...|.+.|++++|.
T Consensus       244 ~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  323 (338)
T 3ro2_A          244 EYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAM  323 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHH
Confidence            99998764311 012    557788899999999999999999887653    11 112347788999999999999999


Q ss_pred             HHHHHHHHC
Q 047221          457 NVLSEMMKN  465 (509)
Q Consensus       457 ~~~~~m~~~  465 (509)
                      +.+++..+.
T Consensus       324 ~~~~~a~~~  332 (338)
T 3ro2_A          324 HFAEKHLEI  332 (338)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHHHH
Confidence            999998864

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.35  E-value=2.4e-10  Score=99.22  Aligned_cols=166  Identities=11%  Similarity=0.007  Sum_probs=96.6

Q ss_pred             CHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 047221          295 KVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIV  374 (509)
Q Consensus       295 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  374 (509)
                      +...|..+...|.+.|++++|++.|++..+.. +-+..++..+..+|.+.|++++|...+....... +-+...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHH
Confidence            44555566666666666666666666655543 2345555566666666666666666666555442 223445555555


Q ss_pred             HHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHH
Q 047221          375 YSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVM  454 (509)
Q Consensus       375 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  454 (509)
                      .+...++++.|...+.+..+.. +-+...+..+..+|.+.|++++|++.|++..+.. +.+...|..+...|.+.|++++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHH
Confidence            5666666666666666655442 2245556666666666666666666666655543 2244556666666666666666


Q ss_pred             HHHHHHHHHH
Q 047221          455 AKNVLSEMMK  464 (509)
Q Consensus       455 a~~~~~~m~~  464 (509)
                      |++.|++..+
T Consensus       160 A~~~~~~al~  169 (184)
T 3vtx_A          160 AVKYFKKALE  169 (184)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            6666666655

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.33  E-value=4.5e-11  Score=112.91  Aligned_cols=237  Identities=13%  Similarity=0.093  Sum_probs=169.2

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHcC---------CC---HHHHHHHHHHHHhcCCccHHHHHHHHHHHc-----
Q 047221          263 SCLVSGVRALIEMFSVLGLYEMAKYVIKKTE---------RK---VSYYNILIKEMCRRCDFKGPRDLLVEMRQV-----  325 (509)
Q Consensus       263 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~---------~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----  325 (509)
                      +.+..++..+...|...|++++|..+|++.-         .+   ..++..+...|...|++++|.+.+++..+.     
T Consensus        24 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  103 (311)
T 3nf1_A           24 PARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTL  103 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHh
Confidence            3446678899999999999999999998851         12   567888999999999999999999988754     


Q ss_pred             -CC-CCChHHHHHHHHHHHhcCChHHHHHHHHHHHhC------CCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHC-
Q 047221          326 -GC-EPITLTYNYVLGVLCKNGQDADACELLEEMLGR------NCHP-DAITYEIFIVYSCRVGKFDVAFNFFNQMVKR-  395 (509)
Q Consensus       326 -g~-~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~------g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-  395 (509)
                       +- .....++..+...|...|++++|.+.+++..+.      +..| ....+..+...|...|++++|...++++.+. 
T Consensus       104 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~  183 (311)
T 3nf1_A          104 GKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIY  183 (311)
T ss_dssp             CTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHH
T ss_pred             CCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence             21 233567888999999999999999999988764      2222 3456888889999999999999999998764 


Q ss_pred             -----CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC-------CCCCC-------HHHHHHHHHHHHhCCChHHH
Q 047221          396 -----GLQP-RLATHAAFIKGYFIFYRYEDAYKYVVLSADK-------YKSSS-------NMLYSLLASLHDKNNNPVMA  455 (509)
Q Consensus       396 -----g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-------~~~p~-------~~~~~~li~~~~~~g~~~~a  455 (509)
                           +..| ...++..+..+|...|++++|.+.++++.+.       ...+.       ...+..+...+...+.+.++
T Consensus       184 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  263 (311)
T 3nf1_A          184 QTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEY  263 (311)
T ss_dssp             HHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCC
T ss_pred             HHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHH
Confidence                 2122 3457888999999999999999999988753       11111       12233333444455666666


Q ss_pred             HHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 047221          456 KNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSL  500 (509)
Q Consensus       456 ~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~  500 (509)
                      ...++..... -..+..++..+..+|.+.|++++|.+++++..+.
T Consensus       264 ~~~~~~~~~~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  307 (311)
T 3nf1_A          264 GGWYKACKVD-SPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRS  307 (311)
T ss_dssp             C----------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhcCCC-CchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            7777766542 2334567888999999999999999999988754

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.32  E-value=4.6e-10  Score=97.44  Aligned_cols=164  Identities=13%  Similarity=-0.006  Sum_probs=140.7

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHH
Q 047221          264 CLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLG  339 (509)
Q Consensus       264 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~  339 (509)
                      -+..+|..+...|.+.|++++|...|++.    +.+..+|..+...|.+.|++++|+..+....... .-+...+..+..
T Consensus         3 e~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~   81 (184)
T 3vtx_A            3 ETTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGS   81 (184)
T ss_dssp             -CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHH
Confidence            35678899999999999999999999885    5678899999999999999999999999888764 445677778888


Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHH
Q 047221          340 VLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYED  419 (509)
Q Consensus       340 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  419 (509)
                      .+...++++.|...+.+..+. .+-+...+..+...|.+.|++++|++.|++..+.. +-+..+|..+..+|.+.|++++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~-~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIAL-NTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh-CccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHH
Confidence            899999999999999988775 24467788888999999999999999999988763 3467889999999999999999


Q ss_pred             HHHHHHHHHhC
Q 047221          420 AYKYVVLSADK  430 (509)
Q Consensus       420 A~~~~~~m~~~  430 (509)
                      |.+.|++..+.
T Consensus       160 A~~~~~~al~~  170 (184)
T 3vtx_A          160 AVKYFKKALEK  170 (184)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHhC
Confidence            99999988775

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.32  E-value=1e-10  Score=114.57  Aligned_cols=291  Identities=9%  Similarity=-0.081  Sum_probs=202.1

Q ss_pred             hccCCHHHHHHHHHHhhhC--CC--ccCHHHHHHHHHHHH-hccCCHHHHH-----------HHHHHHHHcCCCCCH---
Q 047221          206 GRLDDYETMRQLLNDFNVY--QV--CLNEKAFGFLPVLIS-SKALTKKGIW-----------RVVEVLNQVGGSCLV---  266 (509)
Q Consensus       206 ~~~g~~~~A~~l~~~m~~~--~~--~p~~~~~~~ll~~~~-~~~~~~~~a~-----------~~~~~m~~~g~~~~~---  266 (509)
                      .+.+++++|..+++++.+.  .+  .++...|-.++..-. ...+..+.+.           ..++.+.......+.   
T Consensus        23 i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~y~~ll~~r~~~~~~~~~~~~~~~~e~~~~~~~~~~~i~~~~~~~~~~l~  102 (383)
T 3ulq_A           23 IRRFSIPDAEYLRREIKQELDQMEEDQDLHLYYSLMEFRHNLMLEYLEPLEKMRIEEQPRLSDLLLEIDKKQARLTGLLE  102 (383)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHGGGGGSCGGGSCCHHHHHHHHHHHTHHHHHHHH
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHhhcCcccccccccccchhhHHHHHHhcCCCchhHHH
Confidence            4678899999998887554  22  223333333333111 1111133333           555555442211111   


Q ss_pred             -HHHHHHHHHHHhcCCHHHHHHHHHHc------CCC----HHHHHHHHHHHHhcCCccHHHHHHHHHHHcCC-CC-----
Q 047221          267 -SGVRALIEMFSVLGLYEMAKYVIKKT------ERK----VSYYNILIKEMCRRCDFKGPRDLLVEMRQVGC-EP-----  329 (509)
Q Consensus       267 -~~~~~li~~~~~~g~~~~A~~~~~~m------~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p-----  329 (509)
                       ..+......+...|++++|...|++.      .+|    ..+|..+...|...|++++|++.+.+..+.-- .+     
T Consensus       103 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~  182 (383)
T 3ulq_A          103 YYFNFFRGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIR  182 (383)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHH
Confidence             11233667788899999999999885      122    46788999999999999999999998775310 11     


Q ss_pred             ChHHHHHHHHHHHhcCChHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHC----CC-CC
Q 047221          330 ITLTYNYVLGVLCKNGQDADACELLEEMLGR----NCHP-DAITYEIFIVYSCRVGKFDVAFNFFNQMVKR----GL-QP  399 (509)
Q Consensus       330 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~-~p  399 (509)
                      ...+++.+...|...|++++|...|.+..+.    +-.+ ...++..+...|...|++++|...+++..+.    +. ..
T Consensus       183 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~  262 (383)
T 3ulq_A          183 LLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPS  262 (383)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGG
T ss_pred             HHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchh
Confidence            2457888889999999999999999887653    1111 1247888889999999999999999988762    22 33


Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC----CCCCCHHHHHHHHHHHHhCCC---hHHHHHHHHHHHHCCCCcC-H
Q 047221          400 RLATHAAFIKGYFIFYRYEDAYKYVVLSADK----YKSSSNMLYSLLASLHDKNNN---PVMAKNVLSEMMKNGLRPN-V  471 (509)
Q Consensus       400 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~p~~~~~~~li~~~~~~g~---~~~a~~~~~~m~~~g~~p~-~  471 (509)
                      ...++..+...|.+.|++++|...+++..+.    +-......+..+...|...|+   .++|+.++++.   +..|+ .
T Consensus       263 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~  339 (383)
T 3ulq_A          263 LPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLE  339 (383)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHH
Confidence            4677899999999999999999999887653    112223346678888888898   77788777765   33333 3


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 047221          472 SVYRRVLKHLHTSHQEHMAKCLSSRYSS  499 (509)
Q Consensus       472 ~t~~~ll~~~~~~g~~~~a~~~~~~m~~  499 (509)
                      ..+..+...|...|++++|.+.+++..+
T Consensus       340 ~~~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          340 DFAIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            4677788899999999999999998874

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.32  E-value=1.7e-09  Score=102.51  Aligned_cols=217  Identities=11%  Similarity=-0.018  Sum_probs=168.6

Q ss_pred             HHHHHHHHHhhhCCCccCHHHHHHHHHHHHh------ccCCH-------HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 047221          212 ETMRQLLNDFNVYQVCLNEKAFGFLPVLISS------KALTK-------KGIWRVVEVLNQVGGSCLVSGVRALIEMFSV  278 (509)
Q Consensus       212 ~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~------~~~~~-------~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  278 (509)
                      ++|..+|++..... +-+...|..+...+..      ..|+.       ++|..+|++..+.-.+.+...|..++..+.+
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            67888888876642 2355566666554332      23444       8999999998873234466789999999999


Q ss_pred             cCCHHHHHHHHHHc---CC-CHH-HHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHH-hcCChHHHHH
Q 047221          279 LGLYEMAKYVIKKT---ER-KVS-YYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLC-KNGQDADACE  352 (509)
Q Consensus       279 ~g~~~~A~~~~~~m---~~-~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~-~~g~~~~a~~  352 (509)
                      .|++++|..+|++.   .| +.. .|..++..+.+.|++++|..+|++..+.+ +.+...|........ ..|++++|.+
T Consensus       112 ~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A~~  190 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFK  190 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHHHH
Confidence            99999999999985   34 344 89999999999999999999999998764 344555554433322 3799999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCC-CCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 047221          353 LLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRG-LQP--RLATHAAFIKGYFIFYRYEDAYKYVVLSAD  429 (509)
Q Consensus       353 ~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  429 (509)
                      +|++..+. .+-+...|..++..+.+.|+.++|..+|++..+.. +.|  ....|..++..+.+.|+.+.|..+++++.+
T Consensus       191 ~~~~al~~-~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~  269 (308)
T 2ond_A          191 IFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             HHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHh-CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            99998875 23467889999999999999999999999999863 454  467899999999999999999999999887


Q ss_pred             CC
Q 047221          430 KY  431 (509)
Q Consensus       430 ~~  431 (509)
                      ..
T Consensus       270 ~~  271 (308)
T 2ond_A          270 AF  271 (308)
T ss_dssp             HT
T ss_pred             Hc
Confidence            53

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.32  E-value=8.2e-11  Score=118.70  Aligned_cols=210  Identities=10%  Similarity=-0.047  Sum_probs=139.2

Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCH-HHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHH
Q 047221          247 KKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLY-EMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVE  321 (509)
Q Consensus       247 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~-~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~  321 (509)
                      ++++...++...... +.+...+..+...|...|++ ++|+..|++.    +.+..+|..+...|.+.|++++|++.|++
T Consensus        84 ~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~  162 (474)
T 4abn_A           84 MEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSG  162 (474)
T ss_dssp             HHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            666666666554422 34566777777777777777 7777777764    34567777777777777777777777777


Q ss_pred             HHHcCCCCChHHHHHHHHHHHhc---------CChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHc--------CChHH
Q 047221          322 MRQVGCEPITLTYNYVLGVLCKN---------GQDADACELLEEMLGRNCHPDAITYEIFIVYSCRV--------GKFDV  384 (509)
Q Consensus       322 m~~~g~~p~~~t~~~li~~~~~~---------g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~--------g~~~~  384 (509)
                      ..+.  .|+...+..+...|...         |++++|.+.|++..+.. +-+...|..+..+|...        |++++
T Consensus       163 al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~  239 (474)
T 4abn_A          163 ALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQQ  239 (474)
T ss_dssp             HHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHHH
T ss_pred             HHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHHH
Confidence            7765  46666777777777777         77777777777766652 23466677777777766        77777


Q ss_pred             HHHHHHHHHHCCCC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHH
Q 047221          385 AFNFFNQMVKRGLQ--PRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSE  461 (509)
Q Consensus       385 a~~~~~~m~~~g~~--p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  461 (509)
                      |...|++..+..-.  -+...|..+..+|...|++++|.+.|++..+.. .-+...+..+...+...|++++|++.+.+
T Consensus       240 A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          240 ALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             HHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            77777776664210  256667777777777777777777777666543 22445566666666666666666665543

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.28  E-value=7.4e-10  Score=108.40  Aligned_cols=225  Identities=8%  Similarity=0.000  Sum_probs=172.2

Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHc------CCC-----HHHHH
Q 047221          237 PVLISSKALTKKGIWRVVEVLNQV----GGSC-LVSGVRALIEMFSVLGLYEMAKYVIKKT------ERK-----VSYYN  300 (509)
Q Consensus       237 l~~~~~~~~~~~~a~~~~~~m~~~----g~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m------~~~-----~~~~~  300 (509)
                      ...+....|++++|...++...+.    +..+ ...++..+...|...|+++.|...+++.      ..+     ..+++
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            333455667799999999998764    2222 3467889999999999999999998874      122     46788


Q ss_pred             HHHHHHHhcCCccHHHHHHHHHHHcCC-CCC----hHHHHHHHHHHHhcCChHHHHHHHHHHHhC----CC-CCCHHHHH
Q 047221          301 ILIKEMCRRCDFKGPRDLLVEMRQVGC-EPI----TLTYNYVLGVLCKNGQDADACELLEEMLGR----NC-HPDAITYE  370 (509)
Q Consensus       301 ~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~----~~t~~~li~~~~~~g~~~~a~~~~~~m~~~----g~-~p~~~~~~  370 (509)
                      .+...|...|++++|++.|++..+..- .++    ..++..+...|...|++++|.+.+++..+.    +. +....++.
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            899999999999999999998774310 111    247888999999999999999999988772    33 33466788


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHC----CCCCCHHHHHHHHHHHHHcCC---HHHHHHHHHHHHhCCCCC-CHHHHHHH
Q 047221          371 IFIVYSCRVGKFDVAFNFFNQMVKR----GLQPRLATHAAFIKGYFIFYR---YEDAYKYVVLSADKYKSS-SNMLYSLL  442 (509)
Q Consensus       371 ~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~~~~p-~~~~~~~l  442 (509)
                      .+...|.+.|++++|...+++..+.    +-......+..+...|...|+   +++|..++++.   +..+ ....+..+
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~l  345 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDV  345 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHH
Confidence            8999999999999999999987653    211123345778888888898   78888888765   2222 23467789


Q ss_pred             HHHHHhCCChHHHHHHHHHHHH
Q 047221          443 ASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       443 i~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      ...|...|++++|.+.+++..+
T Consensus       346 a~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          346 AKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH
Confidence            9999999999999999998865

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.27  E-value=1.9e-10  Score=116.09  Aligned_cols=193  Identities=11%  Similarity=-0.008  Sum_probs=90.8

Q ss_pred             CHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 047221          295 KVSYYNILIKEMCRRCDF-KGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFI  373 (509)
Q Consensus       295 ~~~~~~~li~~~~~~g~~-~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  373 (509)
                      +...|..+...|...|++ ++|++.|++..+.. +-+...|..+..+|.+.|++++|.+.|++..+.  .|+...+..+.
T Consensus       101 ~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~lg  177 (474)
T 4abn_A          101 EAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFSGALTH--CKNKVSLQNLS  177 (474)
T ss_dssp             CHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--CCCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCHHHHHHHH
Confidence            344455555555555555 55555555544432 223444555555555555555555555555443  23444444444


Q ss_pred             HHHHHc---------CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc--------CCHHHHHHHHHHHHhCCCC--C
Q 047221          374 VYSCRV---------GKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIF--------YRYEDAYKYVVLSADKYKS--S  434 (509)
Q Consensus       374 ~~~~~~---------g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~--------g~~~~A~~~~~~m~~~~~~--p  434 (509)
                      ..|...         |++++|...|++..+.. +-+...|..+..+|...        |++++|.+.|++..+....  -
T Consensus       178 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~  256 (474)
T 4abn_A          178 MVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKASS  256 (474)
T ss_dssp             HHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGGG
T ss_pred             HHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCccc
Confidence            455444         55555555555544432 22344455555555544        5555555555554443210  2


Q ss_pred             CHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHH
Q 047221          435 SNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKC  492 (509)
Q Consensus       435 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~  492 (509)
                      +...|..+...|...|++++|++.|++..+.. +-+...+..+..++...|++++|.+
T Consensus       257 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eAi~  313 (474)
T 4abn_A          257 NPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSLLE  313 (474)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            44445555555555555555555555544421 1123334444444444555555444

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.26  E-value=6.8e-09  Score=101.02  Aligned_cols=297  Identities=11%  Similarity=-0.023  Sum_probs=169.9

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHH----HHHHHHHHHHhccCCHHHHHHHHHHHHHcCC-CCC----HH
Q 047221          197 ICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEK----AFGFLPVLISSKALTKKGIWRVVEVLNQVGG-SCL----VS  267 (509)
Q Consensus       197 ~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~----~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~-~~~----~~  267 (509)
                      .+......+...|++++|...+++.....-..+..    .+..+-. +....|++++|...+++..+... ..+    ..
T Consensus        16 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~-~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~   94 (373)
T 1hz4_A           16 FNALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGE-VLHCKGELTRSLALMQQTEQMARQHDVWHYALW   94 (373)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHH-HHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHH-HHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHH
Confidence            34444556667888888888888876653222221    2223333 23344558888887777654211 111    22


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHc--------C---C-CHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCC--C--Ch
Q 047221          268 GVRALIEMFSVLGLYEMAKYVIKKT--------E---R-KVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCE--P--IT  331 (509)
Q Consensus       268 ~~~~li~~~~~~g~~~~A~~~~~~m--------~---~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~--p--~~  331 (509)
                      ++..+...|...|++++|...+++.        .   + ....+..+...+...|++++|...+++.....-.  +  ..
T Consensus        95 ~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  174 (373)
T 1hz4_A           95 SLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQL  174 (373)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHH
Confidence            3566777777788888887777663        1   1 1344556667777778888888887776643211  1  13


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC--HHHHH----HHHHHHHHcCChHHHHHHHHHHHHCCCCC---CHH
Q 047221          332 LTYNYVLGVLCKNGQDADACELLEEMLGRNCHPD--AITYE----IFIVYSCRVGKFDVAFNFFNQMVKRGLQP---RLA  402 (509)
Q Consensus       332 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~--~~~~~----~li~~~~~~g~~~~a~~~~~~m~~~g~~p---~~~  402 (509)
                      .++..+...+...|++++|...+++.....-.++  .....    ..+..+...|+.++|...+++.......+   ...
T Consensus       175 ~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~  254 (373)
T 1hz4_A          175 QCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQG  254 (373)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHH
Confidence            4566667777777888888877777654311111  11111    22234667778888877777765432111   123


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhC----CCCCCH-HHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHH
Q 047221          403 THAAFIKGYFIFYRYEDAYKYVVLSADK----YKSSSN-MLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRV  477 (509)
Q Consensus       403 ~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l  477 (509)
                      .+..+...+...|++++|...+++..+.    +..++. ..+..+..++...|+.++|.+.+++.....  +.    ...
T Consensus       255 ~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~~--~~----~g~  328 (373)
T 1hz4_A          255 QWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLA--NR----TGF  328 (373)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH--HH----HCC
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHh--cc----ccH
Confidence            4556667777778888877777766432    211122 255556667777777788877777776531  10    112


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCC
Q 047221          478 LKHLHTSHQEHMAKCLSSRYSSLSL  502 (509)
Q Consensus       478 l~~~~~~g~~~~a~~~~~~m~~~~~  502 (509)
                      +..+...|  +....+++.+...+.
T Consensus       329 ~~~~~~~g--~~~~~ll~~~~~~~~  351 (373)
T 1hz4_A          329 ISHFVIEG--EAMAQQLRQLIQLNT  351 (373)
T ss_dssp             CHHHHTTH--HHHHHHHHHHHHTTC
T ss_pred             HHHHHHcc--HHHHHHHHHHHhCCC
Confidence            23344444  556666666655544

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.25  E-value=1.9e-10  Score=108.50  Aligned_cols=233  Identities=11%  Similarity=0.047  Sum_probs=163.4

Q ss_pred             HHHHHHHHHHHHhccCCHHHHHHHHHHHHHc-------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc---------C
Q 047221          230 EKAFGFLPVLISSKALTKKGIWRVVEVLNQV-------GGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT---------E  293 (509)
Q Consensus       230 ~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~-------g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m---------~  293 (509)
                      ..++..+.. ++...|++++|..+++.+.+.       ..+....++..+...|...|++++|...+++.         .
T Consensus        27 ~~~~~~l~~-~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  105 (311)
T 3nf1_A           27 LRTLHNLVI-QYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGK  105 (311)
T ss_dssp             HHHHHHHHH-HHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHH-HHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCC
Confidence            455565555 444556699999999998874       34445677899999999999999999999874         1


Q ss_pred             ---CCHHHHHHHHHHHHhcCCccHHHHHHHHHHHc------CCCC-ChHHHHHHHHHHHhcCChHHHHHHHHHHHhC---
Q 047221          294 ---RKVSYYNILIKEMCRRCDFKGPRDLLVEMRQV------GCEP-ITLTYNYVLGVLCKNGQDADACELLEEMLGR---  360 (509)
Q Consensus       294 ---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~---  360 (509)
                         ....+|..+...|...|++++|.+.|++..+.      +-.| ....+..+...|...|++++|.+++++..+.   
T Consensus       106 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~  185 (311)
T 3nf1_A          106 DHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQT  185 (311)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence               12567889999999999999999999988764      2222 3566788899999999999999999998764   


Q ss_pred             ---CCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHC-------CCCCCH-------HHHHHHHHHHHHcCCHHHHHH
Q 047221          361 ---NCHP-DAITYEIFIVYSCRVGKFDVAFNFFNQMVKR-------GLQPRL-------ATHAAFIKGYFIFYRYEDAYK  422 (509)
Q Consensus       361 ---g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-------g~~p~~-------~~~~~li~~~~~~g~~~~A~~  422 (509)
                         +..| ...++..+...|.+.|++++|...++++.+.       ...+..       ..+..+...+...+.+.+|..
T Consensus       186 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  265 (311)
T 3nf1_A          186 KLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGG  265 (311)
T ss_dssp             TSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC-
T ss_pred             HhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHH
Confidence               2233 2457888899999999999999999998753       111111       112223333344455555555


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 047221          423 YVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       423 ~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      .++...... .....+|..+...|.+.|++++|.++|++..+
T Consensus       266 ~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          266 WYKACKVDS-PTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             --------C-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHhhcCCCC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            565544321 22456788899999999999999999998875

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.24  E-value=1.3e-09  Score=106.41  Aligned_cols=299  Identities=9%  Similarity=-0.069  Sum_probs=202.9

Q ss_pred             HHHHHHHHH--hccCCHHHHHHHHHHhhhC--CCc--cCHHHHHHHHHHHH-hccCCHHHHH---------HHHHHHHHc
Q 047221          197 ICSLVIDNC--GRLDDYETMRQLLNDFNVY--QVC--LNEKAFGFLPVLIS-SKALTKKGIW---------RVVEVLNQV  260 (509)
Q Consensus       197 ~~~~li~~~--~~~g~~~~A~~l~~~m~~~--~~~--p~~~~~~~ll~~~~-~~~~~~~~a~---------~~~~~m~~~  260 (509)
                      +-+.|-..|  .+.+++++|.++++++...  .+.  .+...|-.++..-. ...+......         ..++.+...
T Consensus        12 v~~~l~~wy~~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~yy~l~~~r~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~   91 (378)
T 3q15_A           12 VGVKINEWYKMIRQFSVPDAEILKAEVEQDIQQMEEDQDLLIYYSLMCFRHQLMLDYLEPGKTYGNRPTVTELLETIETP   91 (378)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHGGGBCCCHHHHHHHHHHHHHHHHHHHTCCC--------CHHHHHHHHHGG
T ss_pred             HHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHhhcCcccccccccchHHHHHHHhcc
Confidence            445555555  6788899999999886543  121  22333333333110 0001111222         555554432


Q ss_pred             CCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHc------CCC----HHHHHHHHHHHHhcCCccHHHHHHHHHHHc-
Q 047221          261 GGSCLV----SGVRALIEMFSVLGLYEMAKYVIKKT------ERK----VSYYNILIKEMCRRCDFKGPRDLLVEMRQV-  325 (509)
Q Consensus       261 g~~~~~----~~~~~li~~~~~~g~~~~A~~~~~~m------~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-  325 (509)
                      ..+.+.    ..+......+...|++++|...|++.      .++    ..++..+...|...|++++|+..+.+..+. 
T Consensus        92 ~~~~~~~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~  171 (378)
T 3q15_A           92 QKKLTGLLKYYSLFFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIY  171 (378)
T ss_dssp             GHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             CCCCccHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHH
Confidence            211111    12334556678899999999999885      122    567888999999999999999999887643 


Q ss_pred             ---C-CCC-ChHHHHHHHHHHHhcCChHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHH-
Q 047221          326 ---G-CEP-ITLTYNYVLGVLCKNGQDADACELLEEMLGR----NCHP-DAITYEIFIVYSCRVGKFDVAFNFFNQMVK-  394 (509)
Q Consensus       326 ---g-~~p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-  394 (509)
                         + ..+ ...+++.+...|...|++++|.+.|.+..+.    |..+ ...++..+...|...|++++|...+++..+ 
T Consensus       172 ~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~  251 (378)
T 3q15_A          172 QNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKV  251 (378)
T ss_dssp             HTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence               1 111 2457788999999999999999999887653    2111 134678888899999999999999999876 


Q ss_pred             ----CCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC----CCCCHHHHHHHHHHHHhCCC---hHHHHHHHHHHH
Q 047221          395 ----RGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKY----KSSSNMLYSLLASLHDKNNN---PVMAKNVLSEMM  463 (509)
Q Consensus       395 ----~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~----~~p~~~~~~~li~~~~~~g~---~~~a~~~~~~m~  463 (509)
                          .. +....++..+...|.+.|+.++|...+++..+..    -......+..+...|...|+   ..+|+.++++  
T Consensus       252 ~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~--  328 (378)
T 3q15_A          252 SREKVP-DLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEK--  328 (378)
T ss_dssp             HHHHCG-GGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHH--
T ss_pred             HHhhCC-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHh--
Confidence                42 2236778889999999999999999999887642    22234456666677777888   7778877776  


Q ss_pred             HCCCCcC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 047221          464 KNGLRPN-VSVYRRVLKHLHTSHQEHMAKCLSSRYSS  499 (509)
Q Consensus       464 ~~g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~  499 (509)
                       .+..|+ ...+..+...|...|++++|.+.+++..+
T Consensus       329 -~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          329 -KNLHAYIEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             -TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             -CCChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence             233333 34667788899999999999999988764

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.23  E-value=1.6e-09  Score=93.43  Aligned_cols=156  Identities=15%  Similarity=-0.011  Sum_probs=71.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhc
Q 047221          269 VRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKN  344 (509)
Q Consensus       269 ~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~  344 (509)
                      +..+...|...|++++|...|+++    +.+...|..+...+...|++++|.+.++++.+.. +.+...+..+...|...
T Consensus        11 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~   89 (186)
T 3as5_A           11 YRDKGISHAKAGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYVQV   89 (186)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHh
Confidence            444555555555555555555553    2334445555555555555555555555544432 22344444444444444


Q ss_pred             CChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 047221          345 GQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYV  424 (509)
Q Consensus       345 g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~  424 (509)
                      |++++|.+.++++.+. .+.+...+..+...+.+.|++++|...++++.+.. +.+...+..+...|...|++++|...+
T Consensus        90 ~~~~~A~~~~~~~~~~-~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~  167 (186)
T 3as5_A           90 QKYDLAVPLLIKVAEA-NPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEALPHF  167 (186)
T ss_dssp             TCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhc-CcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHHHHHH
Confidence            5555555544444433 12233344444444444444444444444444331 122334444444444444444444444


Q ss_pred             HHH
Q 047221          425 VLS  427 (509)
Q Consensus       425 ~~m  427 (509)
                      ++.
T Consensus       168 ~~~  170 (186)
T 3as5_A          168 KKA  170 (186)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            433

>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=99.21  E-value=1.6e-09  Score=93.44  Aligned_cols=163  Identities=13%  Similarity=0.033  Sum_probs=78.5

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Q 047221          334 YNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFI  413 (509)
Q Consensus       334 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  413 (509)
                      |..+...+...|++++|.+.++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...|..
T Consensus        11 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~   88 (186)
T 3as5_A           11 YRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYVQ   88 (186)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHH
Confidence            3334444444455555555444444331 2234444444445555555555555555544431 2234444555555555


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHH
Q 047221          414 FYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCL  493 (509)
Q Consensus       414 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~  493 (509)
                      .|++++|.+.++++.+.. ..+...+..+...+...|++++|.++++++.+.. ..+...+..+...+...|++++|.+.
T Consensus        89 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~  166 (186)
T 3as5_A           89 VQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEALPH  166 (186)
T ss_dssp             HTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHHHHH
Confidence            555555555555544432 1234445555555555555555555555554431 22344555555555555555555555


Q ss_pred             HHHHHhC
Q 047221          494 SSRYSSL  500 (509)
Q Consensus       494 ~~~m~~~  500 (509)
                      +++..+.
T Consensus       167 ~~~~~~~  173 (186)
T 3as5_A          167 FKKANEL  173 (186)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHc
Confidence            5555443

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.19  E-value=2.1e-09  Score=107.62  Aligned_cols=300  Identities=11%  Similarity=0.009  Sum_probs=199.2

Q ss_pred             hHHHHHHHhhccCCCCccChhHHHHHHHHHhccC-----CHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccC--CHH
Q 047221          176 SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLD-----DYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKAL--TKK  248 (509)
Q Consensus       176 ~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g-----~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~--~~~  248 (509)
                      +|++.|+......|      ..+..|...+...+     ++++|...|++..+.|...   .+..+-..+....+  .-.
T Consensus        56 ~A~~~~~~A~~~~~------~A~~~Lg~~~~~~~~~~~~~~~~A~~~~~~Aa~~g~~~---A~~~Lg~~y~~~~~~~~~~  126 (452)
T 3e4b_A           56 QAEATYRAAADTSP------RAQARLGRLLAAKPGATEAEHHEAESLLKKAFANGEGN---TLIPLAMLYLQYPHSFPNV  126 (452)
T ss_dssp             ---------------------CHHHHHHHHHTC--CCHHHHHHHHHHHHHHHHTTCSS---CHHHHHHHHHHCGGGCTTC
T ss_pred             HHHHHHHHHHhCCH------HHHHHHHHHHHhCCCCCCcCHHHHHHHHHHHHHCCCHH---HHHHHHHHHHhCCCCCCCH
Confidence            57777766622122      25666655444444     6777888887777765322   33333333333222  113


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC----HHHHHHHHHHc-CCCHHHHHHHHHHHHhcC---CccHHHHHHH
Q 047221          249 GIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGL----YEMAKYVIKKT-ERKVSYYNILIKEMCRRC---DFKGPRDLLV  320 (509)
Q Consensus       249 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~----~~~A~~~~~~m-~~~~~~~~~li~~~~~~g---~~~~A~~~~~  320 (509)
                      ++.+.+......|.   ......|...|...+.    .+.+..+++.. ..+...+..|...|.+.|   +.++|++.|+
T Consensus       127 ~a~~~~~~a~~~g~---~~a~~~Lg~~y~~~~~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~  203 (452)
T 3e4b_A          127 NAQQQISQWQAAGY---PEAGLAQVLLYRTQGTYDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQME  203 (452)
T ss_dssp             CHHHHHHHHHHHTC---TTHHHHHHHHHHHHTCGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCC---HHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHH
Confidence            34444444444442   3455677777777774    45555555554 345558889999999999   8999999999


Q ss_pred             HHHHcCCCCChHHHHHHHHHHHhc----CChHHHHHHHHHHHhCCCCCCHHHHHHHHHH-H--HHcCChHHHHHHHHHHH
Q 047221          321 EMRQVGCEPITLTYNYVLGVLCKN----GQDADACELLEEMLGRNCHPDAITYEIFIVY-S--CRVGKFDVAFNFFNQMV  393 (509)
Q Consensus       321 ~m~~~g~~p~~~t~~~li~~~~~~----g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~-~--~~~g~~~~a~~~~~~m~  393 (509)
                      +..+.| .++...+..|...|...    +++++|.+.|+... .|   +...+..|-.. |  ...++.++|...|++..
T Consensus       204 ~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa  278 (452)
T 3e4b_A          204 AGVSRG-TVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGR  278 (452)
T ss_dssp             HHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHH
T ss_pred             HHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Confidence            999887 66666667777777655    78999999999887 43   55566666665 3  46899999999999999


Q ss_pred             HCCCCCCHHHHHHHHHHHHHcC-----CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----CCChHHHHHHHHHHHH
Q 047221          394 KRGLQPRLATHAAFIKGYFIFY-----RYEDAYKYVVLSADKYKSSSNMLYSLLASLHDK----NNNPVMAKNVLSEMMK  464 (509)
Q Consensus       394 ~~g~~p~~~~~~~li~~~~~~g-----~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~  464 (509)
                      +.|   +...+..|-..|. .|     +.++|.+.|++.. .|   +...+..|...|..    ..+.++|.++|++..+
T Consensus       279 ~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~  350 (452)
T 3e4b_A          279 AAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-GR---EVAADYYLGQIYRRGYLGKVYPQKALDHLLTAAR  350 (452)
T ss_dssp             HTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-TT---CHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHT
T ss_pred             HCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-CC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHh
Confidence            887   7888888888887 55     9999999998877 33   66777778877776    3489999999999988


Q ss_pred             CCCCcCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCC
Q 047221          465 NGLRPNVSVYRRVLKHLHT----SHQEHMAKCLSSRYSSLSLG  503 (509)
Q Consensus       465 ~g~~p~~~t~~~ll~~~~~----~g~~~~a~~~~~~m~~~~~~  503 (509)
                      .|. |  .....|-..|..    ..+.++|...++.-.+.|..
T Consensus       351 ~g~-~--~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~~  390 (452)
T 3e4b_A          351 NGQ-N--SADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDTP  390 (452)
T ss_dssp             TTC-T--THHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCCH
T ss_pred             hCh-H--HHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCCH
Confidence            774 2  344555555553    45899999999998887753

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.18  E-value=9.2e-09  Score=102.97  Aligned_cols=299  Identities=11%  Similarity=-0.025  Sum_probs=204.6

Q ss_pred             hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHH---HHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHH
Q 047221          176 SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYE---TMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWR  252 (509)
Q Consensus       176 ~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~---~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~  252 (509)
                      +|++.|+......+     ...+..|...|...+..+   .+.+.+......|.   ......+-..+.. ++.++.+..
T Consensus        92 ~A~~~~~~Aa~~g~-----~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~---~~a~~~Lg~~y~~-~~~~~~~~~  162 (452)
T 3e4b_A           92 EAESLLKKAFANGE-----GNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGY---PEAGLAQVLLYRT-QGTYDQHLD  162 (452)
T ss_dssp             HHHHHHHHHHHTTC-----SSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTC---TTHHHHHHHHHHH-HTCGGGGHH
T ss_pred             HHHHHHHHHHHCCC-----HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCC---HHHHHHHHHHHHc-CCCcccCHH
Confidence            68889988833211     127777888887766544   34555555544443   3344444443333 332444444


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHc----CCCHHHHHHHHHHHHhc----CCccHHHHHHHH
Q 047221          253 VVEVLNQVGGSCLVSGVRALIEMFSVLG---LYEMAKYVIKKT----ERKVSYYNILIKEMCRR----CDFKGPRDLLVE  321 (509)
Q Consensus       253 ~~~~m~~~g~~~~~~~~~~li~~~~~~g---~~~~A~~~~~~m----~~~~~~~~~li~~~~~~----g~~~~A~~~~~~  321 (509)
                      ......+.-...+...+..|..+|.+.|   +.++|...|++.    +++...+..|...|...    +++++|++.|++
T Consensus       163 ~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~  242 (452)
T 3e4b_A          163 DVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDEKTAQALLEK  242 (452)
T ss_dssp             HHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHH
Confidence            3333332222233337889999999999   999999999885    45566667777777655    689999999999


Q ss_pred             HHHcCCCCChHHHHHHHHH-H--HhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcC-----ChHHHHHHHHHHH
Q 047221          322 MRQVGCEPITLTYNYVLGV-L--CKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVG-----KFDVAFNFFNQMV  393 (509)
Q Consensus       322 m~~~g~~p~~~t~~~li~~-~--~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g-----~~~~a~~~~~~m~  393 (509)
                      .. .|   +...+..|... |  ...+++++|.+.|++..+.|   +...+..|-..|. .|     +.++|...|++..
T Consensus       243 aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa  314 (452)
T 3e4b_A          243 IA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV  314 (452)
T ss_dssp             HG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT
T ss_pred             Hc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh
Confidence            87 43   45666666666 3  46899999999999999887   6777777777776 55     9999999999887


Q ss_pred             HCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----CCChHHHHHHHHHHHHC
Q 047221          394 KRGLQPRLATHAAFIKGYFI----FYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDK----NNNPVMAKNVLSEMMKN  465 (509)
Q Consensus       394 ~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~  465 (509)
                       .|   +...+..|-..|..    ..+.++|.++|++..+.|.   ......|...|..    ..+.++|..+|+...+.
T Consensus       315 -~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~  387 (452)
T 3e4b_A          315 -GR---EVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQ---NSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQ  387 (452)
T ss_dssp             -TT---CHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTC---TTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTT
T ss_pred             -CC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhCh---HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHC
Confidence             44   77888888888876    3489999999999988774   3344556666664    45899999999999988


Q ss_pred             CCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 047221          466 GLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSS  499 (509)
Q Consensus       466 g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~  499 (509)
                      |... .......+......++.++|..+.++.++
T Consensus       388 g~~~-a~~~l~~l~~~~~~~~~~~a~~~~~~~~~  420 (452)
T 3e4b_A          388 DTPE-ANDLATQLEAPLTPAQRAEGQRLVQQELA  420 (452)
T ss_dssp             CCHH-HHHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             CCHH-HHHHHHHHHHhCCHHHHHHHHHHHHHHHH
Confidence            7532 33333333333344567788888877664

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.16  E-value=2.6e-08  Score=96.89  Aligned_cols=254  Identities=13%  Similarity=-0.002  Sum_probs=148.7

Q ss_pred             hHHHHHHHhhccCCCCcc--ChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCc-cCH----HHHHHHHHHHHhccCCHH
Q 047221          176 SALCFLKYMREIMPEFYK--NSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVC-LNE----KAFGFLPVLISSKALTKK  248 (509)
Q Consensus       176 ~A~~~~~~~~~~~p~~~~--~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~-p~~----~~~~~ll~~~~~~~~~~~  248 (509)
                      .|...++......|....  ...+++.+...+...|++++|.+.+++.....-. .+.    .++..+-. .....|+++
T Consensus        32 ~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~-~~~~~G~~~  110 (373)
T 1hz4_A           32 EAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSE-ILFAQGFLQ  110 (373)
T ss_dssp             HHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-HHHHTTCHH
T ss_pred             HHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHH-HHHHCCCHH
Confidence            677777777333343210  1124556666677778888888887776543111 111    11222222 333455588


Q ss_pred             HHHHHHHHHHHc----CCC--C-CHHHHHHHHHHHHhcCCHHHHHHHHHHc---CC------CHHHHHHHHHHHHhcCCc
Q 047221          249 GIWRVVEVLNQV----GGS--C-LVSGVRALIEMFSVLGLYEMAKYVIKKT---ER------KVSYYNILIKEMCRRCDF  312 (509)
Q Consensus       249 ~a~~~~~~m~~~----g~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~------~~~~~~~li~~~~~~g~~  312 (509)
                      +|...+++..+.    +..  | ....+..+...|...|++++|...+++.   .+      ...+|..+...+...|++
T Consensus       111 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~  190 (373)
T 1hz4_A          111 TAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDL  190 (373)
T ss_dssp             HHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHHHHcCCH
Confidence            888777776542    221  2 2345566777777888888888777763   11      134566777777788888


Q ss_pred             cHHHHHHHHHHHcCCCCCh-HHHH-----HHHHHHHhcCChHHHHHHHHHHHhCCCCC---CHHHHHHHHHHHHHcCChH
Q 047221          313 KGPRDLLVEMRQVGCEPIT-LTYN-----YVLGVLCKNGQDADACELLEEMLGRNCHP---DAITYEIFIVYSCRVGKFD  383 (509)
Q Consensus       313 ~~A~~~~~~m~~~g~~p~~-~t~~-----~li~~~~~~g~~~~a~~~~~~m~~~g~~p---~~~~~~~li~~~~~~g~~~  383 (509)
                      ++|...+++.....-.++. ..+.     ..+..+...|++++|...+++.......+   ....+..+...+...|+++
T Consensus       191 ~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~  270 (373)
T 1hz4_A          191 DNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFE  270 (373)
T ss_dssp             HHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHHHHcCCHH
Confidence            8888888776643211111 1121     22334667788888888877766543211   1234556667777778888


Q ss_pred             HHHHHHHHHHHC----CCCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 047221          384 VAFNFFNQMVKR----GLQPRL-ATHAAFIKGYFIFYRYEDAYKYVVLSADK  430 (509)
Q Consensus       384 ~a~~~~~~m~~~----g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~  430 (509)
                      +|...+++....    |..++. ..+..+..+|...|+.++|...+++....
T Consensus       271 ~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~  322 (373)
T 1hz4_A          271 PAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKL  322 (373)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            888877776532    222222 25555666777778888888877776543

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.11  E-value=3.8e-08  Score=96.03  Aligned_cols=225  Identities=9%  Similarity=-0.016  Sum_probs=170.2

Q ss_pred             HHHHHHhccCCHHHHHHHHHHHHHcCC-CC----CHHHHHHHHHHHHhcCCHHHHHHHHHHc----C--CC-----HHHH
Q 047221          236 LPVLISSKALTKKGIWRVVEVLNQVGG-SC----LVSGVRALIEMFSVLGLYEMAKYVIKKT----E--RK-----VSYY  299 (509)
Q Consensus       236 ll~~~~~~~~~~~~a~~~~~~m~~~g~-~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m----~--~~-----~~~~  299 (509)
                      ....+....|++++|...++...+... .+    ...++..+...|...|+++.|...+++.    +  .+     ..++
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            334344566779999999999876421 12    2456889999999999999999988774    1  12     4578


Q ss_pred             HHHHHHHHhcCCccHHHHHHHHHHHc----CCC-CChHHHHHHHHHHHhcCChHHHHHHHHHHHh-----CCCCCCHHHH
Q 047221          300 NILIKEMCRRCDFKGPRDLLVEMRQV----GCE-PITLTYNYVLGVLCKNGQDADACELLEEMLG-----RNCHPDAITY  369 (509)
Q Consensus       300 ~~li~~~~~~g~~~~A~~~~~~m~~~----g~~-p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~~~  369 (509)
                      +.+...|...|++++|++.|++..+.    |-. ....++..+...|...|++++|.+.+++..+     . .+....++
T Consensus       186 ~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~-~~~~~~~~  264 (378)
T 3q15_A          186 FVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKV-PDLLPKVL  264 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHC-GGGHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhC-ChhHHHHH
Confidence            88999999999999999999887653    211 1235778889999999999999999998877     3 22336778


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHCC----CCCCHHHHHHHHHHHHHcCC---HHHHHHHHHHHHhCCCCC-CHHHHHH
Q 047221          370 EIFIVYSCRVGKFDVAFNFFNQMVKRG----LQPRLATHAAFIKGYFIFYR---YEDAYKYVVLSADKYKSS-SNMLYSL  441 (509)
Q Consensus       370 ~~li~~~~~~g~~~~a~~~~~~m~~~g----~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~~~~p-~~~~~~~  441 (509)
                      ..+...|.+.|++++|...+++..+..    -......+..+-..|...|+   +++|...+++.   +..+ ....+..
T Consensus       265 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~  341 (378)
T 3q15_A          265 FGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK---NLHAYIEACARS  341 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC---CChhHHHHHHHH
Confidence            889999999999999999999987642    12224456677777778888   77888887762   2222 2346678


Q ss_pred             HHHHHHhCCChHHHHHHHHHHHH
Q 047221          442 LASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       442 li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      +...|...|++++|.+.|++..+
T Consensus       342 la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          342 AAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH
Confidence            89999999999999999998864

>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=99.11  E-value=6.6e-10  Score=103.03  Aligned_cols=222  Identities=14%  Similarity=0.062  Sum_probs=151.6

Q ss_pred             hcCCHHHHHHHHHHc--------CC----CHHHHHHHHHHHHhcCCccHHHHHHHHHHHc------CC-CCChHHHHHHH
Q 047221          278 VLGLYEMAKYVIKKT--------ER----KVSYYNILIKEMCRRCDFKGPRDLLVEMRQV------GC-EPITLTYNYVL  338 (509)
Q Consensus       278 ~~g~~~~A~~~~~~m--------~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~-~p~~~t~~~li  338 (509)
                      ..|++++|...|++.        .+    ...+|..+...|...|++++|+..|++..+.      +- .....++..+.
T Consensus        13 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~   92 (283)
T 3edt_B           13 GLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLA   92 (283)
T ss_dssp             CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHH
Confidence            456666666666552        22    2577888999999999999999999988754      22 22356788899


Q ss_pred             HHHHhcCChHHHHHHHHHHHhC------CC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHC------CCCC-CHHHH
Q 047221          339 GVLCKNGQDADACELLEEMLGR------NC-HPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKR------GLQP-RLATH  404 (509)
Q Consensus       339 ~~~~~~g~~~~a~~~~~~m~~~------g~-~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------g~~p-~~~~~  404 (509)
                      ..|...|++++|.+.+.+..+.      .. +....++..+...|...|++++|...++++.+.      +-.| ...++
T Consensus        93 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  172 (283)
T 3edt_B           93 VLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTK  172 (283)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence            9999999999999999988764      11 223567888889999999999999999988765      1122 35678


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhC-------CCCCC-HHHHHHHHHHHHhCCChHHHHHHHHHHHH----C--CCCcC
Q 047221          405 AAFIKGYFIFYRYEDAYKYVVLSADK-------YKSSS-NMLYSLLASLHDKNNNPVMAKNVLSEMMK----N--GLRPN  470 (509)
Q Consensus       405 ~~li~~~~~~g~~~~A~~~~~~m~~~-------~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~----~--g~~p~  470 (509)
                      ..+...|...|++++|..++++..+.       ...+. ...|..+...+...+....+.. +..+..    .  .....
T Consensus       173 ~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~  251 (283)
T 3edt_B          173 NNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAP-YGEYGSWYKACKVDSPTV  251 (283)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC-------------CCCCCCHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHH-HHHHHHHHHhcCCCCHHH
Confidence            88999999999999999999988753       11222 2233333333333333332222 222211    1  11223


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 047221          471 VSVYRRVLKHLHTSHQEHMAKCLSSRYSSL  500 (509)
Q Consensus       471 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~  500 (509)
                      ..++..+...|...|++++|.+++++..+.
T Consensus       252 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          252 NTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            457888889999999999999999987754

>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=99.10  E-value=3.8e-09  Score=111.14  Aligned_cols=161  Identities=11%  Similarity=-0.002  Sum_probs=124.6

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHH
Q 047221          265 LVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGV  340 (509)
Q Consensus       265 ~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~  340 (509)
                      +..+++.|...|.+.|++++|++.|++.    +.+..+|+.+...|.+.|++++|++.|++..+.. +-+...|..+..+
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg~~   86 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGNT   86 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            3567888888888888888888888774    4557888888888888888888888888877653 3346778888888


Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHH
Q 047221          341 LCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDA  420 (509)
Q Consensus       341 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A  420 (509)
                      |.+.|++++|.+.|++..+.. +-+...|+.+..+|.+.|++++|++.|++..+.. +-+...+..+..+|...|++++|
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-PAFADAHSNLASIHKDSGNIPEAIASYRTALKLK-PDFPDAYCNLAHCLQIVCDWTDY  164 (723)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCCTTH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHhhhhhHHHhcccHHHH
Confidence            888888888888888877752 2356778888888888888888888888877653 22567788888888888888888


Q ss_pred             HHHHHHHH
Q 047221          421 YKYVVLSA  428 (509)
Q Consensus       421 ~~~~~~m~  428 (509)
                      .+.+++..
T Consensus       165 ~~~~~kal  172 (723)
T 4gyw_A          165 DERMKKLV  172 (723)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            77777655

>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=99.09  E-value=6.2e-09  Score=109.55  Aligned_cols=166  Identities=10%  Similarity=-0.028  Sum_probs=145.0

Q ss_pred             CHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 047221          295 KVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIV  374 (509)
Q Consensus       295 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  374 (509)
                      +..+|+.|...|.+.|++++|++.|++..+.. +-+..+|..+..+|.+.|++++|.+.|++..+.. +-+...|..+-.
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg~   85 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            46789999999999999999999999998763 3457889999999999999999999999998862 235788999999


Q ss_pred             HHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHH
Q 047221          375 YSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVM  454 (509)
Q Consensus       375 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  454 (509)
                      +|.+.|++++|++.|++..+.. +-+...|+.+..+|.+.|++++|++.|++..+.. .-+...|..+...|...|++++
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~-P~~~~a~~~L~~~l~~~g~~~~  163 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKLK-PDFPDAYCNLAHCLQIVCDWTD  163 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCCTT
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHhhhhhHHHhcccHHH
Confidence            9999999999999999998763 3367899999999999999999999999988764 2256788999999999999999


Q ss_pred             HHHHHHHHHH
Q 047221          455 AKNVLSEMMK  464 (509)
Q Consensus       455 a~~~~~~m~~  464 (509)
                      |.+.+++..+
T Consensus       164 A~~~~~kal~  173 (723)
T 4gyw_A          164 YDERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999988765

>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=99.08  E-value=2.1e-09  Score=99.54  Aligned_cols=201  Identities=11%  Similarity=0.070  Sum_probs=141.5

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHc---------C---CCHHHHHHHHHHHHhcCCccHHHHHHHHHHHc-----
Q 047221          263 SCLVSGVRALIEMFSVLGLYEMAKYVIKKT---------E---RKVSYYNILIKEMCRRCDFKGPRDLLVEMRQV-----  325 (509)
Q Consensus       263 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m---------~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----  325 (509)
                      +....++..+...|...|++++|...+++.         +   ....+|..+...|...|++++|++.|++..+.     
T Consensus        40 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~  119 (283)
T 3edt_B           40 PDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVL  119 (283)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHc
Confidence            334567888899999999999999888774         1   12567899999999999999999999988754     


Q ss_pred             -CC-CCChHHHHHHHHHHHhcCChHHHHHHHHHHHhC------CCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHC-
Q 047221          326 -GC-EPITLTYNYVLGVLCKNGQDADACELLEEMLGR------NCHP-DAITYEIFIVYSCRVGKFDVAFNFFNQMVKR-  395 (509)
Q Consensus       326 -g~-~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~------g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-  395 (509)
                       .- +....++..+...|...|++++|...+++..+.      +..| ...++..+...|.+.|++++|...+++..+. 
T Consensus       120 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~  199 (283)
T 3edt_B          120 GKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRA  199 (283)
T ss_dssp             CTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             CCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence             11 233677888999999999999999999998765      1123 3567888999999999999999999998753 


Q ss_pred             ------CCCC-CHHHHHHHHHHHHHcCC------HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHH
Q 047221          396 ------GLQP-RLATHAAFIKGYFIFYR------YEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEM  462 (509)
Q Consensus       396 ------g~~p-~~~~~~~li~~~~~~g~------~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  462 (509)
                            ...+ ....|..+...+...+.      +..+...++.... .......++..+...|...|++++|.+++++.
T Consensus       200 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  278 (283)
T 3edt_B          200 HEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV-DSPTVNTTLRSLGALYRRQGKLEAAHTLEDCA  278 (283)
T ss_dssp             HHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC-CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence                  1122 22233333333333222      2333333322211 11223457888999999999999999999988


Q ss_pred             HH
Q 047221          463 MK  464 (509)
Q Consensus       463 ~~  464 (509)
                      .+
T Consensus       279 l~  280 (283)
T 3edt_B          279 SR  280 (283)
T ss_dssp             HT
T ss_pred             HH
Confidence            75

>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=99.02  E-value=4.6e-08  Score=87.88  Aligned_cols=188  Identities=10%  Similarity=-0.088  Sum_probs=118.0

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHc----C-CCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHH
Q 047221          265 LVSGVRALIEMFSVLGLYEMAKYVIKKT----E-RKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLG  339 (509)
Q Consensus       265 ~~~~~~~li~~~~~~g~~~~A~~~~~~m----~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~  339 (509)
                      |...+..+...|...|++++|...|++.    + ++...+..+..++...|++++|++.|++..+.. +-+...|..+..
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~   84 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKSA   84 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHHH
Confidence            4566777777777788888888777764    3 566666667777777788888888777777653 234566777777


Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCCCH-------HHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC---HHHHHHHHH
Q 047221          340 VLCKNGQDADACELLEEMLGRNCHPDA-------ITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPR---LATHAAFIK  409 (509)
Q Consensus       340 ~~~~~g~~~~a~~~~~~m~~~g~~p~~-------~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~---~~~~~~li~  409 (509)
                      .|...|++++|.+.+++..+.. +.+.       ..|..+-..+.+.|++++|...|++..+.  .|+   ...|..+..
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~~  161 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLGV  161 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHHH
Confidence            7777777777777777776642 2233       34666666667777777777777777654  343   345666666


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 047221          410 GYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       410 ~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      +|...|+     .+++++...+ ..+...|....  ....+.+++|+..+++..+
T Consensus       162 ~~~~~~~-----~~~~~a~~~~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~  208 (228)
T 4i17_A          162 LFYNNGA-----DVLRKATPLA-SSNKEKYASEK--AKADAAFKKAVDYLGEAVT  208 (228)
T ss_dssp             HHHHHHH-----HHHHHHGGGT-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHH-----HHHHHHHhcc-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhh
Confidence            6654432     3334433332 11233333332  2234556777777777766

>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=99.01  E-value=4.5e-08  Score=87.95  Aligned_cols=198  Identities=11%  Similarity=-0.073  Sum_probs=151.4

Q ss_pred             CCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 047221          294 RKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFI  373 (509)
Q Consensus       294 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  373 (509)
                      .|...|......+.+.|++++|++.|++..+..-.++...+..+..+|...|++++|.+.|++..+.. +-+...|..+.
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            35678888899999999999999999999887633788888889999999999999999999998863 22466788889


Q ss_pred             HHHHHcCChHHHHHHHHHHHHCCCCCCH-------HHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCC---HHHHHHHH
Q 047221          374 VYSCRVGKFDVAFNFFNQMVKRGLQPRL-------ATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSS---NMLYSLLA  443 (509)
Q Consensus       374 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~-------~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~---~~~~~~li  443 (509)
                      ..|.+.|++++|...+++..+.. +.+.       ..|..+-..+...|++++|.+.|++..+.  .|+   ...|..+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~  160 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHH
Confidence            99999999999999999988763 2244       45777888889999999999999998776  444   45677777


Q ss_pred             HHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 047221          444 SLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSLG  503 (509)
Q Consensus       444 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~  503 (509)
                      ..|...     +..+++++...+ ..+...|....  ....+.+++|+..+++..+..+.
T Consensus       161 ~~~~~~-----~~~~~~~a~~~~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~  212 (228)
T 4i17_A          161 VLFYNN-----GADVLRKATPLA-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPN  212 (228)
T ss_dssp             HHHHHH-----HHHHHHHHGGGT-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHH-----HHHHHHHHHhcc-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCC
Confidence            777654     344455555542 22344454443  33456789999999998877654

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.99  E-value=1.3e-08  Score=95.55  Aligned_cols=195  Identities=12%  Similarity=-0.011  Sum_probs=102.9

Q ss_pred             HHHHHhcCCccHHHHHHHHHHHc----CCCCC-hHHHHHHHHHHHhcCChHHHHHHHHHHHhC----CCCC-CHHHHHHH
Q 047221          303 IKEMCRRCDFKGPRDLLVEMRQV----GCEPI-TLTYNYVLGVLCKNGQDADACELLEEMLGR----NCHP-DAITYEIF  372 (509)
Q Consensus       303 i~~~~~~g~~~~A~~~~~~m~~~----g~~p~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~~~~~l  372 (509)
                      ...|...|++++|.+.|.+..+.    |-.++ ..+|+.+..+|.+.|++++|...+++..+.    |-.. -..+++.+
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            34455566666666666554432    21111 345666666666666666666666655432    1100 02355666


Q ss_pred             HHHHHHc-CChHHHHHHHHHHHHCCCC-CC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCH------HHHH
Q 047221          373 IVYSCRV-GKFDVAFNFFNQMVKRGLQ-PR----LATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSN------MLYS  440 (509)
Q Consensus       373 i~~~~~~-g~~~~a~~~~~~m~~~g~~-p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~------~~~~  440 (509)
                      ...|... |++++|+..|++..+..-. .+    ..+++.+...|.+.|++++|...|++..+.......      ..|.
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            6666664 7777777766665542100 01    234666666677777777777777766654322211      1455


Q ss_pred             HHHHHHHhCCChHHHHHHHHHHHHCCCCcCH------HHHHHHHHHHH--hcCCHHHHHHHHHHHHh
Q 047221          441 LLASLHDKNNNPVMAKNVLSEMMKNGLRPNV------SVYRRVLKHLH--TSHQEHMAKCLSSRYSS  499 (509)
Q Consensus       441 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~------~t~~~ll~~~~--~~g~~~~a~~~~~~m~~  499 (509)
                      .+..++...|++++|++.|++..+  +.|+.      ..+..++.+|.  ..+++++|+..++++.+
T Consensus       204 ~lg~~~~~~g~~~~A~~~~~~al~--l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~  268 (292)
T 1qqe_A          204 KKGLCQLAATDAVAAARTLQEGQS--EDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMR  268 (292)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHGGGC--C---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHh--hCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCc
Confidence            566666667777777777766654  22321      12333444443  34556666666655443

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=98.98  E-value=4.4e-08  Score=79.15  Aligned_cols=130  Identities=10%  Similarity=0.069  Sum_probs=66.7

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 047221          369 YEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDK  448 (509)
Q Consensus       369 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~  448 (509)
                      |..+...+...|++++|..+++++.+.. +.+...+..+...+...|++++|..+++++...+ ..+...+..+...+..
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~   81 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYK   81 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHH
Confidence            3444445555555555555555554432 2234445555555555555555555555554432 1234445555555555


Q ss_pred             CCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 047221          449 NNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLS  501 (509)
Q Consensus       449 ~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~  501 (509)
                      .|++++|.++++++.+.. +.+...+..+...+.+.|++++|...++++.+..
T Consensus        82 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  133 (136)
T 2fo7_A           82 QGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD  133 (136)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHS
T ss_pred             hcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHccC
Confidence            556666665555555431 2234455555555666666666666666555443

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=98.97  E-value=3.9e-08  Score=79.53  Aligned_cols=124  Identities=12%  Similarity=0.167  Sum_probs=48.4

Q ss_pred             HHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHc
Q 047221          300 NILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRV  379 (509)
Q Consensus       300 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  379 (509)
                      ..+...+...|++++|.++|+++.+.+ +.+...+..+...+...|++++|.++++++.+.+ +.+...+..+...+.+.
T Consensus         5 ~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~   82 (136)
T 2fo7_A            5 YNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQ   82 (136)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHHh
Confidence            334444444444444444444444332 2233334444444444444444444444443321 11233333333444444


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 047221          380 GKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVL  426 (509)
Q Consensus       380 g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  426 (509)
                      |++++|...++++.+.. +.+...+..+...|.+.|++++|...+++
T Consensus        83 ~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~  128 (136)
T 2fo7_A           83 GDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQK  128 (136)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHH
Confidence            44444444444433321 11233333333334444444444444333

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.91  E-value=4.6e-08  Score=91.75  Aligned_cols=204  Identities=9%  Similarity=-0.047  Sum_probs=148.0

Q ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc------CCC----HHHHHHHHHHHHhcCCccHH
Q 047221          246 TKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT------ERK----VSYYNILIKEMCRRCDFKGP  315 (509)
Q Consensus       246 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m------~~~----~~~~~~li~~~~~~g~~~~A  315 (509)
                      ++++|...++..               ...|...|++++|...|++.      ..+    ..+|+.+...|.+.|++++|
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            377777776665               45678889999999888764      112    56888999999999999999


Q ss_pred             HHHHHHHHHcCC---CCC--hHHHHHHHHHHHhc-CChHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHHcCChHH
Q 047221          316 RDLLVEMRQVGC---EPI--TLTYNYVLGVLCKN-GQDADACELLEEMLGR----NCHPD-AITYEIFIVYSCRVGKFDV  384 (509)
Q Consensus       316 ~~~~~~m~~~g~---~p~--~~t~~~li~~~~~~-g~~~~a~~~~~~m~~~----g~~p~-~~~~~~li~~~~~~g~~~~  384 (509)
                      +..|++..+...   .+.  ..+++.+...|... |++++|...|++..+.    +.... ..+++.+...|.+.|++++
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            999987764310   111  45788899999996 9999999999987663    11111 3568888999999999999


Q ss_pred             HHHHHHHHHHCCCCCCH------HHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCC-C---CHHHHHHHHHHHH--hCCCh
Q 047221          385 AFNFFNQMVKRGLQPRL------ATHAAFIKGYFIFYRYEDAYKYVVLSADKYKS-S---SNMLYSLLASLHD--KNNNP  452 (509)
Q Consensus       385 a~~~~~~m~~~g~~p~~------~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-p---~~~~~~~li~~~~--~~g~~  452 (509)
                      |...|++..+.......      ..|..+..+|...|++++|...|++..+.... +   ....+..++.+|.  ..+++
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            99999999876433222      25777888999999999999999987754211 1   1123455666665  45678


Q ss_pred             HHHHHHHHHHHH
Q 047221          453 VMAKNVLSEMMK  464 (509)
Q Consensus       453 ~~a~~~~~~m~~  464 (509)
                      ++|++.|+++..
T Consensus       257 ~~A~~~~~~~~~  268 (292)
T 1qqe_A          257 SEHCKEFDNFMR  268 (292)
T ss_dssp             HHHHHHHTTSSC
T ss_pred             HHHHHHhccCCc
Confidence            888888877643

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.88  E-value=1.1e-07  Score=88.37  Aligned_cols=180  Identities=11%  Similarity=0.047  Sum_probs=123.8

Q ss_pred             HHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCC-CCChHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 047221          285 AKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGC-EPITLTYNYVLGVLCKNGQDADACELLEEMLG  359 (509)
Q Consensus       285 A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  359 (509)
                      |...|++.    .++..++..+..++...|++++|++++.+....|- .-+...+..++..+.+.|+.+.|.+++++|.+
T Consensus        85 a~~~l~~l~~~~~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~  164 (310)
T 3mv2_B           85 NIEELENLLKDKQNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTN  164 (310)
T ss_dssp             CCHHHHHTTTTSCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            56666664    35566666778888888999999998888765542 13566777888888889999999999988877


Q ss_pred             CCCCC-----CHHHHHHHHHHHHH--cC--ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 047221          360 RNCHP-----DAITYEIFIVYSCR--VG--KFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADK  430 (509)
Q Consensus       360 ~g~~p-----~~~~~~~li~~~~~--~g--~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  430 (509)
                      .  .|     +..+...|..++..  .|  +..+|..+|+++.+.  .|+..+-..++.++.+.|++++|.+.++.+.+.
T Consensus       165 ~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~  240 (310)
T 3mv2_B          165 A--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSD  240 (310)
T ss_dssp             H--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSH
T ss_pred             c--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            5  45     24555556555332  23  888889999888655  455344444555788889999999888866543


Q ss_pred             C---------CCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHH
Q 047221          431 Y---------KSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVS  472 (509)
Q Consensus       431 ~---------~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  472 (509)
                      .         -.-+..+...+|......|+  +|.++++++.+  ..|+..
T Consensus       241 ~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~--~~P~hp  287 (310)
T 3mv2_B          241 YYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVK--LDHEHA  287 (310)
T ss_dssp             HHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHH--TTCCCH
T ss_pred             cccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHH--hCCCCh
Confidence            1         02355566455555556675  78888888887  446544

>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=98.86  E-value=1.4e-05  Score=83.18  Aligned_cols=155  Identities=12%  Similarity=-0.040  Sum_probs=67.7

Q ss_pred             hcCChHHHH-HHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCC---------CCCC------------
Q 047221          343 KNGQDADAC-ELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRG---------LQPR------------  400 (509)
Q Consensus       343 ~~g~~~~a~-~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g---------~~p~------------  400 (509)
                      ..|+.++|. ++|++.... ++.+...|-..+....+.|++++|..+|+.+.+..         ..|+            
T Consensus       355 ~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~  433 (679)
T 4e6h_A          355 EKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKL  433 (679)
T ss_dssp             HHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             hcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccch
Confidence            345555553 555555442 33344444445555555555555555555554320         0121            


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhC-CChHHHHHHHHHHHHCCCCcCHHHHHHHH
Q 047221          401 LATHAAFIKGYFIFYRYEDAYKYVVLSADK-YKSSSNMLYSLLASLHDKN-NNPVMAKNVLSEMMKNGLRPNVSVYRRVL  478 (509)
Q Consensus       401 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~p~~~~~~~li~~~~~~-g~~~~a~~~~~~m~~~g~~p~~~t~~~ll  478 (509)
                      ..+|...+....+.|+++.|..+|.+..+. +.. ....|...+..-.+. ++.+.|.++|+...+. +.-+...+...+
T Consensus       434 ~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~-~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~  511 (679)
T 4e6h_A          434 TYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLV-TPDIYLENAYIEYHISKDTKTACKVLELGLKY-FATDGEYINKYL  511 (679)
T ss_dssp             HHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGS-CTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-HTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCC-ChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCchHHHHHHH
Confidence            123444455445555555555555555443 111 111121111111122 2355555555555443 222333334444


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhC
Q 047221          479 KHLHTSHQEHMAKCLSSRYSSL  500 (509)
Q Consensus       479 ~~~~~~g~~~~a~~~~~~m~~~  500 (509)
                      +.....|+.+.|..+|++....
T Consensus       512 ~fe~~~~~~~~AR~lferal~~  533 (679)
T 4e6h_A          512 DFLIYVNEESQVKSLFESSIDK  533 (679)
T ss_dssp             HHHHHHTCHHHHHHHHHHHTTT
T ss_pred             HHHHhCCCHHHHHHHHHHHHHh
Confidence            4444455555555555554443

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.83  E-value=1e-07  Score=87.57  Aligned_cols=182  Identities=10%  Similarity=-0.007  Sum_probs=106.4

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCC---HHHHHHHHHHHHhcCCccHHHHHHHHHHHcCC-C-CChHHH
Q 047221          264 CLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERK---VSYYNILIKEMCRRCDFKGPRDLLVEMRQVGC-E-PITLTY  334 (509)
Q Consensus       264 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~-p~~~t~  334 (509)
                      .+...+..+...+.+.|++++|...|+++    +.+   ...+..+..+|.+.|++++|+..|++..+..- . .....+
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~   92 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAE   92 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHH
Confidence            34455666666677777777777777765    223   45666666777777777777777777665421 1 113345


Q ss_pred             HHHHHHHHh--------cCChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHH
Q 047221          335 NYVLGVLCK--------NGQDADACELLEEMLGRNCHPD-AITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHA  405 (509)
Q Consensus       335 ~~li~~~~~--------~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~  405 (509)
                      ..+..++..        .|++++|...|++..+..  |+ .....++..              +..+...    -...+.
T Consensus        93 ~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~--------------~~~~~~~----~~~~~~  152 (261)
T 3qky_A           93 YERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDATQK--------------IRELRAK----LARKQY  152 (261)
T ss_dssp             HHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHHHH--------------HHHHHHH----HHHHHH
T ss_pred             HHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHHHH--------------HHHHHHH----HHHHHH
Confidence            555566666        666777777776666541  22 111111100              0000000    011135


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhC----------CChHHHHHHHHHHHHC
Q 047221          406 AFIKGYFIFYRYEDAYKYVVLSADKYKSS--SNMLYSLLASLHDKN----------NNPVMAKNVLSEMMKN  465 (509)
Q Consensus       406 ~li~~~~~~g~~~~A~~~~~~m~~~~~~p--~~~~~~~li~~~~~~----------g~~~~a~~~~~~m~~~  465 (509)
                      .+...|.+.|++++|...|+++.+.....  ....+..+..+|...          |++++|++.|+++.+.
T Consensus       153 ~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~  224 (261)
T 3qky_A          153 EAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI  224 (261)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH
Confidence            56777888888888888888877653221  234566677777755          7788888888888763

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.83  E-value=2.1e-07  Score=86.40  Aligned_cols=175  Identities=8%  Similarity=-0.074  Sum_probs=124.7

Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc-C-----CCHHHHHHHHHHHHhcCCccHHHHHHHHHH
Q 047221          250 IWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT-E-----RKVSYYNILIKEMCRRCDFKGPRDLLVEMR  323 (509)
Q Consensus       250 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~-----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  323 (509)
                      +...+++..+.+ .++..++..+..+|...|++++|.+++.+. .     .+...+-.++..+.+.|+.+.|.+.+++|.
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~  163 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYT  163 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            566666666544 455555668888888889999999888875 2     356778888889999999999999999988


Q ss_pred             HcCCCC-----ChHHHHHHHHHHH--hcC--ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Q 047221          324 QVGCEP-----ITLTYNYVLGVLC--KNG--QDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVK  394 (509)
Q Consensus       324 ~~g~~p-----~~~t~~~li~~~~--~~g--~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  394 (509)
                      +.  .|     +..+...|..++.  ..|  +.++|..+|+++.+.  .|+..+-..++.++.+.|++++|++.++.+.+
T Consensus       164 ~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~  239 (310)
T 3mv2_B          164 NA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLS  239 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHS
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            75  56     3566666666633  233  888999999998765  35533444455578888999999999887654


Q ss_pred             C-----C----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 047221          395 R-----G----LQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKY  431 (509)
Q Consensus       395 ~-----g----~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  431 (509)
                      .     .    -+-|..+...+|..+...|+  +|.+++.++.+..
T Consensus       240 ~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~  283 (310)
T 3mv2_B          240 DYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLD  283 (310)
T ss_dssp             HHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTT
T ss_pred             hcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhC
Confidence            2     0    02356666566666666776  7888888888763

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.80  E-value=3.3e-07  Score=81.10  Aligned_cols=135  Identities=11%  Similarity=0.037  Sum_probs=93.0

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC
Q 047221          337 VLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYR  416 (509)
Q Consensus       337 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  416 (509)
                      +..+|.+.|++++|...|++..+.. +-+...+..+...|...|++++|...|++..+.. +-+..+|..+..+|...|.
T Consensus        60 lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~  137 (208)
T 3urz_A           60 LALAYKKNRNYDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAE  137 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhH
Confidence            7778888889999988888887762 3357788888888888899999999998888763 3357778888877766554


Q ss_pred             --HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHH
Q 047221          417 --YEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRV  477 (509)
Q Consensus       417 --~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l  477 (509)
                        .+.+...++....  ..|....+.....++...|++++|++.|++.++  +.|+......+
T Consensus       138 ~~~~~~~~~~~~~~~--~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~--l~P~~~~~~~l  196 (208)
T 3urz_A          138 QEKKKLETDYKKLSS--PTKMQYARYRDGLSKLFTTRYEKARNSLQKVIL--RFPSTEAQKTL  196 (208)
T ss_dssp             HHHHHHHHHHC---C--CCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTT--TSCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC--CCchhHHHHHHHHHHHHccCHHHHHHHHHHHHH--hCCCHHHHHHH
Confidence              3445555544432  122222344455566678889999999998886  56776544433

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.80  E-value=2.4e-07  Score=85.15  Aligned_cols=170  Identities=9%  Similarity=-0.030  Sum_probs=116.2

Q ss_pred             HhccCCHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHc---CC-C---HHHHHHHHHHHHh--
Q 047221          241 SSKALTKKGIWRVVEVLNQVGGSCL---VSGVRALIEMFSVLGLYEMAKYVIKKT---ER-K---VSYYNILIKEMCR--  308 (509)
Q Consensus       241 ~~~~~~~~~a~~~~~~m~~~g~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m---~~-~---~~~~~~li~~~~~--  308 (509)
                      +...|++++|...|+.+.+... .+   ...+..+..+|.+.|++++|...|++.   .| +   ..++..+..++..  
T Consensus        25 ~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~  103 (261)
T 3qky_A           25 FYNQGKYDRAIEYFKAVFTYGR-THEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYERAMCYYKLS  103 (261)
T ss_dssp             HHHTTCHHHHHHHHHHHGGGCS-CSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHC
T ss_pred             HHHhCCHHHHHHHHHHHHHhCC-CCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHHHHHHHHHhc
Confidence            3345669999999999988642 23   677889999999999999999999986   23 2   4667788888988  


Q ss_pred             ------cCCccHHHHHHHHHHHcCCCCCh-HHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCC
Q 047221          309 ------RCDFKGPRDLLVEMRQVGCEPIT-LTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGK  381 (509)
Q Consensus       309 ------~g~~~~A~~~~~~m~~~g~~p~~-~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  381 (509)
                            .|++++|+..|++..+.  .|+. .....+.              .+..+...    -...+..+...|.+.|+
T Consensus       104 ~~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~--------------~~~~~~~~----~~~~~~~la~~~~~~g~  163 (261)
T 3qky_A          104 PPYELDQTDTRKAIEAFQLFIDR--YPNHELVDDATQ--------------KIRELRAK----LARKQYEAARLYERREL  163 (261)
T ss_dssp             CCTTSCCHHHHHHHHHHHHHHHH--CTTCTTHHHHHH--------------HHHHHHHH----HHHHHHHHHHHHHHTTC
T ss_pred             ccccccchhHHHHHHHHHHHHHH--CcCchhHHHHHH--------------HHHHHHHH----HHHHHHHHHHHHHHccC
Confidence                  99999999999999876  3432 2222211              11111110    01124455667777888


Q ss_pred             hHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHHc----------CCHHHHHHHHHHHHhCC
Q 047221          382 FDVAFNFFNQMVKRGLQP--RLATHAAFIKGYFIF----------YRYEDAYKYVVLSADKY  431 (509)
Q Consensus       382 ~~~a~~~~~~m~~~g~~p--~~~~~~~li~~~~~~----------g~~~~A~~~~~~m~~~~  431 (509)
                      +++|...|+++.+..-..  ....+..+..+|...          |++++|...|+++.+..
T Consensus       164 ~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~  225 (261)
T 3qky_A          164 YEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIF  225 (261)
T ss_dssp             HHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHC
Confidence            888888888777652111  234566677777655          77788888888777653

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.79  E-value=1.1e-06  Score=77.90  Aligned_cols=176  Identities=10%  Similarity=0.020  Sum_probs=88.0

Q ss_pred             HHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcC----ChHHHHHHH
Q 047221          314 GPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVG----KFDVAFNFF  389 (509)
Q Consensus       314 ~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g----~~~~a~~~~  389 (509)
                      +|++.|++..+.|   +...+..+-..|...+++++|.+.|++..+.|   +...+..|-..|.. +    +.++|..+|
T Consensus         4 eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~   76 (212)
T 3rjv_A            4 EPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLA   76 (212)
T ss_dssp             CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHH
T ss_pred             hHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHH
Confidence            3444555544432   34445555555555555555555555555543   34444444444444 4    555555555


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHh----CCChHHHHHHHH
Q 047221          390 NQMVKRGLQPRLATHAAFIKGYFI----FYRYEDAYKYVVLSADKYKS-SSNMLYSLLASLHDK----NNNPVMAKNVLS  460 (509)
Q Consensus       390 ~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~-p~~~~~~~li~~~~~----~g~~~~a~~~~~  460 (509)
                      ++..+.|   +...+..|-..|..    .+++++|.++|++..+.+.. .+...+..|...|..    .++.++|+++|+
T Consensus        77 ~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~  153 (212)
T 3rjv_A           77 EKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFK  153 (212)
T ss_dssp             HHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHH
T ss_pred             HHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHH
Confidence            5555544   44455555555544    45556666665555544321 013444455555555    455566666666


Q ss_pred             HHHHCCCCcCHHHHHHHHHHHHhc-C-----CHHHHHHHHHHHHhCC
Q 047221          461 EMMKNGLRPNVSVYRRVLKHLHTS-H-----QEHMAKCLSSRYSSLS  501 (509)
Q Consensus       461 ~m~~~g~~p~~~t~~~ll~~~~~~-g-----~~~~a~~~~~~m~~~~  501 (509)
                      +..+.  ..+...+..|-..|... |     +.++|.+.+++-.+.|
T Consensus       154 ~A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          154 GSSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            55554  11223344444444332 2     5566666655555444

>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=98.77  E-value=2e-05  Score=81.97  Aligned_cols=339  Identities=9%  Similarity=-0.000  Sum_probs=224.6

Q ss_pred             CCHHHHHHHHHHHhcCC------c----hHHHHHHHh---hcc-CCCCccChhHHHHHHHHHhc---------cCCHHHH
Q 047221          158 LSNASVIEILRVLNSEK------V----SALCFLKYM---REI-MPEFYKNSDICSLVIDNCGR---------LDDYETM  214 (509)
Q Consensus       158 ~~~~~~~~ll~~~~~~~------~----~A~~~~~~~---~~~-~p~~~~~~~~~~~li~~~~~---------~g~~~~A  214 (509)
                      |+...|..-+.-..+.+      .    ...++|+..   .|. .|.   +...|...|.....         .++++.+
T Consensus       137 ~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~---s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~  213 (679)
T 4e6h_A          137 NDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPK---SIQFWNEYLHFLEHWKPVNKFEEQQRVQYI  213 (679)
T ss_dssp             CCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSS---CHHHHHHHHHHHHTCCCCSHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCccccc---chHHHHHHHHHHHhccccCcHHHHhHHHHH
Confidence            78888877776544322      1    245788876   344 443   33478888876542         3457889


Q ss_pred             HHHHHHhhhCCCccCHHHHHHHHHHHHhc-------------cCCHHHHHHHHHHHHHc--CC----C-----------C
Q 047221          215 RQLLNDFNVYQVCLNEKAFGFLPVLISSK-------------ALTKKGIWRVVEVLNQV--GG----S-----------C  264 (509)
Q Consensus       215 ~~l~~~m~~~~~~p~~~~~~~ll~~~~~~-------------~~~~~~a~~~~~~m~~~--g~----~-----------~  264 (509)
                      ..+|++++......-..+|..... +-..             ...++.|...+.++...  ++    +           |
T Consensus       214 R~iy~raL~iP~~~~~~~w~~Y~~-fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~~~~~p  292 (679)
T 4e6h_A          214 RKLYKTLLCQPMDCLESMWQRYTQ-WEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQATESNLP  292 (679)
T ss_dssp             HHHHHHHTTSCCSSHHHHHHHHHH-HHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTCCTTTSC
T ss_pred             HHHHHHHHhCccHHHHHHHHHHHH-HHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccccccchhccCC
Confidence            999999875322222344433322 1111             01123344444443321  11    1           1


Q ss_pred             -----C---HHHHHHHHHHHHhcC-------CHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHH-HHHHHHHH
Q 047221          265 -----L---VSGVRALIEMFSVLG-------LYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPR-DLLVEMRQ  324 (509)
Q Consensus       265 -----~---~~~~~~li~~~~~~g-------~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~-~~~~~m~~  324 (509)
                           +   ...|...+..--..+       ..+.+..+|++.    +.+...|-..+..+.+.|+.++|. ++|++...
T Consensus       293 ~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~  372 (679)
T 4e6h_A          293 KPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHVCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQ  372 (679)
T ss_dssp             CTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHH
T ss_pred             CCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH
Confidence                 0   134555554433322       123344556653    677889999999999999999997 99999886


Q ss_pred             cCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCC---------CCCC------------HHHHHHHHHHHHHcCChH
Q 047221          325 VGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRN---------CHPD------------AITYEIFIVYSCRVGKFD  383 (509)
Q Consensus       325 ~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g---------~~p~------------~~~~~~li~~~~~~g~~~  383 (509)
                      . ++.+...|-..+...-+.|+++.|.++|+.+.+..         ..|+            ...|...+....+.|..+
T Consensus       373 ~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~  451 (679)
T 4e6h_A          373 C-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLA  451 (679)
T ss_dssp             H-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHH
T ss_pred             h-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHH
Confidence            4 34566667788888899999999999999988641         0132            236888888888899999


Q ss_pred             HHHHHHHHHHHC-C-CCCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHH
Q 047221          384 VAFNFFNQMVKR-G-LQPRLATHAAFIKGYFIF-YRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLS  460 (509)
Q Consensus       384 ~a~~~~~~m~~~-g-~~p~~~~~~~li~~~~~~-g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~  460 (509)
                      .|..+|....+. + ..+......+.+.  .+. ++.+.|.++|+...+. ..-+...|...+......|+.+.|..+|+
T Consensus       452 ~AR~vf~~A~~~~~~~~~~lyi~~A~lE--~~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lfe  528 (679)
T 4e6h_A          452 ASRKIFGKCRRLKKLVTPDIYLENAYIE--YHISKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFE  528 (679)
T ss_dssp             HHHHHHHHHHHTGGGSCTHHHHHHHHHH--HTTTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCChHHHHHHHHHH--HHhCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            999999999876 3 2233333333333  344 4589999999988876 33456677788888888999999999999


Q ss_pred             HHHHCCCCc--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 047221          461 EMMKNGLRP--NVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSLGS  504 (509)
Q Consensus       461 ~m~~~g~~p--~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~  504 (509)
                      +.......+  ....|...+..-.+.|+.+.+..+.+++.+.-++.
T Consensus       529 ral~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~~  574 (679)
T 4e6h_A          529 SSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPEV  574 (679)
T ss_dssp             HHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTTC
T ss_pred             HHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence            998754322  33578888877789999999999999999877654

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.77  E-value=7.8e-07  Score=78.94  Aligned_cols=163  Identities=9%  Similarity=-0.010  Sum_probs=82.9

Q ss_pred             CHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcC----ChHHHHHHHHHHHhCCCCCCHHHHH
Q 047221          295 KVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNG----QDADACELLEEMLGRNCHPDAITYE  370 (509)
Q Consensus       295 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g----~~~~a~~~~~~m~~~g~~p~~~~~~  370 (509)
                      +..++..|...|...+++++|++.|++..+.|   +...+..|-..|.. +    ++++|.+.|++..+.|   +...+.
T Consensus        17 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g---~~~a~~   89 (212)
T 3rjv_A           17 DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAG---SKSGEI   89 (212)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            34444444444444555555555555554433   33444444444444 4    5555555555555543   344444


Q ss_pred             HHHHHHHH----cCChHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 047221          371 IFIVYSCR----VGKFDVAFNFFNQMVKRGLQ-PRLATHAAFIKGYFI----FYRYEDAYKYVVLSADKYKSSSNMLYSL  441 (509)
Q Consensus       371 ~li~~~~~----~g~~~~a~~~~~~m~~~g~~-p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~~~~~  441 (509)
                      .|-..|..    .+++++|..+|++..+.|.. .+...+..|-..|..    .++.++|...|++..+.+  .+...+..
T Consensus        90 ~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~--~~~~a~~~  167 (212)
T 3rjv_A           90 VLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSLS--RTGYAEYW  167 (212)
T ss_dssp             HHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHTS--CTTHHHHH
T ss_pred             HHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHcC--CCHHHHHH
Confidence            55455544    45666666666665554311 014555555555655    556666666666655541  12233444


Q ss_pred             HHHHHHhC-C-----ChHHHHHHHHHHHHCC
Q 047221          442 LASLHDKN-N-----NPVMAKNVLSEMMKNG  466 (509)
Q Consensus       442 li~~~~~~-g-----~~~~a~~~~~~m~~~g  466 (509)
                      |...|... |     +.++|++.|++..+.|
T Consensus       168 Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          168 AGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            55555432 2     5666666666665554

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.71  E-value=1.9e-06  Score=77.12  Aligned_cols=189  Identities=12%  Similarity=0.014  Sum_probs=122.8

Q ss_pred             CHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCC-C-ChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCC-CCH-HHHH
Q 047221          295 KVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCE-P-ITLTYNYVLGVLCKNGQDADACELLEEMLGRNCH-PDA-ITYE  370 (509)
Q Consensus       295 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p-~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-p~~-~~~~  370 (509)
                      +...+..+...+.+.|++++|+..|+++.+..-. | ....+..+..+|.+.|++++|...|++..+.... +.. ..+.
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~   82 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMY   82 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHH
Confidence            3455666778888999999999999998875311 1 1356778888899999999999999998875221 111 2343


Q ss_pred             HHHHHHHH------------------cCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 047221          371 IFIVYSCR------------------VGKFDVAFNFFNQMVKRGLQPR-LATHAAFIKGYFIFYRYEDAYKYVVLSADKY  431 (509)
Q Consensus       371 ~li~~~~~------------------~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  431 (509)
                      .+..++.+                  .|+.++|...|+++.+.  .|+ ...+.+....-          .+...+.   
T Consensus        83 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~l~----------~~~~~~~---  147 (225)
T 2yhc_A           83 MRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKRLV----------FLKDRLA---  147 (225)
T ss_dssp             HHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHHHH----------HHHHHHH---
T ss_pred             HHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHHHH----------HHHHHHH---
Confidence            44444443                  35566666666666654  222 11221111100          0000000   


Q ss_pred             CCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC
Q 047221          432 KSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPN----VSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSLGSS  505 (509)
Q Consensus       432 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~----~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~~  505 (509)
                           .....+...|.+.|++++|+..|+++++.  .|+    ...+..+..++.+.|++++|.+.++.+...+++..
T Consensus       148 -----~~~~~~a~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~~~  218 (225)
T 2yhc_A          148 -----KYEYSVAEYYTERGAWVAVVNRVEGMLRD--YPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSNTL  218 (225)
T ss_dssp             -----HHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSCCC
T ss_pred             -----HHHHHHHHHHHHcCcHHHHHHHHHHHHHH--CcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCch
Confidence                 01124667788999999999999999874  343    24678888899999999999999999988876543

>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=98.70  E-value=3.5e-07  Score=86.34  Aligned_cols=193  Identities=12%  Similarity=-0.030  Sum_probs=115.2

Q ss_pred             cCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 047221          208 LDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKY  287 (509)
Q Consensus       208 ~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~  287 (509)
                      .|++++|.+++++..+..-  .         .++...+++++|...|...               ...|...|++++|..
T Consensus         4 ~~~~~eA~~~~~~a~k~~~--~---------~~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~   57 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLK--T---------SFMKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKD   57 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHC--C---------CSSSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHcc--c---------cccCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHH
Confidence            4667777777776644311  0         0222134466666665543               456777888888888


Q ss_pred             HHHHc------CCC----HHHHHHHHHHHHhcCCccHHHHHHHHHHHc----CCCCC--hHHHHHHHHHHHhcCChHHHH
Q 047221          288 VIKKT------ERK----VSYYNILIKEMCRRCDFKGPRDLLVEMRQV----GCEPI--TLTYNYVLGVLCKNGQDADAC  351 (509)
Q Consensus       288 ~~~~m------~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~--~~t~~~li~~~~~~g~~~~a~  351 (509)
                      .|.+.      ..+    ..+|+.+...|.+.|++++|+..|++..+.    | .+.  ..++..+...|.. |++++|.
T Consensus        58 ~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g-~~~~~a~~~~~lg~~~~~-g~~~~A~  135 (307)
T 2ifu_A           58 AYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENG-TPDTAAMALDRAGKLMEP-LDLSKAV  135 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTT-CHHHHHHHHHHHHHHHTT-TCHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHHHHc-CCHHHHH
Confidence            77764      111    456777777888888888888888766532    2 121  3456666666766 7777777


Q ss_pred             HHHHHHHhC----CCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHHHcCCHHHHH
Q 047221          352 ELLEEMLGR----NCHP-DAITYEIFIVYSCRVGKFDVAFNFFNQMVKR----GLQPR-LATHAAFIKGYFIFYRYEDAY  421 (509)
Q Consensus       352 ~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~-~~~~~~li~~~~~~g~~~~A~  421 (509)
                      ..|++..+.    |... ...+++.+...|.+.|++++|...|++..+.    +..+. ...+..+..++...|++++|.
T Consensus       136 ~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~  215 (307)
T 2ifu_A          136 HLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQ  215 (307)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHH
Confidence            777766543    1100 0345666666777777777777777766542    11111 124555555666667777777


Q ss_pred             HHHHHHH
Q 047221          422 KYVVLSA  428 (509)
Q Consensus       422 ~~~~~m~  428 (509)
                      ..|++..
T Consensus       216 ~~~~~al  222 (307)
T 2ifu_A          216 KCVRESY  222 (307)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHHh
Confidence            7776665

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.69  E-value=3.3e-07  Score=78.71  Aligned_cols=77  Identities=6%  Similarity=-0.022  Sum_probs=38.4

Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhCCChHHHHHHHHHH
Q 047221          385 AFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSS-SNMLYSLLASLHDKNNNPVMAKNVLSEM  462 (509)
Q Consensus       385 a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m  462 (509)
                      |...+++..+.. +-+...+..+..+|...|++++|...|+++.+....+ +...+..+...+...|+.++|...|++.
T Consensus        93 a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~~a  170 (176)
T 2r5s_A           93 ELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYRRQ  170 (176)
T ss_dssp             HHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHHHH
Confidence            444454444431 1134555555555555555555555555555443222 2334555555555555555555555544

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.68  E-value=8.6e-07  Score=82.77  Aligned_cols=160  Identities=9%  Similarity=-0.006  Sum_probs=76.0

Q ss_pred             HHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHH-HHHHH
Q 047221          299 YNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIF-IVYSC  377 (509)
Q Consensus       299 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l-i~~~~  377 (509)
                      +..+...+.+.|++++|+..|++..+.. +-+...+..+...|.+.|++++|...+++....  .|+....... ...+.
T Consensus       120 ~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~~~~~l~  196 (287)
T 3qou_A          120 XAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLVAQIELL  196 (287)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHHHHHHHH
Confidence            3344444444555555555555544432 223344445555555555555555555544433  2232221111 12234


Q ss_pred             HcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhCCChHHHH
Q 047221          378 RVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSS-SNMLYSLLASLHDKNNNPVMAK  456 (509)
Q Consensus       378 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~  456 (509)
                      +.++.++|...+++..+.. +.+...+..+...|...|++++|...|.++.+..... +...+..++..|...|+.++|.
T Consensus       197 ~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~a~  275 (287)
T 3qou_A          197 XQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGDALA  275 (287)
T ss_dssp             HHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTCHHH
T ss_pred             hhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCCcHH
Confidence            4445555555555555442 2244555555555555555555555555555442211 1344555555555556555555


Q ss_pred             HHHHHH
Q 047221          457 NVLSEM  462 (509)
Q Consensus       457 ~~~~~m  462 (509)
                      ..|++.
T Consensus       276 ~~~r~a  281 (287)
T 3qou_A          276 SXYRRQ  281 (287)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            555543

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.66  E-value=6e-07  Score=77.03  Aligned_cols=157  Identities=12%  Similarity=0.026  Sum_probs=106.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHH-HHh
Q 047221          269 VRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGV-LCK  343 (509)
Q Consensus       269 ~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~-~~~  343 (509)
                      +..+...+...|++++|...|++.    +.+...|..+...+.+.|++++|+..|++.....  |+...+..+... +..
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~   86 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLELHQ   86 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHHHh
Confidence            345666777788888888888775    4567778888888888888888888887776542  343333222111 122


Q ss_pred             cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHHcCCHHHHHH
Q 047221          344 NGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQP-RLATHAAFIKGYFIFYRYEDAYK  422 (509)
Q Consensus       344 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~  422 (509)
                      .+...+|...+++..+.. +-+...+..+...+.+.|++++|...|+++.+..-.+ +...+..+...|...|+.++|..
T Consensus        87 ~~~~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~  165 (176)
T 2r5s_A           87 QAAESPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIAS  165 (176)
T ss_dssp             HHTSCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHH
T ss_pred             hcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHH
Confidence            223334677777776642 2256777778888888888888888888887664322 35577778888888888888888


Q ss_pred             HHHHHH
Q 047221          423 YVVLSA  428 (509)
Q Consensus       423 ~~~~m~  428 (509)
                      .|++..
T Consensus       166 ~y~~al  171 (176)
T 2r5s_A          166 KYRRQL  171 (176)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            887654

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.65  E-value=1.4e-06  Score=76.97  Aligned_cols=160  Identities=12%  Similarity=0.015  Sum_probs=93.4

Q ss_pred             HHHHHhcCCHHHHHHHHHHc---CC-CHHHHHH----------------HHHHHHhcCCccHHHHHHHHHHHcCCCCChH
Q 047221          273 IEMFSVLGLYEMAKYVIKKT---ER-KVSYYNI----------------LIKEMCRRCDFKGPRDLLVEMRQVGCEPITL  332 (509)
Q Consensus       273 i~~~~~~g~~~~A~~~~~~m---~~-~~~~~~~----------------li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  332 (509)
                      ...+...|++++|...|++.   .| +...|..                +...|.+.|++++|+..|++..+.. +-+..
T Consensus        11 g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~   89 (208)
T 3urz_A           11 VSAAIEAGQNGQAVSYFRQTIALNIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKA-PNNVD   89 (208)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHH
Confidence            33444555555555555553   22 2334444                6777777777788877777777653 34566


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCC--hHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 047221          333 TYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGK--FDVAFNFFNQMVKRGLQPRLATHAAFIKG  410 (509)
Q Consensus       333 t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~--~~~a~~~~~~m~~~g~~p~~~~~~~li~~  410 (509)
                      .+..+..+|...|++++|...|++..+.. +-+...|..+...|...|+  .+.+...++....  ..|....+..+-.+
T Consensus        90 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~a~~~~g~~  166 (208)
T 3urz_A           90 CLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSS--PTKMQYARYRDGLS  166 (208)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---C--CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhC--CCchhHHHHHHHHH
Confidence            77777777777788888888877777652 2345666666666654443  3344444444321  12222233334445


Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCHHH
Q 047221          411 YFIFYRYEDAYKYVVLSADKYKSSSNML  438 (509)
Q Consensus       411 ~~~~g~~~~A~~~~~~m~~~~~~p~~~~  438 (509)
                      +...|++++|...|++..+.  .|+...
T Consensus       167 ~~~~~~~~~A~~~~~~al~l--~P~~~~  192 (208)
T 3urz_A          167 KLFTTRYEKARNSLQKVILR--FPSTEA  192 (208)
T ss_dssp             HHHHHTHHHHHHHHHHHTTT--SCCHHH
T ss_pred             HHHccCHHHHHHHHHHHHHh--CCCHHH
Confidence            56677788888888777654  455443

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.65  E-value=1.9e-06  Score=77.22  Aligned_cols=103  Identities=11%  Similarity=0.015  Sum_probs=62.2

Q ss_pred             hcCChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 047221          343 KNGQDADACELLEEMLGRNCHPD-AITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAY  421 (509)
Q Consensus       343 ~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  421 (509)
                      ..|+.++|...|+++.+.  .|+ ...+.+....    +      .+...+.        ...-.+...|.+.|++++|.
T Consensus       108 ~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~l----~------~~~~~~~--------~~~~~~a~~~~~~~~~~~A~  167 (225)
T 2yhc_A          108 DPQQARAAFSDFSKLVRG--YPNSQYTTDATKRL----V------FLKDRLA--------KYEYSVAEYYTERGAWVAVV  167 (225)
T ss_dssp             CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHHH----H------HHHHHHH--------HHHHHHHHHHHHHTCHHHHH
T ss_pred             CcHHHHHHHHHHHHHHHH--CcCChhHHHHHHHH----H------HHHHHHH--------HHHHHHHHHHHHcCcHHHHH
Confidence            467888999999888876  233 2222221110    0      0001110        11234566777888888888


Q ss_pred             HHHHHHHhCCCCCC--HHHHHHHHHHHHhCCChHHHHHHHHHHHHC
Q 047221          422 KYVVLSADKYKSSS--NMLYSLLASLHDKNNNPVMAKNVLSEMMKN  465 (509)
Q Consensus       422 ~~~~~m~~~~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  465 (509)
                      ..|+++.+......  ...+..+..+|.+.|+.++|++.++.+...
T Consensus       168 ~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~  213 (225)
T 2yhc_A          168 NRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAAN  213 (225)
T ss_dssp             HHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh
Confidence            88888776532211  245677788888888888888888877764

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.64  E-value=5.9e-07  Score=94.64  Aligned_cols=169  Identities=7%  Similarity=-0.132  Sum_probs=136.5

Q ss_pred             hccCCHHHHHHHHHHHH--------HcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhc
Q 047221          242 SKALTKKGIWRVVEVLN--------QVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRR  309 (509)
Q Consensus       242 ~~~~~~~~a~~~~~~m~--------~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~  309 (509)
                      ...++.++|.+.++...        +. .+.+...+..+..+|...|++++|...|++.    +.+...|..+...|.+.
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~-~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVD-FSESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------C-CTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccc-cccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHc
Confidence            45566999999999987        32 2456678889999999999999999999886    56788999999999999


Q ss_pred             CCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHH
Q 047221          310 CDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFF  389 (509)
Q Consensus       310 g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~  389 (509)
                      |++++|++.|++..+.. +-+...|..+..+|.+.|++++ .+.|++..+.. +-+...|..+..++.+.|++++|.+.|
T Consensus       481 g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~  557 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRTL  557 (681)
T ss_dssp             TCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            99999999999988764 3467788899999999999999 99999988763 336778889999999999999999999


Q ss_pred             HHHHHCCCCCC-HHHHHHHHHHHHHcCC
Q 047221          390 NQMVKRGLQPR-LATHAAFIKGYFIFYR  416 (509)
Q Consensus       390 ~~m~~~g~~p~-~~~~~~li~~~~~~g~  416 (509)
                      ++..+.  .|+ ...+..+..++...|+
T Consensus       558 ~~al~l--~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          558 DEVPPT--SRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HTSCTT--STTHHHHHHHHHHHTC----
T ss_pred             Hhhccc--CcccHHHHHHHHHHHHccCC
Confidence            988754  454 5677777777766554

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.63  E-value=3.5e-05  Score=71.98  Aligned_cols=217  Identities=9%  Similarity=-0.001  Sum_probs=125.9

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC--CHHHHHHHHHHc----CCCHHHHHHHHHHH----Hhc---C
Q 047221          244 ALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLG--LYEMAKYVIKKT----ERKVSYYNILIKEM----CRR---C  310 (509)
Q Consensus       244 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g--~~~~A~~~~~~m----~~~~~~~~~li~~~----~~~---g  310 (509)
                      +...++|+.+.+.+...+ +-+..+|+.--..+...|  +++++..+++.+    +.+..+|+.--..+    ...   +
T Consensus        46 ~e~s~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk~y~aW~~R~~iL~~~~~~l~~~~  124 (306)
T 3dra_A           46 EEYSERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEKNYQIWNYRQLIIGQIMELNNNDF  124 (306)
T ss_dssp             TCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHTTTCC
T ss_pred             CCCCHHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHhccccC
Confidence            333455666666665544 223444555555555555  666666666654    34445555433333    333   5


Q ss_pred             CccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChH--HHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCC------h
Q 047221          311 DFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDA--DACELLEEMLGRNCHPDAITYEIFIVYSCRVGK------F  382 (509)
Q Consensus       311 ~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~--~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~------~  382 (509)
                      ++++++++++++.+.. +-+-.+|+.-.-.+.+.|.++  ++++.++.+.+.. +-|...|+--...+.+.++      +
T Consensus       125 ~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~~~~~~~  202 (306)
T 3dra_A          125 DPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHLATDNTI  202 (306)
T ss_dssp             CTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGGCCHHHH
T ss_pred             CHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccchhhhH
Confidence            6667777777666554 445666666666666666666  6677777666653 2355555555444445454      6


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHH-HHHHHHHHHhCC--CCCCHHHHHHHHHHHHhCCChHHHHHHH
Q 047221          383 DVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYED-AYKYVVLSADKY--KSSSNMLYSLLASLHDKNNNPVMAKNVL  459 (509)
Q Consensus       383 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~-A~~~~~~m~~~~--~~p~~~~~~~li~~~~~~g~~~~a~~~~  459 (509)
                      +++++.+++++... +-|...|+-+-..+.+.|+... +..+..++.+.+  -..+...+..+...|.+.|+.++|++++
T Consensus       203 ~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~  281 (306)
T 3dra_A          203 DEELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVY  281 (306)
T ss_dssp             HHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHH
Confidence            67777777666653 3366667766666666666333 444554444322  1335566677777777777777777777


Q ss_pred             HHHHH
Q 047221          460 SEMMK  464 (509)
Q Consensus       460 ~~m~~  464 (509)
                      +.+.+
T Consensus       282 ~~l~~  286 (306)
T 3dra_A          282 DLLKS  286 (306)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            77765

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.63  E-value=9.9e-07  Score=82.34  Aligned_cols=145  Identities=15%  Similarity=0.053  Sum_probs=62.2

Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc---CCCHHHHH-HHHHHHHhcCCccHHHHHHH
Q 047221          245 LTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT---ERKVSYYN-ILIKEMCRRCDFKGPRDLLV  320 (509)
Q Consensus       245 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~~~~~~-~li~~~~~~g~~~~A~~~~~  320 (509)
                      |+.++|...++...+.. +-+...+..+...|.+.|++++|...++++   .|+..... .....+.+.++.++|++.|+
T Consensus       131 g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~~~~~~l~~~~~~~~a~~~l~  209 (287)
T 3qou_A          131 SNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQDTRYQGLVAQIELLXQAADTPEIQQLQ  209 (287)
T ss_dssp             TCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCSHHHHHHHHHHHHHHHHTSCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhcchHHHHHHHHHHHHhhcccCccHHHHH
Confidence            33555555555544432 223344444555555555555555555443   12222111 11122334444444444444


Q ss_pred             HHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHHcCChHHHHHHHHH
Q 047221          321 EMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCH-PDAITYEIFIVYSCRVGKFDVAFNFFNQ  391 (509)
Q Consensus       321 ~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~  391 (509)
                      +..+.. +.+...+..+...|...|++++|...|.++.+..-. .+...+..+...+...|+.++|...|++
T Consensus       210 ~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~a~~~~r~  280 (287)
T 3qou_A          210 QQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGDALASXYRR  280 (287)
T ss_dssp             HHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCCcHHHHHHH
Confidence            444432 223444444444445555555555555444443111 0133444444444444444444444443

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.63  E-value=6.4e-07  Score=94.38  Aligned_cols=173  Identities=14%  Similarity=-0.022  Sum_probs=121.0

Q ss_pred             HhcCCccHHHHHHHHHH--------HcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH
Q 047221          307 CRRCDFKGPRDLLVEMR--------QVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCR  378 (509)
Q Consensus       307 ~~~g~~~~A~~~~~~m~--------~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  378 (509)
                      ...|++++|++.+++..        +.. +.+...+..+..+|...|++++|.+.|++..+.. +-+...|..+-.+|.+
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHH
Confidence            66788888888888776        322 3345677777778888888888888888877652 2356677777778888


Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHH
Q 047221          379 VGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNV  458 (509)
Q Consensus       379 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~  458 (509)
                      .|++++|...|++..+.. +-+...|..+..+|.+.|++++ .+.|++..+.+ .-+...|..+..++.+.|++++|++.
T Consensus       480 ~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            888888888888877653 2256677778888888888888 88888777653 22556777788888888888888888


Q ss_pred             HHHHHHCCCCcCH-HHHHHHHHHHHhcCC
Q 047221          459 LSEMMKNGLRPNV-SVYRRVLKHLHTSHQ  486 (509)
Q Consensus       459 ~~~m~~~g~~p~~-~t~~~ll~~~~~~g~  486 (509)
                      |++..+  +.|+. ..+..+..++...|+
T Consensus       557 ~~~al~--l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          557 LDEVPP--TSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHTSCT--TSTTHHHHHHHHHHHTC----
T ss_pred             HHhhcc--cCcccHHHHHHHHHHHHccCC
Confidence            887765  44553 455555556544443

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.61  E-value=1.4e-06  Score=89.92  Aligned_cols=154  Identities=6%  Similarity=-0.109  Sum_probs=116.1

Q ss_pred             cCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHH
Q 047221          309 RCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNF  388 (509)
Q Consensus       309 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~  388 (509)
                      .|++++|++.|++..+.. +-+...|..+...|...|++++|.+.+++..+.. +.+...+..+...|.+.|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            478899999999888653 3457888999999999999999999999998863 34578899999999999999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhC---CChHHHHHHHHHHHHC
Q 047221          389 FNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKN---NNPVMAKNVLSEMMKN  465 (509)
Q Consensus       389 ~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~---g~~~~a~~~~~~m~~~  465 (509)
                      +++..+.. +.+...+..+..+|.+.|++++|.+.|++..+... .+...+..+...+...   |+.++|.+.+++..+.
T Consensus        80 ~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           80 LQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLP-EEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            99988763 33678899999999999999999999999887642 3567788899999999   9999999999999875


Q ss_pred             C
Q 047221          466 G  466 (509)
Q Consensus       466 g  466 (509)
                      +
T Consensus       158 ~  158 (568)
T 2vsy_A          158 G  158 (568)
T ss_dssp             T
T ss_pred             C
Confidence            3

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.61  E-value=2.7e-05  Score=72.80  Aligned_cols=219  Identities=10%  Similarity=0.049  Sum_probs=172.1

Q ss_pred             CCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcC--CccHHHHHHHHHHHcCCCCChHHHHHHHHHH----Hhc---CC
Q 047221          280 GLYEMAKYVIKKT----ERKVSYYNILIKEMCRRC--DFKGPRDLLVEMRQVGCEPITLTYNYVLGVL----CKN---GQ  346 (509)
Q Consensus       280 g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g--~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~----~~~---g~  346 (509)
                      ..-++|..+++.+    +.+..+||.--..+...|  +++++++.++.+.... +-+..+|+.--..+    ...   ++
T Consensus        47 e~s~~aL~~t~~~L~~nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l~~~~~  125 (306)
T 3dra_A           47 EYSERALHITELGINELASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELNNNDFD  125 (306)
T ss_dssp             CCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHTTTCCC
T ss_pred             CCCHHHHHHHHHHHHHCcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhccccCC
Confidence            4446888888875    556888999888888888  9999999999999764 44555665544444    455   78


Q ss_pred             hHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChH--HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC------HH
Q 047221          347 DADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFD--VAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYR------YE  418 (509)
Q Consensus       347 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~--~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~------~~  418 (509)
                      +++++++++.+.+. -+-+..+|+--.-.+.+.|+++  ++++.++++.+.. .-|-..|+.-.....+.|.      ++
T Consensus       126 ~~~EL~~~~~~l~~-~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~~~~~~~~  203 (306)
T 3dra_A          126 PYREFDILEAMLSS-DPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHLATDNTID  203 (306)
T ss_dssp             THHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGGCCHHHHH
T ss_pred             HHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccchhhhHH
Confidence            99999999999986 3457888888888888889888  9999999999875 3377888877777777776      89


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHH-HHHHHHHHHHCC--CCcCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 047221          419 DAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVM-AKNVLSEMMKNG--LRPNVSVYRRVLKHLHTSHQEHMAKCLSS  495 (509)
Q Consensus       419 ~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~-a~~~~~~m~~~g--~~p~~~t~~~ll~~~~~~g~~~~a~~~~~  495 (509)
                      ++++.++++.... .-|...|+.+-..+.+.|+..+ +.++.+++.+.+  -..+...+..+...|.+.|+.++|.++++
T Consensus       204 eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~  282 (306)
T 3dra_A          204 EELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYD  282 (306)
T ss_dssp             HHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH
Confidence            9999999888765 3488889999999999988555 556777665532  13466788899999999999999999999


Q ss_pred             HHHh-CCC
Q 047221          496 RYSS-LSL  502 (509)
Q Consensus       496 ~m~~-~~~  502 (509)
                      .+.+ .++
T Consensus       283 ~l~~~~Dp  290 (306)
T 3dra_A          283 LLKSKYNP  290 (306)
T ss_dssp             HHHHTTCG
T ss_pred             HHHhccCh
Confidence            9985 443

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.60  E-value=1.1e-06  Score=90.55  Aligned_cols=149  Identities=9%  Similarity=-0.037  Sum_probs=107.3

Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHH
Q 047221          245 LTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLV  320 (509)
Q Consensus       245 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~  320 (509)
                      ++.++|...+++..+.. +.+...+..+...|.+.|++++|...|++.    +.+...|..+...|.+.|++++|.+.|+
T Consensus         3 g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~   81 (568)
T 2vsy_A            3 ADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRHAEAAVLLQ   81 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            45788888888877643 345677888888999999999999988885    4567888888889999999999999998


Q ss_pred             HHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHc---CChHHHHHHHHHHHHCC
Q 047221          321 EMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRV---GKFDVAFNFFNQMVKRG  396 (509)
Q Consensus       321 ~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~---g~~~~a~~~~~~m~~~g  396 (509)
                      +..+.. +.+...+..+..+|.+.|++++|.+.+++..+.. +.+...+..+...+.+.   |+.++|.+.+++..+.+
T Consensus        82 ~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A           82 QASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            888764 4456788888888999999999999998887762 33567788888888888   88999999998887764

>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=98.58  E-value=1.2e-06  Score=82.65  Aligned_cols=210  Identities=9%  Similarity=0.003  Sum_probs=148.3

Q ss_pred             cCCHHHHHHHHHHc----C-------CC----HHHHHHHHHHHHhcCCccHHHHHHHHHHHcCC---CC--ChHHHHHHH
Q 047221          279 LGLYEMAKYVIKKT----E-------RK----VSYYNILIKEMCRRCDFKGPRDLLVEMRQVGC---EP--ITLTYNYVL  338 (509)
Q Consensus       279 ~g~~~~A~~~~~~m----~-------~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~---~p--~~~t~~~li  338 (509)
                      .|++++|.+++++.    +       ++    ...|+.....|...|++++|.+.|.+..+...   .+  -..+|+.+.
T Consensus         4 ~~~~~eA~~~~~~a~k~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg   83 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLKTSFMKWKPDYDSAASEYAKAAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAG   83 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHCCCSSSCSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHccccccCCCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            46788888888753    1       23    34678888889999999999999988764311   11  145788888


Q ss_pred             HHHHhcCChHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHC----CCCC-CHHHHHHHH
Q 047221          339 GVLCKNGQDADACELLEEMLGR----NCHP-DAITYEIFIVYSCRVGKFDVAFNFFNQMVKR----GLQP-RLATHAAFI  408 (509)
Q Consensus       339 ~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~~~~~li  408 (509)
                      ..|.+.|++++|...|++..+.    |-.. -..+++.+-..|.+ |++++|+..|++..+.    |... ...+++.+.
T Consensus        84 ~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg  162 (307)
T 2ifu_A           84 MMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKAS  162 (307)
T ss_dssp             HHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHH
Confidence            8999999999999999876543    2111 13467777888878 9999999999987653    2111 145788888


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcC------HHHHHHH
Q 047221          409 KGYFIFYRYEDAYKYVVLSADK----YKSSS-NMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPN------VSVYRRV  477 (509)
Q Consensus       409 ~~~~~~g~~~~A~~~~~~m~~~----~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~------~~t~~~l  477 (509)
                      ..|.+.|++++|...|++..+.    +..+. ...+..++..+...|++++|++.|++.. .  .|+      ......+
T Consensus       163 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al-~--~p~~~~~~e~~~l~~l  239 (307)
T 2ifu_A          163 RLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY-S--IPGFSGSEDCAALEDL  239 (307)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT-T--STTSTTSHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh-C--CCCCCCCHHHHHHHHH
Confidence            9999999999999999987753    21111 2256667777788899999999999987 3  232      1234555


Q ss_pred             HHHHHhcCCHHHHHHH
Q 047221          478 LKHLHTSHQEHMAKCL  493 (509)
Q Consensus       478 l~~~~~~g~~~~a~~~  493 (509)
                      +.++ ..|+.+.+.++
T Consensus       240 ~~~~-~~~d~~~~~~~  254 (307)
T 2ifu_A          240 LQAY-DEQDEEQLLRV  254 (307)
T ss_dssp             HHHH-HTTCHHHHHHH
T ss_pred             HHHH-HhcCHHHHHHH
Confidence            5555 56777776664

>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=98.57  E-value=4.2e-06  Score=73.82  Aligned_cols=126  Identities=6%  Similarity=-0.140  Sum_probs=94.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCh
Q 047221          269 VRALIEMFSVLGLYEMAKYVIKKT-ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQD  347 (509)
Q Consensus       269 ~~~li~~~~~~g~~~~A~~~~~~m-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~  347 (509)
                      +..+...|...|++++|...|++. +++...|..+...|.+.|++++|++.|++..+.. +.+...|..+..+|...|++
T Consensus         9 ~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~   87 (213)
T 1hh8_A            9 LWNEGVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKY   87 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHcCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcccH
Confidence            456667777888888888888875 5677788888888888888888888888877654 44567777888888888888


Q ss_pred             HHHHHHHHHHHhCCCC--------------C-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHC
Q 047221          348 ADACELLEEMLGRNCH--------------P-DAITYEIFIVYSCRVGKFDVAFNFFNQMVKR  395 (509)
Q Consensus       348 ~~a~~~~~~m~~~g~~--------------p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  395 (509)
                      ++|.+.|++..+..-.              | ....+..+..+|.+.|++++|...|++..+.
T Consensus        88 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  150 (213)
T 1hh8_A           88 DLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  150 (213)
T ss_dssp             HHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHc
Confidence            8888888887764211              1 1256777777788888888888888887765

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.57  E-value=3.7e-07  Score=76.11  Aligned_cols=141  Identities=10%  Similarity=-0.098  Sum_probs=77.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHcC----CCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCh
Q 047221          272 LIEMFSVLGLYEMAKYVIKKTE----RKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQD  347 (509)
Q Consensus       272 li~~~~~~g~~~~A~~~~~~m~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~  347 (509)
                      |..++...|+++.|...+++.-    .+...+-.+...|.+.|++++|++.|++..+.. +-+..+|..+..+|.+.|++
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~   81 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTPSPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENT   81 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSCSHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHHcChHHHHHHHHHHhcccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCch
Confidence            3344455566666666666542    123445556666666666666666666666543 33455666666666666666


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHH-HHHHHHCCCCCCHHHHHHHHHHHHHcC
Q 047221          348 ADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNF-FNQMVKRGLQPRLATHAAFIKGYFIFY  415 (509)
Q Consensus       348 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~-~~~m~~~g~~p~~~~~~~li~~~~~~g  415 (509)
                      ++|...|++..+.. +-+...|..+...|.+.|+.++|... +++..+.. +-+..+|......+...|
T Consensus        82 ~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~-P~~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           82 DKAVECYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF-PGSPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhC
Confidence            66666666666541 22355566666666666666554443 35554431 223445554444444444

>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=98.51  E-value=5.8e-06  Score=72.88  Aligned_cols=133  Identities=10%  Similarity=-0.010  Sum_probs=109.0

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 047221          332 LTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGY  411 (509)
Q Consensus       332 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  411 (509)
                      ..+..+...+...|++++|...|++..    .|+...|..+...|.+.|++++|...|++..+.. +.+...|..+..+|
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            345667778889999999999998763    5688899999999999999999999999988764 44678889999999


Q ss_pred             HHcCCHHHHHHHHHHHHhCCCCCC---------------HHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCH
Q 047221          412 FIFYRYEDAYKYVVLSADKYKSSS---------------NMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNV  471 (509)
Q Consensus       412 ~~~g~~~~A~~~~~~m~~~~~~p~---------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  471 (509)
                      ...|++++|.+.|++..+......               ...|..+...|.+.|++++|.+.|++..+  +.|+.
T Consensus        82 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~--~~p~~  154 (213)
T 1hh8_A           82 YQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATS--MKSEP  154 (213)
T ss_dssp             HHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TCCSG
T ss_pred             HHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHH--cCccc
Confidence            999999999999999887642211               25778889999999999999999999887  44554

>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=98.51  E-value=6.3e-06  Score=77.04  Aligned_cols=160  Identities=13%  Similarity=0.120  Sum_probs=72.8

Q ss_pred             HHHHHhcCCccHHHHHHHHHHHcC-CCCCh----HHHHHHHHHHHhcCChHHHHHHHHHHHhCCCC-CC----HHHHHHH
Q 047221          303 IKEMCRRCDFKGPRDLLVEMRQVG-CEPIT----LTYNYVLGVLCKNGQDADACELLEEMLGRNCH-PD----AITYEIF  372 (509)
Q Consensus       303 i~~~~~~g~~~~A~~~~~~m~~~g-~~p~~----~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-p~----~~~~~~l  372 (509)
                      +..+...|++++|.+++++..+.. ..|+.    ..+..+...+...|++++|...|.+..+.... .+    ..+++.+
T Consensus        82 i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~l  161 (293)
T 3u3w_A           82 VIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAI  161 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHH
Confidence            455666666666666666655431 11221    12223444444555566666666555542111 11    1245555


Q ss_pred             HHHHHHcCChHHHHHHHHHHHHC-----CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhC----CCCCC-HHHHHH
Q 047221          373 IVYSCRVGKFDVAFNFFNQMVKR-----GLQPR-LATHAAFIKGYFIFYRYEDAYKYVVLSADK----YKSSS-NMLYSL  441 (509)
Q Consensus       373 i~~~~~~g~~~~a~~~~~~m~~~-----g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~p~-~~~~~~  441 (509)
                      ...|...|++++|...|+++.+.     +..+. ..++..+...|.+.|++++|...+++..+.    +..+. ..+|..
T Consensus       162 g~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~  241 (293)
T 3u3w_A          162 ANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQ  241 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHH
Confidence            55555555555555555555421     11111 123444555555555555555555443321    11111 334444


Q ss_pred             HHHHHHhCCC-hHHHHHHHHHH
Q 047221          442 LASLHDKNNN-PVMAKNVLSEM  462 (509)
Q Consensus       442 li~~~~~~g~-~~~a~~~~~~m  462 (509)
                      +...|.+.|+ +++|.+.+++.
T Consensus       242 lg~~~~~~g~~~~~A~~~~~~A  263 (293)
T 3u3w_A          242 RGECLRKLEYEEAEIEDAYKKA  263 (293)
T ss_dssp             HHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHhCCcHHHHHHHHHHH
Confidence            4444444442 34555444443

>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=98.51  E-value=1.3e-05  Score=74.79  Aligned_cols=159  Identities=8%  Similarity=-0.033  Sum_probs=120.7

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHc---CC---C----HHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCC-CC----hHHH
Q 047221          270 RALIEMFSVLGLYEMAKYVIKKT---ER---K----VSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCE-PI----TLTY  334 (509)
Q Consensus       270 ~~li~~~~~~g~~~~A~~~~~~m---~~---~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~----~~t~  334 (509)
                      ...+..+...|++++|..++++.   .+   +    ...+..+...+...|++++|++.|++..+.... ++    ..++
T Consensus        79 ~~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~  158 (293)
T 3u3w_A           79 KDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIE  158 (293)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHH
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHH
Confidence            34467788899999999999885   11   1    123445667777788999999999999874322 23    2368


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhC-----CCCCC-HHHHHHHHHHHHHcCChHHHHHHHHHHHHC----CCCCC-HHH
Q 047221          335 NYVLGVLCKNGQDADACELLEEMLGR-----NCHPD-AITYEIFIVYSCRVGKFDVAFNFFNQMVKR----GLQPR-LAT  403 (509)
Q Consensus       335 ~~li~~~~~~g~~~~a~~~~~~m~~~-----g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~-~~~  403 (509)
                      +.+...|...|++++|...|++..+.     +..+. ..+|..+...|.+.|++++|...+++..+.    +..+. ..+
T Consensus       159 ~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~  238 (293)
T 3u3w_A          159 NAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQL  238 (293)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHH
Confidence            99999999999999999999988741     22222 337888999999999999999999987643    32233 678


Q ss_pred             HHHHHHHHHHcC-CHHHHHHHHHHHH
Q 047221          404 HAAFIKGYFIFY-RYEDAYKYVVLSA  428 (509)
Q Consensus       404 ~~~li~~~~~~g-~~~~A~~~~~~m~  428 (509)
                      |..+..+|.+.| ..++|.+.+++..
T Consensus       239 ~~~lg~~~~~~g~~~~~A~~~~~~Al  264 (293)
T 3u3w_A          239 YYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHH
Confidence            899999999999 5699999887765

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.49  E-value=1.5e-05  Score=74.34  Aligned_cols=168  Identities=11%  Similarity=0.061  Sum_probs=119.4

Q ss_pred             HHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCC-----hHHHHHHHHHHHhcCChHHHHHHHHHHHhCC---CCCC--H
Q 047221          297 SYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPI-----TLTYNYVLGVLCKNGQDADACELLEEMLGRN---CHPD--A  366 (509)
Q Consensus       297 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-----~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g---~~p~--~  366 (509)
                      ..+...+..+...|++++|.+.+.+..+..-..+     ...+..+...+...|++++|...+.+..+..   ..+.  .
T Consensus        76 ~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~  155 (293)
T 2qfc_A           76 KQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNL  155 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHH
Confidence            3455667778888888888888887776532211     1223445566778889999999998877532   1122  4


Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHH---C-CCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC----CCCC-C
Q 047221          367 ITYEIFIVYSCRVGKFDVAFNFFNQMVK---R-GLQP--RLATHAAFIKGYFIFYRYEDAYKYVVLSADK----YKSS-S  435 (509)
Q Consensus       367 ~~~~~li~~~~~~g~~~~a~~~~~~m~~---~-g~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~p-~  435 (509)
                      .+|+.+...|...|++++|...|++..+   . +-.+  ...+++.+..+|.+.|++++|...+++..+.    +... -
T Consensus       156 ~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~  235 (293)
T 2qfc_A          156 YIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALI  235 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHH
Confidence            5788888899999999999999988762   2 1111  1257888899999999999999999876543    1111 1


Q ss_pred             HHHHHHHHHHHHhCCChHHH-HHHHHHHHH
Q 047221          436 NMLYSLLASLHDKNNNPVMA-KNVLSEMMK  464 (509)
Q Consensus       436 ~~~~~~li~~~~~~g~~~~a-~~~~~~m~~  464 (509)
                      ..+|..+...|.+.|+.++| ...+++...
T Consensus       236 ~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          236 GQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            56788899999999999999 777777653

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.48  E-value=3e-06  Score=70.47  Aligned_cols=110  Identities=10%  Similarity=-0.022  Sum_probs=48.4

Q ss_pred             HhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHH
Q 047221          205 CGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEM  284 (509)
Q Consensus       205 ~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~  284 (509)
                      +...|++++|+..++....  ..|+.......+..++...+++++|...++...+.. +-+..+|..+..+|.+.|++++
T Consensus         7 ~~~~~~~e~ai~~~~~a~~--~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~   83 (150)
T 4ga2_A            7 RRSKADVERYIASVQGSTP--SPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENTDK   83 (150)
T ss_dssp             CCCHHHHHHHHHHHHHHSC--SHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHcChHHHHHHHHHHhcc--cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCchHH
Confidence            3344555555555554422  223222222222222333333555555555544432 2234445555555555555555


Q ss_pred             HHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHH
Q 047221          285 AKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRD  317 (509)
Q Consensus       285 A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~  317 (509)
                      |...|++.    +.+..+|..+...|.+.|++++|.+
T Consensus        84 A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~  120 (150)
T 4ga2_A           84 AVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAK  120 (150)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHH
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHH
Confidence            55555443    2334445555555555555444333

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.45  E-value=1.9e-05  Score=73.66  Aligned_cols=167  Identities=8%  Similarity=-0.032  Sum_probs=124.5

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH-----HHHHHHHHHHHHcCChHHHHHHHHHHHHCCC---CCC--H
Q 047221          332 LTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDA-----ITYEIFIVYSCRVGKFDVAFNFFNQMVKRGL---QPR--L  401 (509)
Q Consensus       332 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-----~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~---~p~--~  401 (509)
                      ..+...+..+...|++++|.+.+.+..+.......     ..+..+...+...|++++|...+++..+...   .+.  .
T Consensus        76 ~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~  155 (293)
T 2qfc_A           76 KQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNL  155 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHH
Confidence            34455677889999999999999988775322111     2234455667788999999999999875421   222  4


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHh---C-CCCC--CHHHHHHHHHHHHhCCChHHHHHHHHHHHHC----CCCc-C
Q 047221          402 ATHAAFIKGYFIFYRYEDAYKYVVLSAD---K-YKSS--SNMLYSLLASLHDKNNNPVMAKNVLSEMMKN----GLRP-N  470 (509)
Q Consensus       402 ~~~~~li~~~~~~g~~~~A~~~~~~m~~---~-~~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~  470 (509)
                      .+|+.+...|...|++++|...|++..+   . +..+  ...+|..+...|.+.|++++|++.+++..+.    +... -
T Consensus       156 ~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~  235 (293)
T 2qfc_A          156 YIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALI  235 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHH
Confidence            5889999999999999999999998873   2 1111  1258889999999999999999999988753    1111 1


Q ss_pred             HHHHHHHHHHHHhcCCHHHH-HHHHHHHH
Q 047221          471 VSVYRRVLKHLHTSHQEHMA-KCLSSRYS  498 (509)
Q Consensus       471 ~~t~~~ll~~~~~~g~~~~a-~~~~~~m~  498 (509)
                      ..+|..+...|.+.|++++| ...+++..
T Consensus       236 ~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          236 GQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            56788889999999999999 77676644

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.44  E-value=1.1e-05  Score=63.78  Aligned_cols=93  Identities=12%  Similarity=0.182  Sum_probs=38.7

Q ss_pred             HHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH
Q 047221          299 YNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCR  378 (509)
Q Consensus       299 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  378 (509)
                      |..+...+...|++++|.+.|+++.+.. +.+..++..+...+...|++++|..+++++.+.. +.+..++..+...|.+
T Consensus        12 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~   89 (125)
T 1na0_A           12 WYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYK   89 (125)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHH
Confidence            3344444444444444444444444332 2233344444444444444444444444443321 1233344444444444


Q ss_pred             cCChHHHHHHHHHHH
Q 047221          379 VGKFDVAFNFFNQMV  393 (509)
Q Consensus       379 ~g~~~~a~~~~~~m~  393 (509)
                      .|++++|...++++.
T Consensus        90 ~~~~~~A~~~~~~~~  104 (125)
T 1na0_A           90 QGDYDEAIEYYQKAL  104 (125)
T ss_dssp             TTCHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHH
Confidence            444444444444443

>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=98.43  E-value=9.6e-06  Score=68.05  Aligned_cols=126  Identities=10%  Similarity=0.001  Sum_probs=57.2

Q ss_pred             HHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH
Q 047221          299 YNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCR  378 (509)
Q Consensus       299 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  378 (509)
                      |..+...+...|++++|...|++..+.. +.+..++..+...+...|++++|...+++..+.. +.+...|..+..++.+
T Consensus        16 ~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~   93 (166)
T 1a17_A           16 LKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMA   93 (166)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHH
Confidence            3444444444444444544444444332 2234444444455555555555555555444431 2234445555555555


Q ss_pred             cCChHHHHHHHHHHHHCCCCCCHHHH--HHHHHHHHHcCCHHHHHHHHHHH
Q 047221          379 VGKFDVAFNFFNQMVKRGLQPRLATH--AAFIKGYFIFYRYEDAYKYVVLS  427 (509)
Q Consensus       379 ~g~~~~a~~~~~~m~~~g~~p~~~~~--~~li~~~~~~g~~~~A~~~~~~m  427 (509)
                      .|++++|...|++..+.. +.+...+  -.+...+.+.|++++|...+...
T Consensus        94 ~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  143 (166)
T 1a17_A           94 LGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEHK  143 (166)
T ss_dssp             TTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHcccch
Confidence            555555555555554432 1122233  22222244455555555555443

>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=98.42  E-value=1.2e-05  Score=67.53  Aligned_cols=129  Identities=9%  Similarity=-0.075  Sum_probs=72.4

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 047221          332 LTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGY  411 (509)
Q Consensus       332 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  411 (509)
                      ..+..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|...+++..+.. +.+...+..+..+|
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~   91 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASN   91 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHH
Confidence            344555556666666666666666655542 2245556666666666666666666666665542 23455566666666


Q ss_pred             HHcCCHHHHHHHHHHHHhCCCCCCHHHHH--HHHHHHHhCCChHHHHHHHHHHH
Q 047221          412 FIFYRYEDAYKYVVLSADKYKSSSNMLYS--LLASLHDKNNNPVMAKNVLSEMM  463 (509)
Q Consensus       412 ~~~g~~~~A~~~~~~m~~~~~~p~~~~~~--~li~~~~~~g~~~~a~~~~~~m~  463 (509)
                      ...|++++|...|++..+... .+...+.  .++..+...|++++|++.++...
T Consensus        92 ~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           92 MALGKFRAALRDYETVVKVKP-HDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            666666666666666655422 1223332  22223555566666666665543

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.41  E-value=1.2e-05  Score=63.49  Aligned_cols=111  Identities=12%  Similarity=0.074  Sum_probs=83.0

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHH
Q 047221          266 VSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVL  341 (509)
Q Consensus       266 ~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~  341 (509)
                      ...+..+...|...|++++|...|+++    +.+..+|..+...+.+.|++++|...|+++.+.. +.+..++..+...|
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~   87 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHH
Confidence            456777788888888888888888775    4567788888888888888888888888887764 44677788888888


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH
Q 047221          342 CKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCR  378 (509)
Q Consensus       342 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  378 (509)
                      ...|++++|...++++.+.. +.+...+..+...+.+
T Consensus        88 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~  123 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNAKQK  123 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHh
Confidence            88899999988888887652 2344555555444443

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.40  E-value=0.001  Score=66.83  Aligned_cols=325  Identities=6%  Similarity=-0.034  Sum_probs=194.9

Q ss_pred             CCCCHHHHHHHHHHHhcCCc---hHHHHHHHh-hccCCCCccChhHHHHHHHHHhc----cCCHHHHHHHHHHhhhCCCc
Q 047221          156 VSLSNASVIEILRVLNSEKV---SALCFLKYM-REIMPEFYKNSDICSLVIDNCGR----LDDYETMRQLLNDFNVYQVC  227 (509)
Q Consensus       156 ~~~~~~~~~~ll~~~~~~~~---~A~~~~~~~-~~~~p~~~~~~~~~~~li~~~~~----~g~~~~A~~l~~~m~~~~~~  227 (509)
                      ..|+...|..-++...+.+.   ....+|+.+ ..+.++. .+...|...+..+..    .++.+.+.++|++.......
T Consensus        43 ~~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~-~s~~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~P~~  121 (493)
T 2uy1_A           43 KSYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYW-DSYGLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQTPMG  121 (493)
T ss_dssp             TCCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCT-TCHHHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHTSCCT
T ss_pred             cCCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCc-ccHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHhChhh
Confidence            34788888888887766552   567788877 3222222 234588888877653    46788999999999874322


Q ss_pred             cCHHHHHHHHHHHHhccC-------------CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC--C-----HHHHHH
Q 047221          228 LNEKAFGFLPVLISSKAL-------------TKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLG--L-----YEMAKY  287 (509)
Q Consensus       228 p~~~~~~~ll~~~~~~~~-------------~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g--~-----~~~A~~  287 (509)
                      --...|..... +-...+             .+..|..+++.+...-...+...|...+..-...+  -     .+.+..
T Consensus       122 ~~~~lw~~Y~~-fE~~~~~~~~~~~~~~~~~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~  200 (493)
T 2uy1_A          122 SLSELWKDFEN-FELELNKITGKKIVGDTLPIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHF  200 (493)
T ss_dssp             THHHHHHHHHH-HHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHH
T ss_pred             hHHHHHHHHHH-HHHHhccccHHHHHHHHhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHH
Confidence            12233333322 111111             12233334443332100012334555444432211  1     234556


Q ss_pred             HHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCC--
Q 047221          288 VIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRN--  361 (509)
Q Consensus       288 ~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g--  361 (509)
                      +|++.    +.+...|-..+.-+.+.|+.++|.++|++....   |.......   .|+...+.++.   ++.+.+.-  
T Consensus       201 ~ye~al~~~p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~---P~~~~l~~---~y~~~~e~~~~---~~~l~~~~~~  271 (493)
T 2uy1_A          201 IHNYILDSFYYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM---SDGMFLSL---YYGLVMDEEAV---YGDLKRKYSM  271 (493)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCSSHHHH---HHHHHTTCTHH---HHHHHHHTC-
T ss_pred             HHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC---CCcHHHHH---HHHhhcchhHH---HHHHHHHHHh
Confidence            77664    567888998899899999999999999999987   44332221   23332222222   22222210  


Q ss_pred             -------CCC---CHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHHhC
Q 047221          362 -------CHP---DAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIF-YRYEDAYKYVVLSADK  430 (509)
Q Consensus       362 -------~~p---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~-g~~~~A~~~~~~m~~~  430 (509)
                             ..+   ....|...+..+.+.+..+.|..+|+.. +.. ..+...|......-... ++.+.|..+|+...+.
T Consensus       272 ~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~  349 (493)
T 2uy1_A          272 GEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLK  349 (493)
T ss_dssp             ---------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHH
T ss_pred             hccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHH
Confidence                   011   1245666677777788899999999998 321 23444554322222223 3699999999988775


Q ss_pred             CCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 047221          431 YKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSS  499 (509)
Q Consensus       431 ~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~  499 (509)
                      .. -+...|...+....+.|+.+.|..+|+++.     -....|...+.-=...|+.+.+..++++..+
T Consensus       350 ~~-~~~~~~~~yid~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          350 HP-DSTLLKEEFFLFLLRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             CT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             CC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            32 234456667777788999999999999973     2456777777766778999999998887763

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.40  E-value=3.2e-06  Score=73.80  Aligned_cols=156  Identities=11%  Similarity=-0.029  Sum_probs=94.8

Q ss_pred             HhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHHcCC
Q 047221          307 CRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGR----NCHP-DAITYEIFIVYSCRVGK  381 (509)
Q Consensus       307 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~  381 (509)
                      ...|++++|.+.++.+... ......++..+...|...|++++|...+++..+.    |..+ ...++..+...|...|+
T Consensus         3 ~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~   81 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGN   81 (203)
T ss_dssp             ----CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             cccccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCC
Confidence            4567788888855544331 1234566777777778888888888887776552    2122 23456666777777888


Q ss_pred             hHHHHHHHHHHHHC----CCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC----CCC-CCHHHHHHHHHHHHhCC
Q 047221          382 FDVAFNFFNQMVKR----GLQP--RLATHAAFIKGYFIFYRYEDAYKYVVLSADK----YKS-SSNMLYSLLASLHDKNN  450 (509)
Q Consensus       382 ~~~a~~~~~~m~~~----g~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~-p~~~~~~~li~~~~~~g  450 (509)
                      +++|...+++..+.    +-.+  ....+..+...|...|++++|...+++..+.    +.. ....++..+...+...|
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            88888877766543    2111  1344666777777778888887777766532    111 01223566667777777


Q ss_pred             ChHHHHHHHHHHH
Q 047221          451 NPVMAKNVLSEMM  463 (509)
Q Consensus       451 ~~~~a~~~~~~m~  463 (509)
                      ++++|.+.+++..
T Consensus       162 ~~~~A~~~~~~al  174 (203)
T 3gw4_A          162 NLLEAQQHWLRAR  174 (203)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHH
Confidence            7777777776654

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.39  E-value=4.2e-06  Score=76.56  Aligned_cols=186  Identities=12%  Similarity=-0.035  Sum_probs=121.5

Q ss_pred             hcCCHHHHHHHHHHc----CCCHHHHHHH-------HHHHHhcCCccHHHHHHHHHHHcCCCCC----------------
Q 047221          278 VLGLYEMAKYVIKKT----ERKVSYYNIL-------IKEMCRRCDFKGPRDLLVEMRQVGCEPI----------------  330 (509)
Q Consensus       278 ~~g~~~~A~~~~~~m----~~~~~~~~~l-------i~~~~~~g~~~~A~~~~~~m~~~g~~p~----------------  330 (509)
                      ..++.+.|.+.|.+.    +.....|+.+       ...+.+.++..+++..+..-.+  +.|+                
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~~~~g~y~~~~   95 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYGDIT   95 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTCCCE
T ss_pred             cCCCHHHHHHHHHHHHHhChhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCcccccc
Confidence            578888888888886    4457788877       4666666666666665555443  1221                


Q ss_pred             ------hHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC--HH
Q 047221          331 ------TLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPR--LA  402 (509)
Q Consensus       331 ------~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~--~~  402 (509)
                            ...+-.....+...|++++|.++|+.+...+  |+......+-..+.+.+++++|+..|+...... .|.  ..
T Consensus        96 ~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~  172 (282)
T 4f3v_A           96 YPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGA  172 (282)
T ss_dssp             EECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHH
T ss_pred             cccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHH
Confidence                  1223345566777888888888888777653  443354455557778888888888887543321 111  23


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcC
Q 047221          403 THAAFIKGYFIFYRYEDAYKYVVLSADKYKSSS--NMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPN  470 (509)
Q Consensus       403 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  470 (509)
                      .+..+-.++...|++++|+..|++.......|.  .........++.+.|+.++|..+|+++..  ..|+
T Consensus       173 a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a--~~P~  240 (282)
T 4f3v_A          173 AGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQT--THPE  240 (282)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HSCC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCc
Confidence            566677778888888888888887765433243  23455567777788888888888888877  3455

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.38  E-value=2.6e-05  Score=71.34  Aligned_cols=185  Identities=5%  Similarity=-0.146  Sum_probs=109.9

Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHHHHHHH-------HHHHHhcCCHHHHHHHHHHc---CC-------C----------
Q 047221          243 KALTKKGIWRVVEVLNQVGGSCLVSGVRAL-------IEMFSVLGLYEMAKYVIKKT---ER-------K----------  295 (509)
Q Consensus       243 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l-------i~~~~~~g~~~~A~~~~~~m---~~-------~----------  295 (509)
                      ..++...|.+.|.+..+.. +-....|..+       ...+.+.++..++...+++-   .|       +          
T Consensus        18 ~~~d~~~A~~~F~~a~~~d-P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l~p~~l~a~~~~~g~y~~~~~   96 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYD-ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQISMSTLNARIAIGGLYGDITY   96 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTCCGGGGCCEEECCTTTCCCEE
T ss_pred             cCCCHHHHHHHHHHHHHhC-hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCccccccc
Confidence            3555777777777777654 3344556555       34455444445554444431   11       1          


Q ss_pred             -----HHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC--HHH
Q 047221          296 -----VSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPD--AIT  368 (509)
Q Consensus       296 -----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~--~~~  368 (509)
                           ...+-.+...+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+...+.. .|.  ...
T Consensus        97 ~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a  173 (282)
T 4f3v_A           97 PVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAA  173 (282)
T ss_dssp             ECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHH
T ss_pred             ccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHH
Confidence                 1223445666777777777777777766543  443355555556777777777777776444331 111  224


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 047221          369 YEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPR--LATHAAFIKGYFIFYRYEDAYKYVVLSADKY  431 (509)
Q Consensus       369 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  431 (509)
                      +..+-.++.+.|++++|+..|++.......|.  .........++.+.|+.++|..+|+++....
T Consensus       174 ~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~  238 (282)
T 4f3v_A          174 GVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTH  238 (282)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            55666677777777777777777764433243  2345556666777777777777777777653

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.37  E-value=2.5e-06  Score=74.55  Aligned_cols=152  Identities=12%  Similarity=-0.070  Sum_probs=96.0

Q ss_pred             hcCCHHHHHH---HHHHcC-CCHHHHHHHHHHHHhcCCccHHHHHHHHHHHc----CCC-CChHHHHHHHHHHHhcCChH
Q 047221          278 VLGLYEMAKY---VIKKTE-RKVSYYNILIKEMCRRCDFKGPRDLLVEMRQV----GCE-PITLTYNYVLGVLCKNGQDA  348 (509)
Q Consensus       278 ~~g~~~~A~~---~~~~m~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~-p~~~t~~~li~~~~~~g~~~  348 (509)
                      ..|++++|.+   ++..-+ ....+++.+...|...|++++|...+++..+.    |.. ....++..+...|...|+++
T Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~   83 (203)
T 3gw4_A            4 EAHDYALAERQAQALLAHPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWD   83 (203)
T ss_dssp             ---CHHHHHHHHHHHHTSTTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             ccccHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHH
Confidence            4566666666   333322 23456666777777777777777777665541    111 22456677777788888888


Q ss_pred             HHHHHHHHHHhC----CCCC--CHHHHHHHHHHHHHcCChHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHHcCCH
Q 047221          349 DACELLEEMLGR----NCHP--DAITYEIFIVYSCRVGKFDVAFNFFNQMVKR----GLQP-RLATHAAFIKGYFIFYRY  417 (509)
Q Consensus       349 ~a~~~~~~m~~~----g~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~~  417 (509)
                      +|.+.+.+..+.    +-.+  ....+..+...+...|++++|...+++..+.    +... -..++..+...|...|++
T Consensus        84 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~  163 (203)
T 3gw4_A           84 AARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNL  163 (203)
T ss_dssp             HHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCH
Confidence            888887766543    2111  1345677777888888888888888876532    2110 123457788888889999


Q ss_pred             HHHHHHHHHHHh
Q 047221          418 EDAYKYVVLSAD  429 (509)
Q Consensus       418 ~~A~~~~~~m~~  429 (509)
                      ++|.+.+++..+
T Consensus       164 ~~A~~~~~~al~  175 (203)
T 3gw4_A          164 LEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999888876543

>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=98.36  E-value=2.9e-05  Score=72.04  Aligned_cols=192  Identities=8%  Similarity=-0.112  Sum_probs=106.0

Q ss_pred             CHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 047221          295 KVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIV  374 (509)
Q Consensus       295 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  374 (509)
                      +...+..+...+.+.|++++|+..|++..+.. +-+...|..+..+|.+.|++++|.+.+++..+.. +.+...+..+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            34556666666777777777777777666542 2356666777777777777777777777776652 234566777777


Q ss_pred             HHHHcCChHHHHHHHHHHHHCC----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCC
Q 047221          375 YSCRVGKFDVAFNFFNQMVKRG----LQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNN  450 (509)
Q Consensus       375 ~~~~~g~~~~a~~~~~~m~~~g----~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g  450 (509)
                      +|.+.|++++|...|++..+..    ...+...+..+  ...+.      .. +..........+......+ ..+ ..|
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~--~~~~~------~~-~~~~~~~~~~~~~~i~~~l-~~l-~~~  149 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSAL--RIAKK------KR-WNSIEERRIHQESELHSYL-TRL-IAA  149 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHH--HHHHH------HH-HHHHHHTCCCCCCHHHHHH-HHH-HHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCccchhhHHHHHHHHH--HHHHH------HH-HHHHHHHHHhhhHHHHHHH-HHH-HHH
Confidence            7777777777777777665431    01111111111  11111      11 1112222333333333333 222 257


Q ss_pred             ChHHHHHHHHHHHHCCCCcCHHHHHHHHH-HHHhc-CCHHHHHHHHHHHHhCC
Q 047221          451 NPVMAKNVLSEMMKNGLRPNVSVYRRVLK-HLHTS-HQEHMAKCLSSRYSSLS  501 (509)
Q Consensus       451 ~~~~a~~~~~~m~~~g~~p~~~t~~~ll~-~~~~~-g~~~~a~~~~~~m~~~~  501 (509)
                      +.++|++.+++..+  ..|+......-+. .+.+. +.+++|.++|++..+..
T Consensus       150 ~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~~  200 (281)
T 2c2l_A          150 ERERELEECQRNHE--GHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEKR  200 (281)
T ss_dssp             HHHHHHTTTSGGGT--TTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCTT
T ss_pred             HHHHHHHHHHhhhc--cccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhccc
Confidence            77777777777665  3455443333333 33333 56778888887776543

>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=98.31  E-value=0.00047  Score=65.16  Aligned_cols=214  Identities=8%  Similarity=-0.012  Sum_probs=103.7

Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHc----CCCHHHHHHHHHHHHhc-C-CccHHHHHHH
Q 047221          248 KGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLG-LYEMAKYVIKKT----ERKVSYYNILIKEMCRR-C-DFKGPRDLLV  320 (509)
Q Consensus       248 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~m----~~~~~~~~~li~~~~~~-g-~~~~A~~~~~  320 (509)
                      ++|+++.+.+...+ +-+..+|+.--..+...| .++++..+++.+    +.+..+|+.-...+.+. + ++++++++++
T Consensus        71 e~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPKny~aW~hR~wlL~~l~~~~~~~EL~~~~  149 (349)
T 3q7a_A           71 ERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLKSYQVWHHRLLLLDRISPQDPVSEIEYIH  149 (349)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHCCSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCCChHHHHHHHH
Confidence            34444444444332 222333443333444444 355555555443    34445555444444443 4 4555555555


Q ss_pred             HHHHcCCCCChHHHHHHHHHHHhcCChH--------HHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCC-------hHHH
Q 047221          321 EMRQVGCEPITLTYNYVLGVLCKNGQDA--------DACELLEEMLGRNCHPDAITYEIFIVYSCRVGK-------FDVA  385 (509)
Q Consensus       321 ~m~~~g~~p~~~t~~~li~~~~~~g~~~--------~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~-------~~~a  385 (509)
                      ++.+.. .-|-.+|+--.-.+.+.|.++        ++++.++++.+.. +-|...|+-.-..+.+.++       ++++
T Consensus       150 k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~~~~~~~~~eE  227 (349)
T 3q7a_A          150 GSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGAETSSRSLQDE  227 (349)
T ss_dssp             HHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTCCCCHHHHHHH
T ss_pred             HHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccccchHHHHHH
Confidence            555433 334444444333333333333        5555555555542 2245555555555544444       4566


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCH--------------------HHHHHHHHHHHhCC-----CCCCHHHHH
Q 047221          386 FNFFNQMVKRGLQPRLATHAAFIKGYFIFYRY--------------------EDAYKYVVLSADKY-----KSSSNMLYS  440 (509)
Q Consensus       386 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~--------------------~~A~~~~~~m~~~~-----~~p~~~~~~  440 (509)
                      ++.+++++... +-|...|+-+-..+.+.|+.                    .....+..++...+     -.+....+.
T Consensus       228 Le~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~  306 (349)
T 3q7a_A          228 LIYILKSIHLI-PHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVPLALE  306 (349)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSCCHHHHH
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCCcHHHHH
Confidence            66666665542 23555666555555554432                    22223332222221     135666777


Q ss_pred             HHHHHHHhCCChHHHHHHHHHHHHC
Q 047221          441 LLASLHDKNNNPVMAKNVLSEMMKN  465 (509)
Q Consensus       441 ~li~~~~~~g~~~~a~~~~~~m~~~  465 (509)
                      .|+..|...|+.++|.++++.+.+.
T Consensus       307 ~l~d~~~~~~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          307 YLADSFIEQNRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhh
Confidence            7777777777778888888777644

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.30  E-value=2e-05  Score=62.82  Aligned_cols=116  Identities=9%  Similarity=0.035  Sum_probs=57.1

Q ss_pred             HHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 047221          298 YYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSC  377 (509)
Q Consensus       298 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  377 (509)
                      .|..+...+...|++++|.+.|++..... +.+...+..+...+...|++++|.+.++...+.. +.+...+..+...+.
T Consensus        14 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~   91 (131)
T 2vyi_A           14 RLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLALS   91 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHHHH
Confidence            34444445555555555555555544432 2234445555555555555555555555554431 223445555555555


Q ss_pred             HcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC
Q 047221          378 RVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYR  416 (509)
Q Consensus       378 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  416 (509)
                      +.|++++|...|++..+.. +.+...+..+..++.+.|+
T Consensus        92 ~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           92 SLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTT
T ss_pred             HhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhc
Confidence            5555555555555555442 2234445555555554443

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.30  E-value=1.5e-05  Score=63.86  Aligned_cols=97  Identities=10%  Similarity=-0.029  Sum_probs=45.7

Q ss_pred             HHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 047221          296 VSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVY  375 (509)
Q Consensus       296 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  375 (509)
                      ...|..+...+.+.|++++|++.|++..+.. +.+...+..+...|...|++++|.+.+++..+.. +.+...+..+..+
T Consensus        16 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~   93 (133)
T 2lni_A           16 ALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAAA   93 (133)
T ss_dssp             HHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHHH
Confidence            3444444555555555555555555544332 2234444444445555555555555555444431 1234444444445


Q ss_pred             HHHcCChHHHHHHHHHHHH
Q 047221          376 SCRVGKFDVAFNFFNQMVK  394 (509)
Q Consensus       376 ~~~~g~~~~a~~~~~~m~~  394 (509)
                      +.+.|++++|...|++..+
T Consensus        94 ~~~~~~~~~A~~~~~~~~~  112 (133)
T 2lni_A           94 LEAMKDYTKAMDVYQKALD  112 (133)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHH
Confidence            5555555555555554443

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.29  E-value=1.9e-05  Score=62.87  Aligned_cols=117  Identities=9%  Similarity=-0.048  Sum_probs=62.5

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 047221          332 LTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGY  411 (509)
Q Consensus       332 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  411 (509)
                      ..+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...+++..+.. +.+...+..+...|
T Consensus        13 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~   90 (131)
T 2vyi_A           13 ERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHHH
Confidence            444555555556666666666666555431 2244555555555666666666666666555442 22345555555566


Q ss_pred             HHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCC
Q 047221          412 FIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNN  451 (509)
Q Consensus       412 ~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~  451 (509)
                      ...|++++|...|++..+... .+...+..+...+.+.|+
T Consensus        91 ~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALELDP-DNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHTT
T ss_pred             HHhCCHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHHhc
Confidence            666666666666655554421 234445555555555444

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.28  E-value=2.4e-05  Score=62.77  Aligned_cols=90  Identities=12%  Similarity=0.034  Sum_probs=45.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhc
Q 047221          269 VRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKN  344 (509)
Q Consensus       269 ~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~  344 (509)
                      +..+...|.+.|++++|...|++.    +.+...|..+..+|.+.|++++|++.|++..+.. +.+...|..+..+|...
T Consensus        16 ~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~   94 (126)
T 4gco_A           16 EKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACLVAM   94 (126)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHHHC
Confidence            444555555555555555555543    3345555555555555555555555555554432 23344455555555555


Q ss_pred             CChHHHHHHHHHHHh
Q 047221          345 GQDADACELLEEMLG  359 (509)
Q Consensus       345 g~~~~a~~~~~~m~~  359 (509)
                      |++++|.+.|++..+
T Consensus        95 ~~~~~A~~~~~~al~  109 (126)
T 4gco_A           95 REWSKAQRAYEDALQ  109 (126)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHH
Confidence            555555555555444

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.28  E-value=4.2e-05  Score=63.52  Aligned_cols=103  Identities=11%  Similarity=0.019  Sum_probs=74.2

Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 047221          366 AITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASL  445 (509)
Q Consensus       366 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~  445 (509)
                      ...+..+-..+.+.|++++|...|++..+.. +-+...|..+..+|...|++++|...|++..+.... +...|..+..+
T Consensus        36 ~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~-~~~~~~~lg~~  113 (151)
T 3gyz_A           36 MDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKN-DYTPVFHTGQC  113 (151)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSS-CCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCC-CcHHHHHHHHH
Confidence            3456666677778888888888888877653 335777777888888888888888888877765422 34566677888


Q ss_pred             HHhCCChHHHHHHHHHHHHCCCCcCHH
Q 047221          446 HDKNNNPVMAKNVLSEMMKNGLRPNVS  472 (509)
Q Consensus       446 ~~~~g~~~~a~~~~~~m~~~g~~p~~~  472 (509)
                      |.+.|++++|++.|++..+  +.|+..
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            8888888888888888776  345543

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.27  E-value=1.4e-05  Score=64.03  Aligned_cols=116  Identities=11%  Similarity=-0.029  Sum_probs=85.2

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHH
Q 047221          263 SCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVL  338 (509)
Q Consensus       263 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li  338 (509)
                      +.+...+..+...|.+.|++++|...|++.    +.+...|..+...|...|++++|++.+++..+.. +.+...+..+.
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la   91 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKA   91 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHH
Confidence            445566778888888888888888888875    3467788888888888888888888888887753 34567788888


Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcC
Q 047221          339 GVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVG  380 (509)
Q Consensus       339 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  380 (509)
                      .+|.+.|++++|.+.|++..+.. +-+...+..+..++.+.|
T Consensus        92 ~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           92 AALEAMKDYTKAMDVYQKALDLD-SSCKEAADGYQRCMMAQY  132 (133)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-GGGTHHHHHHHHHHHHHT
T ss_pred             HHHHHHhhHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHhc
Confidence            88888888888888888877652 123445555555555444

>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=98.25  E-value=4.3e-05  Score=70.89  Aligned_cols=189  Identities=9%  Similarity=0.008  Sum_probs=112.0

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHH
Q 047221          265 LVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGV  340 (509)
Q Consensus       265 ~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~  340 (509)
                      +...+..+...|.+.|++++|...|++.    +.+...|..+..+|.+.|++++|++.+++..+.. +-+...+..+..+
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   81 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQC   81 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            4456677777888888888888888774    4467788888888888888888888888877653 3456677778888


Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHH
Q 047221          341 LCKNGQDADACELLEEMLGRNCHPDA-ITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYED  419 (509)
Q Consensus       341 ~~~~g~~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  419 (509)
                      |...|++++|...|.+..+..  |+. ..+...+....+   ..++.. +..........+......+-. + ..|+.++
T Consensus        82 ~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~~~~~~~---~~~~~~-~~~~~~~~~~~~~~i~~~l~~-l-~~~~~~~  153 (281)
T 2c2l_A           82 QLEMESYDEAIANLQRAYSLA--KEQRLNFGDDIPSALR---IAKKKR-WNSIEERRIHQESELHSYLTR-L-IAAERER  153 (281)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHH--HHTTCCCCSHHHHHHH---HHHHHH-HHHHHHTCCCCCCHHHHHHHH-H-HHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHHH---HHHHHH-HHHHHHHHHhhhHHHHHHHHH-H-HHHHHHH
Confidence            888888888888887766531  110 001111111111   111111 122223333444444333322 2 2577888


Q ss_pred             HHHHHHHHHhCCCCCCHH-HHHHHHHHHHhC-CChHHHHHHHHHHHH
Q 047221          420 AYKYVVLSADKYKSSSNM-LYSLLASLHDKN-NNPVMAKNVLSEMMK  464 (509)
Q Consensus       420 A~~~~~~m~~~~~~p~~~-~~~~li~~~~~~-g~~~~a~~~~~~m~~  464 (509)
                      |.+.++...+.  .|+.. ....+...+.+. +.+++|.++|+++.+
T Consensus       154 A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          154 ELEECQRNHEG--HEDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HHTTTSGGGTT--TSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHhhhcc--ccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            88877766554  34432 333333334444 567788888877654

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.24  E-value=0.0019  Score=64.78  Aligned_cols=318  Identities=9%  Similarity=-0.060  Sum_probs=188.9

Q ss_pred             HHHHHHHHHhc-CCchHHHHHHHhhccCCCCccChhHHHHHHHHHhccCC-HHHHHHHHHHhhhC-CCc-cCHHHHHHHH
Q 047221          162 SVIEILRVLNS-EKVSALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDD-YETMRQLLNDFNVY-QVC-LNEKAFGFLP  237 (509)
Q Consensus       162 ~~~~ll~~~~~-~~~~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~-~~~A~~l~~~m~~~-~~~-p~~~~~~~ll  237 (509)
                      .|...+..+-. .-+.+.++|+......|+..    .|...+....+.++ .+....+|+..... |.. .+...|...+
T Consensus        17 vyer~l~~~P~~~~e~~~~iferal~~~ps~~----LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi   92 (493)
T 2uy1_A           17 IMEHARRLYMSKDYRSLESLFGRCLKKSYNLD----LWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYI   92 (493)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHSTTCCCHH----HHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHH
T ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHhccCCCHH----HHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHH
Confidence            44444444443 22479999999844446544    99998888877764 45677788876653 433 3667888777


Q ss_pred             HHHHh----ccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH-------------hcCCHHHHHHHHHHcC-----CC
Q 047221          238 VLISS----KALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFS-------------VLGLYEMAKYVIKKTE-----RK  295 (509)
Q Consensus       238 ~~~~~----~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~-------------~~g~~~~A~~~~~~m~-----~~  295 (509)
                      . +..    ..+..+.+..+|+.........-...|......-.             ..+.+..|..+++.+.     .+
T Consensus        93 ~-f~~~~~~~~~~~~~vR~iy~rAL~~P~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~~~~y~~ar~~y~~~~~~~~~~s  171 (493)
T 2uy1_A           93 E-EEGKIEDEQTRIEKIRNGYMRALQTPMGSLSELWKDFENFELELNKITGKKIVGDTLPIFQSSFQRYQQIQPLIRGWS  171 (493)
T ss_dssp             H-HTSSCSSHHHHHHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCS
T ss_pred             H-HHHhchhhhHHHHHHHHHHHHHHhChhhhHHHHHHHHHHHHHHhccccHHHHHHHHhHHHHHHHHHHHHHHHHHhhcc
Confidence            7 322    12347889999999987432211222222221110             1122333444444331     23


Q ss_pred             HHHHHHHHHHHHhcC-C------ccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHH
Q 047221          296 VSYYNILIKEMCRRC-D------FKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAIT  368 (509)
Q Consensus       296 ~~~~~~li~~~~~~g-~------~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~  368 (509)
                      ...|...+.--...+ .      .+.+..+|+++.... +-+...|-..+.-+.+.|+.+.|..++++....  +.+...
T Consensus       172 ~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l  248 (493)
T 2uy1_A          172 VKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFL  248 (493)
T ss_dssp             HHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHH
T ss_pred             HHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHH
Confidence            446666555433221 1      234677888888753 556788888888889999999999999999987  334333


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCC---------CCC---CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCH
Q 047221          369 YEIFIVYSCRVGKFDVAFNFFNQMVKRG---------LQP---RLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSN  436 (509)
Q Consensus       369 ~~~li~~~~~~g~~~~a~~~~~~m~~~g---------~~p---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~  436 (509)
                      |.    .|+...+.++.   ++.+.+.-         ..+   ....|...+..+.+.|+++.|..+|++....+  .+.
T Consensus       249 ~~----~y~~~~e~~~~---~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A~~~~--~~~  319 (493)
T 2uy1_A          249 SL----YYGLVMDEEAV---YGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIELGNEG--VGP  319 (493)
T ss_dssp             HH----HHHHHTTCTHH---HHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHTTSC--CCH
T ss_pred             HH----HHHhhcchhHH---HHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHhhCCC--CCh
Confidence            32    23333222222   33332210         001   12456777777777889999999999982222  344


Q ss_pred             HHHHHHHHHHHh-CCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 047221          437 MLYSLLASLHDK-NNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRY  497 (509)
Q Consensus       437 ~~~~~li~~~~~-~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m  497 (509)
                      ..|-..+..-.. .++.+.|.++|+...+.- .-+...+...++-..+.|+.+.|..+|++.
T Consensus       320 ~v~i~~A~lE~~~~~d~~~ar~ife~al~~~-~~~~~~~~~yid~e~~~~~~~~aR~l~er~  380 (493)
T 2uy1_A          320 HVFIYCAFIEYYATGSRATPYNIFSSGLLKH-PDSTLLKEEFFLFLLRIGDEENARALFKRL  380 (493)
T ss_dssp             HHHHHHHHHHHHHHCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            444422222222 336999999999998742 223445666777778899999999999886

>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=98.23  E-value=0.00058  Score=64.53  Aligned_cols=216  Identities=9%  Similarity=-0.000  Sum_probs=161.7

Q ss_pred             cCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhc-C-ChHHHH
Q 047221          279 LGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRC-DFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKN-G-QDADAC  351 (509)
Q Consensus       279 ~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~-g-~~~~a~  351 (509)
                      .+.-++|.++++++    +.+..+|+.--..+...| .+++++++++.+.... +-+..+|+.-...+.+. + ++++++
T Consensus        67 ~e~se~AL~lt~~~L~~nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~~~~EL  145 (349)
T 3q7a_A           67 EEKSERALELTEIIVRMNPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQDPVSEI  145 (349)
T ss_dssp             TCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSCCHHHH
T ss_pred             CCCCHHHHHHHHHHHHhCchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCChHHHH
Confidence            34556788888876    567888998888888888 5999999999999875 55677788777777766 7 889999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHHcCChH--------HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC-------
Q 047221          352 ELLEEMLGRNCHPDAITYEIFIVYSCRVGKFD--------VAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYR-------  416 (509)
Q Consensus       352 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~--------~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~-------  416 (509)
                      ++++.+.+.. +-|...|+--.-.+.+.|.++        ++++.++++.+.. .-|...|+.....+.+.++       
T Consensus       146 ~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~~~~~~~  223 (349)
T 3q7a_A          146 EYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGAETSSRS  223 (349)
T ss_dssp             HHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTCCCCHHH
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccccchHH
Confidence            9999999873 447777777666666656666        8999999999874 3478889888888888776       


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCh--------------------HHHHHHHHHHHHCC-----CCcCH
Q 047221          417 YEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNP--------------------VMAKNVLSEMMKNG-----LRPNV  471 (509)
Q Consensus       417 ~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~--------------------~~a~~~~~~m~~~g-----~~p~~  471 (509)
                      ++++++.+++..... .-|...|+.+-..+.+.|+.                    .+..+...++...+     -.+..
T Consensus       224 ~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~  302 (349)
T 3q7a_A          224 LQDELIYILKSIHLI-PHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVP  302 (349)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSCCH
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCCcH
Confidence            788999998887754 34778898877777777764                    22333333333221     13577


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 047221          472 SVYRRVLKHLHTSHQEHMAKCLSSRYS  498 (509)
Q Consensus       472 ~t~~~ll~~~~~~g~~~~a~~~~~~m~  498 (509)
                      .....+++.|...|+.++|.++++.+.
T Consensus       303 ~al~~l~d~~~~~~~~~~a~~~~~~l~  329 (349)
T 3q7a_A          303 LALEYLADSFIEQNRVDDAAKVFEKLS  329 (349)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            788889999999999999999999986

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.23  E-value=1.5e-05  Score=66.19  Aligned_cols=92  Identities=15%  Similarity=0.007  Sum_probs=47.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHh
Q 047221          268 GVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCK  343 (509)
Q Consensus       268 ~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~  343 (509)
                      .+..+...|.+.|++++|...|++.    +.+...|..+..+|.+.|++++|++.|++..+.. +-+...|..+..+|.+
T Consensus        38 ~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~~~~~  116 (151)
T 3gyz_A           38 DIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQCQLR  116 (151)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHH
Confidence            3445555555555555555555553    3345555555555555555555555555555442 2234445555555555


Q ss_pred             cCChHHHHHHHHHHHhC
Q 047221          344 NGQDADACELLEEMLGR  360 (509)
Q Consensus       344 ~g~~~~a~~~~~~m~~~  360 (509)
                      .|++++|...|+...+.
T Consensus       117 lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A          117 LKAPLKAKECFELVIQH  133 (151)
T ss_dssp             TTCHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            55555555555555443

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.22  E-value=4.4e-05  Score=61.18  Aligned_cols=97  Identities=9%  Similarity=-0.022  Sum_probs=55.4

Q ss_pred             HHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 047221          297 SYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYS  376 (509)
Q Consensus       297 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  376 (509)
                      ..|......|.+.|++++|++.|++..+.. +.+...|..+..+|.+.|++++|...|++..+.. +.+...|..+..+|
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~   91 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACL   91 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHH
Confidence            345555566666666666666666655543 3345555566666666666666666666555531 22345555555666


Q ss_pred             HHcCChHHHHHHHHHHHHC
Q 047221          377 CRVGKFDVAFNFFNQMVKR  395 (509)
Q Consensus       377 ~~~g~~~~a~~~~~~m~~~  395 (509)
                      ...|++++|.+.|++..+.
T Consensus        92 ~~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           92 VAMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHH
Confidence            6666666666666655543

>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=98.20  E-value=2.2e-05  Score=66.91  Aligned_cols=114  Identities=9%  Similarity=0.037  Sum_probs=73.7

Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHH-HHhcCCc--cHHHH
Q 047221          245 LTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKE-MCRRCDF--KGPRD  317 (509)
Q Consensus       245 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~-~~~~g~~--~~A~~  317 (509)
                      +++++|...++...+.. +.+...+..+..+|...|++++|...|++.    +.+...|..+... |...|++  ++|..
T Consensus        24 ~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~~~A~~  102 (177)
T 2e2e_A           24 QNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMTAQTRA  102 (177)
T ss_dssp             ---CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCCHHHHH
T ss_pred             cCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcchHHHHH
Confidence            34666666666655543 345566677777777777777777777664    4566666666666 6667776  77777


Q ss_pred             HHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 047221          318 LLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGR  360 (509)
Q Consensus       318 ~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~  360 (509)
                      .|++..+.. +-+...+..+...|...|++++|...|++..+.
T Consensus       103 ~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A          103 MIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            777776653 334556666667777777777777777776665

>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=98.19  E-value=3.2e-05  Score=73.80  Aligned_cols=117  Identities=11%  Similarity=-0.054  Sum_probs=61.2

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHc----CCC---------------HHHHHHHHHHHHhcCCccHHHHHHHHHHHcCC
Q 047221          267 SGVRALIEMFSVLGLYEMAKYVIKKT----ERK---------------VSYYNILIKEMCRRCDFKGPRDLLVEMRQVGC  327 (509)
Q Consensus       267 ~~~~~li~~~~~~g~~~~A~~~~~~m----~~~---------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  327 (509)
                      ..+..+...|.+.|++++|...|++.    +.+               ...|..+..+|.+.|++++|+..|++..+.. 
T Consensus       148 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-  226 (336)
T 1p5q_A          148 TIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-  226 (336)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-
Confidence            34555566666666666666666553    122               3455555555555555555555555555442 


Q ss_pred             CCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHH
Q 047221          328 EPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVA  385 (509)
Q Consensus       328 ~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a  385 (509)
                      +.+...|..+..+|...|++++|...|++..+.. +-+...+..+..++.+.|+.++|
T Consensus       227 p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a  283 (336)
T 1p5q_A          227 SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLAR  283 (336)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHH
Confidence            2344455555555555555555555555554431 22344445555555555555554

>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=98.18  E-value=2.1e-05  Score=67.09  Aligned_cols=120  Identities=7%  Similarity=0.022  Sum_probs=68.4

Q ss_pred             hcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHH-HHHcCCh--HH
Q 047221          308 RRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVY-SCRVGKF--DV  384 (509)
Q Consensus       308 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~-~~~~g~~--~~  384 (509)
                      ..|++++|+..+++..+.. +.+...|..+...|...|++++|...|++..+.. +.+...+..+..+ +...|++  ++
T Consensus        22 ~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~~   99 (177)
T 2e2e_A           22 SQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTAQ   99 (177)
T ss_dssp             -----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCHH
T ss_pred             hccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchHH
Confidence            3456666666666655543 3345566666666666666666666666665542 2244555555555 5566666  66


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 047221          385 AFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADK  430 (509)
Q Consensus       385 a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  430 (509)
                      |...++++.+.. +-+...+..+...|...|++++|...|++..+.
T Consensus       100 A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A          100 TRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            666666666542 223555666666666666666666666666554

>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=98.15  E-value=5.9e-05  Score=71.95  Aligned_cols=130  Identities=9%  Similarity=-0.118  Sum_probs=92.6

Q ss_pred             CHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCC----------------hHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 047221          295 KVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPI----------------TLTYNYVLGVLCKNGQDADACELLEEML  358 (509)
Q Consensus       295 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~----------------~~t~~~li~~~~~~g~~~~a~~~~~~m~  358 (509)
                      +...|..+...|.+.|++++|+..|++..+..  |+                ...|..+..+|.+.|++++|...+++..
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al  223 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSWL--EYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKAL  223 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT--TTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHh--hccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            35677888899999999999999999988763  33                3677777777777777777777777776


Q ss_pred             hCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHH-HHHHHHHH
Q 047221          359 GRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDA-YKYVVLSA  428 (509)
Q Consensus       359 ~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A-~~~~~~m~  428 (509)
                      +.. +.+...|..+..+|...|++++|...|++..+.. +-+...+..+..++.+.|+.++| ..+|+.|.
T Consensus       224 ~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          224 ELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             HHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            652 3356677777777777777777777777776652 23456677777777777777766 33454443

>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=98.12  E-value=8.4e-06  Score=71.18  Aligned_cols=148  Identities=9%  Similarity=-0.104  Sum_probs=69.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCC-CCC--------------hH
Q 047221          272 LIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGC-EPI--------------TL  332 (509)
Q Consensus       272 li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~--------------~~  332 (509)
                      .+.+....|+++.+.+.++.-    ......+..+...+.+.|++++|++.|++..+..- .|+              ..
T Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~   89 (198)
T 2fbn_A           10 HSSGRENLYFQGAKKSIYDYTDEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEIS   89 (198)
T ss_dssp             ------------CCCSGGGCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHH
T ss_pred             hhhhhhhhhhccccCchhhCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHH
Confidence            333444445555555555432    12344566666777777777777777777765321 110              14


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 047221          333 TYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYF  412 (509)
Q Consensus       333 t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  412 (509)
                      .|..+..+|.+.|++++|...++...+. .+.+...+..+..+|...|++++|...|++..+.. +-+...+..+..++.
T Consensus        90 ~~~~la~~~~~~~~~~~A~~~~~~al~~-~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~  167 (198)
T 2fbn_A           90 CNLNLATCYNKNKDYPKAIDHASKVLKI-DKNNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCVN  167 (198)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHh-CcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHH
Confidence            4555555555555555555555555543 12234455555555555555555555555554431 123444444444444


Q ss_pred             HcCCHHHHH
Q 047221          413 IFYRYEDAY  421 (509)
Q Consensus       413 ~~g~~~~A~  421 (509)
                      ..++.+++.
T Consensus       168 ~~~~~~~~~  176 (198)
T 2fbn_A          168 KLKEARKKD  176 (198)
T ss_dssp             HHHHHHC--
T ss_pred             HHHHHHHHH
Confidence            444444433

>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=98.10  E-value=0.00014  Score=56.50  Aligned_cols=94  Identities=11%  Similarity=-0.011  Sum_probs=40.8

Q ss_pred             HHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH
Q 047221          299 YNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCR  378 (509)
Q Consensus       299 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  378 (509)
                      |..+...+...|++++|.+.|++..... +.+...+..+...|...|++++|...+++..+.. +.+...+..+..++.+
T Consensus         7 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~   84 (118)
T 1elw_A            7 LKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEF   84 (118)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHH
Confidence            3334444444444444444444444332 2233344444444444444444444444444331 1133444444444444


Q ss_pred             cCChHHHHHHHHHHHH
Q 047221          379 VGKFDVAFNFFNQMVK  394 (509)
Q Consensus       379 ~g~~~~a~~~~~~m~~  394 (509)
                      .|++++|...+++..+
T Consensus        85 ~~~~~~A~~~~~~~~~  100 (118)
T 1elw_A           85 LNRFEEAKRTYEEGLK  100 (118)
T ss_dssp             TTCHHHHHHHHHHHHT
T ss_pred             HhhHHHHHHHHHHHHH
Confidence            5555555555544443

>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=98.07  E-value=1.6e-05  Score=65.87  Aligned_cols=23  Identities=9%  Similarity=-0.097  Sum_probs=9.0

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHH
Q 047221          404 HAAFIKGYFIFYRYEDAYKYVVL  426 (509)
Q Consensus       404 ~~~li~~~~~~g~~~~A~~~~~~  426 (509)
                      +..+..+|...|++++|...|++
T Consensus        92 ~~~lg~~~~~~g~~~~A~~~~~~  114 (148)
T 2vgx_A           92 PFHAAECLLQXGELAEAESGLFL  114 (148)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHH
Confidence            33333333344444444444333

>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=98.07  E-value=0.0001  Score=58.75  Aligned_cols=89  Identities=10%  Similarity=-0.043  Sum_probs=39.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhc
Q 047221          269 VRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKN  344 (509)
Q Consensus       269 ~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~  344 (509)
                      +..+...+.+.|++++|...|++.    +.+...|..+..+|.+.|++++|+..|++..+.. +-+...|..+..+|...
T Consensus         7 ~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~   85 (126)
T 3upv_A            7 ARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAV   85 (126)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHH
Confidence            334444444444554444444442    2334444444444444444444444444444332 22233444444444444


Q ss_pred             CChHHHHHHHHHHH
Q 047221          345 GQDADACELLEEML  358 (509)
Q Consensus       345 g~~~~a~~~~~~m~  358 (509)
                      |++++|...|++..
T Consensus        86 ~~~~~A~~~~~~al   99 (126)
T 3upv_A           86 KEYASALETLDAAR   99 (126)
T ss_dssp             TCHHHHHHHHHHHH
T ss_pred             hCHHHHHHHHHHHH
Confidence            44444444444443

>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=98.06  E-value=0.00016  Score=56.14  Aligned_cols=95  Identities=12%  Similarity=0.012  Sum_probs=46.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 047221          333 TYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYF  412 (509)
Q Consensus       333 t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  412 (509)
                      .+..+...+...|++++|.+.|+...+.. +.+...+..+...+.+.|++++|...+++..+.. +.+...+..+..+|.
T Consensus         6 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~   83 (118)
T 1elw_A            6 ELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALE   83 (118)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHHHH
Confidence            34444445555555555555555554431 2234444445555555555555555555554432 123444555555555


Q ss_pred             HcCCHHHHHHHHHHHHh
Q 047221          413 IFYRYEDAYKYVVLSAD  429 (509)
Q Consensus       413 ~~g~~~~A~~~~~~m~~  429 (509)
                      ..|++++|.+.+++..+
T Consensus        84 ~~~~~~~A~~~~~~~~~  100 (118)
T 1elw_A           84 FLNRFEEAKRTYEEGLK  100 (118)
T ss_dssp             HTTCHHHHHHHHHHHHT
T ss_pred             HHhhHHHHHHHHHHHHH
Confidence            55555555555555444

>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=98.06  E-value=0.00016  Score=57.52  Aligned_cols=95  Identities=11%  Similarity=-0.014  Sum_probs=59.6

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 047221          368 TYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHD  447 (509)
Q Consensus       368 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~  447 (509)
                      .|..+-..+.+.|++++|...|++..+.. +.+...|..+..+|.+.|++++|...|++..+.. ..+...|..+..++.
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHH
Confidence            44455556666666666666666666542 2345666666666667777777777766666543 224555666666777


Q ss_pred             hCCChHHHHHHHHHHHH
Q 047221          448 KNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       448 ~~g~~~~a~~~~~~m~~  464 (509)
                      ..|++++|++.|++..+
T Consensus        84 ~~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           84 AVKEYASALETLDAART  100 (126)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHH
Confidence            77777777777776655

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.06  E-value=0.0002  Score=70.56  Aligned_cols=192  Identities=9%  Similarity=-0.029  Sum_probs=116.3

Q ss_pred             HHHHHhcCCHHHHHHHHHHc---CCC------------------HHHHHHHHHHHHhcCCccHHHHHHHHHHHc-CCCCC
Q 047221          273 IEMFSVLGLYEMAKYVIKKT---ERK------------------VSYYNILIKEMCRRCDFKGPRDLLVEMRQV-GCEPI  330 (509)
Q Consensus       273 i~~~~~~g~~~~A~~~~~~m---~~~------------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~  330 (509)
                      ...+.+.|++++|.+.|.++   .++                  ..++..+...|.+.|++++|.+.+.++... +-.++
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~   90 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAK   90 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccc
Confidence            34567778888888888775   111                  124667777888888888888888766542 11122


Q ss_pred             hH----HHHHHHHHHHhcCChHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHHcCChHHHHHHHHHHHHC--CC--
Q 047221          331 TL----TYNYVLGVLCKNGQDADACELLEEMLGR----NCHPD-AITYEIFIVYSCRVGKFDVAFNFFNQMVKR--GL--  397 (509)
Q Consensus       331 ~~----t~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--g~--  397 (509)
                      ..    +.+.+-..+...|+.++|.+++......    +..+. ..++..+...|...|++++|..+++++...  +.  
T Consensus        91 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~  170 (434)
T 4b4t_Q           91 SKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDD  170 (434)
T ss_dssp             HHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSC
T ss_pred             hHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhccc
Confidence            21    1222223334457777777777765432    22333 345666777777778888888777776543  11  


Q ss_pred             CC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CC-CC-C--HHHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 047221          398 QP-RLATHAAFIKGYFIFYRYEDAYKYVVLSADK--YK-SS-S--NMLYSLLASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       398 ~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--~~-~p-~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      .+ ...++..++..|...|++++|..++++....  .+ .| .  ...+..+...+...|++++|...|.+..+
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            11 1346777777777788888888777765532  11 11 1  23455566666677777777777776653

>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=98.05  E-value=6.1e-05  Score=62.29  Aligned_cols=91  Identities=13%  Similarity=-0.094  Sum_probs=44.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHh
Q 047221          268 GVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCK  343 (509)
Q Consensus       268 ~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~  343 (509)
                      .+..+...+.+.|++++|...|++.    +.+...|..+..+|...|++++|++.|++..... +-+...+..+..+|..
T Consensus        23 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~  101 (148)
T 2vgx_A           23 QLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAECLLQ  101 (148)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHH
Confidence            3444445555555555555555443    3344455555555555555555555555544432 2233444444555555


Q ss_pred             cCChHHHHHHHHHHHh
Q 047221          344 NGQDADACELLEEMLG  359 (509)
Q Consensus       344 ~g~~~~a~~~~~~m~~  359 (509)
                      .|++++|.+.|+...+
T Consensus       102 ~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A          102 XGELAEAESGLFLAQE  117 (148)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            5555555555554443

>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=98.04  E-value=0.00011  Score=58.82  Aligned_cols=104  Identities=8%  Similarity=0.067  Sum_probs=62.5

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC--CCCC----HHHHHH
Q 047221          368 TYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKY--KSSS----NMLYSL  441 (509)
Q Consensus       368 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~--~~p~----~~~~~~  441 (509)
                      .+..+-..+.+.|++++|+..|++.++.. +-+...|+.+..+|.+.|++++|++.+++..+..  ..++    ..+|..
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            34455566666666666666666666542 2245566666666677777777766666655421  1111    135666


Q ss_pred             HHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHH
Q 047221          442 LASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVY  474 (509)
Q Consensus       442 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~  474 (509)
                      +...+...|++++|++.|++.+.  ..||..+.
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~--~~~~~~~~  119 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLS--EFRDPELV  119 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH--HSCCHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHh--hCcCHHHH
Confidence            66777777777777777777665  34555443

>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=98.03  E-value=0.0013  Score=61.69  Aligned_cols=133  Identities=8%  Similarity=0.045  Sum_probs=69.4

Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC----------HHHHHHHHHHc----CCCHHHHHHHHHHHHh
Q 047221          243 KALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGL----------YEMAKYVIKKT----ERKVSYYNILIKEMCR  308 (509)
Q Consensus       243 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~----------~~~A~~~~~~m----~~~~~~~~~li~~~~~  308 (509)
                      .+...++|+.+.+.+...+ +-+..+|+.--..+...|.          ++++..+++.+    +.+..+|+.-...+.+
T Consensus        42 ~~e~s~eaL~~t~~~L~~n-P~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PKny~aW~hR~wlL~~  120 (331)
T 3dss_A           42 AGELDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSR  120 (331)
T ss_dssp             TTCCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             cCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHhc
Confidence            4444456777777777644 2233344432222222221          44555555554    4556666665555555


Q ss_pred             cCC--ccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCC-hHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH
Q 047221          309 RCD--FKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQ-DADACELLEEMLGRNCHPDAITYEIFIVYSCR  378 (509)
Q Consensus       309 ~g~--~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~-~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  378 (509)
                      .++  +++++++++.+.+.. +-|-..|+.-.-.+...|. ++++++.++.+.+.. +-|...|+-....+.+
T Consensus       121 l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~-p~N~SAW~~R~~ll~~  191 (331)
T 3dss_A          121 LPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQ  191 (331)
T ss_dssp             CSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHH
T ss_pred             cCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHH
Confidence            553  566666666666554 4455566555555555565 356666666666542 2345555554444443

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.01  E-value=5.5e-05  Score=58.30  Aligned_cols=93  Identities=9%  Similarity=-0.109  Sum_probs=39.5

Q ss_pred             HHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHH
Q 047221          300 NILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHP--DAITYEIFIVYSC  377 (509)
Q Consensus       300 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p--~~~~~~~li~~~~  377 (509)
                      ..+...+.+.|++++|...|++..+.. +.+...|..+...+...|++++|.+.+++..+.. +.  +...+..+...+.
T Consensus        10 ~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~~~~~   87 (112)
T 2kck_A           10 YLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKADALR   87 (112)
T ss_dssp             GGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHHHHHH
Confidence            333344444444444444444443332 2233344444444444444444444444444431 11  2344444444444


Q ss_pred             Hc-CChHHHHHHHHHHHH
Q 047221          378 RV-GKFDVAFNFFNQMVK  394 (509)
Q Consensus       378 ~~-g~~~~a~~~~~~m~~  394 (509)
                      +. |++++|.+.+++..+
T Consensus        88 ~~~~~~~~A~~~~~~~~~  105 (112)
T 2kck_A           88 YIEGKEVEAEIAEARAKL  105 (112)
T ss_dssp             TCSSCSHHHHHHHHHHGG
T ss_pred             HHhCCHHHHHHHHHHHhh
Confidence            44 444444444444443

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.01  E-value=0.00012  Score=61.51  Aligned_cols=94  Identities=7%  Similarity=-0.077  Sum_probs=60.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHH
Q 047221          266 VSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVL  341 (509)
Q Consensus       266 ~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~  341 (509)
                      ...+..+...|.+.|++++|...|++.    +.+...|..+..+|.+.|++++|+..|++..+.. +-+...|..+..+|
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~   89 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSIAPANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGLAR   89 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            345566666666777777777766664    3456666666677777777777777776666553 33456666666666


Q ss_pred             HhcCChHHHHHHHHHHHhC
Q 047221          342 CKNGQDADACELLEEMLGR  360 (509)
Q Consensus       342 ~~~g~~~~a~~~~~~m~~~  360 (509)
                      ...|++++|.+.|++..+.
T Consensus        90 ~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           90 FDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHccCHHHHHHHHHHHHHh
Confidence            6777777777766666554

>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=98.01  E-value=6.2e-05  Score=59.88  Aligned_cols=95  Identities=16%  Similarity=0.162  Sum_probs=39.7

Q ss_pred             HHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCC--CCC----HHHHHHH
Q 047221          299 YNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNC--HPD----AITYEIF  372 (509)
Q Consensus       299 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~--~p~----~~~~~~l  372 (509)
                      |..+...+...|++++|...|++..+.. +.+...+..+...|...|++++|...+++..+...  .++    ..++..+
T Consensus         7 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~l   85 (131)
T 1elr_A            7 EKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHH
Confidence            3333444444444444444444443332 22333444444444444444444444444433210  111    3344444


Q ss_pred             HHHHHHcCChHHHHHHHHHHHH
Q 047221          373 IVYSCRVGKFDVAFNFFNQMVK  394 (509)
Q Consensus       373 i~~~~~~g~~~~a~~~~~~m~~  394 (509)
                      ..++.+.|++++|...|++..+
T Consensus        86 a~~~~~~~~~~~A~~~~~~~~~  107 (131)
T 1elr_A           86 GNSYFKEEKYKDAIHFYNKSLA  107 (131)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHH
Confidence            4444455555555555554444

>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=98.01  E-value=8.8e-05  Score=59.44  Aligned_cols=92  Identities=13%  Similarity=0.067  Sum_probs=49.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcC--CCCC----hHHHHHH
Q 047221          268 GVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVG--CEPI----TLTYNYV  337 (509)
Q Consensus       268 ~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g--~~p~----~~t~~~l  337 (509)
                      .+..|...|.+.|++++|+..|++.    +.+...|+.+..+|.+.|++++|++.|++..+..  ..++    ..+|..+
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~l   89 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSRA   89 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHHH
Confidence            3455666666666666666666553    3445566666666666666666666666554321  0111    1234444


Q ss_pred             HHHHHhcCChHHHHHHHHHHHh
Q 047221          338 LGVLCKNGQDADACELLEEMLG  359 (509)
Q Consensus       338 i~~~~~~g~~~~a~~~~~~m~~  359 (509)
                      ..++...|++++|.+.|++..+
T Consensus        90 g~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           90 GNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHh
Confidence            4555555555555555555443

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.00  E-value=8.9e-05  Score=60.65  Aligned_cols=87  Identities=9%  Similarity=-0.172  Sum_probs=38.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCC
Q 047221          271 ALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQ  346 (509)
Q Consensus       271 ~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~  346 (509)
                      .+...+.+.|++++|...|++.    +.+...|..+..+|.+.|++++|+..|++..... +-+...+..+..+|...|+
T Consensus        23 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~  101 (142)
T 2xcb_A           23 ALGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECHLQLGD  101 (142)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCC
Confidence            3444444444444444444442    2334444444444444444444444444444432 2233334444444444444


Q ss_pred             hHHHHHHHHHHH
Q 047221          347 DADACELLEEML  358 (509)
Q Consensus       347 ~~~a~~~~~~m~  358 (509)
                      +++|.+.|+...
T Consensus       102 ~~~A~~~~~~al  113 (142)
T 2xcb_A          102 LDGAESGFYSAR  113 (142)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            444444444443

>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=98.00  E-value=0.00013  Score=58.80  Aligned_cols=96  Identities=7%  Similarity=-0.065  Sum_probs=45.5

Q ss_pred             HHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 047221          296 VSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVY  375 (509)
Q Consensus       296 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  375 (509)
                      ...|..+...+...|++++|+..|++..... +.+...|..+..+|...|++++|...++...+.. +.+...+..+..+
T Consensus         9 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~   86 (137)
T 3q49_B            9 AQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQC   86 (137)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHHHH
Confidence            3444444444444555555555554444332 2234444445555555555555555555444431 1234444555555


Q ss_pred             HHHcCChHHHHHHHHHHH
Q 047221          376 SCRVGKFDVAFNFFNQMV  393 (509)
Q Consensus       376 ~~~~g~~~~a~~~~~~m~  393 (509)
                      |...|++++|...|++..
T Consensus        87 ~~~~~~~~~A~~~~~~a~  104 (137)
T 3q49_B           87 QLEMESYDEAIANLQRAY  104 (137)
T ss_dssp             HHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHH
Confidence            555555555555555444

>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=98.00  E-value=7.2e-05  Score=59.47  Aligned_cols=107  Identities=9%  Similarity=0.080  Sum_probs=63.1

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCC--CCC----HHHHHH
Q 047221          368 TYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYK--SSS----NMLYSL  441 (509)
Q Consensus       368 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~--~p~----~~~~~~  441 (509)
                      .+..+...+...|++++|...|++..+.. +.+...+..+...|...|++++|...+++..+...  .++    ..+|..
T Consensus         6 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (131)
T 1elr_A            6 KEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHH
Confidence            44555556666666666666666665542 23455666666666666666666666666554321  112    455666


Q ss_pred             HHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHH
Q 047221          442 LASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRV  477 (509)
Q Consensus       442 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l  477 (509)
                      +...|...|++++|.+.|++..+.  .|+......+
T Consensus        85 la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l  118 (131)
T 1elr_A           85 IGNSYFKEEKYKDAIHFYNKSLAE--HRTPDVLKKC  118 (131)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHh--CCCHHHHHHH
Confidence            677777777777777777777663  3454444433

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.00  E-value=6e-05  Score=58.11  Aligned_cols=96  Identities=9%  Similarity=0.036  Sum_probs=51.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC--CHHHHHHHHHH
Q 047221          333 TYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQP--RLATHAAFIKG  410 (509)
Q Consensus       333 t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p--~~~~~~~li~~  410 (509)
                      .+..+...+...|++++|...|++..+.. +.+...+..+...+.+.|++++|...+++..+.. +.  +...+..+..+
T Consensus         8 ~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~~~   85 (112)
T 2kck_A            8 EYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKADA   85 (112)
T ss_dssp             GGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHHHH
Confidence            34445555555556666655555555432 2234455555555555566666666555555442 12  34555555555


Q ss_pred             HHHc-CCHHHHHHHHHHHHhC
Q 047221          411 YFIF-YRYEDAYKYVVLSADK  430 (509)
Q Consensus       411 ~~~~-g~~~~A~~~~~~m~~~  430 (509)
                      |.+. |++++|.+.+++....
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHHGGG
T ss_pred             HHHHhCCHHHHHHHHHHHhhc
Confidence            5555 5666666555555544

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=97.97  E-value=8.8e-05  Score=64.56  Aligned_cols=125  Identities=11%  Similarity=-0.047  Sum_probs=75.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHc----CCC----------------HHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCC
Q 047221          269 VRALIEMFSVLGLYEMAKYVIKKT----ERK----------------VSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCE  328 (509)
Q Consensus       269 ~~~li~~~~~~g~~~~A~~~~~~m----~~~----------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  328 (509)
                      +..+...|.+.|++++|...|++.    +.+                ...|..+..+|.+.|++++|+..+++..+.. +
T Consensus        41 ~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p  119 (198)
T 2fbn_A           41 IKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-K  119 (198)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-T
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-c
Confidence            444555555666666666666553    112                2567777777778888888888887777653 4


Q ss_pred             CChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHH-HHHHHHHHC
Q 047221          329 PITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAF-NFFNQMVKR  395 (509)
Q Consensus       329 p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~-~~~~~m~~~  395 (509)
                      .+...+..+..+|...|++++|.+.|++..+.. +-+...+..+..++...++.+++. ..+..|...
T Consensus       120 ~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~~  186 (198)
T 2fbn_A          120 NNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCVNKLKEARKKDKLTFGGMFDK  186 (198)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHC------------
T ss_pred             ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            456677777778888888888888888776652 234566666666666666666655 444544433

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.96  E-value=0.00038  Score=68.50  Aligned_cols=187  Identities=9%  Similarity=-0.042  Sum_probs=137.0

Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCC----------------HHHHHHHHHHHHhcCCHHHHHHHHHHcC------CCH----
Q 047221          243 KALTKKGIWRVVEVLNQVGGSCL----------------VSGVRALIEMFSVLGLYEMAKYVIKKTE------RKV----  296 (509)
Q Consensus       243 ~~~~~~~a~~~~~~m~~~g~~~~----------------~~~~~~li~~~~~~g~~~~A~~~~~~m~------~~~----  296 (509)
                      ..|++++|.+.+..+.+......                ...+..|...|.+.|++++|.+.+.+.-      .+.    
T Consensus        16 ~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~   95 (434)
T 4b4t_Q           16 NEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVK   95 (434)
T ss_dssp             HHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHH
Confidence            45569999999999987432211                1246789999999999999999998861      111    


Q ss_pred             HHHHHHHHHHHhcCCccHHHHHHHHHHH----cCCCCC-hHHHHHHHHHHHhcCChHHHHHHHHHHHhC----CCCCC-H
Q 047221          297 SYYNILIKEMCRRCDFKGPRDLLVEMRQ----VGCEPI-TLTYNYVLGVLCKNGQDADACELLEEMLGR----NCHPD-A  366 (509)
Q Consensus       297 ~~~~~li~~~~~~g~~~~A~~~~~~m~~----~g~~p~-~~t~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~-~  366 (509)
                      .+.+.+-..+...|+.++|.+++.+...    .+..+. ..++..+...|...|++++|..++.+....    +-.+. .
T Consensus        96 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~  175 (434)
T 4b4t_Q           96 VLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLV  175 (434)
T ss_dssp             HHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHH
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHH
Confidence            2334444455567889999999987763    233333 457788999999999999999999987653    22222 4


Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHC----CCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 047221          367 ITYEIFIVYSCRVGKFDVAFNFFNQMVKR----GLQPR--LATHAAFIKGYFIFYRYEDAYKYVVLSAD  429 (509)
Q Consensus       367 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~  429 (509)
                      .+|..++..|...|++++|..++++....    +..+.  ...+..+...+...|++++|...|.+..+
T Consensus       176 ~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          176 DVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            57888999999999999999999987643    21111  34567777788889999999999877654

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.95  E-value=7e-05  Score=62.01  Aligned_cols=131  Identities=9%  Similarity=-0.057  Sum_probs=66.7

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHhC----CCCC-CHHH
Q 047221          369 YEIFIVYSCRVGKFDVAFNFFNQMVKRGL-QPR----LATHAAFIKGYFIFYRYEDAYKYVVLSADK----YKSS-SNML  438 (509)
Q Consensus       369 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~p-~~~~  438 (509)
                      +..+...|...|++++|...+++..+..- ..+    ..++..+...|...|++++|...+++..+.    +..+ ....
T Consensus        12 ~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~   91 (164)
T 3ro3_A           12 FGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQS   91 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHH
Confidence            33444444445555555555544432200 001    124455555555566666666655554432    1000 1234


Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHC----CCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 047221          439 YSLLASLHDKNNNPVMAKNVLSEMMKN----GLRP-NVSVYRRVLKHLHTSHQEHMAKCLSSRYSS  499 (509)
Q Consensus       439 ~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~  499 (509)
                      +..+...+...|++++|.+.+++..+.    +..+ ....+..+...+...|++++|.+.+++..+
T Consensus        92 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           92 CYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            555666666666666666666665432    1111 123556666677777777777777776554

>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=97.95  E-value=0.00022  Score=57.51  Aligned_cols=98  Identities=10%  Similarity=0.022  Sum_probs=61.6

Q ss_pred             ChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 047221          330 ITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIK  409 (509)
Q Consensus       330 ~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  409 (509)
                      +...|..+...+...|++++|...|....+.. +.+...|..+..++...|++++|...+++..+.. +.+...+..+..
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~   85 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   85 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHHH
Confidence            45566666666666777777777666665542 2245566666666666677777777666666543 224556666666


Q ss_pred             HHHHcCCHHHHHHHHHHHHh
Q 047221          410 GYFIFYRYEDAYKYVVLSAD  429 (509)
Q Consensus       410 ~~~~~g~~~~A~~~~~~m~~  429 (509)
                      +|...|++++|...|++..+
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHH
Confidence            66667777777666666554

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=97.93  E-value=0.00025  Score=59.47  Aligned_cols=98  Identities=9%  Similarity=0.041  Sum_probs=74.1

Q ss_pred             HHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 047221          296 VSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVY  375 (509)
Q Consensus       296 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  375 (509)
                      ...|..+...+.+.|++++|++.|++..+.. +-+...|..+..+|.+.|++++|...|++..+.. +-+...|..+..+
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   88 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGLA   88 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            4567777778888888888888888877654 3466777788888888888888888888877753 3356777777788


Q ss_pred             HHHcCChHHHHHHHHHHHHC
Q 047221          376 SCRVGKFDVAFNFFNQMVKR  395 (509)
Q Consensus       376 ~~~~g~~~~a~~~~~~m~~~  395 (509)
                      |.+.|++++|...|++..+.
T Consensus        89 ~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           89 RFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHh
Confidence            88888888888888877654

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.91  E-value=6.6e-05  Score=62.17  Aligned_cols=60  Identities=12%  Similarity=0.056  Sum_probs=25.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHH
Q 047221          333 TYNYVLGVLCKNGQDADACELLEEMLGR----NCHP-DAITYEIFIVYSCRVGKFDVAFNFFNQM  392 (509)
Q Consensus       333 t~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m  392 (509)
                      ++..+...|...|++++|.+.+++..+.    +..+ ....+..+...+...|++++|...+++.
T Consensus        51 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a  115 (164)
T 3ro3_A           51 AYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKH  115 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            3444444455555555555555443321    0000 0223344444444555555555555443

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=97.91  E-value=0.00015  Score=59.24  Aligned_cols=90  Identities=10%  Similarity=-0.043  Sum_probs=40.2

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC
Q 047221          337 VLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYR  416 (509)
Q Consensus       337 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  416 (509)
                      +...+.+.|++++|...|+...+.. +.+...|..+..+|.+.|++++|...|++..+.. +.+...+..+..+|...|+
T Consensus        24 ~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~  101 (142)
T 2xcb_A           24 LGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECHLQLGD  101 (142)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCC
Confidence            3344444444444444444444331 1233444444444444455555555554444432 1233344444444555555


Q ss_pred             HHHHHHHHHHHH
Q 047221          417 YEDAYKYVVLSA  428 (509)
Q Consensus       417 ~~~A~~~~~~m~  428 (509)
                      +++|...|+...
T Consensus       102 ~~~A~~~~~~al  113 (142)
T 2xcb_A          102 LDGAESGFYSAR  113 (142)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            555555554443

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.91  E-value=0.00035  Score=56.87  Aligned_cols=94  Identities=11%  Similarity=0.012  Sum_probs=37.7

Q ss_pred             HHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCC----hHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHH
Q 047221          297 SYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPI----TLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIF  372 (509)
Q Consensus       297 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~----~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  372 (509)
                      ..|..+...+.+.|++++|++.|++..+.  .|+    ...|..+..+|...|++++|...+++..+.. +.+...+..+
T Consensus        29 ~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~  105 (148)
T 2dba_A           29 EQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALYRR  105 (148)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHHHH
Confidence            33444444444444444444444444432  222    2333344444444444444444444433321 1123333334


Q ss_pred             HHHHHHcCChHHHHHHHHHHH
Q 047221          373 IVYSCRVGKFDVAFNFFNQMV  393 (509)
Q Consensus       373 i~~~~~~g~~~~a~~~~~~m~  393 (509)
                      ..+|...|++++|...|++..
T Consensus       106 a~~~~~~~~~~~A~~~~~~al  126 (148)
T 2dba_A          106 SQALEKLGRLDQAVLDLQRCV  126 (148)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHH
Confidence            444444444444444444443

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.87  E-value=0.00055  Score=55.67  Aligned_cols=96  Identities=10%  Similarity=-0.040  Sum_probs=47.5

Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 047221          366 AITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPR----LATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSL  441 (509)
Q Consensus       366 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~  441 (509)
                      ...+..+...+.+.|++++|...|++..+.  .|+    ...+..+..+|...|++++|...+++..+.. ..+...|..
T Consensus        28 ~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~  104 (148)
T 2dba_A           28 VEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALYR  104 (148)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHHH
Confidence            344444444455555555555555554433  233    3444455555555555555555555544432 113444455


Q ss_pred             HHHHHHhCCChHHHHHHHHHHHH
Q 047221          442 LASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       442 li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      +...|...|++++|.+.|++..+
T Consensus       105 ~a~~~~~~~~~~~A~~~~~~al~  127 (148)
T 2dba_A          105 RSQALEKLGRLDQAVLDLQRCVS  127 (148)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH
Confidence            55555555555555555555544

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=97.83  E-value=0.00015  Score=57.45  Aligned_cols=88  Identities=9%  Similarity=-0.147  Sum_probs=44.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCC
Q 047221          271 ALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQ  346 (509)
Q Consensus       271 ~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~  346 (509)
                      .+...+.+.|++++|...|++.    +.+...|..+..++...|++++|+..|++..+.. +-+...+..+..+|.+.|+
T Consensus        22 ~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~~~g~  100 (121)
T 1hxi_A           22 EEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHN  100 (121)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCC
Confidence            3444455555555555555543    3345555555555555555555555555555432 2234444555555555555


Q ss_pred             hHHHHHHHHHHHh
Q 047221          347 DADACELLEEMLG  359 (509)
Q Consensus       347 ~~~a~~~~~~m~~  359 (509)
                      +++|...+++..+
T Consensus       101 ~~~A~~~~~~al~  113 (121)
T 1hxi_A          101 ANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHH
Confidence            5555555555443

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=97.77  E-value=0.00028  Score=55.87  Aligned_cols=88  Identities=11%  Similarity=-0.034  Sum_probs=38.8

Q ss_pred             HHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChH
Q 047221          374 VYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPV  453 (509)
Q Consensus       374 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  453 (509)
                      ..+.+.|++++|...|++..+.. +-+...|..+..++...|++++|...|++..+... -+...+..+...|...|+++
T Consensus        25 ~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~~~~~la~~~~~~g~~~  102 (121)
T 1hxi_A           25 LSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDP-KDIAVHAALAVSHTNEHNAN  102 (121)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHH
Confidence            34444455555555554444431 12344444444444444444444444444443321 12333444444444444444


Q ss_pred             HHHHHHHHHH
Q 047221          454 MAKNVLSEMM  463 (509)
Q Consensus       454 ~a~~~~~~m~  463 (509)
                      +|++.+++..
T Consensus       103 ~A~~~~~~al  112 (121)
T 1hxi_A          103 AALASLRAWL  112 (121)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            4444444443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.75  E-value=0.00045  Score=54.86  Aligned_cols=99  Identities=12%  Similarity=0.070  Sum_probs=75.7

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHCCCCCCH---HHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHH
Q 047221          371 IFIVYSCRVGKFDVAFNFFNQMVKRGLQPRL---ATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSS--NMLYSLLASL  445 (509)
Q Consensus       371 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~--~~~~~~li~~  445 (509)
                      .+...+.+.|++++|...|+++.+..- .+.   ..+..+..+|.+.|++++|...|++..+......  ...+..+...
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~   85 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELYP-NGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCS-SSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHCC-CCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHH
Confidence            455677788999999999999887532 122   4777788889999999999999998887642211  5667778888


Q ss_pred             HHhCCChHHHHHHHHHHHHCCCCcCHH
Q 047221          446 HDKNNNPVMAKNVLSEMMKNGLRPNVS  472 (509)
Q Consensus       446 ~~~~g~~~~a~~~~~~m~~~g~~p~~~  472 (509)
                      +...|++++|.+.|+++.+.  .|+..
T Consensus        86 ~~~~g~~~~A~~~~~~~~~~--~p~~~  110 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVATQ--YPGSD  110 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--STTSH
T ss_pred             HHHcCCHHHHHHHHHHHHHH--CCCCh
Confidence            99999999999999998874  35543

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.73  E-value=0.00015  Score=72.48  Aligned_cols=124  Identities=8%  Similarity=0.050  Sum_probs=69.7

Q ss_pred             HHHcCChHHHHHHHHHHHHC---CCCC----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC-----CC-CC-CHHHHHH
Q 047221          376 SCRVGKFDVAFNFFNQMVKR---GLQP----RLATHAAFIKGYFIFYRYEDAYKYVVLSADK-----YK-SS-SNMLYSL  441 (509)
Q Consensus       376 ~~~~g~~~~a~~~~~~m~~~---g~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----~~-~p-~~~~~~~  441 (509)
                      +...|++++|+.++++..+.   -+.+    ...+++.|..+|...|++++|+.++++..+.     |. .| ...+++.
T Consensus       319 ~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~n  398 (490)
T 3n71_A          319 ARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMR  398 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            34556666666666655432   1111    2345666666777777777776666654431     11 12 2345666


Q ss_pred             HHHHHHhCCChHHHHHHHHHHHH-----CCC-CcCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 047221          442 LASLHDKNNNPVMAKNVLSEMMK-----NGL-RPNV-SVYRRVLKHLHTSHQEHMAKCLSSRYSS  499 (509)
Q Consensus       442 li~~~~~~g~~~~a~~~~~~m~~-----~g~-~p~~-~t~~~ll~~~~~~g~~~~a~~~~~~m~~  499 (509)
                      |...|...|++++|+.++++..+     .|- .|+. .+...+-.++...|++++|+.++.++++
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            77777777777777777666543     121 1222 2344444555666777777777777764

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.72  E-value=0.0003  Score=70.25  Aligned_cols=121  Identities=8%  Similarity=0.004  Sum_probs=81.0

Q ss_pred             HHHHhcCCHHHHHHHHHHc--------CCC----HHHHHHHHHHHHhcCCccHHHHHHHHHHHc---CCC---CC-hHHH
Q 047221          274 EMFSVLGLYEMAKYVIKKT--------ERK----VSYYNILIKEMCRRCDFKGPRDLLVEMRQV---GCE---PI-TLTY  334 (509)
Q Consensus       274 ~~~~~~g~~~~A~~~~~~m--------~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~---g~~---p~-~~t~  334 (509)
                      ..+...|++++|+.++++.        .++    ..+++.|...|...|++++|+.++++..+.   -+.   |+ ..++
T Consensus       317 ~~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l  396 (490)
T 3n71_A          317 DKARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAV  396 (490)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHH
Confidence            3456778999998888764        222    567888999999999999999988876532   112   22 4567


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhC-----CC-CCC-HHHHHHHHHHHHHcCChHHHHHHHHHHHH
Q 047221          335 NYVLGVLCKNGQDADACELLEEMLGR-----NC-HPD-AITYEIFIVYSCRVGKFDVAFNFFNQMVK  394 (509)
Q Consensus       335 ~~li~~~~~~g~~~~a~~~~~~m~~~-----g~-~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~  394 (509)
                      +.|...|...|++++|+.++++..+-     |- .|+ ..+.+.+-.++...+.+++|+.+|+.+.+
T Consensus       397 ~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          397 MRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            77888888888888888777765432     21 122 23444555666666777777777777654

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=97.71  E-value=0.00045  Score=68.85  Aligned_cols=117  Identities=9%  Similarity=-0.057  Sum_probs=57.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHc----CCC---------------HHHHHHHHHHHHhcCCccHHHHHHHHHHHcCC
Q 047221          267 SGVRALIEMFSVLGLYEMAKYVIKKT----ERK---------------VSYYNILIKEMCRRCDFKGPRDLLVEMRQVGC  327 (509)
Q Consensus       267 ~~~~~li~~~~~~g~~~~A~~~~~~m----~~~---------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  327 (509)
                      ..+..+...|.+.|++++|...|++.    +.+               ...|..+..+|.+.|++++|+..|++..+.. 
T Consensus       269 ~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-  347 (457)
T 1kt0_A          269 AIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-  347 (457)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-
Confidence            34556666666667777776666653    222               3445555555555555555555555554432 


Q ss_pred             CCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHH
Q 047221          328 EPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVA  385 (509)
Q Consensus       328 ~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a  385 (509)
                      +.+...|..+..+|...|++++|...|++..+.. +-+...+..+..++.+.++.+++
T Consensus       348 p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a  404 (457)
T 1kt0_A          348 SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQKKAKEHNER  404 (457)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHH
Confidence            2234444555555555555555555555544431 11223344444444444444443

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=97.71  E-value=0.023  Score=53.22  Aligned_cols=95  Identities=9%  Similarity=-0.058  Sum_probs=54.7

Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC--CHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCC-ccHHHHHH
Q 047221          247 KKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLG--LYEMAKYVIKKT----ERKVSYYNILIKEMCRRCD-FKGPRDLL  319 (509)
Q Consensus       247 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g--~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~-~~~A~~~~  319 (509)
                      ++++..+++.+.... +-+..+|+.-...+.+.|  .++++..+++++    +.|-.+|+.-.-.+...|. ++++++.+
T Consensus        90 l~~EL~~~~~~L~~~-PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~~~eel~~~  168 (331)
T 3dss_A           90 VKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFT  168 (331)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcCHHHHHHHH
Confidence            355666666665543 334555655555555555  366666666665    4566666666666666666 36666666


Q ss_pred             HHHHHcCCCCChHHHHHHHHHHHh
Q 047221          320 VEMRQVGCEPITLTYNYVLGVLCK  343 (509)
Q Consensus       320 ~~m~~~g~~p~~~t~~~li~~~~~  343 (509)
                      +++.+.. .-|...|+.....+.+
T Consensus       169 ~~~I~~~-p~N~SAW~~R~~ll~~  191 (331)
T 3dss_A          169 DSLITRN-FSNYSSWHYRSCLLPQ  191 (331)
T ss_dssp             HHHHHHC-SCCHHHHHHHHHHHHH
T ss_pred             HHHHHHC-CCCHHHHHHHHHHHHH
Confidence            6666554 3455556555444433

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.70  E-value=0.00087  Score=53.17  Aligned_cols=95  Identities=17%  Similarity=0.038  Sum_probs=71.7

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH---HHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC---HHHHHHHH
Q 047221          335 NYVLGVLCKNGQDADACELLEEMLGRNCHPDA---ITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPR---LATHAAFI  408 (509)
Q Consensus       335 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~---~~~~~~li  408 (509)
                      ..+...+...|++++|...|+...+... .+.   ..+..+..++.+.|++++|...|++..+.. +.+   ...+..+.
T Consensus         6 ~~~a~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~la   83 (129)
T 2xev_A            6 YNVAFDALKNGKYDDASQLFLSFLELYP-NGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY-PTHDKAAGGLLKLG   83 (129)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCS-SSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTSTTHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHCC-CCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC-CCCcccHHHHHHHH
Confidence            3455677888999999999988877532 122   466677788888899999999998887753 122   56677788


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCC
Q 047221          409 KGYFIFYRYEDAYKYVVLSADKY  431 (509)
Q Consensus       409 ~~~~~~g~~~~A~~~~~~m~~~~  431 (509)
                      .+|.+.|++++|...|+++.+..
T Consensus        84 ~~~~~~g~~~~A~~~~~~~~~~~  106 (129)
T 2xev_A           84 LSQYGEGKNTEAQQTLQQVATQY  106 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC
Confidence            88888999999999998887753

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=97.68  E-value=0.00032  Score=70.25  Aligned_cols=84  Identities=12%  Similarity=-0.030  Sum_probs=40.0

Q ss_pred             HHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHH
Q 047221          275 MFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADA  350 (509)
Q Consensus       275 ~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a  350 (509)
                      .|.+.|++++|.+.|++.    +.+..+|..+..+|.+.|++++|++.+++..+.. +-+..+|..+..+|.+.|++++|
T Consensus        15 ~~~~~g~~~~A~~~~~~Al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~~eA   93 (477)
T 1wao_1           15 DYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRAA   93 (477)
T ss_dssp             STTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHH
Confidence            344445555555555443    2334455555555555555555555555544432 22334444444445555555555


Q ss_pred             HHHHHHHHh
Q 047221          351 CELLEEMLG  359 (509)
Q Consensus       351 ~~~~~~m~~  359 (509)
                      .+.|++..+
T Consensus        94 ~~~~~~al~  102 (477)
T 1wao_1           94 LRDYETVVK  102 (477)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            555544443

>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=97.64  E-value=0.0017  Score=52.70  Aligned_cols=110  Identities=10%  Similarity=-0.055  Sum_probs=54.2

Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCCHHHHH
Q 047221          346 QDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFI----FYRYEDAY  421 (509)
Q Consensus       346 ~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~  421 (509)
                      ++++|.+.|++..+.| .++..    |-..|...+.+++|.+.|++..+.|   +...+..|-..|..    .++.++|.
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            3445555555555444 11221    3333434444555555555555544   44455555555554    45555555


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHh----CCChHHHHHHHHHHHHCC
Q 047221          422 KYVVLSADKYKSSSNMLYSLLASLHDK----NNNPVMAKNVLSEMMKNG  466 (509)
Q Consensus       422 ~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g  466 (509)
                      ++|++..+.|   +...+..|...|..    .++.++|+++|++..+.|
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            5555555543   34444445555555    455555555555555544

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=97.62  E-value=0.00068  Score=67.52  Aligned_cols=123  Identities=7%  Similarity=-0.078  Sum_probs=75.6

Q ss_pred             CHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCC----------------hHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 047221          295 KVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPI----------------TLTYNYVLGVLCKNGQDADACELLEEML  358 (509)
Q Consensus       295 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~----------------~~t~~~li~~~~~~g~~~~a~~~~~~m~  358 (509)
                      ....|..+...|.+.|++++|+..|++..+..  |+                ...|..+..+|.+.|++++|+..+++..
T Consensus       267 ~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~--p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al  344 (457)
T 1kt0_A          267 QAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWL--EMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKAL  344 (457)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--TTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            35577888888999999999999998887642  22                3555666666666666666666666665


Q ss_pred             hCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 047221          359 GRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAY  421 (509)
Q Consensus       359 ~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  421 (509)
                      +.. +.+...|..+-.+|.+.|++++|...|++..+.. +-+...+..+..++.+.|+.++|.
T Consensus       345 ~~~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~  405 (457)
T 1kt0_A          345 GLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQKKAKEHNERD  405 (457)
T ss_dssp             HHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHH
T ss_pred             hcC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHH
Confidence            542 2245556666666666666666666666665442 113345555555555555555544

>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=97.60  E-value=0.00071  Score=54.96  Aligned_cols=112  Identities=9%  Similarity=-0.023  Sum_probs=93.1

Q ss_pred             cCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCChHH
Q 047221          309 RCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCR----VGKFDV  384 (509)
Q Consensus       309 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~  384 (509)
                      .+++++|++.|++..+.| .++..    |-..|...+.+++|.+.|++..+.|   +...+..|-..|..    .++.++
T Consensus         8 ~~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~   79 (138)
T 1klx_A            8 KKDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             ccCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHH
Confidence            346788999999988887 44443    6666777788888999999988875   67788888888887    789999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHhCC
Q 047221          385 AFNFFNQMVKRGLQPRLATHAAFIKGYFI----FYRYEDAYKYVVLSADKY  431 (509)
Q Consensus       385 a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~  431 (509)
                      |.++|++..+.|   +...+..|-..|..    .++.++|.++|++..+.|
T Consensus        80 A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           80 AAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            999999998887   78888889999988    889999999999988876

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=97.58  E-value=0.00015  Score=72.65  Aligned_cols=113  Identities=9%  Similarity=-0.119  Sum_probs=85.8

Q ss_pred             hccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHH
Q 047221          242 SKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRD  317 (509)
Q Consensus       242 ~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~  317 (509)
                      ...+++++|...+++..+.. +.+..++..+..+|.+.|++++|...+++.    +.+..+|..+..+|.+.|++++|++
T Consensus        17 ~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~~eA~~   95 (477)
T 1wao_1           17 FKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFRAALR   95 (477)
T ss_dssp             TTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            35566999999999988864 445788999999999999999999999885    4568899999999999999999999


Q ss_pred             HHHHHHHcCCCCChHHHHHHHHH--HHhcCChHHHHHHHHH
Q 047221          318 LLVEMRQVGCEPITLTYNYVLGV--LCKNGQDADACELLEE  356 (509)
Q Consensus       318 ~~~~m~~~g~~p~~~t~~~li~~--~~~~g~~~~a~~~~~~  356 (509)
                      .|++..+.. +-+...+..+..+  +.+.|++++|.+.+++
T Consensus        96 ~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~~  135 (477)
T 1wao_1           96 DYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEH  135 (477)
T ss_dssp             HHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC------
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence            999988763 2234455555444  7777888888887765

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=97.56  E-value=0.00098  Score=64.29  Aligned_cols=89  Identities=11%  Similarity=-0.080  Sum_probs=48.6

Q ss_pred             hHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 047221          331 TLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKG  410 (509)
Q Consensus       331 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  410 (509)
                      ...|..+..+|.+.|++++|.+.+++..+.. +.+...|..+..+|.+.|++++|...|++..+.. +-+...+..+..+
T Consensus       273 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~  350 (370)
T 1ihg_A          273 LSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKV  350 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            3455556666666666666666666665542 2244555555666666666666666666655442 1234455555555


Q ss_pred             HHHcCCHHHHH
Q 047221          411 YFIFYRYEDAY  421 (509)
Q Consensus       411 ~~~~g~~~~A~  421 (509)
                      +.+.++.+++.
T Consensus       351 ~~~~~~~~~a~  361 (370)
T 1ihg_A          351 KQKIKAQKDKE  361 (370)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            55555444443

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.56  E-value=0.00019  Score=56.34  Aligned_cols=86  Identities=7%  Similarity=0.042  Sum_probs=49.4

Q ss_pred             cCCccHHHHHHHHHHHcCC--CCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHH
Q 047221          309 RCDFKGPRDLLVEMRQVGC--EPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAF  386 (509)
Q Consensus       309 ~g~~~~A~~~~~~m~~~g~--~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~  386 (509)
                      .|++++|+..|++..+.+.  +-+...+..+..+|...|++++|...|++..+.. +-+...+..+..++.+.|++++|.
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHHH
Confidence            4666667777766665431  2234455666666666677777766666666542 224555666666666666666666


Q ss_pred             HHHHHHHHC
Q 047221          387 NFFNQMVKR  395 (509)
Q Consensus       387 ~~~~~m~~~  395 (509)
                      ..+++..+.
T Consensus        82 ~~~~~al~~   90 (117)
T 3k9i_A           82 ELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            666665544

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.55  E-value=0.0012  Score=54.96  Aligned_cols=69  Identities=10%  Similarity=-0.004  Sum_probs=49.4

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHH
Q 047221          401 LATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVS  472 (509)
Q Consensus       401 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  472 (509)
                      ...|..+..+|.+.|++++|...+++..+.. ..+...|..+..+|...|++++|++.|++..+  +.|+..
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~--l~p~~~  131 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLR--NHPAAA  131 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCGGGH
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHh--cCCCCH
Confidence            4567777777888888888888887776653 23566777778888888888888888887776  345433

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=97.49  E-value=0.0013  Score=63.31  Aligned_cols=90  Identities=10%  Similarity=-0.037  Sum_probs=63.5

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCc-CHHHHHHHH
Q 047221          400 RLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRP-NVSVYRRVL  478 (509)
Q Consensus       400 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~~~ll  478 (509)
                      +...|..+..+|.+.|++++|.+.+++..+.. ..+...|..+..+|...|++++|++.|++..+.  .| +...+..+.
T Consensus       272 ~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l--~P~~~~~~~~l~  348 (370)
T 1ihg_A          272 ALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEI--APEDKAIQAELL  348 (370)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            34567777788888888888888888777653 235667777888888888888888888887763  34 455566666


Q ss_pred             HHHHhcCCHHHHHH
Q 047221          479 KHLHTSHQEHMAKC  492 (509)
Q Consensus       479 ~~~~~~g~~~~a~~  492 (509)
                      .++...++.+++.+
T Consensus       349 ~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          349 KVKQKIKAQKDKEK  362 (370)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            66666666666554

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.46  E-value=0.00027  Score=55.43  Aligned_cols=85  Identities=16%  Similarity=0.107  Sum_probs=41.4

Q ss_pred             cCChHHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 047221          344 NGQDADACELLEEMLGRN--CHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAY  421 (509)
Q Consensus       344 ~g~~~~a~~~~~~m~~~g--~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  421 (509)
                      .|++++|...|++..+.+  -+-+...+..+..+|.+.|++++|...|++..+.. +-+...+..+..+|.+.|++++|.
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHHH
Confidence            355555555555555542  11123345555555555555555555555555442 223445555555555555555555


Q ss_pred             HHHHHHHh
Q 047221          422 KYVVLSAD  429 (509)
Q Consensus       422 ~~~~~m~~  429 (509)
                      ..|++..+
T Consensus        82 ~~~~~al~   89 (117)
T 3k9i_A           82 ELLLKIIA   89 (117)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            55555443

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.39  E-value=0.00044  Score=65.84  Aligned_cols=151  Identities=11%  Similarity=-0.019  Sum_probs=79.0

Q ss_pred             hHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 047221          331 TLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKG  410 (509)
Q Consensus       331 ~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  410 (509)
                      ...+..+...+.+.|++++|...|.+..+.  .|+...       +...++.+++...+.          ...|..+..+
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla~~  239 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAVK----------NPCHLNIAAC  239 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHHH----------THHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHHH----------HHHHHHHHHH
Confidence            566778888888999999999999987764  344331       122233333332221          1266777788


Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHH-HHHHHHHH-HHhcCCHH
Q 047221          411 YFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVS-VYRRVLKH-LHTSHQEH  488 (509)
Q Consensus       411 ~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-t~~~ll~~-~~~~g~~~  488 (509)
                      |.+.|++++|...+++..+.. ..+...|..+..+|...|++++|++.|++..+  +.|+.. .+..+... ....+..+
T Consensus       240 ~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~--l~p~~~~a~~~L~~l~~~~~~~~~  316 (338)
T 2if4_A          240 LIKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQK--YAPDDKAIRRELRALAEQEKALYQ  316 (338)
T ss_dssp             HHTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------------
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHHHHHHH
Confidence            888888888888888777653 23566777788888888888888888888765  344433 33333333 23345667


Q ss_pred             HHHHHHHHHHhCCCC
Q 047221          489 MAKCLSSRYSSLSLG  503 (509)
Q Consensus       489 ~a~~~~~~m~~~~~~  503 (509)
                      ++..++++|.+..+.
T Consensus       317 ~a~~~~~~~l~~~p~  331 (338)
T 2if4_A          317 KQKEMYKGIFKGKDE  331 (338)
T ss_dssp             ---------------
T ss_pred             HHHHHHHHhhCCCCC
Confidence            777788877765544

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.37  E-value=0.0021  Score=53.47  Aligned_cols=63  Identities=16%  Similarity=0.052  Sum_probs=32.5

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHC
Q 047221          332 LTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKR  395 (509)
Q Consensus       332 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  395 (509)
                      ..|..+..+|.+.|++++|...++...+.. +.+...|..+..+|...|++++|...|++..+.
T Consensus        64 ~~~~nla~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           64 PLYANMSQCYLNIGDLHEAEETSSEVLKRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            344555555555555555555555554431 223445555555555555555555555555443

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.34  E-value=0.0007  Score=64.46  Aligned_cols=61  Identities=7%  Similarity=-0.166  Sum_probs=30.2

Q ss_pred             HHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 047221          298 YYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLG  359 (509)
Q Consensus       298 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  359 (509)
                      .|+.+..+|.+.|++++|+..+++..+.. +-+...|..+..+|...|++++|...|++..+
T Consensus       232 ~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~  292 (338)
T 2if4_A          232 CHLNIAACLIKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQK  292 (338)
T ss_dssp             HHHHHHHHHHTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            44445555555555555555555544432 22344455555555555555555555554443

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=97.33  E-value=0.0033  Score=51.86  Aligned_cols=56  Identities=11%  Similarity=-0.019  Sum_probs=31.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHc---CCC--------H-----HHHHHHHHHHHhcCCccHHHHHHHHHHH
Q 047221          269 VRALIEMFSVLGLYEMAKYVIKKT---ERK--------V-----SYYNILIKEMCRRCDFKGPRDLLVEMRQ  324 (509)
Q Consensus       269 ~~~li~~~~~~g~~~~A~~~~~~m---~~~--------~-----~~~~~li~~~~~~g~~~~A~~~~~~m~~  324 (509)
                      +......+.+.|++++|...|++.   .|+        .     ..|+.+..++.+.|++++|+..+++..+
T Consensus        14 ~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~   85 (159)
T 2hr2_A           14 ALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALH   85 (159)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            445556666667777777766653   122        2     2555555555556666655555555443

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=97.30  E-value=0.0048  Score=50.89  Aligned_cols=62  Identities=10%  Similarity=-0.108  Sum_probs=40.0

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHC-----CCCcCH-HHH----HHHHHHHHhcCCHHHHHHHHHHHHh
Q 047221          438 LYSLLASLHDKNNNPVMAKNVLSEMMKN-----GLRPNV-SVY----RRVLKHLHTSHQEHMAKCLSSRYSS  499 (509)
Q Consensus       438 ~~~~li~~~~~~g~~~~a~~~~~~m~~~-----g~~p~~-~t~----~~ll~~~~~~g~~~~a~~~~~~m~~  499 (509)
                      .|..+..++.+.|++++|+..+++.++.     .+.|+. ..|    ...-.++...|++++|+..|++..+
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence            6666666666777777777666666652     125544 345    5666677777777777777777653

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.19  E-value=0.00034  Score=53.86  Aligned_cols=63  Identities=13%  Similarity=-0.029  Sum_probs=34.8

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 047221          401 LATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       401 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      ...+..+...+...|++++|.+.|++..+.. ..+...|..+..+|.+.|++++|++.+++..+
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~   66 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLR   66 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            3444555555555666666666665555432 12344555556666666666666666666554

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.04  E-value=0.0083  Score=64.19  Aligned_cols=45  Identities=13%  Similarity=0.054  Sum_probs=21.5

Q ss_pred             HhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHH
Q 047221          307 CRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEM  357 (509)
Q Consensus       307 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m  357 (509)
                      .+.|++++|.++.+.+      .+...|..+...+.+.|+++.|.+.|..+
T Consensus       663 l~~~~~~~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~  707 (814)
T 3mkq_A          663 LKVGQLTLARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNA  707 (814)
T ss_dssp             HHHTCHHHHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hhcCCHHHHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHc
Confidence            3445555555443222      23344555555555555555555555544

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=97.01  E-value=0.043  Score=55.94  Aligned_cols=172  Identities=6%  Similarity=-0.022  Sum_probs=129.6

Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCC----------HHHHHHHHHHc----CCCHHHHHHHHHHHHh
Q 047221          243 KALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGL----------YEMAKYVIKKT----ERKVSYYNILIKEMCR  308 (509)
Q Consensus       243 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~----------~~~A~~~~~~m----~~~~~~~~~li~~~~~  308 (509)
                      .+...++|.+.++.+.+.. +-+..+|+.--.++.+.|+          ++++.+.++++    +.+..+|+.-...+.+
T Consensus        41 ~~~~~eeal~~~~~~l~~n-P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK~y~aW~hR~w~l~~  119 (567)
T 1dce_A           41 AGELDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSR  119 (567)
T ss_dssp             TTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHT
T ss_pred             cCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            4455677788888888765 3345566665566666666          88888888886    6678889888888888


Q ss_pred             cC--CccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcC-ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHc------
Q 047221          309 RC--DFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNG-QDADACELLEEMLGRNCHPDAITYEIFIVYSCRV------  379 (509)
Q Consensus       309 ~g--~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g-~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~------  379 (509)
                      .+  +++++++.++++.+.. .-|-.+|+.-..++.+.| .++++++.++++.+.. +-|...|+-....+.+.      
T Consensus       120 l~~~~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~-p~n~saW~~r~~ll~~l~~~~~~  197 (567)
T 1dce_A          120 LPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDS  197 (567)
T ss_dssp             CSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCS
T ss_pred             cccccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC-CCCccHHHHHHHHHHhhcccccc
Confidence            88  6699999999999876 567888888888888888 8899999999888763 34677788777766663      


Q ss_pred             --------CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHH
Q 047221          380 --------GKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYE  418 (509)
Q Consensus       380 --------g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  418 (509)
                              +.++++.+.+++..... +-|...|+-+-..+.+.++.+
T Consensus       198 ~~~~~~~~~~~~eel~~~~~ai~~~-P~~~saW~y~~~ll~~~~~~~  243 (567)
T 1dce_A          198 GPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGRAEPHD  243 (567)
T ss_dssp             SSCCSSCHHHHHHHHHHHHHHHHHC-SSCSHHHHHHHHHHSCCCCCS
T ss_pred             cccccccHHHHHHHHHHHHHHHhhC-CCCccHHHHHHHHHhcCCCcc
Confidence                    45788999998888763 336778888777777766633

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=97.01  E-value=0.03  Score=57.11  Aligned_cols=167  Identities=10%  Similarity=-0.026  Sum_probs=98.6

Q ss_pred             CHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCC----------ccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcC-
Q 047221          281 LYEMAKYVIKKT----ERKVSYYNILIKEMCRRCD----------FKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNG-  345 (509)
Q Consensus       281 ~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~----------~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g-  345 (509)
                      .-++|.+.++++    +.+..+|+.--..+.+.|+          ++++++.++++.+.. +-+..+|+.-..++.+.| 
T Consensus        44 ~~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l~~  122 (567)
T 1dce_A           44 LDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPE  122 (567)
T ss_dssp             CSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSS
T ss_pred             CCHHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHccc
Confidence            345667766665    4456667666555555555          677777777776654 345566666666666666 


Q ss_pred             -ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcC-ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc---------
Q 047221          346 -QDADACELLEEMLGRNCHPDAITYEIFIVYSCRVG-KFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIF---------  414 (509)
Q Consensus       346 -~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~---------  414 (509)
                       +++++++.++.+.+.. +-|...|+---..+.+.| .++++.+.++++++.. .-|...|+.....+.+.         
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 PNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQ  200 (567)
T ss_dssp             CCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSC
T ss_pred             ccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC-CCCccHHHHHHHHHHhhccccccccc
Confidence             5577777777776653 235666666655666666 6667777766666553 22556666555555442         


Q ss_pred             -----CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCC
Q 047221          415 -----YRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNN  451 (509)
Q Consensus       415 -----g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~  451 (509)
                           +.++++.+.+++..... .-|...|+.+-..+.+.++
T Consensus       201 ~~~~~~~~~eel~~~~~ai~~~-P~~~saW~y~~~ll~~~~~  241 (567)
T 1dce_A          201 GRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGRAEP  241 (567)
T ss_dssp             CSSCHHHHHHHHHHHHHHHHHC-SSCSHHHHHHHHHHSCCCC
T ss_pred             ccccHHHHHHHHHHHHHHHhhC-CCCccHHHHHHHHHhcCCC
Confidence                 33556666665555432 1244555555555555554

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.01  E-value=0.0068  Score=46.91  Aligned_cols=76  Identities=13%  Similarity=-0.040  Sum_probs=32.3

Q ss_pred             HHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHH
Q 047221          315 PRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQM  392 (509)
Q Consensus       315 A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  392 (509)
                      |++.|++..+.. +.+...+..+...|...|++++|...|++..+.. +.+...|..+..+|.+.|++++|...|++.
T Consensus         4 a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~a   79 (115)
T 2kat_A            4 ITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESG   79 (115)
T ss_dssp             HHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            344444443322 2233444444444444444444444444444331 112334444444444444444444444443

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.01  E-value=0.0024  Score=48.91  Aligned_cols=57  Identities=9%  Similarity=0.029  Sum_probs=27.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHH
Q 047221          268 GVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQ  324 (509)
Q Consensus       268 ~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  324 (509)
                      .+..+...+.+.|++++|...|++.    +.+...|..+..+|.+.|++++|++.|++..+
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~   66 (111)
T 2l6j_A            6 KQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLR   66 (111)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            3444444455555555555554442    23344444444455555555555555544443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.01  E-value=0.0067  Score=44.27  Aligned_cols=56  Identities=13%  Similarity=0.098  Sum_probs=24.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHH
Q 047221          269 VRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQ  324 (509)
Q Consensus       269 ~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  324 (509)
                      +..+...|...|++++|...|++.    +.+...|..+...|.+.|++++|.+.|++..+
T Consensus        12 ~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~   71 (91)
T 1na3_A           12 WYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALE   71 (91)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            344444444444444444444432    22334444444444444444444444444443

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.89  E-value=0.071  Score=41.85  Aligned_cols=139  Identities=9%  Similarity=0.006  Sum_probs=93.3

Q ss_pred             ccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 047221          207 RLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAK  286 (509)
Q Consensus       207 ~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~  286 (509)
                      -.|.+++..++..+.....   +..-||.+|.-.....+    +..+++.+...|---|..          .||++....
T Consensus        19 ldG~v~qGveii~k~~~ss---ni~E~NW~ICNiiD~a~----C~y~v~vLd~IGkiFDis----------~C~NlKrVi   81 (172)
T 1wy6_A           19 LDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESID----CRYMFQVLDKIGSYFDLD----------KCQNLKSVV   81 (172)
T ss_dssp             HTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCC----HHHHHHHHHHHGGGSCGG----------GCSCTHHHH
T ss_pred             HhhhHHHHHHHHHHHcCCC---Cccccceeeeecchhhc----hhHHHHHHHHHhhhcCcH----------hhhcHHHHH
Confidence            3577777777777765542   45556655553333332    334444444444344432          577777777


Q ss_pred             HHHHHcCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCC
Q 047221          287 YVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCH  363 (509)
Q Consensus       287 ~~~~~m~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  363 (509)
                      ..+-.+..+....+..++.....|+-++-.+++.++... .+|+....-.+..+|.+.|+..+|.+++.+..+.|++
T Consensus        82 ~C~~~~n~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           82 ECGVINNTLNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             HHHHHTTCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhcchHHHHHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            777777777777778888888888888888888886443 3677777778888888888888888888888887753

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=96.88  E-value=0.013  Score=42.57  Aligned_cols=78  Identities=12%  Similarity=0.157  Sum_probs=35.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 047221          333 TYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYF  412 (509)
Q Consensus       333 t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  412 (509)
                      .+..+...+...|++++|...|++..+.. +.+...+..+...+.+.|++++|...+++..+.. +-+...+..+..++.
T Consensus        11 ~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~   88 (91)
T 1na3_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNAKQ   88 (91)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHH
Confidence            34444444445555555555554444331 1234444444555555555555555555544432 123344444444443

>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=96.88  E-value=0.0052  Score=50.60  Aligned_cols=116  Identities=11%  Similarity=0.020  Sum_probs=68.2

Q ss_pred             HcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC----------HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 047221          378 RVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYR----------YEDAYKYVVLSADKYKSSSNMLYSLLASLHD  447 (509)
Q Consensus       378 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~----------~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~  447 (509)
                      +.+.+++|...++...+.. +-+...|+.+-.++...|+          +++|+..|++..+.... +...|..+..+|.
T Consensus        14 r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~-~~~A~~~LG~ay~   91 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNAYT   91 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHH
Confidence            3344555555555555442 2244555545555554443          34666666666654322 4455666777776


Q ss_pred             hC-----------CChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 047221          448 KN-----------NNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSLG  503 (509)
Q Consensus       448 ~~-----------g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~  503 (509)
                      ..           |++++|++.|++.++  +.|+...|...+...      ++|-++.-.+...+..
T Consensus        92 ~lg~l~P~~~~a~g~~~eA~~~~~kAl~--l~P~~~~y~~al~~~------~ka~el~~~~~~~~~~  150 (158)
T 1zu2_A           92 SFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMT------AKAPQLHAEAYKQGLG  150 (158)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHH------HTHHHHHHHHHHSSSC
T ss_pred             HhcccCcchhhhhccHHHHHHHHHHHHH--hCCCCHHHHHHHHHH------HhCHhccCcccccccC
Confidence            55           478999999998887  678877776666544      4555655555555443

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=96.80  E-value=0.011  Score=45.66  Aligned_cols=62  Identities=8%  Similarity=-0.139  Sum_probs=29.2

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 047221          365 DAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLS  427 (509)
Q Consensus       365 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  427 (509)
                      +...+..+...|...|++++|...|++..+.. +.+...|..+..+|...|++++|...|++.
T Consensus        18 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~a   79 (115)
T 2kat_A           18 NMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESG   79 (115)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            34444444455555555555555555544432 123344444444455555555555544443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=96.72  E-value=0.0086  Score=45.13  Aligned_cols=59  Identities=14%  Similarity=0.057  Sum_probs=23.9

Q ss_pred             HHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHH
Q 047221          297 SYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEE  356 (509)
Q Consensus       297 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~  356 (509)
                      ..|..+...|.+.|++++|++.|++..+.. +-+...|..+..+|...|++++|.+.|++
T Consensus         8 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~   66 (100)
T 3ma5_A            8 FTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQ   66 (100)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            333444444444444444444444443332 12233344444444444444444444443

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.65  E-value=0.024  Score=60.60  Aligned_cols=155  Identities=14%  Similarity=0.073  Sum_probs=112.5

Q ss_pred             HHHHhcCCHHHHHH-HHHHcC-CCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHH
Q 047221          274 EMFSVLGLYEMAKY-VIKKTE-RKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADAC  351 (509)
Q Consensus       274 ~~~~~~g~~~~A~~-~~~~m~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~  351 (509)
                      ......+++++|.+ ++..++ .+.  ...++..+.+.|..++|+++.+.-.            .-...+...|++++|+
T Consensus       607 ~~~~~~~~~~~a~~~~l~~i~~~~~--~~~~~~~l~~~~~~~~a~~~~~~~~------------~~f~~~l~~~~~~~A~  672 (814)
T 3mkq_A          607 QTLTLRGEIEEAIENVLPNVEGKDS--LTKIARFLEGQEYYEEALNISPDQD------------QKFELALKVGQLTLAR  672 (814)
T ss_dssp             HHHHHTTCHHHHHHHTGGGCCCHHH--HHHHHHHHHHTTCHHHHHHHCCCHH------------HHHHHHHHHTCHHHHH
T ss_pred             hHHHHhCCHHHHHHHHHhcCCchHH--HHHHHHHHHhCCChHHheecCCCcc------------hheehhhhcCCHHHHH
Confidence            44456789999988 665555 333  3788888888999999887763221            1133456789999999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Q 047221          352 ELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKY  431 (509)
Q Consensus       352 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  431 (509)
                      ++.+.+      .+...|..+...+.+.++++.|++.|..+..         |..+...|...|+.+...++-+.....|
T Consensus       673 ~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~~  737 (814)
T 3mkq_A          673 DLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETTG  737 (814)
T ss_dssp             HHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            886543      3678999999999999999999999998742         4556666777888888777766666554


Q ss_pred             CCCCHHHHHHHHHHHHhCCChHHHHHHHHHHH
Q 047221          432 KSSSNMLYSLLASLHDKNNNPVMAKNVLSEMM  463 (509)
Q Consensus       432 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  463 (509)
                      .      ++.-..+|.+.|++++|++++.++.
T Consensus       738 ~------~~~A~~~~~~~g~~~~a~~~~~~~~  763 (814)
T 3mkq_A          738 K------FNLAFNAYWIAGDIQGAKDLLIKSQ  763 (814)
T ss_dssp             C------HHHHHHHHHHHTCHHHHHHHHHHTT
T ss_pred             c------hHHHHHHHHHcCCHHHHHHHHHHcC
Confidence            2      3444555777889999998887764

>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=96.60  E-value=0.011  Score=48.54  Aligned_cols=78  Identities=8%  Similarity=-0.016  Sum_probs=36.3

Q ss_pred             CHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCc----------cHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcC-
Q 047221          281 LYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDF----------KGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNG-  345 (509)
Q Consensus       281 ~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~----------~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g-  345 (509)
                      .+++|.+.+++.    +.+...|+.+..++...+++          ++|+..|++..+.. +-+..+|..+..+|...| 
T Consensus        17 ~feeA~~~~~~Ai~l~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG~ay~~lg~   95 (158)
T 1zu2_A           17 LFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAYTSFAF   95 (158)
T ss_dssp             HHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHhcc
Confidence            344444444432    33445555454454444443          35555555555432 223444555555554443 


Q ss_pred             ----------ChHHHHHHHHHHHh
Q 047221          346 ----------QDADACELLEEMLG  359 (509)
Q Consensus       346 ----------~~~~a~~~~~~m~~  359 (509)
                                ++++|.+.|++..+
T Consensus        96 l~P~~~~a~g~~~eA~~~~~kAl~  119 (158)
T 1zu2_A           96 LTPDETEAKHNFDLATQFFQQAVD  119 (158)
T ss_dssp             HCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCcchhhhhccHHHHHHHHHHHHH
Confidence                      45555555554444

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=96.53  E-value=0.011  Score=44.62  Aligned_cols=62  Identities=15%  Similarity=-0.131  Sum_probs=50.0

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHH
Q 047221          263 SCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQ  324 (509)
Q Consensus       263 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  324 (509)
                      +-+...+..+..+|.+.|++++|...|++.    +.+...|..+..+|.+.|++++|++.|++..+
T Consensus         4 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            4 PEDPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             -CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            345667788888888889999998888875    45677888888899999999999988887764

>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=96.51  E-value=0.006  Score=59.85  Aligned_cols=87  Identities=11%  Similarity=0.043  Sum_probs=62.4

Q ss_pred             HcCChHHHHHHHHHHHHC---CCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHhC-----CC-CCC-HHHHHHHH
Q 047221          378 RVGKFDVAFNFFNQMVKR---GLQPR----LATHAAFIKGYFIFYRYEDAYKYVVLSADK-----YK-SSS-NMLYSLLA  443 (509)
Q Consensus       378 ~~g~~~~a~~~~~~m~~~---g~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----~~-~p~-~~~~~~li  443 (509)
                      ..|++++|+.++++..+.   -+.|+    ..+++.|..+|...|++++|+.++++..+.     |. .|+ ..+|+.|.
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            347788888888876542   12222    467888888888888888888888876632     21 222 35788888


Q ss_pred             HHHHhCCChHHHHHHHHHHHH
Q 047221          444 SLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       444 ~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      ..|...|++++|+.++++..+
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            888889999998888887754

>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=96.49  E-value=0.013  Score=57.36  Aligned_cols=92  Identities=11%  Similarity=0.026  Sum_probs=68.1

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHC---CCCC----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC-----C-CCC-CHHH
Q 047221          373 IVYSCRVGKFDVAFNFFNQMVKR---GLQP----RLATHAAFIKGYFIFYRYEDAYKYVVLSADK-----Y-KSS-SNML  438 (509)
Q Consensus       373 i~~~~~~g~~~~a~~~~~~m~~~---g~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----~-~~p-~~~~  438 (509)
                      +..+.+.|++++|+.++++..+.   -+.|    ...+++.|..+|...|++++|+.++++..+.     | -.| ...+
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~  373 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQ  373 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHH
Confidence            44566778899999988887753   1222    2467888888999999999999888876642     2 122 2357


Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHH
Q 047221          439 YSLLASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       439 ~~~li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      ++.|...|...|++++|+.++++..+
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            88899999999999999999888764

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=96.41  E-value=0.16  Score=47.89  Aligned_cols=58  Identities=16%  Similarity=0.039  Sum_probs=31.5

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHh--cC---CccHHHHHHHHHHHcCCCCC-hHHHHHHHHHH
Q 047221          282 YEMAKYVIKKTERKVSYYNILIKEMCR--RC---DFKGPRDLLVEMRQVGCEPI-TLTYNYVLGVL  341 (509)
Q Consensus       282 ~~~A~~~~~~m~~~~~~~~~li~~~~~--~g---~~~~A~~~~~~m~~~g~~p~-~~t~~~li~~~  341 (509)
                      ..++.+.....+.+..+|...+.+...  .+   ...+|..+|++..+.  .|+ ...|..+.-+|
T Consensus       180 ~~e~~r~~~~~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l--DP~~a~A~A~la~a~  243 (372)
T 3ly7_A          180 QRMQETLQKILPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS--SPEFTYARAEKALVD  243 (372)
T ss_dssp             HHHHHHHHHHSCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHhccCCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHH
Confidence            334445555566667777776655432  22   246777777777765  444 33444333333

>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=96.33  E-value=0.016  Score=56.79  Aligned_cols=93  Identities=11%  Similarity=0.032  Sum_probs=71.0

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhC---CCCC----CHHHHHHHHHHHHHcCChHHHHHHHHHHHHC-----C-CCC-CHH
Q 047221          337 VLGVLCKNGQDADACELLEEMLGR---NCHP----DAITYEIFIVYSCRVGKFDVAFNFFNQMVKR-----G-LQP-RLA  402 (509)
Q Consensus       337 li~~~~~~g~~~~a~~~~~~m~~~---g~~p----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----g-~~p-~~~  402 (509)
                      .+..+.+.|++++|+.++++..+.   -..|    ...+++.|..+|...|++++|+.++++..+-     | -.| ...
T Consensus       293 ~ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~  372 (429)
T 3qwp_A          293 KIEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGV  372 (429)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHH
T ss_pred             HHHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHH
Confidence            345566788999999999888754   1222    2457889999999999999999999987632     2 122 246


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 047221          403 THAAFIKGYFIFYRYEDAYKYVVLSAD  429 (509)
Q Consensus       403 ~~~~li~~~~~~g~~~~A~~~~~~m~~  429 (509)
                      +++.|...|...|++++|+.++++..+
T Consensus       373 ~l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          373 QVMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            789999999999999999999887653

>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=96.31  E-value=0.016  Score=56.88  Aligned_cols=78  Identities=9%  Similarity=-0.033  Sum_probs=38.3

Q ss_pred             CCHHHHHHHHHHHHHc-----C--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc--------CCC----HHHHHHHHHH
Q 047221          245 LTKKGIWRVVEVLNQV-----G--GSCLVSGVRALIEMFSVLGLYEMAKYVIKKT--------ERK----VSYYNILIKE  305 (509)
Q Consensus       245 ~~~~~a~~~~~~m~~~-----g--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m--------~~~----~~~~~~li~~  305 (509)
                      |++++|+.++++..+.     |  .+....+++.|..+|...|++++|+.++++.        .++    ..+++.|...
T Consensus       312 g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~  391 (433)
T 3qww_A          312 KSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRL  391 (433)
T ss_dssp             SCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHH
Confidence            3456666666555431     1  1112244556666666666666666655542        111    2345555555


Q ss_pred             HHhcCCccHHHHHHHHH
Q 047221          306 MCRRCDFKGPRDLLVEM  322 (509)
Q Consensus       306 ~~~~g~~~~A~~~~~~m  322 (509)
                      |...|++++|+.++++.
T Consensus       392 ~~~qg~~~eA~~~~~~A  408 (433)
T 3qww_A          392 YMGLENKAAGEKALKKA  408 (433)
T ss_dssp             HHHTTCHHHHHHHHHHH
T ss_pred             HHhccCHHHHHHHHHHH
Confidence            55555555555555443

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=96.12  E-value=0.14  Score=48.34  Aligned_cols=143  Identities=13%  Similarity=0.061  Sum_probs=97.0

Q ss_pred             CCChHHHHHHHHHHHh--cC---ChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHH---cC--ChHHHH---HHHHHHH
Q 047221          328 EPITLTYNYVLGVLCK--NG---QDADACELLEEMLGRNCHPD-AITYEIFIVYSCR---VG--KFDVAF---NFFNQMV  393 (509)
Q Consensus       328 ~p~~~t~~~li~~~~~--~g---~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~---~g--~~~~a~---~~~~~m~  393 (509)
                      +.+...|...+.+...  .+   ...+|..+|++..+.  .|+ ...|..+.-+|.-   .+  ......   ..++...
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            5677778777766543  33   357899999999886  454 3445544444421   11  111111   1222111


Q ss_pred             H-CCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHH
Q 047221          394 K-RGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVS  472 (509)
Q Consensus       394 ~-~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  472 (509)
                      . .....+..+|.++...+...|++++|...+++....+  |+...|..+...+.-.|++++|.+.|++...  +.|...
T Consensus       269 a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~Alr--L~P~~~  344 (372)
T 3ly7_A          269 TLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFN--LRPGAN  344 (372)
T ss_dssp             TCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HSCSHH
T ss_pred             hcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCcC
Confidence            1 1225578888888887888899999999999998886  7887888888889999999999999998887  567777


Q ss_pred             HHHH
Q 047221          473 VYRR  476 (509)
Q Consensus       473 t~~~  476 (509)
                      ||.-
T Consensus       345 t~~~  348 (372)
T 3ly7_A          345 TLYW  348 (372)
T ss_dssp             HHHH
T ss_pred             hHHH
Confidence            6543

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=95.78  E-value=0.022  Score=42.37  Aligned_cols=53  Identities=8%  Similarity=0.066  Sum_probs=23.3

Q ss_pred             HHHcCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 047221          376 SCRVGKFDVAFNFFNQMVKRGLQPRLA-THAAFIKGYFIFYRYEDAYKYVVLSAD  429 (509)
Q Consensus       376 ~~~~g~~~~a~~~~~~m~~~g~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~  429 (509)
                      +.+.|++++|...|++..+.. +.+.. .+..+..+|...|++++|.+.|++..+
T Consensus        10 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~   63 (99)
T 2kc7_A           10 LINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIE   63 (99)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            344444455554444444331 11233 444444444444444444444444443

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=95.50  E-value=0.046  Score=40.56  Aligned_cols=54  Identities=13%  Similarity=-0.030  Sum_probs=25.2

Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhCCChHHHHHHHHHHHH
Q 047221          410 GYFIFYRYEDAYKYVVLSADKYKSSSNM-LYSLLASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       410 ~~~~~g~~~~A~~~~~~m~~~~~~p~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      .+.+.|++++|...|++..+... .+.. .|..+...|...|++++|++.|++..+
T Consensus         9 ~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~   63 (99)
T 2kc7_A            9 ELINQGDIENALQALEEFLQTEP-VGKDEAYYLMGNAYRKLGDWQKALNNYQSAIE   63 (99)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCS-STHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            34444555555555554444321 1223 444444555555555555555555444

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=95.45  E-value=0.71  Score=36.30  Aligned_cols=140  Identities=11%  Similarity=0.045  Sum_probs=90.7

Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 047221          342 CKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAY  421 (509)
Q Consensus       342 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  421 (509)
                      .-.|.++++.++..+....   .+..-||-+|.-....-+-+-..++++.+-+-   .|.          ..+|++....
T Consensus        18 ildG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGki---FDi----------s~C~NlKrVi   81 (172)
T 1wy6_A           18 LLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDL----------DKCQNLKSVV   81 (172)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCG----------GGCSCTHHHH
T ss_pred             HHhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhh---cCc----------HhhhcHHHHH
Confidence            3467888888888877764   36667777777777767777666666665322   121          1233333333


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 047221          422 KYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLS  501 (509)
Q Consensus       422 ~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~  501 (509)
                      ..+-.+-.     +......-+..+...|+-+.-.+++.++.. +.+|+......+..||.+.|+..+|.+++++.-+.|
T Consensus        82 ~C~~~~n~-----~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG  155 (172)
T 1wy6_A           82 ECGVINNT-----LNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKG  155 (172)
T ss_dssp             HHHHHTTC-----CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHhcc-----hHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhh
Confidence            33322211     333455566667778888888888887544 356777777888888888888888888888888887


Q ss_pred             CC
Q 047221          502 LG  503 (509)
Q Consensus       502 ~~  503 (509)
                      ++
T Consensus       156 ~k  157 (172)
T 1wy6_A          156 EK  157 (172)
T ss_dssp             CH
T ss_pred             hH
Confidence            75

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.33  E-value=0.6  Score=38.87  Aligned_cols=130  Identities=14%  Similarity=0.109  Sum_probs=96.4

Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHH
Q 047221          339 GVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYE  418 (509)
Q Consensus       339 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  418 (509)
                      ....+.|+++.|.++.+++      -+...|..|-....+.|+++-|++.|....      |   +..+.-.|.-.|+.+
T Consensus        13 ~LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~------D---~~~L~~Ly~~tg~~e   77 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQH------S---FDKLSFLYLVTGDVN   77 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTT------C---HHHHHHHHHHHTCHH
T ss_pred             HHHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhC------C---HHHHHHHHHHhCCHH
Confidence            3456889999999998766      378899999999999999999999998864      2   455666677789988


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 047221          419 DAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYS  498 (509)
Q Consensus       419 ~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~  498 (509)
                      +-.++-+.....|-      ++.-...+...|++++++++|.+.   |-.|....      .....|-.+.|.++.+++.
T Consensus        78 ~L~kla~iA~~~g~------~n~af~~~l~lGdv~~~i~lL~~~---~r~~eA~~------~A~t~g~~~~a~~~~~~~~  142 (177)
T 3mkq_B           78 KLSKMQNIAQTRED------FGSMLLNTFYNNSTKERSSIFAEG---GSLPLAYA------VAKANGDEAAASAFLEQAE  142 (177)
T ss_dssp             HHHHHHHHHHHTTC------HHHHHHHHHHHTCHHHHHHHHHHT---TCHHHHHH------HHHHTTCHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHCcc------HHHHHHHHHHcCCHHHHHHHHHHC---CChHHHHH------HHHHcCcHHHHHHHHHHhC
Confidence            88777666555541      455566677899999999999654   33332211      1223688899999988764

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.18  E-value=1.2  Score=37.16  Aligned_cols=97  Identities=8%  Similarity=0.077  Sum_probs=45.6

Q ss_pred             hcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHH
Q 047221          308 RRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFN  387 (509)
Q Consensus       308 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~  387 (509)
                      +.|+++.|.++.+++      -+...|..|.......|+++-|.+.|....+         +..+.-.|.-.|+.+....
T Consensus        17 ~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~k   81 (177)
T 3mkq_B           17 EYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLSK   81 (177)
T ss_dssp             HTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHHH
T ss_pred             hcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHHH
Confidence            345555555544433      1344555555555555555555555554432         2233333444455544444


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 047221          388 FFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVV  425 (509)
Q Consensus       388 ~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~  425 (509)
                      +-+.....|      -++.....+.-.|+++++.++|.
T Consensus        82 la~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~  113 (177)
T 3mkq_B           82 MQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFA  113 (177)
T ss_dssp             HHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHH
Confidence            443333333      13344444445555555555553

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=94.87  E-value=0.19  Score=40.77  Aligned_cols=86  Identities=10%  Similarity=-0.079  Sum_probs=50.6

Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhCCChHHHH
Q 047221          382 FDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFY---RYEDAYKYVVLSADKYKSS--SNMLYSLLASLHDKNNNPVMAK  456 (509)
Q Consensus       382 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~~~~p--~~~~~~~li~~~~~~g~~~~a~  456 (509)
                      ...+++-|.+..+.|. ++..+...+..++++.+   +++++..+|++..+.. .|  ....+-.|.-+|.+.|++++|.
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            3445555555555443 45666556666666666   5556777777666653 22  2333444666667777777777


Q ss_pred             HHHHHHHHCCCCcCH
Q 047221          457 NVLSEMMKNGLRPNV  471 (509)
Q Consensus       457 ~~~~~m~~~g~~p~~  471 (509)
                      ++++.+.+  +.|+.
T Consensus        92 ~y~~~lL~--ieP~n  104 (152)
T 1pc2_A           92 KYVRGLLQ--TEPQN  104 (152)
T ss_dssp             HHHHHHHH--HCTTC
T ss_pred             HHHHHHHh--cCCCC
Confidence            77777766  45543

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=94.56  E-value=0.38  Score=36.19  Aligned_cols=70  Identities=9%  Similarity=0.012  Sum_probs=40.7

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC------CCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCH
Q 047221          400 RLATHAAFIKGYFIFYRYEDAYKYVVLSADKY------KSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNV  471 (509)
Q Consensus       400 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~------~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  471 (509)
                      +...+..|...+.+.|+++.|...|+...+..      -.+....+..+..+|.+.|++++|+.++++..+  +.|+.
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~--l~P~~   79 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE--LDPEH   79 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTC
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh--cCCCC
Confidence            34445556666666666666666666544320      123345566666777777777777777776665  34443

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=94.56  E-value=0.29  Score=39.72  Aligned_cols=86  Identities=8%  Similarity=-0.161  Sum_probs=66.5

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCC---ChHHHHHHHHHHHHCCCCc--CHHHHHHHHHHHHhcCCHHHH
Q 047221          416 RYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNN---NPVMAKNVLSEMMKNGLRP--NVSVYRRVLKHLHTSHQEHMA  490 (509)
Q Consensus       416 ~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~g~~p--~~~t~~~ll~~~~~~g~~~~a  490 (509)
                      .+..+.+-|.+..+.+. ++..+.-.+..++++.+   +.++++.++++..+.. .|  +...+-.+.-+|.+.|++++|
T Consensus        13 ~l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A   90 (152)
T 1pc2_A           13 DLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKA   90 (152)
T ss_dssp             HHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHH
Confidence            45667777777767665 67777777888999988   6679999999998864 34  344555566688999999999


Q ss_pred             HHHHHHHHhCCCC
Q 047221          491 KCLSSRYSSLSLG  503 (509)
Q Consensus       491 ~~~~~~m~~~~~~  503 (509)
                      .+.++.+.+..+.
T Consensus        91 ~~y~~~lL~ieP~  103 (152)
T 1pc2_A           91 LKYVRGLLQTEPQ  103 (152)
T ss_dssp             HHHHHHHHHHCTT
T ss_pred             HHHHHHHHhcCCC
Confidence            9999999987764

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=94.05  E-value=0.71  Score=41.85  Aligned_cols=88  Identities=14%  Similarity=-0.039  Sum_probs=51.5

Q ss_pred             HHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHH-----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhC-CChH
Q 047221          383 DVAFNFFNQMVKRGLQPR---LATHAAFIKGYFI-----FYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKN-NNPV  453 (509)
Q Consensus       383 ~~a~~~~~~m~~~g~~p~---~~~~~~li~~~~~-----~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~-g~~~  453 (509)
                      ..|...+++..+.  .|+   ...|..|...|.+     .|+.++|.+.|++..+....-+..++......++.. |+.+
T Consensus       180 ~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~  257 (301)
T 3u64_A          180 HAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRA  257 (301)
T ss_dssp             HHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHH
T ss_pred             HHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHH
Confidence            4455555555543  344   3456666666666     367777777777666653322345555666666663 6677


Q ss_pred             HHHHHHHHHHHCCCC--cCHH
Q 047221          454 MAKNVLSEMMKNGLR--PNVS  472 (509)
Q Consensus       454 ~a~~~~~~m~~~g~~--p~~~  472 (509)
                      ++.+++++.+.....  |+..
T Consensus       258 ~a~~~L~kAL~a~p~~~P~~~  278 (301)
T 3u64_A          258 GFDEALDRALAIDPESVPHNK  278 (301)
T ss_dssp             HHHHHHHHHHHCCGGGCSSCH
T ss_pred             HHHHHHHHHHcCCCCCCCChh
Confidence            777777777665544  5533

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=93.79  E-value=0.72  Score=33.88  Aligned_cols=46  Identities=11%  Similarity=-0.069  Sum_probs=18.1

Q ss_pred             cHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 047221          313 KGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLG  359 (509)
Q Consensus       313 ~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~  359 (509)
                      ++|..+|++..+.. +-+......+...+.+.|++++|...|+.+.+
T Consensus        26 ~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~   71 (93)
T 3bee_A           26 DEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLD   71 (93)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            34444444444332 22233333333444444444444444444443

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=93.65  E-value=0.84  Score=33.51  Aligned_cols=66  Identities=11%  Similarity=-0.008  Sum_probs=46.2

Q ss_pred             CCHHHHHHHHHHHHHcCC---HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHC
Q 047221          399 PRLATHAAFIKGYFIFYR---YEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKN  465 (509)
Q Consensus       399 p~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  465 (509)
                      .|...+..+..++...++   .++|..++++..+.. .-+......+...+.+.|++++|++.|+++.+.
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            456666667776654444   578888888777654 224556666777778888888888888888775

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=93.42  E-value=0.47  Score=35.64  Aligned_cols=69  Identities=10%  Similarity=-0.029  Sum_probs=55.8

Q ss_pred             CHHHHHHHHHHHHhCCChHHHHHHHHHHHHCC------CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 047221          435 SNMLYSLLASLHDKNNNPVMAKNVLSEMMKNG------LRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSLG  503 (509)
Q Consensus       435 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g------~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~  503 (509)
                      +..-+-.|...+.+.|+++.|...|+...+.-      -.+....+..+..++.+.|++++|..++++..+..+.
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~   78 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPE   78 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCC
Confidence            44455678899999999999999999987631      1245678889999999999999999999999876554

>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=92.48  E-value=1.5  Score=39.66  Aligned_cols=67  Identities=9%  Similarity=-0.019  Sum_probs=33.4

Q ss_pred             hHHHHHHHHHHHhc-----CChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHc-CChHHHHHHHHHHHHCCC
Q 047221          331 TLTYNYVLGVLCKN-----GQDADACELLEEMLGRNCHPDAITYEIFIVYSCRV-GKFDVAFNFFNQMVKRGL  397 (509)
Q Consensus       331 ~~t~~~li~~~~~~-----g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~-g~~~~a~~~~~~m~~~g~  397 (509)
                      ...|..+...|.+.     |+.++|.+.|++..+..-.-+..++......+++. |+.+++.+.+++......
T Consensus       199 GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a~p  271 (301)
T 3u64_A          199 GAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAGFDEALDRALAIDP  271 (301)
T ss_dssp             HHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHCCG
T ss_pred             CHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCC
Confidence            34555555555553     55555555555555532111244444444555543 555555555555555433

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=91.88  E-value=0.89  Score=35.44  Aligned_cols=93  Identities=12%  Similarity=-0.061  Sum_probs=57.3

Q ss_pred             HHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHH---HHHHHHHHHhCCCCC--CHHHHHHHHHHHHhC
Q 047221          375 YSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYED---AYKYVVLSADKYKSS--SNMLYSLLASLHDKN  449 (509)
Q Consensus       375 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~---A~~~~~~m~~~~~~p--~~~~~~~li~~~~~~  449 (509)
                      .-........+.+-|.+....|. ++..+--.+..++.+..+...   +..+++++...+ .|  .....-.|.-++.+.
T Consensus        10 ~~~~~~~l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~ykl   87 (126)
T 1nzn_A           10 ELVSVEDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRL   87 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHT
T ss_pred             ccCCHHHHHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHh
Confidence            33333445555666665555443 566666667777777766555   777777776653 12  223344466778888


Q ss_pred             CChHHHHHHHHHHHHCCCCcCH
Q 047221          450 NNPVMAKNVLSEMMKNGLRPNV  471 (509)
Q Consensus       450 g~~~~a~~~~~~m~~~g~~p~~  471 (509)
                      |++++|.++++.+.+  +.|+.
T Consensus        88 g~Y~~A~~~~~~lL~--~eP~n  107 (126)
T 1nzn_A           88 KEYEKALKYVRGLLQ--TEPQN  107 (126)
T ss_dssp             TCHHHHHHHHHHHHH--HCTTC
T ss_pred             hhHHHHHHHHHHHHH--hCCCC
Confidence            888888888888877  55643

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=91.33  E-value=1.4  Score=46.06  Aligned_cols=125  Identities=6%  Similarity=-0.018  Sum_probs=78.3

Q ss_pred             HHHHHHHHHhccCC-HHHHHHHHHHhhhCCCccCHHHH--HHHHHHHHhccCCHHHHHHHHHHHHHc------CCCC-CH
Q 047221          197 ICSLVIDNCGRLDD-YETMRQLLNDFNVYQVCLNEKAF--GFLPVLISSKALTKKGIWRVVEVLNQV------GGSC-LV  266 (509)
Q Consensus       197 ~~~~li~~~~~~g~-~~~A~~l~~~m~~~~~~p~~~~~--~~ll~~~~~~~~~~~~a~~~~~~m~~~------g~~~-~~  266 (509)
                      .-..++..+...++ ++.|..+|+++....  |...++  ..++.........--+|.+++.+..+.      ...+ +.
T Consensus       250 L~~~Ll~~~~~t~~~~~~a~~~le~L~~~~--p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~  327 (754)
T 4gns_B          250 LMYSLKSFIAITPSLVDFTIDYLKGLTKKD--PIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDA  327 (754)
T ss_dssp             HHHHHHHHHHTCGGGHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCH
T ss_pred             HHHHHHHHHcccccHHHHHHHHHHHHHhhC--CchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccc
Confidence            33555666666666 588999999987764  333322  223331111222233555555444321      1111 11


Q ss_pred             ----------HHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHH
Q 047221          267 ----------SGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMR  323 (509)
Q Consensus       267 ----------~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  323 (509)
                                .....-..-+...|+++.|.++-++.    +.+-.+|..|..+|.+.|+++.|+-.++-+.
T Consensus       328 ~~~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          328 DSARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             ccccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence                      11222344466789999999998874    6678999999999999999999999998773

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=90.83  E-value=1.5  Score=34.20  Aligned_cols=94  Identities=7%  Similarity=-0.171  Sum_probs=66.0

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHH---HHHHHHHHHHCCCCc--CHHHHHHHHHHHH
Q 047221          408 IKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVM---AKNVLSEMMKNGLRP--NVSVYRRVLKHLH  482 (509)
Q Consensus       408 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~---a~~~~~~m~~~g~~p--~~~t~~~ll~~~~  482 (509)
                      ++.......+..+.+-|......|. ++..+--.+..++.+.....+   ++.++++....+ .|  .....-.|.-++.
T Consensus         8 l~~~~~~~~l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~y   85 (126)
T 1nzn_A            8 LNELVSVEDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNY   85 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHH
T ss_pred             HhccCCHHHHHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHH
Confidence            3333444456667777776666554 555555568888888887766   999999988764 23  2333444555889


Q ss_pred             hcCCHHHHHHHHHHHHhCCCC
Q 047221          483 TSHQEHMAKCLSSRYSSLSLG  503 (509)
Q Consensus       483 ~~g~~~~a~~~~~~m~~~~~~  503 (509)
                      +.|++++|.+.++.+.+..+.
T Consensus        86 klg~Y~~A~~~~~~lL~~eP~  106 (126)
T 1nzn_A           86 RLKEYEKALKYVRGLLQTEPQ  106 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTT
T ss_pred             HhhhHHHHHHHHHHHHHhCCC
Confidence            999999999999999887664

>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=90.78  E-value=2.7  Score=33.77  Aligned_cols=54  Identities=9%  Similarity=0.000  Sum_probs=27.3

Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCC
Q 047221          380 GKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSS  434 (509)
Q Consensus       380 g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p  434 (509)
                      ++.++|.++|+.+.+.+-+- ...|-...+--.+.|++.+|.+++......+.+|
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            45555555555554432121 4444444444455555666665555555554443

>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=90.61  E-value=2.7  Score=33.82  Aligned_cols=114  Identities=13%  Similarity=0.149  Sum_probs=74.3

Q ss_pred             CHHHHHHHHHHHHHcCCh------HHHHHHHHHHHHCCCCCCHH----HHHHHHH---HHHHcCCHHHHHHHHHHHHhCC
Q 047221          365 DAITYEIFIVYSCRVGKF------DVAFNFFNQMVKRGLQPRLA----THAAFIK---GYFIFYRYEDAYKYVVLSADKY  431 (509)
Q Consensus       365 ~~~~~~~li~~~~~~g~~------~~a~~~~~~m~~~g~~p~~~----~~~~li~---~~~~~g~~~~A~~~~~~m~~~~  431 (509)
                      |..+|-..+...-+.|+.      ++..++|++.... ++|+..    .|--|.-   .+...+++++|.++|+.+... 
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~-   89 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARAN-   89 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHH-
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH-
Confidence            455666666666666666      6777777766653 444321    1111110   113348899999999998765 


Q ss_pred             CCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHH
Q 047221          432 KSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHL  481 (509)
Q Consensus       432 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~  481 (509)
                      .+--...|-...+--.+.|+.++|.+++...+..+.+|. ..+.+.++-+
T Consensus        90 hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~-~~le~a~~nl  138 (161)
T 4h7y_A           90 CKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPL-EMLEIALRNL  138 (161)
T ss_dssp             CTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCH-HHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcH-HHHHHHHHhh
Confidence            333377777777777899999999999999998776654 4555555544

>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=90.10  E-value=0.66  Score=44.58  Aligned_cols=75  Identities=11%  Similarity=0.018  Sum_probs=56.2

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHH-----CCCCcCHHHHH
Q 047221          401 LATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMK-----NGLRPNVSVYR  475 (509)
Q Consensus       401 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~t~~  475 (509)
                      ..+...++..+...|+.++|...+..+.... ..+...|..+|.++.+.|+..+|++.|+++.+     .|+.|...+-.
T Consensus       171 ~~a~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~  249 (388)
T 2ff4_A          171 VLAHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  249 (388)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            4455667777888888888888887776543 44777888888888888888888888887654     48888876543


Q ss_pred             H
Q 047221          476 R  476 (509)
Q Consensus       476 ~  476 (509)
                      .
T Consensus       250 l  250 (388)
T 2ff4_A          250 L  250 (388)
T ss_dssp             H
T ss_pred             H
Confidence            3

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=88.70  E-value=1.7  Score=41.65  Aligned_cols=54  Identities=6%  Similarity=-0.079  Sum_probs=23.1

Q ss_pred             HHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHH
Q 047221          303 IKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEM  357 (509)
Q Consensus       303 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m  357 (509)
                      +..+...|++++|+..+..+.... +.+...|..+|.++.+.|+..+|++.|+..
T Consensus       178 ~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~  231 (388)
T 2ff4_A          178 AEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRV  231 (388)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            333444444444444444443322 233444444444444444444444444443

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=88.29  E-value=4.3  Score=42.30  Aligned_cols=26  Identities=4%  Similarity=-0.008  Sum_probs=15.7

Q ss_pred             HHHHHHHHhcCC-hHHHHHHHHHHHhC
Q 047221          335 NYVLGVLCKNGQ-DADACELLEEMLGR  360 (509)
Q Consensus       335 ~~li~~~~~~g~-~~~a~~~~~~m~~~  360 (509)
                      ..++..+...|+ .+.|..+|+++.+.
T Consensus       252 ~~Ll~~~~~t~~~~~~a~~~le~L~~~  278 (754)
T 4gns_B          252 YSLKSFIAITPSLVDFTIDYLKGLTKK  278 (754)
T ss_dssp             HHHHHHHHTCGGGHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcccccHHHHHHHHHHHHHhh
Confidence            344444444555 46677777777665

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=88.28  E-value=9.4  Score=42.33  Aligned_cols=146  Identities=12%  Similarity=0.033  Sum_probs=97.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCC---------------------
Q 047221          271 ALIEMFSVLGLYEMAKYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEP---------------------  329 (509)
Q Consensus       271 ~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p---------------------  329 (509)
                      .++..+.+.|..+.|.++..-.+.+...--.+..+|...|++++|.+.|.+.-. |+..                     
T Consensus       817 ~l~~~l~~~~~~~~~~~l~~~~~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~-~~~~~~~l~~~~~~~~~~~~~~~~~  895 (1139)
T 4fhn_B          817 ELVEKLFLFKQYNACMQLIGWLNSDPIAVYLKALIYLKSKEAVKAVRCFKTTSL-VLYSHTSQFAVLREFQEIAEKYHHQ  895 (1139)
T ss_dssp             HHHHHHHHHSCTTHHHHHHHHSCCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCC-SCTTCCCSCSSHHHHHHHHHTTTSC
T ss_pred             HHHHHHHHhhhHHHHHHHhhhccCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhh-hhcccchhhhhhccccccccccccc
Confidence            455556667777777776666677766666677788889999999999975421 1111                     


Q ss_pred             --ChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHH
Q 047221          330 --ITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDA----ITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLAT  403 (509)
Q Consensus       330 --~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~  403 (509)
                        -..-|.-++..+.+.|.++.+.+.-....+....-+.    ..|..+.+++...|++++|...+-.+.....+  ...
T Consensus       896 ~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r--~~c  973 (1139)
T 4fhn_B          896 NLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLK--KSC  973 (1139)
T ss_dssp             CSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSC--HHH
T ss_pred             ccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHH--HHH
Confidence              1123567777788888888887776655443211121    25788888889999999998888887766443  445


Q ss_pred             HHHHHHHHHHcCCHHH
Q 047221          404 HAAFIKGYFIFYRYED  419 (509)
Q Consensus       404 ~~~li~~~~~~g~~~~  419 (509)
                      ...||...|..|..+.
T Consensus       974 Lr~LV~~lce~~~~~~  989 (1139)
T 4fhn_B          974 LLDFVNQLTKQGKINQ  989 (1139)
T ss_dssp             HHHHHHHHHHHCCHHH
T ss_pred             HHHHHHHHHhCCChhh
Confidence            6667776666655444

>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=88.25  E-value=24  Score=35.89  Aligned_cols=116  Identities=9%  Similarity=-0.090  Sum_probs=68.7

Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHH----HHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHH
Q 047221          380 GKFDVAFNFFNQMVKRGLQPRLATHAAFIK----GYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMA  455 (509)
Q Consensus       380 g~~~~a~~~~~~m~~~g~~p~~~~~~~li~----~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a  455 (509)
                      .+.+.|...+....+.. ..+......+-.    .....+...++...+.......  .+.....-.+....+.|+++.|
T Consensus       228 ~d~~~A~~~~~~~~~~~-~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~e~~~r~Alr~~d~~~a  304 (618)
T 1qsa_A          228 QDAENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGTGDRRGL  304 (618)
T ss_dssp             HCHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHHTCHHHH
T ss_pred             cCHHHHHHHHHhhhhcc-CCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhccccC--CChHHHHHHHHHHHHCCCHHHH
Confidence            36788888888876543 234333332332    2333443455666666554433  2332233344444567999999


Q ss_pred             HHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 047221          456 KNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSS  499 (509)
Q Consensus       456 ~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~  499 (509)
                      .+.|+.|...... ...-.--+.+++...|+.++|..+|+.+..
T Consensus       305 ~~~~~~l~~~~~~-~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          305 NTWLARLPMEAKE-KDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHHSCTTGGG-SHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHccccccc-cHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            9999888653222 233233445677888999999999888764

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=85.82  E-value=27  Score=33.92  Aligned_cols=94  Identities=13%  Similarity=0.054  Sum_probs=50.8

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhC--CCCCC---HHHHHHHHHHHHHcCChHHHHHHHHHHHH----CCCCCC--HHH
Q 047221          335 NYVLGVLCKNGQDADACELLEEMLGR--NCHPD---AITYEIFIVYSCRVGKFDVAFNFFNQMVK----RGLQPR--LAT  403 (509)
Q Consensus       335 ~~li~~~~~~g~~~~a~~~~~~m~~~--g~~p~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~----~g~~p~--~~~  403 (509)
                      ..|...|...|++.+|.+++.++...  |....   +..|...+..|...+++..|..++.++..    ....|+  ...
T Consensus       141 ~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~  220 (445)
T 4b4t_P          141 KDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLKLEY  220 (445)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHH
Confidence            34555566666666666666665432  21111   23455556666667777777766666532    111222  133


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Q 047221          404 HAAFIKGYFIFYRYEDAYKYVVLSA  428 (509)
Q Consensus       404 ~~~li~~~~~~g~~~~A~~~~~~m~  428 (509)
                      +..++..+...+++.+|.+.|.+..
T Consensus       221 ~~~~~~~~~~e~~y~~a~~~y~e~~  245 (445)
T 4b4t_P          221 YNLLVKISLHKREYLEVAQYLQEIY  245 (445)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            4555666666677766666665554

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=85.37  E-value=4.1  Score=30.11  Aligned_cols=45  Identities=11%  Similarity=0.219  Sum_probs=25.0

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 047221          349 DACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMV  393 (509)
Q Consensus       349 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  393 (509)
                      ++.+-++.+....+.|+.....+.+.+|.+.+++..|.++|+-++
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            344445555555555555555555555555555555555555544

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=83.13  E-value=20  Score=39.72  Aligned_cols=146  Identities=13%  Similarity=0.043  Sum_probs=93.7

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC-----------------
Q 047221          337 VLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQP-----------------  399 (509)
Q Consensus       337 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-----------------  399 (509)
                      ++..+.+.|..+.+.++....     +-+....-.+-.+|...|++++|.+.|++... |+..                 
T Consensus       818 l~~~l~~~~~~~~~~~l~~~~-----~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~-~~~~~~~l~~~~~~~~~~~~~  891 (1139)
T 4fhn_B          818 LVEKLFLFKQYNACMQLIGWL-----NSDPIAVYLKALIYLKSKEAVKAVRCFKTTSL-VLYSHTSQFAVLREFQEIAEK  891 (1139)
T ss_dssp             HHHHHHHHSCTTHHHHHHHHS-----CCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCC-SCTTCCCSCSSHHHHHHHHHT
T ss_pred             HHHHHHHhhhHHHHHHHhhhc-----cCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhh-hhcccchhhhhhccccccccc
Confidence            444455566666665544322     22444444555677888999999999976421 1100                 


Q ss_pred             ------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCc
Q 047221          400 ------RLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSN----MLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRP  469 (509)
Q Consensus       400 ------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  469 (509)
                            -..-|..++..+.+.|..+.+.++-....+....-+.    ..|..+..++...|++++|...+-.+.+...+ 
T Consensus       892 ~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r-  970 (1139)
T 4fhn_B          892 YHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLK-  970 (1139)
T ss_dssp             TTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSC-
T ss_pred             ccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHH-
Confidence                  1123677888888888888888877665543222121    25788889999999999999988888775544 


Q ss_pred             CHHHHHHHHHHHHhcCCHHHH
Q 047221          470 NVSVYRRVLKHLHTSHQEHMA  490 (509)
Q Consensus       470 ~~~t~~~ll~~~~~~g~~~~a  490 (509)
                       ......|+..+++.|..+.-
T Consensus       971 -~~cLr~LV~~lce~~~~~~L  990 (1139)
T 4fhn_B          971 -KSCLLDFVNQLTKQGKINQL  990 (1139)
T ss_dssp             -HHHHHHHHHHHHHHCCHHHH
T ss_pred             -HHHHHHHHHHHHhCCChhhh
Confidence             34566677777776666554

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=82.79  E-value=36  Score=32.99  Aligned_cols=188  Identities=9%  Similarity=-0.007  Sum_probs=120.4

Q ss_pred             cCCccHHHHHHHHHHHc-----CCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHH----H
Q 047221          309 RCDFKGPRDLLVEMRQV-----GCEPITLTYNYVLGVLCKNGQDADACELLEEMLGR-NCHPDAITYEIFIVYSC----R  378 (509)
Q Consensus       309 ~g~~~~A~~~~~~m~~~-----g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~~~~~~~li~~~~----~  378 (509)
                      .|++++|++.+..+.+.     +..-.......++..|...|+++...+.+..+.+. |..+.  ....++..+.    .
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~--ai~~~V~~~~~~l~~  106 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKL--SIQYMIQKVMEYLKS  106 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHH--HHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHH--HHHHHHHHHHHHHhc
Confidence            36788999988777643     23445677888999999999999998887766554 33332  2334444332    2


Q ss_pred             cCChHHHH--HHHHHHH--HCC-CCC---CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCCCC---HHHHHHHHHH
Q 047221          379 VGKFDVAF--NFFNQMV--KRG-LQP---RLATHAAFIKGYFIFYRYEDAYKYVVLSADK--YKSSS---NMLYSLLASL  445 (509)
Q Consensus       379 ~g~~~~a~--~~~~~m~--~~g-~~p---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--~~~p~---~~~~~~li~~  445 (509)
                      ....+...  .+.+...  ..| +-.   .......|...|...|++.+|..++..+...  |....   ...|...+..
T Consensus       107 ~~~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl  186 (445)
T 4b4t_P          107 SKSLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMEL  186 (445)
T ss_dssp             HCTTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHH
T ss_pred             CCchhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            33332211  1111110  011 111   1233467888999999999999999987632  22221   2467778889


Q ss_pred             HHhCCChHHHHHHHHHHHH----CCCCcCH--HHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 047221          446 HDKNNNPVMAKNVLSEMMK----NGLRPNV--SVYRRVLKHLHTSHQEHMAKCLSSRYS  498 (509)
Q Consensus       446 ~~~~g~~~~a~~~~~~m~~----~g~~p~~--~t~~~ll~~~~~~g~~~~a~~~~~~m~  498 (509)
                      |...+++.+|..++++...    ....|+.  ..|...+..+...+++.+|.+.|.+.-
T Consensus       187 ~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~  245 (445)
T 4b4t_P          187 SILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIY  245 (445)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            9999999999999988743    2222222  356667777788899988887776654

>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=82.62  E-value=34  Score=32.53  Aligned_cols=237  Identities=8%  Similarity=-0.069  Sum_probs=130.8

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhhhC-CCcc---CHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCC-HH----
Q 047221          197 ICSLVIDNCGRLDDYETMRQLLNDFNVY-QVCL---NEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCL-VS----  267 (509)
Q Consensus       197 ~~~~li~~~~~~g~~~~A~~l~~~m~~~-~~~p---~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~----  267 (509)
                      +...|...|.+.|+.++..+++...... +..|   .......++..+....+..+.-.++..+..+..-.-. .+    
T Consensus        21 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~~~r~flr~~  100 (394)
T 3txn_A           21 GILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAKQEKRTFLRQS  100 (394)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5566777888888888888888776322 1111   3445556666555444545554554444443111111 11    


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHc----C-CC-----HHHHHHHHHHHHhcCCccHHHHHHHHHHHc--CCCCChHHHH
Q 047221          268 GVRALIEMFSVLGLYEMAKYVIKKT----E-RK-----VSYYNILIKEMCRRCDFKGPRDLLVEMRQV--GCEPITLTYN  335 (509)
Q Consensus       268 ~~~~li~~~~~~g~~~~A~~~~~~m----~-~~-----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~p~~~t~~  335 (509)
                      .-.-|+..|...|++.+|.+++.++    . .|     ...|-.-+..|...+++.++...+......  .+.++.....
T Consensus       101 l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~a  180 (394)
T 3txn_A          101 LEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQG  180 (394)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHHH
Confidence            1236888999999999998888876    1 12     456777788899999999999988876532  2323333322


Q ss_pred             HH--H--HHHH-hcCChHHHHHHHHHHHhC----CCC--CCHHHHHHHHHHHHHcCChHHHHHHHH-HHHHCCCCCCHHH
Q 047221          336 YV--L--GVLC-KNGQDADACELLEEMLGR----NCH--PDAITYEIFIVYSCRVGKFDVAFNFFN-QMVKRGLQPRLAT  403 (509)
Q Consensus       336 ~l--i--~~~~-~~g~~~~a~~~~~~m~~~----g~~--p~~~~~~~li~~~~~~g~~~~a~~~~~-~m~~~g~~p~~~~  403 (509)
                      .+  .  -.+. ..+++..|...|-+..+.    |..  .+...|..| .+..- ++..+...++. +....-..|....
T Consensus       181 ~i~~~~Gi~~l~~~rdyk~A~~~F~eaf~~f~~~~~~~~~~~lkYlvL-~aLl~-~~r~el~~~l~~~~~~~~~~pei~~  258 (394)
T 3txn_A          181 ALDLQSGILHAADERDFKTAFSYFYEAFEGFDSVDSVKALTSLKYMLL-CKIML-GQSDDVNQLVSGKLAITYSGRDIDA  258 (394)
T ss_dssp             HHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH-HHHHT-TCGGGHHHHHHSHHHHTTCSHHHHH
T ss_pred             HHHHHhhHHHHHhccCHHHHHHHHHHHHhcccccccHHHHHHHHHHHH-HHHHc-CCHHHHHHHhccccccccCCccHHH
Confidence            11  1  1234 678999988888765422    110  012234332 22222 23223222222 2111113455666


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHH
Q 047221          404 HAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNM  437 (509)
Q Consensus       404 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~  437 (509)
                      +..++.+| ..+++.....+++.... .+..|..
T Consensus       259 l~~L~~a~-~~~dl~~f~~iL~~~~~-~l~~D~~  290 (394)
T 3txn_A          259 MKSVAEAS-HKRSLADFQAALKEYKK-ELAEDVI  290 (394)
T ss_dssp             HHHHHHHH-HTTCHHHHHHHHHHSTT-TTTTSHH
T ss_pred             HHHHHHHH-HhCCHHHHHHHHHHHHH-HHhcChH
Confidence            66677765 45677777776665432 2334443

>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=82.48  E-value=13  Score=27.53  Aligned_cols=65  Identities=11%  Similarity=0.001  Sum_probs=46.4

Q ss_pred             HHhccC-CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHH
Q 047221          240 ISSKAL-TKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIK  304 (509)
Q Consensus       240 ~~~~~~-~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~  304 (509)
                      ++.+.+ +.-+..+-++.+......|+..+..+.+.+|.+.+++..|.++|+.+    +....+|..++.
T Consensus        18 ~F~~~~iD~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~~~~~iY~~~lq   87 (109)
T 1v54_E           18 YFNKPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVIQ   87 (109)
T ss_dssp             HHTCTTCCHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHHH
T ss_pred             HcCCcCccHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCchhhHHHHHH
Confidence            555554 45567777777777788888888888888888888888888888876    233344555443

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=81.50  E-value=61  Score=34.69  Aligned_cols=268  Identities=12%  Similarity=0.017  Sum_probs=139.4

Q ss_pred             HHhccCCHHHHHHHHHHhhhCCCccC-HHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCC-------CCCHHHHHHHHHH
Q 047221          204 NCGRLDDYETMRQLLNDFNVYQVCLN-EKAFGFLPVLISSKALTKKGIWRVVEVLNQVGG-------SCLVSGVRALIEM  275 (509)
Q Consensus       204 ~~~~~g~~~~A~~l~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~-------~~~~~~~~~li~~  275 (509)
                      +....|+.++++.+++.-...+-..+ ..--.+++.......|...++..++.......-       .+....-.+|.-+
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            45567788888777766543210112 223445555445455545566666665544221       1112222333333


Q ss_pred             HHhcCC-HHHHHHHHHH-c-CCCHHH--HHHHHHH--HHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHH--HHHhcCC
Q 047221          276 FSVLGL-YEMAKYVIKK-T-ERKVSY--YNILIKE--MCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLG--VLCKNGQ  346 (509)
Q Consensus       276 ~~~~g~-~~~A~~~~~~-m-~~~~~~--~~~li~~--~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~--~~~~~g~  346 (509)
                      ++-.|. -+++...+.. + ..+.++  ..++.-|  |+-.|+-+....++..+.+..   +..+...+.-  ++...|+
T Consensus       463 la~~GS~~eev~e~L~~~L~dd~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~---~e~vrR~aalgLGll~~g~  539 (963)
T 4ady_A          463 LAAMGSANIEVYEALKEVLYNDSATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ---HGNITRGLAVGLALINYGR  539 (963)
T ss_dssp             HHSTTCCCHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS---CHHHHHHHHHHHHHHTTTC
T ss_pred             HHhcCCCCHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHhhhCCC
Confidence            333342 2344444443 3 333221  2222223  445566666666666665431   3333333333  3446788


Q ss_pred             hHHHHHHHHHHHhCCCCCCHH-HHH---HHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 047221          347 DADACELLEEMLGRNCHPDAI-TYE---IFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYK  422 (509)
Q Consensus       347 ~~~a~~~~~~m~~~g~~p~~~-~~~---~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  422 (509)
                      .+.+..+.+.+...   .+.. -|.   ++..+|+..|+.....++++.+.+.. ..++.-...+.-++...|+.+.+.+
T Consensus       540 ~e~~~~li~~L~~~---~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~r  615 (963)
T 4ady_A          540 QELADDLITKMLAS---DESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPR  615 (963)
T ss_dssp             GGGGHHHHHHHHHC---SCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHH
T ss_pred             hHHHHHHHHHHHhC---CCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHH
Confidence            88888888887764   2332 233   23346777888888878888887652 2223322222223444677667777


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhCCCh-HHHHHHHHHHHHCCCCcCHHHHHHHHHHHH
Q 047221          423 YVVLSADKYKSSSNMLYSLLASLHDKNNNP-VMAKNVLSEMMKNGLRPNVSVYRRVLKHLH  482 (509)
Q Consensus       423 ~~~~m~~~~~~p~~~~~~~li~~~~~~g~~-~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~  482 (509)
                      +++.+.+.+ .|.+.--.++.-|....|.. .++++++..+..   -+|..+-..-+.++.
T Consensus       616 lv~~L~~~~-d~~VR~gAalALGli~aGn~~~~aid~L~~L~~---D~d~~Vrq~Ai~ALG  672 (963)
T 4ady_A          616 IVQLLSKSH-NAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK---DPVDFVRQAAMIALS  672 (963)
T ss_dssp             HTTTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT---CSSHHHHHHHHHHHH
T ss_pred             HHHHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc---CCCHHHHHHHHHHHH
Confidence            776665543 44454444455555556554 578888888864   245554444444444

>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=81.37  E-value=50  Score=33.60  Aligned_cols=22  Identities=9%  Similarity=0.076  Sum_probs=16.7

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHh
Q 047221          478 LKHLHTSHQEHMAKCLSSRYSS  499 (509)
Q Consensus       478 l~~~~~~g~~~~a~~~~~~m~~  499 (509)
                      +..+...|....|...+..+.+
T Consensus       388 ~~~L~~~g~~~~a~~ew~~~~~  409 (618)
T 1qsa_A          388 VRELMYWNLDNTARSEWANLVK  409 (618)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHCCChhhHHHHHHHHHh
Confidence            4567788888888888777665

---

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	509
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.78
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.76
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.46
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.45
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.08
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.05
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.01
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.97
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.94
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.94
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.81
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.74
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.64
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.61
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.44
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.44
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.41
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.29
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.1
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.09
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.07
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.04
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.02
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	97.99
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	97.97
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	97.93
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.88
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.86
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	97.72
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.71
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.54
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.48
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.44
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.44
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.41
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.37
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.33
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.33
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.31
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.28
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.25
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.22
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.19
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.18
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.13
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	96.97
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	96.94
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	96.91
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	96.82
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	96.72
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.69
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.63
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.59
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	95.77
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	95.57
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	95.42
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	94.89
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	94.85
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	87.77
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	83.16
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	82.41

>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=99.78  E-value=3.7e-15  Score=143.20  Aligned_cols=330  Identities=10%  Similarity=-0.027  Sum_probs=171.9

Q ss_pred             HHHHHHHHHHHhcCCc--hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHH
Q 047221          160 NASVIEILRVLNSEKV--SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLP  237 (509)
Q Consensus       160 ~~~~~~ll~~~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll  237 (509)
                      ...+..+-..+...|+  +|++.|+.+....|+   +..+|..+...|.+.|++++|.+.+.......... ........
T Consensus        33 ~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~---~~~a~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~~  108 (388)
T d1w3ba_          33 TGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPL---LAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDF-IDGYINLA  108 (388)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTC-HHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC---CHHHHHHHHHHhhhhcccccccccccccccccccc-cccccccc
Confidence            3444444444445553  566666666444553   23456666666666666666666666655433211 11111111


Q ss_pred             HHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCcc
Q 047221          238 VLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFK  313 (509)
Q Consensus       238 ~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~  313 (509)
                      ........ ...+........... .................+....+...+.+.    +.+...+..+...+...|+++
T Consensus       109 ~~~~~~~~-~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  186 (388)
T d1w3ba_         109 AALVAAGD-MEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIW  186 (388)
T ss_dssp             HHHHHHSC-SSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHH
T ss_pred             cccccccc-ccccccccccccccc-cccccccccccccccccchhhhhHHHHHHhhccCcchhHHHHhhcccccccCcHH
Confidence            11111111 222222222211111 111122223333333444444444443332    334555666666666666666


Q ss_pred             HHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 047221          314 GPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMV  393 (509)
Q Consensus       314 ~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  393 (509)
                      +|...+++..+.. +-+...|..+...+...|++++|...+......+ +.+...+..+...+.+.|++++|...|++..
T Consensus       187 ~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al  264 (388)
T d1w3ba_         187 LAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAI  264 (388)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            6666666665542 2234556666666666666666666666665542 2345555556666666666666666666665


Q ss_pred             HCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCc-CHH
Q 047221          394 KRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRP-NVS  472 (509)
Q Consensus       394 ~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~  472 (509)
                      +.. +-+..++..+...|...|++++|.+.++...... ..+...+..+...+.+.|++++|++.|++..+.  .| +..
T Consensus       265 ~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~  340 (388)
T d1w3ba_         265 ELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEV--FPEFAA  340 (388)
T ss_dssp             HTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS--CTTCHH
T ss_pred             HhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHH
Confidence            542 2245566666666666666666666666555432 334555666666666666666666666666542  33 344


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 047221          473 VYRRVLKHLHTSHQEHMAKCLSSRYSSLS  501 (509)
Q Consensus       473 t~~~ll~~~~~~g~~~~a~~~~~~m~~~~  501 (509)
                      ++..+..+|.+.|++++|.+.+++..+..
T Consensus       341 ~~~~la~~~~~~g~~~~A~~~~~~al~l~  369 (388)
T d1w3ba_         341 AHSNLASVLQQQGKLQEALMHYKEAIRIS  369 (388)
T ss_dssp             HHHHHHHHHHTTTCCHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            55666666666666666666666665543

>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=99.76  E-value=1.7e-14  Score=138.42  Aligned_cols=316  Identities=12%  Similarity=-0.004  Sum_probs=246.7

Q ss_pred             CHHHHHHHHHHHhcCCc--hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHH
Q 047221          159 SNASVIEILRVLNSEKV--SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFL  236 (509)
Q Consensus       159 ~~~~~~~ll~~~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~l  236 (509)
                      +...+..+-..+...|+  +|++.+.......|...   ..+..........+....+.................... .
T Consensus        66 ~~~a~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~  141 (388)
T d1w3ba_          66 LAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFI---DGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSD-L  141 (388)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCH---HHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHH-H
T ss_pred             CHHHHHHHHHHhhhhccccccccccccccccccccc---ccccccccccccccccccccccccccccccccccccccc-c
Confidence            45677777777887775  89999999955555432   244555555555666666665555554444333333332 2


Q ss_pred             HHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCc
Q 047221          237 PVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDF  312 (509)
Q Consensus       237 l~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~  312 (509)
                      .. .....+....+...+....... +.+...+..+...+...|++++|...+++.    +.+..+|..+...+...|++
T Consensus       142 ~~-~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~  219 (388)
T d1w3ba_         142 GN-LLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIF  219 (388)
T ss_dssp             HH-HHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCT
T ss_pred             cc-cccccchhhhhHHHHHHhhccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccH
Confidence            22 3334455777777777776544 445678889999999999999999999875    45688999999999999999


Q ss_pred             cHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHH
Q 047221          313 KGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQM  392 (509)
Q Consensus       313 ~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  392 (509)
                      ++|+..+++....+ ..+...+..+...+.+.|++++|...|++..+.. +-+..++..+...+.+.|++++|...++..
T Consensus       220 ~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  297 (388)
T d1w3ba_         220 DRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTA  297 (388)
T ss_dssp             THHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhHHHh-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhh
Confidence            99999999998765 5567788889999999999999999999988862 335778999999999999999999999998


Q ss_pred             HHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcC-H
Q 047221          393 VKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPN-V  471 (509)
Q Consensus       393 ~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~  471 (509)
                      ... .+.+...+..+...|.+.|++++|.+.|++..+.. +-+..+|..+...|.+.|++++|++.|++..+  +.|+ .
T Consensus       298 ~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--l~P~~~  373 (388)
T d1w3ba_         298 LRL-CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPTFA  373 (388)
T ss_dssp             HHH-CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT--TCTTCH
T ss_pred             hcc-CCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCH
Confidence            876 35678889999999999999999999999987653 23567788899999999999999999999987  4564 5


Q ss_pred             HHHHHHHHHHHhcCC
Q 047221          472 SVYRRVLKHLHTSHQ  486 (509)
Q Consensus       472 ~t~~~ll~~~~~~g~  486 (509)
                      ..|..+..+|.+.|+
T Consensus       374 ~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         374 DAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHcCC
Confidence            678888888887775

>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=99.46  E-value=1.5e-11  Score=115.09  Aligned_cols=217  Identities=11%  Similarity=-0.057  Sum_probs=134.4

Q ss_pred             ccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHH
Q 047221          243 KALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDL  318 (509)
Q Consensus       243 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~  318 (509)
                      ..|++++|...|+.+.+.. +-+..+|..+..+|...|++++|...|++.    +.+...|..+...|...|++++|.+.
T Consensus        31 ~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~  109 (323)
T d1fcha_          31 QEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEI  109 (323)
T ss_dssp             HTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccccccccccccccccccccccccccccc
Confidence            4455888888888877654 335667777788888888888888777764    44567777777788888888888888


Q ss_pred             HHHHHHcCCCCChH----------------HHHHHHHHHHhcCChHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHHcCC
Q 047221          319 LVEMRQVGCEPITL----------------TYNYVLGVLCKNGQDADACELLEEMLGRN-CHPDAITYEIFIVYSCRVGK  381 (509)
Q Consensus       319 ~~~m~~~g~~p~~~----------------t~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~~~~~~~li~~~~~~g~  381 (509)
                      +++.....  |+..                .....+..+...+..++|.+.+....+.. -..+...+..+...+...|+
T Consensus       110 ~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~  187 (323)
T d1fcha_         110 LRDWLRYT--PAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGE  187 (323)
T ss_dssp             HHHHHHTS--TTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTC
T ss_pred             hhhHHHhc--cchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHH
Confidence            87776542  2211                11112222334455556666666554431 12345556666666666677


Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHH
Q 047221          382 FDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSE  461 (509)
Q Consensus       382 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  461 (509)
                      +++|...|++..... +-+...|..+..+|.+.|++++|.+.|++..+.. +-+...|..+..+|.+.|++++|++.|++
T Consensus       188 ~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~  265 (323)
T d1fcha_         188 YDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLE  265 (323)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             Hhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHh-hccHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            777777766665542 2245566666666667777777777766665532 12344566666666667777777777666


Q ss_pred             HHH
Q 047221          462 MMK  464 (509)
Q Consensus       462 m~~  464 (509)
                      .++
T Consensus       266 al~  268 (323)
T d1fcha_         266 ALN  268 (323)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            655

>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=99.45  E-value=4.9e-11  Score=111.49  Aligned_cols=224  Identities=8%  Similarity=-0.028  Sum_probs=176.2

Q ss_pred             HHHHHHhccCCHHHHHHHHHHhhhCCCccC-HHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Q 047221          200 LVIDNCGRLDDYETMRQLLNDFNVYQVCLN-EKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSV  278 (509)
Q Consensus       200 ~li~~~~~~g~~~~A~~l~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  278 (509)
                      -....+.+.|++++|...|+++.+..  |+ ...|..+.. +....|++++|...+.+..+.. +-+...+..+..+|..
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~lg~-~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~   99 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQD--PKHMEAWQYLGT-TQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTN   99 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSC--TTCHHHHHHHHH-HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHH-HHHHcCChHHHHHHHHhhhccc-cccccccccccccccc
Confidence            45566889999999999999998764  54 556666655 5555666999999999998765 4467888999999999


Q ss_pred             cCCHHHHHHHHHHc---CCC----------------HHHHHHHHHHHHhcCCccHHHHHHHHHHHcC-CCCChHHHHHHH
Q 047221          279 LGLYEMAKYVIKKT---ERK----------------VSYYNILIKEMCRRCDFKGPRDLLVEMRQVG-CEPITLTYNYVL  338 (509)
Q Consensus       279 ~g~~~~A~~~~~~m---~~~----------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~t~~~li  338 (509)
                      .|++++|.+.+++.   .|+                .......+..+...+.+.+|.+.|.+..+.. -..+..++..+.
T Consensus       100 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~  179 (323)
T d1fcha_         100 ESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLG  179 (323)
T ss_dssp             TTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHH
T ss_pred             cccccccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhH
Confidence            99999999999885   221                1112223344556677888999998877543 234567888889


Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHH
Q 047221          339 GVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYE  418 (509)
Q Consensus       339 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  418 (509)
                      ..+...|++++|...|++..+.. +-+...|..+...|.+.|++++|.+.|++..+.. +-+..+|..+..+|.+.|+++
T Consensus       180 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~  257 (323)
T d1fcha_         180 VLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHR  257 (323)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHh-hccHHHHHHHHHHHHHCCCHH
Confidence            99999999999999999988752 3357789999999999999999999999988753 235778999999999999999


Q ss_pred             HHHHHHHHHHh
Q 047221          419 DAYKYVVLSAD  429 (509)
Q Consensus       419 ~A~~~~~~m~~  429 (509)
                      +|.+.|++..+
T Consensus       258 ~A~~~~~~al~  268 (323)
T d1fcha_         258 EAVEHFLEALN  268 (323)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999998765

>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=99.08  E-value=7.2e-08  Score=89.93  Aligned_cols=266  Identities=12%  Similarity=-0.006  Sum_probs=143.9

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhhhCCCccC----HHHHHHHHHHHHhccCCHHHHHHHHHHHHHcC----CCC-CHHH
Q 047221          198 CSLVIDNCGRLDDYETMRQLLNDFNVYQVCLN----EKAFGFLPVLISSKALTKKGIWRVVEVLNQVG----GSC-LVSG  268 (509)
Q Consensus       198 ~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~----~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g----~~~-~~~~  268 (509)
                      .......+...|++++|++++++..+..-..+    ...+..+-. ++...|++++|...++...+..    ..+ ....
T Consensus        15 ~~lrA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~-~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~   93 (366)
T d1hz4a_          15 NALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGE-VLHCKGELTRSLALMQQTEQMARQHDVWHYALWS   93 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHH-HHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHH-HHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHH
Confidence            33344556677888888888877765421111    123333333 3334444777777777665421    111 1233


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHc-------C-C----CHHHHHHHHHHHHhcCCccHHHHHHHHHHHcC----CCCChH
Q 047221          269 VRALIEMFSVLGLYEMAKYVIKKT-------E-R----KVSYYNILIKEMCRRCDFKGPRDLLVEMRQVG----CEPITL  332 (509)
Q Consensus       269 ~~~li~~~~~~g~~~~A~~~~~~m-------~-~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g----~~p~~~  332 (509)
                      +..+...|...|++..|...+.+.       . +    ....+..+...+...|+++.+...+.......    ......
T Consensus        94 ~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  173 (366)
T d1hz4a_          94 LIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQ  173 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHH
Confidence            455666667777777776666542       0 1    12344455566666777777777776655432    112233


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhC----CCCCC--HHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC---CHHH
Q 047221          333 TYNYVLGVLCKNGQDADACELLEEMLGR----NCHPD--AITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQP---RLAT  403 (509)
Q Consensus       333 t~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p---~~~~  403 (509)
                      ++..+...+...|+...+...+.+....    +..+.  ...+..+...+...|+.++|...+++..+.....   ....
T Consensus       174 ~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  253 (366)
T d1hz4a_         174 CLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQ  253 (366)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHH
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHH
Confidence            4455555566667777666666554332    11111  1234444555666677777777666654332111   2344


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHh----CCCCCC-HHHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 047221          404 HAAFIKGYFIFYRYEDAYKYVVLSAD----KYKSSS-NMLYSLLASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       404 ~~~li~~~~~~g~~~~A~~~~~~m~~----~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      +..+..+|...|++++|...++....    .+..|+ ...+..+...|.+.|++++|.+.+++..+
T Consensus       254 ~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         254 WRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            55566667777777777777665542    222222 23555666667777777777777776654

>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=99.05  E-value=6.5e-08  Score=89.19  Aligned_cols=167  Identities=8%  Similarity=0.002  Sum_probs=74.5

Q ss_pred             HHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 047221          296 VSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVY  375 (509)
Q Consensus       296 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  375 (509)
                      ...|...+..+.+.|++++|..+|+++.+.........|...+..+.+.|+++.|.++|+...+.+.. +...|......
T Consensus        99 ~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~-~~~~~~~~a~~  177 (308)
T d2onda1          99 MLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALM  177 (308)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTC-CTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-cHHHHHHHHHH
Confidence            44455555555555555555555555543321111234455555555555555555555555444211 22222222111


Q ss_pred             -HHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCC--HHHHHHHHHHHHhCCC
Q 047221          376 -SCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKY-KSSS--NMLYSLLASLHDKNNN  451 (509)
Q Consensus       376 -~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-~~p~--~~~~~~li~~~~~~g~  451 (509)
                       +...|+.+.|..+|+.+.+. .+.+...|...++.+.+.|+++.|..+|++..... ..|.  ...|...+.--...|+
T Consensus       178 e~~~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~  256 (308)
T d2onda1         178 EYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGD  256 (308)
T ss_dssp             HHHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSC
T ss_pred             HHHhccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCC
Confidence             22234555555555555443 12234445555555555555555555555544332 1221  2344444444444555


Q ss_pred             hHHHHHHHHHHHH
Q 047221          452 PVMAKNVLSEMMK  464 (509)
Q Consensus       452 ~~~a~~~~~~m~~  464 (509)
                      .+.+.++++++.+
T Consensus       257 ~~~~~~~~~r~~~  269 (308)
T d2onda1         257 LASILKVEKRRFT  269 (308)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            5555555554443

>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=99.01  E-value=1.3e-07  Score=88.07  Aligned_cols=257  Identities=13%  Similarity=0.023  Sum_probs=167.9

Q ss_pred             cCCc--hHHHHHHHhhccCCCCcc--ChhHHHHHHHHHhccCCHHHHHHHHHHhhhCC----CccCHH-HHHHHHHHHHh
Q 047221          172 SEKV--SALCFLKYMREIMPEFYK--NSDICSLVIDNCGRLDDYETMRQLLNDFNVYQ----VCLNEK-AFGFLPVLISS  242 (509)
Q Consensus       172 ~~~~--~A~~~~~~~~~~~p~~~~--~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~----~~p~~~-~~~~ll~~~~~  242 (509)
                      ..|+  +|+++++......|+...  ...+++.+...+...|++++|...|++.....    ..+... .+..+.. ...
T Consensus        24 ~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~-~~~  102 (366)
T d1hz4a_          24 NDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSE-ILF  102 (366)
T ss_dssp             HTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-HHH
T ss_pred             HCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHH-HHH
Confidence            4554  788998888556665321  12356777788888899999999988875532    112111 2222222 344


Q ss_pred             ccCCHHHHHHHHHHHHHc----CCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHc----C-----CCHHHHHHHHHHH
Q 047221          243 KALTKKGIWRVVEVLNQV----GGSCL---VSGVRALIEMFSVLGLYEMAKYVIKKT----E-----RKVSYYNILIKEM  306 (509)
Q Consensus       243 ~~~~~~~a~~~~~~m~~~----g~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m----~-----~~~~~~~~li~~~  306 (509)
                      ..+++..+...+......    +....   ...+..+...|...|+++.+...++..    +     ....++..+...+
T Consensus       103 ~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  182 (366)
T d1hz4a_         103 AQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCS  182 (366)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHH
Confidence            556688888888776541    11111   234566778888889999888888774    1     1245666677778


Q ss_pred             HhcCCccHHHHHHHHHHHcC--CCCC----hHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC---CHHHHHHHHHHHH
Q 047221          307 CRRCDFKGPRDLLVEMRQVG--CEPI----TLTYNYVLGVLCKNGQDADACELLEEMLGRNCHP---DAITYEIFIVYSC  377 (509)
Q Consensus       307 ~~~g~~~~A~~~~~~m~~~g--~~p~----~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p---~~~~~~~li~~~~  377 (509)
                      ...++..++...+.+.....  ....    ...+..+...+...|+.++|...+....+.....   ....+..+..++.
T Consensus       183 ~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~  262 (366)
T d1hz4a_         183 LARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQI  262 (366)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHH
T ss_pred             HhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHH
Confidence            88888888888887655421  1111    2344556667788889999888888766542221   2445666777888


Q ss_pred             HcCChHHHHHHHHHHHH----CCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 047221          378 RVGKFDVAFNFFNQMVK----RGLQPR-LATHAAFIKGYFIFYRYEDAYKYVVLSAD  429 (509)
Q Consensus       378 ~~g~~~~a~~~~~~m~~----~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~  429 (509)
                      ..|++++|...+++...    .+..|+ ..++..+..+|.+.|++++|.+.+++..+
T Consensus       263 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         263 LLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            88999999888887753    233333 35677788888889999999988876543

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.97  E-value=1.1e-07  Score=87.97  Aligned_cols=202  Identities=6%  Similarity=-0.041  Sum_probs=122.1

Q ss_pred             HHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccH
Q 047221          240 ISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLG-LYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKG  314 (509)
Q Consensus       240 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~  314 (509)
                      +..+.+..++|+.+++.+.+.. +-+...|+....++...| ++++|...+++.    +.+..+|+.+...+.+.|++++
T Consensus        52 ~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~~~l~~~~e  130 (315)
T d2h6fa1          52 VLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEWLRDPSQ  130 (315)
T ss_dssp             HHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTT
T ss_pred             HHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHHHHhhccHHH
Confidence            4555566777777777777754 444556677777776665 477777777664    4557777777777777777777


Q ss_pred             HHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCC------hHHHHHH
Q 047221          315 PRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGK------FDVAFNF  388 (509)
Q Consensus       315 A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~------~~~a~~~  388 (509)
                      |++.++++.+.. +-+...|..+...+.+.|++++|++.++.+.+.. +-+...|+.+...+.+.+.      +++|...
T Consensus       131 Al~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~~~~~~~~~~ai~~  208 (315)
T d2h6fa1         131 ELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDRAVLEREVQY  208 (315)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHH
T ss_pred             HHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHHHccccchhhhhHHhHHH
Confidence            777777777653 4456677777777777777777777777776652 2245566665555555444      4566666


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHH
Q 047221          389 FNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKS-SSNMLYSLLASLH  446 (509)
Q Consensus       389 ~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-p~~~~~~~li~~~  446 (509)
                      +.+..+.. +-+...|+.+...+... ..+++.+.++...+.... .+...+..++..|
T Consensus       209 ~~~al~~~-P~~~~~~~~l~~ll~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y  265 (315)
T d2h6fa1         209 TLEMIKLV-PHNESAWNYLKGILQDR-GLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIY  265 (315)
T ss_dssp             HHHHHHHS-TTCHHHHHHHHHHHTTT-CGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHH
T ss_pred             HHHHHHhC-CCchHHHHHHHHHHHhc-ChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHH
Confidence            66665542 22455565555444333 345555555555443222 2333444444444

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.94  E-value=2.2e-07  Score=85.50  Aligned_cols=180  Identities=13%  Similarity=-0.000  Sum_probs=82.1

Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCC-HHHHHHHHHHHHhcCCccHHHHHHHHH
Q 047221          248 KGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERK-VSYYNILIKEMCRRCDFKGPRDLLVEM  322 (509)
Q Consensus       248 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m  322 (509)
                      +++..+++...+...+.+...|...+..+.+.|+++.|..+|+++    +.+ ...|...+....+.|+.++|.++|+++
T Consensus        81 ~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~a  160 (308)
T d2onda1          81 DEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKA  160 (308)
T ss_dssp             HHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            344445554444333334444445555555555555555555543    112 234555555555555555555555555


Q ss_pred             HHcCCCCChHHHHHHHHH-HHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCC-CCCC
Q 047221          323 RQVGCEPITLTYNYVLGV-LCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRG-LQPR  400 (509)
Q Consensus       323 ~~~g~~p~~~t~~~li~~-~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~  400 (509)
                      .+.+ +.+...|...... +...|+.+.|.++|+.+.+. .+.+...|...+..+.+.|+.+.|..+|++..+.. ..|+
T Consensus       161 l~~~-~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~  238 (308)
T d2onda1         161 REDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPE  238 (308)
T ss_dssp             HTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGG
T ss_pred             HHhC-CCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChH
Confidence            4432 1222222222211 22234555555555555443 22234445555555555555555555555544432 2221


Q ss_pred             --HHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 047221          401 --LATHAAFIKGYFIFYRYEDAYKYVVLSAD  429 (509)
Q Consensus       401 --~~~~~~li~~~~~~g~~~~A~~~~~~m~~  429 (509)
                        ...|...+..-...|+.+.+..+++++.+
T Consensus       239 ~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         239 KSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             GCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence              23445455444455555555555554433

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.94  E-value=4.4e-07  Score=83.68  Aligned_cols=212  Identities=9%  Similarity=-0.058  Sum_probs=153.5

Q ss_pred             hHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHH-HHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 047221          196 DICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEK-AFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIE  274 (509)
Q Consensus       196 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~-~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~  274 (509)
                      .+|+.+-..+.+.+.+++|+++++++.+.  .|+.. .|+..-.++...++++++|...++...+.. +-+..+|+.+..
T Consensus        44 ~a~~~~~~~~~~~e~~~~Al~~~~~ai~l--nP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~  120 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERSERAFKLTRDAIEL--NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRV  120 (315)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHH--CCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhH
Confidence            36677777777888888888888888765  35444 445444433333445888888888887765 445778888899


Q ss_pred             HHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCC----
Q 047221          275 MFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQ----  346 (509)
Q Consensus       275 ~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~----  346 (509)
                      .+.+.|++++|...++++    +.+..+|+.+...+.+.|++++|++.|+++.+.. +-+...|+.+...+.+.+.    
T Consensus       121 ~~~~l~~~~eAl~~~~kal~~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~~~~~  199 (315)
T d2h6fa1         121 LVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDR  199 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHHhhccHHHHHHHHhhhhhhhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHHHccccchh
Confidence            999999999999999886    5678999999999999999999999999998875 4567778877777666665    


Q ss_pred             --hHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHH
Q 047221          347 --DADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQ-PRLATHAAFIKGYFI  413 (509)
Q Consensus       347 --~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-p~~~~~~~li~~~~~  413 (509)
                        +++|.+.+....+.. +-+...|+-+...+.. ...+++.+.++...+.... .+...+..++..|..
T Consensus       200 ~~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~  267 (315)
T d2h6fa1         200 AVLEREVQYTLEMIKLV-PHNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYED  267 (315)
T ss_dssp             HHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHH
T ss_pred             hhhHHhHHHHHHHHHhC-CCchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHH
Confidence              567888888777752 3367777776655544 4467778888777654322 245566666666644

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=98.81  E-value=2.3e-07  Score=82.69  Aligned_cols=195  Identities=10%  Similarity=-0.003  Sum_probs=131.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHH
Q 047221          267 SGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLC  342 (509)
Q Consensus       267 ~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~  342 (509)
                      .++..+..+|.+.|++++|...|++.    +.+..+|+.+..+|.+.|++++|++.|++..+.. +-+..++..+..+|.
T Consensus        38 ~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~  116 (259)
T d1xnfa_          38 QLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIALY  116 (259)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHH-hhhhhhHHHHHHHHH
Confidence            46677888999999999999999885    5678899999999999999999999999988764 345667888888999


Q ss_pred             hcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC----HH
Q 047221          343 KNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYR----YE  418 (509)
Q Consensus       343 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~----~~  418 (509)
                      ..|++++|.+.|+...+.. +.+......+..++.+.+..+.+..+..........+  ..++ ++..+.....    .+
T Consensus       117 ~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~-~~~~~~~~~~~~~~~~  192 (259)
T d1xnfa_         117 YGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQ--WGWN-IVEFYLGNISEQTLME  192 (259)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCS--THHH-HHHHHTTSSCHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccchhh--hhhh-HHHHHHHHHHHHHHHH
Confidence            9999999999999888763 2345444444555666666666666666655543222  1222 2233322222    22


Q ss_pred             HHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcC
Q 047221          419 DAYKYVVLSADKYKSS-SNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPN  470 (509)
Q Consensus       419 ~A~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  470 (509)
                      .+...+......  .| ...+|..+...|...|++++|++.|++.+..  .|+
T Consensus       193 ~~~~~~~~~~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~  241 (259)
T d1xnfa_         193 RLKADATDNTSL--AEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN--NVH  241 (259)
T ss_dssp             HHHHHCCSHHHH--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CCT
T ss_pred             HHHHHHHHhhhc--CcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc--CCC
Confidence            222221111110  11 2235677888899999999999999998863  454

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=98.74  E-value=1.7e-07  Score=83.65  Aligned_cols=201  Identities=8%  Similarity=-0.113  Sum_probs=142.3

Q ss_pred             HHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 047221          296 VSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVY  375 (509)
Q Consensus       296 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  375 (509)
                      ..+|..+...|.+.|++++|++.|++..+.. +-+..+|..+..+|.+.|++++|.+.|++..+.. +-+..++..+..+
T Consensus        37 a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~  114 (259)
T d1xnfa_          37 AQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIA  114 (259)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHH-hhhhhhHHHHHHH
Confidence            4577788899999999999999999998764 4567889999999999999999999999999863 2346678888899


Q ss_pred             HHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCCh---
Q 047221          376 SCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNP---  452 (509)
Q Consensus       376 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~---  452 (509)
                      |...|++++|...|++..+.. +.+......+..++.+.+..+.+..+..........+..  ++ ++..+......   
T Consensus       115 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~-~~~~~~~~~~~~~~  190 (259)
T d1xnfa_         115 LYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWG--WN-IVEFYLGNISEQTL  190 (259)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCSTH--HH-HHHHHTTSSCHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccchhhhh--hh-HHHHHHHHHHHHHH
Confidence            999999999999999988764 334555555556666777766666666666554433332  22 22222222111   


Q ss_pred             -HHHHHHHHHHHHCCCCcC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 047221          453 -VMAKNVLSEMMKNGLRPN-VSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSLGS  504 (509)
Q Consensus       453 -~~a~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~~  504 (509)
                       +.+...+.....  ..|+ ..+|..+...+...|++++|.+.+++..+..+..
T Consensus       191 ~~~~~~~~~~~~~--~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~  242 (259)
T d1xnfa_         191 MERLKADATDNTS--LAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHN  242 (259)
T ss_dssp             HHHHHHHCCSHHH--HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTT
T ss_pred             HHHHHHHHHHhhh--cCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCC
Confidence             112111111111  1222 2366678888999999999999999998877654

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.64  E-value=1.3e-07  Score=88.22  Aligned_cols=215  Identities=9%  Similarity=-0.075  Sum_probs=115.9

Q ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcC--CHHHHHHHHHHc----CCCHHHHHHHH-HHHHhcCCccHHHHHH
Q 047221          247 KKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLG--LYEMAKYVIKKT----ERKVSYYNILI-KEMCRRCDFKGPRDLL  319 (509)
Q Consensus       247 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g--~~~~A~~~~~~m----~~~~~~~~~li-~~~~~~g~~~~A~~~~  319 (509)
                      +++|..+++...+.. +-+...|..+..++...+  ++++|...+++.    +++...|...+ ..+...+.+++|+..+
T Consensus        89 ~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al~~~  167 (334)
T d1dcea1          89 VKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFT  167 (334)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHHHHH
Confidence            445555555555432 233444444444444443  355555555553    33444443332 4444556666666666


Q ss_pred             HHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCC
Q 047221          320 VEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQP  399 (509)
Q Consensus       320 ~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  399 (509)
                      ++..+.. +-+...|+.+...+.+.|++++|...+....+.  .|+   ...+...+...+..+++...+....... .+
T Consensus       168 ~~~i~~~-p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~-~~  240 (334)
T d1dcea1         168 DSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGR-AE  240 (334)
T ss_dssp             HTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSC-CC
T ss_pred             HHHHHcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhC-cc
Confidence            6555543 234555566666666666655554333322221  000   1112233445566666776666666553 23


Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHH
Q 047221          400 RLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVS  472 (509)
Q Consensus       400 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  472 (509)
                      +...+..+...+...|+.++|...+.+..... +-+...|..+...|...|+.++|++.+++..+  +.|+..
T Consensus       241 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~--ldP~~~  310 (334)
T d1dcea1         241 PLFRCELSVEKSTVLQSELESCKELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKA--VDPMRA  310 (334)
T ss_dssp             CSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHH--HCGGGH
T ss_pred             hhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--HCcccH
Confidence            34455556666677777777777777665442 11345666677777778888888888888776  456443

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.61  E-value=1.4e-07  Score=87.86  Aligned_cols=249  Identities=6%  Similarity=-0.058  Sum_probs=172.6

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHH---H-------HHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhc
Q 047221          244 ALTKKGIWRVVEVLNQVGGSCLVSGVRALI---E-------MFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRR  309 (509)
Q Consensus       244 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li---~-------~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~  309 (509)
                      +...++|..+++...+.. +-+...|+..-   .       .+...|.+++|..+++..    +.+...|..+..++...
T Consensus        42 ~~~~~~al~~~~~~l~~~-P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~pk~~~~~~~~~~~~~~~  120 (334)
T d1dcea1          42 GELDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRL  120 (334)
T ss_dssp             TCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTC
T ss_pred             ccccHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhCCCcHHHHHHhhHHHHHh
Confidence            333456666666665533 11222332211   2       233445678888888775    56788898888888877


Q ss_pred             CC--ccHHHHHHHHHHHcCCCCChHHHH-HHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHH
Q 047221          310 CD--FKGPRDLLVEMRQVGCEPITLTYN-YVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAF  386 (509)
Q Consensus       310 g~--~~~A~~~~~~m~~~g~~p~~~t~~-~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~  386 (509)
                      ++  +++|+..+.++.+.. +.+...+. .....+...|..++|+..++...+.. +-+...|+.+...+.+.|++++|.
T Consensus       121 ~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~-p~~~~a~~~l~~~~~~~~~~~~A~  198 (334)
T d1dcea1         121 PEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSG  198 (334)
T ss_dssp             SSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSS
T ss_pred             ccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCHHHHH
Confidence            65  789999999998764 34556554 44467778899999999999888874 346888999999999999998887


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCC
Q 047221          387 NFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNG  466 (509)
Q Consensus       387 ~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  466 (509)
                      ..++...+.    ... ...+...+...+..+++...+........ ++...+..+...+...|+.++|++.+.+.....
T Consensus       199 ~~~~~~~~~----~~~-~~~~~~~~~~l~~~~~a~~~~~~~l~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  272 (334)
T d1dcea1         199 PQGRLPENV----LLK-ELELVQNAFFTDPNDQSAWFYHRWLLGRA-EPLFRCELSVEKSTVLQSELESCKELQELEPEN  272 (334)
T ss_dssp             SCCSSCHHH----HHH-HHHHHHHHHHHCSSCSHHHHHHHHHHSCC-CCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHhHHh----HHH-HHHHHHHHHHhcchhHHHHHHHHHHHhCc-chhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhC
Confidence            666544332    111 12233445566777778888877766542 333445567777788899999999999887642


Q ss_pred             CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 047221          467 LRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSL  502 (509)
Q Consensus       467 ~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~  502 (509)
                       +-+...+..+..++.+.|++++|.+.+++..+.++
T Consensus       273 -p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP  307 (334)
T d1dcea1         273 -KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDP  307 (334)
T ss_dssp             -HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCG
T ss_pred             -chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCc
Confidence             22445777888889999999999999999988655

>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=98.44  E-value=6.9e-06  Score=74.43  Aligned_cols=195  Identities=10%  Similarity=-0.033  Sum_probs=124.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHc------CCC----HHHHHHHHHHHHhcCCccHHHHHHHHHHHc----CC-CCChHH
Q 047221          269 VRALIEMFSVLGLYEMAKYVIKKT------ERK----VSYYNILIKEMCRRCDFKGPRDLLVEMRQV----GC-EPITLT  333 (509)
Q Consensus       269 ~~~li~~~~~~g~~~~A~~~~~~m------~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~-~p~~~t  333 (509)
                      |....++|...|++++|...|.+.      ..+    ..+|+.+..+|.+.|++++|++.+++..+.    |- .....+
T Consensus        40 y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~  119 (290)
T d1qqea_          40 CVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANF  119 (290)
T ss_dssp             HHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHH
Confidence            334467788888999988888774      122    357888888888899999988888865532    11 111345


Q ss_pred             HHHHHHHHHh-cCChHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC-----H-
Q 047221          334 YNYVLGVLCK-NGQDADACELLEEMLGR----NCHPD-AITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPR-----L-  401 (509)
Q Consensus       334 ~~~li~~~~~-~g~~~~a~~~~~~m~~~----g~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-----~-  401 (509)
                      +..+...|.. .|++++|.+.+.+..+.    +..+. ..++..+...|.+.|++++|...|+++........     . 
T Consensus       120 ~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~  199 (290)
T d1qqea_         120 KFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLK  199 (290)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHH
T ss_pred             HHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHH
Confidence            5566666644 58888888888776432    22221 34577778888888888888888888776532211     1 


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCC-C---CHHHHHHHHHHHHh--CCChHHHHHHHHHHH
Q 047221          402 ATHAAFIKGYFIFYRYEDAYKYVVLSADKYKS-S---SNMLYSLLASLHDK--NNNPVMAKNVLSEMM  463 (509)
Q Consensus       402 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-p---~~~~~~~li~~~~~--~g~~~~a~~~~~~m~  463 (509)
                      ..+..++..+...|+++.|...+++..+.... +   .......++.++..  .+.+++|+..|+++.
T Consensus       200 ~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~  267 (290)
T d1qqea_         200 DYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (290)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            22344555667778888888888877665321 1   12244556666554  245777777776543

>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=98.44  E-value=4.1e-06  Score=75.96  Aligned_cols=210  Identities=11%  Similarity=-0.014  Sum_probs=145.8

Q ss_pred             CHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHc----CCCC-ChHHHHHHHHHHHhcCChHHHHHHHH
Q 047221          281 LYEMAKYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQV----GCEP-ITLTYNYVLGVLCKNGQDADACELLE  355 (509)
Q Consensus       281 ~~~~A~~~~~~m~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p-~~~t~~~li~~~~~~g~~~~a~~~~~  355 (509)
                      ++++|..+|.          .....|...|++++|.+.|.+..+.    +-.+ -..+|..+..+|.+.|++++|.+.++
T Consensus        32 ~~~~Aa~~y~----------~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~  101 (290)
T d1qqea_          32 KFEEAADLCV----------QAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLE  101 (290)
T ss_dssp             HHHHHHHHHH----------HHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             cHHHHHHHHH----------HHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHH
Confidence            4677766554          4577899999999999999987653    2112 24678999999999999999999998


Q ss_pred             HHHhC----CCC-CCHHHHHHHHHHHHH-cCChHHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHHHcCCHHHHHHHH
Q 047221          356 EMLGR----NCH-PDAITYEIFIVYSCR-VGKFDVAFNFFNQMVKR----GLQPR-LATHAAFIKGYFIFYRYEDAYKYV  424 (509)
Q Consensus       356 ~m~~~----g~~-p~~~~~~~li~~~~~-~g~~~~a~~~~~~m~~~----g~~p~-~~~~~~li~~~~~~g~~~~A~~~~  424 (509)
                      ...+.    |.. ....++..+...|.. .|++++|...+++..+.    +..+. ..++..+...|...|++++|...|
T Consensus       102 ~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~  181 (290)
T d1qqea_         102 NAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIY  181 (290)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHH
Confidence            76542    211 113456666666644 69999999999987532    21111 355788999999999999999999


Q ss_pred             HHHHhCCCCCC-----H-HHHHHHHHHHHhCCChHHHHHHHHHHHHCCCC-c---CHHHHHHHHHHHHh--cCCHHHHHH
Q 047221          425 VLSADKYKSSS-----N-MLYSLLASLHDKNNNPVMAKNVLSEMMKNGLR-P---NVSVYRRVLKHLHT--SHQEHMAKC  492 (509)
Q Consensus       425 ~~m~~~~~~p~-----~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-p---~~~t~~~ll~~~~~--~g~~~~a~~  492 (509)
                      +++........     . ..|...+..+...|+++.|.+.+++..+.... +   .......++.++..  .+.+++|+.
T Consensus       182 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~  261 (290)
T d1qqea_         182 SKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCK  261 (290)
T ss_dssp             HHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHH
T ss_pred             HHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            99876532221     1 22344555677899999999999998764211 1   22355667777655  356888888


Q ss_pred             HHHHHHhC
Q 047221          493 LSSRYSSL  500 (509)
Q Consensus       493 ~~~~m~~~  500 (509)
                      .|+++.+.
T Consensus       262 ~y~~~~~l  269 (290)
T d1qqea_         262 EFDNFMRL  269 (290)
T ss_dssp             HHTTSSCC
T ss_pred             HHHHHhhc
Confidence            88765544

>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=98.41  E-value=1.1e-05  Score=67.94  Aligned_cols=122  Identities=6%  Similarity=-0.139  Sum_probs=76.4

Q ss_pred             HHHHHhcCCHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHH
Q 047221          273 IEMFSVLGLYEMAKYVIKKT-ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADAC  351 (509)
Q Consensus       273 i~~~~~~g~~~~A~~~~~~m-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~  351 (509)
                      ...+...|+++.|.+.|+++ +++..+|..+..+|...|++++|++.|++..+.. +-+...|..+..+|.+.|++++|.
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~~~A~   90 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDLAI   90 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccHHHHH
Confidence            44456667777777777776 4566667777777777777777777777776654 445666777777777777777777


Q ss_pred             HHHHHHHhCC------------CC--CC-HHHHHHHHHHHHHcCChHHHHHHHHHHHHC
Q 047221          352 ELLEEMLGRN------------CH--PD-AITYEIFIVYSCRVGKFDVAFNFFNQMVKR  395 (509)
Q Consensus       352 ~~~~~m~~~g------------~~--p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  395 (509)
                      +.|++.....            ..  .+ ..++..+-.++.+.|++++|.+.+....+.
T Consensus        91 ~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~  149 (192)
T d1hh8a_          91 KDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  149 (192)
T ss_dssp             HHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            7777655421            00  01 133444455566666666666666655544

>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=98.29  E-value=2.1e-05  Score=66.25  Aligned_cols=125  Identities=12%  Similarity=0.052  Sum_probs=85.3

Q ss_pred             HHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCCh
Q 047221          303 IKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKF  382 (509)
Q Consensus       303 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~  382 (509)
                      ...+...|++++|++.|.++.    .|+..+|..+..+|...|++++|.+.|++..+.. +-+...|..+-.+|.+.|++
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~   86 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKY   86 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHhcC----CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccH
Confidence            455677788888888887542    5677778888888888888888888888877753 33566777777888888888


Q ss_pred             HHHHHHHHHHHHCCC--------------CCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCC
Q 047221          383 DVAFNFFNQMVKRGL--------------QPR-LATHAAFIKGYFIFYRYEDAYKYVVLSADKYK  432 (509)
Q Consensus       383 ~~a~~~~~~m~~~g~--------------~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~  432 (509)
                      ++|...|++......              .++ ..++..+..+|.+.|++++|.+.|........
T Consensus        87 ~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~  151 (192)
T d1hh8a_          87 DLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKS  151 (192)
T ss_dssp             HHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            888888877664310              001 23444556666777777777777766655433

>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=98.10  E-value=7.5e-05  Score=56.99  Aligned_cols=87  Identities=11%  Similarity=-0.005  Sum_probs=51.7

Q ss_pred             HHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChH
Q 047221          273 IEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDA  348 (509)
Q Consensus       273 i~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~  348 (509)
                      .+.+.+.|++++|..+|++.    +.+...|..+..+|.+.|++++|++.+.+..+.+ +.+...|..+..++...|+++
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCHH
Confidence            44555566666666666553    4455566666666666666666666666655543 345555666666666666666


Q ss_pred             HHHHHHHHHHhC
Q 047221          349 DACELLEEMLGR  360 (509)
Q Consensus       349 ~a~~~~~~m~~~  360 (509)
                      +|...|+...+.
T Consensus        89 ~A~~~~~~a~~~  100 (117)
T d1elwa_          89 EAKRTYEEGLKH  100 (117)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHh
Confidence            666666665553

>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=98.09  E-value=4.6e-05  Score=58.22  Aligned_cols=89  Identities=20%  Similarity=0.108  Sum_probs=57.5

Q ss_pred             HHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChH
Q 047221          374 VYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPV  453 (509)
Q Consensus       374 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  453 (509)
                      ..+.+.|++++|+..|++.++.. +-+...|..+..+|.+.|++++|+..+....+.+ +.+...|..+..++...|+++
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCHH
Confidence            44566667777777777666552 3355666666667777777777777776666553 235556666667777777777


Q ss_pred             HHHHHHHHHHH
Q 047221          454 MAKNVLSEMMK  464 (509)
Q Consensus       454 ~a~~~~~~m~~  464 (509)
                      +|+..|++..+
T Consensus        89 ~A~~~~~~a~~   99 (117)
T d1elwa_          89 EAKRTYEEGLK   99 (117)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHH
Confidence            77777777665

>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=98.07  E-value=7.3e-05  Score=60.61  Aligned_cols=88  Identities=11%  Similarity=-0.042  Sum_probs=53.9

Q ss_pred             HHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCh
Q 047221          272 LIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQD  347 (509)
Q Consensus       272 li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~  347 (509)
                      ..+.|.+.|++++|...|++.    +.+...|..+..+|...|++++|++.|++..+.. +-+..+|..+..+|...|++
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~~   94 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKF   94 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHcCCHHHHHHHhhhccccchhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCCH
Confidence            344556666666666666654    4456666666666666666666666666666543 33445666666666666666


Q ss_pred             HHHHHHHHHHHhC
Q 047221          348 ADACELLEEMLGR  360 (509)
Q Consensus       348 ~~a~~~~~~m~~~  360 (509)
                      ++|...+++..+.
T Consensus        95 ~eA~~~~~~a~~~  107 (159)
T d1a17a_          95 RAALRDYETVVKV  107 (159)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHc
Confidence            6666666666554

>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=98.04  E-value=3e-05  Score=65.46  Aligned_cols=94  Identities=7%  Similarity=-0.105  Sum_probs=50.1

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHH
Q 047221          264 CLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLG  339 (509)
Q Consensus       264 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~  339 (509)
                      |+...+....+.|.+.|++++|...|++.    +.+...|+.+..+|.+.|++++|+..|++..+.. +-+..+|..+..
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~-p~~~~a~~~lg~   80 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   80 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC-CCcHHHHHHHHH
Confidence            33444445555555666666666665543    3445555555555555555555555555555431 123445555555


Q ss_pred             HHHhcCChHHHHHHHHHHH
Q 047221          340 VLCKNGQDADACELLEEML  358 (509)
Q Consensus       340 ~~~~~g~~~~a~~~~~~m~  358 (509)
                      +|.+.|++++|...|+...
T Consensus        81 ~~~~l~~~~~A~~~~~~al   99 (201)
T d2c2la1          81 CQLEMESYDEAIANLQRAY   99 (201)
T ss_dssp             HHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHH
Confidence            5555555555555555443

>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=98.02  E-value=0.0036  Score=54.69  Aligned_cols=210  Identities=10%  Similarity=-0.050  Sum_probs=122.9

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHc--CCCHHHHHHHHHHHHh----cCCcc
Q 047221          244 ALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSV----LGLYEMAKYVIKKT--ERKVSYYNILIKEMCR----RCDFK  313 (509)
Q Consensus       244 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m--~~~~~~~~~li~~~~~----~g~~~  313 (509)
                      .++.++|.+.|+...+.|   +...+..|..+|..    ..+...|...++..  ..+...+..+...+..    ..+.+
T Consensus        15 ~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~~~a~~~l~~~~~~~~~~~~~~~   91 (265)
T d1ouva_          15 EKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNYSNGCHLLGNLYYSGQGVSQNTN   91 (265)
T ss_dssp             TTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHH
T ss_pred             CCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccccccchhhccccccccccccchhhH
Confidence            444788888888777655   45555566666665    44677777777665  3445555555554443    34556


Q ss_pred             HHHHHHHHHHHcCCCCChHHHHHHHHHHHh----cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCChHHH
Q 047221          314 GPRDLLVEMRQVGCEPITLTYNYVLGVLCK----NGQDADACELLEEMLGRNCHPDAITYEIFIVYSCR----VGKFDVA  385 (509)
Q Consensus       314 ~A~~~~~~m~~~g~~p~~~t~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~a  385 (509)
                      .|...+++....|.   ......+...+..    ......+...+......   .+...+..|...|..    ..+...+
T Consensus        92 ~a~~~~~~a~~~g~---~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L~~~~~~~~~~~~~~~~~  165 (265)
T d1ouva_          92 KALQYYSKACDLKY---AEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTILGSLYDAGRGTPKDLKKA  165 (265)
T ss_dssp             HHHHHHHHHHHTTC---HHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHH
T ss_pred             HHHHHHhhhhhhhh---hhHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhhhhhhhccCCCcccccccc
Confidence            67777776666552   1222222222322    33455666666665554   255566666666654    3456666


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----CCChHHHHH
Q 047221          386 FNFFNQMVKRGLQPRLATHAAFIKGYFI----FYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDK----NNNPVMAKN  457 (509)
Q Consensus       386 ~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~  457 (509)
                      ...++...+.|   +......|-..|..    ..+.++|...|.+..+.|   +...+..|...|.+    ..+.++|.+
T Consensus       166 ~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~~y~~G~g~~~n~~~A~~  239 (265)
T d1ouva_         166 LASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEKQAIE  239 (265)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCSTTHHH
T ss_pred             hhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHHHHHcCCCCccCHHHHHH
Confidence            66666666655   55555555555554    456777777777776665   44455556665554    235667777


Q ss_pred             HHHHHHHCCCC
Q 047221          458 VLSEMMKNGLR  468 (509)
Q Consensus       458 ~~~~m~~~g~~  468 (509)
                      +|++..+.|..
T Consensus       240 ~~~kAa~~g~~  250 (265)
T d1ouva_         240 NFKKGCKLGAK  250 (265)
T ss_dssp             HHHHHHHHTCH
T ss_pred             HHHHHHHCcCH
Confidence            77777666543

>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=97.99  E-value=0.00015  Score=58.66  Aligned_cols=92  Identities=11%  Similarity=0.074  Sum_probs=59.5

Q ss_pred             HHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCC
Q 047221          302 LIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGK  381 (509)
Q Consensus       302 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~  381 (509)
                      ....|.+.|++++|+..|++..+.. +-+...|..+..+|...|++++|...|+...+.. +-+...|..+..+|...|+
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~   93 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGK   93 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCC
Confidence            4455666777777777777666654 3455666666666777777777777777666542 2345566666666777777


Q ss_pred             hHHHHHHHHHHHHC
Q 047221          382 FDVAFNFFNQMVKR  395 (509)
Q Consensus       382 ~~~a~~~~~~m~~~  395 (509)
                      +++|...+++..+.
T Consensus        94 ~~eA~~~~~~a~~~  107 (159)
T d1a17a_          94 FRAALRDYETVVKV  107 (159)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc
Confidence            77777777666654

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.97  E-value=2.8e-05  Score=59.95  Aligned_cols=106  Identities=9%  Similarity=-0.060  Sum_probs=74.7

Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC---HHHHHHHHHHHHhCCCCCCH-HHHHHHHHH
Q 047221          370 EIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYR---YEDAYKYVVLSADKYKSSSN-MLYSLLASL  445 (509)
Q Consensus       370 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~~~~p~~-~~~~~li~~  445 (509)
                      ..++..+...+++++|++.|++....+ +.+..++..+..++.+.++   +++|..+|+++...+..|+. .+|..+..+
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            456777778888888888888887764 4466777777777776544   44688888887766544432 356678888


Q ss_pred             HHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHH
Q 047221          446 HDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVL  478 (509)
Q Consensus       446 ~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll  478 (509)
                      |.+.|++++|++.|+++++  +.|+..-...+.
T Consensus        82 y~~~g~~~~A~~~~~~aL~--~~P~~~~A~~l~  112 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQ--TEPQNNQAKELE  112 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHH
T ss_pred             HHHHhhhHHHHHHHHHHHH--hCcCCHHHHHHH
Confidence            8888888888888888887  556655444433

>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=97.93  E-value=8.8e-05  Score=62.44  Aligned_cols=98  Identities=7%  Similarity=-0.072  Sum_probs=82.0

Q ss_pred             CCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC-CHHHHHHH
Q 047221          294 RKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHP-DAITYEIF  372 (509)
Q Consensus       294 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~l  372 (509)
                      |+..........|.+.|++++|+..|.+..+.. +-+...|..+..+|.+.|++++|...|+...+.  .| +..+|..+
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l--~p~~~~a~~~l   78 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFL   78 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHh--CCCcHHHHHHH
Confidence            445556667788999999999999999888764 557788889999999999999999999998875  34 57788889


Q ss_pred             HHHHHHcCChHHHHHHHHHHHH
Q 047221          373 IVYSCRVGKFDVAFNFFNQMVK  394 (509)
Q Consensus       373 i~~~~~~g~~~~a~~~~~~m~~  394 (509)
                      ..+|.+.|++++|...|++..+
T Consensus        79 g~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          79 GQCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH
Confidence            9999999999999999998764

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=97.88  E-value=0.0065  Score=52.97  Aligned_cols=222  Identities=8%  Similarity=-0.096  Sum_probs=111.0

Q ss_pred             hhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHh---ccCCHHHHHHHHHHHHHcCCCCCHHHHHH
Q 047221          195 SDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISS---KALTKKGIWRVVEVLNQVGGSCLVSGVRA  271 (509)
Q Consensus       195 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~---~~~~~~~a~~~~~~m~~~g~~~~~~~~~~  271 (509)
                      +..+..|-..+-+.+++++|++.|++..+.|   +...+..+-..+..   ...+...+...+......+   +......
T Consensus         2 p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~~   75 (265)
T d1ouva_           2 PKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHL   75 (265)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhhc
Confidence            4455555555666666777777776666555   33333333332322   1223556666666655544   2223333


Q ss_pred             HHHHHHh----cCCHHHHHHHHHHc--CCCHHHHHHHHHHHHh----cCCccHHHHHHHHHHHcCCCCChHHHHHHHHHH
Q 047221          272 LIEMFSV----LGLYEMAKYVIKKT--ERKVSYYNILIKEMCR----RCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVL  341 (509)
Q Consensus       272 li~~~~~----~g~~~~A~~~~~~m--~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~  341 (509)
                      |...+..    ..+.+.|...++..  .........+...+..    ......+...+.....   ..+...+..|...|
T Consensus        76 l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~L~~~~  152 (265)
T d1ouva_          76 LGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACD---LNDGDGCTILGSLY  152 (265)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHH---TTCHHHHHHHHHHH
T ss_pred             cccccccccccchhhHHHHHHHhhhhhhhhhhHHHhhcccccCCCcccchhHHHHHHhhhhhc---ccccchhhhhhhhh
Confidence            4333332    34556666666553  2223333333333332    2223444444444443   23445555555555


Q ss_pred             Hh----cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Q 047221          342 CK----NGQDADACELLEEMLGRNCHPDAITYEIFIVYSCR----VGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFI  413 (509)
Q Consensus       342 ~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  413 (509)
                      ..    ..+...+...++...+.|   +......+-..|..    ..+.++|...|++..+.|   +...+..|..+|.+
T Consensus       153 ~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~~y~~  226 (265)
T d1ouva_         153 DAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYN  226 (265)
T ss_dssp             HHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHT
T ss_pred             ccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHHHHHc
Confidence            54    344555666666555543   44444444444443    346666666666666665   45555555555554


Q ss_pred             ----cCCHHHHHHHHHHHHhCC
Q 047221          414 ----FYRYEDAYKYVVLSADKY  431 (509)
Q Consensus       414 ----~g~~~~A~~~~~~m~~~~  431 (509)
                          ..+.++|.+.|++..+.|
T Consensus       227 G~g~~~n~~~A~~~~~kAa~~g  248 (265)
T d1ouva_         227 GEGVTRNEKQAIENFKKGCKLG  248 (265)
T ss_dssp             TSSSSCCSTTHHHHHHHHHHHT
T ss_pred             CCCCccCHHHHHHHHHHHHHCc
Confidence                225666666666665554

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=97.86  E-value=6.8e-05  Score=56.72  Aligned_cols=82  Identities=9%  Similarity=-0.123  Sum_probs=37.6

Q ss_pred             HHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHH
Q 047221          274 EMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDAD  349 (509)
Q Consensus       274 ~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~  349 (509)
                      ..+.+.|++++|...|++.    +.+..+|..+..++.+.|++++|+..|++..+.. +-+...|..+...|...|++++
T Consensus        24 ~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~~~~  102 (112)
T d1hxia_          24 LSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNANA  102 (112)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCCHHH
Confidence            3344444555554444443    2334444444444444555555555444444432 2234444444444444444444


Q ss_pred             HHHHHHH
Q 047221          350 ACELLEE  356 (509)
Q Consensus       350 a~~~~~~  356 (509)
                      |.+.+++
T Consensus       103 A~~~l~~  109 (112)
T d1hxia_         103 ALASLRA  109 (112)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            4444443

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.72  E-value=8.9e-05  Score=56.97  Aligned_cols=98  Identities=9%  Similarity=-0.141  Sum_probs=79.3

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCC---hHHHHHHHHHHHHCCCCcCH-HHHHHHHHH
Q 047221          405 AAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNN---PVMAKNVLSEMMKNGLRPNV-SVYRRVLKH  480 (509)
Q Consensus       405 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~---~~~a~~~~~~m~~~g~~p~~-~t~~~ll~~  480 (509)
                      ..++..+...+++++|.+.|++....+ ..+..++..+..++.+.++   +++|+++++++...+..|+. ..+..+..+
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            457788889999999999999998865 3466777778888887655   45699999999876544543 367788889


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCC
Q 047221          481 LHTSHQEHMAKCLSSRYSSLSLG  503 (509)
Q Consensus       481 ~~~~g~~~~a~~~~~~m~~~~~~  503 (509)
                      |.+.|++++|++.|++..+..+.
T Consensus        82 y~~~g~~~~A~~~~~~aL~~~P~  104 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQTEPQ  104 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHhhhHHHHHHHHHHHHhCcC
Confidence            99999999999999999987654

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=97.71  E-value=0.00018  Score=54.23  Aligned_cols=88  Identities=14%  Similarity=-0.033  Sum_probs=55.3

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCH
Q 047221          338 LGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRY  417 (509)
Q Consensus       338 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~  417 (509)
                      ...+.+.|++++|...|++..+.. +-+...|..+..++.+.|++++|+..|++..+.. +-+...|..+..+|...|++
T Consensus        23 g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~~  100 (112)
T d1hxia_          23 GLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNA  100 (112)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCCH
Confidence            344566666777777666666542 2245666666666666777777777776666542 33466666666777777777


Q ss_pred             HHHHHHHHHH
Q 047221          418 EDAYKYVVLS  427 (509)
Q Consensus       418 ~~A~~~~~~m  427 (509)
                      ++|.+.+++.
T Consensus       101 ~~A~~~l~~~  110 (112)
T d1hxia_         101 NAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            7777666653

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.54  E-value=0.0019  Score=52.48  Aligned_cols=62  Identities=13%  Similarity=0.073  Sum_probs=49.0

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 047221          402 ATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       402 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      .+|+.+..+|.+.|++++|+..++...+.. +-+...|..+..+|...|++++|+..|++..+
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~  124 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQ  124 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            356667788888888888888888877664 23677788888888888888888888888877

>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=97.48  E-value=0.0011  Score=54.44  Aligned_cols=126  Identities=9%  Similarity=-0.098  Sum_probs=72.8

Q ss_pred             cChhHHHHHH---HHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHH
Q 047221          193 KNSDICSLVI---DNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGV  269 (509)
Q Consensus       193 ~~~~~~~~li---~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~  269 (509)
                      .|+..|-.+.   ......|++++|.+.|.+.....  +....     . ......   .+...-..+..    .....+
T Consensus         6 ~D~~~f~~~~~~g~~~~~~g~~e~A~~~~~~AL~l~--rG~~l-----~-~~~~~~---w~~~~r~~l~~----~~~~a~   70 (179)
T d2ff4a2           6 CDLGRFVAEKTAGVHAAAAGRFEQASRHLSAALREW--RGPVL-----D-DLRDFQ---FVEPFATALVE----DKVLAH   70 (179)
T ss_dssp             BHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CSSTT-----G-GGTTST---THHHHHHHHHH----HHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--ccccc-----c-cCcchH---HHHHHHHHHHH----HHHHHH
Confidence            3444444443   46778899999999998876542  11100     0 000000   01111111111    013345


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHH-----cCCCCChHH
Q 047221          270 RALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQ-----VGCEPITLT  333 (509)
Q Consensus       270 ~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~~p~~~t  333 (509)
                      ..+...+.+.|++++|...+++.    +.+...|..++.+|.+.|+.++|++.|+++..     .|+.|...+
T Consensus        71 ~~la~~~~~~g~~~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          71 TAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHCCCchHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            66777777778888877777775    45677777777777777777777777777643     477776544

>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=97.44  E-value=0.00087  Score=55.09  Aligned_cols=108  Identities=13%  Similarity=0.100  Sum_probs=60.6

Q ss_pred             CHHHHHHHH---HHHHHcCChHHHHHHHHHHHHC--CCC-CC------------------HHHHHHHHHHHHHcCCHHHH
Q 047221          365 DAITYEIFI---VYSCRVGKFDVAFNFFNQMVKR--GLQ-PR------------------LATHAAFIKGYFIFYRYEDA  420 (509)
Q Consensus       365 ~~~~~~~li---~~~~~~g~~~~a~~~~~~m~~~--g~~-p~------------------~~~~~~li~~~~~~g~~~~A  420 (509)
                      |...|..++   ......|++++|.+.|.+....  |-. ++                  ...+..+..++.+.|++++|
T Consensus         7 D~~~f~~~~~~g~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~A   86 (179)
T d2ff4a2           7 DLGRFVAEKTAGVHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAV   86 (179)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             cHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchHH
Confidence            444444444   4667889999999999998864  211 00                  02244455555555666666


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHH-----CCCCcCHHH
Q 047221          421 YKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMK-----NGLRPNVSV  473 (509)
Q Consensus       421 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~t  473 (509)
                      ...++++.+.. .-+...|..++.+|.+.|+.++|++.|+++.+     .|+.|...+
T Consensus        87 l~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          87 IAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            65555555432 22445555555566666666666555555432     355555443

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.44  E-value=0.0033  Score=51.01  Aligned_cols=60  Identities=13%  Similarity=-0.030  Sum_probs=28.0

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Q 047221          334 YNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVK  394 (509)
Q Consensus       334 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  394 (509)
                      |+.+..+|.+.|++++|+..++...+.. +-+...|..+..+|...|++++|...|++..+
T Consensus        65 ~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~  124 (170)
T d1p5qa1          65 HLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQ  124 (170)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            3444444445555555555554444431 12344444444455555555555555554444

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.41  E-value=0.0012  Score=50.90  Aligned_cols=92  Identities=10%  Similarity=0.070  Sum_probs=53.4

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC---CCCC---HHHHHHHHHH
Q 047221          372 FIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADKY---KSSS---NMLYSLLASL  445 (509)
Q Consensus       372 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~---~~p~---~~~~~~li~~  445 (509)
                      +-..+.+.|++++|+..|.+.++.+ +.+...+..+..+|.+.|++++|...++++.+..   ....   ..+|..+...
T Consensus        10 ~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~~   88 (128)
T d1elra_          10 LGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNS   88 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHH
Confidence            3445566666666666666666542 2345566666666666666666666666655321   1100   1355556666


Q ss_pred             HHhCCChHHHHHHHHHHHH
Q 047221          446 HDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       446 ~~~~g~~~~a~~~~~~m~~  464 (509)
                      +...+++++|++.|++...
T Consensus        89 ~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          89 YFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHh
Confidence            6667777777777766654

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.37  E-value=0.0038  Score=49.55  Aligned_cols=70  Identities=14%  Similarity=-0.052  Sum_probs=51.7

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHH
Q 047221          402 ATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVY  474 (509)
Q Consensus       402 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~  474 (509)
                      .+|+.+..+|.+.|++++|++.++...+.. +.+..+|..+..++...|++++|+..|++..+  +.|+....
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~--l~P~n~~~  137 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAAS--LNPNNLDI  137 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HSTTCHHH
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHH
Confidence            456677778888888888888888777653 34667788888888888888888888888776  44544433

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.33  E-value=0.0017  Score=52.65  Aligned_cols=80  Identities=11%  Similarity=-0.081  Sum_probs=44.6

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 047221          332 LTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGY  411 (509)
Q Consensus       332 ~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  411 (509)
                      ..|..+..+|.+.|++++|+..+....+.. +.+...|..+..+|.+.|++++|...|++..+.. +.+......+..+.
T Consensus        78 ~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~-p~n~~~~~~l~~~~  155 (169)
T d1ihga1          78 SCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVK  155 (169)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            345555566666666666666666666542 2345556666666666666666666666666542 22344444444444


Q ss_pred             HH
Q 047221          412 FI  413 (509)
Q Consensus       412 ~~  413 (509)
                      .+
T Consensus       156 ~~  157 (169)
T d1ihga1         156 QK  157 (169)
T ss_dssp             HH
T ss_pred             HH
Confidence            33

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.33  E-value=0.002  Score=49.47  Aligned_cols=54  Identities=13%  Similarity=0.121  Sum_probs=22.5

Q ss_pred             HHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHH
Q 047221          303 IKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEM  357 (509)
Q Consensus       303 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m  357 (509)
                      ...|.+.|++++|++.|.+..+.+ +.+...|..+..+|.+.|++++|...++++
T Consensus        11 G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~a   64 (128)
T d1elra_          11 GNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKA   64 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHH
Confidence            333444444444444444444332 223334444444444444444444444443

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.31  E-value=0.054  Score=48.63  Aligned_cols=171  Identities=9%  Similarity=0.020  Sum_probs=102.1

Q ss_pred             CCCCHHHHHHHHHHHhcCCc--hHHHHHHHhhccCCCCccChhHHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHH
Q 047221          156 VSLSNASVIEILRVLNSEKV--SALCFLKYMREIMPEFYKNSDICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAF  233 (509)
Q Consensus       156 ~~~~~~~~~~ll~~~~~~~~--~A~~~~~~~~~~~p~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~  233 (509)
                      -.++......+.+.|-+.|.  .|..+|..+    .       -|..++..+.+.+++..|.+++.+.      -+..+|
T Consensus        10 ~~~n~~d~~~i~~~c~~~~lye~A~~lY~~~----~-------d~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~   72 (336)
T d1b89a_          10 NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNV----S-------NFGRLASTLVHLGEYQAAVDGARKA------NSTRTW   72 (336)
T ss_dssp             TCC----------------CTTTHHHHHHHT----T-------CHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHH
T ss_pred             cCCCcCCHHHHHHHHHHCCCHHHHHHHHHhC----C-------CHHHHHHHHHhhccHHHHHHHHHHc------CCHHHH
Confidence            34566666777777777774  788999887    3       5778899999999999999988765      256688


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhc
Q 047221          234 GFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRR  309 (509)
Q Consensus       234 ~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~  309 (509)
                      ..+...+... .....     ..+...+...+......++..|-..|.+++...+++..    ..+...++-++..|++.
T Consensus        73 k~~~~~l~~~-~e~~l-----a~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~~~~~~~~~~L~~lyak~  146 (336)
T d1b89a_          73 KEVCFACVDG-KEFRL-----AQMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKF  146 (336)
T ss_dssp             HHHHHHHHHT-TCHHH-----HHHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhC-cHHHH-----HHHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCCccchHHHHHHHHHHHHh
Confidence            7777755433 32322     23333444556666778999999999999999999974    46678889999999986


Q ss_pred             CCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHH
Q 047221          310 CDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEE  356 (509)
Q Consensus       310 g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~  356 (509)
                      +.    .++.+.+...+-.-|   ..-++..|-+.+.++++.-++..
T Consensus       147 ~~----~kl~e~l~~~s~~y~---~~k~~~~c~~~~l~~elv~Ly~~  186 (336)
T d1b89a_         147 KP----QKMREHLELFWSRVN---IPKVLRAAEQAHLWAELVFLYDK  186 (336)
T ss_dssp             CH----HHHHHHHHHHSTTSC---HHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             Ch----HHHHHHHHhccccCC---HHHHHHHHHHcCChHHHHHHHHh
Confidence            42    334444443221222   22344445555555554444443

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.28  E-value=0.0034  Score=49.83  Aligned_cols=66  Identities=20%  Similarity=-0.006  Sum_probs=58.2

Q ss_pred             HHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 047221          437 MLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSLSLG  503 (509)
Q Consensus       437 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~  503 (509)
                      .+|+.+..+|.+.|++++|++.+++.++.. +.+...|..+..++...|++++|+..|++..+.++.
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~  133 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPN  133 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            467789999999999999999999998852 347789999999999999999999999999987764

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=97.25  E-value=0.01  Score=47.79  Aligned_cols=62  Identities=13%  Similarity=0.059  Sum_probs=34.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHC
Q 047221          333 TYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKR  395 (509)
Q Consensus       333 t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  395 (509)
                      .|+.+..+|.+.|++++|+..++...+.. +.+...|..+..+|...|++++|...|+++.+.
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l  127 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV  127 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            34445555555666666666555555531 334555555555666666666666666665543

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.22  E-value=0.00026  Score=68.98  Aligned_cols=113  Identities=7%  Similarity=-0.071  Sum_probs=44.0

Q ss_pred             CHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 047221          295 KVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIV  374 (509)
Q Consensus       295 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  374 (509)
                      +...|..+...+.+.|+.++|...+.......  | ..++..+...+...|++++|...|.+..+. .+-+...|+.|-.
T Consensus       119 ~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--~-~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l-~P~~~~~~~~Lg~  194 (497)
T d1ya0a1         119 CRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI--C-QHCLVHLGDIARYRNQTSQAESYYRHAAQL-VPSNGQPYNQLAI  194 (497)
T ss_dssp             ------------------------CCHHHHHH--H-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTBSHHHHHHHH
T ss_pred             hHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC--H-HHHHHHHHHHHHHcccHHHHHHHHHHHHHH-CCCchHHHHHHHH
Confidence            34445555555555555555555444433211  1 234444555555556666666655555543 1223345555555


Q ss_pred             HHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 047221          375 YSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYF  412 (509)
Q Consensus       375 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  412 (509)
                      .+...|+..+|...|.+..... .|-..++..|...|.
T Consensus       195 ~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~  231 (497)
T d1ya0a1         195 LASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALS  231 (497)
T ss_dssp             HHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHH
Confidence            5555566666655555555442 334445555554443

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=97.19  E-value=0.017  Score=46.32  Aligned_cols=107  Identities=9%  Similarity=-0.045  Sum_probs=60.4

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 047221          197 ICSLVIDNCGRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMF  276 (509)
Q Consensus       197 ~~~~li~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  276 (509)
                      .+.-....+.+.|++++|...|.+....               .-...............+.       ...|+.+..+|
T Consensus        17 ~~~e~G~~~~~~~~~~~A~~~Y~~al~~---------------~~~~~~~~~~~~~~~~~~~-------~~~~~Nla~~~   74 (168)
T d1kt1a1          17 IVKEKGTVYFKGGKYVQAVIQYGKIVSW---------------LEMEYGLSEKESKASESFL-------LAAFLNLAMCY   74 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH---------------HTTCCSCCHHHHHHHHHHH-------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH---------------HHHhhccchhhhhhcchhH-------HHHHHhHHHHH
Confidence            4455566677788888888888765431               0000000000011111111       23455666677


Q ss_pred             HhcCCHHHHHHHHHHc----CCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHc
Q 047221          277 SVLGLYEMAKYVIKKT----ERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQV  325 (509)
Q Consensus       277 ~~~g~~~~A~~~~~~m----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  325 (509)
                      .+.|++++|...+++.    +.+..+|..+..+|...|++++|.+.|.+..+.
T Consensus        75 ~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l  127 (168)
T d1kt1a1          75 LKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV  127 (168)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             HHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            7777777777776664    455666666677777777777777777766654

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.18  E-value=0.0039  Score=50.41  Aligned_cols=78  Identities=12%  Similarity=-0.028  Sum_probs=59.7

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcC-HHHHHHHH
Q 047221          400 RLATHAAFIKGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPN-VSVYRRVL  478 (509)
Q Consensus       400 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~ll  478 (509)
                      +...|..+..+|.+.|++++|+..++...+.. +.+...|..+..+|.+.|++++|++.|++..+.  .|+ ......+.
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l--~p~n~~~~~~l~  152 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEI--APEDKAIQAELL  152 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            34567778888999999999999999988764 346778888999999999999999999998883  443 34444443


Q ss_pred             HH
Q 047221          479 KH  480 (509)
Q Consensus       479 ~~  480 (509)
                      .+
T Consensus       153 ~~  154 (169)
T d1ihga1         153 KV  154 (169)
T ss_dssp             HH
T ss_pred             HH
Confidence            33

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.13  E-value=0.084  Score=47.32  Aligned_cols=77  Identities=9%  Similarity=-0.076  Sum_probs=31.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhc
Q 047221          267 SGVRALIEMFSVLGLYEMAKYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKN  344 (509)
Q Consensus       267 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~  344 (509)
                      .+|..+..++.+......|.-+-.....+......++..|-..|.+++...++....... ..+...++-++..|++.
T Consensus        70 ~~~k~~~~~l~~~~e~~la~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~  146 (336)
T d1b89a_          70 RTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF  146 (336)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHh
Confidence            344444444444444433322111111222233344455555555555555554433211 33344444455555443

>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=96.97  E-value=0.0024  Score=50.30  Aligned_cols=76  Identities=12%  Similarity=0.034  Sum_probs=44.9

Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCC-----------ChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCC
Q 047221          418 EDAYKYVVLSADKYKSSSNMLYSLLASLHDKNN-----------NPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQ  486 (509)
Q Consensus       418 ~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g-----------~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~  486 (509)
                      ++|...|++..+.. +-+..+|..+..+|...|           .+++|.+.|++..+  +.|+..+|..-+..+     
T Consensus        58 ~~Ai~~~~kAl~l~-P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~~~~~~~L~~~-----  129 (145)
T d1zu2a1          58 QEAITKFEEALLID-PKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMT-----  129 (145)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHH-----
T ss_pred             HHHHHHHHHHHHhc-chhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccc--cCCCHHHHHHHHHHH-----
Confidence            44555555444432 123344444555554332           35778888888877  668777776655544     


Q ss_pred             HHHHHHHHHHHHhCCC
Q 047221          487 EHMAKCLSSRYSSLSL  502 (509)
Q Consensus       487 ~~~a~~~~~~m~~~~~  502 (509)
                       .+|.+++.+..+.|+
T Consensus       130 -~ka~~~~~e~~k~~~  144 (145)
T d1zu2a1         130 -AKAPQLHAEAYKQGL  144 (145)
T ss_dssp             -HTHHHHHHHHHHSSS
T ss_pred             -HHHHHHHHHHHHHhc
Confidence             566777777777765

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=96.94  E-value=0.00081  Score=59.09  Aligned_cols=52  Identities=17%  Similarity=0.211  Sum_probs=27.8

Q ss_pred             HcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 047221          378 RVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDAYKYVVLSADK  430 (509)
Q Consensus       378 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  430 (509)
                      +.|++++|+..+++.++.. +-|...+..+...|+..|++++|.+.|+...+.
T Consensus         8 ~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l   59 (264)
T d1zbpa1           8 SEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL   59 (264)
T ss_dssp             TTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            3455555555555555542 234455555555555555555555555555443

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.91  E-value=0.00074  Score=65.62  Aligned_cols=117  Identities=6%  Similarity=-0.188  Sum_probs=66.3

Q ss_pred             CChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 047221          329 PITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFI  408 (509)
Q Consensus       329 p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  408 (509)
                      ++...+..+...+.+.|+.++|...+.......   ...++..+-..+...|++++|...|++..+.. +-+...|+.|.
T Consensus       118 ~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg  193 (497)
T d1ya0a1         118 PCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLA  193 (497)
T ss_dssp             -------------------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHH
T ss_pred             hhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHH
Confidence            345566677777778888888877776654421   12456667778888888999988888887662 33457888888


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCC
Q 047221          409 KGYFIFYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNN  450 (509)
Q Consensus       409 ~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g  450 (509)
                      ..|...|+..+|...|.+..... .|...++..|...+.+..
T Consensus       194 ~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~~~~  234 (497)
T d1ya0a1         194 ILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALSKAL  234 (497)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHHhh
Confidence            88888899888888888877654 456677777777665543

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=96.82  E-value=0.0013  Score=57.64  Aligned_cols=120  Identities=18%  Similarity=0.061  Sum_probs=66.6

Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHHcCCHHHH
Q 047221          342 CKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPR-LATHAAFIKGYFIFYRYEDA  420 (509)
Q Consensus       342 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A  420 (509)
                      .+.|++++|+..+++.++. -+-|...+..+...|+..|++++|...++...+.  .|+ ...+..+...+...+..+++
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   83 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKA-SPKDASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHT-CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHhccccHHH
Confidence            3567788888888877776 2446677777888888888888888888877765  333 33444343333332322222


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 047221          421 YKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMK  464 (509)
Q Consensus       421 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  464 (509)
                      ..-...-...+-.++...+......+...|+.++|.++++++.+
T Consensus        84 ~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e  127 (264)
T d1zbpa1          84 AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEE  127 (264)
T ss_dssp             TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHh
Confidence            21111000011111223333444556666777777777776655

>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=96.72  E-value=0.0036  Score=49.19  Aligned_cols=30  Identities=3%  Similarity=-0.140  Sum_probs=13.3

Q ss_pred             cHHHHHHHHHHHcCCCCChHHHHHHHHHHHh
Q 047221          313 KGPRDLLVEMRQVGCEPITLTYNYVLGVLCK  343 (509)
Q Consensus       313 ~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~  343 (509)
                      ++|+..|++..+.. +-+..+|..+..+|..
T Consensus        58 ~~Ai~~~~kAl~l~-P~~~~a~~~lG~~y~~   87 (145)
T d1zu2a1          58 QEAITKFEEALLID-PKKDEAVWCIGNAYTS   87 (145)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhc-chhhHHHhhHHHHHHH
Confidence            44555555444432 2334444444444443

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=96.69  E-value=0.021  Score=45.09  Aligned_cols=54  Identities=13%  Similarity=0.125  Sum_probs=25.3

Q ss_pred             HHHHcCChHHHHHHHHHHHHCCC-CCC----------HHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 047221          375 YSCRVGKFDVAFNFFNQMVKRGL-QPR----------LATHAAFIKGYFIFYRYEDAYKYVVLSA  428 (509)
Q Consensus       375 ~~~~~g~~~~a~~~~~~m~~~g~-~p~----------~~~~~~li~~~~~~g~~~~A~~~~~~m~  428 (509)
                      .+.+.|++++|+..|++.++..- .|+          ...|+.+..+|.+.|++++|...+++..
T Consensus        18 ~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al   82 (156)
T d2hr2a1          18 RQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKAL   82 (156)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhh
Confidence            33344556666666655543210 011          2344455555555555555555554443

>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=96.63  E-value=0.075  Score=39.20  Aligned_cols=140  Identities=9%  Similarity=0.007  Sum_probs=91.4

Q ss_pred             hccCCHHHHHHHHHHhhhCCCccCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcCCHHHH
Q 047221          206 GRLDDYETMRQLLNDFNVYQVCLNEKAFGFLPVLISSKALTKKGIWRVVEVLNQVGGSCLVSGVRALIEMFSVLGLYEMA  285 (509)
Q Consensus       206 ~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A  285 (509)
                      .-.|.+++..++..+.....   +..-||.+|.-.....+ .+   .+|+.+...|---|.          .+|+++...
T Consensus        13 ildG~ve~Gveii~k~~~ss---~~~E~NW~ICNiidt~d-C~---~v~~~Ld~IG~~FDl----------s~C~Nlk~v   75 (161)
T d1wy6a1          13 LLDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESID-CR---YMFQVLDKIGSYFDL----------DKCQNLKSV   75 (161)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCC-HH---HHHHHHHHHGGGSCG----------GGCSCTHHH
T ss_pred             HHhhhHHhHHHHHHHHcccC---Cccccceeeeecccccc-hH---HHHHHHHHHhhhcCc----------hhhhcHHHH
Confidence            34567777777777765442   45555655553333333 33   333333333333333          256777777


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCC
Q 047221          286 KYVIKKTERKVSYYNILIKEMCRRCDFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCH  363 (509)
Q Consensus       286 ~~~~~~m~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~  363 (509)
                      ...+-.+..+....+..++...++|+-+.-.++++++.+.+ +++....-.+..+|.+.|...++.+++.+..+.|++
T Consensus        76 v~C~~~~n~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          76 VECGVINNTLNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             HHHHHHTTCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHhcchHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            77777777777777777888888888888888888876654 777777778888888888888888888888777753

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=96.59  E-value=0.022  Score=44.98  Aligned_cols=61  Identities=13%  Similarity=0.081  Sum_probs=33.0

Q ss_pred             HHHHH--HHHHHhcCChHHHHHHHHHHHhCC-CCCC----------HHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 047221          333 TYNYV--LGVLCKNGQDADACELLEEMLGRN-CHPD----------AITYEIFIVYSCRVGKFDVAFNFFNQMV  393 (509)
Q Consensus       333 t~~~l--i~~~~~~g~~~~a~~~~~~m~~~g-~~p~----------~~~~~~li~~~~~~g~~~~a~~~~~~m~  393 (509)
                      +|..+  ...+.+.|++++|+..|++..+.. -.|+          ...|+.+-.+|.+.|++++|...+++..
T Consensus         9 a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al   82 (156)
T d2hr2a1           9 AYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKAL   82 (156)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhh
Confidence            34444  334445566666666666655421 0111          2455666666666666666666666554

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=95.77  E-value=0.17  Score=38.27  Aligned_cols=81  Identities=10%  Similarity=-0.036  Sum_probs=37.8

Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----CCC
Q 047221          380 GKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFI----FYRYEDAYKYVVLSADKYKSSSNMLYSLLASLHDK----NNN  451 (509)
Q Consensus       380 g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~  451 (509)
                      .+.++|..++++..+.|   +...+..|-..|..    ..+.++|.++|++..+.|   +......|...|..    ..+
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            34455555555555544   34444444444433    234555555555555544   23333334333333    234


Q ss_pred             hHHHHHHHHHHHHCC
Q 047221          452 PVMAKNVLSEMMKNG  466 (509)
Q Consensus       452 ~~~a~~~~~~m~~~g  466 (509)
                      .++|.++|++..+.|
T Consensus       111 ~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_         111 EKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHCC
Confidence            555555555555444

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=95.57  E-value=0.23  Score=37.52  Aligned_cols=110  Identities=7%  Similarity=-0.031  Sum_probs=75.5

Q ss_pred             CccHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----cCChHHHH
Q 047221          311 DFKGPRDLLVEMRQVGCEPITLTYNYVLGVLCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCR----VGKFDVAF  386 (509)
Q Consensus       311 ~~~~A~~~~~~m~~~g~~p~~~t~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~a~  386 (509)
                      ++++|++.|++..+.|-   ...+..|.  .....+.++|.+.+++..+.|   +...+..|-..|..    ..+.++|.
T Consensus         8 d~~~A~~~~~kaa~~g~---~~a~~~l~--~~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~   79 (133)
T d1klxa_           8 DLKKAIQYYVKACELNE---MFGCLSLV--SNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   79 (133)
T ss_dssp             HHHHHHHHHHHHHHTTC---TTHHHHHH--TCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHHCCC---hhhhhhhc--cccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHH
Confidence            56677777777776662   22233332  234467788888888887776   45555555555554    45688999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHhCC
Q 047221          387 NFFNQMVKRGLQPRLATHAAFIKGYFI----FYRYEDAYKYVVLSADKY  431 (509)
Q Consensus       387 ~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~  431 (509)
                      ++|++..+.|   +......|-..|..    ..+.++|.++|++..+.|
T Consensus        80 ~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_          80 QYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCC
Confidence            9999988887   56667777777766    357888999888877776

>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=95.42  E-value=0.053  Score=38.51  Aligned_cols=56  Identities=14%  Similarity=0.095  Sum_probs=27.6

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHc----C------C-CHHHHHHHHHHHHhcCCccHHHHHHHHHHHc
Q 047221          270 RALIEMFSVLGLYEMAKYVIKKT----E------R-KVSYYNILIKEMCRRCDFKGPRDLLVEMRQV  325 (509)
Q Consensus       270 ~~li~~~~~~g~~~~A~~~~~~m----~------~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  325 (509)
                      -.+...+.+.|+++.|...|++.    +      + ...+++.+..+|.+.|++++|++.+++..+.
T Consensus         9 ~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_           9 FELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            34555555555665555555442    0      0 1234444555555555555555555554443

>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=94.89  E-value=0.47  Score=34.88  Aligned_cols=141  Identities=11%  Similarity=0.049  Sum_probs=88.7

Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHH
Q 047221          341 LCKNGQDADACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMVKRGLQPRLATHAAFIKGYFIFYRYEDA  420 (509)
Q Consensus       341 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A  420 (509)
                      +.-.|.++++.++..+....   .+..-||-+|.-....-+-+...++++.+-+-   .|.          ..++++...
T Consensus        12 ~ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~---FDl----------s~C~Nlk~v   75 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDL----------DKCQNLKSV   75 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCG----------GGCSCTHHH
T ss_pred             HHHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhh---cCc----------hhhhcHHHH
Confidence            34567788888888777664   36667777777777777777766666665322   121          122333333


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 047221          421 YKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVSVYRRVLKHLHTSHQEHMAKCLSSRYSSL  500 (509)
Q Consensus       421 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~  500 (509)
                      ...+-.+-.     +...++.-+..+..+|+-+.-.++++++.+ +-+|++.....+..||.+.|...++-+++.+.-+.
T Consensus        76 v~C~~~~n~-----~se~vdlALd~lv~~~kkd~Ld~i~~~l~k-n~~i~~~~llkia~A~kkig~~re~nell~~ACe~  149 (161)
T d1wy6a1          76 VECGVINNT-----LNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKK  149 (161)
T ss_dssp             HHHHHHTTC-----CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHhcc-----hHHHHHHHHHHHHHhccHHHHHHHHHHHHh-cCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHH
Confidence            333222211     223345556666778888888888887666 34667777777888888888888888888888887


Q ss_pred             CCC
Q 047221          501 SLG  503 (509)
Q Consensus       501 ~~~  503 (509)
                      |++
T Consensus       150 G~K  152 (161)
T d1wy6a1         150 GEK  152 (161)
T ss_dssp             TCH
T ss_pred             hHH
Confidence            765

>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=94.85  E-value=0.097  Score=37.02  Aligned_cols=70  Identities=9%  Similarity=0.021  Sum_probs=52.4

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC-----CCCCC-HHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCH
Q 047221          400 RLATHAAFIKGYFIFYRYEDAYKYVVLSADK-----YKSSS-NMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNV  471 (509)
Q Consensus       400 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  471 (509)
                      +...+-.+-..+.+.|++++|...|++..+.     ...++ ..+++.+..+|.+.|++++|++.++++++  +.|+.
T Consensus         4 saddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~--l~P~~   79 (95)
T d1tjca_           4 TAEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE--LDPEH   79 (95)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTC
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHH--hCcCC
Confidence            3444556778888999999999999877643     11222 45788899999999999999999999887  45654

>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=87.77  E-value=3.3  Score=30.26  Aligned_cols=72  Identities=13%  Similarity=-0.006  Sum_probs=40.3

Q ss_pred             CCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHHCCCCcCHH
Q 047221          399 PRLATHAAFIKGYFIFY---RYEDAYKYVVLSADKYKSSSNMLYSLLASLHDKNNNPVMAKNVLSEMMKNGLRPNVS  472 (509)
Q Consensus       399 p~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  472 (509)
                      ++..|--....++.+..   ++++|..+|+++...+..-....+-.|.-+|.+.|++++|.+.++.+++  +.|+..
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            34444444455555443   3456677776666543111123445566677777777777777777766  455544

>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=83.16  E-value=2.8  Score=28.97  Aligned_cols=44  Identities=11%  Similarity=0.203  Sum_probs=22.4

Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHH
Q 047221          350 ACELLEEMLGRNCHPDAITYEIFIVYSCRVGKFDVAFNFFNQMV  393 (509)
Q Consensus       350 a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  393 (509)
                      +.+-+..+......|+.....+.+.+|.+.+++..|.++|+-++
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            44444444444455555555555555555555555555555443

>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=82.41  E-value=6.6  Score=28.52  Aligned_cols=70  Identities=10%  Similarity=-0.046  Sum_probs=50.5

Q ss_pred             CCCHHHHHHHHHHHHhCC---ChHHHHHHHHHHHHCCCCcCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 047221          433 SSSNMLYSLLASLHDKNN---NPVMAKNVLSEMMKNGLRPNV-SVYRRVLKHLHTSHQEHMAKCLSSRYSSLSLG  503 (509)
Q Consensus       433 ~p~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~g~~p~~-~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~~~  503 (509)
                      .+...|--....++.+..   +.++|+.++++..+.+ ..+. ..+-.|.-+|.+.|++++|.+.++.+.+..+.
T Consensus        32 ~~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~  105 (124)
T d2pqrb1          32 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERN  105 (124)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT
T ss_pred             CCCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCC
Confidence            344555445666777654   4568999999988743 2233 45556677899999999999999999887664